Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2478687
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 13
Found at i:937753 original size:35 final size:34
Alignment explanation
Indices: 937707--937900 Score: 171
Period size: 35 Copynumber: 5.5 Consensus size: 34
937697 AACCATAAAA
937707 ATGATTTAATAATGATTTTAATATTTAATGATTTG
1 ATGATTTAATAATGATTTTAATATTTAAT-ATTTG
937742 ATGATTTAATAATGATTTTAATATTTAATAATTTG
1 ATGATTTAATAATGATTTTAATATTTAAT-ATTTG
* *
937777 ATGATTTAGTAATGATTTAATAATGATTTTAATATTTA
1 ATGATTTAATAATGATTT--TAAT-A-TTTAATATTTG
* * * *
937815 ATGA-TT--TGATGATTTAGTAATGATTTGATA-ATA
1 ATGATTTAATAATGATTT--TAAT-ATTTAATATTTG
* * * *
937848 ATGATTCAATAGTGATTTTTATAATTAATGATTTG
1 ATGATTTAATAATGATTTTAATATTTAAT-ATTTG
*
937883 ATGATTTAGTAATGATTT
1 ATGATTTAATAATGATTT
937901 GATAATAATT
Statistics
Matches: 132, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
33 11 0.08
34 11 0.08
35 82 0.62
36 7 0.05
37 6 0.05
38 9 0.07
39 6 0.05
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (34 bp):
ATGATTTAATAATGATTTTAATATTTAATATTTG
Found at i:937792 original size:46 final size:45
Alignment explanation
Indices: 937723--937846 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 45
937713 TAATAATGAT
*
937723 TTTAATATTTAATGATTT-G--ATGATTTAATAATGATTTTAATA
1 TTTAATATTTGATGATTTAGTAATGATTTAATAATGATTTTAATA
937765 TTTAATAATTTGATGATTTAGTAATGATTTAATAATGATTTTAATA
1 TTTAAT-ATTTGATGATTTAGTAATGATTTAATAATGATTTTAATA
*
937811 TTTAATGATTTGATGATTTAGTAATGATTTGATAAT
1 TTTAAT-ATTTGATGATTTAGTAATGATTTAATAAT
937847 AATGATTCAA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
42 6 0.08
43 11 0.15
44 1 0.01
46 57 0.76
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (45 bp):
TTTAATATTTGATGATTTAGTAATGATTTAATAATGATTTTAATA
Found at i:937816 original size:7 final size:8
Alignment explanation
Indices: 937716--937830 Score: 65
Period size: 8 Copynumber: 13.2 Consensus size: 8
937706 AATGATTTAA
937716 TAATGATTT
1 TAATGA-TT
937725 TAAT-ATT
1 TAATGATT
937732 TAATGATT
1 TAATGATT
*
937740 TGATGATTT
1 TAATGA-TT
937749 AATAATGATTT
1 --TAATGA-TT
937760 TAAT-ATT
1 TAATGATT
*
937767 TAATAATT
1 TAATGATT
*
937775 TGATGATTT
1 TAATGA-TT
937784 AGTAATGATTT
1 --TAATGA-TT
937795 AATAATGATTT
1 --TAATGA-TT
937806 TAAT-ATT
1 TAATGATT
937813 TAATGATT
1 TAATGATT
*
937821 TGATGATT
1 TAATGATT
937829 TA
1 TA
937831 GTAATGATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
7 18 0.20
8 29 0.33
9 16 0.18
11 26 0.29
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (8 bp):
TAATGATT
Found at i:937876 original size:60 final size:60
Alignment explanation
Indices: 937786--938124 Score: 377
Period size: 60 Copynumber: 5.6 Consensus size: 60
937776 GATGATTTAG
*
937786 TAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAA
1 TAATGATTTAATAATGATTTTAATAATTAATGATTTGATGATTTAGTAATGATTTGATAA
* * *
937846 TAATGATTCAATAGTGATTTTTATAATTAATGATTTGATGATTTAGTAATGATTTGATAA
1 TAATGATTTAATAATGATTTTAATAATTAATGATTTGATGATTTAGTAATGATTTGATAA
* *
937906 TAATTATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAA
1 TAATGATTTAATAATGATTTTAATAATTAATGATTTGATGATTTAGTAATGATTTGATAA
* * * *
937966 TAATCATTATAATAATGATTTAGTAATAA-TAATGATAATAATGATTTAATAATGATTTGATAA
1 TAATGATT-TAATAATGATTT--TAATAATTAATGAT-TTGATGATTTAGTAATGATTTGATAA
* * * * * * *
938029 TAATGATTTATTATTAATATTTAATGATT--TGATACTAATGATTTACTAATGA-TT-ACTAA
1 TAATGATTTAATAATGAT-TTTAATAATTAATGAT-TTGATGATTTAGTAATGATTTGA-TAA
*
938088 TAATGAAATTATAATCATGATTTT-ATAA-TAATGATTT
1 TAATG--ATT-TAATAATGATTTTAATAATTAATGATTT
938125 AATACTAATG
Statistics
Matches: 240, Mismatches: 27, Indels: 24
0.82 0.09 0.08
Matches are distributed among these distances:
58 1 0.00
59 11 0.05
60 143 0.60
61 27 0.11
62 21 0.09
63 37 0.15
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (60 bp):
TAATGATTTAATAATGATTTTAATAATTAATGATTTGATGATTTAGTAATGATTTGATAA
Found at i:937897 original size:19 final size:19
Alignment explanation
Indices: 937873--937963 Score: 64
Period size: 19 Copynumber: 4.6 Consensus size: 19
937863 TTTTTATAAT
937873 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
* *
937892 TAATGATTTGATAATAATTATTTAA
1 TAATGATTTG------ATGATTTAG
*
937917 TAATGATTT--TAATATT--
1 TAATGATTTGATGAT-TTAG
937933 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
937952 TAATGATTTGAT
1 TAATGATTTGAT
937964 AATAATCATT
Statistics
Matches: 57, Mismatches: 4, Indels: 22
0.69 0.05 0.27
Matches are distributed among these distances:
16 9 0.16
17 5 0.09
18 5 0.09
19 22 0.39
25 16 0.28
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.49
Consensus pattern (19 bp):
TAATGATTTGATGATTTAG
Found at i:937969 original size:14 final size:13
Alignment explanation
Indices: 937952--938144 Score: 124
Period size: 14 Copynumber: 15.1 Consensus size: 13
937942 GATGATTTAG
937952 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
937966 TAATCA-TTATAA
1 TAATGATTTATAA
937978 TAATGATTTAGTAA
1 TAATGATTTA-TAA
* *
937992 TAAT-AATGATAA
1 TAATGATTTATAA
938004 TAATGA-TT-TAA
1 TAATGATTTATAA
938015 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
938029 TAATGATTTATTAT
1 TAATGATTTA-TAA
938043 TAAT-A--T-T--
1 TAATGATTTATAA
*
938050 TAATGATTTGATAC
1 TAATGATTT-ATAA
*
938064 TAATGA-TT-TAC
1 TAATGATTTATAA
938075 TAATGA-TTACTAA
1 TAATGATTTA-TAA
*
938088 TAATGAAATTATAA
1 TAATG-ATTTATAA
*
938102 TCATGATTTTATAA
1 TAATGA-TTTATAA
*
938116 TAATGATTTAATAC
1 TAATGATTT-ATAA
938130 TAATGATTTAATAA
1 TAATGATTT-ATAA
938144 T
1 T
938145 TATTACTAAT
Statistics
Matches: 147, Mismatches: 12, Indels: 40
0.74 0.06 0.20
Matches are distributed among these distances:
7 4 0.03
8 1 0.01
9 1 0.01
10 1 0.01
11 21 0.14
12 20 0.14
13 24 0.16
14 72 0.49
15 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:937984 original size:37 final size:37
Alignment explanation
Indices: 937943--938035 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
937933 TAATGATTTG
* *
937943 ATGATTTAGTAATGAT-TTGATAATAATCATTATAATA
1 ATGATTTAGTAATAATAATGATAATAATCATT-TAATA
*
937980 ATGATTTAGTAATAATAATGATAATAATGATTTAATA
1 ATGATTTAGTAATAATAATGATAATAATCATTTAATA
938017 ATGATTT-G--ATAATAATGAT
1 ATGATTTAGTAATAATAATGAT
938036 TTATTATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
34 11 0.21
36 1 0.02
37 27 0.52
38 13 0.25
ACGTcount: A:0.45, C:0.01, G:0.12, T:0.42
Consensus pattern (37 bp):
ATGATTTAGTAATAATAATGATAATAATCATTTAATA
Found at i:938018 original size:112 final size:111
Alignment explanation
Indices: 937786--938144 Score: 250
Period size: 112 Copynumber: 3.1 Consensus size: 111
937776 GATGATTTAG
* * * * *
937786 TAATGATTTAATAATGATTTTAATATTTAATGATTTGATGA-TT-TAGTAATGATTTGATAATAA
1 TAATTATTTAATAATGA-TTTAATA-TTAAT-ATTTAATGATTTATACTAATGATTTAATAATCA
* * * ** * *
937849 TGATTCAATAGTGATTTTTATAATTAATGATTTGATGATTTAGTAATGATTTGATAA
63 TTACT-AATAATGA-AATTATAA-TAATGA--T-ATGA--TAATAATGATTTAATAA
* *
937906 TAATTATTTAATAATGATTTTAATATTTAATGATTTGATGA-TT-TAGTAATGATTTGATAATAA
1 TAATTATTTAATAATGA-TTTAATA-TTAAT-ATTTAATGATTTATACTAATGA-TT--TAATAA
*
937969 TCATTA-TAATAATG-ATTTAGTAATAAT-A-ATGATAATAATGATTTAATAA
60 TCATTACTAATAATGAAATTA-TAATAATGATATGATAATAATGATTTAATAA
* * * * *
938018 TGATT-TGATAATAATGATTTATTATTAATATTTAATGATTTGATACTAATGATTTACTAATGAT
1 TAATTAT-TTAATAATGATTTAATATTAATATTTAATGATTT-ATACTAATGATTTAATAATCAT
* * * *
938082 TACTAATAATGAAATTATAATCATGATTTTATAATAATGATTTAATAC
64 TACTAATAATGAAATTATAATAATGATATGATAATAATGATTTAATAA
*
938130 TAATGATTTAATAAT
1 TAATTATTTAATAAT
938145 TATTACTAAT
Statistics
Matches: 203, Mismatches: 23, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
109 18 0.09
110 21 0.10
111 14 0.07
112 64 0.32
113 1 0.00
114 4 0.02
118 1 0.00
119 8 0.04
120 54 0.27
121 8 0.04
122 1 0.00
123 9 0.04
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (111 bp):
TAATTATTTAATAATGATTTAATATTAATATTTAATGATTTATACTAATGATTTAATAATCATTA
CTAATAATGAAATTATAATAATGATATGATAATAATGATTTAATAA
Found at i:938046 original size:17 final size:16
Alignment explanation
Indices: 937971--938047 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 16
937961 GATAATAATC
937971 ATTATAATAATGATTT
1 ATTATAATAATGATTT
*
937987 AGTAATAATAATGATAATAAT
1 A-TTATAATAATGAT--T--T
938008 GATT-TAATAATGA-TT
1 -ATTATAATAATGATTT
*
938023 -TGATAATAATGATTT
1 ATTATAATAATGATTT
938038 ATTATTAATA
1 ATTA-TAATA
938048 TTTAATGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 19
0.67 0.06 0.27
Matches are distributed among these distances:
13 1 0.02
14 9 0.19
15 3 0.06
16 3 0.06
17 18 0.38
19 1 0.02
20 9 0.19
21 2 0.04
22 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
ATTATAATAATGATTT
Found at i:938056 original size:46 final size:46
Alignment explanation
Indices: 937748--938072 Score: 115
Period size: 46 Copynumber: 7.0 Consensus size: 46
937738 TTTGATGATT
* * *
937748 TAATAATGATTTTAATATTTAATAATTTGATGATTTAGTAATGA-TT--
1 TAATAATGA-TTTATTA-TTAAT-ATTTAATGATTTAATAATGATTTGA
* * *
937794 TAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGA
1 TAATAATGA-TTTATTA-TTAAT-ATTTAATGATTTAATAATGATTTGA
* * * *
937843 TAATAATGATTCAATAGTGAT-TTT--T-A--TAATTAATGATTTGA
1 TAATAATGATTTATTATTAATATTTAATGATTTAA-TAATGATTTGA
* * * * * * * * *
937884 TGAT--TTAGTAATGATTTGATA-ATAATTATTTAATAATGATTTTAA
1 TAATAATGATTTATTA-TTAATATTTAATGATTTAATAATGA-TTTGA
* * * * *
937929 TATTTAATGATTTGATGATT--TA-GTAATGATTTGATAATAATCATT-A
1 TA-ATAATGATTT-ATTATTAATATTTAATGATTTAATAATGAT--TTGA
* *
937975 TAATAATGATTTAGTAATAATAATGATAATAATGATTTAATAATGATTTGA
1 TAATAATGATTTA-T--TATTAAT-AT-TTAATGATTTAATAATGATTTGA
938026 TAATAATGATTTATTATTAATATTTAATGATTTGATACTAATGATTT
1 TAATAATGATTTATTATTAATATTTAATGATTT-A-A-TAATGATTT
938073 ACTAATGATT
Statistics
Matches: 218, Mismatches: 31, Indels: 57
0.71 0.10 0.19
Matches are distributed among these distances:
39 5 0.02
40 7 0.03
41 14 0.06
42 2 0.01
43 2 0.01
44 7 0.03
45 22 0.10
46 72 0.33
47 12 0.06
48 18 0.08
49 23 0.11
50 4 0.02
51 14 0.06
52 16 0.07
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.48
Consensus pattern (46 bp):
TAATAATGATTTATTATTAATATTTAATGATTTAATAATGATTTGA
Found at i:938067 original size:21 final size:22
Alignment explanation
Indices: 938029--938073 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
938019 GATTTGATAA
*
938029 TAATGATTTATTATTAAT-ATT
1 TAATGATTTATTACTAATGATT
938050 TAATGATTTGA-TACTAATGATT
1 TAATGATTT-ATTACTAATGATT
938072 TA
1 TA
938074 CTAATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
TAATGATTTATTACTAATGATT
Found at i:938312 original size:17 final size:17
Alignment explanation
Indices: 938275--938313 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
938265 AATTTAGTAG
*
938275 TTATTATTAATAATGAT
1 TTATTATTAATAATGAA
* *
938292 TTATTATTAATATTTAA
1 TTATTATTAATAATGAA
938309 TTATT
1 TTATT
938314 TGATACTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTATTATTAATAATGAA
Found at i:939473 original size:14 final size:14
Alignment explanation
Indices: 939454--939482 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
939444 GTACCAACCC
939454 TGTGCCTTCAATTT
1 TGTGCCTTCAATTT
939468 TGTGCCTTCAATTT
1 TGTGCCTTCAATTT
939482 T
1 T
939483 ATGTCTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTGCCTTCAATTT
Found at i:939490 original size:14 final size:14
Alignment explanation
Indices: 939456--939491 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
939446 ACCAACCCTG
*
939456 TGCCTTCAATTTTG
1 TGCCTTCAATTTTA
939470 TGCCTTCAATTTTA
1 TGCCTTCAATTTTA
*
939484 TGTCTTCA
1 TGCCTTCA
939492 TCTGCATATC
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:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (14 bp):
TGCCTTCAATTTTA
Found at i:939570 original size:14 final size:14
Alignment explanation
Indices: 939547--939580 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
939537 TTTTAATCAA
*
939547 AATAATTATTTTAT
1 AATAAATATTTTAT
939561 AATAAATATTTTAT
1 AATAAATATTTTAT
*
939575 ATTAAA
1 AATAAA
939581 ATAGAGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAAATATTTTAT
Found at i:940059 original size:31 final size:31
Alignment explanation
Indices: 940013--940071 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
940003 AATTTAAAAG
* *
940013 AGTTTTGCAACACTGAGATTTAAATAATTTT
1 AGTTTTACAACACTGAAATTTAAATAATTTT
*
940044 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAACACTGAAATTTAAATAAT
940072 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
AGTTTTACAACACTGAAATTTAAATAATTTT
Found at i:940122 original size:22 final size:22
Alignment explanation
Indices: 940096--940138 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
940086 TAATAAATTA
940096 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
940118 TTTAAAATAAATCAGTCCATA
1 TTTAAAATAAATCAATCCATA
940139 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:940147 original size:22 final size:22
Alignment explanation
Indices: 940098--940146 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
940088 ATAAATTATT
**
940098 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
940120 TAAAATAAATCAGTCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
940143 TAAA
1 TAAA
940147 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:940150 original size:54 final size:54
Alignment explanation
Indices: 940086--941420 Score: 332
Period size: 54 Copynumber: 24.6 Consensus size: 54
940076 ACAACTACAA
*
940086 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAGTCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
940140 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
940194 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * *
940251 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
* * * **
940310 TAATAAATTATTTAAAATAAAACAATCCATA----CAACTACAAT-AATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-AATCAATCCATAC
* * *** ** * *
940359 -AATACA-TATTTAAAATAAATCAATCAATCCATGCAAATAAAT-TAT--TTA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * *
940407 AAATAAATCAATCCATACT-AAT-AAT---TA-TTTAAAATAAATCAATCCATA-
1 TAATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * * * *
940455 TTTTAAA--A--T-AAATCAATCCATACTAATAATTATTTAAAATAAATCAATCCATTC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT-A-T-TTTAAAATAAATCAATCCATAC
*
940509 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATAC
* ** * ** * **
940561 AAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * *
940616 -AATCCA-TATTTTAAAATAAATCAAT-CA-ATCCATACAAATAAAT-TAT--TTA-
1 TAATAAATTA-TTTAAAATAAATCAATCCATAT-TTTA-AAATAAATCAATCCATAC
* * * * * *
940665 AAATAAATCATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
940714 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATAC
* ** * ** * **
940766 AAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * *
940821 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCGAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * *
940879 -CATACAACTA--CAATAATAAATCAATCCATATTTTTAAAATAAATCAATCAATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATA-TTTTAAAAT--A--AATCAATCCATAC
940937 TAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAATCCATAC
*
941001 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCAATCTATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATC---C-ATAC
* *
941053 AAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
941117 -AACTACA--A--T--AAGAAATCAATCCATATTTTAAAATAAATCAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATAC
* * ** * ** * **
941169 AAATAAATTATTTAAAATAAATCAAATTCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATC-AATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * *
941225 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* *
941284 --ATACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
941336 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
941390 TAATAATTTATTTAAAATAAATTAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
941421 CTAATAAATT
Statistics
Matches: 966, Mismatches: 161, Indels: 308
0.67 0.11 0.21
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
44 8 0.01
45 19 0.02
46 7 0.01
47 23 0.02
48 58 0.06
49 23 0.02
50 33 0.03
51 20 0.02
52 74 0.08
53 53 0.05
54 234 0.24
55 26 0.03
56 27 0.03
57 41 0.04
58 171 0.18
59 54 0.06
60 22 0.02
62 3 0.00
63 5 0.01
64 25 0.03
65 3 0.00
66 2 0.00
67 4 0.00
68 24 0.02
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:940156 original size:32 final size:32
Alignment explanation
Indices: 940118--941453 Score: 769
Period size: 32 Copynumber: 46.7 Consensus size: 32
940108 CAATCCATAT
*
940118 TTTAAAATAAATCAGTCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940150 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940172 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
940204 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
940234 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940259 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940288 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940320 TTTAAAATAAAACAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* * *
940350 --T--AATAAATCAATACATA-T-TTAAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** * * * * * * *
940376 AAT-CAATCAATCCATGCA-AATAAATTATTTA
1 TTTAAAATAAATCAATCCATACT-AATAAATTA
** * * * * *
940407 -AAATAAATCAATCCATAC-TAATAATT----A
1 TTTA-AAATAAATCAATCCATACTAATAAATTA
940434 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940456 TTTAAAATAAATCAATCCATACTAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940487 TTTAAAATAAATCAATCCATTC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
940517 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940542 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940571 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
940603 TTTAAAATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940632 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
940661 TTTAAAATAAATC-ATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
940692 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
940722 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940747 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940776 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940808 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
940830 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
940862 TTTAAAATAAATCGATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
940892 --T--AATAAATCAATCCATATTTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
940918 --T-AAATCAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
940947 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
940979 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
941009 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
941034 --T-AAATCAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
941063 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
941095 TTTAAAATAAAACAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
941125 --T--AAGAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
941150 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
941179 TTTAAAATAAATCAAATTCATACTAATAAATTA
1 TTTAAAATAAATC-AATCCATACTAATAAATTA
941212 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
941234 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
941266 TTTAAAATAAATCAATACATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
941296 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
941314 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
941346 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
941368 TTTAAAATAAATCAATCCATACTAATAATTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
941400 TTTAAAATAAATTAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
941432 TTTTAAAATAAATCAATCCATA
1 -TTTAAAATAAATCAATCCATA
941454 TTTTATAATA
Statistics
Matches: 1048, Mismatches: 112, Indels: 287
0.72 0.08 0.20
Matches are distributed among these distances:
20 1 0.00
22 93 0.09
23 10 0.01
24 9 0.01
25 26 0.02
26 230 0.22
27 60 0.06
28 26 0.02
29 21 0.02
30 15 0.01
31 92 0.09
32 415 0.40
33 50 0.05
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:940201 original size:22 final size:22
Alignment explanation
Indices: 940152--940200 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
940142 ATAAATTATT
* **
940152 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
940174 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
940197 TAAA
1 TAAA
940201 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:940256 original size:80 final size:82
Alignment explanation
Indices: 940155--940309 Score: 260
Period size: 84 Copynumber: 1.9 Consensus size: 82
940145 AATTATTTAA
* *
940155 AATAAATCAATCTATATTTTAAAAT-A-AATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 AATAAATCAATCCATATTTTAAAATAACAATCAATCCATACAAATAAATTATTTAAAATAAATCA
940218 ATCCATACAACTACAAT
66 ATCCATACAACTACAAT
940235 AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAAT-AA-CAATCAATCCATACAAATAAATTATTTAAAATAAAT
940300 CAATCCATAC
64 CAATCCATAC
940310 TAATAAATTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
80 24 0.35
82 1 0.01
84 44 0.64
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (82 bp):
AATAAATCAATCCATATTTTAAAATAACAATCAATCCATACAAATAAATTATTTAAAATAAATCA
ATCCATACAACTACAAT
Found at i:940460 original size:22 final size:22
Alignment explanation
Indices: 940434--940476 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
940424 CTAATAATTA
940434 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
940456 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
940477 CTAATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:940670 original size:14 final size:14
Alignment explanation
Indices: 940651--940703 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
940641 CAATCCATAC
940651 AAATAAATTATTTA
1 AAATAAATTATTTA
*
940665 AAATAAATCATCTATA
1 AAATAAATTAT-T-TA
*
940681 CTAATAAATTATTTA
1 -AAATAAATTATTTA
940696 AAATAAAT
1 AAATAAAT
940704 CAATCCATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 17 0.53
15 3 0.09
16 3 0.09
17 9 0.28
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:940834 original size:22 final size:22
Alignment explanation
Indices: 940808--940850 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
940798 TAATAAATTA
940808 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
940830 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
940851 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:940859 original size:22 final size:22
Alignment explanation
Indices: 940810--940858 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
940800 ATAAATTATT
**
940810 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
940832 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
940855 TAAA
1 TAAA
940859 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:940957 original size:14 final size:14
Alignment explanation
Indices: 940938--940990 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
940928 AATCCATACT
940938 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
940952 AATAAATCAATCTATACT
1 AATAAAT-TAT-T-TA-A
940970 AATAAATTATTTAA
1 AATAAATTATTTAA
940984 AATAAAT
1 AATAAAT
940991 CAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 4 0.13
16 2 0.06
17 4 0.13
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:941010 original size:287 final size:284
Alignment explanation
Indices: 940365--941426 Score: 1127
Period size: 287 Copynumber: 3.8 Consensus size: 284
940355 AATCAATACA
* *
940365 TATTTAAAATAAATCAATCAATCCATGCAAATAAATTATTTAAAATAAATCAATCCATACTAATA
1 TATTTAAAATAAATCAATC--T--ATACTAATAAATTATTTAAAATAAATCAATCCATACTAATA
*
940430 ATTATTTAAAATAAATCAATCCATATTTTAAAAT--A-AATCAATCCATACTAATAATTATTTAA
62 A--A-TT--AATAAATCAATCCATATTTTAAAATAAATAATCAATCCATACAAATAATTATTTAA
* *
940492 AATAAATCAATCCATTC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAA
122 AATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAAT--A--AA
* *
940550 TCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
182 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AATACA--A--T--AATAAAT
*
940615 CAATCCATA-TTTTAAAATAAATCAATCAATCCATACAAATAAAT
240 CAATCCATATTTTTAAAATAAATCAATCAATCCATACTAATAAAT
940659 TATTTAAAATAAATC-ATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACAA
1 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TA-AA
940722 -TAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAA
64 TTAATAAATCAATCCATATTTTAAAATAAAT-AATCAATCCATACAAAT-AATTATTTAAAATAA
940786 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
127 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
940851 CTAATAAATTATTTAAAATAAATCGATCCATACAACTACAATAATAAATCAATCCATATTTTTAA
192 CTAATAAATTATTTAAAATAAATCAATCCATACAA-TACAATAATAAATCAATCCATATTTTTAA
940916 AATAAATCAATCAATCCATACTAATAAAT
256 AATAAATCAATCAATCCATACTAATAAAT
940945 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACAA
1 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TA-AA
*
941009 -TAATAAATCAATCCATATTTTAAAATAAATCAATCAATCTATACAAATAAATTATTTAAAATAA
64 TTAATAAATCAATCCATATTTTAAAATAAAT-AATCAATCCATACAAAT-AATTATTTAAAATAA
* *** * *
941073 ATCAATCCATACTAATAAATTATTTAAAATAAAACAATCCATACAACTACAATAAGA--AATCAA
127 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAA-ATCAATCCA
* * *
941136 T-C-CAT--A-T-TTTAAAATAAATCAATCAAT-CCATAC-A-AAT--A--AAT---TA--TTTA
190 TACTAATAAATTATTTAAAATAAATCAATCCATACAATACAATAATAAATCAATCCATATTTTTA
*
941183 AAATAAATC-A--AATTCATACTAATAAAT
255 AAATAAATCAATCAATCCATACTAATAAAT
941210 TATTTAAAATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATT
1 TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
* * * ** * * * *
941265 ATTTAAAATAAATCAATA-CATACAACTACAATAATAAATCAAT-C-CAT-A-T-TTTAAAATAA
66 A-AT-AAATCAATCCATATTTTA-AAATA-AATAATCAATCCATACAAATAATTATTTAAAATAA
941324 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
127 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* *
941389 CTAATAATTTATTTAAAATAAATTAATCCATACTAATA
192 CTAATAAATTATTTAAAATAAATCAATCCATAC-AATA
941427 AATTATTTTA
Statistics
Matches: 692, Mismatches: 41, Indels: 105
0.83 0.05 0.13
Matches are distributed among these distances:
249 1 0.00
250 7 0.01
251 58 0.08
252 2 0.00
253 3 0.00
254 2 0.00
255 28 0.04
256 8 0.01
257 43 0.06
258 4 0.01
259 5 0.01
261 1 0.00
265 35 0.05
267 1 0.00
268 13 0.02
270 2 0.00
273 3 0.00
275 1 0.00
277 3 0.00
278 1 0.00
279 3 0.00
280 2 0.00
281 18 0.03
282 1 0.00
283 1 0.00
284 25 0.04
285 18 0.03
286 52 0.08
287 160 0.23
288 26 0.04
289 67 0.10
290 5 0.01
291 48 0.07
293 5 0.01
294 15 0.02
295 25 0.04
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (284 bp):
TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
AATAAATCAATCCATATTTTAAAATAAATAATCAATCCATACAAATAATTATTTAAAATAAATCA
ATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
TAAATTATTTAAAATAAATCAATCCATACAATACAATAATAAATCAATCCATATTTTTAAAATAA
ATCAATCAATCCATACTAATAAAT
Found at i:941096 original size:116 final size:116
Alignment explanation
Indices: 940830--941453 Score: 749
Period size: 116 Copynumber: 5.5 Consensus size: 116
940820 CAATCCATAT
*
940830 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCGATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
940895 TAAATCAATCCATATTTTTAAAATAAATCAATCAATCCATACTAATAAATTA
66 TAAATCAATCCATA-TTTTAAAATAAATCAATCAATCCATACAAATAAATTA
*
940947 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
941012 TAAATCAATCCATATTTTAAAATAAATCAATCAATCTATACAAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTA
*
941063 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
941128 GAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTA
* * **
941179 TTTAAAATAAATCAAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-A
1 TTTAAAATAAATC-AATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
** * * * *
941240 ATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACAACTACA--A
65 ATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCAATCCATACAAATAAATTA
*
941296 --T--AATAAATCAAT-C---C--AT--AT--TTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
* *
941346 TTTAAAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATACTAATAATTTA
63 --T--AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTA
*
941400 TTTAAAATAAATTAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA
941454 TTTTATAATA
Statistics
Matches: 442, Mismatches: 30, Indels: 68
0.82 0.06 0.13
Matches are distributed among these distances:
102 35 0.08
104 4 0.01
105 2 0.00
106 4 0.01
107 2 0.00
108 11 0.02
109 2 0.00
111 6 0.01
112 20 0.05
113 23 0.05
114 11 0.02
115 1 0.00
116 163 0.37
117 115 0.26
118 1 0.00
119 42 0.10
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (116 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTA
Found at i:941238 original size:22 final size:22
Alignment explanation
Indices: 941212--941254 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
941202 TAATAAATTA
941212 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
941234 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
941255 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:941263 original size:22 final size:22
Alignment explanation
Indices: 941214--941262 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
941204 ATAAATTATT
**
941214 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
941236 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
941259 TAAA
1 TAAA
941263 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:941343 original size:22 final size:22
Alignment explanation
Indices: 941268--941342 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
941258 ATAAATTATT
* *
941268 TAAAATAAATCAATACATACAA
1 TAAAATAAATCAATCCATATAA
**
941290 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
941316 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
941339 TAAA
1 TAAA
941343 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:941372 original size:22 final size:22
Alignment explanation
Indices: 941346--941388 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
941336 TAATAAATTA
941346 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
941368 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
941389 CTAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:941443 original size:15 final size:15
Alignment explanation
Indices: 941423--941550 Score: 124
Period size: 15 Copynumber: 8.5 Consensus size: 15
941413 AATCCATACT
941423 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
941438 AATAAATCAATCCATATTTTAT
1 AATAAAT---T--AT--TTTAA
*
941460 AATAAATTATTTTAT
1 AATAAATTATTTTAA
941475 AATAAATTATTTTAA
1 AATAAATTATTTTAA
941490 AAT--A--A--TTAA
1 AATAAATTATTTTAA
*
941499 AATAAATTATTTTAT
1 AATAAATTATTTTAA
941514 AATAAATTATTTTAA
1 AATAAATTATTTTAA
941529 AATAAATTATTTTAA
1 AATAAATTATTTTAA
941544 AATAAAT
1 AATAAAT
941551 AACCTTATTA
Statistics
Matches: 96, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
9 7 0.07
11 2 0.02
13 2 0.02
15 68 0.71
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
22 11 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:941472 original size:37 final size:33
Alignment explanation
Indices: 941365--941481 Score: 155
Period size: 32 Copynumber: 3.5 Consensus size: 33
941355 AATCAATCCA
*
941365 TATTTTAAAATAAATCAATCCATACTAATAATT
1 TATTTTAAAATAAATCAATCCATACTAATAAAT
*
941398 TA-TTTAAAATAAATTAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATACTAATAAAT
*
941430 TATTTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TATTTTAAAATAAATCAATCCATA----CTAATAAAT
*
941467 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
941482 TATTTTAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
32 30 0.41
33 22 0.30
37 22 0.30
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.42
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCCATACTAATAAAT
Found at i:941526 original size:54 final size:52
Alignment explanation
Indices: 941422--941552 Score: 199
Period size: 54 Copynumber: 2.5 Consensus size: 52
941412 TAATCCATAC
* **
941422 TAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTA
1 TAATAAATTATTTTAAAATAAATAAATAAATATTTTATAATAAATTATTTTA
*
941474 TAATAAATTATTTTAAAATAATTAAAATAAATTATTTTATAATAAATTATTTTA
1 TAATAAATTATTTTAAAATAAAT-AAATAAA-TATTTTATAATAAATTATTTTA
*
941528 AAATAAATTATTTTAAAATAAATAA
1 TAATAAATTATTTTAAAATAAATAA
941553 CCTTATTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
52 22 0.31
53 6 0.08
54 43 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (52 bp):
TAATAAATTATTTTAAAATAAATAAATAAATATTTTATAATAAATTATTTTA
Found at i:942594 original size:16 final size:16
Alignment explanation
Indices: 942561--942607 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
942551 CAAAAAAATT
*
942561 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
942576 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
942592 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
942608 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:942684 original size:30 final size:30
Alignment explanation
Indices: 942649--942753 Score: 129
Period size: 30 Copynumber: 3.4 Consensus size: 30
942639 TCTATTAAAC
*
942649 AACTAATAAACTATTCTTTAATATAACTTA
1 AACTAATAAACTATTATTTAATATAACTTA
*
942679 AACTAATAAAATATTATTTAATATAACTTA
1 AACTAATAAACTATTATTTAATATAACTTA
* * *
942709 AACTAATAAACGATTTTTTAATTATAATTTA
1 AACTAATAAACTATTATTTAA-TATAACTTA
* *
942740 CTACTAAAAAACTA
1 -AACTAATAAACTA
942754 ATTAACTAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 46 0.72
31 8 0.12
32 10 0.16
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (30 bp):
AACTAATAAACTATTATTTAATATAACTTA
Found at i:942865 original size:41 final size:37
Alignment explanation
Indices: 942810--942923 Score: 106
Period size: 41 Copynumber: 2.9 Consensus size: 37
942800 CTTAACTATT
942810 TAACTAAC--ACAAACTAATTACATATTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTATATA
*
942846 TAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATA
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TT-ATATA
* * *
942889 TAACTATCAAACATACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATT-AATATTTTTTTAT
942924 TTCTATATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
36 8 0.12
38 2 0.03
39 2 0.03
40 17 0.27
41 20 0.31
42 3 0.05
43 12 0.19
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (37 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTATATA
Found at i:942957 original size:21 final size:23
Alignment explanation
Indices: 942933--942983 Score: 81
Period size: 21 Copynumber: 2.3 Consensus size: 23
942923 TTTCTATATG
942933 ATATAACTTAAACTAA-AAA-TA
1 ATATAACTTAAACTAACAAACTA
942954 ATATAACTTAAACTAACAAACTA
1 ATATAACTTAAACTAACAAACTA
942977 AT-TAACT
1 ATATAACT
942984 AATTTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.57
22 8 0.29
23 4 0.14
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (23 bp):
ATATAACTTAAACTAACAAACTA
Found at i:943238 original size:44 final size:45
Alignment explanation
Indices: 943176--943261 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 45
943166 TAATTTTTTA
*
943176 ACTAACTACAAACTAATTAACTA-TTTTTT-ATATATAACTAACG
1 ACTAACAACAAACTAATTAACTATTTTTTTAATATATAACTAACG
*
943219 ACTAACAATCAAACTAATTAATTATTTTTTTAATATATAACTA
1 ACTAACAA-CAAACTAATTAACTATTTTTTTAATATATAACTA
943262 TAAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 7 0.18
44 14 0.37
45 6 0.16
46 11 0.29
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (45 bp):
ACTAACAACAAACTAATTAACTATTTTTTTAATATATAACTAACG
Found at i:943779 original size:29 final size:29
Alignment explanation
Indices: 943745--943835 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 29
943735 TGCAGAGGCT
*
943745 TACCATGTCGCACAACATGCATGGCGACC
1 TACCATGTCGCCCAACATGCATGGCGACC
* *
943774 TACCATGTCGCCCAGCGTGCATGGCGACC
1 TACCATGTCGCCCAACATGCATGGCGACC
* *
943803 TACAAGGTCGCCCGGAA-A-GCATGGCGACC
1 TACCATGTCGCCC--AACATGCATGGCGACC
943832 TACC
1 TACC
943836 TCTCATGGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
29 51 0.98
31 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.15
Consensus pattern (29 bp):
TACCATGTCGCCCAACATGCATGGCGACC
Found at i:949375 original size:2 final size:2
Alignment explanation
Indices: 949368--949407 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
949358 TATCAAAATA
949368 AT AT AT 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 AT AT AT
949408 TAAATCAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:950408 original size:23 final size:23
Alignment explanation
Indices: 950382--950429 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
950372 ATATATATTT
950382 AAAAATATTCATAAAATAAACTA
1 AAAAATATTCATAAAATAAACTA
*
950405 AAAAATATTCATAAAATAATCTA
1 AAAAATATTCATAAAATAAACTA
950428 AA
1 AA
950430 TATTAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAATATTCATAAAATAAACTA
Found at i:953533 original size:5 final size:5
Alignment explanation
Indices: 953523--953551 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
953513 CCGTCAAACT
953523 AAGCA AAGCA AAGCA AAG-A AAGCA AAGCA
1 AAGCA AAGCA AAGCA AAGCA AAGCA AAGCA
953552 GATCAATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.62, C:0.17, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGCA
Found at i:953544 original size:9 final size:10
Alignment explanation
Indices: 953523--953551 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
953513 CCGTCAAACT
953523 AAGCAAAGCA
1 AAGCAAAGCA
953533 AAGCAAAG-A
1 AAGCAAAGCA
953542 AAGCAAAGCA
1 AAGCAAAGCA
953552 GATCAATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.62, C:0.17, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGCAAAGCA
Found at i:956077 original size:5 final size:5
Alignment explanation
Indices: 956069--956101 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
956059 CTAAACTAAG
*
956069 TAAAA TAAAA TAAAG TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
956102 TTCTAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:956084 original size:15 final size:15
Alignment explanation
Indices: 956066--956097 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
956056 AAACTAAACT
956066 AAGTAAAATAAAATA
1 AAGTAAAATAAAATA
956081 AAGTAAAATAAAATA
1 AAGTAAAATAAAATA
956096 AA
1 AA
956098 ATAATTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAGTAAAATAAAATA
Found at i:959726 original size:15 final size:15
Alignment explanation
Indices: 959700--959735 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
959690 TCCTTGTCTT
959700 ATAACA-CATATCAC
1 ATAACATCATATCAC
959714 ATAACATCATATCAC
1 ATAACATCATATCAC
959729 ATAACAT
1 ATAACAT
959736 GTAATGCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (15 bp):
ATAACATCATATCAC
Found at i:970161 original size:20 final size:23
Alignment explanation
Indices: 970135--970191 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 23
970125 TCCCCTTGAA
970135 GTGCATCGATGCATGC-T-ACAC
1 GTGCATCGATGCATGCTTAACAC
*
970156 -TGCATCGATGCATTCTTTAACAC
1 GTGCATCGATGCATGC-TTAACAC
970179 GTGCATCGATGCA
1 GTGCATCGATGCA
970192 CTACCCATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 14 0.45
22 1 0.03
23 4 0.13
24 12 0.39
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (23 bp):
GTGCATCGATGCATGCTTAACAC
Found at i:970183 original size:24 final size:21
Alignment explanation
Indices: 970135--970207 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
970125 TCCCCTTGAA
970135 GTGCATCGATGCATGCTACAC
1 GTGCATCGATGCATGCTACAC
*
970156 -TGCATCGATGCATTCTTTAACAC
1 GTGCATCGATGCATGC--T-ACAC
*
970179 GTGCATCGATGCA--CTACCC
1 GTGCATCGATGCATGCTACAC
*
970198 ATGCATCGAT
1 GTGCATCGAT
970208 ATACAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 12 0.27
20 15 0.33
22 2 0.04
23 4 0.09
24 12 0.27
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (21 bp):
GTGCATCGATGCATGCTACAC
Found at i:975913 original size:13 final size:13
Alignment explanation
Indices: 975895--975920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
975885 CCTGGTAACA
975895 ACTCCCACTGCAT
1 ACTCCCACTGCAT
975908 ACTCCCACTGCAT
1 ACTCCCACTGCAT
975921 GAGCAATATC
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:0.23, C:0.46, G:0.08, T:0.23
Consensus pattern (13 bp):
ACTCCCACTGCAT
Found at i:983892 original size:3 final size:3
Alignment explanation
Indices: 983886--983917 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
983876 TAATAATAAT
983886 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
983918 ACATTGCACT
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:985002 original size:3 final size:3
Alignment explanation
Indices: 984994--985035 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
984984 TTGAAAGAAG
984994 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
985036 AACCCAATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:986844 original size:13 final size:13
Alignment explanation
Indices: 986826--986852 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
986816 ACTTATCTTC
986826 AAAATGAAGTATA
1 AAAATGAAGTATA
986839 AAAATGAAGTATA
1 AAAATGAAGTATA
986852 A
1 A
986853 TAATACTTGG
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:0.15, T:0.22
Consensus pattern (13 bp):
AAAATGAAGTATA
Found at i:987543 original size:3 final size:3
Alignment explanation
Indices: 987535--987591 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
987525 TTTATATTTA
* *
987535 TAT TAT TAT TAT T-T TATT TCT TAT T-T TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
987579 TAG TAC TAT TAT T
1 TAT TAT TAT TAT T
987592 GCAGACCCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:987553 original size:26 final size:26
Alignment explanation
Indices: 987519--987571 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
987509 ACTTTATACC
987519 ATTTTATTT-ATATTTATATTATTATT
1 ATTTTATTTCATATTT-TATTATTATT
*
987545 ATTTTATTTCTTATTTTATTATTATT
1 ATTTTATTTCATATTTTATTATTATT
987571 A
1 A
987572 ATATTATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (26 bp):
ATTTTATTTCATATTTTATTATTATT
Found at i:989184 original size:13 final size:14
Alignment explanation
Indices: 989118--989186 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 14
989108 TTTTCTATTA
989118 AAAT-TATATTTAT
1 AAATATATATTTAT
*
989131 AAATTTA-ATTT-T
1 AAATATATATTTAT
* *
989143 ACAAAATATATTTAA
1 A-AATATATATTTAT
989158 AAATAATCATATTT-T
1 AAAT-AT-ATATTTAT
989173 AAATATATATTTAT
1 AAATATATATTTAT
989187 TTTTCAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
12 2 0.05
13 18 0.41
14 11 0.25
15 7 0.16
16 6 0.14
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATATATTTAT
Found at i:994315 original size:13 final size:14
Alignment explanation
Indices: 994291--994323 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
994281 TTGAAGAATA
994291 AAAAAATGAAAAAG
1 AAAAAATGAAAAAG
*
994305 AAAAAAT-AAAATG
1 AAAAAATGAAAAAG
994318 AAAAAA
1 AAAAAA
994324 AGAGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAAATGAAAAAG
Found at i:994326 original size:21 final size:19
Alignment explanation
Indices: 994284--994322 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
994274 ATTATGCTTG
*
994284 AAGAATAAA-AAAATGAAA
1 AAGAAAAAATAAAATGAAA
994302 AAGAAAAAATAAAATGAAA
1 AAGAAAAAATAAAATGAAA
994321 AA
1 AA
994323 AAGAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (19 bp):
AAGAAAAAATAAAATGAAA
Found at i:994716 original size:18 final size:18
Alignment explanation
Indices: 994693--994730 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
994683 CCAAGTATTC
994693 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
994711 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
994729 TT
1 TT
994731 CTGTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:997251 original size:113 final size:113
Alignment explanation
Indices: 997068--997722 Score: 554
Period size: 113 Copynumber: 5.6 Consensus size: 113
997058 TCCATAACTT
* * *
997068 AATGGATCAACTTTTCCAAAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 AATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* *
997133 TTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCGCTC
66 TTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTC
* * * * **
997181 AATGGGTTAGCATTACCAG-GTAGGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 AATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * * *
997245 ATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACTC
65 GTTCATAATAAGAAGAACTTGTTC-AACCTTTTGCTTGAATTCATCACTC
* * * * * * *
997295 GATGGATCAACTTTTCCAGAGAAATTTCATAATGAAAAGAACTTAACTGAAG-AGGAATAAGAAG
1 AATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * **
997359 TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCATG-ACTCTATCACAGAAGG
66 TTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTGAATTC-ATCAC----TC
* ** * * *
997411 AGATAGATCAACATCAACATTTCCAGA-AGTGTTCGTAATGACAAGAACTCATATGAAGAAGGAA
1 A-AT-G-----GATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
997475 GAAGAAATTCATAATGAA-AAGAA-TGTGTTCAAACCTTTTGTTTGAATTCATCACTC
59 GAAGAAGTTCATAAT-AAGAAGAACT-TGTTC-AACCTTTTGCTTGAATTCATCACTC
* * * *
997531 GATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGATGAAG
1 AATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * **
997595 TTCATAATAAGAAGAGCTTTTTCAACCTTTTGCATG-ACTCTATCACAGAAGG
66 TTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTGAATTC-ATCAC----TC
* *
997647 AGATAGATCAACATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
1 A-AT-G-----GATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
997711 GAAGAAGTTCAT
59 GAAGAAGTTCAT
997723 CTGAAGAAGA
Statistics
Matches: 429, Mismatches: 78, Indels: 60
0.76 0.14 0.11
Matches are distributed among these distances:
111 6 0.01
112 35 0.08
113 147 0.34
114 86 0.20
115 1 0.00
117 4 0.01
118 3 0.01
119 2 0.00
122 24 0.06
123 101 0.24
124 17 0.04
125 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
AATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
TTCATAATAAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTC
Found at i:997474 original size:123 final size:122
Alignment explanation
Indices: 997300--997722 Score: 442
Period size: 123 Copynumber: 3.5 Consensus size: 122
997290 CACTCGATGG
* * * * * *
997300 ATCAACTTTTCCAGAGAAATTTCATAATGAAAAGAACTTA-ACTGAAGAGGAATAAGAAGTTCAT
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATA-TGAAGAGGAAGAAGAAGTTCAT
997364 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
64 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
* * * *
997423 ATCAACATTTCCAGAAGTGTTCGTAATGACAAGAACTCATATGAAGAAGGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATATGAAG-AGGAAGAAGAAGTTCATA
* * ** * ** *
997488 ATGAAAAGA-ATGTGTTCAAACCTTTTGTTTGAAT-TCATCAC-----TCGATGGATCAAC
65 ATGAGAAGAGCT-TGTTC-AACCTTTTGCATGACTCT-ATCACAGAAGGAGATAGATCAAC
* * * *
997542 -T-----TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGATGAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATA
* *
997601 ATAAGAAGAGCTTTTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
65 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
* *
997659 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAG-AGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCAT
997723 CTGAAGAAGA
Statistics
Matches: 241, Mismatches: 39, Indels: 40
0.75 0.12 0.12
Matches are distributed among these distances:
112 18 0.07
113 36 0.15
114 26 0.11
117 10 0.04
118 2 0.01
119 10 0.04
122 24 0.10
123 97 0.40
124 18 0.07
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
Found at i:997506 original size:236 final size:237
Alignment explanation
Indices: 997069--997722 Score: 890
Period size: 236 Copynumber: 2.8 Consensus size: 237
997059 CCATAACTTA
* * * * *
997069 ATGGATCAACTTTTCCAAAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTTAACTGAAG-AGGAAGAAGAAGT
* * * ** *
997134 TCATAATAAGAAGAACTTGTTCAACCTTTTGC-TCGAAT-TCATCGCTCAATG-G---G-T----
65 TCATAATAAGAAGAGCTTGTTCAACCTTTTGCAT-GACTCT-ATCACAGAAGGAGATAGATCAAC
* * * *
997188 -T-AGCATTACCAGGTAG-GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
128 ATCAACATTTCCA-GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCA
* *
997250 TAATGAGAAGAATTTGTTCAAACCTTTTGTTTGAATTCATCACTCG
192 TAATGAAAAGAATGTGTTCAAACCTTTTGTTTGAATTCATCACTCG
* *
997296 ATGGATCAACTTTTCCAGAGAAATTTCATAATGAAAAGAACTTAACTGAAGAGGAATAAGAAGTT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTTAACTGAAGAGGAAGAAGAAGTT
*
997361 CATAATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATC
66 CATAATAAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATC
* * * *
997426 AACATTTCCAGAAG-TGTTCGTAATGACAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAAT
131 AACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
997490 GAAAAGAATGTGTTCAAACCTTTTGTTTGAATTCATCACTCG
196 GAAAAGAATGTGTTCAAACCTTTTGTTTGAATTCATCACTCG
* * *
997532 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGATGAAGTT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTTAACTGAAGAGGAAGAAGAAGTT
*
997597 CATAATAAGAAGAGCTTTTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATC
66 CATAATAAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATC
* *
997662 AACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
131 AACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
997723 CTGAAGAAGA
Statistics
Matches: 377, Mismatches: 36, Indels: 19
0.87 0.08 0.04
Matches are distributed among these distances:
226 52 0.14
227 48 0.13
230 1 0.00
231 1 0.00
236 242 0.64
237 33 0.09
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (237 bp):
ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAAAAGAACTTAACTGAAGAGGAAGAAGAAGTT
CATAATAAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATC
AACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
GAAAAGAATGTGTTCAAACCTTTTGTTTGAATTCATCACTCG
Found at i:997725 original size:23 final size:22
Alignment explanation
Indices: 997688--997734 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
997678 GTTCATAATG
*
997688 AGAAGAACTCATCTGAAGAGGA
1 AGAAGAACTCATCTGAAGAAGA
*
997710 AGAAGAAGTTCATCTGAAGAAGA
1 AGAAGAA-CTCATCTGAAGAAGA
997733 AG
1 AG
997735 TTCATCTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.47, C:0.11, G:0.28, T:0.15
Consensus pattern (22 bp):
AGAAGAACTCATCTGAAGAAGA
Found at i:997758 original size:20 final size:17
Alignment explanation
Indices: 997708--997750 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
997698 ATCTGAAGAG
997708 GAAGAAGAAGTTCATCT
1 GAAGAAGAAGTTCATCT
997725 GAAGAAGAAGTTCATCT
1 GAAGAAGAAGTTCATCT
997742 GAAGAAGAA
1 GAAGAAGAA
997751 TTTGTTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (17 bp):
GAAGAAGAAGTTCATCT
Found at i:997988 original size:20 final size:20
Alignment explanation
Indices: 997930--997989 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
997920 TTTCCAGTGG
997930 AGAAGTTCATAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
** * *
997950 ACTCA-TCCAAAAT-AGAAGA
1 A-GAAGTTCATAATGAGAAGA
997969 AGAAGTTCATAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
997989 A
1 A
997990 TTTGTTCAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.45
20 14 0.48
21 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.20, T:0.18
Consensus pattern (20 bp):
AGAAGTTCATAATGAGAAGA
Found at i:998240 original size:3 final size:3
Alignment explanation
Indices: 998232--998359 Score: 81
Period size: 3 Copynumber: 43.7 Consensus size: 3
998222 TGTTTGTTTT
* * * *
998232 TTA TTA TTA TTTA ATA TTA TTA TTA ATA TTA TTA ATA TTA TTA ATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
998278 TT- TTA -TA TCA TT- TTA TT- TATA TT- TATA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA
* * * * *
998319 TTTC TTA TT- TAA TTA TTA TTA ATA TTA TTA ATA CTA TTA TT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
998360 GCATGCCCAA
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
2 11 0.12
3 77 0.81
4 7 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:999789 original size:38 final size:38
Alignment explanation
Indices: 999721--999794 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
999711 ATTCCAATAT
* *
999721 TATAGTTTTAATTTTATTTGCTTTATTTATTGTTTAAA
1 TATAGTTTTAATTTTATTTGCATTATTTATTATTTAAA
*
999759 TATA-TTTTAATGTTTATTTTCAATTA-TTATTATTTA
1 TATAGTTTTAAT-TTTATTTGC-ATTATTTATTATTTA
999795 GTCATATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 7 0.23
38 21 0.68
39 3 0.10
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (38 bp):
TATAGTTTTAATTTTATTTGCATTATTTATTATTTAAA
Found at i:1000045 original size:11 final size:12
Alignment explanation
Indices: 1000020--1000044 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1000010 ATTATATATA
1000020 TTAATTTATTTT
1 TTAATTTATTTT
1000032 TTAATTTATTTT
1 TTAATTTATTTT
1000044 T
1 T
1000045 AGATAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:1005129 original size:40 final size:40
Alignment explanation
Indices: 1005074--1005153 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
1005064 ACTACGACTA
* *
1005074 CTACGCTCAGGAGAATCCATTGAAATGGATATGTATTTAT
1 CTACGCTCAGAAGAATCCATTGAAATGGAGATGTATTTAT
**
1005114 CTACGCTCAGAAGAATTTATTGAAATGGAGATGTATTTAT
1 CTACGCTCAGAAGAATCCATTGAAATGGAGATGTATTTAT
1005154 TTACTTTCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (40 bp):
CTACGCTCAGAAGAATCCATTGAAATGGAGATGTATTTAT
Found at i:1015922 original size:20 final size:20
Alignment explanation
Indices: 1015885--1015923 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1015875 AGATTAAGTA
* * *
1015885 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1015905 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1015924 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:1016147 original size:20 final size:21
Alignment explanation
Indices: 1016102--1016162 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1016092 TCCCCTGTGG
*
1016102 GGGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1016125 GGGGGAATCGGTTCCCT-AAA
1 GGGGGAATCGGTTCCCTCAAA
*
1016145 GGGGGAATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1016163 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 19 0.54
21 1 0.03
22 3 0.09
23 12 0.34
ACGTcount: A:0.23, C:0.25, G:0.31, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1023165 original size:15 final size:14
Alignment explanation
Indices: 1023140--1023178 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
1023130 AGAGCATTGG
1023140 TATTGTACTCACAA
1 TATTGTACTCACAA
1023154 TATTGATACTCACAA
1 TATTG-TACTCACAA
1023169 TATTGGTACT
1 TATT-GTACT
1023179 TGTAATATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.22
15 17 0.74
16 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (14 bp):
TATTGTACTCACAA
Found at i:1024492 original size:21 final size:21
Alignment explanation
Indices: 1024466--1024525 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
1024456 TTGGGAGTGT
1024466 AGGTGCATCGGTACACTCTCA
1 AGGTGCATCGGTACACTCTCA
*
1024487 AGGTGCATCTGTACACTCTCA
1 AGGTGCATCGGTACACTCTCA
* *
1024508 AGGGTGTATCGATACACT
1 A-GGTGCATCGGTACACT
1024526 ATGTGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
AGGTGCATCGGTACACTCTCA
Found at i:1027319 original size:20 final size:19
Alignment explanation
Indices: 1027289--1027329 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1027279 CCCAAAAACC
1027289 CAACAAGTGTATCGATACA
1 CAACAAGTGTATCGATACA
*
1027308 CAACAGAGTGTATCGATGCA
1 CAACA-AGTGTATCGATACA
1027328 CA
1 CA
1027330 TCAAAAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (19 bp):
CAACAAGTGTATCGATACA
Found at i:1027386 original size:44 final size:44
Alignment explanation
Indices: 1027314--1027417 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
1027304 TACACAACAG
1027314 AGTGTATCGATGCACATCAAAAGAATGCATCGATGTAC-C-TTCAT
1 AGTGTATCGATGCACATCAAAAGAATGCATCG--GTACACTTTCAT
* * * *
1027358 AGTGTATCGATGCATATTC-AAGGGATGCATCGGTACACTTTTAT
1 AGTGTATCGATGCACA-TCAAAAGAATGCATCGGTACACTTTCAT
*
1027402 AGTTTATCGATGCACA
1 AGTGTATCGATGCACA
1027418 GTGCACAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 4 0.08
43 1 0.02
44 44 0.86
45 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
AGTGTATCGATGCACATCAAAAGAATGCATCGGTACACTTTCAT
Found at i:1035087 original size:11 final size:11
Alignment explanation
Indices: 1035065--1035094 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
1035055 CGAGCGACGG
1035065 ATTTAGAACTAA
1 ATTTA-AACTAA
1035077 ATTTAAACTAA
1 ATTTAAACTAA
1035088 ATTTAAA
1 ATTTAAA
1035095 ACTTTTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (11 bp):
ATTTAAACTAA
Found at i:1036492 original size:18 final size:18
Alignment explanation
Indices: 1036469--1036515 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
1036459 GTCACAACCC
1036469 GACCCGACCCGACCCATT
1 GACCCGACCCGACCCATT
*
1036487 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCATT
1036505 GACCCGACCCG
1 GACCCGACCCG
1036516 TTGACCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.51, G:0.21, T:0.09
Consensus pattern (18 bp):
GACCCGACCCGACCCATT
Found at i:1036508 original size:13 final size:13
Alignment explanation
Indices: 1036492--1036521 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1036482 CCATTGACCC
1036492 GACCCGACCCGTT
1 GACCCGACCCGTT
1036505 GACCCGACCCGTT
1 GACCCGACCCGTT
1036518 GACC
1 GACC
1036522 GTTGACATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1038581 original size:12 final size:12
Alignment explanation
Indices: 1038544--1038582 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1038534 ATCTGATACT
1038544 TGACATGGATTC
1 TGACATGGATTC
*
1038556 TGATAT-GATATC
1 TGACATGGAT-TC
1038568 TGACATGGATTC
1 TGACATGGATTC
1038580 TGA
1 TGA
1038583 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:1038660 original size:24 final size:24
Alignment explanation
Indices: 1038529--1038643 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
1038519 TTTATTTGAT
1038529 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
1038553 TTCTGATATGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
1038577 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
1038601 TTCTGATCTGTTACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
1038625 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
1038644 GTGAATTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 79 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:1040246 original size:20 final size:20
Alignment explanation
Indices: 1040221--1040355 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
1040211 AATTGGGAAA
1040221 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
1040241 ATCGCAATGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
1040261 ATCGCAATGTGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
1040282 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1040302 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
1040322 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
1040342 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1040356 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 64 0.68
21 24 0.26
22 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1040285 original size:61 final size:61
Alignment explanation
Indices: 1040218--1040355 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 61
1040208 GCGAATTGGG
* * * *
1040218 AAAATCGCAATGCGATACTGACTATCGCAATGAGATACTTACTATCGCAATGTGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
* * * * * *
1040279 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
*
1040340 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
1040356 TTTCAAAGCG
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
Found at i:1040550 original size:22 final size:22
Alignment explanation
Indices: 1040522--1040566 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1040512 CACTCTCTCA
1040522 CCCCATCTCCAACGAAATCCGT
1 CCCCATCTCCAACGAAATCCGT
*
1040544 CCCCATCTCCAGCGAAATCCGT
1 CCCCATCTCCAACGAAATCCGT
1040566 C
1 C
1040567 TATCTCCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.47, G:0.11, T:0.18
Consensus pattern (22 bp):
CCCCATCTCCAACGAAATCCGT
Found at i:1040881 original size:20 final size:20
Alignment explanation
Indices: 1040827--1040885 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1040817 GCGATTCTCT
**
1040827 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
1040847 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
1040867 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
1040886 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1042218 original size:18 final size:18
Alignment explanation
Indices: 1042197--1042240 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1042187 TCCACTTCGG
*
1042197 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1042215 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1042233 GAGCCATC
1 GAGCCATC
1042241 CTCTGATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.45, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1042797 original size:14 final size:14
Alignment explanation
Indices: 1042778--1042835 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1042768 ATGCGAAATG
1042778 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1042792 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
1042808 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1042824 AAAATCGCAACG
1 AAAATCGCAACG
1042836 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1042820 original size:32 final size:33
Alignment explanation
Indices: 1042762--1042840 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1042752 CTGAAATGGC
1042762 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1042795 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1042827 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
1042841 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1042869 original size:19 final size:18
Alignment explanation
Indices: 1042847--1042962 Score: 122
Period size: 19 Copynumber: 6.7 Consensus size: 18
1042837 GAAACACAAA
1042847 TCGCATTGCGACTTTCATT
1 TCGCATTGCGA-TTTCATT
*
1042866 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
1042882 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
1042899 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
1042915 TCG--TTGCGATTTGCATT
1 TCGCATTGCGATTT-CATT
1042932 TCGCATTGCGATTTGCATT
1 TCGCATTGCGATTT-CATT
1042951 TCGCATTGCGAT
1 TCGCATTGCGAT
1042963 AGCCATTTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
14 15 0.18
15 3 0.04
16 8 0.10
17 8 0.10
18 6 0.07
19 43 0.52
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.44
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:1042890 original size:14 final size:14
Alignment explanation
Indices: 1042871--1042926 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1042861 TCATTTCGCA
1042871 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
1042885 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
1042902 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
1042918 TTGCGATTT
1 TTGCGATTT
1042927 GCATTTCGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 15 0.43
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:1042896 original size:33 final size:33
Alignment explanation
Indices: 1042852--1042945 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
1042842 ACAAATCGCA
*
1042852 TTGCGACTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1042885 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
1042918 TTGCGATTTGCATTTCGCATTGCGATTT
1 TTGCGATTTTCATTTCGCATTGCGATTT
1042946 GCATTTCGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1042989 original size:20 final size:19
Alignment explanation
Indices: 1042928--1043002 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
1042918 TTGCGATTTG
* *
1042928 CATTTCGCATTGCGATTTG-
1 CATTTCGCGTTGCGA-TAGC
*
1042947 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
* *
1042966 CATTTCCGCGTTGTGATAGT
1 CATTT-CGCGTTGCGATAGC
1042986 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1043003 TTTAAGTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.04
19 20 0.42
20 23 0.48
21 3 0.06
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1044868 original size:14 final size:14
Alignment explanation
Indices: 1044834--1044872 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1044824 TTTGATTGTT
1044834 AATTGATTTGTAAG
1 AATTGATTTGTAAG
*
1044848 AAATGATTTGTAA-
1 AATTGATTTGTAAG
1044861 ATATTGATTTGT
1 A-ATTGATTTGT
1044873 TTAATTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAG
Found at i:1045043 original size:19 final size:19
Alignment explanation
Indices: 1045007--1045043 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1044997 ATCGCAATGA
* *
1045007 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
1045026 GAAAATCGCAACGAGAAA
1 GAAAATCGCAACGAGAAA
1045044 ATCTCGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:1045099 original size:20 final size:20
Alignment explanation
Indices: 1045074--1045116 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1045064 TCGCATTGCG
*
1045074 ATTTTCTCATTGCGATAGCC
1 ATTTTCGCATTGCGATAGCC
1045094 ATTTTCGCATTGCGATAGCC
1 ATTTTCGCATTGCGATAGCC
1045114 ATT
1 ATT
1045117 GTCTGTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTTTCGCATTGCGATAGCC
Found at i:1047510 original size:19 final size:19
Alignment explanation
Indices: 1047488--1047604 Score: 128
Period size: 19 Copynumber: 6.7 Consensus size: 19
1047478 GGAAATTACT
1047488 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1047507 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1047521 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1047540 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
1047554 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1047573 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1047592 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1047605 TTTAATTTCG
Statistics
Matches: 81, Mismatches: 7, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 19 0.23
15 4 0.05
16 2 0.02
17 2 0.02
18 4 0.05
19 50 0.62
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1047585 original size:33 final size:32
Alignment explanation
Indices: 1047488--1047587 Score: 155
Period size: 33 Copynumber: 3.1 Consensus size: 32
1047478 GGAAATTACT
*
1047488 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1047521 ATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAA
* *
1047553 TTTCGCAATGCGAAATGAAAATCGCAATGCGAA
1 -ATCGCAATGCGAAATGAAAATCGCAACGCGAA
1047586 AT
1 AT
1047588 GAAAATCGCA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 2 0.03
33 60 0.97
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAA
Found at i:1047632 original size:14 final size:14
Alignment explanation
Indices: 1047615--1047671 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1047605 TTTAATTTCG
1047615 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1047629 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1047648 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1047662 CGTTGCGATT
1 CGTTGCGATT
1047672 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1047651 original size:33 final size:33
Alignment explanation
Indices: 1047600--1047689 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
1047590 AAATCGCAAC
* *
1047600 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1047633 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
1047666 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
1047690 AGTACTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:1047653 original size:19 final size:19
Alignment explanation
Indices: 1047629--1047689 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
1047619 GCGATTCTCT
1047629 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1047648 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
1047662 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1047681 CATTGCGAT
1 CGTTGCGAT
1047690 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1047812 original size:14 final size:14
Alignment explanation
Indices: 1047793--1047829 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1047783 AATCAATTAA
1047793 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1047807 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1047821 ACAAATCAA
1 ACAAATCAA
1047830 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1048628 original size:378 final size:375
Alignment explanation
Indices: 1047902--1048654 Score: 1447
Period size: 378 Copynumber: 2.0 Consensus size: 375
1047892 TGCAGCCATA
1047902 CATCATTTTCACGCAGCTCACTTCTGAGATTAACCTGCATAAACCAAACATTTGCTCAACAACAC
1 CATCATTTTCACGCAGCTCACTTCTGAGATTAACCTGCATAAACCAAACATTTGCTCAACAACAC
1047967 TTCTACACATCTAAAACCTACAAAACAGCAAATTATTGAATTCTAGGTACTTAACCAAAACATTT
66 TTCTACACATCTAAAACCTACAAAACAGCAAATTATTGAATTCTAGGTACTTAACCAAAACATTT
1048032 TCAAACCACAAGCCTATAAACTACCAATTGTTATGGACATTTTTATAACGCGGATGTAGGTAGGC
131 TCAAACCACAAGCCTATAAACTACCAATTGTTATGGACATTTTTATAACGCGGATGTAGGTAGGC
1048097 AGCATCTCGTATATATCGATCTAGCCATATAATGTCGAAACCACAAGCTACTGCAGCTCTATCTA
196 AGCATCTCGTATATATCGATCTAGCCATATAATGTCGAAACCACAAGCTACTGCAGCTCTATCTA
1048162 TATCGGTGGGAGGTAGATACTTTATACTTCCTGTGATCAAACGGTCCAACGCCAAGCATACGAGA
261 TATCGGTGGGAGGTAGATACTTTATACTTCCTGTGATCAAACGGTCCAACGCCAAGCATACGAGA
1048227 GGACCACAATCCCCTCTGGGTCCTTTCGTTTGTTGTGGTGCGGTCTCGTC
326 GGACCACAATCCCCTCTGGGTCCTTTCGTTTGTTGTGGTGCGGTCTCGTC
1048277 CATCATTTTCACGCAGCTCACTTCTGAGATTAACCTGCATAAACCAAACATTTGCTCAAACAACA
1 CATCATTTTCACGCAGCTCACTTCTGAGATTAACCTGCATAAACCAAACATTTGCTC-AACAACA
1048342 CTTTCTACACATCTAAAACCTAC-AAACAGCAAATTATTGAATTCTAGGTACTTAACC-AAACAT
65 C-TTCTACACATCTAAAACCTACAAAACAGCAAATTATTGAATTCTAGGTACTTAACCAAAACAT
1048405 TTTCAAACCACAAGCCTATAAACATACCAATTGTTTATGGACATTTTTATAACGCGGATGTAGGT
129 TTTCAAACCACAAGCCTATAAAC-TACCAATTG-TTATGGACATTTTTATAACGCGGATGTAGGT
1048470 AGGCAGCATCTCGTATATATCGATCTAGCCATATAATGTCGAAACCACAAGCCTACTGCAGCTCT
192 AGGCAGCATCTCGTATATATCGATCTAGCCATATAATGTCGAAACCACAAG-CTACTGCAGCTCT
1048535 ATCTATATCGGTGGGAGGTAGATACTTTATACTTCCTGTGATCAAACGGTCCAACGCCAAGCATA
256 ATCTATATCGGTGGGAGGTAGATACTTTATACTTCCTGTGATCAAACGGTCCAACGCCAAGCATA
1048600 CGAGAGGACCACAATCCCCTCTGGGTCCTTTCGTTTGTTGTGGTGCGGTCTCGTC
321 CGAGAGGACCACAATCCCCTCTGGGTCCTTTCGTTTGTTGTGGTGCGGTCTCGTC
1048655 TCTGCTAACT
Statistics
Matches: 373, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
375 86 0.23
376 51 0.14
377 103 0.28
378 133 0.36
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (375 bp):
CATCATTTTCACGCAGCTCACTTCTGAGATTAACCTGCATAAACCAAACATTTGCTCAACAACAC
TTCTACACATCTAAAACCTACAAAACAGCAAATTATTGAATTCTAGGTACTTAACCAAAACATTT
TCAAACCACAAGCCTATAAACTACCAATTGTTATGGACATTTTTATAACGCGGATGTAGGTAGGC
AGCATCTCGTATATATCGATCTAGCCATATAATGTCGAAACCACAAGCTACTGCAGCTCTATCTA
TATCGGTGGGAGGTAGATACTTTATACTTCCTGTGATCAAACGGTCCAACGCCAAGCATACGAGA
GGACCACAATCCCCTCTGGGTCCTTTCGTTTGTTGTGGTGCGGTCTCGTC
Found at i:1049624 original size:21 final size:21
Alignment explanation
Indices: 1049558--1049624 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1049548 GTGAATCGGG
*
1049558 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1049578 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1049600 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1049621 CTCT
1 CTCT
1049625 CGAGGAAATG
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1050078 original size:91 final size:93
Alignment explanation
Indices: 1049899--1050083 Score: 306
Period size: 91 Copynumber: 2.0 Consensus size: 93
1049889 ATTTCAAACT
1049899 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1049964 AGAATTGGCAGCAACCGAATAAATTTAC
66 AGAATTGGCAGCAACCGAATAAATTTAC
*
1049992 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAA-ACA-A-TTTA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
*
1050053 GCAGTATTGGCAGCAACCGAATAAATTTAC
64 GCAGAATTGGCAGCAACCGAATAAATTTAC
1050083 T
1 T
1050084 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 34 0.39
92 1 0.01
93 22 0.25
94 4 0.05
95 27 0.31
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
AGAATTGGCAGCAACCGAATAAATTTAC
Found at i:1051795 original size:20 final size:19
Alignment explanation
Indices: 1051764--1051884 Score: 93
Period size: 20 Copynumber: 6.8 Consensus size: 19
1051754 TCTTTTGGTT
1051764 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1051783 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1051804 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1051823 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1051837 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1051856 G--A-G--AATCGC-ACGC
1 GAAATGAAAATCGCAACGA
1051869 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1051885 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 9, Indels: 26
0.70 0.08 0.23
Matches are distributed among these distances:
13 4 0.05
14 16 0.20
15 1 0.01
16 4 0.05
17 3 0.04
18 6 0.08
19 15 0.19
20 29 0.36
21 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1051808 original size:40 final size:36
Alignment explanation
Indices: 1051764--1051884 Score: 139
Period size: 33 Copynumber: 3.4 Consensus size: 36
1051754 TCTTTTGGTT
1051764 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAG--AA-GAGAATCGCAACGC
**
1051803 GGAAATGACTATCGCAAC--G-AGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
1051837 GAAATGAAAATCGCAAC--G-AGAGAATCGC-ACGC
1 GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
1051869 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1051885 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
32 20 0.26
33 26 0.34
34 14 0.18
35 1 0.01
38 1 0.01
40 15 0.19
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (36 bp):
GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
Found at i:1051832 original size:14 final size:14
Alignment explanation
Indices: 1051813--1051865 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
1051803 GGAAATGACT
1051813 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
1051827 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
1051846 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
1051860 ATCGCA
1 ATCGCA
1051866 CGCGAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1051874 original size:32 final size:33
Alignment explanation
Indices: 1051789--1051884 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
1051779 ACGAGATAAT
**
1051789 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
1051823 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1051856 GAGAATCGC-ACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
1051885 TGCGATTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.33
33 26 0.43
34 14 0.23
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:1052575 original size:21 final size:22
Alignment explanation
Indices: 1052523--1052575 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1052513 ATTTACTTAT
1052523 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
1052544 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
1052565 TCGCATTGCGA
1 TCGCATTGCGA
1052576 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:1055930 original size:61 final size:61
Alignment explanation
Indices: 1055860--1055977 Score: 150
Period size: 60 Copynumber: 1.9 Consensus size: 61
1055850 TATGACTTTT
* * * *
1055860 ATTTTAAATTTGTTCAT-AAACTTTTAAATATTTTAATTTCATCCTTAAATTAT-ACAAAATC
1 ATTTTAAATTAG-TCATCAAA-TTTTAAATATTTCAATTTCATCCGTAAACTATGACAAAATC
* *
1055921 ATTTTAAATTAGTCCTCAAATTTTAAATATTTCAATTTTATCCGTAAACTATGACAA
1 ATTTTAAATTAGTCATCAAATTTTAAATATTTCAATTTCATCCGTAAACTATGACAA
1055978 TAATTTTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 31 0.63
61 18 0.37
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (61 bp):
ATTTTAAATTAGTCATCAAATTTTAAATATTTCAATTTCATCCGTAAACTATGACAAAATC
Found at i:1056895 original size:23 final size:24
Alignment explanation
Indices: 1056851--1056910 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
1056841 TCCAGAGGGA
**
1056851 ACCGATTCCTTCCCCAAGGGGGGT
1 ACCGATTCCCCCCCCAAGGGGGGT
1056875 ACCGATTCCCCCCCCAA-GGGGGT
1 ACCGATTCCCCCCCCAAGGGGGGT
1056898 ACCGATTCCCCCC
1 ACCGATTCCCCCC
1056911 TGAATGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (24 bp):
ACCGATTCCCCCCCCAAGGGGGGT
Found at i:1067075 original size:14 final size:14
Alignment explanation
Indices: 1067058--1067097 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
1067048 TCCTCTTTTT
1067058 TTATTTATATTATA
1 TTATTTATATTATA
*
1067072 TTATTTTTATTATA
1 TTATTTATATTATA
1067086 TATATCTTATAT
1 T-TAT-TTATAT
1067098 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:1067079 original size:23 final size:23
Alignment explanation
Indices: 1067021--1067090 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
1067011 TATATTTTTA
* *
1067021 ATTATATTTTTTATTTATTTACTAT
1 ATTATTTTTTTTATTTA--TATTAT
*
1067046 ATTCCTCTTTTTTTATTTATATTAT
1 ATT-AT-TTTTTTTATTTATATTAT
* *
1067071 ATTATTTTTATTATATATAT
1 ATTATTTTTTTTATTTATAT
1067091 CTTATATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 13 0.35
24 1 0.03
25 11 0.30
26 1 0.03
27 11 0.30
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTATTTTTTTTATTTATATTAT
Found at i:1067089 original size:2 final size:2
Alignment explanation
Indices: 1067082--1067123 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
1067072 TTATTTTTAT
*
1067082 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
1067123 T
1 T
1067124 GTATGCATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1067257 original size:32 final size:30
Alignment explanation
Indices: 1067231--1067288 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
1067221 TATTTTTGTT
1067231 TTTATTTTATTTATATATATTATATTTTTAC
1 TTTATTTTATTT-TATATATTATATTTTTAC
*
1067262 TTTATTTTATTTTTTATATTAT-TTTTT
1 TTTATTTTATTTTATATATTATATTTTT
1067289 CTTAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 9 0.35
31 12 0.46
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTATTTTATTTTATATATTATATTTTTAC
Found at i:1067278 original size:25 final size:26
Alignment explanation
Indices: 1067229--1067281 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1067219 TCTATTTTTG
*
1067229 TTTTTATTTTATTTATATATATTATA
1 TTTTTACTTTATTTATATATATTATA
* *
1067255 TTTTTACTTTATTT-TATTTTTTATA
1 TTTTTACTTTATTTATATATATTATA
1067280 TT
1 TT
1067282 ATTTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTACTTTATTTATATATATTATA
Found at i:1067282 original size:30 final size:30
Alignment explanation
Indices: 1067231--1067343 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 30
1067221 TATTTTTGTT
1067231 TTTATTTTATTTATATATATTATATTTTTAC
1 TTTATTTTATTTATATATATTAT-TTTTTAC
*
1067262 TTTATTTTATTT-TTTATATTATTTTTT-C
1 TTTATTTTATTTATATATATTATTTTTTAC
* * * * *
1067290 TTAATATTATGTGTATCT-TTATTTTTTA-
1 TTTATTTTATTTATATATATTATTTTTTAC
* *
1067318 TTTGTTTTACTTAGTAT-TATATATTT
1 TTTATTTTATTTA-TATATAT-TATTT
1067344 ATTATTTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
28 27 0.42
29 12 0.18
30 14 0.22
31 12 0.18
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (30 bp):
TTTATTTTATTTATATATATTATTTTTTAC
Found at i:1067429 original size:19 final size:19
Alignment explanation
Indices: 1067401--1067437 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1067391 TTTTTATTCC
1067401 TTTTTAATTTCTTTTACTT
1 TTTTTAATTTCTTTTACTT
* *
1067420 TTTTTTATTTTTTTTACT
1 TTTTTAATTTCTTTTACT
1067438 CCATTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTAATTTCTTTTACTT
Found at i:1067502 original size:19 final size:19
Alignment explanation
Indices: 1067480--1067518 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1067470 TTTTTTAACA
1067480 TTTTATTAATTTTTT-TTAT
1 TTTTATT-ATTTTTTATTAT
1067499 TTTTATTATTTTTTATTAT
1 TTTTATTATTTTTTATTAT
1067518 T
1 T
1067519 ATTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTATTTTTTATTAT
Done.