Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 88 of 167
Found at i:29050824 original size:64 final size:64
Alignment explanation
Indices: 29050748--29050917 Score: 164
Period size: 67 Copynumber: 2.6 Consensus size: 64
29050738 AGACATTATG
* *
29050748 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAAAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAAAGAGCTACGAGATAA
* * * * * * * *
29050812 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATATAGACAAAAGAGCTACGAGAT
29050877 AA
63 AA
* * * *
29050879 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCAT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCAT
29050918 GTGTACAAGA
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
63 7 0.08
64 21 0.25
65 8 0.10
66 16 0.19
67 29 0.35
68 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAAAGAGCTACGAGATAA
Found at i:29054764 original size:45 final size:45
Alignment explanation
Indices: 29054713--29054810 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
29054703 TACTGCTTAA
* *
29054713 GGAGACAAGATTCGTCGTCTTCGATCTATTTCACTGCAACTTCAG
1 GGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAG
*
29054758 GGAGACAAGATTCGCCGTCTTCGATCTATTCCATTGCAACTTCAG
1 GGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAG
*
29054803 TGAGACAA
1 GGAGACAA
29054811 AATCTAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
GGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAG
Found at i:29054779 original size:131 final size:131
Alignment explanation
Indices: 29054354--29054768 Score: 623
Period size: 131 Copynumber: 3.2 Consensus size: 131
29054344 AATCTGCTCT
* * *
29054354 TGCAACTTCAGGGAGACAAGATCTACAGTCCTCAGCCTACTCCACTACTGCTTAGGCAGATAGGA
1 TGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGAAGATAGGA
* * *
29054419 TGGTGGCCTAGATCTGCTCCACTACTGGTTAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCA
66 TGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCA
29054484 C
131 C
* * *
29054485 TGCAACTTCAGGGAGACAAAATCTAAAATCTTCAGCCTACTCCACTACTTCTTAGGAAGATAGGA
1 TGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGAAGATAGGA
* *
29054550 TGGTGGCTTAAATCTGCTCCACTAGTGGTTAGGGAGACAAGATTCGCCGTCTTCAATCTGTTCCA
66 TGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCA
*
29054615 T
131 C
* * * **
29054616 TGTAACTTCAGGGAGACAAGCTCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGGGATAGGA
1 TGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGAAGATAGGA
* * * * * *
29054681 TGGTGGCTTAAATCCGCTCCACTACTGCTTAAGGAGACAAGATTCGTCGTCTTCGATCTATTTCA
66 TGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCA
29054746 C
131 C
29054747 TGCAACTTCAGGGAGACAAGAT
1 TGCAACTTCAGGGAGACAAGAT
29054769 TCGCCGTCTT
Statistics
Matches: 253, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 253 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (131 bp):
TGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGAAGATAGGA
TGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCA
C
Found at i:29054792 original size:176 final size:176
Alignment explanation
Indices: 29054580--29054900 Score: 498
Period size: 176 Copynumber: 1.8 Consensus size: 176
29054570 ACTAGTGGTT
* * ** **
29054580 AGGGAGACAAGATTCGCCGTCTTCAATCTGTTCCATTGTAACTTCAGGGAGACAAGCTCTGCAAT
1 AGGGAGACAAGATTCGCCGTCTTCAATCTATTCCATTGCAACTTCAGGGAGACAAAATCTAAAAT
* * * *
29054645 CTTCAGCCTACTCCACTACTGCTTAGGGGGATAGGATGGTGGCTTAAATCCGCTCCACTACTGCT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
29054710 TAAGGAGACAAGATTCGTCGTCTTCGATCTATTTCACTGCAACTTC
131 TAAGGAGACAAGATTCGTCGTCTTCGATCTATTTCACTGCAACTTC
* *
29054756 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCATTGCAACTTCAGTGAGACAAAATCTAAAAT
1 AGGGAGACAAGATTCGCCGTCTTCAATCTATTCCATTGCAACTTCAGGGAGACAAAATCTAAAAT
* * *
29054821 CTTTAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATATGCTCCACTACTGGT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
*
29054886 TAGGGAGACAAGATT
131 TAAGGAGACAAGATT
29054901 TTCCATCTTC
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
176 129 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (176 bp):
AGGGAGACAAGATTCGCCGTCTTCAATCTATTCCATTGCAACTTCAGGGAGACAAAATCTAAAAT
CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
TAAGGAGACAAGATTCGTCGTCTTCGATCTATTTCACTGCAACTTC
Found at i:29054893 original size:131 final size:131
Alignment explanation
Indices: 29054756--29055072 Score: 436
Period size: 131 Copynumber: 2.4 Consensus size: 131
29054746 CTGCAACTTC
* *
29054756 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCATTGCAACTTCAGTGAGACAAAATCTAAAAT
1 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGGGAGACAAAATCTAAAAT
* * *
29054821 CTTTAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATATGCTCCACTACTGGT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
29054886 T
131 T
** * * ** * * ** **
29054887 AGGGAGACAAGATTTTCCATCTTCGATCTGTTCTGCTGTAATTTCAGGGAGACAAGCTCTGCAAT
1 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGGGAGACAAAATCTAAAAT
* * *
29054952 CTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGCT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
29055017 T
131 T
* *
29055018 AAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTCAGGGAGACAA
1 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGGGAGACAA
29055073 GATTTGCTGT
Statistics
Matches: 156, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
131 156 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (131 bp):
AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGGGAGACAAAATCTAAAAT
CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
T
Found at i:29054912 original size:176 final size:176
Alignment explanation
Indices: 29054580--29054942 Score: 496
Period size: 176 Copynumber: 2.1 Consensus size: 176
29054570 ACTAGTGGTT
* * ** **
29054580 AGGGAGACAAGATTCGCCGTCTTCAATCTGTTCCATTGTAACTTCAGGGAGACAAGCTCTGCAAT
1 AGGGAGACAAGATTCGCCGTCTTCAATCTATTCCATTGCAACTTCAGGGAGACAAAATCTAAAAT
* * * *
29054645 CTTCAGCCTACTCCACTACTGCTTAGGGGGATAGGATGGTGGCTTAAATCCGCTCCACTACTGCT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
* *
29054710 TAAGGAGACAAGATTCGTCGTCTTCGATCTATT-TCACTGCAACTTC
131 TAAGGAGACAAGATTCGTCATCTTCGATCTGTTCT-ACTGCAACTTC
* *
29054756 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCATTGCAACTTCAGTGAGACAAAATCTAAAAT
1 AGGGAGACAAGATTCGCCGTCTTCAATCTATTCCATTGCAACTTCAGGGAGACAAAATCTAAAAT
* * *
29054821 CTTTAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATATGCTCCACTACTGGT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
* * * * *
29054886 TAGGGAGACAAGATT-TTCCATCTTCGATCTGTTCTGCTGTAATTTC
131 TAAGGAGACAAGATTCGT-CATCTTCGATCTGTTCTACTGCAACTTC
29054932 AGGGAGACAAG
1 AGGGAGACAAG
29054943 CTCTGCAATC
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
175 1 0.01
176 161 0.99
177 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (176 bp):
AGGGAGACAAGATTCGCCGTCTTCAATCTATTCCATTGCAACTTCAGGGAGACAAAATCTAAAAT
CTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATACGCTCCACTACTGCT
TAAGGAGACAAGATTCGTCATCTTCGATCTGTTCTACTGCAACTTC
Found at i:29055003 original size:307 final size:307
Alignment explanation
Indices: 29054449--29055381 Score: 1463
Period size: 307 Copynumber: 3.0 Consensus size: 307
29054439 ACTACTGGTT
* * *
29054449 AGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAAATCTAAAAT
1 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGTGAGACAAAATCTAAAAT
* * * *
29054514 CTTCAGCCTACTCCACTACTTCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTAGTGGT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATATGCTCCACTACTGGT
* * * *
29054579 TAGGGAGACAAGATTCGCCGTCTTCAATCTGTTCCATTGTAACTTCAGGGAGACAAGCTCTGCAA
131 TAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAATTTCAGGGAGACAAGCTCTGCAA
*
29054644 TCTTCAGCCTACTCCACTACTGCTTAGGGGGATAGGATGGTGGCTTAAATCCGCTCCACTACTGC
196 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGC
*
29054709 TTAAGGAGACAAGATTCGTCGTCTTCGATCTATTTCACTGCAACTTC
261 TTAAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTC
*
29054756 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCATTGCAACTTCAGTGAGACAAAATCTAAAAT
1 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGTGAGACAAAATCTAAAAT
* *
29054821 CTTTAGCCTACTCCACTACTACTTAGGGAGATAGAATGGTGGCTTAAATATGCTCCACTACTGGT
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATATGCTCCACTACTGGT
** * **
29054886 TAGGGAGACAAGATTTTCCATCTTCGATCTGTTCTGCTGTAATTTCAGGGAGACAAGCTCTGCAA
131 TAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAATTTCAGGGAGACAAGCTCTGCAA
29054951 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGC
196 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGC
29055016 TTAAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTC
261 TTAAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTC
* * *
29055063 AGGGAGACAAGATTTGCTGTCTTCGATCTATTCCACTGCAACTTCAGTCAGACAAAATCTAAAAT
1 AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGTGAGACAAAATCTAAAAT
* * * * * *
29055128 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCAT-AATACGCTTCACTACTGGA
66 CTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATATGCTCCACTACTGGT
* * * *
29055192 TAGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAATTTCAGGGAGACAAGATCTACAA
131 TAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAATTTCAGGGAGACAAGCTCTGCAA
* * ** *
29055257 TCTTTAGTCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTATTGC
196 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGC
* * * * *
29055322 TTAGGGAGACAAGATTTGCCGTCTTTGATCTGTTCCACTGCAACTTC
261 TTAAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTC
29055369 AGGGAGACAAGAT
1 AGGGAGACAAGAT
29055382 CTACAATCTT
Statistics
Matches: 575, Mismatches: 51, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
306 187 0.33
307 388 0.67
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (307 bp):
AGGGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAGTGAGACAAAATCTAAAAT
CTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATATGCTCCACTACTGGT
TAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAATTTCAGGGAGACAAGCTCTGCAA
TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGC
TTAAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTC
Found at i:29055069 original size:176 final size:175
Alignment explanation
Indices: 29054887--29055250 Score: 485
Period size: 176 Copynumber: 2.1 Consensus size: 175
29054877 ACTACTGGTT
* * ** * * * ** **
29054887 AGGGAGACAAGATTTTCCATCTTCGATCTGTTCTGCTGTAATTTCAGGGAGACAAGCTCTGCAAT
1 AGGGAGACAAGATTTGCCATCTTCGATCTATTCCACTGCAACTTCAGGCAGACAAAATCTAAAAT
* * * *
29054952 CTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCCGCTCCACTACTGCT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCAT-AATACGCTCCACTACTGCA
* * *
29055017 TAAGGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTC
130 TAAGGAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTC
** *
29055063 AGGGAGACAAGATTTGCTGTCTTCGATCTATTCCACTGCAACTTCAGTCAGACAAAATCTAAAAT
1 AGGGAGACAAGATTTGCCATCTTCGATCTATTCCACTGCAACTTCAGGCAGACAAAATCTAAAAT
* *
29055128 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCATAATACGCTTCACTACTGGAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCATAATACGCTCCACTACTGCAT
* * *
29055193 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAATTTC
131 AAGGAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTC
29055238 AGGGAGACAAGAT
1 AGGGAGACAAGAT
29055251 CTACAATCTT
Statistics
Matches: 162, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
175 68 0.42
176 94 0.58
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (175 bp):
AGGGAGACAAGATTTGCCATCTTCGATCTATTCCACTGCAACTTCAGGCAGACAAAATCTAAAAT
CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCATAATACGCTCCACTACTGCAT
AAGGAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTC
Found at i:29055071 original size:45 final size:45
Alignment explanation
Indices: 29055020--29055109 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
29055010 TACTGCTTAA
*
29055020 GGAGACAAGATTCGCCGTCTTCGATCTATTTCACTGCAACTTCAG
1 GGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAG
* *
29055065 GGAGACAAGATTTGCTGTCTTCGATCTATTCCACTGCAACTTCAG
1 GGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAG
29055110 TCAGACAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (45 bp):
GGAGACAAGATTCGCCGTCTTCGATCTATTCCACTGCAACTTCAG
Found at i:29055131 original size:45 final size:45
Alignment explanation
Indices: 29055037--29055131 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
29055027 AGATTCGCCG
* * * * ****
29055037 TCTTCGATCTATTTCACTGCAACTTCAGGGAGACAAGATTTGCTG
1 TCTTCGATCTATTCCACTGCAACTTCAGGCAGACAAAATCTAAAA
*
29055082 TCTTCGATCTATTCCACTGCAACTTCAGTCAGACAAAATCTAAAA
1 TCTTCGATCTATTCCACTGCAACTTCAGGCAGACAAAATCTAAAA
29055127 TCTTC
1 TCTTC
29055132 AACCTACTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (45 bp):
TCTTCGATCTATTCCACTGCAACTTCAGGCAGACAAAATCTAAAA
Found at i:29055347 original size:86 final size:86
Alignment explanation
Indices: 29055238--29055642 Score: 223
Period size: 86 Copynumber: 4.7 Consensus size: 86
29055228 CTGCAATTTC
* *
29055238 AGGGAGACAAGATCTACAATCTTTAGTCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
1 AGGGAGACAAGATCTACAGTCTTTAGTCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCTT
*
29055303 AAATCTACTCCACTATTGCTT
66 AAATCTACTCCACTACTGCTT
* * * ** * ** * * *
29055324 AGGGAGACAAGATTTGCCGTCTTT-GATCTGTTCCACTGCAACTTCAGGGAGACAAGAT-CT-AC
1 AGGGAGACAAGATCTACAGTCTTTAG-TCTACTCCACTACTGCTT-AGGGAGATAAGATGGTGGC
** *
29055386 AATCTTCAGCATACTCCACTACTGCTT
64 --T-TAAATC-TACTCCACTACTGCTT
* * * * * * * * * * * * * * *
29055413 AAGAAGATAGGATGGT---GGCTTAAATTTGCTCCACTTCTGGTTAGGGAGACAAGATTCGTCGT
1 AGGGAGACAAGAT-CTACAGTCTTTAGTCTACTCCACTACTGCTTAGGGAGATAAGA-TGGT-GG
** ** * **
29055475 CTTCGATCTGTTCCACTGCAACTTT
63 CTTAAATCTACTCCACTACTGC-TT
* ** *
29055500 AGGGAGACAAGATCTACAATCTTTAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
1 AGGGAGACAAGATCTACAGTCTTTAGTCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCTT
* *
29055565 AAATCTGCTCCACTACTGGTT
66 AAATCTACTCCACTACTGCTT
* *
29055586 AGGGAGACAAGATTTTTC-GTCTTT-GATCTACTCCACTACTGCTTAGGGAGATAAGAT
1 AGGGAGACAAGA-TCTACAGTCTTTAG-TCTACTCCACTACTGCTTAGGGAGATAAGAT
29055643 CTGTGAATTC
Statistics
Matches: 230, Mismatches: 71, Indels: 36
0.68 0.21 0.11
Matches are distributed among these distances:
85 2 0.01
86 104 0.45
87 62 0.27
88 8 0.03
89 52 0.23
90 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (86 bp):
AGGGAGACAAGATCTACAGTCTTTAGTCTACTCCACTACTGCTTAGGGAGATAAGATGGTGGCTT
AAATCTACTCCACTACTGCTT
Found at i:29055606 original size:131 final size:131
Alignment explanation
Indices: 29055063--29055614 Score: 784
Period size: 131 Copynumber: 4.2 Consensus size: 131
29055053 CTGCAACTTC
* * ** * *
29055063 AGGGAGACAAGATTTGCTGTCTTCGATCTATTCCACTGCAACTTCAGTCAGACAAAATCTAAAAT
1 AGGGAGACAAGATTTGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT
* *
29055128 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCAT-AATAC-GCTTCACTACTGG
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAAT-CTGCTCCACTACTGG
*
29055191 AT
130 TT
** * *
29055193 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAATTTCAGGGAGACAAGATCTACAAT
1 AGGGAGACAAGATTTGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT
* ** * * *
29055258 CTTTAGTCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTATTGCT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGT
29055323 T
131 T
*
29055324 AGGGAGACAAGATTTGCCGTCTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT
1 AGGGAGACAAGATTTGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT
* * * * * *
29055389 CTTCAGCATACTCCACTACTGCTTAAGAAGATAGGATGGTGGCTTAAATTTGCTCCACTTCTGGT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGT
29055454 T
131 T
* * *
29055455 AGGGAGACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACTTTAGGGAGACAAGATCTACAAT
1 AGGGAGACAAGATTTGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT
*
29055520 CTTTAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGT
29055585 T
131 T
** *
29055586 AGGGAGACAAGATTTTTCGTCTTTGATCT
1 AGGGAGACAAGATTTGCCGTCTTCGATCT
29055615 ACTCCACTAC
Statistics
Matches: 372, Mismatches: 48, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
130 97 0.26
131 275 0.74
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (131 bp):
AGGGAGACAAGATTTGCCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT
CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGT
T
Found at i:29055624 original size:44 final size:44
Alignment explanation
Indices: 29055182--29055642 Score: 192
Period size: 44 Copynumber: 10.5 Consensus size: 44
29055172 TAATACGCTT
** ** ** *
29055182 CACTACTGGATAGGGAGACAAGATTCACCGTCTTCGATCTGCTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
* *** * *
29055226 CACTGCAATTTCAGGGAGACAAGA-TC-TACAATCTTTAGTCTACTC
1 CACTACTGCTT-AGGGAGACAAGATTCGT-C-GTCTTTAATCTACTC
* * * * *
29055271 CACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAAATCTACTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
* * * * **
29055313 CACTATTGCTTAGGGAGACAAGATTTGCCGTCTTTGATCTGTTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
* ** * * *
29055357 CACTGCAACTTCAGGGAGACAAGA-TC-TACAATC-TTCAGCATACTC
1 CACTACTGCTT-AGGGAGACAAGATTCGT-C-GTCTTTAATC-TACTC
* * * * * * * * *
29055402 CACTACTGCTTAAGAAGATAGGA-TGGT-GGCTTAAATTTGCTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
* * ** **
29055444 CACTTCTGGTTAGGGAGACAAGATTCGTCGTCTTCGATCTGTTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
* ** * *
29055488 CACTGCAACTTTAGGGAGACAAGA-TC-TACAATCTTTAACCTACTC
1 CACTACTGC-TTAGGGAGACAAGATTCGT-C-GTCTTTAATCTACTC
* * * * * *
29055533 CACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAAATCTGCTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
* ** *
29055575 CACTACTGGTTAGGGAGACAAGATTTTTCGTCTTTGATCTACTC
1 CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
*
29055619 CACTACTGCTTAGGGAGATAAGAT
1 CACTACTGCTTAGGGAGACAAGAT
29055643 CTGTGAATTC
Statistics
Matches: 295, Mismatches: 102, Indels: 40
0.68 0.23 0.09
Matches are distributed among these distances:
42 83 0.28
43 10 0.03
44 116 0.39
45 86 0.29
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CACTACTGCTTAGGGAGACAAGATTCGTCGTCTTTAATCTACTC
Found at i:29058643 original size:45 final size:45
Alignment explanation
Indices: 29058509--29058685 Score: 211
Period size: 45 Copynumber: 4.0 Consensus size: 45
29058499 ATTATCGTAC
*
29058509 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
29058554 GACACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * *
29058599 GATATTATTCAGG-CTTTCGAGCCTAGCAGGCTATAATGCTGGTGA
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
** * *
29058644 -A-AGGATATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 GACACTAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
29058686 ATGAATTTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
42 10 0.09
43 17 0.15
44 10 0.09
45 79 0.68
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:29065228 original size:24 final size:25
Alignment explanation
Indices: 29065201--29065247 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29065191 TTCACGATGC
*
29065201 AATGA-CATGAAATAAAAGTATAAT
1 AATGAGCATGAAACAAAAGTATAAT
*
29065225 AATGAGCATGGAACAAAAGTATA
1 AATGAGCATGAAACAAAAGTATA
29065248 TGAATACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.21
Consensus pattern (25 bp):
AATGAGCATGAAACAAAAGTATAAT
Found at i:29065554 original size:26 final size:26
Alignment explanation
Indices: 29065481--29065568 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 26
29065471 ATAATAACTT
* *
29065481 TTTAAAA-AATTAATATACAAAACAA
1 TTTAAAATGATTAATATATAAAACAA
* *
29065506 TTTAAAATAAAATAATATATAAAACAA
1 TTTAAAAT-GATTAATATATAAAACAA
* *
29065533 TCTAAAATGATTAATTTATAAAACAA
1 TTTAAAATGATTAATATATAAAACAA
29065559 TTTAAAATGA
1 TTTAAAATGA
29065569 CGTATAAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 7 0.13
26 24 0.44
27 23 0.43
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (26 bp):
TTTAAAATGATTAATATATAAAACAA
Found at i:29065608 original size:25 final size:25
Alignment explanation
Indices: 29065580--29065628 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
29065570 GTATAAAAGT
* * *
29065580 TTAAACTAAATACTATGTAAAAAAA
1 TTAAAATAAATAATATATAAAAAAA
*
29065605 TTAAAATACATAATATATAAAAAA
1 TTAAAATAAATAATATATAAAAAA
29065629 TGTAAAACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (25 bp):
TTAAAATAAATAATATATAAAAAAA
Found at i:29065797 original size:27 final size:27
Alignment explanation
Indices: 29065763--29065854 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 27
29065753 TCACATATGG
29065763 AAAA-AATTTAAAATAAATGATATCTA
1 AAAATAATTTAAAATAAATGATATCTA
* *
29065789 AAAATAATTTAAAATGAATAATA-C-A
1 AAAATAATTTAAAATAAATGATATCTA
* * *
29065814 TAAAAT--TTTAAAGTAAATGATGTATA
1 -AAAATAATTTAAAATAAATGATATCTA
* *
29065840 AAAAGAGTTTAAAAT
1 AAAATAATTTAAAAT
29065855 GGTCATTATA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
24 12 0.24
25 5 0.10
26 11 0.22
27 23 0.45
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATAATTTAAAATAAATGATATCTA
Found at i:29074659 original size:45 final size:45
Alignment explanation
Indices: 29074554--29074773 Score: 322
Period size: 45 Copynumber: 5.0 Consensus size: 45
29074544 CCGAATTCAT
* * * * *
29074554 TCACCAGCATT-TCGCCTGCTAGGCTCGAA-GCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATA
*
29074596 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* *
29074641 TCACCGGTATTATCGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
*
29074686 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGTCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
29074731 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
29074774 CTGTACGATA
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 11 0.07
43 16 0.10
44 4 0.02
45 131 0.80
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
Found at i:29075340 original size:47 final size:47
Alignment explanation
Indices: 29075287--29075612 Score: 498
Period size: 47 Copynumber: 6.9 Consensus size: 47
29075277 ATTATTTTCT
* *
29075287 TTAACTAAGTAACTTATCAGGATATATTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTATCAGGAAATAGTAAGAACAAATTTAACAAGC
*
29075334 TTAACTAAGTAACTTATCCA-GAAATAGTAATAACAAATTTAACAAGC
1 TTAACTAAGTAACTTAT-CAGGAAATAGTAAGAACAAATTTAACAAGC
* *
29075381 TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTATCAGGAAATAGTAAGAACAAATTTAACAAGC
*
29075428 TTAACTAAGTAACTTATCCA-GAAATAGTAAGAACAAATTTAACACGC
1 TTAACTAAGTAACTTAT-CAGGAAATAGTAAGAACAAATTTAACAAGC
29075475 TTAACTAAGTAACTTATCCA-GAAATAGTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTAT-CAGGAAATAGTAAGAACAAATTTAACAAGC
* * * *
29075522 TTAACTTAGTAACTTATCCGGAAATATTAAGAATAAATTTAACAAGC
1 TTAACTAAGTAACTTATCAGGAAATAGTAAGAACAAATTTAACAAGC
29075569 TTAACTAAGTAACTTATTC-GGAAATAGTAAGAACAAATTTAACA
1 TTAACTAAGTAACTTA-TCAGGAAATAGTAAGAACAAATTTAACA
29075613 TCACTTCATC
Statistics
Matches: 257, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.01
47 250 0.97
48 5 0.02
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCAGGAAATAGTAAGAACAAATTTAACAAGC
Found at i:29075541 original size:141 final size:140
Alignment explanation
Indices: 29075287--29075612 Score: 562
Period size: 141 Copynumber: 2.3 Consensus size: 140
29075277 ATTATTTTCT
* *
29075287 TTAACTAAGTAACTTATCAGGATATATTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATC
1 TTAACTAAGTAACTTATCA-GAAATAGTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATC
*
29075352 CAGAAATAGTAATAACAAATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATATTAAGAACAA
65 CAGAAATAGTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATATTAAGAACAA
29075417 ATTTAACAAGC
130 ATTTAACAAGC
*
29075428 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACACGCTTAACTAAGTAACTTATC
1 TTAACTAAGTAACTTAT-CAGAAATAGTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATC
* *
29075493 CAGAAATAGTAAGAACAAATTTAACAAGCTTAACTTAGTAACTTATCCGGAAATATTAAGAATAA
65 CAGAAATAGTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATATTAAGAACAA
29075558 ATTTAACAAGC
130 ATTTAACAAGC
*
29075569 TTAACTAAGTAACTTATTCGGAAATAGTAAGAACAAATTTAACA
1 TTAACTAAGTAACTTA-TCAGAAATAGTAAGAACAAATTTAACA
29075613 TCACTTCATC
Statistics
Matches: 176, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
141 173 0.98
142 3 0.02
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.28
Consensus pattern (140 bp):
TTAACTAAGTAACTTATCAGAAATAGTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATCC
AGAAATAGTAAGAACAAATTTAACAAGCTTAACTAAGTAACTTATCCGGAAATATTAAGAACAAA
TTTAACAAGC
Found at i:29079882 original size:44 final size:46
Alignment explanation
Indices: 29079808--29079926 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
29079798 ATGTTGATGC
*
29079808 CATGTCCC-GAACATGGTCTTACACTAGCTTA-A-CTCGTA-GCTGATG
1 CATGTCCCAG-ACAT-GTCTTACACTAGCTTACATCTCG-AGGCTGAAG
* * *
29079853 CATGTCCTAGACATGTCTTACTCTGGCTTACATCTCGAGGCTGAAG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCTGAAG
29079899 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
29079927 CTCGTCTCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.22
45 13 0.21
46 36 0.57
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCTGAAG
Found at i:29082764 original size:46 final size:46
Alignment explanation
Indices: 29082697--29082833 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
29082687 TATATATACA
* ** *
29082697 CATCTCATACATACCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* *
29082743 CATCTCATACACGTTTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
29082789 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
29082834 ATACGTGTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:29082868 original size:47 final size:47
Alignment explanation
Indices: 29082807--29083095 Score: 398
Period size: 47 Copynumber: 6.1 Consensus size: 47
29082797 ACACATTTCG
* * *
29082807 CATTAGCCATTCGGCCTTACCACATATATACGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
29082854 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
29082901 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
29082948 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
29082995 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* * *
29083046 CATTTGCCATTCGGCCTTATCTCATATATACATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
29083093 CAT
1 CAT
29083096 AAAACCCTAA
Statistics
Matches: 220, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
47 178 0.81
49 2 0.01
51 40 0.18
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:29084849 original size:79 final size:82
Alignment explanation
Indices: 29084738--29084921 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
29084728 GCTCCTCGTT
* * *
29084738 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
29084800 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
**
29084818 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
29084881 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
29084898 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29084922 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:29084855 original size:39 final size:41
Alignment explanation
Indices: 29084738--29084921 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
29084728 GCTCCTCGTT
* * *
29084738 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
29084778 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
29084818 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
29084857 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
29084898 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29084922 CATCATTCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 65 0.51
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:29089971 original size:40 final size:40
Alignment explanation
Indices: 29089927--29090257 Score: 511
Period size: 40 Copynumber: 8.3 Consensus size: 40
29089917 CGAGGTTTAA
* *
29089927 CCCGGATATATCACTAGCACGATTGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
29089967 CCCGGTTATATCACTAGCACGAATGCTCTTCGGCACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
29090007 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
*
29090047 CCCGGATATATCACTAGCACGAATGCTCTTCGAAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
*
29090087 CCCGGATATATCACTAGCACGAATGCTCTTCAGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
29090127 CCCGGATATATCACTAGAACGAATGCTCTCCGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* * * * *
29090167 CCCGGACATATTACCAGCACGAATGCTCTTTGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
29090207 CCCGGATATAACACCAGCACGAATGCTCTTC-GAGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGA-ACTTAG
29090247 CCCGGATATAT
1 CCCGGATATAT
29090258 AACTCTCAAT
Statistics
Matches: 266, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 265 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
Found at i:29090821 original size:14 final size:14
Alignment explanation
Indices: 29090802--29090828 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29090792 CAGTAAATTT
29090802 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
29090816 TTTTTATTTTTTT
1 TTTTTATTTTTTT
29090829 GAAATAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:29091817 original size:46 final size:45
Alignment explanation
Indices: 29091764--29091900 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 45
29091754 TATATATACA
* * * *
29091764 CATCTCATACATATCTCACATTAGCCATTTGGCTATACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCT-TACCACATATC
* *
29091810 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGC-TTACCACATATC
*
29091856 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGG-CTTACCACATAT
29091901 ATACATGTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 78 0.98
47 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (45 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTACCACATATC
Found at i:29091935 original size:47 final size:47
Alignment explanation
Indices: 29091874--29092209 Score: 467
Period size: 47 Copynumber: 7.1 Consensus size: 47
29091864 ACACATTTCG
* *
29091874 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
29091921 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
29091968 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
29092015 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
29092062 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
29092109 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* **
29092160 CAATT-GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 C-ATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
29092207 CAT
1 CAT
29092210 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.01
47 221 0.83
49 5 0.02
51 35 0.13
52 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:29103827 original size:17 final size:18
Alignment explanation
Indices: 29103785--29103827 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
29103775 ACCAAACATA
29103785 TACAAAATTTTTTGAAACT
1 TACAAAATTTTTT-AAACT
* *
29103804 TAAAAAATTTTTT-AAGT
1 TACAAAATTTTTTAAACT
29103821 TACAAAA
1 TACAAAA
29103828 GTCACACGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.43
19 12 0.57
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (18 bp):
TACAAAATTTTTTAAACT
Found at i:29107369 original size:11 final size:10
Alignment explanation
Indices: 29107337--29107392 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
29107327 CATGAGATTT
29107337 TGATAT-ACA
1 TGATATGACA
*
29107346 TGATTTGACA
1 TGATATGACA
29107356 TGATATGCACA
1 TGATATG-ACA
*
29107367 TGATATG-TA
1 TGATATGACA
*
29107376 TGAAATGCACA
1 TGATATG-ACA
29107387 TGATAT
1 TGATAT
29107393 ATTCATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 12 0.32
10 9 0.24
11 16 0.43
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:29107383 original size:20 final size:20
Alignment explanation
Indices: 29107355--29107392 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29107345 ATGATTTGAC
*
29107355 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
29107375 ATGAAATGCACATGATAT
1 ATGAAATGCACATGATAT
29107393 ATTCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:29114443 original size:11 final size:10
Alignment explanation
Indices: 29114411--29114466 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
29114401 CATGAGATTT
29114411 TGATAT-ACA
1 TGATATGACA
*
29114420 TGATTTGACA
1 TGATATGACA
29114430 TGATATGCACA
1 TGATATG-ACA
*
29114441 TGATATG-TA
1 TGATATGACA
*
29114450 TGAAATGCACA
1 TGATATG-ACA
29114461 TGATAT
1 TGATAT
29114467 ATTCATTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 12 0.32
10 9 0.24
11 16 0.43
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:29114457 original size:20 final size:20
Alignment explanation
Indices: 29114429--29114466 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29114419 ATGATTTGAC
*
29114429 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
29114449 ATGAAATGCACATGATAT
1 ATGAAATGCACATGATAT
29114467 ATTCATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:29115672 original size:43 final size:43
Alignment explanation
Indices: 29115552--29115702 Score: 175
Period size: 43 Copynumber: 3.5 Consensus size: 43
29115542 TGTGTGATCG
* *
29115552 TGTAAGACCACGTCTGGGACGTTGCCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACG-TGACATCGA-TATTTGATTTACA
* * *
29115596 TGTAAGACCACGTCTGGGATGTCAGCATC-ATATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACGTGA-CATCGATATTTGATTTACA
*
29115638 TGTAAGACCATGTCTGGGACAGTGACATCGATATTT-ATTTACA
1 TGTAAGACCACGTCTGGGAC-GTGACATCGATATTTGATTTACA
*
29115681 TGTAAGACCACGTATGGGACGT
1 TGTAAGACCACGTCTGGGACGT
29115703 AGGCATTGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
42 30 0.33
43 37 0.41
44 24 0.26
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTGACATCGATATTTGATTTACA
Found at i:29120904 original size:10 final size:10
Alignment explanation
Indices: 29120889--29120947 Score: 82
Period size: 10 Copynumber: 5.9 Consensus size: 10
29120879 TATTTTAGCT
29120889 TTTATCTTTA
1 TTTATCTTTA
*
29120899 TTTATCCTTA
1 TTTATCTTTA
*
29120909 ATTATCTTTA
1 TTTATCTTTA
*
29120919 ATTATCTTTA
1 TTTATCTTTA
*
29120929 TTTATCTGTA
1 TTTATCTTTA
29120939 TTTATCTTT
1 TTTATCTTT
29120948 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:29120924 original size:30 final size:30
Alignment explanation
Indices: 29120890--29120947 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
29120880 ATTTTAGCTT
29120890 TTATCTTTATTTATCCT-TAATTATCTTTAA
1 TTATCTTTATTTAT-CTGTAATTATCTTTAA
*
29120920 TTATCTTTATTTATCTGTATTTATCTTT
1 TTATCTTTATTTATCTGTAATTATCTTT
29120948 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (30 bp):
TTATCTTTATTTATCTGTAATTATCTTTAA
Found at i:29123088 original size:39 final size:38
Alignment explanation
Indices: 29123040--29123147 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 38
29123030 GCTTAAAGAC
*
29123040 CCGCAGGCTATATGCTGGAATTATATCCAGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTAT-TCCAGACTTAAGGT
**
29123079 CCGCAGGCTATGTGCTGGAATTATTACTGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATT-CCAGACTTAAGGT
* *
29123118 CCGCAGGCTACGTGCTGGAAATATGTCCAG
1 CCGCAGGCTATGTGCTGGAATTAT-TCCAG
29123148 GCAAAAGTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 58 0.97
40 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGGAATTATTCCAGACTTAAGGT
Found at i:29124183 original size:278 final size:279
Alignment explanation
Indices: 29123686--29124241 Score: 1042
Period size: 278 Copynumber: 2.0 Consensus size: 279
29123676 GAGAATCTAT
29123686 GTTTATGTTTATGTGTATTCGGCCATGAAGCAATTTGAATTGAGAATAAGTCTATTTAAATGAAT
1 GTTTATGTTTATGTGTATTCGGCCATGAAGCAATTTGAATTGAGAATAAGTCTATTTAAATGAAT
*
29123751 GTTTTGATTTTCGATAAGTTTTAATTATTTGTGATGCTTAAACCTTACTAAGCTTTGAAAGCTTA
66 GTTTTGATTTTCGATAAGTTTTAATTATTTGTGATGCTTAAAACTTACTAAGCTTTGAAAGCTTA
*
29123816 CTTCGTTTGTTACATTCTCTGTTTTATAGATTATTGATTCCAGTTACCTGCTTGGAAAGGGAATC
131 CTTCGTTTGTTACATTCTCTGTTTTATAGATTATTGATTCCAGTTACCTGCTGGGAAAGGGAATC
29123881 GTCAGCTACTCGTCACACTATCTGTCATTTTGGGGTACTACTATATTTTGAAGCTAGTATGGCAT
196 GTCAGCTACTCGTCACACTATCTGTCATTTTGGGGTACTACTATATTTTGAAGCTAGTATGGCAT
29123946 GT-TGGAATAGACTTAAGA
261 GTATGGAATAGACTTAAGA
* *
29123964 GTTTATGTTTATGTGTATTCGGCCATGAAGCAATTTGAATTGGGAATAAGTCTGTTTAAATGAAT
1 GTTTATGTTTATGTGTATTCGGCCATGAAGCAATTTGAATTGAGAATAAGTCTATTTAAATGAAT
29124029 GTTTTGATTTTCGATAAGTTTTAATTATTTGTGATGCTTAAAACTTACTAAGCTTTGAAAGCTTA
66 GTTTTGATTTTCGATAAGTTTTAATTATTTGTGATGCTTAAAACTTACTAAGCTTTGAAAGCTTA
* * *
29124094 CTTTGTTTGTTACGTTCTCTGTTTTATAGATTGTTGATTCCAGTTACCTGCTGGGAAAGGGAATC
131 CTTCGTTTGTTACATTCTCTGTTTTATAGATTATTGATTCCAGTTACCTGCTGGGAAAGGGAATC
29124159 GTCAGCTACTCGTCACACTATCTGTCATTTTGGGGTACTACTATATTTTGAAGCTAGTATGGCAT
196 GTCAGCTACTCGTCACACTATCTGTCATTTTGGGGTACTACTATATTTTGAAGCTAGTATGGCAT
29124224 GTATGGAATAGACTTAAG
261 GTATGGAATAGACTTAAG
29124242 CGAATGATAT
Statistics
Matches: 270, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
278 255 0.94
279 15 0.06
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (279 bp):
GTTTATGTTTATGTGTATTCGGCCATGAAGCAATTTGAATTGAGAATAAGTCTATTTAAATGAAT
GTTTTGATTTTCGATAAGTTTTAATTATTTGTGATGCTTAAAACTTACTAAGCTTTGAAAGCTTA
CTTCGTTTGTTACATTCTCTGTTTTATAGATTATTGATTCCAGTTACCTGCTGGGAAAGGGAATC
GTCAGCTACTCGTCACACTATCTGTCATTTTGGGGTACTACTATATTTTGAAGCTAGTATGGCAT
GTATGGAATAGACTTAAGA
Found at i:29127204 original size:68 final size:68
Alignment explanation
Indices: 29127085--29127216 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 68
29127075 ATTCAGTTGG
* * * * *
29127085 CAGACAGGTCTATTGTGCATCCCGAAGGAGTCCTCGAGGGCGTATTAGTAAAAGTTAACAAACTA
1 CAGACAGGTCCATTATGCATCCCGAAAGAGTCCTCGAGGACATATTAGTAAAAGTTAACAAACTA
29127150 ATT
66 ATT
* * * *
29127153 CAGACAGGTCCATTATGCATCCTGAAAGAGTCCTTGAGGACAT-TCTGGTAAAAGTTAACGAACT
1 CAGACAGGTCCATTATGCATCCCGAAAGAGTCCTCGAGGACATAT-TAGTAAAAGTTAACAAACT
29127217 TATTTTCCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
67 1 0.02
68 53 0.98
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (68 bp):
CAGACAGGTCCATTATGCATCCCGAAAGAGTCCTCGAGGACATATTAGTAAAAGTTAACAAACTA
ATT
Found at i:29130510 original size:10 final size:10
Alignment explanation
Indices: 29130483--29130538 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
29130473 CAACCCAATA
29130483 TTTATTT-AT
1 TTTATTTAAT
29130492 TTT-TCTTAAT
1 TTTAT-TTAAT
29130502 TTTATTTAAT
1 TTTATTTAAT
*
29130512 TTAATTTAAT
1 TTTATTTAAT
* * *
29130522 TTAATTTTAC
1 TTTATTTAAT
29130532 TTTATTT
1 TTTATTT
29130539 TATTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 1 0.03
9 5 0.12
10 33 0.82
11 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTTAAT
Found at i:29130513 original size:5 final size:5
Alignment explanation
Indices: 29130497--29130528 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
29130487 TTTATTTTTC
*
29130497 TTAAT TTTAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
29130529 TACTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TTAAT
Found at i:29130515 original size:15 final size:15
Alignment explanation
Indices: 29130497--29130538 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
29130487 TTTATTTTTC
29130497 TTAATTTTATTTAAT
1 TTAATTTTATTTAAT
*
29130512 TTAATTTAATTTAAT
1 TTAATTTTATTTAAT
* *
29130527 TTTACTTTATTT
1 TTAATTTTATTT
29130539 TATTATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTATTTAAT
Found at i:29135353 original size:40 final size:40
Alignment explanation
Indices: 29135294--29135614 Score: 421
Period size: 40 Copynumber: 8.1 Consensus size: 40
29135284 AGGTCTCGAC
29135294 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
29135333 AATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
29135373 GATGTACCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
29135413 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
29135453 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTACTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
29135493 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * * * *
29135533 AATATATCTGTGCTAA-ACCTCGAAGAGCATCCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
29135573 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
29135613 GA
1 GA
29135615 CGTGTATTCG
Statistics
Matches: 245, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
39 4 0.02
40 239 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:29138194 original size:66 final size:65
Alignment explanation
Indices: 29138081--29138211 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 65
29138071 AGTCTATATT
* *
29138081 CAGGGAAAATTAACGGCAAGTGTTTGGAGTTTTGTAGCTCTATTTATAAATAATTTAGTGACTAC
1 CAGGGAAAATTAACGGCAAGTGTTTGGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTAC
29138146 CAGGGAAAATTAACGGCAAGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTA
1 CAGGGAAAATTAACGGCAAGTG-TTTGGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTA
29138211 C
65 C
29138212 TGCTCAGGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 22 0.35
66 41 0.65
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (65 bp):
CAGGGAAAATTAACGGCAAGTGTTTGGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTAC
Found at i:29138581 original size:47 final size:47
Alignment explanation
Indices: 29138529--29138985 Score: 635
Period size: 47 Copynumber: 9.6 Consensus size: 47
29138519 GATAATTGTG
* * *
29138529 ATGTGAATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29138576 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138625 ATGTGCAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-AGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29138674 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138721 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138770 ATGTGAAAGTGTATATATATGTGATAAGGCGTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138819 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29138866 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
29138913 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29138960 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
29138986 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 197 0.52
48 2 0.01
49 179 0.47
50 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29138589 original size:49 final size:49
Alignment explanation
Indices: 29138529--29138985 Score: 686
Period size: 49 Copynumber: 9.6 Consensus size: 49
29138519 GATAATTGTG
* *
29138529 ATGTG-AA-TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29138576 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138625 ATGTGCAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138674 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138721 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138770 ATGTGAAAGTGTATATATATGTGATAAGGCGTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29138819 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29138866 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
29138913 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29138960 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
29138986 TCCCGAAGGG
Statistics
Matches: 385, Mismatches: 19, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
47 190 0.49
48 3 0.01
49 192 0.50
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29138680 original size:145 final size:145
Alignment explanation
Indices: 29138529--29138985 Score: 715
Period size: 145 Copynumber: 3.2 Consensus size: 145
29138519 GATAATTGTG
* * * *
29138529 ATGTGAATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
29138594 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGCAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
29138659 TGGCCGATGTGATGA
131 TGGCCGATGTGATGA
*
29138674 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
29138739 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCGTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
29138804 TGGCCGATGTGATGA
131 TGGCCGATGTGATGA
29138819 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
29138882 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
* * *
29138945 TGGCCAACGTGATGG
131 TGGCCGATGTGATGA
*
29138960 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
29138986 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 53 0.18
143 45 0.16
145 192 0.66
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (145 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGA
Found at i:29142719 original size:13 final size:13
Alignment explanation
Indices: 29142701--29142725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29142691 GTTTATTAAA
29142701 CTAATTAACTAAG
1 CTAATTAACTAAG
29142714 CTAATTAACTAA
1 CTAATTAACTAA
29142726 TTAAACTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
CTAATTAACTAAG
Found at i:29146117 original size:22 final size:22
Alignment explanation
Indices: 29146086--29146146 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
29146076 AATACGATTT
*
29146086 GCACAAAGCCATAATCAAAATA
1 GCACAGAGCCATAATCAAAATA
* *** *
29146108 GCACAGAGCCATAATTAGGTTG
1 GCACAGAGCCATAATCAAAATA
29146130 GCACAGAGCCATAATCA
1 GCACAGAGCCATAATCA
29146147 GATTAAGTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (22 bp):
GCACAGAGCCATAATCAAAATA
Found at i:29147933 original size:25 final size:24
Alignment explanation
Indices: 29147887--29147937 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
29147877 CAAACTCTAT
29147887 TCAAACTCTCATGACCAATTCAACC
1 TCAAACTCTCATGACCAATTC-ACC
* *
29147912 TCAAAGTCTCA-GTCCAACTTCACC
1 TCAAACTCTCATGACCAA-TTCACC
29147936 TC
1 TC
29147938 CTACATAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.31, C:0.37, G:0.06, T:0.25
Consensus pattern (24 bp):
TCAAACTCTCATGACCAATTCACC
Found at i:29153399 original size:28 final size:28
Alignment explanation
Indices: 29153367--29153481 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
29153357 TACCTGTATC
* *
29153367 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
29153395 TGGCCCATTAGGCCTAAATCACCTGT-ATA
1 TGGCCCATTAGGCC-CAATCACAT-TCATA
*
29153424 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
29153453 TAGCCCATTAGGCCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
29153481 T
1 T
29153482 TCATGCTCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:29153428 original size:57 final size:58
Alignment explanation
Indices: 29153358--29153468 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
29153348 AAATTCACAT
* * *
29153358 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCTAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCTAAATC
* *
29153415 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATAGCCCATTAGGCCTA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCTA
29153469 GTCACATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 22 0.46
58 26 0.54
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCTAAATC
Found at i:29153715 original size:16 final size:15
Alignment explanation
Indices: 29153691--29153740 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
29153681 GTTGCCAAAC
29153691 TTTCGGCTTTTGGGCA
1 TTTCGGCTTTT-GGCA
* *
29153707 TTTCAGCTTTTCGACA
1 TTTCGGCTTTT-GGCA
*
29153723 TTTCGGCATTTGGCA
1 TTTCGGCTTTTGGCA
29153738 TTT
1 TTT
29153741 GCTGATTCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (15 bp):
TTTCGGCTTTTGGCA
Found at i:29156366 original size:40 final size:40
Alignment explanation
Indices: 29155412--29156362 Score: 1814
Period size: 40 Copynumber: 23.8 Consensus size: 40
29155402 ATAACCACAA
** *
29155412 GCACAAATGCCCACGGGTCTTAGCCCGGATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155452 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155492 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155532 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155572 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155612 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155652 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155692 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155732 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155772 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155812 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155852 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155892 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155932 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29155972 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156012 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156052 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156092 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156132 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156172 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156212 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29156252 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29156292 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
29156332 GCACAATTGCCTTCGAGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
29156363 AAATTCAAAT
Statistics
Matches: 902, Mismatches: 8, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
39 1 0.00
40 897 0.99
41 4 0.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:29163797 original size:28 final size:29
Alignment explanation
Indices: 29163755--29163869 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
29163745 TACCTGTATC
* *
29163755 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
29163783 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
29163812 TGGCCCATTGGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
29163841 TGGCTCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
29163869 T
1 T
29163870 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:29163809 original size:57 final size:58
Alignment explanation
Indices: 29163746--29163856 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
29163736 AAATTCACAT
* *
29163746 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
** * * *
29163803 ACCTGTATATGGCCCATTGGGCCCAAATCACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
29163857 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:29164107 original size:24 final size:24
Alignment explanation
Indices: 29164080--29164139 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
29164070 GTAGCCATAC
*
29164080 TTTCGACTTTTCAGCTTTTCGGCA
1 TTTCGACTTTTCAGCATTTCGGCA
* *
29164104 TTTCGACTTTTCGGCATTTCGGTA
1 TTTCGACTTTTCAGCATTTCGGCA
29164128 TTTC-AGCTTTTC
1 TTTCGA-CTTTTC
29164140 TTGATTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (24 bp):
TTTCGACTTTTCAGCATTTCGGCA
Found at i:29164131 original size:16 final size:16
Alignment explanation
Indices: 29164094--29164124 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29164084 GACTTTTCAG
29164094 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
29164110 CTTTTCGGCATTTCG
1 CTTTTCGGCATTTCG
29164125 GTATTTCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:29170724 original size:27 final size:27
Alignment explanation
Indices: 29170694--29170791 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
29170684 TTAGTTTACC
*
29170694 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
** *
29170721 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
** * *
29170748 AAATTATTAAAATACCTTCGACTTCTA
1 AAATTACCAAAATACCCTCGACTTGTA
*
29170775 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
29170792 CTGATTTACA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:29170844 original size:27 final size:27
Alignment explanation
Indices: 29170688--29170846 Score: 83
Period size: 27 Copynumber: 5.9 Consensus size: 27
29170678 AATATTTTAG
* *
29170688 TTTACCAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTATCAAAATACCCTC-GA
** *
29170715 TTTGTAAAATTA-CTGAAATACCCTCGA
1 TTTACAAAATTATC-AAAATACCCTCGA
** ** * *
29170742 CCTGTAAAATTATTAAAATACCTTCGA
1 TTTACAAAATTATCAAAATACCCTCGA
* * *
29170769 CTT-CTAAAATTACCAAAGTACCC-CTGA
1 TTTAC-AAAATTATCAAAATACCCTC-GA
* ***
29170796 TTTACAGAATTATCATTTTACCCTCGA
1 TTTACAAAATTATCAAAATACCCTCGA
*
29170823 TTTACAAAATTATCGAAATACCCT
1 TTTACAAAATTATCAAAATACCCT
29170847 TGTAGGGAAG
Statistics
Matches: 99, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
26 2 0.02
27 94 0.95
28 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATCAAAATACCCTCGA
Found at i:29170860 original size:27 final size:27
Alignment explanation
Indices: 29170837--29171430 Score: 765
Period size: 27 Copynumber: 22.0 Consensus size: 27
29170827 CAAAATTATC
* *
29170837 GAAATACCCTTGTAGGGAAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
29170864 GAAATACCCATTGTAGGGTAGAAATACC
1 GAAATACCC-CTGTAGGGTAGAATTACT
*
29170892 GAAAAACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
29170919 AAAATACACATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
29170946 GAAATACCCTTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
29170973 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171000 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171027 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171054 GAAATACCCCTGTACGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171081 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171108 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171135 GAAATACCCCTGTACGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171162 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171189 GAAATACCCTTGTAGGGTAGAAGTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
29171216 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
29171243 GAGATACCCTTGTAGGGTAGAAGTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
29171270 GAAGTACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171297 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171324 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
29171351 GAAATACCCCTGTACGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
29171378 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
29171405 GAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
29171431 CATTTTACGT
Statistics
Matches: 485, Mismatches: 81, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
27 462 0.95
28 23 0.05
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:29171971 original size:19 final size:19
Alignment explanation
Indices: 29171965--29172024 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
29171955 TTACCTGATA
29171965 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
29171984 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
29172002 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
29172021 CTGA
1 CTGA
29172025 CACTGACACT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 3 0.08
18 13 0.36
19 17 0.47
20 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:29171972 original size:31 final size:30
Alignment explanation
Indices: 29171937--29172030 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 30
29171927 TTGCATGCAC
29171937 ATTCTGATTCTAATTCTGTTACCTGATACTG
1 ATTCTGATTCT-ATTCTGTTACCTGATACTG
* * *
29171968 ATTCTGATTCTGTTACCTAATT--CTGATTCTG
1 ATTCTGATTCTATT--CT-GTTACCTGATACTG
* *
29171999 GTTCTGATTCTGATTCTGTTACCTGACACTG
1 ATTCTGATTCT-ATTCTGTTACCTGATACTG
29172030 A
1 A
29172031 CACTAATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
29 2 0.04
30 4 0.08
31 36 0.75
32 4 0.08
33 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (30 bp):
ATTCTGATTCTATTCTGTTACCTGATACTG
Found at i:29171976 original size:6 final size:6
Alignment explanation
Indices: 29171937--29172016 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
29171927 TTGCATGCAC
* * *
29171937 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
29171987 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
29172017 TTACCTGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.07
6 48 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:29171998 original size:25 final size:25
Alignment explanation
Indices: 29171937--29172004 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
29171927 TTGCATGCAC
* *
29171937 ATTCTGATTCTAATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
29171962 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
*
29171987 ATTCTGATTCTGGTTCTG
1 ATTCTGATTCTGATTCTG
29172005 ATTCTGATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:29172041 original size:37 final size:37
Alignment explanation
Indices: 29171965--29172041 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
29171955 TTACCTGATA
** ** **
29171965 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTGTTACCTAACACTGACACTAATT
*
29172002 CTGATTCTGATTCTGTTACCTGACACTGACACTAATT
1 CTGATTCTGATTCTGTTACCTAACACTGACACTAATT
29172039 CTG
1 CTG
29172042 TTACCTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (37 bp):
CTGATTCTGATTCTGTTACCTAACACTGACACTAATT
Found at i:29172100 original size:12 final size:12
Alignment explanation
Indices: 29172055--29172120 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
29172045 CCTAATTCTA
29172055 ATTCTGATTTTG
1 ATTCTGATTTTG
*
29172067 ATTTTGATTTTG
1 ATTCTGATTTTG
*
29172079 -TCACCTGATTTTG
1 AT--TCTGATTTTG
* *
29172092 ATTCTGATTCTA
1 ATTCTGATTTTG
*
29172104 ATTCTCATTTTG
1 ATTCTGATTTTG
29172116 ATTCT
1 ATTCT
29172121 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
11 1 0.02
12 32 0.76
13 8 0.19
14 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.56
Consensus pattern (12 bp):
ATTCTGATTTTG
Found at i:29172102 original size:62 final size:62
Alignment explanation
Indices: 29171937--29172102 Score: 206
Period size: 62 Copynumber: 2.7 Consensus size: 62
29171927 TTGCATGCAC
* * *
29171937 ATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * * ** *
29171999 GTTCTGATTCTGATTCTGTTACCTGACACTGACACTAATTCTGTTACCTAATTCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * * **
29172061 ATTTTGATTTTGATTTTGTCACCTGATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCT
29172103 AATTCTCATT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 86 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
Found at i:29179045 original size:40 final size:40
Alignment explanation
Indices: 29178988--29179203 Score: 296
Period size: 40 Copynumber: 5.4 Consensus size: 40
29178978 GATGATAACG
* * *
29178988 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
29179028 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
29179068 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
29179108 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
29179148 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
29179188 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
29179204 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:29181977 original size:28 final size:29
Alignment explanation
Indices: 29181867--29181981 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
29181857 GTGAGCATGA
* * *
29181867 ATATGAATGTGA-CTGGGCCTAACGGGCG
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
29181895 ATATAAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
29181924 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
29181953 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
29181981 A
1 A
29181982 GATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:29181987 original size:57 final size:58
Alignment explanation
Indices: 29181880--29181990 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
29181870 TGAATGTGAC
* * * *
29181880 TGGGCCTAACGGGCGATATAAATGTGATTTGGGCCTAATGGGTCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
29181938 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
29181991 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:29183455 original size:25 final size:25
Alignment explanation
Indices: 29183433--29183481 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
29183423 AGCGCTCACT
*
29183433 TGAGCCATATAACAGGATGCTCATG
1 TGAGCCATATAACAGGAAGCTCATG
*
29183458 TGAGCCATGTAACAGGAAGCTCAT
1 TGAGCCATATAACAGGAAGCTCAT
29183482 CCGGGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
TGAGCCATATAACAGGAAGCTCATG
Found at i:29203438 original size:48 final size:47
Alignment explanation
Indices: 29203367--29203694 Score: 296
Period size: 48 Copynumber: 6.9 Consensus size: 47
29203357 ATACTAGGGT
* * * * *
29203367 TATGTGAGCCAATGTAAGACCATGTTTGAAACAAGACATTGGCCTCGA
1 TATGTGAGCCAGTGTAAGACCATGTTTG-GACATGGCATCGGCCTCGA
* * *
29203415 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCGGCCTCGA
* * * * * * *
29203463 TATGAGAGCTATTGTAAGATCATGCCTCGGACATGGCATCGGCCTCAA
1 TATGTGAGCCAGTGTAAGACCATG-TTTGGACATGGCATCGGCCTCGA
* * * *
29203511 TATGTGAGCCAGTGTAAGACCATGTTTGGACATGGCATCAGCATTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCCTCGA
* * * * * *
29203558 TATGAGAGCTACTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAA
1 TATGTGAGCCAGTGTAAGACCATGT-TTGGACATGGCATCGGCCTCGA
* * * *
29203606 TATGTGAGCCAGTGTAAGACCATGTTTGGAAGATGGCATCGGCTTTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCGGCCTCGA
*** * *
29203654 TACCAGAGCTAGTGTAAGACCATGTTTGGGACATGGGATCG
1 TATGTGAGCCAGTGTAAGACCATGTTT-GGACATGGCATCG
29203695 ACATCTTACC
Statistics
Matches: 222, Mismatches: 53, Indels: 10
0.78 0.19 0.04
Matches are distributed among these distances:
47 41 0.18
48 176 0.79
49 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (47 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCCTCGA
Found at i:29203590 original size:95 final size:96
Alignment explanation
Indices: 29203407--29203694 Score: 434
Period size: 95 Copynumber: 3.0 Consensus size: 96
29203397 ACAAGACATT
*
29203407 GGCCTCGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGC
1 GGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGC
* * * *
29203472 TATTGTAAGATCATGCCTCGGACATGGCATC
66 TACTGTAAGACCATGTCTAGGACATGGCATC
*
29203503 GGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCAGCATTGTTATGAGAGC
1 GGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGC
29203567 TACTGTAAGACCATGTCTAGGACATGGCATC
66 TACTGTAAGACCATGTCTAGGACATGGCATC
* * * **
29203598 AGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAAGATGGCATCGGCTTTGTTACCAGAGC
1 GGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGC
* * * *
29203663 TAGTGTAAGACCATGTTTGGGACATGGGATC
66 TACTGTAAGACCATGTCTAGGACATGGCATC
29203694 G
1 G
29203695 ACATCTTACC
Statistics
Matches: 174, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
95 89 0.51
96 85 0.49
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (96 bp):
GGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGC
TACTGTAAGACCATGTCTAGGACATGGCATC
Found at i:29206621 original size:42 final size:42
Alignment explanation
Indices: 29206509--29206673 Score: 134
Period size: 43 Copynumber: 3.9 Consensus size: 42
29206499 AGCATATACA
** ** * * *
29206509 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA-AGCG
* * * *
29206552 ATGCCATTGTCCCAGACAGGGTATTACACGAAATCAGATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA-AAAGCG
* * *
29206594 ATGTCAATGTCCCAGACATCGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAAAAG-CG
* * *
29206638 ATGCCAACGTCCCAGACGTGGTCTTACACGATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
29206674 CATATCGAAA
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
42 29 0.31
43 37 0.39
44 29 0.31
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAAGCG
Found at i:29214633 original size:48 final size:48
Alignment explanation
Indices: 29214577--29215000 Score: 404
Period size: 48 Copynumber: 8.8 Consensus size: 48
29214567 ATGCTAGGGT
* *
29214577 TATGTGAGCTAGTGTAAGACCACGTTTGGAACATGGCATTGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * * ***
29214625 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* *
29214673 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCCTCAA
* * * ***
29214721 TATGTGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* ** * *
29214769 TATGAGAGCTAGTGTAAGATTATGTCTGGGACATGGCATCGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * ***
29214817 TATGTGAGCCT-GTGTAAGACCATGTTTGGAACATGGCATTGGCATTGT
1 TATGTGAG-CTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * * *
29214865 TATGAGAGCTACTGTAAGACCATGTCTGCG-ACATGGCATCAGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTG-GAACATGGCATCGGCCTCAA
* * * * * * * ***
29214913 TATGTGAACCAGGGTAAGACTATGTTTGGAGCATGGCATCAGCTTTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
* * * *
29214961 TACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC
29215001 AGGTATCCAT
Statistics
Matches: 295, Mismatches: 75, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
47 6 0.02
48 283 0.96
49 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAA
Found at i:29215002 original size:96 final size:96
Alignment explanation
Indices: 29214575--29215000 Score: 645
Period size: 96 Copynumber: 4.4 Consensus size: 96
29214565 TGATGCTAGG
* * * * *
29214575 GTTATGTGAGCTAGTGTAAGACCACGTTTGGAACATGGCATTGGCCTCAATATGTGAGCCAGTGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
*
29214640 AAGACCATGTTTGGAACATGGCATCGACATT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
* * *
29214671 TTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGTGTGCCAGTGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
29214736 AAGACCATGTTTGGAACATGGCATCGGCATT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
** *
29214767 GTTATGAGAGCTAGTGTAAGATTATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCTGTGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
*
29214832 AAGACCATGTTTGGAACATGGCATTGGCATT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
* * * * *
29214863 GTTATGAGAGCTACTGTAAGACCATGTCTGCGACATGGCATCAGCCTCAATATGTGAACCAGGGT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* * * *
29214928 AAGACTATGTTTGGAGCATGGCATCAGCTTT
66 AAGACCATGTTTGGAACATGGCATCGGCATT
*
29214959 GTTACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
29215001 AGGTATCCAT
Statistics
Matches: 298, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 298 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (96 bp):
GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
AAGACCATGTTTGGAACATGGCATCGGCATT
Found at i:29217319 original size:27 final size:27
Alignment explanation
Indices: 29217289--29217466 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
29217279 ATATTGAGTC
* * *
29217289 CGCACACTCAGTGCTATATAATCGACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29217316 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29217343 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
29217371 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
29217398 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
29217425 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
29217452 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29217467 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29217428 original size:82 final size:81
Alignment explanation
Indices: 29217315--29217465 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
29217305 TATAATCGAC
* *
29217315 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
29217380 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
29217397 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
29217461 AGTGC
65 AGTGC
29217466 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:29224518 original size:25 final size:24
Alignment explanation
Indices: 29224441--29224518 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
29224431 GAGCTATTAC
* *
29224441 CAGGAAGCTCCAGATAGCCATTTAA
1 CAGGAAGCTCAAGATAGCC-TATAA
* * ** *
29224466 CAGGATGTTCAAGCGAGCC-ATAT
1 CAGGAAGCTCAAGATAGCCTATAA
29224489 CAGGAAGCTCAAGAATAGCCTATAA
1 CAGGAAGCTCAAG-ATAGCCTATAA
29224514 CAGGA
1 CAGGA
29224519 CACTCATAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
23 13 0.33
24 4 0.10
25 22 0.56
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (24 bp):
CAGGAAGCTCAAGATAGCCTATAA
Found at i:29236825 original size:30 final size:31
Alignment explanation
Indices: 29236764--29236826 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
29236754 CCTTTTCATA
*
29236764 TTTCATATTTCATAACACTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
** *
29236795 TTTCAAATTTCATATTACT-GGCCTAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
29236825 TT
1 TT
29236827 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:29237072 original size:24 final size:24
Alignment explanation
Indices: 29237034--29237208 Score: 257
Period size: 24 Copynumber: 7.4 Consensus size: 24
29237024 CTAGAGGCCT
* *
29237034 AGCCTCTTTTAATAAATGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
29237059 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
29237083 AGCCC-TTTAATAACTAGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
29237106 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
29237130 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
29237154 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
29237177 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
29237200 AGCCCTTTT
1 AGCCCTTTT
29237209 TCAATTCCTC
Statistics
Matches: 138, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
23 65 0.47
24 69 0.50
25 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:29237094 original size:47 final size:47
Alignment explanation
Indices: 29237041--29237209 Score: 259
Period size: 47 Copynumber: 3.6 Consensus size: 47
29237031 CCTAGCCTCT
* *
29237041 TTTAATAAATGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
* * *
29237088 TTTAATAACTAGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
* *
29237135 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
29237182 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
29237210 CAATTCCTCC
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 22 0.20
47 67 0.61
48 20 0.18
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
Found at i:29237102 original size:23 final size:23
Alignment explanation
Indices: 29237041--29237207 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
29237031 CCTAGCCTCT
* *
29237041 TTTAATAAATGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
29237064 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
29237088 TTTAATAACTAGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
29237111 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
29237135 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
29237159 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
29237182 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
29237205 TTT
1 TTT
29237208 TTCAATTCCT
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
23 68 0.52
24 64 0.48
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:29237283 original size:20 final size:20
Alignment explanation
Indices: 29237258--29237324 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
29237248 TTATGAATAC
29237258 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
29237278 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29237298 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29237318 ACCATGT
1 ATCATGT
29237325 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:29237289 original size:11 final size:11
Alignment explanation
Indices: 29237258--29237313 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29237248 TTATGAATAC
29237258 ATCATGTGCAT
1 ATCATGTGCAT
*
29237269 ATCA--TACAT
1 ATCATGTGCAT
29237278 ATCATGTGCAT
1 ATCATGTGCAT
*
29237289 ATCA--TACAT
1 ATCATGTGCAT
*
29237298 GTCATGTGCAT
1 ATCATGTGCAT
29237309 ATCAT
1 ATCAT
29237314 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:29245903 original size:48 final size:48
Alignment explanation
Indices: 29245845--29245947 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
29245835 GCACATCGCC
29245845 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
29245893 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
29245941 TATATAT
1 TACATAT
29245948 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:29249633 original size:40 final size:40
Alignment explanation
Indices: 29249601--29250111 Score: 763
Period size: 40 Copynumber: 12.8 Consensus size: 40
29249591 CCAGCATGAT
* * *
29249601 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** **
29249641 TGCTCTTCGGGGTTTAGCATGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* **
29249681 TGCTCTTCGGAACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29249721 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * **
29249761 CGCTCTTCGGAACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
29249801 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29249841 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* **
29249881 TGCTCTTCGGAACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
29249921 TGCTCTTCGCGACTTAGCCAGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
**
29249961 TGCTCTTCGGGGTTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
29250001 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
29250040 TGCTCTTCGGGACCTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
29250080 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
29250112 CTCAATTCTT
Statistics
Matches: 424, Mismatches: 46, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 0.09
40 387 0.91
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:29251640 original size:47 final size:47
Alignment explanation
Indices: 29251562--29251894 Score: 594
Period size: 47 Copynumber: 7.1 Consensus size: 47
29251552 CCCTTCGGGA
* * * * * *
29251562 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29251609 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29251656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29251703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29251750 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29251797 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29251844 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29251891 CTTA
1 CTTA
29251895 CTATCATTTC
Statistics
Matches: 276, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29253515 original size:31 final size:31
Alignment explanation
Indices: 29253474--29253537 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29253464 CCTTTTCATA
*
29253474 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
29253505 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
29253536 TT
1 TT
29253538 GCTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:29253807 original size:47 final size:47
Alignment explanation
Indices: 29253769--29254577 Score: 1566
Period size: 47 Copynumber: 17.2 Consensus size: 47
29253759 ACTAGGGCAA
*
29253769 AAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
*
29253816 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGG-GT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGTGT
29253863 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29253910 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29253957 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254004 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254051 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254098 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254145 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254192 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254239 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254286 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254333 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254380 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254427 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254474 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
**
29254521 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
29254568 AAGCCCTTTT
1 AAGCCCTTTT
29254578 TCAATTCCTC
Statistics
Matches: 755, Mismatches: 5, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
46 13 0.02
47 729 0.97
48 13 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (47 bp):
AAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGT
Found at i:29254652 original size:20 final size:20
Alignment explanation
Indices: 29254627--29254693 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
29254617 TTATGAATAC
29254627 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
29254647 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29254667 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29254687 ACCATGT
1 ATCATGT
29254694 TTCTCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:29254658 original size:11 final size:11
Alignment explanation
Indices: 29254627--29254682 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29254617 TTATGAATAC
29254627 ATCATGTGCAT
1 ATCATGTGCAT
*
29254638 ATCA--TACAT
1 ATCATGTGCAT
29254647 ATCATGTGCAT
1 ATCATGTGCAT
*
29254658 ATCA--TACAT
1 ATCATGTGCAT
*
29254667 GTCATGTGCAT
1 ATCATGTGCAT
29254678 ATCAT
1 ATCAT
29254683 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:29257563 original size:22 final size:22
Alignment explanation
Indices: 29257535--29257579 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29257525 TCTAAAATTG
29257535 TTTTAGTGTAAGTTAATGATAC
1 TTTTAGTGTAAGTTAATGATAC
29257557 TTTTAGTGTAAGTTAATGATAC
1 TTTTAGTGTAAGTTAATGATAC
29257579 T
1 T
29257580 AAGTTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TTTTAGTGTAAGTTAATGATAC
Found at i:29258082 original size:49 final size:48
Alignment explanation
Indices: 29257971--29258331 Score: 192
Period size: 49 Copynumber: 7.6 Consensus size: 48
29257961 GGGATAAGAT
* * * * *
29257971 GCTGACGCCATGTCCCAGACATGGTCTTACACTGGC-TAACACATCAAA
1 GCTGATGCCATGTCCCAGACA-GGTCTTACACTGACTTCATATATCAAA
*
29258019 G-TCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAG
1 GCT-GATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCAAA
* * * * * * *
29258068 GCTGATGCCGTGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGAT
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCAAA
* * * *
29258117 GTTGATGCCATGTCCCAGACAGGTCTTGCACTGAC-ACAGA-A-C-AA
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAA
** * * ***
29258161 GCTGACACCATGTCCCAGACCGGTCTTACACT-AGCTCTCATCTATCGGT
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGA-CT-TCATATATCAAA
* * *
29258210 G-TCAATGCCATGTCCACA-ACAGGTCTTACACTGAC-ACACA-A-C-AA
1 GCT-GATGCCATGTCC-CAGACAGGTCTTACACTGACTTCATATATCAAA
* * * * * * * * *
29258254 GCTGACGCCATGACCCAGATAGGTATTACACTAACTTGTATATCTCGAG
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGACTT-CATATATCAAA
** *
29258303 GCCAATG-CATGTCCCAGACAAGTCTTACA
1 GCTGATGCCATGTCCCAGACAGGTCTTACA
29258332 TTGGCTCTCA
Statistics
Matches: 232, Mismatches: 60, Indels: 42
0.69 0.18 0.13
Matches are distributed among these distances:
43 3 0.01
44 53 0.23
45 3 0.01
46 6 0.03
47 19 0.08
48 40 0.17
49 104 0.45
50 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAA
Found at i:29258201 original size:93 final size:93
Alignment explanation
Indices: 29257971--29258286 Score: 350
Period size: 93 Copynumber: 3.4 Consensus size: 93
29257961 GGGATAAGAT
* ** * *
29257971 GCTGACGCCATGTCCCAGACATGGTCTTACACTGGCTAACA-C-ATCAAAGTCGATGCCATGTCC
1 GCTGACGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATCTATCGATGTCGATGCCATGTCC
* *
29258034 CAGACAGGTCTTACACTGACTTTCATATATCAA
65 CAGACAGGTCTTACACTGAC--ACACA-A-CAA
* * * * * *
29258067 GGCTGATGCCGTGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGATGTTGATGCCATGTCC
1 -GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATGTCGATGCCATGTCC
* *
29258132 CAGACAGGTCTTGCACTGACACAGAACAA
65 CAGACAGGTCTTACACTGACACACAACAA
* * * *
29258161 GCTGACACCATGTCCCAGACCGGTCTTACACTAGCTCTCATCTATCGGTGTCAATGCCATGTCCA
1 GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATGTCGATGCCATGTCC-
29258226 CA-ACAGGTCTTACACTGACACACAACAA
65 CAGACAGGTCTTACACTGACACACAACAA
* * *
29258254 GCTGACGCCATGACCCAGATAGGTATTACACTA
1 GCTGACGCCATGTCCCAGACAGGTCTTACACTA
29258287 ACTTGTATAT
Statistics
Matches: 187, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
93 106 0.57
94 5 0.03
95 1 0.01
96 20 0.11
97 18 0.10
98 37 0.20
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (93 bp):
GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATGTCGATGCCATGTCCC
AGACAGGTCTTACACTGACACACAACAA
Found at i:29258309 original size:93 final size:93
Alignment explanation
Indices: 29258023--29258331 Score: 257
Period size: 93 Copynumber: 3.3 Consensus size: 93
29258013 ATCAAAGTCG
* * ** * * * *
29258023 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGATGCCGTGTCCCAAAT
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-CAA-GCTGACACCATGACCCAGAC
* ** * * ***
29258088 AGGTCTTACACTGGCTCTCATCTATCGATGTTG
61 AGGTATTACACTAACTCTCATATATCGGTGCCA
* * * * *
29258121 ATGCCATGTCCCAGACAGGTCTTGCACTGACACAGAACAAGCTGACACCATGTCCCAGACCGGTC
1 ATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACACCATGACCCAGACAGGTA
* * *
29258186 TTACACTAGCTCTCATCTATCGGTGTCA
66 TTACACTAACTCTCATATATCGGTGCCA
* *
29258214 ATGCCATGTCCACA-ACAGGTCTTACACTGACACACAACAAGCTGACGCCATGACCCAGATAGGT
1 ATGCCATGTCC-CAGACAGGTCTTACACTGACACACAACAAGCTGACACCATGACCCAGACAGGT
* *
29258278 ATTACACTAACT-TGTATATCTCGAG-GCCA
65 ATTACACTAACTCT-CATATATCG-GTGCCA
*
29258307 ATG-CATGTCCCAGACAAGTCTTACA
1 ATGCCATGTCCCAGACAGGTCTTACA
29258332 TTGGCTCTCA
Statistics
Matches: 181, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
91 2 0.01
92 19 0.10
93 120 0.66
94 6 0.03
95 1 0.01
96 3 0.02
98 30 0.17
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (93 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACACCATGACCCAGACAGGTA
TTACACTAACTCTCATATATCGGTGCCA
Found at i:29265228 original size:15 final size:15
Alignment explanation
Indices: 29265208--29265237 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29265198 GACTCATCTT
29265208 GGGCTTGATCGGAAG
1 GGGCTTGATCGGAAG
29265223 GGGCTTGATCGGAAG
1 GGGCTTGATCGGAAG
29265238 ACATTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.47, T:0.20
Consensus pattern (15 bp):
GGGCTTGATCGGAAG
Found at i:29268775 original size:48 final size:44
Alignment explanation
Indices: 29268619--29268827 Score: 144
Period size: 42 Copynumber: 4.8 Consensus size: 44
29268609 GATGCCAATT
* * **
29268619 CCATATCCTAGATATGGTCTTACATGGGATCACATATC--GATG
1 CCATATCCCAGATATGGTCTTACACGAAATCACATATCGAGATG
* * * * ** *
29268661 CCAATAGCCCAGCTATGATCTTACATGATGTCTCATATC--GATG
1 CC-ATATCCCAGATATGGTCTTACACGAAATCACATATCGAGATG
* * *
29268704 CCAT-TGCCCAGACATGGTATTACACGAAATCACATATTGATGCCAATG
1 CCATAT-CCCAGATATGGTCTTACACGAAATCACATATCGA-G---ATG
* * *
29268752 CCATATCCCAGATATGGCCTTACATGAGATCACATATCGAG--G
1 CCATATCCCAGATATGGTCTTACACGAAATCACATATCGAGATG
* *
29268794 CCATATCCCAAATATGGTCTTACACGAAACCACA
1 CCATATCCCAGATATGGTCTTACACGAAATCACA
29268828 CATAACCCTA
Statistics
Matches: 129, Mismatches: 29, Indels: 18
0.73 0.16 0.10
Matches are distributed among these distances:
42 57 0.44
43 34 0.26
45 1 0.01
47 1 0.01
48 35 0.27
49 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
CCATATCCCAGATATGGTCTTACACGAAATCACATATCGAGATG
Found at i:29273360 original size:22 final size:22
Alignment explanation
Indices: 29273332--29273377 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
29273322 TCCAAGACTT
29273332 ATGTTGTCCTTAATTCTTTCCC
1 ATGTTGTCCTTAATTCTTTCCC
29273354 ATGTTGTCCTTAATTCTTTCCC
1 ATGTTGTCCTTAATTCTTTCCC
29273376 AT
1 AT
29273378 ACTTTACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.09, T:0.50
Consensus pattern (22 bp):
ATGTTGTCCTTAATTCTTTCCC
Found at i:29276918 original size:14 final size:15
Alignment explanation
Indices: 29276899--29276928 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29276889 GTTTATTATA
29276899 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
29276913 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
29276928 T
1 T
29276929 CTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:29278950 original size:43 final size:43
Alignment explanation
Indices: 29278818--29278953 Score: 118
Period size: 42 Copynumber: 3.2 Consensus size: 43
29278808 GGCTTTGAGC
*
29278818 CTAGCAGGCATAATGCCGGTGAAATGATTTCGGACTTAAAGGT
1 CTAGCAGGCATAATGCCGGTGAAATGATATCGGACTTAAAGGT
* * * ** * *** *
29278861 CTTGCAAGCTTTAA-GTTGGTG-AAT-ATTATCGGGCTCCGA-GC
1 CTAGCAGGC-ATAATGCCGGTGAAATGA-TATCGGACTTAAAGGT
*
29278902 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCATAATGCCGGTGAAATGATATCGGACTTAAAGGT
29278945 CTAGCAGGC
1 CTAGCAGGC
29278954 TTATTGCCAG
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
40 3 0.05
41 14 0.21
42 23 0.35
43 23 0.35
44 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
CTAGCAGGCATAATGCCGGTGAAATGATATCGGACTTAAAGGT
Found at i:29287296 original size:23 final size:23
Alignment explanation
Indices: 29287263--29287307 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
29287253 ATATGAGAGT
*
29287263 ATGAAATTTTTGGTGAATTAATA
1 ATGAAAATTTTGGTGAATTAATA
29287286 ATGAAAATTTTGGTGAATTAAT
1 ATGAAAATTTTGGTGAATTAAT
29287308 TTTAGCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (23 bp):
ATGAAAATTTTGGTGAATTAATA
Found at i:29287676 original size:17 final size:17
Alignment explanation
Indices: 29287654--29287692 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
29287644 ATGATGATTT
29287654 TTGTACTTTTAGAACCC
1 TTGTACTTTTAGAACCC
29287671 TTGTACTTTTAGAACCC
1 TTGTACTTTTAGAACCC
29287688 TTGTA
1 TTGTA
29287693 GCATGAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (17 bp):
TTGTACTTTTAGAACCC
Found at i:29288429 original size:28 final size:28
Alignment explanation
Indices: 29288389--29288445 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
29288379 GCATCGACCA
29288389 CATTATAAGAGCCAGTGTAAGACTATGT
1 CATTATAAGAGCCAGTGTAAGACTATGT
29288417 CATTATAAGAGCCAGTGTAAGACTATGT
1 CATTATAAGAGCCAGTGTAAGACTATGT
29288445 C
1 C
29288446 TAGGACATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (28 bp):
CATTATAAGAGCCAGTGTAAGACTATGT
Found at i:29288528 original size:46 final size:45
Alignment explanation
Indices: 29288426--29288650 Score: 197
Period size: 46 Copynumber: 4.8 Consensus size: 45
29288416 TCATTATAAG
*
29288426 AGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCATTGAGATG-A
1 AGCCAGTGTAAGAC-ATGTCTAGGACAT-GCATCGGC-TAGAGATGTA
* * * *
29288473 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGGCTCGAGATGTA
1 -AGCCAGTGTAAGACATGTCTAGGACATGCATC-GGCTAGAGATGTA
*
29288520 AGCCAGTGTAAGACATGTCTAGGATATGCATCGGCTAAGAGATGT-
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCT-AGAGATGTA
* * * *
29288565 A-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGA
1 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TAGAGATGT-A
*
29288613 GAGCTAGTGTAAGACCATGTCCT-GGACATGGCATCGGC
1 -AGCCAGTGTAAGA-CATGT-CTAGGACAT-GCATCGGC
29288651 CTCGATTTCG
Statistics
Matches: 150, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
44 10 0.07
45 17 0.11
46 61 0.41
47 16 0.11
48 13 0.09
49 1 0.01
50 30 0.20
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTAGAGATGTA
Found at i:29288689 original size:49 final size:49
Alignment explanation
Indices: 29288429--29288697 Score: 190
Period size: 46 Copynumber: 5.7 Consensus size: 49
29288419 TTATAAGAGC
* * ** * * *
29288429 CAGTGTAAGACTATGTCTAGGACATGGCATCGGCATTGAGATGAGAGCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAT
* * * * *
29288478 -AGTGTAAGA-CATGTCTGGGACAT-GTATCGGGCTC-GAGATGTAAG-C
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACAGATATGTGAGAT
* * *
29288523 CAGTGTAAGA-CATGTCTAGGATAT-GCATCGGCTA-AGAGATGT---AT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGATATGTGAGAT
*
29288567 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAT
* *
29288616 CTAGTGTAAGACCATGTCCT-GGACATGGCATCGGC-CTCGAT-T-TCGATATT
1 C-AGTGTAAGACCATGT-CTGGGACATGGCATCGGCAC-AGATATGT-GAGA-T
* *
29288666 CAGTGTAAAACCATGTCTGGGACATAGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
29288698 ACTTGATGGA
Statistics
Matches: 181, Mismatches: 22, Indels: 34
0.76 0.09 0.14
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 59 0.33
47 15 0.08
48 12 0.07
49 33 0.18
50 34 0.19
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAT
Found at i:29291765 original size:42 final size:42
Alignment explanation
Indices: 29291651--29291855 Score: 187
Period size: 42 Copynumber: 4.7 Consensus size: 42
29291641 TAGTAAGATG
* * * *
29291651 TCAATGCCATATCCCAGATAAGGTCTTACATGGGATCACATA
1 TCAATGTCATATCCCAGATATGGTCTTACACGAGATCACATA
* * * * * *
29291693 TCGATGCCAATAACCCAGCTATGGTCTTACACGATATCTCATA
1 TCAATGTC-ATATCCCAGATATGGTCTTACACGAGATCACATA
* * *
29291736 TCGATGTCATATCCCAGACATGGTCTTACACGAAATCACATATTGA
1 TCAATGTCATATCCCAGATATGGTCTTACACGAGATCAC--A-T-A
* *
29291782 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGATCACATA
1 T--CAATGTCATATCCCAGATATGGTCTTACACGAGATCACATA
*
29291826 TCAAT-TCCATATCCCAGATATGTTCTTACA
1 TCAATGT-CATATCCCAGATATGGTCTTACA
29291856 TGAAACCACA
Statistics
Matches: 135, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 59 0.44
43 34 0.25
44 3 0.02
45 2 0.01
46 3 0.02
48 33 0.24
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
TCAATGTCATATCCCAGATATGGTCTTACACGAGATCACATA
Found at i:29291838 original size:90 final size:85
Alignment explanation
Indices: 29291651--29291865 Score: 234
Period size: 90 Copynumber: 2.5 Consensus size: 85
29291641 TAGTAAGATG
* * ** *
29291651 TCAATGCCATATCCCAGATAAGGTCTTACATGGGATCACATATCGATGCCAATAACCCAGCTATG
1 TCAATTCCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAACCCAGATATG
* *
29291716 GTCTTACACGATATCTCATA
66 GTCTTACACGAGATCACATA
* * * *
29291736 TCGATGT-CATATCCCAGACATGGTCTTACACGAAATCACATATTGATGCCAATGTCATATCCCA
1 TCAAT-TCCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAA--T-A-A-CCCA
* *
29291800 GATATGGTCTTACATGGGATCACATA
60 GATATGGTCTTACACGAGATCACATA
* *
29291826 TCAATTCCATATCCCAGATATGTTCTTACATGAAACCACA
1 TCAATTCCATATCCCAGATATGGTCTTACATGAAATCACA
29291866 CATAACCCTA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
85 43 0.41
87 1 0.01
88 1 0.01
89 2 0.02
90 58 0.55
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (85 bp):
TCAATTCCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAACCCAGATATG
GTCTTACACGAGATCACATA
Found at i:29295555 original size:11 final size:11
Alignment explanation
Indices: 29295549--29295574 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29295539 TGAAATTTTC
29295549 TCAAAATTCTA
1 TCAAAATTCTA
29295560 TCAAAATTCTA
1 TCAAAATTCTA
29295571 TCAA
1 TCAA
29295575 TTTTATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:29295831 original size:48 final size:47
Alignment explanation
Indices: 29295713--29295843 Score: 167
Period size: 48 Copynumber: 2.7 Consensus size: 47
29295703 AGTGATGATT
* * *
29295713 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATT-GATATTTTTTTCATTTATGCAAATTTAA
29295761 TT-AAATTTGCAATACTATTTGATATTTTTTTCATTTATGC-AATTATAA
1 TTAAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAAATT-TAA
*
29295809 TTAAAATTTCAATACTACTTGATTTTTTTTTCATT
1 TTAAAATTTCAATACTA-TTGATATTTTTTTCATT
29295844 GCATTAATTA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
47 9 0.12
48 57 0.77
49 8 0.11
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (47 bp):
TTAAAATTTCAATACTATTGATATTTTTTTCATTTATGCAAATTTAA
Found at i:29297453 original size:18 final size:18
Alignment explanation
Indices: 29297430--29297472 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
29297420 AGCGAGGTGC
*
29297430 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
29297448 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
29297466 GTTTCCT
1 GTATCCT
29297473 TTTTCTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:29298905 original size:46 final size:42
Alignment explanation
Indices: 29298828--29298915 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 42
29298818 AATTACATAC
29298828 CGCTCTTCCATTCAGAAAAGAAATTATATTAGTAGAGATTAA
1 CGCTCTTCCATTCAGAAAAGAAATTATATTAGTAGAGATTAA
29298870 CGCTCTTCCATTCAGAATAAAAAGAAATTATATTAGTAGAGATTAA
1 CGCTCTTCCATTCAG----AAAAGAAATTATATTAGTAGAGATTAA
29298916 ATACCCATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
42 15 0.36
46 27 0.64
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (42 bp):
CGCTCTTCCATTCAGAAAAGAAATTATATTAGTAGAGATTAA
Found at i:29301334 original size:172 final size:174
Alignment explanation
Indices: 29301032--29301344 Score: 495
Period size: 173 Copynumber: 1.8 Consensus size: 174
29301022 CGTGGGAGCT
* *
29301032 TTTTTCAGAACTTTTTGCCAACAGTGCATCCTACTTGAAGCATTTTCGACACTATTCGTTCAAAA
1 TTTTTCAGAACTTTTTGCCAACAGTGCATCCTACTTGAAACATTTTCGACAATATTCGTTCAAAA
* * *
29301097 ACGTCTACTCAGGCTCATTTTCTTGCGAACTACTATAGCAAAAGAGCGTCCATGTGGAAGCTTTT
66 ACGTCGACTCAGACTCATTTTCTTGCGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTT
29301162 TTCAAAACTTTTAGGGTTTAGGGTTTAAGGTTTAACGCGAGACC
131 TTCAAAACTTTTAGGGTTTAGGGTTTAAGGTTTAACGCGAGACC
** ** * *
29301206 TTTTTCAGAAC-TTTTGCTGACAGTGCATCCTGTTTGAAACGTTTTCGACAATATTTGTTCAAAA
1 TTTTTCAGAACTTTTTGCCAACAGTGCATCCTACTTGAAACATTTTCGACAATATTCGTTCAAAA
* *
29301270 ACGTCGACTTAGACTCATTTT-TTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTT
66 ACGTCGACTCAGACTCATTTTCTTGCGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTT
29301334 TTCAAAACTTT
131 TTCAAAACTTT
29301345 AGCCGATAGT
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
172 52 0.41
173 63 0.50
174 11 0.09
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (174 bp):
TTTTTCAGAACTTTTTGCCAACAGTGCATCCTACTTGAAACATTTTCGACAATATTCGTTCAAAA
ACGTCGACTCAGACTCATTTTCTTGCGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTT
TTCAAAACTTTTAGGGTTTAGGGTTTAAGGTTTAACGCGAGACC
Found at i:29301665 original size:126 final size:126
Alignment explanation
Indices: 29301206--29301657 Score: 590
Period size: 126 Copynumber: 3.6 Consensus size: 126
29301196 ACGCGAGACC
* * * * *
29301206 TTTTTCAGAACTTTTGCTGACAGTGCATCCTGTTTGAAACGTTTTCGACAATATTTGTTCAAAAA
1 TTTTTCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
* *
29301271 CGTCGACTTAGACTCATTTTT-TGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCT
66 CGTCTACTCAGACTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCT
* * * *
29301331 TTTTTCA-AAACTTTAGCCGATAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAA
1 TTTTTCAGAAA-TTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAA
* * *
29301395 ACGT-TGACTCAGGCTCATGTTTCTGCGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCT
65 ACGTCT-ACTCAGACTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCT
* * *
29301457 TTTTTCAGAACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTCGACACTATCTGTTCAGAAA
1 TTTTTCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
* * * * * * *
29301522 CATCTACTCAGATTTATTTTTCTACGAACTACTGTAGCAAAAAAAGCGTCCATGTGGGAG-T
66 CGTCTACTCAGACTCATTTTTCTGCGAACTACTGTAGC-AAAAGAGCGTCCACGTGGAAGCT
* *
29301583 TTTTTCCAGAAATTTT-CTGACATTGCATCCTGCATGAAGCGTTTTCGACACTATTTGTTCAGAA
1 TTTTT-CAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAA
*
29301647 ATGTCTACTCA
65 ACGTCTACTCA
29301658 AAATTATTCT
Statistics
Matches: 282, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
124 2 0.01
125 69 0.24
126 181 0.64
127 30 0.11
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTTTCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
CGTCTACTCAGACTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCT
Found at i:29302372 original size:23 final size:23
Alignment explanation
Indices: 29302335--29302401 Score: 116
Period size: 23 Copynumber: 2.8 Consensus size: 23
29302325 TATAAACCCT
29302335 AAAAACCCTAAAACCCTAAAATATA
1 AAAAACCCT--AACCCTAAAATATA
29302360 AAAAACCCTAACCCTAAAATATA
1 AAAAACCCTAACCCTAAAATATA
29302383 AAAAACCCTAACCCTAAAA
1 AAAAACCCTAACCCTAAAA
29302402 ACCCTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 33 0.79
25 9 0.21
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (23 bp):
AAAAACCCTAACCCTAAAATATA
Found at i:29306674 original size:15 final size:16
Alignment explanation
Indices: 29306654--29306691 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
29306644 CCTAAGTAAT
29306654 TATTATTTA-T-ATAG
1 TATTATTTATTCATAG
29306668 ATATTATTTATTCATAG
1 -TATTATTTATTCATAG
29306685 TATTATT
1 TATTATT
29306692 GCAATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (16 bp):
TATTATTTATTCATAG
Found at i:29308323 original size:33 final size:33
Alignment explanation
Indices: 29308281--29308348 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
29308271 CCCTTTATCT
*
29308281 CCAAACAAAAAATCATCTAAAAAAGTCCCTAAA
1 CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
29308314 CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
1 CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
29308347 CC
1 CC
29308349 TAAATAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.57, C:0.26, G:0.01, T:0.15
Consensus pattern (33 bp):
CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
Done.