Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 15 of 172
Found at i:3957657 original size:25 final size:25
Alignment explanation
Indices: 3957585--3957657 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
3957575 GCATGTTAAT
* *
3957585 GGGAAGCTCTTTCGAGCCATATAAC
1 GGGAAGCTCTTGCGAGCCAAATAAC
* ** **
3957610 GGGAAGCTCATGTTAGCTGAATAAC
1 GGGAAGCTCTTGCGAGCCAAATAAC
*
3957635 GGGAAGTTCTTGCGAGCCAAATA
1 GGGAAGCTCTTGCGAGCCAAATA
3957658 TCGAAAAGCT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (25 bp):
GGGAAGCTCTTGCGAGCCAAATAAC
Found at i:3961041 original size:19 final size:19
Alignment explanation
Indices: 3961010--3961056 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
3961000 TAAATGTTCA
*
3961010 AGGTTTAGGGTTCATGGTTCG
1 AGGTTT-GGGTTCA-GGCTCG
3961031 -GGTTTGGGTTCAGGCTCG
1 AGGTTTGGGTTCAGGCTCG
3961049 AGGTTTGG
1 AGGTTTGG
3961057 AGTTTAGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 14 0.58
20 5 0.21
ACGTcount: A:0.11, C:0.11, G:0.43, T:0.36
Consensus pattern (19 bp):
AGGTTTGGGTTCAGGCTCG
Found at i:3962148 original size:9 final size:9
Alignment explanation
Indices: 3962134--3962170 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
3962124 TATAGTTTGA
3962134 TATTCGAAT
1 TATTCGAAT
3962143 TATTCGAAT
1 TATTCGAAT
*
3962152 TATTCGAGT
1 TATTCGAAT
3962161 TATTCGAAT
1 TATTCGAAT
3962170 T
1 T
3962171 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:3969987 original size:3 final size:3
Alignment explanation
Indices: 3969979--3970023 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
3969969 AGATAGTGAG
3969979 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3970024 TCCTTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3972459 original size:11 final size:11
Alignment explanation
Indices: 3972445--3972474 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3972435 AAAATAAAAA
3972445 TAAAATTATTT
1 TAAAATTATTT
*
3972456 TAAAAGTATTT
1 TAAAATTATTT
3972467 TAAAATTA
1 TAAAATTA
3972475 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:3976593 original size:289 final size:290
Alignment explanation
Indices: 3976065--3976596 Score: 693
Period size: 289 Copynumber: 1.8 Consensus size: 290
3976055 TATGTGATGG
* * * ** * *
3976065 AGGTAATAGAGTATGCGTAATAATATTAAAATGTATAAAAATATTTAAATAAAGCATTAGATAAG
1 AGGTAATAGAATATGCATAATAAAATTAAAATGTATAAAAATATCAAAACAAAACATTAGATAAG
3976130 TAGTAAATTAAAAATTTTACTAATGTAATTGATGTGGGTTTAAATCTCATCATTTGTATATTTTT
66 -AGTAAATTAAAAATTTTACTAATGTAATT-ATGTGGGTTTAAATCTCATCATTTGTATATTTTT
*
3976195 ATTTATTTTTTAAAGTGAAAAACTAAAATACTCTCGAATAATATTACTTATTTTAATTATGAAAT
129 ATTGATTTTTTAAAGTGAAAAACTAAAATACTCTCGAATAATATTACTTATTTTAATTATGAAAT
* * **
3976260 GACATACCCGTAATTTCCTAACCGAGTTGGTGCTCAGTTGACTCGTGAACTAACTCAATCAATAG
194 AACATACCCGTAATTTCCTAAACGAGTTGGTGCTCAAATGACTCGTGAACTAACTCAATCAATAG
3976325 TTTAAATAGACGTGTAGATATACAACTTATGA
259 TTTAAATAGACGTGTAGATATACAACTTATGA
* *
3976357 AGGTAATAGAATATGCATAA-AAAATTAAAATGT-TAAAAATATCAAAACAAAACTTTAGTTTAC
1 AGGTAATAGAATATGCATAATAAAATTAAAATGTATAAAAATATCAAAACAAAACATTAG-ATA-
* * * *
3976420 AG-GTAAATTAAAAGTTTTACTAATG-CATT-TGTGGGTTTGAATCTCATCCTTTGTATATTTTT
64 AGAGTAAATTAAAAATTTTACTAATGTAATTATGTGGGTTTAAATCTCATCATTTGTATATTTTT
3976482 ATTGATTTTTTTAAAGTGAAAAGACTAAAATACTCTC-AAGTAATATTA-TATATTTTAATTATG
129 ATTGA-TTTTTTAAAGTGAAAA-ACTAAAATACTCTCGAA-TAATATTACT-TATTTTAATTATG
* *** * ** *
3976545 AAATAATATTTTCTTAATTTTTTAAATGAGTTGGTG-TCTAAATGACTCGTGA
190 AAATAACATACCCGTAATTTCCTAAACGAGTTGGTGCTC-AAATGACTCGTGA
3976597 CATAGAAAAT
Statistics
Matches: 207, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
287 35 0.17
288 21 0.10
289 75 0.36
290 42 0.20
291 14 0.07
292 20 0.10
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (290 bp):
AGGTAATAGAATATGCATAATAAAATTAAAATGTATAAAAATATCAAAACAAAACATTAGATAAG
AGTAAATTAAAAATTTTACTAATGTAATTATGTGGGTTTAAATCTCATCATTTGTATATTTTTAT
TGATTTTTTAAAGTGAAAAACTAAAATACTCTCGAATAATATTACTTATTTTAATTATGAAATAA
CATACCCGTAATTTCCTAAACGAGTTGGTGCTCAAATGACTCGTGAACTAACTCAATCAATAGTT
TAAATAGACGTGTAGATATACAACTTATGA
Found at i:3982004 original size:65 final size:65
Alignment explanation
Indices: 3981900--3982034 Score: 261
Period size: 65 Copynumber: 2.1 Consensus size: 65
3981890 TCTGGTATTG
3981900 ACATTGTTGTTAATCCAGGAGGACATAGGTTCAAGTGTGCTGAAGCACATTATCCTCCTATTTAA
1 ACATTGTTGTTAATCCAGGAGGACATAGGTTCAAGTGTGCTGAAGCACATTATCCTCCTATTTAA
3981965 ACATTGTTGTTAATCCAGGAGGACATAGGTTCAAGTGTGCTGAAGCACATTATCCTCCTATTTAA
1 ACATTGTTGTTAATCCAGGAGGACATAGGTTCAAGTGTGCTGAAGCACATTATCCTCCTATTTAA
*
3982030 GCATT
1 ACATT
3982035 AGGAATGGAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (65 bp):
ACATTGTTGTTAATCCAGGAGGACATAGGTTCAAGTGTGCTGAAGCACATTATCCTCCTATTTAA
Found at i:3986324 original size:19 final size:19
Alignment explanation
Indices: 3986295--3986384 Score: 60
Period size: 20 Copynumber: 4.8 Consensus size: 19
3986285 TCTCTCAACA
*
3986295 AAAATTACAAAATAATTAT
1 AAAATTTCAAAATAATTAT
* **
3986314 TAAATTTCAAAATTTTTAT
1 AAAATTTCAAAATAATTAT
3986333 AAAAGTTTCAAAAT--TTAT
1 AAAA-TTTCAAAATAATTAT
** * *
3986351 -ATTTTTAAAAAAAATTAT
1 AAAATTTCAAAATAATTAT
*
3986369 AAAAATTTAAAAATAA
1 -AAAATTTCAAAATAA
3986385 ATCTAAAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
16 7 0.13
17 1 0.02
18 8 0.15
19 18 0.33
20 20 0.37
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAATTTCAAAATAATTAT
Found at i:3991176 original size:52 final size:50
Alignment explanation
Indices: 3991099--3991226 Score: 145
Period size: 51 Copynumber: 2.5 Consensus size: 50
3991089 TTTTTCTCGT
*
3991099 ATTAATTTAAATTAATTAAGAGATAAATATTAAA-AATTTATATTATCATTA
1 ATTAA-TTAAATTAATTAAGAGATAAATATCAAATAA-TTATATTATCATTA
* * * * *
3991150 ATTAAAATTAAAATAATTAAGTGAT-AATATCAAATGATTATTTTATCTTTA
1 ATT--AATTAAATTAATTAAGAGATAAATATCAAATAATTATATTATCATTA
3991201 ATTAATTAAATTAA-TAAGAGATAAAT
1 ATTAATTAAATTAATTAAGAGATAAAT
3991227 GAAAAACAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
48 7 0.11
49 13 0.20
51 26 0.40
52 17 0.26
53 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (50 bp):
ATTAATTAAATTAATTAAGAGATAAATATCAAATAATTATATTATCATTA
Found at i:4001835 original size:9 final size:9
Alignment explanation
Indices: 4001821--4001887 Score: 56
Period size: 8 Copynumber: 7.8 Consensus size: 9
4001811 AAGAGCAACT
*
4001821 ATAATAATG
1 ATAATAATA
4001830 ATAATAATA
1 ATAATAATA
4001839 ATAATAATA
1 ATAATAATA
4001848 CA-AA-AATA
1 -ATAATAATA
4001856 ATAAT-ATA
1 ATAATAATA
4001864 AT-ATAGA-A
1 ATAATA-ATA
4001872 AT-ATAATA
1 ATAATAATA
4001880 ATGAATAA
1 AT-AATAA
4001888 ATGAGTATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
7 4 0.08
8 20 0.41
9 20 0.41
10 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAATAATA
Found at i:4001836 original size:3 final size:3
Alignment explanation
Indices: 4001821--4001887 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
4001811 AAGAGCAACT
*
4001821 ATA ATA ATG ATA ATA ATA ATA ATA ATA CA-A A-A ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
4001864 AT- ATA GA-A AT- ATA ATA ATGA ATA A
1 ATA ATA -ATA ATA ATA ATA AT-A ATA A
4001888 ATGAGTATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
2 10 0.19
3 39 0.72
4 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4003771 original size:41 final size:41
Alignment explanation
Indices: 4003596--4003772 Score: 130
Period size: 41 Copynumber: 4.2 Consensus size: 41
4003586 TTCGGTCTGT
4003596 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
* * * * **
4003637 TCTACTGTAA-CTTCA-GAAAGACAAGATCCT--T-TGATCCGC
1 TCCACTGTAATC-TCAGGGAA-ATAAGA-CCTGGTGCGATCTAC
* * * * **
4003676 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGT
1 TCCACTGTAATCTCAGGGAAATAAGACCTG-----GTGCGATCTAC
4003722 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
*
4003763 TCTACTGTAA
1 TCCACTGTAA
4003773 CTTCAGAGAG
Statistics
Matches: 102, Mismatches: 21, Indels: 26
0.68 0.14 0.17
Matches are distributed among these distances:
38 2 0.02
39 22 0.22
40 8 0.08
41 33 0.32
42 3 0.03
45 1 0.01
46 33 0.32
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (41 bp):
TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
Found at i:4003787 original size:41 final size:41
Alignment explanation
Indices: 4003596--4003915 Score: 161
Period size: 44 Copynumber: 7.6 Consensus size: 41
4003586 TTCGGTCTGT
*
4003596 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGACCTGGTGCGATCTAC
* ** * * **
4003637 TCTACTGTAA-CTTCAGAAAGACAAGATCCT--T-TGATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGA-CCTGGTGCGATCTAC
* * * **
4003676 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGT
1 TCCACTGTAATCTCAGGGAGATAAGACCTG-----GTGCGATCTAC
*
4003722 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGACCTGGTGCGATCTAC
* * ** **
4003763 TCTACTGTAA-CTTCAGAGAGATAAGATCCT--T-TAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGA-CCTGGTGCGATCTAC
* * ** * * *
4003802 TCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GGTGCGATCTAC
* * * *
4003846 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-C-CTGG-TGCGATCTAC
*
4003890 TCCACTGTAACCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
4003916 TTTGAAATTT
Statistics
Matches: 216, Mismatches: 42, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
38 2 0.01
39 50 0.23
40 9 0.04
41 47 0.22
42 6 0.03
43 2 0.01
44 66 0.31
45 1 0.00
46 33 0.15
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGGTGCGATCTAC
Found at i:4003793 original size:126 final size:125
Alignment explanation
Indices: 4003568--4004091 Score: 479
Period size: 126 Copynumber: 4.1 Consensus size: 125
4003558 TATCTTGGGA
*
4003568 AGATAAGATCTAAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCT-AAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
* * *
4003633 CTACTCTACTGTAACTTCAGAAAGACAAGATCCTTTGATCCGCTCCACTGTAATCTCAGGG
65 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
*
4003694 AGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCT-AAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
4003759 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
65 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
* * * * * *
4003820 AGATAGGAT-TACTAA--CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTT
1 AGATAAGATCTA--AATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGA-C-CTGG-TG
* * * * * **
4003882 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTGTAA-CT
61 CGATCTACTCTACTGTAACTTCAGAGAGATAAGA--T---CCTTTAATCCGCTCCACTGTAATC-
*
4003946 TCAGCG
120 TCAGGG
* * * * * * * *
4003952 AGATAGGA--T-AGTGTCTTCGATCTGCTCCGCTGTAATTTCAGGGAGATAAGATCTCTGACTTC
1 AGATAAGATCTAAAT-TCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGA-C-CTG-GTGC
* * * * * * *
4004014 AATCTGCTCCATTGTAA-TATCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
62 GATCTACTCTACTGTAACT-TCAGAGAGATAAGATC-CT---TT-AATCCGCTCCACTGTAATCT
4004078 CAGGG
121 CAGGG
4004083 AGATAAGAT
1 AGATAAGAT
4004092 TTGAAATTTT
Statistics
Matches: 343, Mismatches: 32, Indels: 40
0.83 0.08 0.10
Matches are distributed among these distances:
124 33 0.10
125 2 0.01
126 134 0.39
127 31 0.09
128 1 0.00
129 2 0.01
130 2 0.01
131 104 0.30
132 34 0.10
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (125 bp):
AGATAAGATCTAAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC
TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
Found at i:4003863 original size:44 final size:43
Alignment explanation
Indices: 4003674--4004223 Score: 467
Period size: 44 Copynumber: 12.7 Consensus size: 43
4003664 CCTTTGATCC
* *
4003674 GCTCCACTGTAATCTCAGGGAGATAAGA-TCTGAAATTTTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTG--A--CTTCAATCT
* * * * * *
4003720 GTTCCACTGTAATCTCAGGGAAATAAGA-CCTG-GTGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTGACTTCAATCT
* * * * *
4003761 ACTCTACTGTAA-CTTCAGAGAGATAAGA-TC---CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTCTGACTTCAATCT
* *
4003800 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATT-CTGACTTCAATCT
* *
4003844 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* * * *
4003888 GCTCCACTGTAACCTCAGGGAGATAAGATT-TGAAATTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTG--ACTTCAATCT
* * ** * *
4003932 GCTCCACTGTAA-CTTCAGCGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTCTGACTTCAATCT
* *
4003975 GCTCCGCTGTAATTTCAGGGAGATAAGATCTCTGACTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* * *
4004019 GCTCCATTGTAATATCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* * * *
4004063 GCTCCACTGTAACCTCAGGGAGATAAGATT-TGAAATTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTG--ACTTCAATCT
* * ** * *
4004107 GCTCCACTGTAA-CTTTAGGGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTCTGACTTCAATCT
* *
4004150 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
*
4004194 GCTCCACTGTAACCTCAGGGAGATAAGATT
1 GCTCCACTGTAATCTCAGGGAGATAAGATT
4004224 TGAAATTTTT
Statistics
Matches: 408, Mismatches: 76, Indels: 43
0.77 0.14 0.08
Matches are distributed among these distances:
39 26 0.06
40 3 0.01
41 30 0.07
42 4 0.01
43 63 0.15
44 248 0.61
45 5 0.01
46 29 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTCTGACTTCAATCT
Found at i:4004015 original size:175 final size:175
Alignment explanation
Indices: 4003800--4004222 Score: 731
Period size: 175 Copynumber: 2.4 Consensus size: 175
4003790 CCTTTAATCC
* * * *
4003800 GCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAACTTCAATCTGCTCCGCTGTAATCTCAGGG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGACTTCAATCTGCTCCACTGTAATCTCAGGG
4003864 AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAA
65 AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAA
4003929 TCCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
130 TCCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
* * *
4003975 GCTCCGCTGTAATTTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCATTGTAATATCAGGGA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGA
4004040 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAAT
66 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAAT
* *
4004105 CCGCTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTCGATCT
131 CCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
* *
4004150 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGA
4004215 GATAAGAT
66 GATAAGAT
4004223 TTGAAATTTT
Statistics
Matches: 233, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
175 232 1.00
176 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (175 bp):
GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGA
GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAAT
CCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
Found at i:4004232 original size:131 final size:131
Alignment explanation
Indices: 4003670--4004231 Score: 533
Period size: 131 Copynumber: 4.3 Consensus size: 131
4003660 AGATCCTTTG
* * * * *
4003670 ATCCGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAATCT
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAA--TTTCAATCTGCTCCGCTGTAAT-T
* * * * * * * *
4003735 CAGGGAAATAAGA-C-CTG-GTGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATC-CT--
63 TAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGG
4003793 -TT-A
127 CTTCA
* * *** * *
4003796 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTCAATCTGCTCCGCTGTAAT-TTA
* * **
4003861 GGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-T-TGAAAT
65 GGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTG--GC
*
4003924 TTTA
128 TTCA
* * * * *
4003928 ATCCGCTCCACTGTAACTTCAGCGAGATAGGATAGTG---TCTTCGATCTGCTCCGCTGTAATTT
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGAT-TTGAAAT-TTCAATCTGCTCCGCTGTAATTT
* *
4003990 CAGGGAGATAAGATCTCTGACTTCAATCTGCTCCATTGTAATATCAGGGAGATAAGATCTCTGGC
64 -AGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
4004055 TTCA
128 TTCA
* * * *
4004059 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTGTAACTTTA
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTCAATCTGCTCCGCTGTAA-TTTA
* ** * * *
4004124 GGGAGATAGGAT-AGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTT
65 GGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTT
4004188 CA
130 CA
*
4004190 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTT
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTT
4004232 TTCAACCAGC
Statistics
Matches: 367, Mismatches: 49, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
124 32 0.09
125 1 0.00
126 38 0.10
127 30 0.08
128 1 0.00
130 3 0.01
131 196 0.53
132 60 0.16
133 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (131 bp):
ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTCAATCTGCTCCGCTGTAATTTAG
GGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
A
Found at i:4004309 original size:131 final size:131
Alignment explanation
Indices: 4004010--4004339 Score: 321
Period size: 131 Copynumber: 2.5 Consensus size: 131
4004000 AGATCTCTGA
* ** ** * *
4004010 CTTCAATCTGCTCCATTGTAATATCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
1 CTTCGATCTGCTCCGCTGTAATCGCAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
* * * *
4004075 CCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATAGTG
66 CCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTCTAACGTGAGGGACATAGGATAGTG
4004140 T
131 T
* * *
4004141 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
1 CTTCGATCTGCTCCGCTGTAATCGCAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
** *
4004206 CCTCAGGGAGATAAGATTTGAAATTTTTCAA-CCAGCTCCGTTACTACCGTGAGAGG-CA-AGG-
66 CCTCAGGGAGATAAGATTTGAAA-TTTT-AATCC-GCTCCACT-CTAACGTGAG-GGACATAGGA
*
4004267 T-TTGT
126 TAGTGT
* * * ** * * *
4004272 TTTCGATCTGCTTCGCTGTTAA-CGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGC
1 CTTCGATCTGCTCCGCTG-TAATCGCAGGAAGACAAGATCT-CTGGCTTCAATCTGCTCCACTGT
4004336 AACC
64 AACC
4004340 GATGAAGGCA
Statistics
Matches: 169, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
131 117 0.69
132 32 0.19
133 11 0.07
134 7 0.04
135 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
CTTCGATCTGCTCCGCTGTAATCGCAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
CCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTCTAACGTGAGGGACATAGGATAGTG
T
Found at i:4004351 original size:86 final size:87
Alignment explanation
Indices: 4004232--4004746 Score: 620
Period size: 86 Copynumber: 6.0 Consensus size: 87
4004222 TTTGAAATTT
** * *
4004232 TTCAACCAGCTCCGTTACTACCG-TGAGAGGCAAGG-TTTGTTTTCGATCTGCTTCGCTGTTAAC
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
4004295 GCAGGAAGGCAAGATCTGCTATC
66 GCAGGAAGGCAAGATCTGCT-TC
* * *
4004318 TTCAACCAGCTCCACTGCAACCGATGA-AGGCAAGGC-TTGTTTTCGATCTGCTTTGCTGTTAAC
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
4004381 GCAGGAAGGCAAGATCTGCTTC
66 GCAGGAAGGCAAGATCTGCTTC
* ** *
4004403 TTTAACCAGCTCCACTGTAACCAATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
*
4004467 GCAGGAAGGCAAGATTTGCTTC
66 GCAGGAAGGCAAGATCTGCTTC
* * *
4004489 TTTAACCAGCTCCACTGCAACCAATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
**
4004553 GCAGGAAGGCAAGATCTTTTGTC
66 GCAGGAAGGCAAGATCTGCT-TC
* * * *
4004576 TTCCACCAGC-CTCA-TCACAACCGA-GAGAGGCAAGGTTTATGTCTTCGATCTGCTTCGCTGTC
1 TTCAACCAGCTC-CACT-ACAACCGATGAGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTT
**
4004638 AATGCAGGAAGGCAAGATCTTTTGTC
63 AATGCAGGAAGGCAAGATCTGCT-TC
* * * * * *
4004664 TTCAACCAGCTCCA-TCACAACTGA-AAGAGGCAAGGTTTATGTCTTCGATCTGCTTCACTGTCA
1 TTCAACCAGCTCCACT-ACAACCGATGAGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTA
4004727 ATGCAGGAAGGCAAGATCTG
64 ATGCAGGAAGGCAAGATCTG
4004747 TAAATTCATT
Statistics
Matches: 393, Mismatches: 27, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
85 35 0.09
86 203 0.52
87 31 0.08
88 123 0.31
89 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
GCAGGAAGGCAAGATCTGCTTC
Found at i:4004709 original size:43 final size:44
Alignment explanation
Indices: 4004572--4004709 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
4004562 CAAGATCTTT
* * * *
4004572 TGTCTTCCACCAGC-CTCATCACAACCGAGAGAGGCAAGGTTTA
1 TGTCTTCAACCAGCTCGCATCACAACTGAAAGAGGCAAGGTTTA
* * * ** * * * *
4004615 TGTCTTCGATCTGCTTCGC-TGTCAA-TGCAGGAAGGCAAGATCTTT
1 TGTCTTCAACCAGC-TCGCATCACAACTGAAAG-AGGCAAGGT-TTA
4004660 TGTCTTCAACCAGCTC-CATCACAACTGAAAGAGGCAAGGTTTA
1 TGTCTTCAACCAGCTCGCATCACAACTGAAAGAGGCAAGGTTTA
4004703 TGTCTTC
1 TGTCTTC
4004710 GATCTGCTTC
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 23 0.34
44 26 0.38
45 19 0.28
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
TGTCTTCAACCAGCTCGCATCACAACTGAAAGAGGCAAGGTTTA
Found at i:4007213 original size:14 final size:14
Alignment explanation
Indices: 4007191--4007230 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4007181 CCTCTCCTTT
*
4007191 TTCTTTTTTTTTTC
1 TTCTCTTTTTTTTC
4007205 TTCTCTTTTTTTTC
1 TTCTCTTTTTTTTC
* *
4007219 TCCCCTTTTTTT
1 TTCTCTTTTTTT
4007231 GACTTCGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTCTTTTTTTTC
Found at i:4007276 original size:15 final size:14
Alignment explanation
Indices: 4007247--4007281 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4007237 GATTTTTTGA
*
4007247 TTTTTGTTTTGTTT
1 TTTTTGTTTTCTTT
4007261 TTTTTGTTTTCCTTT
1 TTTTTGTTTT-CTTT
4007276 TTTTTG
1 TTTTTG
4007282 AGTCTGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (14 bp):
TTTTTGTTTTCTTT
Found at i:4007276 original size:20 final size:20
Alignment explanation
Indices: 4007239--4007280 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4007229 TTGACTTCGA
**
4007239 TTTTTTGATTTTTGTTTTGTT
1 TTTTTTGATTTTCCTTTT-TT
4007260 TTTTTTG-TTTTCCTTTTTT
1 TTTTTTGATTTTCCTTTTTT
4007279 TT
1 TT
4007281 GAGTCTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 8 0.42
21 7 0.37
ACGTcount: A:0.02, C:0.05, G:0.10, T:0.83
Consensus pattern (20 bp):
TTTTTTGATTTTCCTTTTTT
Found at i:4010948 original size:9 final size:9
Alignment explanation
Indices: 4010934--4011000 Score: 56
Period size: 8 Copynumber: 7.8 Consensus size: 9
4010924 AAGAGCAACT
*
4010934 ATAATAATG
1 ATAATAATA
4010943 ATAATAATA
1 ATAATAATA
4010952 ATAATAATA
1 ATAATAATA
4010961 CA-AA-AATA
1 -ATAATAATA
4010969 ATAAT-ATA
1 ATAATAATA
4010977 AT-ATAGA-A
1 ATAATA-ATA
4010985 AT-ATAATA
1 ATAATAATA
4010993 ATGAATAA
1 AT-AATAA
4011001 ATGAGTATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
7 4 0.08
8 20 0.41
9 20 0.41
10 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAATAATA
Found at i:4010949 original size:3 final size:3
Alignment explanation
Indices: 4010934--4011000 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
4010924 AAGAGCAACT
*
4010934 ATA ATA ATG ATA ATA ATA ATA ATA ATA CA-A A-A ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
4010977 AT- ATA GA-A AT- ATA ATA ATGA ATA A
1 ATA ATA -ATA ATA ATA ATA AT-A ATA A
4011001 ATGAGTATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
2 10 0.19
3 39 0.72
4 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4012904 original size:126 final size:126
Alignment explanation
Indices: 4012679--4012982 Score: 461
Period size: 126 Copynumber: 2.4 Consensus size: 126
4012669 TATCTTGGGA
*
4012679 AGATAAGATCTAAAATTCTTCGGTCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCTAAAATTCTTCGATCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
*
4012744 CTACTCTACTGTAACTTCAGAAAGACAAGATCCTTTGATCCGCTCCACTGTAATCTCAGGG
66 CTACTCTACTGTAACTTCAGAAAGACAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
*
4012805 AGATAAGATCTGAAATTCTTCGATCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCTAAAATTCTTCGATCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
** *
4012870 CTACTCTACTGTAACTTCAGAGTGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
66 CTACTCTACTGTAACTTCAGAAAGACAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
* * * * ** *
4012931 AGATAGGAT-TACTAA--CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 AGATAAGATCTA-AAATTCTTCGATCTGTTCCATTGTAATCTCAGGGAAATAAGA
4012983 TCTCTGGCTT
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 32 0.20
125 1 0.01
126 130 0.80
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (126 bp):
AGATAAGATCTAAAATTCTTCGATCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
CTACTCTACTGTAACTTCAGAAAGACAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
Found at i:4012974 original size:44 final size:43
Alignment explanation
Indices: 4012785--4013334 Score: 449
Period size: 44 Copynumber: 12.7 Consensus size: 43
4012775 CCTTTGATCC
*
4012785 GCTCCACTGTAATCTCAGGGAGATAAGA-TCTGAAATTCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTG--A--CTTCAATCT
* * * * * * *
4012831 GTTCCATTGTAATCTCAGGGAAATAAGA-CCTG-GTGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTGACTTCAATCT
* * * * * *
4012872 ACTCTACTGTAA-CTTCAGAGTGATAAGA-TC---CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTCTGACTTCAATCT
* *
4012911 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATT-CTGACTTCAATCT
* *
4012955 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* * * *
4012999 GCTCCACTGTAACCTCAGGGAGATAAGATT-TGAAATTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTG--ACTTCAATCT
* * ** * *
4013043 GCTCCACTGTAA-CTTCAGCGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTCTGACTTCAATCT
* *
4013086 GCTCCGCTGTAATTTCAGGGAGATAAGATCTCTGACTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* * *
4013130 GCTCCATTGTAATATCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* * * *
4013174 GCTCCACTGTAACCTCAGGGAGATAAGATT-TGAAATTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGATTCTG--ACTTCAATCT
* * ** * *
4013218 GCTCCACTGTAA-CTTTAGGGAGATAGGATAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTCTGACTTCAATCT
* *
4013261 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TCTGACTTCAATCT
* *
4013305 GCTCCACTGTAACCTCAAGGAGATAAGATT
1 GCTCCACTGTAATCTCAGGGAGATAAGATT
4013335 TGAAATTTTT
Statistics
Matches: 403, Mismatches: 81, Indels: 43
0.76 0.15 0.08
Matches are distributed among these distances:
39 25 0.06
40 3 0.01
41 28 0.07
42 4 0.01
43 63 0.16
44 247 0.61
45 5 0.01
46 28 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTCTGACTTCAATCT
Found at i:4013126 original size:175 final size:175
Alignment explanation
Indices: 4012911--4013333 Score: 722
Period size: 175 Copynumber: 2.4 Consensus size: 175
4012901 CCTTTAATCC
* * * *
4012911 GCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAACTTCAATCTGCTCCGCTGTAATCTCAGGG
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGACTTCAATCTGCTCCACTGTAATCTCAGGG
4012975 AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAA
65 AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAA
4013040 TCCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
130 TCCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
* * *
4013086 GCTCCGCTGTAATTTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCATTGTAATATCAGGGA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGA
4013151 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAAT
66 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAAT
* *
4013216 CCGCTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTCGATCT
131 CCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
* * *
4013261 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGA
4013326 GATAAGAT
66 GATAAGAT
4013334 TTGAAATTTT
Statistics
Matches: 232, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 231 1.00
176 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (175 bp):
GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGA
GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAAT
CCGCTCCACTGTAACTTCAGCGAGATAGGATAGTGTCTTCGATCT
Found at i:4013290 original size:131 final size:131
Alignment explanation
Indices: 4012781--4013342 Score: 506
Period size: 131 Copynumber: 4.3 Consensus size: 131
4012771 AGATCCTTTG
* * * * **
4012781 ATCCGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCTGTTCCATTGTAATCT
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAA-T-TTCAATCTGCTCCGCTGTAAT-T
* * * * * * * * *
4012846 CAGGGAAATAAGA-C-CTG-GTGCGATCTACTCTACTGTAA-CTTCAGAGTGATAAGATC-CT--
63 TAGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGG
4012904 -TT-A
127 CTTCA
* * *** * *
4012907 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTCAATCTGCTCCGCTGTAAT-TTA
* * **
4012972 GGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-T-TGAAAT
65 GGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTG--GC
*
4013035 TTTA
128 TTCA
* * * * *
4013039 ATCCGCTCCACTGTAACTTCAGCGAGATAGGATAGTG---TCTTCGATCTGCTCCGCTGTAATTT
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGAT-TTGAAAT-TTCAATCTGCTCCGCTGTAATTT
* *
4013101 CAGGGAGATAAGATCTCTGACTTCAATCTGCTCCATTGTAATATCAGGGAGATAAGATCTCTGGC
64 -AGGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
4013166 TTCA
128 TTCA
* * * *
4013170 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTGTAACTTTA
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTCAATCTGCTCCGCTGTAA-TTTA
* ** * * *
4013235 GGGAGATAGGAT-AGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTT
65 GGGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTT
4013299 CA
130 CA
* *
4013301 ATCTGCTCCACTGTAACCTCAAGGAGATAAGATTTGAAATTT
1 ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTT
4013343 TTCAACCAGC
Statistics
Matches: 364, Mismatches: 52, Indels: 35
0.81 0.12 0.08
Matches are distributed among these distances:
124 31 0.09
125 1 0.00
126 38 0.10
127 29 0.08
128 1 0.00
130 3 0.01
131 195 0.54
132 60 0.16
133 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (131 bp):
ATCCGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAATTTCAATCTGCTCCGCTGTAATTTAG
GGAGATAAGATCTCTGACTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
A
Found at i:4013420 original size:131 final size:131
Alignment explanation
Indices: 4013121--4013450 Score: 312
Period size: 131 Copynumber: 2.5 Consensus size: 131
4013111 AGATCTCTGA
* ** ** * *
4013121 CTTCAATCTGCTCCATTGTAATATCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
1 CTTCGATCTGCTCCGCTGTAATCGCAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
* * * * *
4013186 CCTCAGGGAGATAAGATTTGAAATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATAGTG
66 CCTCAAGGAGATAAGATTTGAAATTTTAATCCGCTCCACTCTAACGTGAGGGACATAGGATAGTG
4013251 T
131 T
* * *
4013252 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
1 CTTCGATCTGCTCCGCTGTAATCGCAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
** *
4013317 CCTCAAGGAGATAAGATTTGAAATTTTTCAA-CCAGCTCCGTTACTACCGTGAGAGG-CA-AGG-
66 CCTCAAGGAGATAAGATTTGAAA-TTTT-AATCC-GCTCCACT-CTAACGTGAG-GGACATAGGA
*
4013378 T-TTGT
126 TAGTGT
* * * ** * * *
4013383 TTTCGATCTGCTTCGCTGTTAA-CGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGC
1 CTTCGATCTGCTCCGCTG-TAATCGCAGGAAGACAAGATCT-CTGGCTTCAATCTGCTCCACTGT
4013447 AACC
64 AACC
4013451 GATGAAGGCA
Statistics
Matches: 168, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
131 116 0.69
132 32 0.19
133 11 0.07
134 7 0.04
135 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
CTTCGATCTGCTCCGCTGTAATCGCAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAA
CCTCAAGGAGATAAGATTTGAAATTTTAATCCGCTCCACTCTAACGTGAGGGACATAGGATAGTG
T
Found at i:4013462 original size:86 final size:87
Alignment explanation
Indices: 4013343--4013857 Score: 620
Period size: 86 Copynumber: 6.0 Consensus size: 87
4013333 TTTGAAATTT
** * *
4013343 TTCAACCAGCTCCGTTACTACCG-TGAGAGGCAAGG-TTTGTTTTCGATCTGCTTCGCTGTTAAC
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
4013406 GCAGGAAGGCAAGATCTGCTATC
66 GCAGGAAGGCAAGATCTGCT-TC
* * *
4013429 TTCAACCAGCTCCACTGCAACCGATGA-AGGCAAGGC-TTGTTTTCGATCTGCTTTGCTGTTAAC
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
4013492 GCAGGAAGGCAAGATCTGCTTC
66 GCAGGAAGGCAAGATCTGCTTC
* ** *
4013514 TTTAACCAGCTCCACTGTAACCAATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
*
4013578 GCAGGAAGGCAAGATTTGCTTC
66 GCAGGAAGGCAAGATCTGCTTC
* * *
4013600 TTTAACCAGCTCCACTGCAACCAATGA-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
1 TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
**
4013664 GCAGGAAGGCAAGATCTTTTGTC
66 GCAGGAAGGCAAGATCTGCT-TC
* * * *
4013687 TTCCACCAGC-CTCA-TCACAACCGA-GAGAGGCAAGGTTTATGTCTTCGATCTGCTTCGCTGTC
1 TTCAACCAGCTC-CACT-ACAACCGATGAGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTT
**
4013749 AATGCAGGAAGGCAAGATCTTTTGTC
63 AATGCAGGAAGGCAAGATCTGCT-TC
* * * * * *
4013775 TTCAACCAGCTCCA-TCACAACTGA-AAGAGGCAAGGTTTATGTCTTCGATCTGCTTCACTGTCA
1 TTCAACCAGCTCCACT-ACAACCGATGAGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTA
4013838 ATGCAGGAAGGCAAGATCTG
64 ATGCAGGAAGGCAAGATCTG
4013858 TAAATTCATT
Statistics
Matches: 393, Mismatches: 27, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
85 35 0.09
86 203 0.52
87 31 0.08
88 123 0.31
89 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
GCAGGAAGGCAAGATCTGCTTC
Found at i:4013820 original size:43 final size:44
Alignment explanation
Indices: 4013683--4013820 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
4013673 CAAGATCTTT
* * * *
4013683 TGTCTTCCACCAGC-CTCATCACAACCGAGAGAGGCAAGGTTTA
1 TGTCTTCAACCAGCTCGCATCACAACTGAAAGAGGCAAGGTTTA
* * * ** * * * *
4013726 TGTCTTCGATCTGCTTCGC-TGTCAA-TGCAGGAAGGCAAGATCTTT
1 TGTCTTCAACCAGC-TCGCATCACAACTGAAAG-AGGCAAGGT-TTA
4013771 TGTCTTCAACCAGCTC-CATCACAACTGAAAGAGGCAAGGTTTA
1 TGTCTTCAACCAGCTCGCATCACAACTGAAAGAGGCAAGGTTTA
4013814 TGTCTTC
1 TGTCTTC
4013821 GATCTGCTTC
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 23 0.34
44 26 0.38
45 19 0.28
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
TGTCTTCAACCAGCTCGCATCACAACTGAAAGAGGCAAGGTTTA
Found at i:4016368 original size:6 final size:6
Alignment explanation
Indices: 4016352--4016409 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
4016342 TGACTTCGAT
* *
4016352 TTTTTG ATTTTTG TTTTTG TTTTT- TTTGTT- TTGTTTT TTTTTG TTTTTC
1 TTTTTG -TTTTTG TTTTTG TTTTTG TTT-TTG TT-TTTG TTTTTG TTTTTG
4016401 TTTTT- TTTT
1 TTTTTG TTTT
4016410 GAGACTGAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 7 0.15
6 30 0.65
7 9 0.20
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:4016369 original size:15 final size:14
Alignment explanation
Indices: 4016359--4016408 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
4016349 GATTTTTTGA
4016359 TTTTTGTTTTTGTTT
1 TTTTTGTTTTT-TTT
4016374 TTTTTGTTTTGTTTT
1 TTTTTGTTTT-TTTT
4016389 TTTTTGTTTTTCTTT
1 TTTTTGTTTTT-TTT
4016404 TTTTT
1 TTTTT
4016409 TGAGACTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.03
15 31 0.94
16 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:4016374 original size:5 final size:5
Alignment explanation
Indices: 4016360--4016398 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
4016350 ATTTTTTGAT
*
4016360 TTTTG TTTTTG TTTT- TTTTG TTTTG TTTTT TTTTG TTTT
1 TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
4016399 TCTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (5 bp):
TTTTG
Found at i:4016374 original size:20 final size:19
Alignment explanation
Indices: 4016351--4016393 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4016341 TTGACTTCGA
*
4016351 TTTTTTGAT-TTTTGTTTT
1 TTTTTTTATGTTTTGTTTT
*
4016369 TGTTTTTTTTGTTTTGTTTT
1 T-TTTTTTATGTTTTGTTTT
4016389 TTTTT
1 TTTTT
4016394 GTTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (19 bp):
TTTTTTTATGTTTTGTTTT
Found at i:4016398 original size:20 final size:20
Alignment explanation
Indices: 4016360--4016410 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4016350 ATTTTTTGAT
4016360 TTTTGTTTTTGTTTTTTTTG
1 TTTTGTTTTTGTTTTTTTTG
* *
4016380 TTTTGTTTTTTTTTGTTTTTC
1 TTTTGTTTTTGTTT-TTTTTG
4016401 TTTT-TTTTTG
1 TTTTGTTTTTG
4016411 AGACTGAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (20 bp):
TTTTGTTTTTGTTTTTTTTG
Found at i:4024464 original size:18 final size:19
Alignment explanation
Indices: 4024427--4024466 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4024417 AAAAAAACAT
*
4024427 TTTAATTTTCCTATTATTA
1 TTTAATTTTACTATTATTA
*
4024446 TTTATTTTTACTATT-TTA
1 TTTAATTTTACTATTATTA
4024464 TTT
1 TTT
4024467 TTGCAGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTAATTTTACTATTATTA
Found at i:4032587 original size:22 final size:21
Alignment explanation
Indices: 4032562--4032603 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4032552 AAAAAAACAT
*
4032562 TTTAATTTTCCTATTATTATTA
1 TTTAATTTTACTATT-TTATTA
*
4032584 TTTATTTTTACTATTTTATT
1 TTTAATTTTACTATTTTATT
4032604 TTTGCAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTAATTTTACTATTTTATTA
Found at i:4037338 original size:180 final size:180
Alignment explanation
Indices: 4036996--4037327 Score: 479
Period size: 180 Copynumber: 1.9 Consensus size: 180
4036986 GCACTCTCGT
* * * * *
4036996 AATAAAAATAAGTAATATTATTCAAAGATATTTTAAATTAATATTATTTGAGGGTATTTTTGTTT
1 AATAAAAATAAGTAATATTATTCAAAGATATTTTAAAGTAATATTAGTGGAGGGTATTTTCGTCT
* * *
4037061 TTTCACTTTAAAAAATCAAAGAAAATTATGGGAATGCCCTTCCGTAATAAAAATAAGTAAAATTA
66 TTTCACTTTAAAAAATCAAAGAAAATTATGAGAATACCCTTCCATAATAAAAATAAGTAAAATTA
4037126 TTCGAGGATATTTTAATCTTTTTACATAAAAAAATAATAAGCCTTTCTGC
131 TTCGAGGATATTTTAATCTTTTTACATAAAAAAATAATAAGCCTTTCTGC
* * ** * *
4037176 AATAAAAATAATTAATATTGTTTGAGGATATTTTAAAGTAATATTAGTGGATGGTATTTTCGTCT
1 AATAAAAATAAGTAATATTATTCAAAGATATTTTAAAGTAATATTAGTGGAGGGTATTTTCGTCT
* * * *
4037241 TTTCACTTTACAATAATCAAA-TAAATTATGAG-ATACCCTTCTATAATAAAAATAAGTAATATT
66 TTTCACTTTA-AAAAATCAAAGAAAATTATGAGAATACCCTTCCATAATAAAAATAAGTAAAATT
4037304 ATTCGAGGATATTTTAATCTTTTT
130 ATTCGAGGATATTTTAATCTTTTT
4037328 GCTGTAAAAA
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
179 51 0.38
180 73 0.55
181 9 0.07
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (180 bp):
AATAAAAATAAGTAATATTATTCAAAGATATTTTAAAGTAATATTAGTGGAGGGTATTTTCGTCT
TTTCACTTTAAAAAATCAAAGAAAATTATGAGAATACCCTTCCATAATAAAAATAAGTAAAATTA
TTCGAGGATATTTTAATCTTTTTACATAAAAAAATAATAAGCCTTTCTGC
Found at i:4045695 original size:24 final size:24
Alignment explanation
Indices: 4045666--4045727 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
4045656 GAATTCAGAT
*
4045666 GAGGATGGTATTGACGGTTCTAAG
1 GAGGATGGAATTGACGGTTCTAAG
*
4045690 GAGGATGGCATTGACGGTTCTAAG
1 GAGGATGGAATTGACGGTTCTAAG
4045714 GAGGATGGAATTGA
1 GAGGATGGAATTGA
4045728 TAGAACTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.39, T:0.26
Consensus pattern (24 bp):
GAGGATGGAATTGACGGTTCTAAG
Found at i:4050480 original size:36 final size:36
Alignment explanation
Indices: 4050432--4050505 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
4050422 CATATAGCAG
* *
4050432 TTCTACCAAGTATGCTATTATCAATGATGGGGGAAA
1 TTCTACCAAGTATGCTATAATCAATAATGGGGGAAA
*
4050468 TTCTACCTAGTATGCTATAATCAATAATGGGGGAAA
1 TTCTACCAAGTATGCTATAATCAATAATGGGGGAAA
4050504 TT
1 TT
4050506 TTTTGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (36 bp):
TTCTACCAAGTATGCTATAATCAATAATGGGGGAAA
Found at i:4058587 original size:15 final size:16
Alignment explanation
Indices: 4058552--4058590 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4058542 TATTATGAAT
*
4058552 ATATTTTTTTAAGTTT
1 ATATTTTTTTAAGTTC
*
4058568 TTATTTTTTTAA-TTC
1 ATATTTTTTTAAGTTC
4058583 ATATTTTT
1 ATATTTTT
4058591 AATTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
ATATTTTTTTAAGTTC
Found at i:4059793 original size:22 final size:20
Alignment explanation
Indices: 4059768--4059815 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
4059758 ATTTTCATAT
4059768 ATATTATTATATTACTTATAAA
1 ATATTATTATATTA--TATAAA
* *
4059790 ATATTATTATTTTATGTAAA
1 ATATTATTATATTATATAAA
4059810 ATATTA
1 ATATTA
4059816 AATAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.46
22 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTATTATATTATATAAA
Found at i:4062150 original size:11 final size:11
Alignment explanation
Indices: 4062136--4062160 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4062126 AAGAGAATGG
4062136 AAAAAAAAAGA
1 AAAAAAAAAGA
4062147 AAAAAAAAAGA
1 AAAAAAAAAGA
4062158 AAA
1 AAA
4062161 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:4062598 original size:31 final size:29
Alignment explanation
Indices: 4062560--4062657 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 29
4062550 TTAACGACTC
* *
4062560 AGTGACTAAAATGTTACAATACTATAACGTA
1 AGTGACTAAAATGTAAC-ATACTA-AACATA
**
4062591 AGTGACTAAAATGTAACATTTTAAACATA
1 AGTGACTAAAATGTAACATACTAAACATA
* *
4062620 AGTGACTAAAATGTAATATAAGGTAAACA-A
1 AGTGACTAAAATGTAACAT-A-CTAAACATA
4062650 AGTGACTA
1 AGTGACTA
4062658 TTTTAGTAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.40
30 13 0.22
31 22 0.38
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATACTAAACATA
Found at i:4062631 original size:29 final size:31
Alignment explanation
Indices: 4062560--4062635 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
4062550 TTAACGACTC
* *
4062560 AGTGACTAAAATGTTACAATACTATAACGTA
1 AGTGACTAAAATGTAACAATACTATAACATA
**
4062591 AGTGACTAAAATGTAAC-ATTTTA-AACATA
1 AGTGACTAAAATGTAACAATACTATAACATA
4062620 AGTGACTAAAATGTAA
1 AGTGACTAAAATGTAA
4062636 TATAAGGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 21 0.51
30 4 0.10
31 16 0.39
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACTATAACATA
Found at i:4064368 original size:24 final size:24
Alignment explanation
Indices: 4064341--4064388 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4064331 AAGATTTAGT
4064341 ATTTATTAATATAATATATTTGAC
1 ATTTATTAATATAATATATTTGAC
* * *
4064365 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAATATAATATATTTGAC
4064389 TTACTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTATTAATATAATATATTTGAC
Found at i:4067034 original size:24 final size:24
Alignment explanation
Indices: 4067007--4067075 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
4066997 TGTTTAGAAG
*
4067007 ATTTAATATTTATTAGTATAATAT
1 ATTTAATATTTATTAATATAATAT
*
4067031 ATTTAGTATTTATTAATATAATAT
1 ATTTAATATTTATTAATATAATAT
* *
4067055 ATTTGACATTTATTAATATAA
1 ATTTAATATTTATTAATATAA
4067076 AAATCTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTAATATTTATTAATATAATAT
Found at i:4068260 original size:3 final size:3
Alignment explanation
Indices: 4068252--4068285 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4068242 TTTTGTTCTG
4068252 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4068286 TTCGAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4072188 original size:44 final size:45
Alignment explanation
Indices: 4072097--4072189 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
4072087 TTCGCTATAT
*
4072097 TGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAA
1 TGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGGAA
* *
4072142 TGGAATAGAGGCGTAATAG-TAATC-TTGTGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGGAA
4072186 TGGA
1 TGGA
4072190 GGTGTAATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.55
45 19 0.43
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.32
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGGAA
Found at i:4072483 original size:56 final size:56
Alignment explanation
Indices: 4072416--4072727 Score: 236
Period size: 56 Copynumber: 5.2 Consensus size: 56
4072406 TATTAAATAT
* *
4072416 AATTTAATAAAAATATATAATTTAATAGAATTCTTAATATTAAATATTCTTAAATG
1 AATTTACTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* * * * *
4072472 AATTTACT-AAAATCATAATATATAATACTATAAAATATAATTTAA-AATAATTATTATTAAAAA
1 AATTTACTAAAAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTTAATATTAAATATTCTT--AAA
*
4072535 TAT
55 T-G
*
4072538 AATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
1 AATTTACTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* * * * *
4072594 AATTTACT-AAAATCATAATATATAATACTATAAAATATAATTTAA-AATAATTATTATTAAAAA
1 AATTTACTAAAAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTTAATATTAAATATTCTT--AAA
*
4072657 TAT
55 T-G
*
4072660 AATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
1 AATTTACTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
4072716 AATTTACTAAAA
1 AATTTACTAAAA
4072728 TCATAATATA
Statistics
Matches: 198, Mismatches: 30, Indels: 56
0.70 0.11 0.20
Matches are distributed among these distances:
55 10 0.05
56 29 0.15
57 14 0.07
58 12 0.06
59 24 0.12
60 2 0.01
61 27 0.14
62 2 0.01
63 24 0.12
64 12 0.06
65 14 0.07
66 18 0.09
67 10 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (56 bp):
AATTTACTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
Found at i:4072535 original size:28 final size:28
Alignment explanation
Indices: 4072503--4072665 Score: 84
Period size: 28 Copynumber: 5.5 Consensus size: 28
4072493 ATAATACTAT
4072503 AAAATATAATTTAAAATAATTATTATTA
1 AAAATATAATTTAAAATAATTATTATTA
*
4072531 AAAATATAATTTAGTAAA-AATATATAATTTA
1 AAAATATAATTTA--AAATAAT-TATTA-TTA
* * *
4072562 ATAAA-AT--TCTTAATATTAAATATTCTTA
1 A-AAATATAAT-TTAA-AATAATTATTATTA
* * * *
4072590 AATGAAT-TTACTAAAATCATAATATATAATACTA
1 AA--AATATAATTTAAA--ATAAT-TAT--TATTA
4072624 TAAAATATAATTTAAAATAATTATTATTA
1 -AAAATATAATTTAAAATAATTATTATTA
4072653 AAAATATAATTTA
1 AAAATATAATTTA
4072666 GTAAAAATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 40
0.65 0.10 0.26
Matches are distributed among these distances:
27 1 0.01
28 31 0.31
29 16 0.16
30 15 0.15
31 12 0.12
32 11 0.11
33 3 0.03
34 9 0.09
35 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAATATAATTTAAAATAATTATTATTA
Found at i:4072549 original size:15 final size:16
Alignment explanation
Indices: 4072503--4072567 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
4072493 ATAATACTAT
4072503 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
4072518 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
4072531 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
4072548 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
4072565 AAA
1 AAA
4072568 TTCTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:4072555 original size:18 final size:17
Alignment explanation
Indices: 4072530--4072567 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
4072520 AATTATTATT
*
4072530 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
4072547 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
4072565 AAA
1 AAA
4072568 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:4072586 original size:122 final size:121
Alignment explanation
Indices: 4072301--4072868 Score: 852
Period size: 122 Copynumber: 4.8 Consensus size: 121
4072291 ATTATTAATA
* * *
4072301 TAAATAATAAATAATTTAATAAAATTCTTAATATTTAAATATTCTTATATGAACTTACTAAAATC
1 TAAA-AATATATAATTTAATAAAATTCTTAATA-TTAAATATTCTTAAATGAATTTACTAAAATC
*
4072366 ATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAATATAATTTAA
64 ATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATATAATTTAG
*
4072423 TAAAAATATATAATTTAATAGAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
1 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
4072488 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAG
66 AATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATATAATTTAG
4072545 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
1 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
4072610 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAG
66 AATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATATAATTTAG
4072667 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
1 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
* * *
4072732 AATATATAATACTATAAAATATAATTTATATTAATTATT-TTTAAATATAATTTA-
66 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATATAATTTAG
* * * *
4072786 -ATAAA-AT-T-A-TTAAT---A---TTAA-A-T-ATTCTT-AT--ATGAATTTACTAAAATCAT
1 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
4072834 AATATATAATACTATAAAATATAATTTAAAATAAT
66 AATATATAATACTATAAAATATAATTTAAAATAAT
4072869 AAAATTTGAA
Statistics
Matches: 429, Mismatches: 15, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
102 52 0.12
104 1 0.00
105 4 0.01
106 1 0.00
107 1 0.00
108 4 0.01
111 1 0.00
114 5 0.01
115 1 0.00
116 1 0.00
117 2 0.00
118 4 0.01
120 85 0.20
121 28 0.07
122 239 0.56
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (121 bp):
TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCAT
AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATATAATTTAG
Found at i:4072671 original size:15 final size:16
Alignment explanation
Indices: 4072625--4072689 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
4072615 ATAATACTAT
4072625 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
4072640 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
4072653 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
4072670 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
4072687 AAA
1 AAA
4072690 TTCTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:4072677 original size:18 final size:17
Alignment explanation
Indices: 4072652--4072689 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
4072642 AATTATTATT
*
4072652 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
4072669 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
4072687 AAA
1 AAA
4072690 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:4072787 original size:102 final size:102
Alignment explanation
Indices: 4072674--4072861 Score: 358
Period size: 102 Copynumber: 1.8 Consensus size: 102
4072664 TAGTAAAAAT
*
4072674 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTATTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
4072739 AATACTATAAAATATAATTTATATTAATTATTTTTAA
66 AATACTATAAAATATAATTTATATTAATTATTTTTAA
*
4072776 ATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTATTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
4072841 AATACTATAAAATATAATTTA
66 AATACTATAAAATATAATTTA
4072862 AAATAATAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (102 bp):
ATATAATTTAATAAAATTATTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTATATTAATTATTTTTAA
Found at i:4072913 original size:20 final size:20
Alignment explanation
Indices: 4072866--4072904 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4072856 AATTTAAAAT
*
4072866 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
4072886 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
4072905 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:4083837 original size:21 final size:21
Alignment explanation
Indices: 4083805--4083859 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
4083795 TAAAGTTTTA
*
4083805 AAATTATATAAAATTATAAAT
1 AAATTATTTAAAATTATAAAT
*
4083826 AATTTATTTAAAATTATAAAT
1 AAATTATTTAAAATTATAAAT
*
4083847 AAATAATTTAAAA
1 AAATTATTTAAAA
4083860 ATAAATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTATTTAAAATTATAAAT
Found at i:4085438 original size:44 final size:42
Alignment explanation
Indices: 4085388--4085487 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
4085378 AATCCGACCT
* *
4085388 ACTGCAACTTCAGAGGTACAAGATTCA-TTGTTTTAATCTGCTCC
1 ACTGCAACTTCAGAGG-A-AAGA-TCATTTGCTATAATCTGCTCC
* * *
4085432 ACTGCAACTTCAG-GGAAATATGATTTGCTATAATCTGCTCT
1 ACTGCAACTTCAGAGGAAAGATCATTTGCTATAATCTGCTCC
4085473 ACTGCAACTTCAGAG
1 ACTGCAACTTCAGAG
4085488 AGGTAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.04
41 30 0.61
42 2 0.04
43 2 0.04
44 13 0.27
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
ACTGCAACTTCAGAGGAAAGATCATTTGCTATAATCTGCTCC
Found at i:4085614 original size:95 final size:94
Alignment explanation
Indices: 4085422--4085687 Score: 256
Period size: 95 Copynumber: 2.8 Consensus size: 94
4085412 TCATTGTTTT
* * * * *
4085422 AATCTGCTCCACTGCAACTTCAGGGAAATATGATT-T-GCTATAATCTGCTCTACTGCAACTTCA
1 AATCTGATCTACTGCAACTTCAGGAAAATAGGATTGTAGCTTTAATCTGCTCTACTGCAACTTCA
* * *
4085485 GAGAGGTAAGATTTGTAATTTATAACTTC
66 GGGAGATAAGATTTGTAATTGATAACTTC
* *
4085514 AATCTGTTCTACTGCAACTTCAGGAAAATAGGATTAGTAGCTTTAATCTGCTCCACTGCAACTTC
1 AATCTGATCTACTGCAACTTCAGGAAAATAGGATT-GTAGCTTTAATCTGCTCTACTGCAACTTC
* *
4085579 AGGGAGATAAGATTTG-ACATTGGTGAA-TTT
65 AGGGAGATAAGATTTGTA-ATTGAT-AACTTC
* * * ** * * *
4085609 GATCTGACCTACTGCAACTTTA-GAGGTATAGGATTTGTCA-TTTTAATCCGTTCTACTGCAACT
1 AATCTGATCTACTGCAACTTCAGGA-AAATAGGA-TTGT-AGCTTTAATCTGCTCTACTGCAACT
4085672 TCAGGGAGATAAGATT
63 TCAGGGAGATAAGATT
4085688 GGTATCTTCA
Statistics
Matches: 145, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
92 31 0.21
94 4 0.03
95 105 0.72
96 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (94 bp):
AATCTGATCTACTGCAACTTCAGGAAAATAGGATTGTAGCTTTAATCTGCTCTACTGCAACTTCA
GGGAGATAAGATTTGTAATTGATAACTTC
Found at i:4085711 original size:44 final size:43
Alignment explanation
Indices: 4085663--4085912 Score: 171
Period size: 44 Copynumber: 5.6 Consensus size: 43
4085653 AATCCGTTCT
*
4085663 ACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-GTATCTTCAATCTGCTCC
* * ** * * * **
4085707 ACTGCAACTTTAGGGAGATAAGGTTAAAT-AT-AATATTCTTT
1 ACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTGCTCC
* ** * *
4085748 ATTGCAACTTCAAAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGA--T----TGTAT--CTTCAATCTGCTCC
* * * *
4085799 ACTTCAACTTCAGGGAAATAATATTTGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTG-TATCTTCAATCTGCTCC
* * * *
4085844 ACTGTAACTTCAGGGAAATAAGACTTGTAACTTCAATCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTGCTCC
4085888 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
4085913 CACCATAATG
Statistics
Matches: 153, Mismatches: 42, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
41 23 0.15
42 1 0.01
43 5 0.03
44 58 0.38
45 35 0.23
46 1 0.01
47 6 0.04
50 2 0.01
51 22 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTGCTCC
Found at i:4085834 original size:45 final size:44
Alignment explanation
Indices: 4085785--4085910 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 44
4085775 CAATTTATAG
* * * *
4085785 CTTCAATCTGTTCCACTTCAACTTCAGGGAAATAATATTTGCTAT
1 CTTCAATCTGCTCCACTTCAACTTCAGGGAAATAAGACTTG-TAA
*
4085830 CTTCAGTCTGCTCCACTGT-AACTTCAGGGAAATAAGACTTGTAA
1 CTTCAATCTGCTCCACT-TCAACTTCAGGGAAATAAGACTTGTAA
* * *
4085874 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGA
1 CTTCAATCTGCTCCACTTCAACTTCAGGGAAATAAGA
4085911 TTCACCATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 34 0.49
45 35 0.50
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTTCAACTTCAGGGAAATAAGACTTGTAA
Found at i:4087270 original size:25 final size:24
Alignment explanation
Indices: 4087222--4087279 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
4087212 ATTTTTGTTC
* *
4087222 TTTGTTTTTTTGTCTTTTTGTTTT
1 TTTGTTTTTTTGACTTTTTATTTT
4087246 TTTGTCTTTTTTGACTTTTTATTTTT
1 TTTGT-TTTTTTGACTTTTTA-TTTT
4087272 TTTGTTTT
1 TTTGTTTT
4087280 CTACTGTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 5 0.17
25 16 0.53
26 9 0.30
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.81
Consensus pattern (24 bp):
TTTGTTTTTTTGACTTTTTATTTT
Found at i:4087279 original size:8 final size:8
Alignment explanation
Indices: 4087213--4087279 Score: 66
Period size: 8 Copynumber: 8.2 Consensus size: 8
4087203 GAGGTTTTTA
4087213 TTTTTG-T
1 TTTTTGTT
*
4087220 TCTTTGTT
1 TTTTTGTT
*
4087228 TTTTTGTC
1 TTTTTGTT
4087236 TTTTTGTT
1 TTTTTGTT
4087244 TTTTTGTCT
1 TTTTTGT-T
4087253 TTTTTGACTT
1 TTTTTG--TT
*
4087263 TTTAT-TT
1 TTTTTGTT
4087270 TTTTTGTT
1 TTTTTGTT
4087278 TT
1 TT
4087280 CTACTGTCGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 11 0.22
8 25 0.51
9 7 0.14
10 5 0.10
11 1 0.02
ACGTcount: A:0.03, C:0.06, G:0.10, T:0.81
Consensus pattern (8 bp):
TTTTTGTT
Found at i:4087936 original size:30 final size:31
Alignment explanation
Indices: 4087881--4087941 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
4087871 TAAAAAATGA
*
4087881 AATAAAAGAATATTTTGGCTATGAATGAAAT
1 AATAAAAGAATATTTTAGCTATGAATGAAAT
*
4087912 AATAAAAGAATA-TTTAGTTATGAATGAAAT
1 AATAAAAGAATATTTTAGCTATGAATGAAAT
4087942 GAAAAGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.33
Consensus pattern (31 bp):
AATAAAAGAATATTTTAGCTATGAATGAAAT
Found at i:4096625 original size:6 final size:6
Alignment explanation
Indices: 4096597--4096637 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
4096587 TTCTTAAGTA
*
4096597 AAAAAG AAAAAA AAAGAAG -AAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAA
4096638 ATATTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 3 0.10
6 26 0.84
7 2 0.06
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4097300 original size:42 final size:43
Alignment explanation
Indices: 4097225--4097410 Score: 222
Period size: 42 Copynumber: 4.4 Consensus size: 43
4097215 CGCTACTGAA
* *
4097225 TCTTTAGTGGCGCTTAGGAAAAAAACACCGCTAAAGATCATGT
1 TCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGT
4097268 TCTTTAGCGGCGCTT-GGAAAAAAACGCCGCTAAAGATCATGT
1 TCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGT
* * *
4097310 TCTTTAGCGGCGTTTAGGAAGAAAACGCCGCTAAA-AGTAATGT
1 TCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCATGT
* * *
4097353 TCTATAGTGGCGCTT-GGTAAAAAACGCCGCTAAA-AGT-AGTGT
1 TCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCA-TGT
4097395 TCTTTCA-CGGCGCTTA
1 TCTTT-AGCGGCGCTTA
4097411 TTTCACAAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 75 0.60
43 50 0.40
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGT
Found at i:4097368 original size:85 final size:85
Alignment explanation
Indices: 4097225--4097410 Score: 236
Period size: 85 Copynumber: 2.2 Consensus size: 85
4097215 CGCTACTGAA
* * *
4097225 TCTTTAGTGGCGCTTAGGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGAAAAA
1 TCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAAAGATAATGTTCTATAGCGGCGCTTGGAAAAA
4097290 AACGCCGCTAAAGATCATGT
66 AACGCCGCTAAAGATCATGT
* * * * *
4097310 TCTTTAGCGGCGTTTAGGAAGAAAACGCCGCTAAA-AGTAATGTTCTATAGTGGCGCTTGGTAAA
1 TCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAAAGA-TAATGTTCTATAGCGGCGCTTGGAAAA
4097374 AAACGCCGCTAAA-AGT-AGTGT
65 AAACGCCGCTAAAGA-TCA-TGT
4097395 TCTTTCA-CGGCGCTTA
1 TCTTT-AGCGGCGCTTA
4097411 TTTCACAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
84 3 0.03
85 84 0.95
86 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (85 bp):
TCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAAAGATAATGTTCTATAGCGGCGCTTGGAAAAA
AACGCCGCTAAAGATCATGT
Found at i:4097884 original size:21 final size:21
Alignment explanation
Indices: 4097860--4097916 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4097850 TTTCTCTCGC
*
4097860 TGCTTCTCTCGCTGCGGCCTT
1 TGCTTCTCTCGCTGCAGCCTT
**
4097881 TGCTTCTCTCGCTATAGCCTT
1 TGCTTCTCTCGCTGCAGCCTT
*
4097902 TGCTTCCCTCGCTGC
1 TGCTTCTCTCGCTGC
4097917 CGCCCTGCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.39, G:0.19, T:0.39
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTT
Found at i:4101301 original size:9 final size:9
Alignment explanation
Indices: 4101284--4101579 Score: 194
Period size: 9 Copynumber: 33.7 Consensus size: 9
4101274 TATGTATTAA
*
4101284 GTAAATTAT
1 GTAAGTTAT
4101293 GTAAGTTAT
1 GTAAGTTAT
*
4101302 GTACGTGTA-
1 GTAAGT-TAT
4101311 -TAAGTTAT
1 GTAAGTTAT
4101319 GTAAGTTAT
1 GTAAGTTAT
*
4101328 GT-A-TTAA
1 GTAAGTTAT
*
4101335 GTAAGCTAT
1 GTAAGTTAT
*
4101344 GTAAGTTGT
1 GTAAGTTAT
4101353 GT-A-TTAT
1 GTAAGTTAT
4101360 GTAAGTTAT
1 GTAAGTTAT
4101369 GTAAGTTAT
1 GTAAGTTAT
** *
4101378 CAAAGTAAT
1 GTAAGTTAT
*
4101387 GTATGTTAT
1 GTAAGTTAT
4101396 GTAAG-T-T
1 GTAAGTTAT
4101403 GTAAGTTATTAT
1 GTAAG---TTAT
4101415 GTAAGTTAT
1 GTAAGTTAT
4101424 GTAAGTTAAAT
1 GTAAGTT--AT
4101435 GT-A-TTAT
1 GTAAGTTAT
*
4101442 GTAGGTTAT
1 GTAAGTTAT
*
4101451 GTAAGTTGT
1 GTAAGTTAT
* *
4101460 GTCAGATAT
1 GTAAGTTAT
*
4101469 TTAAGTTAT
1 GTAAGTTAT
*
4101478 GTAAGTTTTTT
1 GTAAG--TTAT
4101489 GT-A-TTAT
1 GTAAGTTAT
4101496 GTAAGTTAT
1 GTAAGTTAT
* *
4101505 GTTA-TTAC
1 GTAAGTTAT
4101513 GTAAGTTAT
1 GTAAGTTAT
*
4101522 GCAAGTTAT
1 GTAAGTTAT
4101531 GT---TTAT
1 GTAAGTTAT
*
4101537 -AACGAGTTAT
1 GTA--AGTTAT
*
4101547 GTAAGCTAT
1 GTAAGTTAT
4101556 GTAAGTTAT
1 GTAAGTTAT
4101565 GTAAGTTAT
1 GTAAGTTAT
*
4101574 TTAAGT
1 GTAAGT
4101580 GGTGTATTAA
Statistics
Matches: 220, Mismatches: 40, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
6 4 0.02
7 27 0.12
8 16 0.07
9 148 0.67
10 8 0.04
11 11 0.05
12 6 0.03
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:4101416 original size:19 final size:21
Alignment explanation
Indices: 4101392--4101768 Score: 101
Period size: 21 Copynumber: 18.3 Consensus size: 21
4101382 GTAATGTATG
4101392 TTATGTAAG-T-TGTAAGTTA
1 TTATGTAAGTTATGTAAGTTA
4101411 TTATGTAAGTTATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTA
* *
4101432 -AATGT-A-TTATGT-AG--G
1 TTATGTAAGTTATGTAAGTTA
* *
4101447 TTATGTAAGTTGTGTCAG--A
1 TTATGTAAGTTATGTAAGTTA
*
4101466 -TATTTAAGTTATGTAAGTT-
1 TTATGTAAGTTATGTAAGTTA
*
4101485 TTTTGT-A-TTATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTA
*
4101504 TGTTATTACGTAAGTTATGCAAGTTA
1 --TTA-T--GTAAGTTATGTAAGTTA
* *
4101530 TGTTTATAACGAGTTATGTAAG---
1 T-TATGT-A--AGTTATGTAAGTTA
*
4101552 CTATGTAAGTTATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTA
* *
4101573 TTTAAGT-GGTGTAT-TAAGTTA
1 -TTATGTAAGT-TATGTAAGTTA
* * *
4101594 TGGAAGTTA-TTATGTAAGTTA
1 T-TATGTAAGTTATGTAAGTTA
* * * * *
4101615 TGCAAGATTA-TAATATAAGTTA
1 T-TATG-TAAGTTATGTAAGTTA
* *
4101637 TGTAT-TATGTTAT-TATG-TA
1 T-TATGTAAGTTATGTAAGTTA
*
4101656 TTATGTAATGTT-T-TATGTTA
1 TTATGTAA-GTTATGTAAGTTA
* *
4101676 TTATATATAAGTTATGGAAGTTA
1 -T-TATGTAAGTTATGTAAGTTA
*
4101699 TTATGTAAGTTATGCAAGCTTA
1 TTATGTAAGTTATGTAAG-TTA
*
4101721 -TATATAAGTTATGTATTATGTTA
1 TTATGTAAGTTATGTA--A-GTTA
*
4101744 TTATGT-A-TTATGTAATTTA
1 TTATGTAAGTTATGTAAGTTA
4101763 TTATGT
1 TTATGT
4101769 TATTATATAT
Statistics
Matches: 273, Mismatches: 42, Indels: 86
0.68 0.10 0.21
Matches are distributed among these distances:
16 4 0.01
17 3 0.01
18 50 0.18
19 32 0.12
20 23 0.08
21 75 0.27
22 43 0.16
23 11 0.04
24 9 0.03
25 12 0.04
26 11 0.04
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (21 bp):
TTATGTAAGTTATGTAAGTTA
Found at i:4101430 original size:55 final size:52
Alignment explanation
Indices: 4101311--4101530 Score: 183
Period size: 55 Copynumber: 4.3 Consensus size: 52
4101301 TGTACGTGTA
** * *
4101311 TAAGTTATGTAAGTTATGTATTAA-GTAAGCTATGTAAGTTGTG-TATTATG
1 TAAGTTATGTAAGTTATAAAGTAATGTAAGTTATGTAAGTTGTGTTATTATG
*
4101361 TAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATG
1 TAAGTTATGTAAGTTAT-AAAGTAATGTAAGTTATGTAAGTTGT--GTTATTATG
* * * * *
4101416 TAAGTTATGTAAGTTA-AATGTATTATGTAGGTTATGTAAGTTGTGTCAGATATT
1 TAAGTTATGTAAGTTATAAAGTA--ATGTAAGTTATGTAAGTTGTGTTA-TTATG
* * *
4101470 TAAGTTATGTAAGTT-T----T-TTGT-A-TTATGTAAGTTATGTTATTACG
1 TAAGTTATGTAAGTTATAAAGTAATGTAAGTTATGTAAGTTGTGTTATTATG
*
4101514 TAAGTTATGCAAGTTAT
1 TAAGTTATGTAAGTTAT
4101531 GTTTATAACG
Statistics
Matches: 142, Mismatches: 18, Indels: 25
0.77 0.10 0.14
Matches are distributed among these distances:
44 16 0.11
45 16 0.11
47 3 0.02
50 18 0.13
51 4 0.03
52 16 0.11
53 8 0.06
54 19 0.13
55 42 0.30
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (52 bp):
TAAGTTATGTAAGTTATAAAGTAATGTAAGTTATGTAAGTTGTGTTATTATG
Found at i:4101516 original size:17 final size:17
Alignment explanation
Indices: 4101490--4101522 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4101480 AAGTTTTTTG
*
4101490 TATTATGTAAGTTATGT
1 TATTACGTAAGTTATGT
4101507 TATTACGTAAGTTATG
1 TATTACGTAAGTTATG
4101523 CAAGTTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (17 bp):
TATTACGTAAGTTATGT
Found at i:4101633 original size:22 final size:21
Alignment explanation
Indices: 4101587--4101638 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
4101577 AGTGGTGTAT
* * *
4101587 TAAGTTATGGAAGTTATTATG
1 TAAGTTATGCAAGTTATAATA
4101608 TAAGTTATGCAAGATTATAATA
1 TAAGTTATGCAAG-TTATAATA
4101630 TAAGTTATG
1 TAAGTTATG
4101639 TATTATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (21 bp):
TAAGTTATGCAAGTTATAATA
Found at i:4101646 original size:7 final size:7
Alignment explanation
Indices: 4101634--4101679 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
4101624 ATAATATAAG
4101634 TTATGTA
1 TTATGTA
4101641 TTATGTTA
1 TTATG-TA
4101649 TTATGTA
1 TTATGTA
4101656 TTATGTA
1 TTATGTA
*
4101663 --ATGTT
1 TTATGTA
4101668 TTATGTTA
1 TTATG-TA
4101676 TTAT
1 TTAT
4101680 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 17 0.52
8 12 0.36
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:4101652 original size:27 final size:26
Alignment explanation
Indices: 4101621--4101786 Score: 127
Period size: 27 Copynumber: 6.7 Consensus size: 26
4101611 GTTATGCAAG
4101621 ATTATAATATAAGTTATGTATTATGTT
1 ATTAT-ATATAAGTTATGTATTATGTT
* * * *
4101648 ATTATGTATTATGTAATGTTTTATGTT
1 ATTATATA-TAAGTTATGTATTATGTT
*
4101675 ATTATATATAAGTTATGGA--A-GTT
1 ATTATATATAAGTTATGTATTATGTT
* *
4101698 A-T-TATGTAAGTTATGCA--A-G--
1 ATTATATATAAGTTATGTATTATGTT
*
4101717 CTTATATATAAGTTATGTATTATGTT
1 ATTATATATAAGTTATGTATTATGTT
* * * *
4101743 ATTATGTATTATGTAATTTATTATGTT
1 ATTATATA-TAAGTTATGTATTATGTT
4101770 ATTATATATAAGTTATG
1 ATTATATATAAGTTATG
4101787 GAAGTTATTA
Statistics
Matches: 107, Mismatches: 23, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.01
21 28 0.26
22 1 0.01
23 5 0.05
24 2 0.02
26 21 0.20
27 49 0.46
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (26 bp):
ATTATATATAAGTTATGTATTATGTT
Found at i:4101703 original size:31 final size:31
Alignment explanation
Indices: 4101668--4101799 Score: 92
Period size: 31 Copynumber: 4.2 Consensus size: 31
4101658 ATGTAATGTT
4101668 TTATGTTATTATATATAAGTTATGGAAGTTA
1 TTATGTTATTATATATAAGTTATGGAAGTTA
* * ** **
4101699 TTATGTAAGT-TATGCAAGCTTATATATAAGTTA
1 TTATGTTATTATATATAAG--T-TATGGAAGTTA
* * * *
4101732 TGTAT-TATGTTAT-TATGTA-TTATGTAATTTA
1 T-TATGT-TATTATATAT-AAGTTATGGAAGTTA
4101763 TTATGTTATTATATATAAGTTATGGAAGTTA
1 TTATGTTATTATATATAAGTTATGGAAGTTA
4101794 TTATGT
1 TTATGT
4101800 AAGTTATGCA
Statistics
Matches: 73, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
30 15 0.21
31 38 0.52
32 2 0.03
33 11 0.15
34 5 0.07
35 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (31 bp):
TTATGTTATTATATATAAGTTATGGAAGTTA
Found at i:4101747 original size:8 final size:7
Alignment explanation
Indices: 4101729--4101774 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
4101719 TATATATAAG
4101729 TTATGTA
1 TTATGTA
4101736 TTATGTTA
1 TTATG-TA
4101744 TTATGTA
1 TTATGTA
4101751 TTATGTA
1 TTATGTA
*
4101758 --ATTTA
1 TTATGTA
4101763 TTATGTTA
1 TTATG-TA
4101771 TTAT
1 TTAT
4101775 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:4101749 original size:95 final size:95
Alignment explanation
Indices: 4101587--4101848 Score: 456
Period size: 95 Copynumber: 2.7 Consensus size: 95
4101577 AGTGGTGTAT
*
4101587 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTA
1 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTAT-ATATAAGTTATGTATTATGTTATTA
4101652 TGTATTATGTAATGTT-TTATGTTATTATATA
65 TGTATTATGTAAT-TTATTATGTTATTATATA
4101683 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTATTATGTTATTAT
1 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTATTATGTTATTAT
4101748 GTATTATGTAATTTATTATGTTATTATATA
66 GTATTATGTAATTTATTATGTTATTATATA
* *
4101778 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATACCAA-TTATGTATTGTGTTATTA
1 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATA-TAAGTTATGTATTATGTTATTA
4101842 TGTATTA
65 TGTATTA
4101849 AGTGAGCAAA
Statistics
Matches: 161, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
94 2 0.01
95 119 0.74
96 40 0.25
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.48
Consensus pattern (95 bp):
TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTATTATGTTATTAT
GTATTATGTAATTTATTATGTTATTATATA
Found at i:4102541 original size:27 final size:27
Alignment explanation
Indices: 4102511--4102593 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
4102501 GGTTACCATA
4102511 TTAATACCTAAAAATGTTCTTACTTTC
1 TTAATACCTAAAAATGTTCTTACTTTC
* ** * ** *
4102538 TT-A-ACCCAAATTTGAAT-TTACCGTA
1 TTAATACCTAAAAATG-TTCTTACTTTC
4102563 TTAATACCTAAAAATGTTCTTACTTTC
1 TTAATACCTAAAAATGTTCTTACTTTC
4102590 TTAA
1 TTAA
4102594 CCCTAATTTG
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
25 15 0.39
26 4 0.11
27 19 0.50
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (27 bp):
TTAATACCTAAAAATGTTCTTACTTTC
Found at i:4102566 original size:52 final size:52
Alignment explanation
Indices: 4102503--4102608 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
4102493 ATGGTTAAGG
4102503 TTACCATATTAATACCTAAAAATGTTCTTACTTTCTTAACCCAAATTTGAAT
1 TTACCATATTAATACCTAAAAATGTTCTTACTTTCTTAACCCAAATTTGAAT
* *
4102555 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
1 TTACCATATTAATACCTAAAAATGTTCTTACTTTCTTAACCCAAATTTGAAT
4102607 TT
1 TT
4102609 TCTTATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (52 bp):
TTACCATATTAATACCTAAAAATGTTCTTACTTTCTTAACCCAAATTTGAAT
Found at i:4104415 original size:14 final size:13
Alignment explanation
Indices: 4104396--4104431 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
4104386 TCCCAGTTAC
4104396 CCCTAAACTTTAAA
1 CCCTAAAC-TTAAA
4104410 CCCTAACACTTAAA
1 CCCTAA-ACTTAAA
4104424 CCCTAAAC
1 CCCTAAAC
4104432 CGTAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (13 bp):
CCCTAAACTTAAA
Found at i:4104437 original size:14 final size:14
Alignment explanation
Indices: 4104396--4104437 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4104386 TCCCAGTTAC
*
4104396 CCCTAAACTTTAAA
1 CCCTAAACCTTAAA
4104410 CCCT-AACACTTAAA
1 CCCTAAAC-CTTAAA
*
4104424 CCCTAAACCGTAAA
1 CCCTAAACCTTAAA
4104438 ACATAATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 3 0.12
14 18 0.75
15 3 0.12
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.21
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:4104437 original size:28 final size:28
Alignment explanation
Indices: 4104396--4104468 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
4104386 TCCCAGTTAC
** *
4104396 CCCTAAACTTTAAACCCTAA-CACTTAAA
1 CCCTAAACCATAAACCATAATCAC-TAAA
* *
4104424 CCCTAAACCGTAAAACATAATCACTAAA
1 CCCTAAACCATAAACCATAATCACTAAA
*
4104452 CCCATAATCCATAAACC
1 CCC-TAAACCATAAACC
4104469 TTAAATTGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 23 0.64
29 13 0.36
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (28 bp):
CCCTAAACCATAAACCATAATCACTAAA
Found at i:4104500 original size:35 final size:35
Alignment explanation
Indices: 4104418--4104536 Score: 105
Period size: 35 Copynumber: 3.4 Consensus size: 35
4104408 AACCCTAACA
* * * *
4104418 CTTAAACCCTAAACCGTAAAACATAATCAC-TAAACC
1 CTTAAACCATAAACCCTAAAGCATAA-CCCTTAAA-C
* * * *** * *
4104454 CATAATCCATAAACCTTAAATTGTAACTCTTAAAT
1 CTTAAACCATAAACCCTAAAGCATAACCCTTAAAC
4104489 CTTAAACCATAAACCCTAAAGCATAACCCTTAAAC
1 CTTAAACCATAAACCCTAAAGCATAACCCTTAAAC
4104524 CTTAAACCATAAA
1 CTTAAACCATAAA
4104537 AACCAAACCC
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
35 42 0.65
36 23 0.35
ACGTcount: A:0.46, C:0.27, G:0.03, T:0.24
Consensus pattern (35 bp):
CTTAAACCATAAACCCTAAAGCATAACCCTTAAAC
Found at i:4104501 original size:14 final size:14
Alignment explanation
Indices: 4104484--4104536 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
4104474 TTGTAACTCT
*
4104484 TAAATCTTAAACCA
1 TAAACCTTAAACCA
* *
4104498 TAAACCCTAAAGCA
1 TAAACCTTAAACCA
* *
4104512 TAACCCTTAAACCT
1 TAAACCTTAAACCA
*
4104526 TAAACCATAAA
1 TAAACCTTAAA
4104537 AACCAAACCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:4104578 original size:43 final size:39
Alignment explanation
Indices: 4104523--4104617 Score: 97
Period size: 43 Copynumber: 2.4 Consensus size: 39
4104513 AACCCTTAAA
*
4104523 CCTTAAACCATAAAAACCAAACCC-TAAATCTATCCCAATAACC
1 CCTTAAAGCATAAAAACCAAACCCTTAAATC---CCC--TAACC
* *
4104566 CCTTAAAGCAT-AAACCCTAACCCTTAAATCCCCTAACC
1 CCTTAAAGCATAAAAACCAAACCCTTAAATCCCCTAACC
4104604 CC-TAAAGCATAAAA
1 CCTTAAAGCATAAAA
4104618 CCTAGCCCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
37 8 0.17
38 10 0.21
40 3 0.06
42 10 0.21
43 16 0.34
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (39 bp):
CCTTAAAGCATAAAAACCAAACCCTTAAATCCCCTAACC
Found at i:4104591 original size:21 final size:21
Alignment explanation
Indices: 4104565--4104651 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 21
4104555 TCCCAATAAC
4104565 CCCTTAAAGCATAAACCCTAA
1 CCCTTAAAGCATAAACCCTAA
*
4104586 CCCTT-AA--AT--CCCCTAA
1 CCCTTAAAGCATAAACCCTAA
* * *
4104602 CCCCTAAAGCATAAAACCTAG
1 CCCTTAAAGCATAAACCCTAA
* * *
4104623 CCCCTAAACCACAAAACCCTAA
1 CCCTTAAAGCA-TAAACCCTAA
*
4104645 ACCTTAA
1 CCCTTAA
4104652 TTCCCAAACC
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
16 10 0.20
17 2 0.04
18 2 0.04
19 2 0.04
20 2 0.04
21 19 0.39
22 12 0.24
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.17
Consensus pattern (21 bp):
CCCTTAAAGCATAAACCCTAA
Found at i:4104641 original size:37 final size:37
Alignment explanation
Indices: 4104554--4104645 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
4104544 CCCTAAATCT
* *
4104554 ATCCCAATAACCCCTTAAAGCATAAACCCTAACCCTTAA
1 ATCCCAA-AACCCC-TAAAGCATAAAACCTAACCCCTAA
** *
4104593 ATCCCCTAACCCCTAAAGCATAAAACCTAGCCCCTAA
1 ATCCCAAAACCCCTAAAGCATAAAACCTAACCCCTAA
4104630 A-CCACAAAA-CCCTAAA
1 ATCC-CAAAACCCCTAAA
4104646 CCTTAATTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 9 0.20
37 25 0.56
38 6 0.13
39 5 0.11
ACGTcount: A:0.42, C:0.38, G:0.03, T:0.16
Consensus pattern (37 bp):
ATCCCAAAACCCCTAAAGCATAAAACCTAACCCCTAA
Found at i:4105085 original size:114 final size:113
Alignment explanation
Indices: 4104849--4105521 Score: 838
Period size: 113 Copynumber: 5.9 Consensus size: 113
4104839 TAAATCCTTG
* * * * * * *
4104849 AGCATTAGCGACGCTTTATTAAAAACACCGTTAAACCCCCAAAAGCTAAGAAAA-TAGCGTCGTT
1 AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGA-CGTCGTT
* * * *
4104913 GGGTTTAATTTTTTTTACGACGCTTTCATAAAAACGCCGCTAAAGCCC-C
65 GGGCTT-AGTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTC
*
4104962 AGCATTAGCGGCGCATTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGACGTCGTT
1 AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAA-CCCCCGAAAGCTCAGAAAACGACGTCGTT
** *
4105027 GGGCTTAGTTTTTTTGCGGTAC-TTGATCAAAAACGCCGCTAAAGCCCTC
65 GGGCTTAGTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGCTAAAGCCCTC
* * *
4105076 AGCATTAGCGGCGCTTTATTAAAAACGCCACTAAACCCCCGAAAGCTAAGAAAAC-AGCGTCGTT
1 AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGA-CGTCGTT
* *
4105140 GGGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCC-C
65 GGGCTTAGTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTC
* * * *
4105188 AGCATTAACGGCGCATTATTGAAAATGCCGCTAAACCCCTCGAAAGCTCAGAAAACGGCGTCGTT
1 AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAACCCC-CGAAAGCTCAGAAAACGACGTCGTT
* * *
4105253 GGGCTTAGTTTTTTTGCGACG-TTTGATAAAAAACGCCGCTAAATCCCTC
65 GGGCTTAGTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGCTAAAGCCCTC
* * *
4105302 AGCATTAGCGGCGCTTTATTAAAAACACCGCTAAACCCCCGAAAGCTCA-ATAAACGGCGTCGTT
1 AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAACCCCCGAAAGCTCAGA-AAACGACGTCGTT
* * *
4105366 GGGTTTAATTTTTTTGCGGCGCTTTCATAAAAATGCCGCTAAAGCCCTC
65 GGGCTTAGTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTC
* ** * * *
4105415 AGCATTAGCGGCGCATTAGTGGAAACGCCGCTAAACCTCCCGATAGCTCAGTAAACGGCGTCGTT
1 AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAACC-CCCGAAAGCTCAGAAAACGACGTCGTT
* * *
4105480 GTGCTTAGTTCTTTTGCGGCGCTTTCACAAAAACGCCGCTAA
65 GGGCTTAGTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAA
4105522 TTCTTATTTT
Statistics
Matches: 486, Mismatches: 60, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
112 46 0.09
113 273 0.56
114 166 0.34
115 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (113 bp):
AGCATTAGCGGCGCATTATTAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGACGTCGTTG
GGCTTAGTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTC
Found at i:4105244 original size:226 final size:225
Alignment explanation
Indices: 4104849--4105521 Score: 1021
Period size: 226 Copynumber: 3.0 Consensus size: 225
4104839 TAAATCCTTG
* * * *
4104849 AGCATTAGCGACGCTTTATTAAAAACACCGTTAAACCCCCAAAAGCTAAGAAAATAGCGTCGTTG
1 AGCATTAGCGGCGCTTTATTAAAAACACCGCTAAACCCCCGAAAGCTAAGAAAACAGCGTCGTTG
* *
4104914 GGTTTAATTTTTTTTACGACGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATT
66 GGTTTAA-TTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATT
*
4104979 ATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGTTTTTTTGC
130 ATTGAAAACGCCGCTAAA-CCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGC
4105044 GGTAC-TTGATCAAAAACGCCGCTAAAGCCCTC
194 GG-ACTTTGATCAAAAACGCCGCTAAAGCCCTC
* *
4105076 AGCATTAGCGGCGCTTTATTAAAAACGCCACTAAACCCCCGAAAGCTAAGAAAACAGCGTCGTTG
1 AGCATTAGCGGCGCTTTATTAAAAACACCGCTAAACCCCCGAAAGCTAAGAAAACAGCGTCGTTG
*
4105141 GGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAACGGCGCATTA
66 GGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTA
*
4105206 TTGAAAATGCCGCTAAACCCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGC-
131 TTGAAAACGCCGCTAAACCCC-CGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCG
* *
4105270 GACGTTTGATAAAAAACGCCGCTAAATCCCTC
195 GAC-TTTGATCAAAAACGCCGCTAAAGCCCTC
* *
4105302 AGCATTAGCGGCGCTTTATTAAAAACACCGCTAAACCCCCGAAAGCTCAA-TAAACGGCGTCGTT
1 AGCATTAGCGGCGCTTTATTAAAAACACCGCTAAACCCCCGAAAGCT-AAGAAAACAGCGTCGTT
*
4105366 GGGTTTAATTTTTTTGCGGCGCTTTCATAAAAATGCCGCTAAAGCCCTCAGCATTAGCGGCGCAT
65 GGGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCC-CAGCATTAGCGGCGCAT
* * * * * *
4105431 TAGTGGAAACGCCGCTAAACCTCCCGATAGCTCAGTAAACGGCGTCGTTGTGCTTAGTTCTTTTG
129 TATTGAAAACGCCGCTAAACC-CCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTG
* *
4105496 CGGCGCTTTCA-CAAAAACGCCGCTAA
193 CGG-ACTTTGATCAAAAACGCCGCTAA
4105522 TTCTTATTTT
Statistics
Matches: 409, Mismatches: 29, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
224 2 0.00
225 5 0.01
226 240 0.59
227 154 0.38
228 7 0.02
229 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (225 bp):
AGCATTAGCGGCGCTTTATTAAAAACACCGCTAAACCCCCGAAAGCTAAGAAAACAGCGTCGTTG
GGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTA
TTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGG
ACTTTGATCAAAAACGCCGCTAAAGCCCTC
Found at i:4110509 original size:94 final size:95
Alignment explanation
Indices: 4110329--4110622 Score: 303
Period size: 94 Copynumber: 3.1 Consensus size: 95
4110319 TAAATAAGGG
* * * * *
4110329 ATTAGGGTTTAGGGTTTC-TCAATTAAATTAATTATAAAATTTT--CAAAATTGGATTA-AGTTT
1 ATTAGGGTTTAGGGTTACTTC-AGTAAATTAA-T-TAAAATTTTAAAAAAATTAGATTAGGGTTT
** * * * *
4110390 CCTGTTTATGGTTTTTAAATAAAAATCAATTAA
63 AGTGATTAAGGTTTTTAAGTAAAAATCAAATAA
* * * * **
4110423 ATTAAGGTTTAGGGTTTCTTGAGTAATTTAATTAAAATTTTTTTAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTCAGTAAATTAATTAAAA-TTTTAAAAAAATTAGATTAGGGTTTAG
*
4110488 T-ATTAAGGTTTTTAAG-GAAAATCAAATAA
65 TGATTAAGGTTTTTAAGTAAAAATCAAATAA
* *
4110517 ATTAGGGTTCAGGGTTACTTCAGTAAATTAATTATAATTTTAAAAAAATTAGATTAGGGTTTAGT
1 ATTAGGGTTTAGGGTTACTTCAGTAAATTAATTAAAATTTTAAAAAAATTAGATTAGGGTTTAGT
* *
4110582 GTTTAGGGTTTTTAAGTAAAAACTCAAATAA
66 GATTAAGGTTTTTAAGTAAAAA-TCAAATAA
4110613 ATTAGGGTTT
1 ATTAGGGTTT
4110623 GGGGATTAGG
Statistics
Matches: 166, Mismatches: 26, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
92 5 0.03
93 31 0.19
94 80 0.48
95 28 0.17
96 22 0.13
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.42
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTCAGTAAATTAATTAAAATTTTAAAAAAATTAGATTAGGGTTTAGT
GATTAAGGTTTTTAAGTAAAAATCAAATAA
Found at i:4110886 original size:126 final size:126
Alignment explanation
Indices: 4110661--4111170 Score: 867
Period size: 126 Copynumber: 4.0 Consensus size: 126
4110651 TTGTTAATTT
* *
4110661 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
4110726 GTTTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
*
4110787 AAAGAAGCTCTCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
4110852 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
* * * *
4110913 AAAAAAACTCCCACATGGATGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
4110978 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACCG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
*
4111039 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
4111104 GTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACGAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
4111165 AAAGAA
1 AAAGAA
4111171 TGTTTTTGCT
Statistics
Matches: 360, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 360 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
Found at i:4112223 original size:21 final size:22
Alignment explanation
Indices: 4112199--4112239 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4112189 GCGGCTGTTG
*
4112199 TGGTTGCTCCAGT-GGGGATTC
1 TGGTTCCTCCAGTAGGGGATTC
*
4112220 TGGTTCCTCCGGTAGGGGAT
1 TGGTTCCTCCAGTAGGGGAT
4112240 CTAGTTGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.10, C:0.20, G:0.39, T:0.32
Consensus pattern (22 bp):
TGGTTCCTCCAGTAGGGGATTC
Found at i:4112647 original size:30 final size:30
Alignment explanation
Indices: 4112613--4112680 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
4112603 GTGCTATTGC
4112613 TGGGCCTGGTGATTGTATGGGCGCT-GATGA
1 TGGGCCTGGTGATTGTATGGGC-CTCGATGA
* * *
4112643 TGGGCCGGGTGATTGTTTGGGCCTCGTTGA
1 TGGGCCTGGTGATTGTATGGGCCTCGATGA
4112673 TGGGCCTG
1 TGGGCCTG
4112681 CATCGTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.31
Consensus pattern (30 bp):
TGGGCCTGGTGATTGTATGGGCCTCGATGA
Found at i:4113193 original size:7 final size:7
Alignment explanation
Indices: 4113183--4113243 Score: 113
Period size: 7 Copynumber: 8.7 Consensus size: 7
4113173 CATAATACAT
4113183 AATACTA
1 AATACTA
4113190 AATACTA
1 AATACTA
4113197 AATACTA
1 AATACTA
4113204 AATACTA
1 AATACTA
4113211 AATACTA
1 AATACTA
*
4113218 CATACTA
1 AATACTA
4113225 AATACTA
1 AATACTA
4113232 AATACTA
1 AATACTA
4113239 AATAC
1 AATAC
4113244 CAATCGACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:4113194 original size:21 final size:20
Alignment explanation
Indices: 4113176--4113243 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 20
4113166 TTATATACAT
4113176 AATACATAATACTAAATACTA
1 AATAC-TAATACTAAATACTA
4113197 AATACTAAATACTAAATACTA
1 AATACT-AATACTAAATACTA
*
4113218 CATACTAAATACTAAATACTA
1 AATACT-AATACTAAATACTA
4113239 AATAC
1 AATAC
4113244 CAATCGACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (20 bp):
AATACTAATACTAAATACTA
Found at i:4114428 original size:11 final size:11
Alignment explanation
Indices: 4114414--4114459 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
4114404 TTTTTTAAAT
4114414 AGGAATTTGAG
1 AGGAATTTGAG
4114425 AGGAATTTGAG
1 AGGAATTTGAG
4114436 A-GAATATT-AG
1 AGGAAT-TTGAG
*
4114446 AGAGAAATTGAG
1 AG-GAATTTGAG
4114458 AG
1 AG
4114460 AAATGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:4114458 original size:10 final size:10
Alignment explanation
Indices: 4114420--4114463 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
4114410 AAATAGGAAT
*
4114420 TTGAGAGGAAT
1 TTGAGA-GAAA
4114431 TTGAGAGAATA
1 TTGAGAGAA-A
4114442 TTAGAGAGAAA
1 TT-GAGAGAAA
4114453 TTGAGAGAAA
1 TTGAGAGAAA
4114463 T
1 T
4114464 GATTTAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 12 0.40
11 11 0.37
12 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:4122796 original size:6 final size:6
Alignment explanation
Indices: 4122785--4122817 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
4122775 GCATTTTAAA
4122785 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
4122818 TGTGACCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4123314 original size:5 final size:5
Alignment explanation
Indices: 4123304--4123337 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
4123294 TGTACCCATG
4123304 TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATT
4123338 TCACATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:4134164 original size:30 final size:31
Alignment explanation
Indices: 4134101--4134167 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
4134091 TGAAATTAAT
*
4134101 AATATATTATTTATATACATATGTATACTAAA
1 AATATATTATTTATATACATATATATAC-AAA
*
4134133 AATATA-TATTATATATTCATATATATA-AAA
1 AATATATTATT-TATATACATATATATACAAA
4134163 AATAT
1 AATAT
4134168 GAGATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 8 0.25
31 4 0.12
32 20 0.62
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (31 bp):
AATATATTATTTATATACATATATATACAAA
Found at i:4139080 original size:18 final size:17
Alignment explanation
Indices: 4139049--4139092 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4139039 ATGCAAGAAA
4139049 ATAAAAAAATAAAATAT
1 ATAAAAAAATAAAATAT
*
4139066 ATAACAAAATAAAA-AT
1 ATAAAAAAATAAAATAT
*
4139082 AAAAATAAAAT
1 ATAAA-AAAAT
4139093 TGGGTTGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
ATAAAAAAATAAAATAT
Found at i:4142143 original size:46 final size:46
Alignment explanation
Indices: 4142125--4142318 Score: 158
Period size: 46 Copynumber: 4.3 Consensus size: 46
4142115 TGACAAGTGG
* * *
4142125 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
4142171 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATTAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
4142217 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCTAGAGAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
4142269 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
4142306 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4142319 GCTACACTTA
Statistics
Matches: 131, Mismatches: 8, Indels: 25
0.80 0.05 0.15
Matches are distributed among these distances:
37 33 0.25
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 53 0.40
52 40 0.31
53 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:4142144 original size:52 final size:51
Alignment explanation
Indices: 4142073--4142281 Score: 257
Period size: 52 Copynumber: 4.1 Consensus size: 51
4142063 ATCAAGTGAC
* *
4142073 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
4142125 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4142171 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
4142222 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCTAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
4142275 ATAAGTG
1 A-AAGTG
4142282 GCTACACTTA
Statistics
Matches: 136, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
46 43 0.32
52 83 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4142179 original size:98 final size:98
Alignment explanation
Indices: 4142059--4142282 Score: 349
Period size: 98 Copynumber: 2.3 Consensus size: 98
4142049 TTTGAGTACT
*
4142059 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
4142124 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* * *
4142157 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4142222 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* *
4142255 TCTGATCTAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
4142283 CTACACTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:4142289 original size:37 final size:37
Alignment explanation
Indices: 4142245--4142390 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
4142235 GATAGCTTTA
*
4142245 GCTACACTTATCTGATCTAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
4142282 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
4142319 GCTACACTTATCTGATCAATAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
4142356 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
4142391 ATCATATGTA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 11 0.11
36 3 0.03
37 87 0.86
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:4152483 original size:47 final size:46
Alignment explanation
Indices: 4152346--4152491 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 46
4152336 TGGTTAAATG
* *
4152346 TATAAATTATATATCATTATTAAATTATATTTAATATTAATTA-TT
1 TATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
* * **
4152391 T-TAAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAAGAATTT
1 TATAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATTATTT
*
4152436 TATGAAATTATATATTATTATTAAATTATATTTAATAATAATTA-TT
1 TAT-AAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
4152482 T-TAAATTATA
1 TATAAATTATA
4152492 CAAATTCATA
Statistics
Matches: 79, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.08
44 29 0.37
45 9 0.11
46 8 0.10
47 20 0.25
48 7 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (46 bp):
TATAAATTATATATAATTATTAAATTATATTTAATAATAATTATTT
Found at i:4152504 original size:91 final size:91
Alignment explanation
Indices: 4152349--4152516 Score: 309
Period size: 91 Copynumber: 1.8 Consensus size: 91
4152339 TTAAATGTAT
* *
4152349 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
4152414 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
*
4152440 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
4152505 GAAAATTTATTA
66 GAAAATTTATTA
4152517 GGTATAATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 74 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:4152678 original size:23 final size:25
Alignment explanation
Indices: 4152662--4152720 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
4152652 AATTTTATTA
4152662 ATTT-ATATATTTTAATTATAATAT
1 ATTTAATATATTTTAATTATAATAT
*
4152686 ATTTAATATA-TTTAATAATAATTAT
1 ATTTAATATATTTTAATTATAA-TAT
*
4152711 GTTTAA-ATAT
1 ATTTAATATAT
4152721 GATTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTAATATATTTTAATTATAATAT
Found at i:4152886 original size:39 final size:40
Alignment explanation
Indices: 4152843--4152947 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
4152833 TTTCATTATG
4152843 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
4152882 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
4152927 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
4152948 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:4152941 original size:45 final size:44
Alignment explanation
Indices: 4152841--4152950 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
4152831 TTTTTCATTA
4152841 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
4152880 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
4152925 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
4152951 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:4152950 original size:16 final size:16
Alignment explanation
Indices: 4152931--4152982 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
4152921 GATTTGCTAT
* *
4152931 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
4152947 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4152963 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4152979 TACA
1 TACA
4152983 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4154076 original size:38 final size:37
Alignment explanation
Indices: 4154025--4154099 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
4154015 TTTTTAAATA
4154025 TTTTATTTTGAATTGCATT-AAT-TAATATAAAATAGTATT
1 TTTTATTTTGAATT--ATTGAATATAAT-TAAAATA-TATT
4154064 TTTTA-TTTGAATTATTGAATATAATTAAAATATATT
1 TTTTATTTTGAATTATTGAATATAATTAAAATATATT
4154100 AACTTACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
36 7 0.21
37 10 0.29
38 12 0.35
39 5 0.15
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (37 bp):
TTTTATTTTGAATTATTGAATATAATTAAAATATATT
Found at i:4154577 original size:27 final size:28
Alignment explanation
Indices: 4154546--4154612 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
4154536 AGGCCTGCCC
* *
4154546 TTATTATTTTTTAAATTTTTTA-AATAT
1 TTATTATTTTTTAAATATTTAATAATAT
*
4154573 TTATT-TTATTTT-AATATTTAATAATTT
1 TTATTATT-TTTTAAATATTTAATAATAT
4154600 TTATTATTTTTTA
1 TTATTATTTTTTA
4154613 TTTATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 9 0.27
27 22 0.67
28 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
TTATTATTTTTTAAATATTTAATAATAT
Found at i:4155788 original size:9 final size:9
Alignment explanation
Indices: 4155774--4155804 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4155764 GTTAAACGAA
4155774 TCGAGTTAT
1 TCGAGTTAT
*
4155783 TCGAGTTAA
1 TCGAGTTAT
4155792 TCGAGTTAT
1 TCGAGTTAT
4155801 TCGA
1 TCGA
4155805 ATAAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4155887 original size:9 final size:9
Alignment explanation
Indices: 4155858--4155894 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
4155848 TGAGTTTTCA
4155858 AATTCGAAT
1 AATTCGAAT
*
4155867 AACTCGAAT
1 AATTCGAAT
4155876 AATTCGAAT
1 AATTCGAAT
*
4155885 AATTCAAAT
1 AATTCGAAT
4155894 A
1 A
4155895 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Done.