Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 208 of 211
Found at i:61365900 original size:31 final size:33
Alignment explanation
Indices: 61365825--61365916 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 33
61365815 CAAATTGTTT
* *
61365825 ATTGACGATATGAAATGTAAAATGTGCAAACTATTC
1 ATTGGCGATATAAAATGTAAAATGTG---ACTATTC
61365861 ATTGGCGATATAAAATGTAAAATGTG-CTA-TC
1 ATTGGCGATATAAAATGTAAAATGTGACTATTC
* *
61365892 GTTGGCGATGTAAAATGTAAAATGT
1 ATTGGCGATATAAAATGTAAAATGT
61365917 AAAATGTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
31 25 0.48
32 3 0.06
36 24 0.46
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (33 bp):
ATTGGCGATATAAAATGTAAAATGTGACTATTC
Found at i:61365911 original size:7 final size:7
Alignment explanation
Indices: 61365899--61365923 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61365889 ATCGTTGGCG
61365899 ATGTAAA
1 ATGTAAA
61365906 ATGTAAA
1 ATGTAAA
61365913 ATGTAAA
1 ATGTAAA
61365920 ATGT
1 ATGT
61365924 GTGATCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (7 bp):
ATGTAAA
Found at i:61365922 original size:38 final size:38
Alignment explanation
Indices: 61365871--61365951 Score: 128
Period size: 38 Copynumber: 2.1 Consensus size: 38
61365861 ATTGGCGATA
*
61365871 TAAAATGTAAAATGTGCT-ATCGTTGGCGATGTAAAATG
1 TAAAATGTAAAATGTG-TGATCATTGGCGATGTAAAATG
*
61365909 TAAAATGTAAAATGTGTGATCATTGGTGATGTAAAATG
1 TAAAATGTAAAATGTGTGATCATTGGCGATGTAAAATG
61365947 TAAAA
1 TAAAA
61365952 GGTGCAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (38 bp):
TAAAATGTAAAATGTGTGATCATTGGCGATGTAAAATG
Found at i:61367836 original size:35 final size:34
Alignment explanation
Indices: 61367749--61367836 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
61367739 AGTAACAAAT
*
61367749 GTCCTACTCCCACATATGGGGGTAGGCTTACGAG
1 GTCCTACTCCCACACATGGGGGTAGGCTTACGAG
* *
61367783 GTTCTTGCTCCCACACATGGGGG-AGGCTTACGGGAG
1 G-TCCTACTCCCACACATGGGGGTAGGCTTAC--GAG
* *
61367819 GTCCTACTCTCATACATG
1 GTCCTACTCCCACACATG
61367837 AAGCGTAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 9 0.20
35 31 0.70
36 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (34 bp):
GTCCTACTCCCACACATGGGGGTAGGCTTACGAG
Found at i:61370237 original size:18 final size:18
Alignment explanation
Indices: 61370214--61370248 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61370204 GTTTTATTCA
61370214 AAGATTTCTAGGTTTTCT
1 AAGATTTCTAGGTTTTCT
* *
61370232 AAGATTTTTGGGTTTTC
1 AAGATTTCTAGGTTTTC
61370249 CCATTCAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.51
Consensus pattern (18 bp):
AAGATTTCTAGGTTTTCT
Found at i:61372180 original size:31 final size:30
Alignment explanation
Indices: 61372139--61372206 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
61372129 TTTGATATAA
61372139 TTTTTTTTATA-ACTTTCCTATTTTCTAACT
1 TTTTTTTTATATACTTTCCTATTTTCTAA-T
* *
61372169 TTTTTTATTATATATTTTTCTATTTTCTAAT
1 TTTTTT-TTATATACTTTCCTATTTTCTAAT
*
61372200 TATTTTT
1 TTTTTTT
61372207 CCATTTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.21
31 11 0.33
32 15 0.45
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTTTTTATATACTTTCCTATTTTCTAAT
Found at i:61378714 original size:39 final size:37
Alignment explanation
Indices: 61378647--61378739 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
61378637 ACCAGAATGG
* *
61378647 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
61378686 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
61378723 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
61378740 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:61379113 original size:6 final size:6
Alignment explanation
Indices: 61379104--61379140 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
61379094 TAATAATAAA
* *
61379104 TAATAC TAATAA TAATAC TAATAC TAATAT TAATAC T
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC T
61379141 TACCTCACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (6 bp):
TAATAC
Found at i:61379119 original size:12 final size:12
Alignment explanation
Indices: 61379097--61379138 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
61379087 CCACTCATAA
61379097 TAATAAATAATAC
1 TAAT-AATAATAC
61379110 TAATAATAATAC
1 TAATAATAATAC
* *
61379122 TAATACTAATAT
1 TAATAATAATAC
61379134 TAATA
1 TAATA
61379139 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:61379877 original size:20 final size:20
Alignment explanation
Indices: 61379843--61379882 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61379833 TTCTATTCTG
*
61379843 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
61379863 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
61379883 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:61380049 original size:31 final size:28
Alignment explanation
Indices: 61380013--61380080 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
61380003 TTGTCTTTAT
**
61380013 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
61380043 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
61380072 TTAATTTAT
1 TTAATTTAT
61380081 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:61380097 original size:21 final size:20
Alignment explanation
Indices: 61380059--61380097 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61380049 TAATTTAATA
*
61380059 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
61380079 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
61380098 AATATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:61385032 original size:21 final size:21
Alignment explanation
Indices: 61384990--61385032 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
61384980 TTCACTATAC
*
61384990 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
61385011 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
61385032 A
1 A
61385033 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:61385961 original size:39 final size:37
Alignment explanation
Indices: 61385894--61385986 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
61385884 ACCAGAATGG
* *
61385894 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
61385933 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
61385970 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
61385987 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:61386350 original size:3 final size:3
Alignment explanation
Indices: 61386342--61386386 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
61386332 ATTCCCACTC
* * * *
61386342 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61386387 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:61386387 original size:18 final size:18
Alignment explanation
Indices: 61386342--61386388 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
61386332 ATTCCCACTC
*
61386342 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
61386360 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
61386378 ATATTAATACT
1 ATAATAATACT
61386389 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:61386388 original size:12 final size:12
Alignment explanation
Indices: 61386346--61386386 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
61386336 CCACTCATAA
61386346 TAATAATAATAC
1 TAATAATAATAC
61386358 TAATAATAATAC
1 TAATAATAATAC
* *
61386370 TAATACTAATAT
1 TAATAATAATAC
61386382 TAATA
1 TAATA
61386387 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:61387127 original size:20 final size:20
Alignment explanation
Indices: 61387093--61387132 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61387083 TTCTATTCTG
*
61387093 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
61387113 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
61387133 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:61387299 original size:31 final size:28
Alignment explanation
Indices: 61387263--61387330 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
61387253 TTGTCTTTAT
**
61387263 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
61387293 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
61387322 TTAATTTAT
1 TTAATTTAT
61387331 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:61387347 original size:21 final size:20
Alignment explanation
Indices: 61387309--61387347 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61387299 TAATTTAATA
*
61387309 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
61387329 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
61387348 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:61399032 original size:21 final size:22
Alignment explanation
Indices: 61398992--61399032 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
61398982 TTATTTTTAT
*
61398992 TTTTATGATGTAAAAATAAATA
1 TTTTATGATCTAAAAATAAATA
*
61399014 TTTTAT-ATCTAAAATTAAA
1 TTTTATGATCTAAAAATAAA
61399033 AATAACTTAT
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:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TTTTATGATCTAAAAATAAATA
Found at i:61418331 original size:45 final size:45
Alignment explanation
Indices: 61418261--61418449 Score: 182
Period size: 45 Copynumber: 4.2 Consensus size: 45
61418251 TCATAGATAC
* * * * * * *
61418261 CAGATCTTGTCTCCCCGTACAGGTGGTGGAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
* *
61418306 CAGATCCTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
* *** * * * * * * *
61418351 TAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAGAGATAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
*
61418395 CAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
61418440 CAGATCTTGT
1 CAGATCTTGT
61418450 TTTCATGTAT
Statistics
Matches: 108, Mismatches: 35, Indels: 2
0.74 0.24 0.01
Matches are distributed among these distances:
44 32 0.30
45 76 0.70
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
Found at i:61418383 original size:89 final size:89
Alignment explanation
Indices: 61418290--61418468 Score: 270
Period size: 89 Copynumber: 2.0 Consensus size: 89
61418280 CAGGTGGTGG
* * *
61418290 AGTAGATC-GAAGAAAGCAGATCCTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGTAG
1 AGTAGATCAG-AGAAACCAAATCCTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAG
*
61418354 ATCTTGTCTTCATGTATTGGCGTGA
65 ATCTTGTCTTCATGTATCGGCGTGA
* * *
61418379 AGTAGATCAGAGATACCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGA
1 AGTAGATCAGAGAAACCAAATCCTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGA
*
61418444 TCTTGTTTTCATGTATCGGCGTGA
66 TCTTGTCTTCATGTATCGGCGTGA
61418468 A
1 A
61418469 ACAGATCAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 80 0.99
90 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
AGTAGATCAGAGAAACCAAATCCTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGA
TCTTGTCTTCATGTATCGGCGTGA
Found at i:61418387 original size:44 final size:44
Alignment explanation
Indices: 61418333--61418478 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
61418323 TACTGGTGGC
*
61418333 GAAGTAGATCAAAAAAAGTAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGT
* * * * * *** * * *
61418377 GAAGTAGATCAGAGATACCAAATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATTGG-CGT
* *
61418422 GAAGTAGATCAAAAAAAGCAGATCTTGTTTTCATGTATCGGCGT
1 GAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGT
**
61418466 GAAACAGATCAAA
1 GAAGTAGATCAAA
61418479 GATAGTAGGT
Statistics
Matches: 74, Mismatches: 27, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
44 43 0.58
45 31 0.42
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (44 bp):
GAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGT
Found at i:61418475 original size:89 final size:89
Alignment explanation
Indices: 61418316--61418482 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 89
61418306 CAGATCCTGC
* * *
61418316 CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATCGGCGTGAAA
* *
61418381 TAGATCAGAGATACCAAATCTTGT
66 CAGATCAAAGATACCAAATCTTGT
*
61418405 CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTTTTCATGTATCGGCGTGAAA
1 CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATCGGCGTGAAA
61418470 CAGATCAAAGATA
66 CAGATCAAAGATA
61418483 GTAGGTCCTG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (89 bp):
CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATCGGCGTGAAA
CAGATCAAAGATACCAAATCTTGT
Found at i:61418513 original size:89 final size:89
Alignment explanation
Indices: 61418309--61418520 Score: 264
Period size: 89 Copynumber: 2.4 Consensus size: 89
61418299 AAGAAAGCAG
* * * *
61418309 ATCCTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGTAGATCTTGTCTTCATGTATTGG
1 ATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATCGG
** *
61418374 CGTGAAGTAGATCAGAGATACCAA
66 CGTGAAACAGATCAAAGATACCAA
* * *
61418398 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTTTTCATGTATCGG
1 ATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATCGG
** *
61418463 CGTGAAACAGATCAAAGATAGTAG
66 CGTGAAACAGATCAAAGATACCAA
* * *
61418487 GTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATC
1 ATCCTGTCTTCCCATACT-GGTAGCGAAGTAGATC
61418521 GAATATACAG
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 1 0.01
89 105 0.99
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (89 bp):
ATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTATCGG
CGTGAAACAGATCAAAGATACCAA
Found at i:61424481 original size:43 final size:43
Alignment explanation
Indices: 61424420--61424506 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
61424410 AACAATAAAG
61424420 ATATAAGCTCGTACATGGTTAAATTGCATTTTAGTTTTTTATA
1 ATATAAGCTCGTACATGGTTAAATTGCATTTTAGTTTTTTATA
*
61424463 ATATAAGCTCGTATATGGTTAAATTGCATTTTAGTTTTTTATA
1 ATATAAGCTCGTACATGGTTAAATTGCATTTTAGTTTTTTATA
61424506 A
1 A
61424507 AAATATATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (43 bp):
ATATAAGCTCGTACATGGTTAAATTGCATTTTAGTTTTTTATA
Found at i:61424715 original size:22 final size:20
Alignment explanation
Indices: 61424689--61424747 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
61424679 CGAAATAACC
61424689 TAATTTAATACATTTAAATATT
1 TAATTTAATA-ATTTAAAT-TT
* *
61424711 TAATTAAAATATTTTAAATTT
1 TAATT-TAATAATTTAAATTT
*
61424732 TAATCT-ATAATTTAAA
1 TAATTTAATAATTTAAA
61424748 GATATATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.29
21 6 0.19
22 12 0.39
23 4 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTAATAATTTAAATTT
Found at i:61425301 original size:24 final size:24
Alignment explanation
Indices: 61425269--61425319 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
61425259 TAAACATTTT
*
61425269 TATATATTTAGGATTTTTTAAAAA
1 TATAAATTTAGGATTTTTTAAAAA
* *
61425293 TATAAATTTTGGATTTTTTATAAA
1 TATAAATTTAGGATTTTTTAAAAA
61425317 TAT
1 TAT
61425320 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (24 bp):
TATAAATTTAGGATTTTTTAAAAA
Found at i:61425316 original size:18 final size:19
Alignment explanation
Indices: 61425293--61425330 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
61425283 TTTTTAAAAA
*
61425293 TATAAAT-TTTGGATTTTT
1 TATAAATATTTGAATTTTT
61425311 TATAAATATTTGAATTTTT
1 TATAAATATTTGAATTTTT
61425330 T
1 T
61425331 TGAAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
TATAAATATTTGAATTTTT
Found at i:61431699 original size:5 final size:5
Alignment explanation
Indices: 61431689--61431724 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
61431679 GGAGAAAGAG
61431689 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
61431725 AAAAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:61435013 original size:14 final size:14
Alignment explanation
Indices: 61434994--61435022 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61434984 TGGAACAAAC
61434994 TTTGTAATATAAAT
1 TTTGTAATATAAAT
61435008 TTTGTAATATAAAT
1 TTTGTAATATAAAT
61435022 T
1 T
61435023 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:61439472 original size:6 final size:6
Alignment explanation
Indices: 61439461--61439503 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
61439451 TAGGTTTCCA
* * *
61439461 AAAATG AAAATG AAAATA AAAATG AAAATG GAAATG GAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A
61439504 TGTGTTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:61457349 original size:3 final size:3
Alignment explanation
Indices: 61457341--61457375 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61457331 GACAGTCATT
61457341 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
61457376 TTGTCTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:61457435 original size:5 final size:5
Alignment explanation
Indices: 61457425--61457452 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
61457415 CTGTTTGGAT
61457425 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
61457453 TTTGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:61458687 original size:21 final size:21
Alignment explanation
Indices: 61458636--61458688 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
61458626 ACTGGTAACT
61458636 ATTA-TAAAAA-TTTGTAAAA
1 ATTATTAAAAATTTTGTAAAA
** *
61458655 ATTATTTTAAATTTTTTAAAA
1 ATTATTAAAAATTTTGTAAAA
*
61458676 TTTATTAAAAATT
1 ATTATTAAAAATT
61458689 ATAAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.15
20 4 0.15
21 18 0.69
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTATTAAAAATTTTGTAAAA
Found at i:61460230 original size:56 final size:56
Alignment explanation
Indices: 61460170--61460301 Score: 158
Period size: 56 Copynumber: 2.4 Consensus size: 56
61460160 TATATTGTAA
** *
61460170 AATAAACTCTTTATTAT-TAAATTTTAATTTTCTTAATAGTAAATAAATTGATATAT
1 AATAAACTCTAAATAATATAAATTTT-ATTTTCTTAATAGTAAATAAATTGATATAT
** * *
61460226 AATAATTTGTAAATAATATATATTTTATTTTCTTAATAGTAAATAAATTGATATAT
1 AATAAACTCTAAATAATATAAATTTTATTTTCTTAATAGTAAATAAATTGATATAT
** *
61460282 AATAATTTGTAAATAATATA
1 AATAAACTCTAAATAATATA
61460302 TATTGAGAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 61 0.90
57 7 0.10
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (56 bp):
AATAAACTCTAAATAATATAAATTTTATTTTCTTAATAGTAAATAAATTGATATAT
Found at i:61460237 original size:26 final size:26
Alignment explanation
Indices: 61460208--61460297 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
61460198 TTTCTTAATA
61460208 GTAAATAAATTGATATATAATAATTT
1 GTAAATAAATTGATATATAATAATTT
* ** *
61460234 GTAAATAATATAT-ATTTTATTTTCTTAA-TA
1 GTAAATAA-AT-TGA---TA-TATAATAATTT
61460264 GTAAATAAATTGATATATAATAATTT
1 GTAAATAAATTGATATATAATAATTT
61460290 GTAAATAA
1 GTAAATAA
61460298 TATATATTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
25 5 0.10
26 19 0.40
27 3 0.06
28 2 0.04
29 3 0.06
30 11 0.23
31 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (26 bp):
GTAAATAAATTGATATATAATAATTT
Found at i:61460302 original size:56 final size:57
Alignment explanation
Indices: 61460190--61460305 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 57
61460180 TTATTATTAA
61460190 ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
1 ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
61460247 ATTTT-ATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
1 ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
61460303 ATT
1 ATT
61460306 GAGAGTAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 54 0.92
57 5 0.08
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (57 bp):
ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
Found at i:61460588 original size:31 final size:30
Alignment explanation
Indices: 61460550--61460647 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 30
61460540 TTTTTTTATT
61460550 TTTTTTAAATTTTAAAACACTTTTAAAATAC
1 TTTTTTAAATTTT-AAACACTTTTAAAATAC
* ***
61460581 TTTTTTAAAATTTTTAATTTTTTTAAAATAC
1 TTTTTT-AAATTTTAAACACTTTTAAAATAC
* *
61460612 TTTTTAAAATTTT-TA-A-TTTTAAAATA-
1 TTTTTTAAATTTTAAACACTTTTAAAATAC
*
61460638 TTTTTAAAAT
1 TTTTTTAAAT
61460648 AATTTTTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.17
27 10 0.17
29 1 0.02
30 7 0.12
31 24 0.41
32 7 0.12
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTTTAAATTTTAAACACTTTTAAAATAC
Found at i:61460618 original size:30 final size:27
Alignment explanation
Indices: 61460570--61460647 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 27
61460560 TTTAAAACAC
61460570 TTTTAAAATACTTTTTTAAAATTTTTAA
1 TTTTAAAATAC-TTTTTAAAATTTTTAA
61460598 TTTTTTTAAAATACTTTTTAAAATTTTTAA
1 ---TTTTAAAATACTTTTTAAAATTTTTAA
61460628 TTTTAAAATA-TTTTTAAAAT
1 TTTTAAAATACTTTTTAAAAT
61460648 AATTTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
26 10 0.21
27 10 0.21
30 16 0.34
31 11 0.23
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTAAAATACTTTTTAAAATTTTTAA
Found at i:61460644 original size:11 final size:11
Alignment explanation
Indices: 61460559--61460654 Score: 63
Period size: 11 Copynumber: 8.4 Consensus size: 11
61460549 TTTTTTTAAA
* *
61460559 TTTTAAAACAC
1 TTTTAAAATAT
61460570 TTTTAAAATACT
1 TTTTAAAATA-T
*
61460582 TTTTTAAA-AT
1 TTTTAAAATAT
*
61460592 TTTT--AATTT
1 TTTTAAAATAT
61460601 TTTTAAAATACT
1 TTTTAAAATA-T
*
61460613 TTTTAAAATTTTTAA
1 TTTTAAAA----TAT
61460628 TTTTAAAATAT
1 TTTTAAAATAT
61460639 TTTTAAAATAAT
1 TTTTAAAAT-AT
61460651 TTTT
1 TTTT
61460655 TTAATTTTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 19
0.72 0.07 0.20
Matches are distributed among these distances:
8 2 0.03
9 5 0.07
10 5 0.07
11 24 0.35
12 22 0.32
15 8 0.12
16 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:61461348 original size:14 final size:13
Alignment explanation
Indices: 61461311--61461349 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
61461301 TTAACATATA
61461311 TAATTAATATAAT
1 TAATTAATATAAT
**
61461324 TAATTTTTATAACT
1 TAATTAATATAA-T
61461338 TAATTAATATAA
1 TAATTAATATAA
61461350 ATATGTATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:61462811 original size:5 final size:5
Alignment explanation
Indices: 61462781--61462810 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
61462771 AGATCCACTC
61462781 TCTTT TCTTT TCTTT TCTTT TCTTT T-TTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
61462811 TGCAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TCTTT
Found at i:61471127 original size:27 final size:27
Alignment explanation
Indices: 61471073--61471127 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
61471063 ACCAGTGACC
* * *
61471073 CCTATTTGATAGGCGGCACTGGTTGTG
1 CCTATCTGATAGGCGGCACTAGTGGTG
61471100 CCTATCTGATAGGCGGCACTAGTGGTG
1 CCTATCTGATAGGCGGCACTAGTGGTG
61471127 C
1 C
61471128 AATTATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTAGTGGTG
Found at i:61472229 original size:19 final size:19
Alignment explanation
Indices: 61472201--61472237 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61472191 CTCCTTCTCC
*
61472201 TTTTCTTCTTCTTCTCTTA
1 TTTTCATCTTCTTCTCTTA
*
61472220 TTTTCATCTTTTTCTCTT
1 TTTTCATCTTCTTCTCTT
61472238 TCTTCCCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCATCTTCTTCTCTTA
Found at i:61478229 original size:52 final size:52
Alignment explanation
Indices: 61478167--61478269 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
61478157 GATGTTCTTA
* **
61478167 AAATGGAAAATTTTTATTTT-AT-TATTAAAAATTTTAAAAAATTTAAATTAAT
1 AAATGGAAAA-TTATATTTTGATCT-TTAAAAATGATAAAAAATTTAAATTAAT
* *
61478219 AAATGTAAAATTATATTTTGATCTTTAAAAATGATAAAAAATTTAATTTAA
1 AAATGGAAAATTATATTTTGATCTTTAAAAATGATAAAAAATTTAAATTAA
61478270 CACTTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
51 8 0.18
52 35 0.80
53 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (52 bp):
AAATGGAAAATTATATTTTGATCTTTAAAAATGATAAAAAATTTAAATTAAT
Found at i:61486549 original size:18 final size:19
Alignment explanation
Indices: 61486516--61486553 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
61486506 TAAAATAGAC
61486516 TTAATTAAATAATATAATA
1 TTAATTAAATAATATAATA
*
61486535 TTAATTTAA-AATATAATA
1 TTAATTAAATAATATAATA
61486553 T
1 T
61486554 GATATGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATTAAATAATATAATA
Found at i:61487713 original size:20 final size:19
Alignment explanation
Indices: 61487688--61487729 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
61487678 CATAATAATG
* *
61487688 TATATAATATATATTTTTAT
1 TATATAAT-TACATATTTAT
61487708 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
61487727 TAT
1 TAT
61487730 TTTATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:61495935 original size:13 final size:13
Alignment explanation
Indices: 61495917--61495942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61495907 TTAACTGACA
61495917 AAATATAAACATT
1 AAATATAAACATT
61495930 AAATATAAACATT
1 AAATATAAACATT
61495943 TAAGGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAAACATT
Found at i:61501027 original size:19 final size:17
Alignment explanation
Indices: 61501000--61501043 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
61500990 AATTTTGTAT
*
61501000 TCATATTAAATTACACTTA
1 TCATTTTAAATTA-AC-TA
61501019 TCATTTTAAATTAACTA
1 TCATTTTAAATTAACTA
*
61501036 TCACTTTA
1 TCATTTTA
61501044 TTATTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 12 0.52
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (17 bp):
TCATTTTAAATTAACTA
Found at i:61501043 original size:17 final size:19
Alignment explanation
Indices: 61501005--61501043 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
61500995 TGTATTCATA
*
61501005 TTAAATTACACTTATCATT
1 TTAAATTACACTTATCACT
61501024 TTAAATTA-AC-TATCACT
1 TTAAATTACACTTATCACT
61501041 TTA
1 TTA
61501044 TTATTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTACACTTATCACT
Found at i:61507711 original size:25 final size:25
Alignment explanation
Indices: 61507683--61507731 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
61507673 ATTTTATTTT
61507683 ATTTTAATATTTAAT-AATTTTTTAC
1 ATTTT-ATATTTAATGAATTTTTTAC
* *
61507708 ATTTTTTATTTATTGAATTTTTTA
1 ATTTTATATTTAATGAATTTTTTA
61507732 TATAGTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTATATTTAATGAATTTTTTAC
Found at i:61510175 original size:24 final size:24
Alignment explanation
Indices: 61510146--61510192 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
61510136 TTAATGATGC
61510146 ATTTTATGTTATTAATTTTCTAAT
1 ATTTTATGTTATTAATTTTCTAAT
61510170 ATTTTATGTTATTAATTTTCTAA
1 ATTTTATGTTATTAATTTTCTAA
61510193 GAATTGAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTTATGTTATTAATTTTCTAAT
Found at i:61510487 original size:29 final size:29
Alignment explanation
Indices: 61510423--61510503 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
61510413 AATATCAAAA
* *
61510423 TTATACATGAACTTTGATCTAATGTGTAATG
1 TTATACATGAACTTTGAT-T-TTGTGGAATG
*
61510454 TTATACATGAACTTTGATTTTGTGGAATT
1 TTATACATGAACTTTGATTTTGTGGAATG
* *
61510483 TTATATATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
61510504 GATTCAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 18 0.41
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (29 bp):
TTATACATGAACTTTGATTTTGTGGAATG
Found at i:61514827 original size:21 final size:21
Alignment explanation
Indices: 61514786--61514827 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61514776 TATATTGTAA
*
61514786 TTGGTAACTGTTTTCGGTTGT
1 TTGGTAACTGTTTTCGATTGT
*
61514807 TTGG-AACTGATTTTTGATTGT
1 TTGGTAACTG-TTTTCGATTGT
61514828 CATTTGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.14, C:0.07, G:0.26, T:0.52
Consensus pattern (21 bp):
TTGGTAACTGTTTTCGATTGT
Found at i:61517455 original size:5 final size:5
Alignment explanation
Indices: 61517445--61517469 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61517435 GTGTATAACA
61517445 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
61517470 TGCTTCCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:61522934 original size:29 final size:30
Alignment explanation
Indices: 61522882--61522939 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
61522872 TTTAAAATAA
* *
61522882 TTTTAAAATACTTTTTTTAAATTTTTTAAT
1 TTTTAAAATACTTTTTTGAAATTTATTAAT
**
61522912 TTTTAAAATA-TTTTTTGGTATTTATTAA
1 TTTTAAAATACTTTTTTGAAATTTATTAA
61522940 AAAATGGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTGAAATTTATTAAT
Found at i:61527192 original size:29 final size:29
Alignment explanation
Indices: 61527141--61527199 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
61527131 TGTATATGAG
*
61527141 TGCATCTAAATTAAAGCTTATGTATTAAAT
1 TGCATCTAAATCAAAGCTTATGTA-TAAAT
61527171 TGCAT-TAAATCAAAG-TTCATGTATAAAT
1 TGCATCTAAATCAAAGCTT-ATGTATAAAT
61527199 T
1 T
61527200 TAAAATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (29 bp):
TGCATCTAAATCAAAGCTTATGTATAAAT
Found at i:61528888 original size:114 final size:112
Alignment explanation
Indices: 61528674--61528888 Score: 331
Period size: 114 Copynumber: 1.9 Consensus size: 112
61528664 ACAAAGGCTG
* * *
61528674 TATTGCTTTGGGTTCTTTGAATATATTTACCCTAGTTTTCTTCCGGCCATTGCACCTTGTCTCGC
1 TATTGCTTTGGGTTCTTTGAATACATTTACCCTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
* ***
61528739 AAGCAATTTCATCTAAACAATGTTCTTTTGTGAGCTTTTGCTTCGGT
66 AAACAATTTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
*
61528786 TATTGCATTTAGGGTTCTTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATC
1 TATTGC-TTT-GGGTTCTTTGAATACATTTACCCTAGTTCTCTTCCGGCCATTGCACCTTGTATC
*
61528851 GTAAACAATTTCATCTAAACAATGTTCTTTCACGAGCT
64 GCAAACAATTTCATCTAAACAATGTTCTTTCACGAGCT
61528889 ACGCATGAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 6 0.07
113 3 0.03
114 83 0.90
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (112 bp):
TATTGCTTTGGGTTCTTTGAATACATTTACCCTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
AAACAATTTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
Found at i:61540017 original size:21 final size:20
Alignment explanation
Indices: 61539993--61540040 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
61539983 TATTAAGTTT
61539993 TAATTTTAAA-AAGTTATAAAA
1 TAATTTTAAATAA--TATAAAA
61540014 TAATTATTAAATAATATAAAA
1 TAATT-TTAAATAATATAAAA
*
61540035 AAATTT
1 TAATTT
61540041 ATTTAAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 5 0.21
23 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATTTTAAATAATATAAAA
Found at i:61541312 original size:2 final size:2
Alignment explanation
Indices: 61541293--61541333 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
61541283 TTCACTTTAC
* * *
61541293 AT AT AC AT AT AC AT AT AT AT AT AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61541334 ACACTAAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:61543379 original size:20 final size:20
Alignment explanation
Indices: 61543354--61543391 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61543344 TCACCCACAC
61543354 AATCACATAAAAATTCACCA
1 AATCACATAAAAATTCACCA
61543374 AATCACATAAAAATTCAC
1 AATCACATAAAAATTCAC
61543392 TAAACAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (20 bp):
AATCACATAAAAATTCACCA
Found at i:61543563 original size:254 final size:254
Alignment explanation
Indices: 61543114--61543861 Score: 1478
Period size: 254 Copynumber: 2.9 Consensus size: 254
61543104 ATATGAATTG
61543114 TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
1 TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
61543179 TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTACGACCTTACTA
66 TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTACGACCTTACTA
*
61543244 TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCATGCTAAAGTCCAATCTCCATGTGAAC
131 TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCGTGCTAAAGTCCAATCTCCATGTGAAC
61543309 TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACACAATCACATAAAAAT
196 TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACACAATCACATAAAAAT
61543368 TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
1 TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
*
61543433 TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTATGACCTTACTA
66 TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTACGACCTTACTA
61543498 TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCGTGCTAAAGTCCAATCTCCATGTGAAC
131 TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCGTGCTAAAGTCCAATCTCCATGTGAAC
61543563 TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACACAATCACATAAAAAT
196 TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACACAATCACATAAAAAT
61543622 TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
1 TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
61543687 TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTACGACCTTACTA
66 TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTACGACCTTACTA
61543752 TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCGTGCTAAAGTCCAATCTCCATGTGAAC
131 TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCGTGCTAAAGTCCAATCTCCATGTGAAC
61543817 TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACAC
196 TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACAC
61543862 GTCTAACCAT
Statistics
Matches: 491, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
254 491 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (254 bp):
TCACCAAATCACATAAAAATTCACTAAACAACTTCTCCATCATATCTTATAAAGCTCCCAAAAGT
TTTATCCTTGATTTATAAAAGTTTAACCATATCGCATCCAAATATAGCATTCTACGACCTTACTA
TCAGTTTTTCACAAAATGACACGTGTTTGGAGGGGTTCGTGCTAAAGTCCAATCTCCATGTGAAC
TTACTATCGAAACTTTGCTCAAACTGTTTCATGACTCACCCACACAATCACATAAAAAT
Found at i:61543633 original size:20 final size:20
Alignment explanation
Indices: 61543608--61543645 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61543598 TCACCCACAC
61543608 AATCACATAAAAATTCACCA
1 AATCACATAAAAATTCACCA
61543628 AATCACATAAAAATTCAC
1 AATCACATAAAAATTCAC
61543646 TAAACAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (20 bp):
AATCACATAAAAATTCACCA
Found at i:61544415 original size:30 final size:29
Alignment explanation
Indices: 61544344--61544415 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
61544334 TAGAAATTTG
* * *
61544344 ATCAAATTAGTCCCTCTATTATTAAATGA
1 ATCAAATTAGTCTCTATATTATTAAAAGA
*
61544373 ATCAATTTAGTCTCTATATTATTAAAAAGA
1 ATCAAATTAGTCTCTATATTATT-AAAAGA
*
61544403 ATCAAATAAGTCT
1 ATCAAATTAGTCT
61544416 AAATTGCAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.38
Consensus pattern (29 bp):
ATCAAATTAGTCTCTATATTATTAAAAGA
Found at i:61544627 original size:29 final size:29
Alignment explanation
Indices: 61544593--61544648 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
61544583 TTTGATTCTT
*
61544593 TTTAATAATATAGAGACTAAATTGATCCA
1 TTTAATAATAGAGAGACTAAATTGATCCA
* *
61544622 TTTAATAATAGAGGGACTAATTTGATC
1 TTTAATAATAGAGAGACTAAATTGATC
61544649 AGGTTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGAGACTAAATTGATCCA
Found at i:61564282 original size:42 final size:42
Alignment explanation
Indices: 61564215--61564313 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 42
61564205 TAACCTTAAT
** * *
61564215 GGGTTTCTGTTTAATTCTTTTGAGCTTCTGTTCAACCATTAC
1 GGGTTTCTGTTTAGCTCTTTCGAGCTTATGTTCAACCATTAC
* * * * *
61564257 GTGTTTTTGTTTAGCTCTTTCGAGCTTATTTTTAACCCTTAC
1 GGGTTTCTGTTTAGCTCTTTCGAGCTTATGTTCAACCATTAC
61564299 GGGTTTCTGTTTAGC
1 GGGTTTCTGTTTAGC
61564314 ACTTATGTGC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.49
Consensus pattern (42 bp):
GGGTTTCTGTTTAGCTCTTTCGAGCTTATGTTCAACCATTAC
Found at i:61575062 original size:63 final size:63
Alignment explanation
Indices: 61574985--61575140 Score: 285
Period size: 63 Copynumber: 2.5 Consensus size: 63
61574975 GATAGGTTAA
*
61574985 TGTAAAAGCAGATTCCTCCTTATTTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
* *
61575048 TGTAAAAGCAGATTCCTCATTATCTACTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
61575111 TGTAAAAGCAGATTCCTCCTTATCTGCTTA
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTA
61575141 CTTATACTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 88 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (63 bp):
TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
Found at i:61576922 original size:5 final size:5
Alignment explanation
Indices: 61576912--61576937 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61576902 TTGCTTCACA
61576912 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
61576938 CATCACTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:61577884 original size:7 final size:7
Alignment explanation
Indices: 61577872--61577909 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
61577862 AAAGTATTTT
61577872 AAAATTA
1 AAAATTA
61577879 AAAATTA
1 AAAATTA
61577886 AAAATTA
1 AAAATTA
*
61577893 AAAAATA
1 AAAATTA
61577900 AAAA-TA
1 AAAATTA
61577906 AAAA
1 AAAA
61577910 AATATATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAATTA
Found at i:61579564 original size:4 final size:4
Alignment explanation
Indices: 61579555--61579596 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
61579545 TAAGGTTGCA
61579555 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
61579597 ATAGGTGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:61595724 original size:2 final size:2
Alignment explanation
Indices: 61595717--61595742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61595707 GTTTAACGTG
61595717 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
61595743 TCAACTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61598024 original size:31 final size:31
Alignment explanation
Indices: 61597987--61598056 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
61597977 GGGAACAATT
61597987 GGGCCAAATTAAAGAAAGAAGCAAAGAAGGA
1 GGGCCAAATTAAAGAAAGAAGCAAAGAAGGA
61598018 GGGCCAAATTAAAGAAAGAAGCAAAGAAGGA
1 GGGCCAAATTAAAGAAAGAAGCAAAGAAGGA
61598049 GGGCCAAA
1 GGGCCAAA
61598057 GTAGAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.53, C:0.11, G:0.30, T:0.06
Consensus pattern (31 bp):
GGGCCAAATTAAAGAAAGAAGCAAAGAAGGA
Found at i:61609405 original size:768 final size:767
Alignment explanation
Indices: 61607955--61609426 Score: 2471
Period size: 768 Copynumber: 1.9 Consensus size: 767
61607945 GAAAGAGATT
61607955 ATCACGATAAAAAAACCTAAAACAACATTAAAATCCTAAAAAATATTCTTAATCAATCCTAAGAA
1 ATCACGATAAAAAAACCTAAAACAACATTAAAATCCTAAAAAATATTCTTAATCAATCCTAAGAA
*
61608020 TCCTTTCTTTCGAGCATTTGCTTGAACCAATATGCCGAGAGCTTGGGATATCTTTTGAGATCATT
66 TCCTTTCTTTCGAGCATTTGCTTGAACCAATATGCCGAGAGCTTGGGATATCTCTTGAGATCATT
61608085 GCAATCAACATACACCAGACCAAATCTTGAGGTATATCCTAATAACCATTCAAAATTGTCTAGAA
131 GCAATCAACATACACCAGACCAAATCTTGAGGTATATCCTAATAACCATTCAAAATTGTCTAGAA
* **
61608150 TTGACCAAGCAAAGTAGCCGGTAACATTAGCTCCATCATTTATAGCTCTTTTCAATTCCTTCAAA
196 TTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCTCTTTTCAATTCCTTCAAA
*
61608215 TAGCTTCTATAAAAGTTTACTCTATTAATATCATATAACGATTCAGGAAATGTGAGATTACCGAG
261 TAGCTTCTATAAAAGCTTACTCTATTAATATCATATAACGATTCAGGAAATGTGAGATTACCGAG
* * ** * *
61608280 ATCATCCATTCCTGTCGTTAATTAAGAAAAGTATATAGTAATTAGATACACTTGCTTTAAAGAAA
326 ATCATCCATTCCTGTCATTAATTAACAAAACAAAATAATAATTAGATACACTTGCTTTAAAGAAA
* * * *
61608345 TAAAAGATGGACAAACAAAAAAATTATATTAGAGTTGAAATATTTGTTGTCTCACCATATTTGGA
391 TAAAAAATGGACAAACAAAAAAATTATATTAGAATTGAAATATTTGTGGTCTCACCATATTTAGA
61608410 GAGAAATATATTAGGGCTTCCATAACGTTTTTTTACATACGTTACTACTTTGTACATACCCCATG
456 GAGAAATATATTAGGGCTTCCATAACGTTTTTTTACATACGTTACTACTTTGTACATACCCCATG
* *
61608475 GAACTTCATATAACCATTCGGAGTAGGCCTGCATTTCTTGTAAATTAGACACTTGAGCTAGAATT
521 GAACTTCATATAACCATTCGGAATAGGCCTGCATTTCTTGTAAATTAGACACTTGAGCTAAAATT
*
61608540 GACATGATTAAGAATATTAAAGATTGAAAATGCCATCAAACTTTCATTTTTGAGATAAACATCTT
586 GACATGATTAAGAATATTAAAGATTGAAAATGCCATCAAACTTTCATTTTTAAGATAAACATCTT
*
61608605 AAATTTGCCACCAAAGTCAAAATTGAGCATAATACTTTTTATATATTAATTTATTACAAAATCTC
651 AAATTTGCCACCAAAGTCAAAATTGAGCATAATAATTTTTATATATTAATTTATTACAAAATCTC
61608670 TAAATGATAAATCTAGAAAGAGATTATTCTAAATAGAAAAGTTAAAACCAAA
716 TAAATGATAAATCTAGAAAGAGATTATTCTAAATAGAAAAGTTAAAACCAAA
* * ** * *
61608722 ATCACGATTAAAAAAATCTAAAACGACATTAAGGTCCTAAAAAGTATTCTTAATCAATCCTAGGA
1 ATCACGA-TAAAAAAACCTAAAACAACATTAAAATCCTAAAAAATATTCTTAATCAATCCTAAGA
* *
61608787 ATTCTTTCTTTCGAGCATTTGCTTGAACCAATATGCCGAGAGTTTGGGATATCTCTTGAGATCAT
65 ATCCTTTCTTTCGAGCATTTGCTTGAACCAATATGCCGAGAGCTTGGGATATCTCTTGAGATCAT
** *
61608852 TGTGATCAACATATACCAGACCAAATCTTGAGGTATATCCTAATAACCATTCAAAATTGTCTAGA
130 TGCAATCAACATACACCAGACCAAATCTTGAGGTATATCCTAATAACCATTCAAAATTGTCTAGA
61608917 ATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCTCTTTTCAATTCCTTCAA
195 ATTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCTCTTTTCAATTCCTTCAA
* *
61608982 GTAGCTTCTATAAAAGCTTACTCTATTAATATCATATAACGATTCAGGAAATGTGAGATTGCC-A
260 ATAGCTTCTATAAAAGCTTACTCTATTAATATCATATAACGATTCAGGAAATGTGAGATTACCGA
*
61609046 GGATCATCCATTCCTGTCATTAATTAACAACACAAAATAATAATTAGATACACTTGCTTTAAAGA
325 -GATCATCCATTCCTGTCATTAATTAACAAAACAAAATAATAATTAGATACACTTGCTTTAAAGA
*
61609111 AATAAAAAATGGACAAACAAAAAATTTATATTAGAATTGAAATATTTGTGGTCTCACCAT-TTTC
389 AATAAAAAATGGACAAACAAAAAAATTATATTAGAATTGAAATATTTGTGGTCTCACCATATTT-
* * * * * *
61609175 AGAGAGAATTATATTAGGGCTTCCATAATGTTTTTTTACATATGTTACTGCTTTTTACATACCCT
453 AGAGAGAAATATATTAGGGCTTCCATAACGTTTTTTTACATACGTTACTACTTTGTACATACCCC
* *
61609240 ATGGAACTTCATATAACCATTCGGAATGGGCCTGCATTTCTTGTAAATTAGGCACTTGAGCTAAA
518 ATGGAACTTCATATAACCATTCGGAATAGGCCTGCATTTCTTGTAAATTAGACACTTGAGCTAAA
* * ** *
61609305 ATTGACATGATTAAGAATATTATAGATTGAAAATGCCGTCAATTTTTCATTTTTAAGATAATCAT
583 ATTGACATGATTAAGAATATTAAAGATTGAAAATGCCATCAAACTTTCATTTTTAAGATAAACAT
*
61609370 CTTAAATTTTCCACCAAAGTCAAAATTGAGCATAATAATTTTTATATATTAATTTAT
648 CTTAAATTTGCCACCAAAGTCAAAATTGAGCATAATAATTTTTATATATTAATTTAT
61609427 GTTTTGTAAA
Statistics
Matches: 654, Mismatches: 48, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
767 11 0.02
768 643 0.98
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (767 bp):
ATCACGATAAAAAAACCTAAAACAACATTAAAATCCTAAAAAATATTCTTAATCAATCCTAAGAA
TCCTTTCTTTCGAGCATTTGCTTGAACCAATATGCCGAGAGCTTGGGATATCTCTTGAGATCATT
GCAATCAACATACACCAGACCAAATCTTGAGGTATATCCTAATAACCATTCAAAATTGTCTAGAA
TTGACCAAGCAAAGTAGCCAGTAACATTAGCTCCATCATCCATAGCTCTTTTCAATTCCTTCAAA
TAGCTTCTATAAAAGCTTACTCTATTAATATCATATAACGATTCAGGAAATGTGAGATTACCGAG
ATCATCCATTCCTGTCATTAATTAACAAAACAAAATAATAATTAGATACACTTGCTTTAAAGAAA
TAAAAAATGGACAAACAAAAAAATTATATTAGAATTGAAATATTTGTGGTCTCACCATATTTAGA
GAGAAATATATTAGGGCTTCCATAACGTTTTTTTACATACGTTACTACTTTGTACATACCCCATG
GAACTTCATATAACCATTCGGAATAGGCCTGCATTTCTTGTAAATTAGACACTTGAGCTAAAATT
GACATGATTAAGAATATTAAAGATTGAAAATGCCATCAAACTTTCATTTTTAAGATAAACATCTT
AAATTTGCCACCAAAGTCAAAATTGAGCATAATAATTTTTATATATTAATTTATTACAAAATCTC
TAAATGATAAATCTAGAAAGAGATTATTCTAAATAGAAAAGTTAAAACCAAA
Found at i:61612209 original size:20 final size:20
Alignment explanation
Indices: 61612184--61612233 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61612174 TGGCTTAAAA
61612184 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61612204 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61612221 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61612234 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61616848 original size:20 final size:20
Alignment explanation
Indices: 61616823--61616872 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61616813 TGGCTTAAAA
61616823 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61616843 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61616860 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61616873 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61617456 original size:2 final size:2
Alignment explanation
Indices: 61617449--61617478 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
61617439 TATGAGCTTT
61617449 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61617479 GTATTACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61622298 original size:18 final size:17
Alignment explanation
Indices: 61622271--61622304 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61622261 AATATTTATT
*
61622271 TATAATAATTAATAATTG
1 TATAAGAATTAA-AATTG
61622289 TATAAGAATTAAAATT
1 TATAAGAATTAAAATT
61622305 AATAGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TATAAGAATTAAAATTG
Found at i:61623253 original size:23 final size:23
Alignment explanation
Indices: 61623227--61623275 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
61623217 TATAGACATC
*
61623227 AATGCATAGCAGATACAGATTCA
1 AATGCATAACAGATACAGATTCA
* *
61623250 AATGCATAATAGATATAGATTCA
1 AATGCATAACAGATACAGATTCA
61623273 AAT
1 AAT
61623276 CCTACCCCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (23 bp):
AATGCATAACAGATACAGATTCA
Found at i:61626329 original size:58 final size:58
Alignment explanation
Indices: 61626238--61626353 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
61626228 TATTCTGTAA
* * * *
61626238 AATTGAAATCGGTGAAGAGAATTATCACCATAAACTTGAGACCTAAAACTTCTAGAGT
1 AATTGAAATCGATGAAGAGAATTATCACAATAAACTTGAGAACTAAAACTGCTAGAGT
* *
61626296 AATTGGAATCGATGAAGA-ATATTATCACAATAAACTTGAGAACTAAATCTGCTAGAGT
1 AATTGAAATCGATGAAGAGA-ATTATCACAATAAACTTGAGAACTAAAACTGCTAGAGT
61626354 TTTTAGTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
57 1 0.02
58 50 0.98
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (58 bp):
AATTGAAATCGATGAAGAGAATTATCACAATAAACTTGAGAACTAAAACTGCTAGAGT
Found at i:61627776 original size:41 final size:41
Alignment explanation
Indices: 61627511--61627789 Score: 312
Period size: 41 Copynumber: 6.8 Consensus size: 41
61627501 CAAGCAATGT
* * * * * *
61627511 ATTAGCGGCGCTTAGATACAAACGCCGTTGAAGA-CAAGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATC-CGAGC
* * ** * * *
61627552 ATTAGTGGCGCTCAGTTAAAAATGCAGCTAAAGATCCGAGT
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
*
61627593 ATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAG-ACAAAAACGCCGCTAAAGATCCGAGC
* *
61627634 ATTAGCGGCGCATAGACAAAAACGCCACTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
* * *
61627675 ATTAGCGGCGCCTACACGAAAACGCCGCTAAAGA-CTCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATC-CGAGC
* *
61627716 ATTAGCGGCGCCTAGACAAAAACGCCGCTAAAGATCCGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
*
61627757 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
61627790 GTTTAAAAAA
Statistics
Matches: 205, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 200 0.98
42 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGC
Found at i:61627959 original size:40 final size:40
Alignment explanation
Indices: 61627847--61627962 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
61627837 GCGCTTTATG
* * *
61627847 TAAAACGCCGCTAATTC-CTATTTTTAGCGGCGCTTCCGGA
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTT-TGGA
* **
61627887 T-AATCGTCGCTGAA-GCTCTACCTTTAGCGGCGCTTTGGA
1 TAAATCGCCGCT-AATGCTCTATTTTTAGCGGCGCTTTGGA
* * *
61627926 TAAATCGCCGCTAATGCTCGATTTTTTGTGGCGCTTT
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTT
61627963 TGTTCCAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (40 bp):
TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTTGGA
Found at i:61636468 original size:4 final size:4
Alignment explanation
Indices: 61636452--61636486 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
61636442 ATACTGCACA
*
61636452 TATG TATG AATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
61636487 ACACACATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:61640862 original size:25 final size:25
Alignment explanation
Indices: 61640828--61640878 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
61640818 TTTAAAAAAG
61640828 AAATAATATTTGATACATTGTCGAT
1 AAATAATATTTGATACATTGTCGAT
61640853 AAATAATATTTGATACATTGTCGAT
1 AAATAATATTTGATACATTGTCGAT
61640878 A
1 A
61640879 GAGGTGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (25 bp):
AAATAATATTTGATACATTGTCGAT
Found at i:61640914 original size:16 final size:15
Alignment explanation
Indices: 61640889--61640919 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
61640879 GAGGTGCTCA
61640889 TGGGCCGGGCCGGGC
1 TGGGCCGGGCCGGGC
61640904 TGGGTCCGGGCCGGGC
1 TGGG-CCGGGCCGGGC
61640920 CCAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.32, G:0.58, T:0.10
Consensus pattern (15 bp):
TGGGCCGGGCCGGGC
Found at i:61646372 original size:29 final size:28
Alignment explanation
Indices: 61646335--61646389 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
61646325 TTTTTTGTAC
61646335 TTTTAAAATTTAATCTTTGTATTTTTAT
1 TTTTAAAATTTAATCTTTGTATTTTTAT
* *
61646363 TTTTAGAAATTTAGTCTTTTTATTTTT
1 TTTTA-AAATTTAATCTTTGTATTTTT
61646390 CGAATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTAAAATTTAATCTTTGTATTTTTAT
Found at i:61650973 original size:26 final size:26
Alignment explanation
Indices: 61650951--61651005 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
61650941 GTTGGGTTAG
61650951 GTTCGGACTCAAGTTAATCGGGTTGA
1 GTTCGGACTCAAGTTAATCGGGTTGA
* **
61650977 GTTTGGTTTCAAGTTAATCGGGTTGA
1 GTTCGGACTCAAGTTAATCGGGTTGA
61651003 GTT
1 GTT
61651006 TGGTTTCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.38
Consensus pattern (26 bp):
GTTCGGACTCAAGTTAATCGGGTTGA
Found at i:61651006 original size:26 final size:26
Alignment explanation
Indices: 61650959--61651016 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
61650949 AGGTTCGGAC
61650959 TCAAGTTAATCGGGTTGAGTTTGGTT
1 TCAAGTTAATCGGGTTGAGTTTGGTT
61650985 TCAAGTTAATCGGGTTGAGTTTGGTT
1 TCAAGTTAATCGGGTTGAGTTTGGTT
61651011 TCAAGT
1 TCAAGT
61651017 CAGAACTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (26 bp):
TCAAGTTAATCGGGTTGAGTTTGGTT
Found at i:61653500 original size:11 final size:11
Alignment explanation
Indices: 61653486--61653514 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
61653476 TAAAAAAGTA
61653486 TTTAAAAATAT
1 TTTAAAAATAT
61653497 TTTAAAAATAT
1 TTTAAAAATAT
61653508 TTTAAAA
1 TTTAAAA
61653515 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:61653956 original size:15 final size:16
Alignment explanation
Indices: 61653926--61653959 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
61653916 AAATTTATAA
61653926 AAATATTCAAAAAAAT
1 AAATATTCAAAAAAAT
*
61653942 AAATATT-ATAAAAAT
1 AAATATTCAAAAAAAT
61653957 AAA
1 AAA
61653960 AGTTACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATTCAAAAAAAT
Found at i:61661361 original size:27 final size:27
Alignment explanation
Indices: 61661331--61661415 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
61661321 GTTGTTGATG
61661331 TTTGAAAATTTCATTTCTTGTATGCTC
1 TTTGAAAATTTCATTTCTTGTATGCTC
* ** * * * *
61661358 TTTGGCAAGCTT-AGTCCGTTGT-TGATG
1 TTT-GAAAATTTCATTTC-TTGTATGCTC
61661385 TTTGAAAATTTCATTTCTTGTATGCTC
1 TTTGAAAATTTCATTTCTTGTATGCTC
61661412 TTTG
1 TTTG
61661416 GCATACATGT
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
26 9 0.22
27 22 0.55
28 9 0.22
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (27 bp):
TTTGAAAATTTCATTTCTTGTATGCTC
Found at i:61661373 original size:54 final size:54
Alignment explanation
Indices: 61661309--61661418 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
61661299 TTGGCAAAAT
61661309 CAAGCTTAGTCCGTTGTTGATGTTTGAAAATTTCATTTCTTGTATGCTCTTTGG
1 CAAGCTTAGTCCGTTGTTGATGTTTGAAAATTTCATTTCTTGTATGCTCTTTGG
61661363 CAAGCTTAGTCCGTTGTTGATGTTTGAAAATTTCATTTCTTGTATGCTCTTTGG
1 CAAGCTTAGTCCGTTGTTGATGTTTGAAAATTTCATTTCTTGTATGCTCTTTGG
61661417 CA
1 CA
61661419 TACATGTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.45
Consensus pattern (54 bp):
CAAGCTTAGTCCGTTGTTGATGTTTGAAAATTTCATTTCTTGTATGCTCTTTGG
Found at i:61661405 original size:26 final size:26
Alignment explanation
Indices: 61661322--61661405 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
61661312 GCTTAGTCCG
61661322 TTGTTGATGTTTGAAAATTTCATTTC
1 TTGTTGATGTTTGAAAATTTCATTTC
* * * ** * *
61661348 TTGTATGCTCTTTGGCAAGCTT-AGTCC
1 TTGT-TGATGTTT-GAAAATTTCATTTC
61661375 GTTGTTGATGTTTGAAAATTTCATTTC
1 -TTGTTGATGTTTGAAAATTTCATTTC
61661402 TTGT
1 TTGT
61661406 ATGCTCTTTG
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
26 13 0.32
27 18 0.45
28 9 0.22
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (26 bp):
TTGTTGATGTTTGAAAATTTCATTTC
Found at i:61678369 original size:30 final size:31
Alignment explanation
Indices: 61678333--61678392 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
61678323 ATTAATATAA
* *
61678333 ATTCAAAATAGAT-AAACAAATCACCTCTAC
1 ATTCAAAACAAATAAAACAAATCACCTCTAC
*
61678363 ATTCAAAACAAATAAAATAAATCACCTCTA
1 ATTCAAAACAAATAAAACAAATCACCTCTA
61678393 GACAAATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.23
Consensus pattern (31 bp):
ATTCAAAACAAATAAAACAAATCACCTCTAC
Found at i:61678719 original size:22 final size:23
Alignment explanation
Indices: 61678694--61678738 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
61678684 AGACTCACAC
61678694 AACCA-TATCAACTTCAG-AAGCA
1 AACCATTATCAAC-TCAGTAAGCA
61678716 AACCATTATCAACTCAGTAAGCA
1 AACCATTATCAACTCAGTAAGCA
61678739 TACAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (23 bp):
AACCATTATCAACTCAGTAAGCA
Found at i:61686414 original size:13 final size:13
Alignment explanation
Indices: 61686396--61686422 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61686386 CTAGTTATCC
61686396 TTAGCAAGTCACA
1 TTAGCAAGTCACA
61686409 TTAGCAAGTCACA
1 TTAGCAAGTCACA
61686422 T
1 T
61686423 CAAGGAACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (13 bp):
TTAGCAAGTCACA
Found at i:61686784 original size:18 final size:19
Alignment explanation
Indices: 61686751--61686791 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61686741 ACTAAAATTC
61686751 AAATATAACCTTTTAAAAGT
1 AAATATAA-CTTTTAAAAGT
*
61686771 AAATATAA-TTTTAAAGGT
1 AAATATAACTTTTAAAAGT
61686789 AAA
1 AAA
61686792 AGTGTCGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (19 bp):
AAATATAACTTTTAAAAGT
Found at i:61690938 original size:2 final size:2
Alignment explanation
Indices: 61690931--61690962 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
61690921 GCTAAGCTTA
61690931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61690963 ATAATTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61698122 original size:3 final size:3
Alignment explanation
Indices: 61698116--61698144 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61698106 ATCATCATCA
61698116 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
61698145 ACCAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:61698687 original size:16 final size:16
Alignment explanation
Indices: 61698654--61698687 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61698644 ACTACCTGTT
* *
61698654 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
61698670 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
61698686 AA
1 AA
61698688 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:61701508 original size:21 final size:21
Alignment explanation
Indices: 61701482--61701522 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61701472 AGACGAGCAA
* *
61701482 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61701503 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61701523 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61703461 original size:16 final size:16
Alignment explanation
Indices: 61703428--61703461 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61703418 GGAGATTGTT
* *
61703428 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
61703444 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
61703460 AA
1 AA
61703462 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:61711673 original size:30 final size:30
Alignment explanation
Indices: 61711639--61711701 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
61711629 ACTTAACAAG
61711639 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* ** *
61711669 CAAATGCCTTTAAAATGGTAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
61711699 CAA
1 CAA
61711702 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:61711786 original size:22 final size:22
Alignment explanation
Indices: 61711739--61711786 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
61711729 CAATAACAAT
* *
61711739 AAAATAGTAGCAACATAATAGC
1 AAAATAGTAGCAAAATAAGAGC
*
61711761 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGC
61711783 AAAA
1 AAAA
61711787 CAACAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGC
Found at i:61719766 original size:16 final size:16
Alignment explanation
Indices: 61719744--61719828 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 16
61719734 AAAAAATTTA
61719744 TAAACAAGAGTTGATTC
1 TAAACAAGAGTT-ATTC
*
61719761 -AAACAAGGGTTATTC
1 TAAACAAGAGTTATTC
*
61719776 TAAACATA-A-CTATTC
1 TAAACA-AGAGTTATTC
**
61719791 TTAAAACATCA-TTATTC
1 -T-AAACAAGAGTTATTC
* *
61719808 TAAACAAAAGTTGTTC
1 TAAACAAGAGTTATTC
61719824 TAAAC
1 TAAAC
61719829 TTTAACCGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
15 15 0.28
16 27 0.50
17 12 0.22
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (16 bp):
TAAACAAGAGTTATTC
Found at i:61719789 original size:15 final size:15
Alignment explanation
Indices: 61719771--61719813 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
61719761 AAACAAGGGT
61719771 TATTCTAAACATAAC
1 TATTCTAAACATAAC
* *
61719786 TATTCTTAAAACATCAT
1 TATTC-T-AAACATAAC
61719803 TATTCTAAACA
1 TATTCTAAACA
61719814 AAAGTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (15 bp):
TATTCTAAACATAAC
Found at i:61728651 original size:21 final size:21
Alignment explanation
Indices: 61728625--61728665 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61728615 ATCTGCTCAA
* *
61728625 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61728646 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61728666 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61734000 original size:20 final size:20
Alignment explanation
Indices: 61733975--61734024 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61733965 TGGCTTAAAA
61733975 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61733995 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61734012 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61734025 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61738638 original size:20 final size:20
Alignment explanation
Indices: 61738613--61738662 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61738603 TGGCTTAAAA
61738613 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61738633 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61738650 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61738663 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61747075 original size:6 final size:7
Alignment explanation
Indices: 61747038--61747082 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
61747028 AAAAGTGAAG
61747038 TTTTTAC
1 TTTTTAC
61747045 TTTTTAC
1 TTTTTAC
***
61747052 TACATA-
1 TTTTTAC
61747058 TTTTTAC
1 TTTTTAC
61747065 TTTTTAC
1 TTTTTAC
61747072 TTTTTAC
1 TTTTTAC
61747079 TTTT
1 TTTT
61747083 GATGTCCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 3 0.10
7 28 0.90
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTAC
Found at i:61760126 original size:20 final size:20
Alignment explanation
Indices: 61760101--61760145 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
61760091 ACCCAAGACT
*
61760101 AAAACTCTACATAGACACTG
1 AAAACTCTACATAAACACTG
61760121 AAAACTCTACATAAACACTG
1 AAAACTCTACATAAACACTG
61760141 AAAAC
1 AAAAC
61760146 AATATTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.24, G:0.07, T:0.18
Consensus pattern (20 bp):
AAAACTCTACATAAACACTG
Found at i:61762156 original size:20 final size:20
Alignment explanation
Indices: 61762123--61762161 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61762113 TTGAACAAAG
* *
61762123 AAATTTTATTATTTAATTTC
1 AAATTTAATAATTTAATTTC
*
61762143 AAATTTAATAATTTTATTT
1 AAATTTAATAATTTAATTT
61762162 AAAGGTTCAT
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
AAATTTAATAATTTAATTTC
Found at i:61772134 original size:17 final size:16
Alignment explanation
Indices: 61772103--61772136 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
61772093 GCAAAATAAA
61772103 AAATAATAATAAACTT
1 AAATAATAATAAACTT
*
61772119 AAATAATTAATTAACTT
1 AAATAA-TAATAAACTT
61772136 A
1 A
61772137 TTTAGGTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATAATAAACTT
Found at i:61772275 original size:19 final size:19
Alignment explanation
Indices: 61772245--61772315 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
61772235 AAATATATAA
61772245 ATTTTGGAATTTTTAAAAAT
1 ATTTT-GAATTTTTAAAAAT
61772265 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAA-T
*
61772284 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAAAT
*
61772304 ACTTT-AATTTTT
1 ATTTTGAATTTTT
61772316 TTTTTTGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
18 9 0.20
19 19 0.41
20 14 0.30
21 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:61799173 original size:195 final size:193
Alignment explanation
Indices: 61798828--61799778 Score: 729
Period size: 195 Copynumber: 4.9 Consensus size: 193
61798818 AATTTATTTC
* * *
61798828 AATTTCGCATTAGTTTTT-GTTATTTTTCTTTAGATTTCTATGATTGTTTATGTTATTTGATTGA
1 AATTTTGCAGTAGTTTTTGGTT-TTTTTCTTTAGA-TTCTATGATAGTTTATGTTATTTGA-TGA
** * *
61798892 ATGGGTTTTTGTTTTCCATTGAA-TATGCTTATTTTAGATCTTTAACTTGGTGGGATTACAAGAA
63 ATGGGTTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCTTTAACTTGGTGAGATTACAAGAA
* * *
61798956 ACTTGTCATGGGTAAC-CTTAATATGTTGAAGCTTGCAAAGAGACTAAAATTAATGGGGTTTTGT
128 AATTGTGATGGGT-ACTCTTAATATGTTGAGGCTTGCAAAGAGACTAAAATTAATGGGG-TTTGT
*
61799020 GTC
191 GTA
* * *
61799023 AGTTTTGCAGTAGTTTTTGGTTTTTTTCTTTACACTTCTATGGTAGTTTATGTTATTTGATAGAA
1 AATTTTGCAGTAGTTTTTGGTTTTTTTCTTTAGA-TTCTATGATAGTTTATGTTATTTGAT-GAA
* * *
61799088 TGGGGTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCATTAACTTGGTGACATTACAAGAAA
64 TGGGTTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCTTTAACTTGGTGAGATTACAAGAAA
* * **
61799153 TTTGTGATGGG-ACTCTTAATATGTTGAGGCTTGCAAAGAGAGTGCAATTAATGGGGTTTGTGTA
129 ATTGTGATGGGTACTCTTAATATGTTGAGGCTTGCAAAGAGACTAAAATTAATGGGGTTTGTGTA
* * * *
61799217 AATTTTGCATTAGTTTTTGTTTTTTTTCTTTAGATT-T-T-AT-GTTTAAGAATACTATTCGAGT
1 AATTTTGCAGTAGTTTTTGGTTTTTTTCTTTAGATTCTATGATAGTTTATG--T--TATTTGA-T
* * *
61799278 TAATGGGTTTTTGTTTTTTATTGAATTATGCTTATTTGAGATCTTTAACTTAGTGAGATTACAAG
61 GAATGGGTTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCTTTAACTTGGTGAGATTACAAG
* * * * ** * * * *
61799343 AAAAATGTGATGGGTACTATTGATATGTTGGGGCTTGCAAAGAGTGTGAATTTAAT-GGTTTTTT
126 AAAATTGTGATGGGTACTCTTAATATGTTGAGGCTTGCAAAGAGACTAAAATTAATGGGGTTTGT
61799407 GTA
191 GTA
* * * ** * * **** **
61799410 TTGAA-TTTGTATTAGGTTTTGGGGGTTTTTCTTTAGATTTTATGTTTAACAAAATGGTTCAAAT
1 ---AATTTTGCAGTA-GTTTTTGGTTTTTTTCTTTAGATTCTATG-AT-AGTTTAT-GTT-ATTT
* * *
61799474 --TG-ATGGGTTTTTGTTATTGT-TTGAATTATTGCTTATTTGAGATCCTTAACTTGGTGAGATT
58 GATGAATGGGTTTTTGTT-TTTTATTGAATTA-TGCTTATTTAAGATCTTTAACTTGGTGAGATT
* * * * ** * **
61799535 ACAAGAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGTAAAGAGTGTAAAATTAGTGGTT
121 ACAAGAAAATTGTGATGGGTACTCTTAATATGTTGAGGCTTGCAAAGAGACTAAAATTAATGGGG
* *
61799600 TTTGTATCG
186 TTTGTGT-A
** * * * * * ** *
61799609 AA-TTCACATTAGGTTTTGGTGTTTTTCTTTAGCTT-T-T-AT-GTTTAACGAAACCATTCGAGT
1 AATTTTGCAGTAGTTTTTGGTTTTTTTCTTTAGATTCTATGATAGTTT-ATG---TTATTTGA-T
* * ** * * *
61799669 TAATGGGTTTTTGTTATTGGTTGAATTATGTTTATTTGAGATCCTTAACTTGGTGA-AGTTACAA
61 GAATGGGTTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCTTTAACTTGGTGAGA-TTACAA
* *
61799733 GACAAA-TGTGATGGGTACTCTTAACATGTTGGGGCTTGCAAAGAGA
125 GA-AAATTGTGATGGGTACTCTTAATATGTTGAGGCTTGCAAAGAGA
61799779 GTTGGGGCCA
Statistics
Matches: 621, Mismatches: 98, Indels: 75
0.78 0.12 0.09
Matches are distributed among these distances:
189 7 0.01
190 2 0.00
191 4 0.01
192 1 0.00
193 90 0.14
194 150 0.24
195 161 0.26
196 101 0.16
197 91 0.15
198 8 0.01
199 1 0.00
200 2 0.00
201 1 0.00
202 1 0.00
203 1 0.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (193 bp):
AATTTTGCAGTAGTTTTTGGTTTTTTTCTTTAGATTCTATGATAGTTTATGTTATTTGATGAATG
GGTTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCTTTAACTTGGTGAGATTACAAGAAAAT
TGTGATGGGTACTCTTAATATGTTGAGGCTTGCAAAGAGACTAAAATTAATGGGGTTTGTGTA
Found at i:61799550 original size:197 final size:191
Alignment explanation
Indices: 61798891--61799777 Score: 856
Period size: 194 Copynumber: 4.6 Consensus size: 191
61798881 TATTTGATTG
** * * *
61798891 AATGGGTTTTTGTTTTCCATTGAA-TATGCTTATTTTAGATCTTTAACTTGGTGGGATTACAAGA
1 AATGGGTTTTTGTTTTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGA
** * * ** ** * *
61798955 AACTTGTCATGGGTAAC-CTTAATATGTTGAAGCTTGCAAAGAGACTAAAATTAATGGGGTTTTG
66 AAAATGTGATGGGT-ACTATTAATATGTTGGGGCTTGCAAAGAGTGT-GAATTAAT-GGTTTTTG
* * * * * * * * * *** *
61799019 TGTCAGTTTTGCAGTAGTTTTTGGTTTTTTTCTTTACACTTCTATGGTAGTT--TATGTTATTTG
128 TATGA-ATTTGCATTAGGTTTTGGTGTTTTTCTTTAGA-TTTTAT-GT--TTAACAAAATATTCG
*
61799082 A-TAG
188 AGT-T
* * * * *
61799086 AATGGGGTTTTGTTTTTTATTGAATTATGCTTATTTAAGATCATTAACTTGGTGACATTACAAGA
1 AATGGGTTTTTGTTTTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGA
** * * * ** *
61799151 AATTTGTGATGGG-ACTCTTAATATGTTGAGGCTTGCAAAGAGAGTGCAATTAATGGGGTTTGTG
66 AAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTG-AATTAATGGTTTTTGTA
* * * * * *
61799215 TAAATTTTGCATTAGTTTTTGTTTTTTTTCTTTAGATTTTATGTTTAAGAATACTATTCGAGTT
130 TGAA-TTTGCATTAGGTTTTGGTGTTTTTCTTTAGATTTTATGTTTAACAA-AATATTCGAGTT
* * *
61799279 AATGGGTTTTTGTTTTTTATTGAATTATGCTTATTTGAGATCTTTAACTTAGTGAGATTACAAGA
1 AATGGGTTTTTGTTTTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGA
*
61799344 AAAATGTGATGGGTACTATTGATATGTTGGGGCTTGCAAAGAGTGTGAATTTAATGGTTTTTTGT
66 AAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAA-TTAATGG-TTTTTGT
* * * * *
61799409 ATTGAATTTGTATTAGGTTTTGGGGGTTTTTCTTTAGATTTTATGTTTAACAAAATGGTTCAAAT
129 A-TGAATTTGCATTAGGTTTT-GGTGTTTTTCTTTAGATTTTATGTTTAACAAAAT-ATTCGAGT
61799474 T
191 T
*
61799475 GATGGGTTTTTGTTATTGT-TTGAATTATTGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
1 AATGGGTTTTTGTT-TTGTATTGAATTA-TGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
* * *
61799539 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGTAAAGAGTGTAAAATTAGTGGTTTTTG
64 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGT-GAATTAATGGTTTTTG
** * **
61799604 TATCGAATTCACATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACGAAACCATTCGAGT
128 TAT-GAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGATTTTATGTTTAAC-AAAATATTCGAGT
61799669 T
191 T
* *
61799670 AATGGGTTTTTGTTATTG-GTTGAATTATGTTTATTTGAGATCCTTAACTTGGTGA-AGTTACAA
1 AATGGGTTTTTGTT-TTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGA-TTACAA
* * *
61799733 GACAAATGTGATGGGTACTCTTAACATGTTGGGGCTTGCAAAGAG
64 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAG
61799778 AGTTGGGGCC
Statistics
Matches: 597, Mismatches: 74, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
190 2 0.00
192 3 0.01
193 85 0.14
194 152 0.25
195 134 0.22
196 130 0.22
197 89 0.15
198 2 0.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (191 bp):
AATGGGTTTTTGTTTTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAGA
AAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAATTAATGGTTTTTGTAT
GAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGATTTTATGTTTAACAAAATATTCGAGTT
Found at i:61813419 original size:21 final size:21
Alignment explanation
Indices: 61813361--61813447 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
61813351 CCTGATCAAT
*
61813361 ATACGACACAT-AAGTGCCTA
1 ATACGACACATAAAGTGCCTG
* ** *
61813381 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
61813402 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
*
61813425 ATACAACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
61813446 AT
1 AT
61813448 CGGCAAAGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 9 0.16
21 26 0.47
23 20 0.36
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:61813433 original size:23 final size:23
Alignment explanation
Indices: 61813401--61813446 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
61813391 CGAGGTGCCT
*
61813401 GATACGACACATAAAGTGCCTGA
1 GATACAACACATAAAGTGCCTGA
61813424 GATACAACACATAAAGTGCCTGA
1 GATACAACACATAAAGTGCCTGA
61813447 TCGGCAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (23 bp):
GATACAACACATAAAGTGCCTGA
Found at i:61813446 original size:44 final size:41
Alignment explanation
Indices: 61813361--61813447 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
61813351 CCTGATCAAT
* * *
61813361 ATACGACACATAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTAAAACAACACACAAAGTGCCTG
* *
61813402 ATACGACACATAAAGTGCCTGAGATACAACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCT-A-AAACAACACACAAAGTGCCTG
61813446 AT
1 AT
61813448 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 11 0.29
42 8 0.21
43 1 0.03
44 18 0.47
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTAAAACAACACACAAAGTGCCTG
Done.