Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 68 of 410
Found at i:19011240 original size:57 final size:57
Alignment explanation
Indices: 19011150--19011352 Score: 298
Period size: 57 Copynumber: 3.5 Consensus size: 57
19011140 GAAAGCATGA
* * **
19011150 ATATGAATGTGATTTGGGCCTAATGGGTTATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGA-TTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
* *
19011208 ATATGAATTAGATTGGGCCTAGTGGGCCATACGATTGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
* * * *
19011265 ATACGAATGAGATTAGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAGTGGACC
1 ATATGAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
*
19011322 ATATGAATGAGATTGGGCCTGGTGGGCCATA
1 ATATGAATGAGATTGGGCCTAGTGGGCCATA
19011353 TGCATGTATG
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 120 0.92
58 10 0.08
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.29
Consensus pattern (57 bp):
ATATGAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
Found at i:19012149 original size:27 final size:27
Alignment explanation
Indices: 19012082--19012149 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
19012072 CTGAGGTAAG
* * *
19012082 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
19012108 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
19012135 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
19012150 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:19023545 original size:100 final size:100
Alignment explanation
Indices: 19023430--19023630 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
19023420 TTCGTGTGCG
19023430 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
1 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
19023495 TTACGGGCCATGGTATAGGTACTTTGGGATAAGTT
66 TTACGGGCCATGGTATAGGTACTTTGGGATAAGTT
19023530 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
1 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
19023595 TTACGGGCCATGGTATAGGTACTTTGGGATAAGTT
66 TTACGGGCCATGGTATAGGTACTTTGGGATAAGTT
19023630 A
1 A
19023631 CCTTGATTTG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (100 bp):
AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
TTACGGGCCATGGTATAGGTACTTTGGGATAAGTT
Found at i:19023652 original size:47 final size:47
Alignment explanation
Indices: 19023435--19023659 Score: 229
Period size: 47 Copynumber: 4.7 Consensus size: 47
19023425 GTGCGAATAA
* * * *
19023435 TACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTATGAGAGAAGT
* * *
19023482 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACTT-TGGGATAAGTTAAT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTATGAGAGAAG----T
* * * *
19023533 AATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATT
1 --TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTATGAGAGAAGT
* * *
19023582 TACCTTGATTTGGTTACGGGCCATGGTATAGGTACTT-TGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTATGAGAGAAGT
*
19023629 TACCTTGATTTGGCTACGAGCCATGGTATAG
1 TACCTTGATTTGGCTACGGGCCATGGTATAG
19023660 TTGCTTATCA
Statistics
Matches: 146, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
47 102 0.70
48 4 0.03
49 1 0.01
51 1 0.01
52 2 0.01
53 36 0.25
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTATGAGAGAAGT
Found at i:19030829 original size:19 final size:19
Alignment explanation
Indices: 19030807--19030866 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
19030797 AGTCTGAAGG
19030807 AAGTACACGAGTCATTCTC
1 AAGTACACGAGTCATTCTC
* * * *
19030826 AAGTA-AAG-GACCTGT-TG
1 AAGTACACGAGTCAT-TCTC
19030843 AAGTACACGAGTCATTCTC
1 AAGTACACGAGTCATTCTC
19030862 AAGTA
1 AAGTA
19030867 AAGGACCTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 14 0.48
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (19 bp):
AAGTACACGAGTCATTCTC
Found at i:19030852 original size:36 final size:36
Alignment explanation
Indices: 19030806--19030877 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19030796 AAGTCTGAAG
19030806 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
1 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
19030842 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
1 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
19030878 CATAAAGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (36 bp):
GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
Found at i:19034233 original size:40 final size:39
Alignment explanation
Indices: 19034108--19034219 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 39
19034098 TCGAATGATG
* * *
19034108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACC-ATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGT-TCCAAAA
*
19034148 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTCCAAAA
*
19034188 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAG
19034220 CTATTATAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
39 3 0.05
40 51 0.82
41 8 0.13
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTCCAAAA
Found at i:19039580 original size:40 final size:40
Alignment explanation
Indices: 19039497--19039608 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
19039487 TCGAATGATG
* *
19039497 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
19039537 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
19039577 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
19039609 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:19048397 original size:11 final size:11
Alignment explanation
Indices: 19048376--19048400 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19048366 TTCATTTTCC
19048376 TTTAATTTTAG
1 TTTAATTTTAG
19048387 TTTAATTTTAG
1 TTTAATTTTAG
19048398 TTT
1 TTT
19048401 TTACAATTTT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAG
Found at i:19052144 original size:12 final size:12
Alignment explanation
Indices: 19052127--19052152 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19052117 ATAAACACCA
19052127 AAAATATTTTTT
1 AAAATATTTTTT
19052139 AAAATATTTTTT
1 AAAATATTTTTT
19052151 AA
1 AA
19052153 CTCGGATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:19054208 original size:13 final size:13
Alignment explanation
Indices: 19054190--19054216 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19054180 TACATCCACT
19054190 AGACTAGGAGTAC
1 AGACTAGGAGTAC
19054203 AGACTAGGAGTAC
1 AGACTAGGAGTAC
19054216 A
1 A
19054217 TGAACCAACT
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:0.41, C:0.15, G:0.30, T:0.15
Consensus pattern (13 bp):
AGACTAGGAGTAC
Found at i:19056132 original size:46 final size:46
Alignment explanation
Indices: 19056082--19056254 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
19056072 TGGTTGAGCA
*
19056082 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
19056128 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
19056175 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
19056221 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19056255 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19056238 original size:93 final size:93
Alignment explanation
Indices: 19056079--19056249 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
19056069 GGATGGTTGA
* *
19056079 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
19056144 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
19056172 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
19056237 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19056250 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19060653 original size:11 final size:11
Alignment explanation
Indices: 19060637--19060675 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19060627 TGGCTTTTAA
*
19060637 TAAAATTATGT
1 TAAAATTATAT
19060648 TAAAATTATAT
1 TAAAATTATAT
*
19060659 TATAATTATAAT
1 TAAAATTAT-AT
19060671 TAAAA
1 TAAAA
19060676 ATAATAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TAAAATTATAT
Found at i:19061874 original size:21 final size:20
Alignment explanation
Indices: 19061848--19061887 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19061838 GTTAGATTTA
*
19061848 ATTTGAATGAAGTAAATGTTT
1 ATTTG-ATGAAATAAATGTTT
*
19061869 ATTTGATTAAATAAATGTT
1 ATTTGATGAAATAAATGTT
19061888 ATAAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTTGATGAAATAAATGTTT
Found at i:19077989 original size:27 final size:26
Alignment explanation
Indices: 19077945--19077996 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19077935 CTTGCTGCAA
*
19077945 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19077972 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19077997 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19083036 original size:27 final size:28
Alignment explanation
Indices: 19082980--19083049 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
19082970 AAATTGGTAC
19082980 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
19083008 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
19083035 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19083050 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:19091026 original size:27 final size:28
Alignment explanation
Indices: 19090970--19091039 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
19090960 AAATTGGTAC
19090970 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
19090998 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
19091025 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19091040 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:19097006 original size:28 final size:29
Alignment explanation
Indices: 19096972--19097086 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
19096962 TACCTGTATC
* *
19096972 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
19097000 TAGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
19097029 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
19097058 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
19097086 T
1 T
19097087 TCATTCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:19097033 original size:57 final size:58
Alignment explanation
Indices: 19096963--19097073 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
19096953 AATTTCACAT
* *
19096963 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATAGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
* * * *
19097020 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCA
19097074 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
Found at i:19098457 original size:16 final size:16
Alignment explanation
Indices: 19098436--19098468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19098426 GAAAATTGAA
*
19098436 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
19098452 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
19098468 G
1 G
19098469 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:19101271 original size:30 final size:29
Alignment explanation
Indices: 19101235--19101335 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
19101225 GACAAGATTG
* *
19101235 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATT-TATA
*
19101265 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATT-TATA
* *
19101293 GCACTAAGTGTGCGAGCTGAAAATTTATA
1 GCACTAAGTGTGCGAGTTTAAAATTTATA
19101322 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19101336 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
29 18 0.29
30 21 0.34
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAATTTATA
Found at i:19109146 original size:30 final size:29
Alignment explanation
Indices: 19109110--19109210 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
19109100 GACAAGATTG
* *
19109110 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATT-TATA
*
19109140 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATT-TATA
* *
19109168 GCACTAAGTGTGCGAGCTGAAAATTTATA
1 GCACTAAGTGTGCGAGTTTAAAATTTATA
19109197 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19109211 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
29 18 0.29
30 21 0.34
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAATTTATA
Found at i:19110785 original size:29 final size:28
Alignment explanation
Indices: 19110721--19110813 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 28
19110711 GCCCAATCAT
19110721 ATTCAT-TGGTCCATTAGG-CCAAATCCAC
1 ATTCATATGG-CCATTAGGCCCAAA-CCAC
*
19110749 CTAT-ATATGGCCTATTAGGCCCAAACCAC
1 AT-TCATATGGCC-ATTAGGCCCAAACCAC
* **
19110778 ATTCATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGG-CCATTAGGCCCAAACCAC
19110806 ATTCATAT
1 ATTCATAT
19110814 TCATGCTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
28 18 0.33
29 29 0.54
30 7 0.13
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCATTAGGCCCAAACCAC
Found at i:19111073 original size:16 final size:16
Alignment explanation
Indices: 19111023--19111072 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
19111013 GTAGCCAAAC
*
19111023 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCT
*
19111039 TTTCAGCTTTTCGACT
1 TTTCAGCTTTTCGGCT
*
19111055 TTTCAGCATTTCGG-T
1 TTTCAGCTTTTCGGCT
19111070 TTT
1 TTT
19111073 TGTCGATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.12, C:0.22, G:0.16, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCT
Found at i:19112082 original size:20 final size:20
Alignment explanation
Indices: 19112054--19112094 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
19112044 TCCTTTAATA
*
19112054 ATTAGATTATAATTTCTTCT
1 ATTAAATTATAATTTCTTCT
19112074 ATTAAATTATAATTTCTTCT
1 ATTAAATTATAATTTCTTCT
19112094 A
1 A
19112095 CCCCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAAATTATAATTTCTTCT
Found at i:19112219 original size:16 final size:16
Alignment explanation
Indices: 19112200--19112235 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19112190 AAAATTTGAA
19112200 ATTTCGGGATTTTTGG
1 ATTTCGGGATTTTTGG
19112216 ATTTCGGGATTTTTGG
1 ATTTCGGGATTTTTGG
19112232 ATTT
1 ATTT
19112236 TGAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.06, G:0.28, T:0.53
Consensus pattern (16 bp):
ATTTCGGGATTTTTGG
Found at i:19123699 original size:31 final size:31
Alignment explanation
Indices: 19123661--19123720 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
19123651 TAAAATTAAA
19123661 GTTAGTTTGATTTATGAAGTATCCCTTATAT
1 GTTAGTTTGATTTATGAAGTATCCCTTATAT
19123692 GTTAGTTTGATTTATGAAGTATCCCTTAT
1 GTTAGTTTGATTTATGAAGTATCCCTTAT
19123721 TATGCGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (31 bp):
GTTAGTTTGATTTATGAAGTATCCCTTATAT
Found at i:19129996 original size:28 final size:29
Alignment explanation
Indices: 19129949--19130008 Score: 113
Period size: 28 Copynumber: 2.1 Consensus size: 29
19129939 TTCATGCAGC
19129949 ATTCCATTTTTTTTTTCTTCCTCACAACT
1 ATTCCATTTTTTTTTTCTTCCTCACAACT
19129978 ATTCCA-TTTTTTTTTCTTCCTCACAACT
1 ATTCCATTTTTTTTTTCTTCCTCACAACT
19130006 ATT
1 ATT
19130009 AACATGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTCCATTTTTTTTTTCTTCCTCACAACT
Found at i:19131002 original size:43 final size:43
Alignment explanation
Indices: 19130936--19131022 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
19130926 AAATCGTACA
*
19130936 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
19130979 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
19131022 A
1 A
19131023 AATCACATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 36 0.90
44 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:19139750 original size:38 final size:38
Alignment explanation
Indices: 19139608--19139752 Score: 166
Period size: 38 Copynumber: 3.8 Consensus size: 38
19139598 TCTGCTTGGT
* * * * * *
19139608 GTGTTTTGGTTGGATTAGCACTTATAAGGTTCTATTTG
1 GTGTTTCGGTTGGATCAGCACTTATGAGCTTTTGTTTG
* * * *
19139646 GAGTTTCAGTTGGATCAACACTTATGAGATTTTGTTTG
1 GTGTTTCGGTTGGATCAGCACTTATGAGCTTTTGTTTG
*
19139684 GTGATTT-GGTTGGATCAGCTCTTATGAGCTTTTGTTTG
1 GTG-TTTCGGTTGGATCAGCACTTATGAGCTTTTGTTTG
*
19139722 GTGTTTCGGTTGGATCAGCTCTTATGAGCTT
1 GTGTTTCGGTTGGATCAGCACTTATGAGCTT
19139753 CTATCTAGTG
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
37 3 0.03
38 85 0.93
39 3 0.03
ACGTcount: A:0.17, C:0.11, G:0.27, T:0.45
Consensus pattern (38 bp):
GTGTTTCGGTTGGATCAGCACTTATGAGCTTTTGTTTG
Found at i:19146828 original size:27 final size:28
Alignment explanation
Indices: 19146766--19146835 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
19146756 AAATTTGTAC
19146766 AGCACTAAGTGTGCGAGTTTGATCACAT
1 AGCACTAAGTGTGCGAGTTTGATCACAT
* *
19146794 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCACAT
* *
19146821 GGCGCTAAGTGTGCG
1 AGCACTAAGTGTGCG
19146836 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCACAT
Found at i:19149411 original size:50 final size:49
Alignment explanation
Indices: 19149296--19149471 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
19149286 ATCTAGTATG
** * *
19149296 CATAGTAGCCTGCACTTAGTACTACACTTGCGACCAATTATC-CAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGA-TACA
* * **
19149345 CGTAGTAGCCTGCACTTATTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACA
* * * *
19149395 CATAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGTTAT-TGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCT-GATACA
19149446 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
19149472 TGTAACACCC
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 30 0.29
50 42 0.40
51 33 0.31
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACA
Found at i:19150890 original size:40 final size:40
Alignment explanation
Indices: 19150845--19151012 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
19150835 CGGAATACAA
19150845 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * *
19150885 CCGGATATAACGACTCGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
19150925 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
19150965 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
19151005 CCGGATAT
1 CCGGATAT
19151013 CATTCAATTG
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.04
40 110 0.96
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:19159112 original size:47 final size:47
Alignment explanation
Indices: 19159044--19159357 Score: 245
Period size: 47 Copynumber: 6.7 Consensus size: 47
19159034 TTTGTGTGCT
*
19159044 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* * * *
19159090 AGTGTAAGACCATGTCTGGGACATGGCATTGG-CA-TTTAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT--ATGAGAGCC
* *
19159138 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATAT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCC
* * * * *
19159184 AGTGTAAGA-CATGTCTGGGACATACATCGGCTACATGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* * * * * * *
19159228 AGTGTAAGACCATATCTAGGACAAGGCATTGGCACAGATACATGAGAGTC
1 AGTGTAAGACCATGTCTGGGAC-ATGCATCGGC-CACAT-TATGAGAGCC
* * *
19159278 AGTGTAAGACCATGTCTGGGACATAGCATCGACTTA-A-TGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CACATTATGAGAGCC
*
19159325 AGTGTAAGACCATGTCTGGCACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC
19159358 ATTATACCCG
Statistics
Matches: 212, Mismatches: 40, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 13 0.06
45 11 0.05
46 58 0.27
47 72 0.34
48 24 0.11
49 2 0.01
50 32 0.15
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
Found at i:19159198 original size:46 final size:45
Alignment explanation
Indices: 19159044--19159357 Score: 185
Period size: 46 Copynumber: 6.7 Consensus size: 45
19159034 TTTGTGTGCT
* * *
19159044 AGTGTAAGACATGTCTGGGACATGCATCAGCCACA-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGATAT-A-AGCC
* * * * * *
19159090 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTTAGACGA-GAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAGA-TATAAGCC
19159138 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGATATAAGCC
* * *
19159184 AGTGTAAGACATGTCTGGGACATACATCGG-CTACATGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CA-GATATAAGCC
* * * * * *
19159228 AGTGTAAGACCATATCTAGGACAAGGCATTGG-CACAGATACATGAGAGTC
1 AGTGTAAGA-CATGTCTGGGAC-ATGCATCGGCCTCAGAT--AT-A-AGCC
* * *
19159278 AGTGTAAGACCATGTCTGGGACATAGCATC-GACTTA-ATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAGATAT-A-AGCC
*
19159325 AGTGTAAGACCATGTCTGGCACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
19159358 ATTATACCCG
Statistics
Matches: 212, Mismatches: 36, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
44 14 0.07
45 17 0.08
46 64 0.30
47 63 0.30
48 19 0.09
49 5 0.02
50 29 0.14
51 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGATATAAGCC
Found at i:19159283 original size:140 final size:141
Alignment explanation
Indices: 19159044--19159308 Score: 349
Period size: 140 Copynumber: 1.9 Consensus size: 141
19159034 TTTGTGTGCT
* * * *
19159044 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACATCAGCCACATGAT-AGAGCCAGTGTAAGACCATATCTAG
* ** *
19159109 GACATGGCATTGGCATTTAGACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTC
65 GACAAGGCATTGGCAGATACACGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTC
19159172 GAGATATAAGCC
130 GAGATATAAGCC
* * * *
19159184 AGTGTAAGACATGTCTGGGACATACATCGGCTACATGAT-GTGTCAGTGTAAGACCATATCTAGG
1 AGTGTAAGACATGTCTGGGACATACATCAGCCACATGATAGAGCCAGTGTAAGACCATATCTAGG
*
19159248 ACAAGGCATTGGCACAGATACATGAGAG-TCAGTGTAAGACCATGTCTGGGACATAGCATCG
66 ACAAGGCATTGG--CAGATACACGAGAGCT-AGTGTAAGACCATGTCTGGGACATAGCATCG
19159309 ACTTAATGTG
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 32 0.30
139 1 0.01
140 54 0.50
141 14 0.13
142 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATACATCAGCCACATGATAGAGCCAGTGTAAGACCATATCTAGG
ACAAGGCATTGGCAGATACACGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
AGATATAAGCC
Found at i:19162622 original size:10 final size:10
Alignment explanation
Indices: 19162607--19162636 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
19162597 TATCTTGCTA
19162607 TGATTTGTAT
1 TGATTTGTAT
19162617 TGATTTGTAT
1 TGATTTGTAT
19162627 TGATTTGTAT
1 TGATTTGTAT
19162637 GTTGATGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (10 bp):
TGATTTGTAT
Found at i:19162976 original size:47 final size:46
Alignment explanation
Indices: 19162908--19163320 Score: 256
Period size: 47 Copynumber: 8.7 Consensus size: 46
19162898 TTTGTGTCCT
* * * *
19162908 AGTGTAAGACATGTTTAGGACAT-GTATCGGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CACATGATGAAAGCC
*
19162954 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGA-GACAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACATGATG--AA-AGCC
* * *
19163002 AGTGTAAGACATGTCTGGGACATGGCATTGGCA-TTGAGATGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCACAT--GATGAAAGCC
* * * *
19163049 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGA-GATGTAAGAC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CAC-ATGATGAAAGCC
* ** *
19163095 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CATGA-GATGTGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACATGATGA-AAGCC
*
19163141 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGAT-ATGTGAAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC--ATGA--TGAAAGCC
* * * * * * *
19163191 AATGTAAGAGCATGTCTAGGACATGGCGTCGGCTTTA-ATCACGATAGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC---ACATGATGAAAGCC
* * ** *
19163240 AGTGTAAGAGCATGTTTGGGACATGGCATC--AATTTGATGTATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACATGATG-A-AAGCC
*
19163287 AGTGTAAGATAATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
19163321 TCTTACCCTC
Statistics
Matches: 292, Mismatches: 44, Indels: 59
0.74 0.11 0.15
Matches are distributed among these distances:
44 1 0.00
45 6 0.02
46 71 0.24
47 115 0.39
48 26 0.09
49 36 0.12
50 33 0.11
51 3 0.01
53 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACATGATGAAAGCC
Found at i:19163067 original size:94 final size:96
Alignment explanation
Indices: 19162945--19163175 Score: 284
Period size: 94 Copynumber: 2.5 Consensus size: 96
19162935 CGGCCACATT
*
19162945 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GAGA-CAAGAGCTAGTGTA
1 ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGAGAGCAAGA-C-AGTGTA
* *
19163008 AGA-CATGTCTGGGACATGGCATTG-GCATTGAG
64 AGACCATGTCTGGGACATGGCATCGACCA-TGAG
* *
19163040 ATGAAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-CTCGAGATGTAAGACAGTGTAA
1 ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGAGA-GCAAGACAGTGTAA
19163102 GACCATGTCTGGGACATGGCATCGACCATGAG
65 GACCATGTCTGGGACATGGCATCGACCATGAG
* *
19163134 ATG--TG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC
1 ATGAAAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
19163176 GGATATGTGA
Statistics
Matches: 119, Mismatches: 8, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
91 1 0.01
92 12 0.10
93 33 0.28
94 49 0.41
95 24 0.20
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (96 bp):
ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGAGAGCAAGACAGTGTAAG
ACCATGTCTGGGACATGGCATCGACCATGAG
Found at i:19163293 original size:96 final size:97
Alignment explanation
Indices: 19163138--19163319 Score: 224
Period size: 96 Copynumber: 1.9 Consensus size: 97
19163128 CATGAGATGT
* * *
19163138 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTGAAAGCCAATGTAAGAGCA
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATC-GAACGGATATATG-AAGCCAATGTAAGAGAA
*
19163203 TGTCTAGGACATGGCGTCGGCTTTAATCACGATA
64 TGTCTAGGACATGGCATCGGCTTTAATCACGATA
* ** * * *
19163237 GTCAGTGTAAGAGCATGTTTGGGACATGGCATC-AATTTGATGTATG-AGCCAGTGTAAGATAAT
1 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGAA-CGGATATATGAAGCCAATGTAAGAGAAT
*
19163300 GTCTGGGACATGGCATCGGC
65 GTCTAGGACATGGCATCGGC
19163320 ATCTTACCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
96 32 0.45
97 1 0.01
98 6 0.08
99 32 0.45
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (97 bp):
GTCAGTGTAAGACCATGTTTGGGACATGGCATCGAACGGATATATGAAGCCAATGTAAGAGAATG
TCTAGGACATGGCATCGGCTTTAATCACGATA
Found at i:19164949 original size:46 final size:47
Alignment explanation
Indices: 19164750--19165069 Score: 191
Period size: 47 Copynumber: 6.9 Consensus size: 47
19164740 TAGAGGTTAT
* * * *
19164750 TGTAAGCTAGTGTAAGA-CATGTCTGGGAAAT-GCATTGGC-C-ACA
1 TGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGA
* * * *
19164793 TTATGAGAGCCAGTGTGAA-ACCATGTCTGGGACATGGCATTGACATCTAGA
1 -TGT-A-AGCCAGTGT-AAGACCATGTCTGGGACATGGCATCGGC-TCGAGA
* * * *
19164844 TG-AGTGCTAGTGT-AGACCATGTCTGGGACATGGCATC-ACTATCAAGA
1 TGTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC--TCGAGA
* * *
19164891 CG-AGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
1 TGTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGA
* * * * *
19164937 CGTAAGCCAGTGTAAGA-CATGTGTGGGATAT-ACATCAGCTACGAGA
1 TGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGA
* * * *
19164983 TG-ATAGCGAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGAGA
1 TGTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGA
* * *
19165030 TATGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGG
1 TGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
19165070 TACCTTACCC
Statistics
Matches: 223, Mismatches: 34, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 70 0.31
47 117 0.52
48 26 0.12
50 2 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGA
Found at i:19166904 original size:30 final size:30
Alignment explanation
Indices: 19166849--19166979 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
19166839 ATAGTGAATC
*
19166849 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
19166878 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
19166908 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
19166936 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
19166966 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19166980 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:19166959 original size:58 final size:58
Alignment explanation
Indices: 19166848--19166979 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
19166838 TATAGTGAAT
* * * * *
19166848 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
19166907 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
19166965 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
19166980 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:19174857 original size:30 final size:30
Alignment explanation
Indices: 19174802--19174932 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
19174792 ATAGTGAATC
*
19174802 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
19174831 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
19174861 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
19174889 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
19174919 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19174933 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:19174912 original size:58 final size:58
Alignment explanation
Indices: 19174801--19174932 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
19174791 TATAGTGAAT
* * * * *
19174801 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
19174860 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
19174918 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
19174933 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:19176803 original size:6 final size:6
Alignment explanation
Indices: 19176792--19176918 Score: 111
Period size: 6 Copynumber: 20.8 Consensus size: 6
19176782 AACCAAAATG
*
19176792 AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC
* *
19176840 AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
19176889 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
19176919 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
5 7 0.07
6 82 0.83
7 7 0.07
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:19176826 original size:30 final size:31
Alignment explanation
Indices: 19176792--19176893 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 31
19176782 AACCAAAATG
19176792 AGAATCAGAATCAGAATCA-ATATTA-GTAAC
1 AGAATCAGAATCAGAATCAGA-ATTAGGTAAC
*
19176822 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTAAC
*
19176853 AGAATCAGAATCAGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAG-AATCAGAATTAGGTAA-C
19176883 AGAATCAGAAT
1 AGAATCAGAAT
19176894 TACGTGACAG
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.55
31 26 0.40
32 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTAAC
Found at i:19176857 original size:19 final size:18
Alignment explanation
Indices: 19176833--19176912 Score: 82
Period size: 19 Copynumber: 4.7 Consensus size: 18
19176823 GAATCAGAAT
19176833 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTA-GTGA
* *
19176852 CAGAATCAGAATCAGTAA
1 CAGAATCAGAATTAGTGA
19176870 CAGAATCAG-A--A-T--
1 CAGAATCAGAATTAGTGA
19176882 CAGAATCAGAATTACGTGA
1 CAGAATCAGAATTA-GTGA
19176901 CAGAATCAGAAT
1 CAGAATCAGAAT
19176913 CAGAATGTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
12 9 0.17
13 1 0.02
14 1 0.02
15 2 0.04
17 2 0.04
18 12 0.23
19 25 0.48
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (18 bp):
CAGAATCAGAATTAGTGA
Found at i:19176869 original size:49 final size:49
Alignment explanation
Indices: 19176803--19176915 Score: 192
Period size: 49 Copynumber: 2.3 Consensus size: 49
19176793 GAATCAGAAT
* *
19176803 CAGAATCA-ATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
19176852 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
19176901 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
19176916 AATGTGAATG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
49 60 0.98
50 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (49 bp):
CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
Found at i:19177084 original size:27 final size:26
Alignment explanation
Indices: 19177038--19177109 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
19177028 TATGGCTGCT
* * *
19177038 AGAACAGATATCGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
19177064 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
19177091 AGAATCAGATAATGTGGCA
1 AGAA-CAGATATTGTGGCA
19177110 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:19177116 original size:27 final size:27
Alignment explanation
Indices: 19177060--19177117 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
19177050 GTGACAGAGT
* * *
19177060 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
19177087 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
19177114 CACC
1 CACC
19177118 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:19177322 original size:22 final size:22
Alignment explanation
Indices: 19177274--19177332 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
19177264 GTAAATACGT
*
19177274 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
19177296 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
19177318 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
19177333 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:19177499 original size:27 final size:26
Alignment explanation
Indices: 19177420--19177502 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
19177410 TCGATTGGTC
* * *
19177420 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
19177446 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
19177473 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
19177500 AAC
1 AAC
19177503 GCTTCCTCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:19177731 original size:27 final size:27
Alignment explanation
Indices: 19177701--19177816 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
19177691 GGGGCAAAAT
* *
19177701 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
19177728 GGTAATTCTACTCTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
19177755 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
19177782 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
19177809 AGTAATTT
1 GGTAATTT
19177817 CACAATCAAG
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 6 0.08
27 61 0.84
28 6 0.08
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:19177773 original size:54 final size:55
Alignment explanation
Indices: 19177702--19177817 Score: 155
Period size: 54 Copynumber: 2.1 Consensus size: 55
19177692 GGGCAAAATG
* * * *
19177702 GTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACTCTACAGGAGTATTTCG
1 GTAATTTCTACCCCACAAGGGTATCTCAGAAATTCTACCCTACAGGAGTATTTCA
* * *
19177756 GT-ATTTCTACCCTACAAGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTCTACCCCACAAGGGTATCTCAGAAATTCTACCCTACAGGAGTATTTCA
19177810 GTAATTTC
1 GTAATTTC
19177818 ACAATCAAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.08
54 44 0.83
55 5 0.09
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (55 bp):
GTAATTTCTACCCCACAAGGGTATCTCAGAAATTCTACCCTACAGGAGTATTTCA
Found at i:19178651 original size:27 final size:27
Alignment explanation
Indices: 19177820--19178634 Score: 1124
Period size: 27 Copynumber: 30.2 Consensus size: 27
19177810 GTAATTTCAC
*
19177820 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19177847 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
19177874 AATTGAGGGTAAACCAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
19177901 AATCAAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19177928 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
19177955 AA-CTGAGGGTAAACCAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
19177982 AATCAAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178009 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
19178036 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178063 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
19178090 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
19178117 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
19178144 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19178171 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19178198 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
19178225 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
19178252 AATCAAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178279 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
19178306 AATCAAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178333 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178360 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
19178387 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
19178414 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
19178441 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178468 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178495 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178522 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
19178549 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178576 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178603 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19178630 AATCG
1 AATCG
19178635 GGAGTACTTT
Statistics
Matches: 707, Mismatches: 65, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.01
27 691 0.98
28 8 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:19181530 original size:57 final size:57
Alignment explanation
Indices: 19181461--19181575 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
19181451 ATTGTTAGTG
19181461 AAGAGGGGTTGGAACTATCAGAAAATGAAATAGGGGTGAATTTAAAGAATAAACTGT
1 AAGAGGGGTTGGAACTATCAGAAAATGAAATAGGGGTGAATTTAAAGAATAAACTGT
*
19181518 AAGAGGGGTTGGAACTGTCAGAAAATGAAATAGGGGTGAATTTAAAGAATAAACTGT
1 AAGAGGGGTTGGAACTATCAGAAAATGAAATAGGGGTGAATTTAAAGAATAAACTGT
19181575 A
1 A
19181576 CTTATTGGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.23
Consensus pattern (57 bp):
AAGAGGGGTTGGAACTATCAGAAAATGAAATAGGGGTGAATTTAAAGAATAAACTGT
Found at i:19181554 original size:28 final size:28
Alignment explanation
Indices: 19181464--19181554 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
19181454 GTTAGTGAAG
19181464 AGGGGTTGGAACTATCAGAAAATGAAAT
1 AGGGGTTGGAACTATCAGAAAATGAAAT
* * * *
19181492 AGGGG-T-GAA-TTTAAAGAATAAACTGTAAG
1 AGGGGTTGGAACTAT-CAG-A-AAA-TGAAAT
*
19181521 AGGGGTTGGAACTGTCAGAAAATGAAAT
1 AGGGGTTGGAACTATCAGAAAATGAAAT
19181549 AGGGGT
1 AGGGGT
19181555 GAATTTAAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
25 2 0.04
26 5 0.10
27 2 0.04
28 18 0.38
29 12 0.25
30 2 0.04
31 5 0.10
32 2 0.04
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (28 bp):
AGGGGTTGGAACTATCAGAAAATGAAAT
Found at i:19187696 original size:33 final size:33
Alignment explanation
Indices: 19187632--19187700 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
19187622 TTTTGAGTAC
19187632 TTAGATTAATAAAATGATTAAATTCGTGAATTT
1 TTAGATTAATAAAATGATTAAATTCGTGAATTT
*
19187665 TTAGATTAATAAAATTATTAAATTCGTGAATTT
1 TTAGATTAATAAAATGATTAAATTCGTGAATTT
19187698 TTA
1 TTA
19187701 TCATTATAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (33 bp):
TTAGATTAATAAAATGATTAAATTCGTGAATTT
Found at i:19188049 original size:47 final size:47
Alignment explanation
Indices: 19187979--19188245 Score: 196
Period size: 47 Copynumber: 5.7 Consensus size: 47
19187969 TTTGTGTCCT
*
19187979 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCAAATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCAAATTATGAGAGTC
* *
19188025 AATGTAAGACCATGTCTGGGACATGACATCGG-C--ATTGA-GACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCAAATT-ATGA-GAG-TC
* * * * * *
19188072 TAGT-TCAGA-CATGACTGGGACATGCATCGGCTACATGAT--GTGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCCAAATTATGAGAGTC
* *
19188116 AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGA-TACGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CAAATTA--TGAGAGTC
* * ** * *
19188166 AGTGTAAGACCATGTCTGGGACAAGGCATCGACTTAA-CATGAGAGCC
1 AGTGTAAGACCATGTCTGGGAC-ATGCATCGGCCAAATTATGAGAGTC
*
19188213 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC
19188246 ATTATACCCT
Statistics
Matches: 175, Mismatches: 26, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.02
44 5 0.03
45 26 0.15
46 35 0.20
47 58 0.33
48 11 0.06
49 2 0.01
50 34 0.19
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCAAATTATGAGAGTC
Found at i:19196329 original size:40 final size:40
Alignment explanation
Indices: 19196202--19196331 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
19196192 ATGCTGGAAA
* *
19196202 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
19196242 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
19196282 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
19196322 TTATATCCGG
1 TTATATCCGG
19196332 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:19203324 original size:36 final size:34
Alignment explanation
Indices: 19203217--19203325 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 34
19203207 CTCTCTATTT
* *
19203217 TGGTGTGTTTCAATTGGACTAGCTCTTCAGAGCCAT-
1 TGGTGTGTTTTAA-TGGATTAGCTCTT-AGAG-CATC
19203253 TGGTGTGTTTTAGATGGATTAGCTCTTACGAGCATC
1 TGGTGTGTTTTA-ATGGATTAGCTCTTA-GAGCATC
19203289 TGGTGTGTTTTGAATGGATTAGCTCTTATGAGCATC
1 TGGTGTGTTTT-AATGGATTAGCTCTTA-GAGCATC
19203325 T
1 T
19203326 AGAGTTTGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
35 4 0.06
36 60 0.91
37 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (34 bp):
TGGTGTGTTTTAATGGATTAGCTCTTAGAGCATC
Found at i:19207909 original size:16 final size:16
Alignment explanation
Indices: 19207890--19207923 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
19207880 CAGATCAGTA
19207890 AACATGCATAAATTTT
1 AACATGCATAAATTTT
19207906 AACATGCATAAATTTT
1 AACATGCATAAATTTT
19207922 AA
1 AA
19207924 ATTATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (16 bp):
AACATGCATAAATTTT
Found at i:19208694 original size:21 final size:22
Alignment explanation
Indices: 19208656--19208696 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19208646 AATGCAATCC
*
19208656 AAAAAGAACATAATCAAAGAAG
1 AAAAAGAACATAAACAAAGAAG
*
19208678 AAAAAGAAGA-AAACAAAGA
1 AAAAAGAACATAAACAAAGA
19208697 TAAGGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (22 bp):
AAAAAGAACATAAACAAAGAAG
Found at i:19210033 original size:19 final size:19
Alignment explanation
Indices: 19210011--19210049 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
19210001 AAATTTTACC
19210011 TTTGACTAGACATTTATCA
1 TTTGACTAGACATTTATCA
*
19210030 TTTGACTAGACTTTTATCA
1 TTTGACTAGACATTTATCA
19210049 T
1 T
19210050 AATAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTGACTAGACATTTATCA
Found at i:19212392 original size:29 final size:29
Alignment explanation
Indices: 19212348--19212420 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
19212338 GTGACAAGAT
*
19212348 TGGCACTAAGTATGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
19212377 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
19212406 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
19212421 GAATTTAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:19212439 original size:29 final size:29
Alignment explanation
Indices: 19212407--19212479 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
19212397 TGAAAAGTAT
* * *
19212407 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
19212436 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
19212465 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
19212480 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:19221389 original size:2 final size:2
Alignment explanation
Indices: 19221382--19221409 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19221372 TGCTATGGAA
19221382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19221410 GAAAATGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19221819 original size:35 final size:35
Alignment explanation
Indices: 19221628--19221820 Score: 139
Period size: 35 Copynumber: 5.5 Consensus size: 35
19221618 CAATTCTTTA
* *
19221628 TCGATTTATTTGACTAGTGTAGGGCACAATGATTG
1 TCGATTTATCTGACTAGTGTAGGGCACAATTATTG
* * *
19221663 TC-AATTATCTGACTAGCGCT-GGGCGCAAATCT-TTG
1 TCGATTTATCTGACTAGTG-TAGGGCAC-AAT-TATTG
* *
19221698 TCGATCTAT-TCGACTAGTGTAGGACACAATTATTG
1 TCGATTTATCT-GACTAGTGTAGGGCACAATTATTG
* ** * *
19221733 TCGATTTATCCGACTAGCACT-GGGCTCAAATCT-TTT
1 TCGATTTATCTGACTAG-TGTAGGGCAC-AAT-TATTG
* *
19221769 TCGATCTAT-TCGACTAGTGTAGGACACAATTATTG
1 TCGATTTATCT-GACTAGTGTAGGGCACAATTATTG
19221804 TCGATTTATCTGACTAG
1 TCGATTTATCTGACTAG
19221821 CACTGGGCGC
Statistics
Matches: 118, Mismatches: 25, Indels: 30
0.68 0.14 0.17
Matches are distributed among these distances:
34 20 0.17
35 57 0.48
36 40 0.34
37 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (35 bp):
TCGATTTATCTGACTAGTGTAGGGCACAATTATTG
Found at i:19221857 original size:71 final size:71
Alignment explanation
Indices: 19221603--19221833 Score: 347
Period size: 71 Copynumber: 3.3 Consensus size: 71
19221593 TGGTTTATTC
* * * * * * * *
19221603 GACTAGCGCTGGGCGCAATTCTTTATCGATTTATTTGACTAGTGTAGGGCACAATGATTGTC-AA
1 GACTAGCACTGGGCGCAAATCTTTGTCGATCTATTCGACTAGTGTAGGACACAATTATTGTCGAT
19221667 TTATCT
66 TTATCT
*
19221673 GACTAGCGCTGGGCGCAAATCTTTGTCGATCTATTCGACTAGTGTAGGACACAATTATTGTCGAT
1 GACTAGCACTGGGCGCAAATCTTTGTCGATCTATTCGACTAGTGTAGGACACAATTATTGTCGAT
*
19221738 TTATCC
66 TTATCT
* *
19221744 GACTAGCACTGGGCTCAAATCTTTTTCGATCTATTCGACTAGTGTAGGACACAATTATTGTCGAT
1 GACTAGCACTGGGCGCAAATCTTTGTCGATCTATTCGACTAGTGTAGGACACAATTATTGTCGAT
19221809 TTATCT
66 TTATCT
19221815 GACTAGCACTGGGCGCAAA
1 GACTAGCACTGGGCGCAAA
19221834 ACATTGTCAG
Statistics
Matches: 147, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 56 0.38
71 91 0.62
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (71 bp):
GACTAGCACTGGGCGCAAATCTTTGTCGATCTATTCGACTAGTGTAGGACACAATTATTGTCGAT
TTATCT
Found at i:19223256 original size:46 final size:46
Alignment explanation
Indices: 19223201--19223381 Score: 215
Period size: 46 Copynumber: 3.9 Consensus size: 46
19223191 TAGGATGGTT
19223201 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * *
19223247 GAGCGTCCGAACTCGTTGAGTTGAGTCCTAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
19223293 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
19223340 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19223382 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:19223362 original size:93 final size:93
Alignment explanation
Indices: 19223203--19223373 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
19223193 GGATGGTTGA
* * *
19223203 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
19223268 TGAGTCCTAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19223296 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
19223361 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19223374 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19226532 original size:12 final size:12
Alignment explanation
Indices: 19226515--19226540 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19226505 CCCCACATGC
19226515 CCGTGTGCTAGG
1 CCGTGTGCTAGG
19226527 CCGTGTGCTAGG
1 CCGTGTGCTAGG
19226539 CC
1 CC
19226541 TTGTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:19227140 original size:19 final size:19
Alignment explanation
Indices: 19227116--19227153 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19227106 ACTTAGATGG
19227116 ATAGTGTGAGCTGGTTGCT
1 ATAGTGTGAGCTGGTTGCT
19227135 ATAGTGTGAGCTGGTTGCT
1 ATAGTGTGAGCTGGTTGCT
19227154 TGATCCTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.37, T:0.37
Consensus pattern (19 bp):
ATAGTGTGAGCTGGTTGCT
Found at i:19227375 original size:40 final size:40
Alignment explanation
Indices: 19227290--19227450 Score: 182
Period size: 40 Copynumber: 4.0 Consensus size: 40
19227280 TATATGGTTT
* * *
19227290 AGGGTTACCAAAGTAAAAATA-GGGCACATATGTGCATTCA
1 AGGG-TACCAAAGTACAAACAGGGGCACTTATGTGCATTCA
* * *
19227330 GGGGTACCAAAGTACAAATAGGGGAACTTATGTGCATTCA
1 AGGGTACCAAAGTACAAACAGGGGCACTTATGTGCATTCA
** *
19227370 AGGGTACTGAAGTACAAACAGGGGCACCTATGTGCATTCA
1 AGGGTACCAAAGTACAAACAGGGGCACTTATGTGCATTCA
* * *
19227410 AAGGTACCGAAGTACAAACAGGGGCA-TGCATGTGCATTCA
1 AGGGTACCAAAGTACAAACAGGGGCACT-TATGTGCATTCA
19227450 A
1 A
19227451 CAATAATTAT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 15 0.14
40 90 0.86
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.20
Consensus pattern (40 bp):
AGGGTACCAAAGTACAAACAGGGGCACTTATGTGCATTCA
Found at i:19230189 original size:40 final size:40
Alignment explanation
Indices: 19230145--19230256 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 40
19230135 TAGCGTTAAG
* *
19230145 AAAGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACC
1 AAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTACC
* *
19230185 AAAGTAGAAACAGGGGTACATATGTGCATTCAGGGGTACC
1 AAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTACC
* *
19230225 GAAGTACAAATAGGGGCACATATGTGCATTCA
1 AAAGTACAAACAGGGGCACATATGTGCATTCA
19230257 ACAATTATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.21
Consensus pattern (40 bp):
AAAGTACAAACAGGGGCACATATGTGCATTCAGGGGTACC
Found at i:19232287 original size:42 final size:42
Alignment explanation
Indices: 19232173--19232342 Score: 128
Period size: 43 Copynumber: 4.0 Consensus size: 42
19232163 TCGTAAACTC
** **
19232173 ATACAATGCCAACATCCCAGACATGGTCTTACATGTTATCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
* * * *
19232215 ATATCAATACCACTGTCCCAGACAGGGTCTTACATGAAATCAT
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
* * *
19232258 ATACGATGCCAATGTCCCAAACATAGTCTTACACAT-AAACCTCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTT--ACATGAAA--TCAA
** * * * *
19232303 AT-TGATGCCAACGTCCTAGACGTGGTCTTACACGAAATCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
19232343 TATATCGGAA
Statistics
Matches: 100, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
41 3 0.03
42 27 0.27
43 40 0.40
44 25 0.25
45 5 0.05
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
Found at i:19236604 original size:48 final size:48
Alignment explanation
Indices: 19236478--19236820 Score: 314
Period size: 48 Copynumber: 6.9 Consensus size: 48
19236468 GGTAAGATGT
* * * **
19236478 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTATATC-AGTGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTC--ACATATCGAG-GC
* * * * *
19236528 TGACGCCATGTTCCAAACATGGTATTACACTAGCACACCTATCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * * *
19236576 CGATGCCATG-TCCTAGACACGGTCTTACACTAGCCCACCTATCGAGGC
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATCGAGGC
* * *
19236624 TGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAG--CTCACATATCGAGGC
19236674 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * * *
19236722 TGATGCCATGTTCCAAACATGGTCTTACATGGTCTTACACTAGCTCTCATATCAATGC
1 CGATGCCATGTTCC--A-A-------ACATGGTCTTACACTAGCTCACATATCGAGGC
*
19236780 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
19236821 ACTCTAGTAA
Statistics
Matches: 247, Mismatches: 31, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
47 3 0.01
48 125 0.51
49 2 0.01
50 69 0.28
51 4 0.02
55 1 0.00
56 1 0.00
58 42 0.17
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
Found at i:19236669 original size:98 final size:98
Alignment explanation
Indices: 19236518--19236750 Score: 314
Period size: 98 Copynumber: 2.4 Consensus size: 98
19236508 TGGCTCTTGT
* * * **
19236518 ATATC-AGTGCTGACGCCATGTTCCAAACATGGTATTACACTAG--CACACCTATCGAGGCCGAT
1 ATATCGAG-GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
*
19236580 GCCATG-TCCTAGACACGGTCTTACACTAGCCCAC
65 GCCATGTTCC-AAACACGGTCTTACACTAGCCCAC
* *
19236614 CTATCGAGGCTGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
1 ATATCGAGGCTGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGAT
* *
19236678 GCCATGTTCCAAACATGGTCTTACACTAGCTCAC
65 GCCATGTTCCAAACACGGTCTTACACTAGCCCAC
19236712 ATATCGAGGCTGATGCCATGTTCCAAACATGGTCTTACA
1 ATATCGAGGCTGATGCCATGTTCCAAACATGGTCTTACA
19236751 TGGTCTTACA
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
95 3 0.03
96 32 0.27
97 2 0.02
98 76 0.64
99 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (98 bp):
ATATCGAGGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATG
CCATGTTCCAAACACGGTCTTACACTAGCCCAC
Found at i:19236746 original size:146 final size:146
Alignment explanation
Indices: 19236479--19236750 Score: 404
Period size: 146 Copynumber: 1.9 Consensus size: 146
19236469 GTAAGATGTC
* ** *
19236479 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTATATCAGTGCTGACGCCATGTTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCGACGCCATGTTCCAA
* *
19236544 ACATGGTATTACACTAGCACACCTATCGAGGCCGATGCCATGTCCTAGACACGGTCTTACACTAG
66 ACATGGTATTACACTAGCACACATATCGAGGCCGATGCCATGTCCTAAACACGGTCTTACACTAG
19236609 CCCACCTATCGAGGCT
131 CCCACCTATCGAGGCT
* *
19236625 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATATCGAG-GCCGATGCCATGTTCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC-AGTGCCGACGCCATGTTCCA
* * * *
19236689 AACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTTCC-AAACATGGTCTTACA
65 AACATGGTATTACACTAGCACACATATCGAGGCCGATGCCATG-TCCTAAACACGGTCTTACA
19236751 TGGTCTTACA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
146 107 0.96
147 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (146 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCGACGCCATGTTCCAA
ACATGGTATTACACTAGCACACATATCGAGGCCGATGCCATGTCCTAAACACGGTCTTACACTAG
CCCACCTATCGAGGCT
Found at i:19236785 original size:58 final size:58
Alignment explanation
Indices: 19236690--19236808 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
19236680 CATGTTCCAA
* *
19236690 ACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTTCCAAACATGGTCTT
1 ACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTT
* *
19236748 ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAACATGGTCTT
1 ACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTT
19236806 ACA
1 ACA
19236809 CTGGCTCACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (58 bp):
ACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTTCCAAACATGGTCTT
Found at i:19239014 original size:40 final size:39
Alignment explanation
Indices: 19238970--19239151 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 39
19238960 GCTACTCGTT
*
19238970 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* *
19239010 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
19239050 CAAATGCCTTCGAATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
19239090 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19239131 CAAA-GCCTTCAGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
19239152 TGGACATCAT
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.02
40 111 0.88
41 13 0.10
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19247180 original size:76 final size:76
Alignment explanation
Indices: 19247053--19247271 Score: 268
Period size: 76 Copynumber: 2.9 Consensus size: 76
19247043 GCTACTCGTT
* *
19247053 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
19247117 GATTTAGTAACTCG
64 GA-TTAGTAACTCA
*
19247131 CACAATGCCTTCGG-CTTAG-CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CA-AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
19247193 GATTAGTAACTCA
64 GATTAGTAACTCA
* * * *
19247206 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
19247270 GA
64 GA
19247272 CATCATTCGA
Statistics
Matches: 125, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
74 11 0.09
75 15 0.12
76 41 0.33
77 34 0.27
78 15 0.12
79 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (76 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTAGTAACTCA
Found at i:19247271 original size:40 final size:39
Alignment explanation
Indices: 19247034--19247271 Score: 258
Period size: 40 Copynumber: 6.1 Consensus size: 39
19247024 CGGAATTTAA
** *
19247034 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGC
* *
19247074 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGC
*
19247114 CCGGATTTAGTAACTCGCAC-AATGCCTTCGG-CTTAG-
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
* *
19247150 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
*
19247190 CCGGAT-TAGTAACT--CACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* *
19247227 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGC
19247267 CCGGA
1 CCGGA
19247272 CATCATTCGA
Statistics
Matches: 178, Mismatches: 10, Indels: 20
0.86 0.05 0.10
Matches are distributed among these distances:
36 20 0.11
37 44 0.25
38 8 0.04
39 24 0.13
40 73 0.41
41 9 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
Found at i:19253898 original size:40 final size:40
Alignment explanation
Indices: 19253828--19254004 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
19253818 AAACCAAGTA
* *
19253828 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
19253867 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19253907 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19253947 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19253986 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19254005 TTATCATCCG
Statistics
Matches: 130, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
38 1 0.01
39 49 0.38
40 80 0.62
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19253981 original size:79 final size:80
Alignment explanation
Indices: 19253828--19254004 Score: 272
Period size: 79 Copynumber: 2.2 Consensus size: 80
19253818 AAACCAAGTA
* *
19253828 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
19253892 TAACTCGCACAAATG
66 TAACTAGCACAAATG
19253907 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
19253969 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
19253986 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19254005 TTATCATCCG
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:19261901 original size:40 final size:40
Alignment explanation
Indices: 19261786--19262003 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
19261776 AAACCAAGTA
* *
19261786 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
19261825 CCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
19261866 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19261906 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19261946 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19261986 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19262004 TTATCATCCG
Statistics
Matches: 171, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
39 27 0.16
40 107 0.63
41 37 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19266081 original size:15 final size:15
Alignment explanation
Indices: 19266061--19266129 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
19266051 GTATCTTGGG
19266061 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
19266076 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
19266091 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
19266106 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
19266121 TTTCTTTAT
1 TTTCTTTAT
19266130 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:19266130 original size:30 final size:30
Alignment explanation
Indices: 19266052--19266139 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
19266042 CATAGTATCG
* * * *
19266052 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
19266082 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19266112 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19266140 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19268686 original size:46 final size:46
Alignment explanation
Indices: 19268523--19268695 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
19268513 ATTTGGGCAT
*
19268523 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
19268567 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
19268612 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
19268660 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19268696 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:19271668 original size:15 final size:15
Alignment explanation
Indices: 19271648--19271716 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
19271638 GTATCTTGGG
19271648 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
19271663 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
19271678 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
19271693 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
19271708 TTTCTTTAT
1 TTTCTTTAT
19271717 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:19271717 original size:30 final size:30
Alignment explanation
Indices: 19271639--19271726 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
19271629 CATAGTATCG
* * * *
19271639 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
19271669 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19271699 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19271727 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19274163 original size:46 final size:46
Alignment explanation
Indices: 19274110--19274285 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
19274100 TATTTGGGCA
19274110 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19274156 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19274201 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
19274249 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19274286 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19274265 original size:93 final size:93
Alignment explanation
Indices: 19274106--19274277 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19274096 GGGATATTTG
* *
19274106 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19274171 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19274199 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19274264 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19274278 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19275788 original size:15 final size:15
Alignment explanation
Indices: 19275768--19275811 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
19275758 TATGATATTG
19275768 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
19275782 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
19275798 TATCTTGGACTTCT
1 TATCTTGGATTTCT
19275812 TAATCCTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:19275826 original size:30 final size:30
Alignment explanation
Indices: 19275768--19275826 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
19275758 TATGATATTG
* *
19275768 TATCTTGGATTTCCTTATCTTGGATTTCTC
1 TATCTTGGACTTCCTTATCCTGGATTTCTC
*
19275798 TATCTTGGACTT-CTTAATCCTGGTTTTCT
1 TATCTTGGACTTCCTT-ATCCTGGATTTCT
19275827 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCCTTATCCTGGATTTCTC
Found at i:19278877 original size:50 final size:50
Alignment explanation
Indices: 19278800--19279173 Score: 294
Period size: 50 Copynumber: 7.4 Consensus size: 50
19278790 ATCACGTGTA
* *
19278800 TAGTACTAAGTGCAGGCTACTACGTGTACTAAATTGATAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGATCGCATGTG
* * * * * *
19278850 TAATACTAAGTGAAGGCTACTATGTGTACCT-G-TTAACTTTGATCACATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CTAGATTGA--TAGATCGCATGTG
* * * * * * * ***
19278901 TAGCACTAACTGCAGGATACTATGTGTA-TCAGATGGTTAAATCATGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGATCGCATGTG
*
19278951 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGATCGCATGTG
** * * * * ***
19279001 TAGTACTAAGTTTAGGCTACTATGCGTACCT-G-TTAACTTTGATCATGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CTAGATTGA--TAGATCGCATGTG
* * * * *
19279052 TAGTACTAAGTGCAAGCTACTACGTGTA-TCAGATGGTTA-AGTCACATTTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGA-TCGCATGTG
* * *
19279102 CAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGTATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGATCGCATGTG
19279152 TAGTACTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
19279174 TGCGTACCAG
Statistics
Matches: 246, Mismatches: 62, Indels: 32
0.72 0.18 0.09
Matches are distributed among these distances:
49 9 0.04
50 164 0.67
51 71 0.29
52 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGATCGCATGTG
Found at i:19279073 original size:151 final size:151
Alignment explanation
Indices: 19278789--19279181 Score: 588
Period size: 151 Copynumber: 2.6 Consensus size: 151
19278779 ATCTGTTGTG
* * *
19278789 AATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACTAAATTGATAGGTCGCATGTGTAAT
1 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
* *
19278854 ACTAAGTGAAGGCTACTATGTGTACCTGTTAACTTTGATCACATGTGTAGCACTAACTGCAGGAT
66 ACTAAGTGAAGGCTACTATGCGTACCTGTTAACTTTGATCACATGTGTAGCACTAACTGCAAGAT
*
19278919 ACTATGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
19278940 AATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGT
1 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
** ** * * *
19279005 ACTAAGTTTAGGCTACTATGCGTACCTGTTAACTTTGATCATGTGTGTAGTACTAAGTGCAAGCT
66 ACTAAGTGAAGGCTACTATGCGTACCTGTTAACTTTGATCACATGTGTAGCACTAACTGCAAGAT
19279070 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * * * *
19279091 AGTCACATTTGCAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGTATGTGTAGT
1 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
*
19279156 ACTAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGAAGGCTACTATGCGTACC
19279182 AGAGAGCTTC
Statistics
Matches: 216, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 216 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (151 bp):
AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGAAGGCTACTATGCGTACCTGTTAACTTTGATCACATGTGTAGCACTAACTGCAAGAT
ACTACGTGTATCAGATGGTTA
Found at i:19279119 original size:101 final size:101
Alignment explanation
Indices: 19278941--19279123 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 101
19278931 AGATGGTTAA
* * * *
19278941 ATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTA
1 ATCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAGATCACATGTGCAGTA
**
19279006 CTAAGTTTAGGCTACTATGCGTACCTGTTAACTTTG
66 CTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTG
* * *
19279042 ATCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTA-AGTCACATTTGCAGT
1 ATCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAGA-TCACATGTGCAGT
19279106 ACTAAGTGCAGGCTACTA
65 ACTAAGTGCAGGCTACTA
19279124 CGTGTACTAG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 71 0.99
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (101 bp):
ATCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAGATCACATGTGCAGTA
CTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTG
Found at i:19282339 original size:27 final size:26
Alignment explanation
Indices: 19282238--19282494 Score: 196
Period size: 27 Copynumber: 9.6 Consensus size: 26
19282228 GTAGGCTAGT
* * **
19282238 ATTACTAAAATACCCTTAGTTTACAAA
1 ATTACCAAAATACCC-TAATTTGTAAA
* * * *
19282265 ATTA-CTAAATACCCTCGATTAGCAAA
1 ATTACCAAAATACCCT-AATTTGTAAA
**
19282291 ATT-CCAAAATACCCTTTGTTTGTAAA
1 ATTACCAAAATACCC-TAATTTGTAAA
* *
19282317 ATTACCAAAATACCTCTGATTTGTGAA
1 ATTACCAAAATACC-CTAATTTGTAAA
* * *
19282344 ATTTCCGAAATACCCCTAATTTTTAAA
1 ATTACCAAAATA-CCCTAATTTGTAAA
19282371 ATTACCAAAATACCCCTAATTTG-AAA
1 ATTACCAAAATA-CCCTAATTTGTAAA
*
19282397 ATTTACCAAAATAACCCTAATTTGAAAA
1 A-TTACCAAAAT-ACCCTAATTTGTAAA
* *
19282425 ATTACCAAAATACCCTTGATTTGAAAA
1 ATTACCAAAATACCC-TAATTTGTAAA
* **
19282452 ATTACAAAAATACCCCTAATTTACAAA
1 ATTACCAAAATA-CCCTAATTTGTAAA
* *
19282479 TTTACAAAAATACCCT
1 ATTACCAAAATACCCT
19282495 TGACTTTCAA
Statistics
Matches: 191, Mismatches: 28, Indels: 23
0.79 0.12 0.10
Matches are distributed among these distances:
25 1 0.01
26 47 0.25
27 132 0.69
28 11 0.06
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (26 bp):
ATTACCAAAATACCCTAATTTGTAAA
Found at i:19282407 original size:81 final size:80
Alignment explanation
Indices: 19282288--19282494 Score: 231
Period size: 81 Copynumber: 2.6 Consensus size: 80
19282278 CTCGATTAGC
* ** * ** * *
19282288 AAAATT-CCAAAATACCCTTTGTTTGTAAAA-TTACCAAAATACCTCTGATTTGTGAAATTTCCG
1 AAAATTACCAAAATACCCCTAATTTG-AAAATTTACCAAAATACC-CTAATTTGAAAAATTACCA
**
19282351 AAATACCCCTAATTTTT
64 AAATACCCCTAATTTGA
19282368 AAAATTACCAAAATACCCCTAATTTGAAAATTTACCAAAATAACCCTAATTTGAAAAATTACCAA
1 AAAATTACCAAAATACCCCTAATTTGAAAATTTACCAAAAT-ACCCTAATTTGAAAAATTACCAA
* *
19282433 AATACCCTTGATTTGA
65 AATACCCCTAATTTGA
* *
19282449 AAAATTACAAAAATACCCCTAATTT-ACAAATTTACAAAAATACCCT
1 AAAATTACCAAAATACCCCTAATTTGA-AAATTTACCAAAATACCCT
19282495 TGACTTTCAA
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 16 0.15
81 90 0.83
82 3 0.03
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAATTTGAAAATTTACCAAAATACCCTAATTTGAAAAATTACCAAA
ATACCCCTAATTTGA
Found at i:19282495 original size:54 final size:54
Alignment explanation
Indices: 19282238--19282556 Score: 259
Period size: 54 Copynumber: 5.9 Consensus size: 54
19282228 GTAGGCTAGT
* * * * * * *
19282238 ATTACTAAAATACCCTTAGTTTACAAAATTA-CTAAATACCCTCGATTAGCAAA
1 ATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCTTGATTTGAAAA
* ** ** **
19282291 ATT-CCAAAATACCCTTTGTTTGTAAAATTACCAAAATA-CCTCTGATTTGTGAA
1 ATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCT-TGATTTGAAAA
* * ** * *
19282344 ATTTCCGAAATACCCCTAATTTTTAAAATTACCAAAATACCCCTAATTTGAAAA
1 ATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCTTGATTTGAAAA
* *
19282398 TTTACCAAAATAACCCTAATTTGA-AAAATTACCAAAATACCCTTGATTTGAAAA
1 ATTACCAAAATACCCCTAATTT-ACAAAATTACCAAAATACCCTTGATTTGAAAA
* * * *
19282452 ATTACAAAAATACCCCTAATTTACAAATTTACAAAAATACCCTTGACTTTCAAAA
1 ATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCTTGA-TTTGAAAA
** ** ** * * * *
19282507 ATTATAAAAATACCATTGGTTTGCAAAATTAACGAAATACCCTTGGTTTG
1 ATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCTTGATTTG
19282557 TAGATTTGCC
Statistics
Matches: 216, Mismatches: 43, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
52 26 0.12
53 20 0.09
54 126 0.58
55 44 0.20
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (54 bp):
ATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCTTGATTTGAAAA
Found at i:19282505 original size:27 final size:27
Alignment explanation
Indices: 19282238--19282551 Score: 157
Period size: 27 Copynumber: 11.7 Consensus size: 27
19282228 GTAGGCTAGT
*
19282238 ATTACTAAAATACCCTT-AGTTTACAAA
1 ATTACAAAAATACCCTTGA-TTTACAAA
* *
19282265 ATTAC-TAAATACCCTCGA-TTAGCAAA
1 ATTACAAAAATACCCTTGATTTA-CAAA
* **
19282291 ATT-CCAAAATACCCTTTG-TTTGTAAA
1 ATTACAAAAATACCC-TTGATTTACAAA
* ***
19282317 ATTACCAAAATA-CCTCTGATTTGTGAA
1 ATTACAAAAATACCCT-TGATTTACAAA
* ** * * **
19282344 ATTTCCGAAATACCCCTAATTTTTAAA
1 ATTACAAAAATACCCTTGATTTACAAA
* * *
19282371 ATTACCAAAATACCCCTAATTTGA-AAA
1 ATTACAAAAATACCCTTGATTT-ACAAA
* * *
19282398 TTTACCAAAATAACCC-TAATTTGA-AAA
1 ATTACAAAAAT-ACCCTTGATTT-ACAAA
*
19282425 ATTACCAAAATACCCTTGATTTGA-AAA
1 ATTACAAAAATACCCTTGATTT-ACAAA
* *
19282452 ATTACAAAAATACCCCTAATTTACAAA
1 ATTACAAAAATACCCTTGATTTACAAA
*
19282479 TTTACAAAAATACCCTTGACTTT-CAAAA
1 ATTACAAAAATACCCTTGA-TTTAC-AAA
* * * *
19282507 ATTATAAAAATACCATTGGTTTGCAAA
1 ATTACAAAAATACCCTTGATTTACAAA
*
19282534 ATTA-ACGAAATACCCTTG
1 ATTACA-AAAATACCCTTG
19282552 GTTTGTAGAT
Statistics
Matches: 239, Mismatches: 31, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
25 5 0.02
26 40 0.17
27 166 0.69
28 28 0.12
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (27 bp):
ATTACAAAAATACCCTTGATTTACAAA
Found at i:19282860 original size:41 final size:41
Alignment explanation
Indices: 19282815--19282936 Score: 172
Period size: 41 Copynumber: 3.0 Consensus size: 41
19282805 CGGAGGAAGA
19282815 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * * *
19282856 AATTGAGAATTGCATGATTGCTTGACAACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * * *
19282897 GATTAAAGATCGCATGGTTGCTTGATGACCGTGGATCCAC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
19282937 TAGTGGCTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:19283129 original size:25 final size:25
Alignment explanation
Indices: 19283084--19283154 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
19283074 ATTATTCTGT
* * *
19283084 TATCGATGGCTTTGTGCCGATATGA
1 TATCGATGGCTATGGGTCGATATGA
* * *
19283109 TATTGATGGCTATGGGTCGATTTGT
1 TATCGATGGCTATGGGTCGATATGA
* *
19283134 TATCGATGGCTTTGTGTCGAT
1 TATCGATGGCTATGGGTCGAT
19283155 CGTATTATCG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.17, C:0.13, G:0.30, T:0.41
Consensus pattern (25 bp):
TATCGATGGCTATGGGTCGATATGA
Found at i:19287017 original size:17 final size:17
Alignment explanation
Indices: 19286995--19287028 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19286985 TAATAACTTT
19286995 GACGTGTCTGTTATTAA
1 GACGTGTCTGTTATTAA
19287012 GACGTGTCTGTTATTAA
1 GACGTGTCTGTTATTAA
19287029 CTGACCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
GACGTGTCTGTTATTAA
Found at i:19291247 original size:53 final size:53
Alignment explanation
Indices: 19291167--19291270 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
19291157 TATTTTAGGA
*
19291167 TAATTTGATAAATAATTCAAATTTCAAGCGAAAAATTAGA-AAAAGAACTAATG
1 TAATTTGACAAATAATTCAAATTTCAAGCGAAAAATTA-ATAAAAGAACTAATG
* * *
19291220 TAATTTGACAACTAATTTAAATTTCAAGCGAAAAATTAATAAAAGAGCTAA
1 TAATTTGACAAATAATTCAAATTTCAAGCGAAAAATTAATAAAAGAACTAA
19291271 AATAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 45 0.98
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.29
Consensus pattern (53 bp):
TAATTTGACAAATAATTCAAATTTCAAGCGAAAAATTAATAAAAGAACTAATG
Found at i:19293377 original size:2 final size:2
Alignment explanation
Indices: 19293372--19293405 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19293362 TTTTTTTTTA
19293372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19293406 TAAGGGTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19293842 original size:11 final size:10
Alignment explanation
Indices: 19293820--19293849 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
19293810 CTTTTCAATT
19293820 TTTATTTGTA
1 TTTATTTGTA
19293830 TTTATTATGTA
1 TTTATT-TGTA
19293841 TTTATTTGT
1 TTTATTTGT
19293850 TGGCTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (10 bp):
TTTATTTGTA
Found at i:19294169 original size:56 final size:56
Alignment explanation
Indices: 19294083--19294196 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 56
19294073 TTAATTATAG
* *
19294083 AATGACATTTTCGTAATTTCTTTAATTGAATTGGTGACCAGTTGACTCGTGATACC
1 AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCAGTTGACTCGTGATACC
* **
19294139 AATGACATTTTCATAATTTCTCTAATTGAATTGGTGTCTGGTTGACTCGTGATACC
1 AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCAGTTGACTCGTGATACC
19294195 AA
1 AA
19294197 CTCAGTCAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (56 bp):
AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCAGTTGACTCGTGATACC
Found at i:19304733 original size:20 final size:20
Alignment explanation
Indices: 19304704--19304755 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
19304694 TTTACTAAAA
19304704 TTCT-TTTAATATAAAATTC
1 TTCTATTTAATATAAAATTC
* ***
19304723 TTTTATTTAATATTTTATTC
1 TTCTATTTAATATAAAATTC
19304743 TTCTATTTAATAT
1 TTCTATTTAATAT
19304756 TTTTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (20 bp):
TTCTATTTAATATAAAATTC
Found at i:19304761 original size:23 final size:20
Alignment explanation
Indices: 19304719--19304758 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19304709 TTAATATAAA
*
19304719 ATTCTTTTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
19304739 ATTCTTCTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
19304759 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTCTTCTATTTAATATTTT
Found at i:19305329 original size:16 final size:15
Alignment explanation
Indices: 19305288--19305331 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
19305278 TGAAAATTAA
*
19305288 TAAATTTTTTACTTT
1 TAAATTTTTTATTTT
*
19305303 TAAGTTATTTTATTTT
1 TAAATT-TTTTATTTT
19305319 TAAATATTTTTAT
1 TAAAT-TTTTTAT
19305332 AATTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 18 0.75
17 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (15 bp):
TAAATTTTTTATTTT
Found at i:19308430 original size:42 final size:42
Alignment explanation
Indices: 19308325--19308430 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 42
19308315 GAAAAGCTCG
* * *
19308325 TACAATGCCAACATCCTAGAC-GTGGTCTTACATGTAATAAAA
1 TACAATGCC-ATATCCTAGACAGTGGTCCTACATGAAATAAAA
* * * * *
19308367 AACGATGCCACTGTCCCAGACAG-GGTCCTACATGAAATCAAA
1 TACAATGCCA-TATCCTAGACAGTGGTCCTACATGAAATAAAA
19308409 TACAATGCCGATATCCTAGACA
1 TACAATGCC-ATATCCTAGACA
19308431 TAGTTTTACA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
41 1 0.02
42 46 0.94
43 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (42 bp):
TACAATGCCATATCCTAGACAGTGGTCCTACATGAAATAAAA
Found at i:19309251 original size:35 final size:35
Alignment explanation
Indices: 19309212--19309282 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
19309202 CACTTGCCTC
*
19309212 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
19309247 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
19309282 T
1 T
19309283 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:19309686 original size:12 final size:12
Alignment explanation
Indices: 19309665--19309704 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
19309655 ATTAAAACAT
19309665 AAAAAAATATAC
1 AAAAAAATATAC
*
19309677 AAAAAGATATAC
1 AAAAAAATATAC
19309689 AAAAAAATATAC
1 AAAAAAATATAC
19309701 AAAA
1 AAAA
19309705 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:19309838 original size:11 final size:11
Alignment explanation
Indices: 19309805--19309839 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
19309795 CGGATTCCCC
19309805 TCCCT-TCTCT
1 TCCCTCTCTCT
19309815 CTCCCTCTCTCT
1 -TCCCTCTCTCT
19309827 TCCCTCTCTCT
1 TCCCTCTCTCT
19309838 TC
1 TC
19309840 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
TCCCTCTCTCT
Found at i:19310323 original size:3 final size:3
Alignment explanation
Indices: 19310315--19310354 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19310305 TGCATTTCAA
19310315 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19310355 GAAATACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19310464 original size:3 final size:3
Alignment explanation
Indices: 19310456--19310509 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
19310446 TGTGTTTCAA
19310456 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19310504 TAT TAT
1 TAT TAT
19310510 ATATCCTTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.