Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 101 of 182
Found at i:30435623 original size:25 final size:25
Alignment explanation
Indices: 30435595--30435673 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
30435585 GATAATCGAT
*
30435595 TTAAGGATCCCTTGATGGATTTGAA
1 TTAAGAATCCCTTGATGGATTTGAA
* * *
30435620 TTAATAATCCCTTAAAGGATTTGAA
1 TTAAGAATCCCTTGATGGATTTGAA
* * *
30435645 TCAAGAATCCCCTGATGGATTTGAG
1 TTAAGAATCCCTTGATGGATTTGAA
30435670 TTAA
1 TTAA
30435674 TGATATTGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (25 bp):
TTAAGAATCCCTTGATGGATTTGAA
Found at i:30438858 original size:50 final size:50
Alignment explanation
Indices: 30438747--30439043 Score: 285
Period size: 50 Copynumber: 5.8 Consensus size: 50
30438737 ATTTGGGTAA
* * *
30438747 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGTATGCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-CGAG---ATG
* *
30438803 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
30438853 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
30438903 AGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * * *
30438953 AGAAATCTCATGTAAGACCATATCTGAGATATGACATTGGCA--GTACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * ** *
30439002 AAACATCTTATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30439044 TGTTATTATC
Statistics
Matches: 209, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 125 0.60
51 2 0.01
53 3 0.01
54 1 0.00
56 38 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30441590 original size:31 final size:31
Alignment explanation
Indices: 30441554--30441616 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30441544 AAATAATGGC
30441554 AGGACATATGATAATATTATTAACTCAGAAG
1 AGGACATATGATAATATTATTAACTCAGAAG
30441585 AGGACATATGATAATATTATTAACTCAGAAG
1 AGGACATATGATAATATTATTAACTCAGAAG
30441616 A
1 A
30441617 TGTACATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.29
Consensus pattern (31 bp):
AGGACATATGATAATATTATTAACTCAGAAG
Found at i:30446220 original size:23 final size:23
Alignment explanation
Indices: 30446194--30446237 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
30446184 TCATATTATA
30446194 CAATTAAAACAATTCATCTTGTG
1 CAATTAAAACAATTCATCTTGTG
30446217 CAATTAAAACAATTCATCTTG
1 CAATTAAAACAATTCATCTTG
30446238 CTAATGCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (23 bp):
CAATTAAAACAATTCATCTTGTG
Found at i:30447732 original size:43 final size:43
Alignment explanation
Indices: 30447684--30447813 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 43
30447674 TGATGAGTTA
30447684 AGATATGAATTAATTTATCTAAAAAACTTTTATAGACAACATT
1 AGATATGAATTAATTTATCTAAAAAACTTTTATAGACAACATT
* * * * * * *
30447727 AGATATGAGA-AAAATAATGT-TAAAAC--TGAT-G---A-GTT
1 AGATATGA-ATTAATTTATCTAAAAAACTTTTATAGACAACATT
30447762 AAGATATGAATTAATTTATCTAAAAAACTTTTATAGACAACATT
1 -AGATATGAATTAATTTATCTAAAAAACTTTTATAGACAACATT
30447806 AGATATGA
1 AGATATGA
30447814 GAAAAATAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 22
0.63 0.14 0.22
Matches are distributed among these distances:
35 3 0.05
36 15 0.24
37 5 0.08
39 4 0.06
40 4 0.06
42 5 0.08
43 23 0.37
44 3 0.05
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.34
Consensus pattern (43 bp):
AGATATGAATTAATTTATCTAAAAAACTTTTATAGACAACATT
Found at i:30447749 original size:79 final size:79
Alignment explanation
Indices: 30447658--30447830 Score: 337
Period size: 79 Copynumber: 2.2 Consensus size: 79
30447648 GCTAAATGTT
30447658 AAAATAATGTTAAAACTGATGAGTTAAGATATGAATTAATTTATCTAAAAAACTTTTATAGACAA
1 AAAATAATGTTAAAACTGATGAGTTAAGATATGAATTAATTTATCTAAAAAACTTTTATAGACAA
30447723 CATTAGATATGAGA
66 CATTAGATATGAGA
30447737 AAAATAATGTTAAAACTGATGAGTTAAGATATGAATTAATTTATCTAAAAAACTTTTATAGACAA
1 AAAATAATGTTAAAACTGATGAGTTAAGATATGAATTAATTTATCTAAAAAACTTTTATAGACAA
30447802 CATTAGATATGAGA
66 CATTAGATATGAGA
*
30447816 AAAATAATTTTAAAA
1 AAAATAATGTTAAAA
30447831 TGGGTAACAA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 93 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (79 bp):
AAAATAATGTTAAAACTGATGAGTTAAGATATGAATTAATTTATCTAAAAAACTTTTATAGACAA
CATTAGATATGAGA
Found at i:30448136 original size:28 final size:29
Alignment explanation
Indices: 30448086--30448143 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
30448076 TAAAATACGG
*
30448086 ACTAAAATAATAATTTATTACATT-TTAA
1 ACTAAAATAATAATTTATAACATTATTAA
*
30448114 ACTATAATAATAAATTTA-AACATTATTAA
1 ACTAAAATAAT-AATTTATAACATTATTAA
30448143 A
1 A
30448144 ATTAAATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (29 bp):
ACTAAAATAATAATTTATAACATTATTAA
Found at i:30463371 original size:25 final size:25
Alignment explanation
Indices: 30463342--30463391 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
30463332 ATTATTTAAT
30463342 ATAAAAA-TATACAAAAAAAATAAAA
1 ATAAAAAGTA-ACAAAAAAAATAAAA
* *
30463367 ATAAAAAGTAACTAAACAAATAAAA
1 ATAAAAAGTAACAAAAAAAATAAAA
30463392 TAATGTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (25 bp):
ATAAAAAGTAACAAAAAAAATAAAA
Found at i:30463949 original size:21 final size:21
Alignment explanation
Indices: 30463911--30463950 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30463901 TCTTTTTTTT
*
30463911 TATGTATTCCGGCTTGTCCAG
1 TATGTATTCCGGCATGTCCAG
30463932 TATGTA-TCCGGGCATGTCC
1 TATGTATTCC-GGCATGTCC
30463951 GACGAGTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (21 bp):
TATGTATTCCGGCATGTCCAG
Found at i:30468415 original size:40 final size:40
Alignment explanation
Indices: 30468360--30468442 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
30468350 TTTTTCTTAA
30468360 GTTAGAATTACAACCCAAGCAATTGACTCTGACGATTTGG
1 GTTAGAATTACAACCCAAGCAATTGACTCTGACGATTTGG
30468400 GTTAGAATTACAACCCAAGCAATTGACTCTGACGATTTGG
1 GTTAGAATTACAACCCAAGCAATTGACTCTGACGATTTGG
30468440 GTT
1 GTT
30468443 TTCTTTTGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
GTTAGAATTACAACCCAAGCAATTGACTCTGACGATTTGG
Found at i:30472241 original size:39 final size:39
Alignment explanation
Indices: 30472187--30472306 Score: 231
Period size: 39 Copynumber: 3.1 Consensus size: 39
30472177 ATGCAATCGA
*
30472187 TTTGTTCATCTTTAAAGCTTTACTTGAACTACTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
30472226 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
30472265 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
30472304 TTT
1 TTT
30472307 TCATTTTAGT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:30472653 original size:30 final size:30
Alignment explanation
Indices: 30472617--30473103 Score: 758
Period size: 29 Copynumber: 16.3 Consensus size: 30
30472607 CGAATAAACC
30472617 AAATACACTACATATATTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30472647 AAATACACTACATAT-TTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
*
30472676 AAATACACTACATAAATTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30472706 AAATACACTACATATATTTTTTTTATTTTTA
1 AAATACACTACATATA-TTTTTTTATTTTTA
*
30472737 AAATACACAAATATAATGCATATATTTTTTATTTTTA
1 AAATACAC---TA-CAT--ATAT-TTTTTTATTTTTA
30472774 AAATACACTACATAT-TTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30472803 AAATACACTACATATA-TTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30472832 AAATACACTACATAT-TTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
*
30472861 AAGTACACTACATATA-TTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
* * *
30472890 AAATACACAACATACA-TTTTTTACTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
*
30472919 AAATACACTACATATATATTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30472949 AAATACACTACATAT-TTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30472978 AAATACACTACATATA-TTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30473007 AAATACACTACATATA-TTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
*
30473036 AAATACACTACATATATTTCTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
*
30473066 AAATACATTACATATATTTTTTTATTTTTA
1 AAATACACTACATATATTTTTTTATTTTTA
30473096 AAATACAC
1 AAATACAC
30473104 AAATACAATA
Statistics
Matches: 424, Mismatches: 18, Indels: 30
0.90 0.04 0.06
Matches are distributed among these distances:
29 249 0.59
30 118 0.28
31 24 0.06
33 2 0.00
34 4 0.01
35 2 0.00
36 1 0.00
37 24 0.06
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATACACTACATATATTTTTTTATTTTTA
Found at i:30473196 original size:42 final size:44
Alignment explanation
Indices: 30473149--30473237 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 44
30473139 CTTCTATCGA
*
30473149 TTCCCCTCTTCCACCG-TGCCCTCCTCCCATTTCCCA-TCCCAT
1 TTCCCCTCTTCCACCGATCCCCTCCTCCCATTTCCCATTCCCAT
* *
30473191 TTCCCCTCTTCCATCGATTCCCCTCCTCTCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCGA-TCCCCTCCTCCCATTTCCCATTCCCAT
30473236 TT
1 TT
30473238 ACGGTTACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
42 15 0.37
44 18 0.44
45 8 0.20
ACGTcount: A:0.10, C:0.51, G:0.03, T:0.36
Consensus pattern (44 bp):
TTCCCCTCTTCCACCGATCCCCTCCTCCCATTTCCCATTCCCAT
Found at i:30475081 original size:24 final size:24
Alignment explanation
Indices: 30475046--30475094 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
30475036 AATCTTCGAG
*
30475046 GATATGCCATCTTAGATATGATAT
1 GATATGCAATCTTAGATATGATAT
30475070 GATATGCAATCTTAGATATGATAT
1 GATATGCAATCTTAGATATGATAT
30475094 G
1 G
30475095 TAATCTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (24 bp):
GATATGCAATCTTAGATATGATAT
Found at i:30475130 original size:22 final size:22
Alignment explanation
Indices: 30475054--30475127 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 22
30475044 AGGATATGCC
*
30475054 ATCTTAGATATGATATGATATGCA
1 ATCTTAGA-A-GATATGATATGTA
30475078 ATCTT---AGATATGATATGTA
1 ATCTTAGAAGATATGATATGTA
*
30475097 ATCTTAGAAGATATGATTTTGTA
1 ATCTTAGAAGATATGA-TATGTA
30475120 ATCTTAGA
1 ATCTTAGA
30475128 GATTTAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 17 0.39
20 1 0.02
22 8 0.18
23 13 0.30
24 5 0.11
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (22 bp):
ATCTTAGAAGATATGATATGTA
Found at i:30475137 original size:22 final size:23
Alignment explanation
Indices: 30475093--30475137 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30475083 AGATATGATA
*
30475093 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
30475116 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
30475138 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:30475576 original size:18 final size:18
Alignment explanation
Indices: 30475551--30475594 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
30475541 GTTTTTAGTC
*
30475551 TATT-TTATTA-ATTTTA
1 TATTATTATTATATTATA
30475567 TTATTATTATTATATTATA
1 -TATTATTATTATATTATA
30475586 TATTATTAT
1 TATTATTAT
30475595 ACCTACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTATTATTATATTATA
Found at i:30475591 original size:15 final size:14
Alignment explanation
Indices: 30475551--30475595 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
30475541 GTTTTTAGTC
*
30475551 TATT-TTATTAATTT
1 TATTATTATT-ATTA
30475565 TATTATTATTATTA
1 TATTATTATTATTA
30475579 TATTATATATTATTA
1 TATTAT-TATTATTA
30475594 TA
1 TA
30475596 CCTACATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:30475642 original size:33 final size:34
Alignment explanation
Indices: 30475598--30475673 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
30475588 TTATTATACC
*
30475598 TACATATATGTGTGCATATGCATGTTAATATATA
1 TACATATATGTGCGCATATGCATGTTAATATATA
30475632 T-CATATATGTGCGCATATGCATGTTAATATATA
1 TACATATATGTGCGCATATGCATGTTAATATATA
30475665 TACATATAT
1 TACATATAT
30475674 ATTTTAAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 32 0.80
34 8 0.20
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (34 bp):
TACATATATGTGCGCATATGCATGTTAATATATA
Found at i:30476003 original size:51 final size:52
Alignment explanation
Indices: 30475889--30476004 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 52
30475879 ATTTTCCACG
**
30475889 TTTT-TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
* * * * *
30475939 TTTTATATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATA
30475990 TTTTATATATATATA
1 TTTTATATATATATA
30476005 AGTTTTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 28 0.51
52 23 0.42
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (52 bp):
TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:30481912 original size:44 final size:44
Alignment explanation
Indices: 30481864--30482003 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
30481854 AAGTTACCAG
*
30481864 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGCTAAAAATAGTAGA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGTAGA
* **** * * * * * *
30481908 CCTTGCCTTCCTGCACCGACAGCGAAGCA-GATCGAAGACACTAG-
1 CCTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-AAAAATAGTAGA
30481952 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGTAGA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGTAGA
*
30481996 TCTTGCCT
1 CCTTGCCT
30482004 TCTTACACCG
Statistics
Matches: 68, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 16 0.24
44 37 0.54
45 15 0.22
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (44 bp):
CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGTAGA
Found at i:30481980 original size:43 final size:43
Alignment explanation
Indices: 30481838--30481980 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
30481828 TCCTGTACTG
* *
30481838 GCAGCGAAGCAGATCGAAGTTACCAGCCTTGCCTCCCTGGGTT
1 GCAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCCCTGGGTT
* * * * * * * ****
30481881 GCAGTGGAGCAG-GCTAAAAATAGTAGACCTTGCCTTCCTGCACC
1 GCAGCGAAGCAGATC-GAAGATACTAG-CCTTGCCTCCCTGGGTT
*
30481925 GACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 G-CAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCCCTGGGTT
*
30481969 GCAGCGGAGCAG
1 GCAGCGAAGCAG
30481981 GCTAAAAATA
Statistics
Matches: 70, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
42 1 0.01
43 26 0.37
44 26 0.37
45 16 0.23
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (43 bp):
GCAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCCCTGGGTT
Found at i:30482315 original size:88 final size:88
Alignment explanation
Indices: 30481816--30482305 Score: 667
Period size: 88 Copynumber: 5.6 Consensus size: 88
30481806 GTGAAGATAA
* * * **
30481816 CAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGTTACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
30481881 GCAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * *
30481904 TAGACCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
30481969 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * * *
30481992 TAGATCTTGCCTTCTTACACCGACAACGAAACAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
30482057 GCAGAGGAGCAGGCTAAAAATAA
66 GCAGCGGAGCAGGCTAAAAATAG
* * * *
30482080 CAGATATTGCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
30482145 GCAGCGGAGTAGGC-AGAAAATAG
66 GCAGCGGAGCAGGCTA-AAAATAG
* * *
30482168 CAGATCTTGCCTTTCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
30482233 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
** * * * *
30482256 CAGATCTTGCCTTCCTGCACATACAACGAAGCAGATTGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
30482306 CTATCTCCCT
Statistics
Matches: 354, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
87 1 0.00
88 352 0.99
89 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:30482371 original size:44 final size:44
Alignment explanation
Indices: 30482307--30482659 Score: 384
Period size: 44 Copynumber: 8.2 Consensus size: 44
30482297 ACCCCAGCCC
* *
30482307 TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAATCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
* * *
30482351 TATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
* *
30482395 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT-T
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
* *
30482438 CTATCTCCCTAGG-CAGCAGCGGAATAGATT-AA-A----GAATCT
1 -TATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
* * * * * * *
30482477 TATTTCCTTGGACAACAGCGGAATAGGTTAAAGATTGTGAATCA
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
*
30482521 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT-T
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
* * * *
30482564 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGTCC
1 -TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-ATCT
* * *
30482609 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGTGAACCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
30482653 TATCTCC
1 TATCTCC
30482660 TTGAGCAGTA
Statistics
Matches: 261, Mismatches: 34, Indels: 28
0.81 0.11 0.09
Matches are distributed among these distances:
37 2 0.01
38 26 0.10
39 3 0.01
40 1 0.00
42 1 0.00
43 3 0.01
44 223 0.85
45 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
Found at i:30482512 original size:126 final size:126
Alignment explanation
Indices: 30482345--30482598 Score: 427
Period size: 126 Copynumber: 2.0 Consensus size: 126
30482335 TAAAGATTGT
* * *
30482345 GAATCTTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAG
1 GAATCTTATCTCCCTGGACAACAGCGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGTCAG
30482410 CAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTAGGCAGCAGCGGAATAGATTAAA
66 CAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTAGGCAGCAGCGGAATAGATTAAA
* * *
30482471 GAATCTTATTTCCTTGGACAACAGCGGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGTCAG
1 GAATCTTATCTCCCTGGACAACAGCGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGTCAG
* * *
30482536 CAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAA
66 CAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTAGGCAGCAGCGGAATAGATTAAA
30482597 GA
1 GA
30482599 TTGTAGGTCC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (126 bp):
GAATCTTATCTCCCTGGACAACAGCGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGTCAG
CAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTAGGCAGCAGCGGAATAGATTAAA
Found at i:30482614 original size:170 final size:170
Alignment explanation
Indices: 30482326--30482634 Score: 487
Period size: 170 Copynumber: 1.8 Consensus size: 170
30482316 GGTCAGTAGT
* *
30482326 GGAATAGGTTAAAGATTGTGAATCTTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGA
1 GGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGAGA
* * *
30482391 ATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTAGG-CAGC
66 ATCCTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTGAGAATCCTATCTCCCT-GGTCAGC
30482455 AGCGGAATAGATTAAAGAATCTTATTTCCTTGGACAACAGC
130 AGCGGAATAGATTAAAGAATCTTATTTCCTTGGACAACAGC
* *
30482496 GGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGA
1 GGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGAGA
* * *
30482561 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG-GTCCTATCTCCCTGGTCAGC
66 ATCCTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTG-AGAATCCTATCTCCCTGGTCAGC
*
30482625 AGTGGAATAG
130 AGCGGAATAG
30482635 GTTGAAGATG
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
169 2 0.02
170 122 0.97
171 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (170 bp):
GGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGAGA
ATCCTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTGAGAATCCTATCTCCCTGGTCAGCA
GCGGAATAGATTAAAGAATCTTATTTCCTTGGACAACAGC
Found at i:30483080 original size:44 final size:44
Alignment explanation
Indices: 30482987--30483094 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
30482977 ATGGAAAATT
* *
30482987 TTATCTCCCTGAAGTTGCAATGAAGAAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGAAGATTAAAACCGATAATC
* ** * *
30483031 CTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGAAGATTAAAACCGAT-AATC
* *
30483075 TTATCTCTCTAAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAG
30483095 AGAGCAAAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGAAGATTAAAACCGATAATC
Found at i:30483548 original size:21 final size:21
Alignment explanation
Indices: 30483523--30483587 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
30483513 ATCTTCGAGG
30483523 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
30483544 ATATGCAATCTTAGATATTAT
1 ATATGCAATCTTAGATATGAT
30483565 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
30483586 AT
1 AT
30483588 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:30483593 original size:19 final size:19
Alignment explanation
Indices: 30483522--30483598 Score: 100
Period size: 21 Copynumber: 3.8 Consensus size: 19
30483512 AATCTTCGAG
30483522 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30483541 GATATATGCAATCTTAGATATT
1 G--ATATGCAATCTTAGATA-T
*
30483563 ATATATGCAATCTTAGATAT
1 -GATATGCAATCTTAGATAT
*
30483583 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
30483599 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 15 0.29
20 1 0.02
21 34 0.67
22 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30483605 original size:22 final size:23
Alignment explanation
Indices: 30483577--30483621 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30483567 ATGCAATCTT
*
30483577 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
*
30483599 AGATATGATTTTGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
30483622 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:30483631 original size:22 final size:23
Alignment explanation
Indices: 30483587--30483631 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30483577 AGATATGATA
* *
30483587 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
30483610 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
30483632 GTAGATACGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:30484073 original size:12 final size:13
Alignment explanation
Indices: 30484053--30484094 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
30484043 ATTTTATTAA
*
30484053 ATTTGTTATTATT
1 ATTTATTATTATT
30484066 ATTT-TTATTATT
1 ATTTATTATTATT
30484078 ATATTATATATTATT
1 AT-TTAT-TATTATT
30484093 AT
1 AT
30484095 ACCTACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 6 0.23
14 1 0.04
15 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:30484094 original size:15 final size:13
Alignment explanation
Indices: 30484058--30484095 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
30484048 ATTAAATTTG
30484058 TTATTATTAT-TT
1 TTATTATTATATT
30484070 TTATTATTATATT
1 TTATTATTATATT
30484083 ATATATTATTATA
1 -T-TATTATTATA
30484096 CCTACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:30485929 original size:21 final size:22
Alignment explanation
Indices: 30485888--30485932 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
30485878 CCAAGAACAA
*
30485888 AGCAAAAAAGAGAGGAGAAACC
1 AGCAAAAAAGAGAGGACAAACC
*
30485910 AGCAAAAATGAG-GGACAAACC
1 AGCAAAAAAGAGAGGACAAACC
30485931 AG
1 AG
30485933 TAAGAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.56, C:0.16, G:0.27, T:0.02
Consensus pattern (22 bp):
AGCAAAAAAGAGAGGACAAACC
Found at i:30485958 original size:21 final size:21
Alignment explanation
Indices: 30485901--30485972 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
30485891 AAAAAAGAGA
* **
30485901 GGAGAAACCAGCAAAAATGAG
1 GGAGAAACCAGCAAGAACAAG
* *
30485922 GGACAAACCAGTAAGAACAAG
1 GGAGAAACCAGCAAGAACAAG
* *
30485943 GGAGAAACCAACAAGAACTAGG
1 GGAGAAACCAGCAAGAAC-AAG
30485965 GGAGAAAC
1 GGAGAAAC
30485973 TGCTGTTTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 31 0.76
22 10 0.24
ACGTcount: A:0.51, C:0.17, G:0.28, T:0.04
Consensus pattern (21 bp):
GGAGAAACCAGCAAGAACAAG
Found at i:30493716 original size:19 final size:19
Alignment explanation
Indices: 30493667--30493705 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
30493657 GTGACCCTTA
30493667 TTTTC-AAAATTTTCCTAT
1 TTTTCTAAAATTTTCCTAT
30493685 TTTTCTAAAATTTT-CTAT
1 TTTTCTAAAATTTTCCTAT
30493703 TTT
1 TTT
30493706 GTTTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTCTAAAATTTTCCTAT
Found at i:30499477 original size:13 final size:13
Alignment explanation
Indices: 30499459--30499488 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30499449 TGACGAGATG
30499459 CAAAAGTGCAAGC
1 CAAAAGTGCAAGC
*
30499472 CAAAAGTTCAAGC
1 CAAAAGTGCAAGC
30499485 CAAA
1 CAAA
30499489 TGGGGGATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (13 bp):
CAAAAGTGCAAGC
Found at i:30505793 original size:23 final size:23
Alignment explanation
Indices: 30505766--30505947 Score: 190
Period size: 23 Copynumber: 8.0 Consensus size: 23
30505756 GGCTTTGCCG
* *
30505766 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACCTTATGTGTCGTAT
* *
30505789 ATCAGACACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* * * *
30505812 CTTAGGCACATTATGTGTCGTAC
1 ATCAGGCACCTTATGTGTCGTAT
*
30505835 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* **
30505858 TTCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* **
30505881 TTCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
30505904 TTCAGGCACCTTGTGTGTC--AT
1 ATCAGGCACCTTATGTGTCGTAT
30505925 ATCAGGCA-CTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
30505947 A
1 A
30505948 CTGATCAGGT
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
20 9 0.06
21 9 0.06
22 3 0.02
23 118 0.85
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:30505826 original size:46 final size:46
Alignment explanation
Indices: 30505767--30505946 Score: 215
Period size: 46 Copynumber: 4.0 Consensus size: 46
30505757 GCTTTGCCGA
* *
30505767 TCAGGCACTTTATGTGTCGTACATCAGACACTTTATGTGTCGTATCT
1 TCAGGCACCTTATGTGTCGTACATCAGGCACTTTATGTGTCGTAT-T
*
30505814 T-AGGCACATTATGTGTCGTACATCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTACATCAGGCACTTTATGTGTCGTATT
** ** * **
30505859 TCAGGCACCTCGTGTGTCGTATTTCAGGCACCTCGTGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTACATCAGGCACTTTATGTGTCGTATT
* *
30505905 TCAGGCACCTTGTGTGTC--ATATCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTACATCAGGCACTTTATGTGTCGTAT
30505947 ACTGATCAGG
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
43 11 0.09
44 10 0.08
45 2 0.02
46 94 0.80
47 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (46 bp):
TCAGGCACCTTATGTGTCGTACATCAGGCACTTTATGTGTCGTATT
Found at i:30508660 original size:28 final size:28
Alignment explanation
Indices: 30508604--30508660 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
30508594 ACGGTTAAAT
* *
30508604 AGTTTAGGTACCAATTCTAACAAAAAAA
1 AGTTTAGATACCAATTCTAAAAAAAAAA
30508632 AGTTTAGATACCAATT-TAAAAAAACAAA
1 AGTTTAGATACCAATTCTAAAAAAA-AAA
30508660 A
1 A
30508661 ACTAGTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (28 bp):
AGTTTAGATACCAATTCTAAAAAAAAAA
Found at i:30509979 original size:19 final size:17
Alignment explanation
Indices: 30509957--30509997 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
30509947 ACTTTAGACT
30509957 TTTTTTCATTTTCTATATA
1 TTTTTTCATTTTCT-TA-A
*
30509976 TTTTTTTATTTTCTTAA
1 TTTTTTCATTTTCTTAA
30509993 TTTTT
1 TTTTT
30509998 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTCATTTTCTTAA
Found at i:30511964 original size:18 final size:18
Alignment explanation
Indices: 30511941--30511976 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30511931 ATTAATAATG
*
30511941 TTATATATTATGTTATTT
1 TTATATATTATGTAATTT
30511959 TTATATATTATGTAATTT
1 TTATATATTATGTAATTT
30511977 ATAACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TTATATATTATGTAATTT
Found at i:30511977 original size:16 final size:17
Alignment explanation
Indices: 30511936--30511979 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
30511926 TTTAAATTAA
30511936 TAATGTTATATATTATGT
1 TAAT-TTATATATTATGT
*
30511954 TATTTTTATATATTATG-
1 TA-ATTTATATATTATGT
30511971 TAATTTATA
1 TAATTTATA
30511980 ACATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 2 0.09
18 14 0.61
19 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (17 bp):
TAATTTATATATTATGT
Found at i:30518807 original size:28 final size:29
Alignment explanation
Indices: 30518749--30518814 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
30518739 TTTAAATAAA
*
30518749 AAAATTATAGGGACTTAAATATTAAAATT
1 AAAAGTATAGGGACTTAAATATTAAAATT
* *
30518778 AAAA-TATAGGGA-TTAAATTTTAAATTTT
1 AAAAGTATAGGGACTTAAATATTAAA-ATT
30518806 AAAAGTATA
1 AAAAGTATA
30518815 CAAGAACCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.33
28 14 0.42
29 8 0.24
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (29 bp):
AAAAGTATAGGGACTTAAATATTAAAATT
Found at i:30519546 original size:25 final size:24
Alignment explanation
Indices: 30519493--30519552 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
30519483 TTATTTTACA
30519493 TTTTTA-ATAAATTTTAAATTGTT
1 TTTTTAGATAAATTTTAAATTGTT
*
30519516 TATTTTAGATAATATTTTATGATT-TT
1 T-TTTTAGATAA-ATTTTA-AATTGTT
30519542 TTTTTAG-TAAA
1 TTTTTAGATAAA
30519553 GTAGGCTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 2 0.06
24 8 0.25
25 10 0.31
26 9 0.28
27 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (24 bp):
TTTTTAGATAAATTTTAAATTGTT
Found at i:30521586 original size:25 final size:24
Alignment explanation
Indices: 30521533--30521592 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
30521523 TTATTTTACA
30521533 TTTTTA-ATAAATTTTAAATTGTT
1 TTTTTAGATAAATTTTAAATTGTT
*
30521556 TATTTTAGATAATATTTTATGATT-TT
1 T-TTTTAGATAA-ATTTTA-AATTGTT
30521582 TTTTTAG-TAAA
1 TTTTTAGATAAA
30521593 GTAGGCTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 2 0.06
24 8 0.25
25 10 0.31
26 9 0.28
27 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (24 bp):
TTTTTAGATAAATTTTAAATTGTT
Found at i:30524487 original size:12 final size:12
Alignment explanation
Indices: 30524470--30524503 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30524460 AAATTTGACA
30524470 TTATTATTATTG
1 TTATTATTATTG
*
30524482 TTATTATTGTTG
1 TTATTATTATTG
30524494 TTATTTATTA
1 TTA-TTATTA
30524504 GTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:30524695 original size:14 final size:15
Alignment explanation
Indices: 30524678--30524718 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
30524668 TTACTATATT
30524678 TTATTTATATTT-AC
1 TTATTTATATTTGAC
*
30524692 TTATTTATATTTGTC
1 TTATTTATATTTGAC
30524707 TTATTATATATT
1 TTATT-TATATT
30524719 ATTATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (15 bp):
TTATTTATATTTGAC
Found at i:30524722 original size:10 final size:10
Alignment explanation
Indices: 30524707--30524740 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
30524697 TATATTTGTC
30524707 TTATTATATA
1 TTATTATATA
30524717 TTATTATATAA
1 TTATTATAT-A
30524728 TTATTTATATA
1 TTA-TTATATA
30524739 TT
1 TT
30524741 CTTTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 7 0.32
12 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTATATA
Found at i:30533181 original size:27 final size:27
Alignment explanation
Indices: 30533142--30533201 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
30533132 TATTGTGCTT
30533142 TGTTGCCCAACAAAGCTCACAGTACAA
1 TGTTGCCCAACAAAGCTCACAGTACAA
*
30533169 TGTTGCCCGACAAAGCTCACAGTACAA
1 TGTTGCCCAACAAAGCTCACAGTACAA
30533196 TGTTGC
1 TGTTGC
30533202 TAATACTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (27 bp):
TGTTGCCCAACAAAGCTCACAGTACAA
Found at i:30535058 original size:97 final size:98
Alignment explanation
Indices: 30534957--30535272 Score: 305
Period size: 97 Copynumber: 3.1 Consensus size: 98
30534947 GGCCTGTCAA
* * *
30534957 TGGCC-GGCACCACCTTTATGTAATTTTTTTTTACATTTTGAGTTGTCATTGGCTGACACCAGTA
1 TGGCCTGGCACCACCTTTATGTAATTTTTTTTTACATTTTGGGTTGTCATTGGCCGGCACCAGTA
30535021 TAC-AAAAAATTCAAAAAAAGAATATTTTGGTGGTGG
66 TACGAAAAAATTCAAAAAAA-AA-ATTTT--TGGTGG
* ******
30535057 CCTGGCAATGGTTGGCACCACCTTTATGTAAAAAAAGAATTTACATTTTGGGTTGTCATTGGCCG
1 --TGGC-----CTGGCACCACCTTTATGT--AATTTTTTTTTACATTTTGGGTTGTCATTGGCCG
***
30535122 GCACCAGTATACGAAAAAATTCAAAAAAAAAATTTTTGGCAA
57 GCACCAGTATACGAAAAAATTCAAAAAAAAAATTTTTGGTGG
* * * * *
30535164 TGGCC-GGCACCACCTTTATGCAATTTTTTTTAACATTTTGGGCTGTCATTAGCCGGTACCAGTA
1 TGGCCTGGCACCACCTTTATGTAATTTTTTTTTACATTTTGGGTTGTCATTGGCCGGCACCAGTA
*
30535228 TACGAAAAAATTTAAAAAAAAAATTTTTTTGGTGG
66 TACGAAAAAATTCAAAAAAAAAA--TTTTTGGTGG
30535263 TGGCCTGGCA
1 TGGCCTGGCA
30535273 ATAGCCGGCA
Statistics
Matches: 173, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
97 55 0.32
99 27 0.16
100 4 0.02
102 4 0.02
105 4 0.02
107 3 0.02
108 16 0.09
109 5 0.03
110 39 0.23
111 16 0.09
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (98 bp):
TGGCCTGGCACCACCTTTATGTAATTTTTTTTTACATTTTGGGTTGTCATTGGCCGGCACCAGTA
TACGAAAAAATTCAAAAAAAAAATTTTTGGTGG
Found at i:30535139 original size:110 final size:110
Alignment explanation
Indices: 30534928--30535409 Score: 376
Period size: 110 Copynumber: 4.5 Consensus size: 110
30534918 GTATACAGGG
* * * ******
30534928 AAAAAAAAT-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTATGT--AATTTTTTTTTA
1 AAAAAAAATATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAGAATTTA
* * *
30534990 CATTTTGAGTTGTCATTGGCTGACACCAGTATAC-AAAAAATTCA
66 CATTTTGGGTTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
**
30535034 AAAAAAGAATATTTTGGTGGTGGCCTGGCAATGGTTGGCACCACCTTTATGTAAAAAAAGAATTT
1 AAAAAA-AATATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAGAATTT
30535099 ACATTTTGGGTTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
65 ACATTTTGGGTTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
* *****
30535145 AAAAAAAA-A--TT--T--T----TGGCAATGGCCGGCACCACCTTTATG---CAATTTTTTTTA
1 AAAAAAAATATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAGAATTT-
* * * *
30535196 ACATTTTGGGCTGTCATTAGCCGGTACCAGTATACGAAAAAATTTAA
65 ACATTTTGGGTTGTCATTGGCCGGCACCAGTATACGAAAAAA-TTCA
* * ******
30535243 AAAAAAAATTTTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTTCTTTTTT
1 AAAAAAAA-TATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA----AAAAGA
* * **
30535308 TTTTACATTTTGGGCTGTCATTGGCCAACACCAGTATACGAAAACAATTC-
61 ATTTACATTTTGGGTTGTCATTGGCCGGCACCAGTATACGAAAA-AATTCA
** * *
30535358 --AAAATTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCATCACCTTTATGTAAA
1 AAAAAAAATATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA
30535410 TTTTTGGTGG
Statistics
Matches: 309, Mismatches: 40, Indels: 48
0.78 0.10 0.12
Matches are distributed among these distances:
96 5 0.02
97 39 0.13
98 11 0.04
99 24 0.08
102 2 0.01
103 1 0.00
104 1 0.00
105 1 0.00
106 7 0.02
107 5 0.02
108 36 0.12
109 1 0.00
110 64 0.21
111 16 0.05
112 44 0.14
113 4 0.01
116 38 0.12
117 10 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (110 bp):
AAAAAAAATATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAGAATTTA
CATTTTGGGTTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
Found at i:30535400 original size:112 final size:113
Alignment explanation
Indices: 30535187--30535412 Score: 321
Period size: 112 Copynumber: 2.0 Consensus size: 113
30535177 CTTTATGCAA
***
30535187 TTTTTTTTAACATTTTGGGCTGTCATTAGCCGGTACCAGTATACGAAAAAATTTAAAAAAAAAAT
1 TTTTTTTTAACATTTTGGGCTGTCATTAGCCAACACCAGTATACGAAAAAATTT---AAAAAAAT
30535252 TTTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTTCT
63 TTTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTTCT
* * * *
30535303 TTTTTTTTTACATTTTGGGCTGTCATTGGCCAACACCAGTATACGAAAACAA-TT-CAAAATTTT
1 TTTTTTTTAACATTTTGGGCTGTCATTAGCCAACACCAGTATACGAAAA-AATTTAAAAAAATTT
* *
30535366 TTTTGGTGGTGGCCTGGCAATGGCCGGCATCACCTTTATGTAAATTT
65 TTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTT
30535413 TTGGTGGTGG
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
112 52 0.52
116 46 0.46
117 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (113 bp):
TTTTTTTTAACATTTTGGGCTGTCATTAGCCAACACCAGTATACGAAAAAATTTAAAAAAATTTT
TTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTTCT
Found at i:30535419 original size:45 final size:45
Alignment explanation
Indices: 30535365--30535454 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
30535355 TTCAAAATTT
*
30535365 TTTTTGGTGGTGGCCTGGCAATGGCCGGCATCACCTTTATGTAAA
1 TTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA
*
30535410 TTTTTGGTGGTGGCCTGGCAATGGCTGGCACCACCTTTATGTAAA
1 TTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA
30535455 AAAATTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (45 bp):
TTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA
Found at i:30535423 original size:157 final size:156
Alignment explanation
Indices: 30535253--30535565 Score: 439
Period size: 158 Copynumber: 2.0 Consensus size: 156
30535243 AAAAAAAATT
****
30535253 TTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTTCTT-TTTTTTTTACATT
1 TTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAAAAAATTATTTTTTTTACATT
* * ** *
30535317 TTGGGCTGTCATTGGCCAACACCAGTATACGAAAACAATTCAAAATTTTTTTTGGTGGTGGCCTG
66 TTGAGCTGTCATTGGCCAACACCAGTATACGAAAAAAATT--AAATTTTTTTTCATGGTGGCCCG
* *
30535382 GCAATGGCCGGCATCACCTTTATGTAAA
129 GCAATGGCCGACACCACCTTTATGTAAA
* *
30535410 TTTTTGGTGGTGGCCTGGCAATGGCTGGCACCACCTTTATGTAAAAAAATTATTTTTTTTACATT
1 TTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAAAAAATTATTTTTTTTACATT
** * *
30535475 TTGAGCTGTCATTGGCCTGCACTAGTATATGAAAAAAATTAAATTTTTTTTCATGGTGGCCCGGC
66 TTGAGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTAAATTTTTTTTCATGGTGGCCCGGC
*
30535540 AATGGCCGACACCACTTTTATGTAAA
131 AATGGCCGACACCACCTTTATGTAAA
30535566 AAAATTTACA
Statistics
Matches: 137, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
156 45 0.33
157 45 0.33
158 47 0.34
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (156 bp):
TTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAAAAAATTATTTTTTTTACATT
TTGAGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTAAATTTTTTTTCATGGTGGCCCGGC
AATGGCCGACACCACCTTTATGTAAA
Found at i:30535665 original size:105 final size:106
Alignment explanation
Indices: 30535528--30535743 Score: 245
Period size: 112 Copynumber: 2.0 Consensus size: 106
30535518 TTTTTTTTCA
* *
30535528 TGGTGGCCCGGCAATGGCCGACACCACTTTTATGTAA-AAAAATTTACATTTTGGGCTATCATTG
1 TGGTGGCCCGGCAATGGCCGACACCACCTTTATGGAATAAAAATTTACATTTTGGGCTATCATTG
*
30535592 GCCGGCATCAATATACGAAAAAATTCAAAAAAAAAATTTTG
66 GCCGGCACCAATATACGAAAAAATTCAAAAAAAAAATTTTG
** * ***** *
30535633 TGGTGGCTTGGCAATGGCCGGCACCACCTTTATGGAATTTTTTTTTCTTTTTACATTTTGGGCTG
1 TGGTGGCCCGGCAATGGCCGACACCACCTTTATGGAA------TAAAAATTTACATTTTGGGCTA
* *
30535698 TCATTGGCCGGCACCAGTATACGAAAAAATTGAAAAAAAAAATTTT
60 TCATTGGCCGGCACCAATATACGAAAAAATTCAAAAAAAAAATTTT
30535744 TTTTGGTGGT
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
105 32 0.36
112 58 0.64
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (106 bp):
TGGTGGCCCGGCAATGGCCGACACCACCTTTATGGAATAAAAATTTACATTTTGGGCTATCATTG
GCCGGCACCAATATACGAAAAAATTCAAAAAAAAAATTTTG
Found at i:30538728 original size:54 final size:55
Alignment explanation
Indices: 30538649--30538767 Score: 143
Period size: 56 Copynumber: 2.2 Consensus size: 55
30538639 ATATTCTTGT
* * *
30538649 AAAAATAAATTTGCATTGAAAATAG-AAAT-TTTAAATATAAAATGAAATGAGAA
1 AAAAATAAATTTCCATTGAAAATAGAAAATATGTAAATATAAAATAAAATGAGAA
* * * **
30538702 AAAAATTAAATTTCCTTTGGAAATAGAAAATATGTAGATATAAAATAAAATGAGGT
1 AAAAA-TAAATTTCCATTGAAAATAGAAAATATGTAAATATAAAATAAAATGAGAA
30538758 AAAAATAAAT
1 AAAAATAAAT
30538768 GTTATCAGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 5 0.09
54 17 0.31
55 9 0.16
56 24 0.44
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.29
Consensus pattern (55 bp):
AAAAATAAATTTCCATTGAAAATAGAAAATATGTAAATATAAAATAAAATGAGAA
Found at i:30542974 original size:33 final size:33
Alignment explanation
Indices: 30542927--30542994 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
30542917 AAGCTGCACA
*
30542927 TAAGGTATCTGGGCACCAAAGACCTGACGAGCC
1 TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
30542960 TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
1 TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
30542993 TA
1 TA
30542995 TTCGGAGTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (33 bp):
TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
Found at i:30544249 original size:17 final size:17
Alignment explanation
Indices: 30544227--30544261 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30544217 GGTGTTTATA
30544227 ATCAAGTCCCACACTGT
1 ATCAAGTCCCACACTGT
30544244 ATCAAGTCCCACACTGT
1 ATCAAGTCCCACACTGT
30544261 A
1 A
30544262 AAAGGTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.23
Consensus pattern (17 bp):
ATCAAGTCCCACACTGT
Found at i:30546402 original size:27 final size:27
Alignment explanation
Indices: 30546364--30546415 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30546354 TTTTTTTTAC
*
30546364 TTTTTTTATAATTGGATATAAGTAGAT
1 TTTTTTTATAATGGGATATAAGTAGAT
*
30546391 TTTTTTTATAATGGGTTATAAGTAG
1 TTTTTTTATAATGGGATATAAGTAG
30546416 TGAGATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (27 bp):
TTTTTTTATAATGGGATATAAGTAGAT
Found at i:30558311 original size:549 final size:553
Alignment explanation
Indices: 30557265--30558370 Score: 1759
Period size: 549 Copynumber: 2.0 Consensus size: 553
30557255 ATATTTATCA
* *
30557265 CAAATAGTTCCAGTAAGCTCATAGTTTATCAGTATTAATTACGTATTGTAAAATTGTAGGTAAAT
1 CAAATAGTTCCAGTAAGCTCATAATTTATCAGTATTAATTACGTATTGTAAAACTGTAGGTAAAT
* *
30557330 ATTATCTTGCTGATGCTGGATATGGCATCCGAATTGGATATATTACCCCATATCGTGGTGTCCGA
66 ATTATCTTGCTGATACTGGATATGGCATCCGAAATGGATATATTACCCCATATCGTGGTGTCCGA
*** *
30557395 TATCATTTAAAAGAGTTTAGTGCTCAAGAGTCTAAAAATGTAAAGTNTTTACATATAATTGGTCA
131 TATCATTTAAAAGAGTTTAGTGCTCAAGAGTCTAAAAATGTAAAGTAACTACATATAATTCGTCA
* * ** * * *
30557460 TAATGTAAGGTTTCGAGTGATTGGATCTAGATATTATGGATCAACTAAGACAGTTCACTGTTACT
196 TAATATAACGAATCGACTGATTGGAACTAGATATTATGGAT-AACTAAGACA--T-ACAGTTACT
*
30557525 TTGATTAGATGTTGAACCATTTTGGAATTTTTCGACTCAAGTAGATATAGTTTTGGCTTGTTGTA
257 GTGATTAGATGTTGAACCATTTTGGAATTTTTCGACTCAAGTAGATATAGTTTTGGCTTGTTGTA
30557590 TCATTAATTATCATATAATGGGAGTTGATCCTAGTGATTTACTTAATCAAGGATTATACGAGGAG
322 TCATTAATTATCATATAATGGGAGTTGATCCTAGTGATTTACTTAATCAAGGATTATACGAGGAG
30557655 CCTGAGTTTGATTTGATAACACCAACTCTTACGGAGCGAGAATAAAGAGAAGAAGCAAGAGAATG
387 CCTGAGTTTGATTTGATAACACCAACTCTTACGGAGCGAGAATAAAGAGAAGAAGCAAGAGAATG
30557720 GTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACTGATTATATGGCTAGAAATATTAGGT
452 GTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACTGATTATATGGCTAGAAATATTAGGT
30557785 AGGTTTAGGGCTTAGGGTAATTGTTTATATGTTATGC
517 AGGTTTAGGGCTTAGGGTAATTGTTTATATGTTATGC
* * * *
30557822 CAAATAGTTCTAGTAAGCTCATAATTTATTAGTATTAATTATGTTTTGTAAAACTGTAGGTAAAT
1 CAAATAGTTCCAGTAAGCTCATAATTTATCAGTATTAATTACGTATTGTAAAACTGTAGGTAAAT
*
30557887 ATTATCTTGCTGATACTGGATATGGCATCTGAAATGGATATATTACCCCATATCGTGGTGTCCGA
66 ATTATCTTGCTGATACTGGATATGGCATCCGAAATGGATATATTACCCCATATCGTGGTGTCCGA
*
30557952 TATCATTTAAAAGAGTTTAGTGCTCAAGAGTCTAAAAATGTAAAGTAACT-C-TTTAATCTTCGT
131 TATCATTTAAAAGAGTTTAGTGCTCAAGAGTCTAAAAATGTAAAGTAACTACATATAA--TTCGT
* * * **
30558015 CATTCATCATTACGAATC-ACT-ATT-GAACGT-G-T-TTTTGGGAT-TTTGAAGA-A-ACAGTT
194 CA-TAAT-ATAACGAATCGACTGATTGGAAC-TAGATATTAT-GGATAACT-AAGACATACAGTT
*
30558071 TC-GTGTATTAGATGTTGAACCATTTTGGAATTTTTCGACTCAAGTAGATATAGTTTTGGCTTGT
254 ACTGTG-ATTAGATGTTGAACCATTTTGGAATTTTTCGACTCAAGTAGATATAGTTTTGGCTTGT
30558135 TGTATCATTAATTATCATATAATGGGAGTTGATCCTAGTGATTTACTTAATCAAGGATTATACGA
318 TGTATCATTAATTATCATATAATGGGAGTTGATCCTAGTGATTTACTTAATCAAGGATTATACGA
*
30558200 GGAGCCTGAGTTTGATTTGATAACACCAACTCTTACGGAGCGAGAATAAAGAGAAGAAGTAAGAG
383 GGAGCCTGAGTTTGATTTGATAACACCAACTCTTACGGAGCGAGAATAAAGAGAAGAAGCAAGAG
30558265 AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACTGATTATATGGCTAGAAATATT
448 AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACTGATTATATGGCTAGAAATATT
30558330 AGGTAGGTTTAGGGCTTAGGGTAATTGTTTATATGTTATGC
513 AGGTAGGTTTAGGGCTTAGGGTAATTGTTTATATGTTATGC
30558371 ATGTTTTAGT
Statistics
Matches: 512, Mismatches: 29, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
548 2 0.00
549 299 0.58
553 2 0.00
554 7 0.01
555 9 0.02
556 5 0.01
557 178 0.35
558 5 0.01
559 5 0.01
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (553 bp):
CAAATAGTTCCAGTAAGCTCATAATTTATCAGTATTAATTACGTATTGTAAAACTGTAGGTAAAT
ATTATCTTGCTGATACTGGATATGGCATCCGAAATGGATATATTACCCCATATCGTGGTGTCCGA
TATCATTTAAAAGAGTTTAGTGCTCAAGAGTCTAAAAATGTAAAGTAACTACATATAATTCGTCA
TAATATAACGAATCGACTGATTGGAACTAGATATTATGGATAACTAAGACATACAGTTACTGTGA
TTAGATGTTGAACCATTTTGGAATTTTTCGACTCAAGTAGATATAGTTTTGGCTTGTTGTATCAT
TAATTATCATATAATGGGAGTTGATCCTAGTGATTTACTTAATCAAGGATTATACGAGGAGCCTG
AGTTTGATTTGATAACACCAACTCTTACGGAGCGAGAATAAAGAGAAGAAGCAAGAGAATGGTCT
ACTAAGAGAGACGAAATTGCACAAACTATGTGGACTGATTATATGGCTAGAAATATTAGGTAGGT
TTAGGGCTTAGGGTAATTGTTTATATGTTATGC
Found at i:30558510 original size:32 final size:32
Alignment explanation
Indices: 30558474--30558538 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
30558464 TTTGTTAGAT
*
30558474 ATTTATTATGTTTTAAGCTTGTTAGATTTTGA
1 ATTTATTATGTTTTAAGCTTGTTAGATATTGA
*
30558506 ATTTATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTTATTATGTTTTAAGCTTGTTAGATATTGA
30558538 A
1 A
30558539 ATGATTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.17, T:0.54
Consensus pattern (32 bp):
ATTTATTATGTTTTAAGCTTGTTAGATATTGA
Found at i:30559955 original size:20 final size:20
Alignment explanation
Indices: 30559926--30559965 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30559916 AAATATTTTC
* *
30559926 AGTAAGTCATTTTTCAGAAA
1 AGTAAATCATTTTCCAGAAA
30559946 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
30559966 TTATTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:30564008 original size:13 final size:13
Alignment explanation
Indices: 30563984--30564020 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
30563974 ATATATTTTT
30563984 TAAAAAATT-ATA
1 TAAAAAATTAATA
30563996 T-AAAAA-TAATA
1 TAAAAAATTAATA
30564007 TAAAAAATTAATA
1 TAAAAAATTAATA
30564020 T
1 T
30564021 GGGGGCTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 6 0.27
13 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:30565282 original size:9 final size:9
Alignment explanation
Indices: 30565254--30565293 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
30565244 CATCCATCTT
30565254 TCAACTCTC
1 TCAACTCTC
*
30565263 TCAAACCCTC
1 TC-AACTCTC
*
30565273 TCAAGTCTC
1 TCAACTCTC
30565282 TCAACTCTC
1 TCAACTCTC
30565291 TCA
1 TCA
30565294 TTTTAAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.25, C:0.42, G:0.03, T:0.30
Consensus pattern (9 bp):
TCAACTCTC
Found at i:30567227 original size:37 final size:33
Alignment explanation
Indices: 30567185--30567292 Score: 90
Period size: 37 Copynumber: 3.0 Consensus size: 33
30567175 CAAGATAAAC
30567185 ATTAAATTTAATTTAATATTAAGATAATCACATTAA
1 ATTAAATTTAATTTAATATTAAGATAAT---ATTAA
** *
30567221 TATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 -ATTAAATT--TAATTTAATATTAAGATAA-TATTAA
*
30567258 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAATTTAAT-TT-AA-TATTAAGATAATATTA
30567293 TTTTTGGAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 14 0.24
37 23 0.40
39 16 0.28
40 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (33 bp):
ATTAAATTTAATTTAATATTAAGATAATATTAA
Found at i:30567232 original size:31 final size:29
Alignment explanation
Indices: 30567176--30567233 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
30567166 ATTTATATAC
*
30567176 AAGATAAACATTAAATTTAATTTAATATT
1 AAGATAAACATTAAATTTAAATTAATATT
30567205 AAGATAATCACATT-AATATTAAATTAATA
1 AAGATAA--ACATTAAAT-TTAAATTAATA
30567234 AAATACTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 7 0.28
30 3 0.12
31 15 0.60
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (29 bp):
AAGATAAACATTAAATTTAAATTAATATT
Found at i:30568184 original size:21 final size:21
Alignment explanation
Indices: 30568167--30568222 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
30568157 ACCAAAAATT
30568167 TATTTTAAAAATGAAAAAAAG
1 TATTTTAAAAATGAAAAAAAG
*
30568188 TATTTTAAAAAT-ATTTTAAAAAG
1 TATTTTAAAAATGA---AAAAAAG
30568211 TATTTTAAAAAT
1 TATTTTAAAAAT
30568223 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
23 18 0.58
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
TATTTTAAAAATGAAAAAAAG
Found at i:30568202 original size:11 final size:12
Alignment explanation
Indices: 30568182--30568231 Score: 86
Period size: 11 Copynumber: 4.3 Consensus size: 12
30568172 TAAAAATGAA
30568182 AAAAAGTATTTT
1 AAAAAGTATTTT
30568194 AAAAA-TATTTT
1 AAAAAGTATTTT
30568205 AAAAAGTATTTT
1 AAAAAGTATTTT
30568217 AAAAA-TATTTT
1 AAAAAGTATTTT
30568228 AAAA
1 AAAA
30568232 TTAAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
11 21 0.57
12 16 0.43
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (12 bp):
AAAAAGTATTTT
Found at i:30568208 original size:23 final size:23
Alignment explanation
Indices: 30568182--30568272 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 23
30568172 TAAAAATGAA
30568182 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
30568205 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
* * **
30568228 --AAA--A-TTAAAAAATAATAA
1 AAAAAGTATTTTAAAAATATTTT
*
30568246 AAAAAGGATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
30568269 AAAA
1 AAAA
30568273 TTAAAAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
18 10 0.18
19 1 0.02
20 3 0.05
21 3 0.05
22 1 0.02
23 37 0.67
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAAAGTATTTTAAAAATATTTT
Found at i:30568209 original size:12 final size:12
Alignment explanation
Indices: 30568181--30568231 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
30568171 TTAAAAATGA
30568181 AAAAAAGTATTTT
1 AAAAAA-TATTTT
30568194 -AAAAATATTTT
1 AAAAAATATTTT
*
30568205 AAAAAGTATTTT
1 AAAAAATATTTT
30568217 -AAAAATATTTT
1 AAAAAATATTTT
30568228 AAAA
1 AAAA
30568232 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:30568278 original size:17 final size:17
Alignment explanation
Indices: 30568256--30568301 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
30568246 AAAAAGGATT
30568256 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
30568273 TTAAAAAAAATTTAAAA
1 TTAAAAATATTTTAAAA
* *
30568290 ATAAATATATTT
1 TTAAAAATATTT
30568302 ATTATATCGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:30568290 original size:41 final size:41
Alignment explanation
Indices: 30568194--30568290 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
30568184 AAAGTATTTT
* * *
30568194 AAAAATATTTTAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAAATTTAAAAAAGGATTTTAAAAATATTTTAAAATTA
*
30568235 AAAAATAA-TAAAAAAAGGATTTTAAAAATATTTTAAAATTA
1 AAAAA-AATTTAAAAAAGGATTTTAAAAATATTTTAAAATTA
30568276 AAAAAAATTTAAAAA
1 AAAAAAATTTAAAAA
30568291 TAAATATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.04
41 46 0.94
42 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (41 bp):
AAAAAAATTTAAAAAAGGATTTTAAAAATATTTTAAAATTA
Found at i:30569651 original size:20 final size:20
Alignment explanation
Indices: 30569626--30569665 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30569616 GAGGAGCACA
*
30569626 TCGTAGGATGTAACCTTTAC
1 TCGTAGGATGCAACCTTTAC
30569646 TCGTAGGATGCAACCTTTAC
1 TCGTAGGATGCAACCTTTAC
30569666 CCGTTTGTGT
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:0.23, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGTAGGATGCAACCTTTAC
Found at i:30573325 original size:52 final size:52
Alignment explanation
Indices: 30573264--30573364 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
30573254 CATGTACATA
*
30573264 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTATTG
*
30573316 TTTGAGCTTCAACCGAGCTGGAAATGAGGTCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTA
30573365 CGTTTCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTATTG
Found at i:30578564 original size:168 final size:168
Alignment explanation
Indices: 30578306--30578641 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
30578296 AGACAGCTTA
30578306 GATTTACATACAAGAAAATAGTGAAAGTATGGATAATGTTGTTTAAGTGTGTTATACACATTAAG
1 GATTTACATACAAGAAAATAGTGAAAGTATGGATAATGTTGTTTAAGTGTGTTATACACATTAAG
30578371 GATGTGGAATGGAGAGGAGGAGGAGGAAAATATAGGAATGACTTGTGCATAAATTGGTCATTTTC
66 GATGTGGAATGGAGAGGAGGAGGAGGAAAATATAGGAATGACTTGTGCATAAATTGGTCATTTTC
30578436 CCAATTTTAATCGATAAACGTTGAATTAGAAGTGATAT
131 CCAATTTTAATCGATAAACGTTGAATTAGAAGTGATAT
30578474 GATTTACATACAAGAAAATAGTGAAAGTATGGATAATGTTGTTTAAGTGTGTTATACACATTAAG
1 GATTTACATACAAGAAAATAGTGAAAGTATGGATAATGTTGTTTAAGTGTGTTATACACATTAAG
30578539 GATGTGGAATGGAGAGGAGGAGGAGGAAAATATAGGAATGACTTGTGCATAAATTGGTCATTTTC
66 GATGTGGAATGGAGAGGAGGAGGAGGAAAATATAGGAATGACTTGTGCATAAATTGGTCATTTTC
30578604 CCAATTTTAATCGATAAACGTTGAATTAGAAGTGATAT
131 CCAATTTTAATCGATAAACGTTGAATTAGAAGTGATAT
30578642 AATGTTTCAT
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (168 bp):
GATTTACATACAAGAAAATAGTGAAAGTATGGATAATGTTGTTTAAGTGTGTTATACACATTAAG
GATGTGGAATGGAGAGGAGGAGGAGGAAAATATAGGAATGACTTGTGCATAAATTGGTCATTTTC
CCAATTTTAATCGATAAACGTTGAATTAGAAGTGATAT
Found at i:30587242 original size:14 final size:14
Alignment explanation
Indices: 30587216--30587274 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
30587206 ACTGTTGAAC
30587216 TTAAAATATAAAATT
1 TTAAAA-ATAAAATT
30587231 TTAAAAATAAAATT
1 TTAAAAATAAAATT
30587245 TATAAAAATAAGAA-T
1 T-TAAAAATAA-AATT
* *
30587260 ATAAAAATTAAATT
1 TTAAAAATAAAATT
30587274 T
1 T
30587275 CAAATATGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.05
14 18 0.47
15 16 0.42
16 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TTAAAAATAAAATT
Found at i:30587580 original size:26 final size:28
Alignment explanation
Indices: 30587545--30587611 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
30587535 AAAAATAATC
30587545 AAAATATTATAA-TTTTT-TTATTTACT
1 AAAATATTATAATTTTTTATTATTTACT
30587571 AAAATATTATAATTTTTTTTATTATTTACT
1 AAAATATTATAA--TTTTTTATTATTTACT
30587601 AAAATA-TATAA
1 AAAATATTATAA
30587612 AAAAACAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.32
29 10 0.27
30 15 0.41
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (28 bp):
AAAATATTATAATTTTTTATTATTTACT
Found at i:30587749 original size:31 final size:31
Alignment explanation
Indices: 30587714--30587773 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 31
30587704 AAAGCCATTA
*
30587714 AAGGAGAGGGAAAGAAAGAAAGA-AAGGAAGG
1 AAGGAGA-GGAAAGAAAGAAAAAGAAGGAAGG
30587745 AAGGAGAGGAAAGAAAGAAAAAGAAGGAA
1 AAGGAGAGGAAAGAAAGAAAAAGAAGGAA
30587774 AGAAAAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (31 bp):
AAGGAGAGGAAAGAAAGAAAAAGAAGGAAGG
Found at i:30587775 original size:36 final size:39
Alignment explanation
Indices: 30587728--30587982 Score: 251
Period size: 39 Copynumber: 6.5 Consensus size: 39
30587718 AGAGGGAAAG
*
30587728 AAAGAAAGAAAG-GAAGG-AAGGAG-AG-GAAAGAAAGAA
1 AAAGAAGGAAAGAGAAGGAAAGGAGAAGAGAAA-AAAGAA
* *
30587764 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAA
1 AAAGAAGGAAAGAGAAGGAAAGGAGAAGAGAAAAAAGAA
* *
30587803 GGAAAGAA-GAAAAAG-AGGAAAGGAGAAGAAAAAAGAAAGAA
1 --AAAGAAGGAAAGAGAAGGAAAGGAGAAG-AGAAA-AAAGAA
* *
30587844 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAA
1 AAAGAAGGAAAGAGAAGGAAAGGAGAAGAGAAAAAAGAA
* *
30587883 GGAAAGAA-GAAAAAG-AGGAAAGGAGAAGAAAAAAGAAAGAA
1 --AAAGAAGGAAAGAGAAGGAAAGGAGAAG-AGAAA-AAAGAA
*
30587924 AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA-AA
1 AAAGAAGGAAAGAGAAGGAAAGGAGAAGAGAAAAAAGAA
30587962 AGAAGAA-GAAGAGAGAAGGAA
1 A-AAGAAGGAA-AGAGAAGGAA
30587983 GAAAAAAAAG
Statistics
Matches: 182, Mismatches: 19, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
36 11 0.06
37 4 0.02
38 12 0.07
39 67 0.37
40 40 0.22
41 48 0.26
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (39 bp):
AAAGAAGGAAAGAGAAGGAAAGGAGAAGAGAAAAAAGAA
Found at i:30587982 original size:80 final size:80
Alignment explanation
Indices: 30587754--30587973 Score: 422
Period size: 80 Copynumber: 2.7 Consensus size: 80
30587744 GAAGGAGAGG
30587754 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAAAAGA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAAAAGA
30587819 GGAAAGGAGAAGAAA
66 GGAAAGGAGAAGAAA
30587834 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAAAAGA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAAAAGA
30587899 GGAAAGGAGAAGAAA
66 GGAAAGGAGAAGAAA
*
30587914 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGA-AAGAAGA
30587974 GAGAAGGAAG
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
80 131 0.95
81 7 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (80 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGGAAAGAAGAAAAAGA
GGAAAGGAGAAGAAA
Found at i:30593637 original size:18 final size:19
Alignment explanation
Indices: 30593597--30593638 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
30593587 CCAATGATCG
30593597 CCACCACCTTCTTCTTCGA
1 CCACCACCTTCTTCTTCGA
30593616 -CACCACCTTCTTCTTC-A
1 CCACCACCTTCTTCTTCGA
30593633 CCACCA
1 CCACCA
30593639 ACCATATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (19 bp):
CCACCACCTTCTTCTTCGA
Found at i:30594409 original size:3 final size:3
Alignment explanation
Indices: 30594401--30594501 Score: 109
Period size: 3 Copynumber: 33.7 Consensus size: 3
30594391 TCTTAATACT
* * *
30594401 AAC AAC AAC AAC AAC AAC AAC AAC TAA- AAC TAT AAC AAC AAT ATA-
1 AAC AAC AAC AAC AAC AAC AAC AAC -AAC AAC AAC AAC AAC AAC A-AC
* *
30594446 ATC AAC AAT ATA- AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC A-AC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
30594491 AAC AAC AAC AA
1 AAC AAC AAC AA
30594502 TAATAATAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
2 3 0.04
3 77 0.92
4 4 0.05
ACGTcount: A:0.65, C:0.27, G:0.00, T:0.08
Consensus pattern (3 bp):
AAC
Found at i:30594506 original size:3 final size:3
Alignment explanation
Indices: 30594500--30594525 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30594490 CAACAACAAC
30594500 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
30594526 CTAAAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30594800 original size:27 final size:27
Alignment explanation
Indices: 30594754--30594846 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
30594744 AACACGAGTA
30594754 GTGCCGCCAAT--CTGTATGGCACCATTG
1 GTGCCGCCAATGGCT-T-TGGCACCATTG
*
30594781 GTGTCGCCAATGGCTTTGGCACCATTG
1 GTGCCGCCAATGGCTTTGGCACCATTG
** *
30594808 GTGCCGCCAATGGCTTTGGTGCCTTTG
1 GTGCCGCCAATGGCTTTGGCACCATTG
*
30594835 GTGCCGGCAATG
1 GTGCCGCCAATG
30594847 CCATTGGCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 55 0.95
28 1 0.02
29 2 0.03
ACGTcount: A:0.14, C:0.27, G:0.31, T:0.28
Consensus pattern (27 bp):
GTGCCGCCAATGGCTTTGGCACCATTG
Found at i:30594962 original size:26 final size:29
Alignment explanation
Indices: 30594902--30594973 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 29
30594892 CAGGTTTTTT
30594902 TTATATATATTTTGGTAAATAATAAAAATAA
1 TTATA-ATATTTTGGT-AATAATAAAAATAA
*
30594933 TTATAATATTTTGGT-A-AATAAAAA-AG
1 TTATAATATTTTGGTAATAATAAAAATAA
30594959 TTATAATATTTTGGT
1 TTATAATATTTTGGT
30594974 TATTTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 16 0.40
27 8 0.20
28 1 0.03
30 10 0.25
31 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (29 bp):
TTATAATATTTTGGTAATAATAAAAATAA
Found at i:30597675 original size:20 final size:19
Alignment explanation
Indices: 30597644--30597697 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
30597634 TCTCTCAACA
30597644 AAAAATTACAAAATAATTTT
1 AAAAATT-CAAAATAATTTT
*
30597664 CAAAAATTCAAAATCATTTT
1 -AAAAATTCAAAATAATTTT
*
30597684 TAAAATTCAAAATA
1 AAAAATTCAAAATA
30597698 TTTATATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 12 0.40
20 11 0.37
21 7 0.23
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:30597857 original size:3 final size:3
Alignment explanation
Indices: 30597849--30597874 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30597839 AGTATCTTAT
30597849 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30597875 TTGCTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30601228 original size:30 final size:29
Alignment explanation
Indices: 30601189--30601277 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
30601179 ACAGGCTGGC
* *
30601189 ACATGGGCGTGTGTCCAGCCTGTGTGGCTT
1 ACAT-GGCGTGTGCCCAGCCCGTGTGGCTT
* * *
30601219 ACATAGGCGTGTGCCCAACCCCTGTGGGTT
1 ACAT-GGCGTGTGCCCAGCCCGTGTGGCTT
30601249 ACATGAGCGTGTGCCCAGCCCGTGTGGCT
1 ACATG-GCGTGTGCCCAGCCCGTGTGGCT
30601278 CTTGAAATCT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.13, C:0.28, G:0.34, T:0.25
Consensus pattern (29 bp):
ACATGGCGTGTGCCCAGCCCGTGTGGCTT
Found at i:30603016 original size:6 final size:6
Alignment explanation
Indices: 30603005--30603075 Score: 101
Period size: 6 Copynumber: 11.8 Consensus size: 6
30602995 ACAACTCAAT
*
30603005 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAC
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
30603053 TAAAAA -AAAGAA -AACAAA TAAAA
1 TAAAAA TAAA-AA TAA-AAA TAAAA
30603076 TCAATAATCC
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
5 3 0.05
6 54 0.90
7 3 0.05
ACGTcount: A:0.82, C:0.03, G:0.01, T:0.14
Consensus pattern (6 bp):
TAAAAA
Found at i:30603075 original size:9 final size:9
Alignment explanation
Indices: 30603012--30603075 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
30603002 AATTAAAAAT
30603012 AAAAATAAA
1 AAAAATAAA
*
30603021 AATAAA-AAT
1 AA-AAATAAA
30603030 AAAAATAAA
1 AAAAATAAA
*
30603039 AATAAA-AAT
1 AA-AAATAAA
*
30603048 AAAACTAAA
1 AAAAATAAA
*
30603057 AAAAAGAAA
1 AAAAATAAA
*
30603066 ACAAATAAA
1 AAAAATAAA
30603075 A
1 A
30603076 TCAATAATCC
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
8 5 0.12
9 31 0.74
10 6 0.14
ACGTcount: A:0.83, C:0.03, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:30603075 original size:15 final size:16
Alignment explanation
Indices: 30603038--30603075 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
30603028 ATAAAAATAA
*
30603038 AAATAAAAATAAAACT
1 AAATAAAAAGAAAACT
30603054 AAA-AAAAAGAAAAC-
1 AAATAAAAAGAAAACT
30603068 AAATAAAA
1 AAATAAAA
30603076 TCAATAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 14 0.70
16 3 0.15
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.11
Consensus pattern (16 bp):
AAATAAAAAGAAAACT
Found at i:30604743 original size:22 final size:21
Alignment explanation
Indices: 30604695--30604814 Score: 73
Period size: 22 Copynumber: 5.2 Consensus size: 21
30604685 GTTAAATAAC
* *
30604695 ATAACAATAATAAGAACAAAAATA
1 ATAA-AATAATAATAA-AAACA-A
30604719 ATAAACATAATAATAAAAACAA
1 ATAAA-ATAATAATAAAAACAA
*
30604741 ATAGAAAGAATAATAATAAAACAA
1 ATA-AAATAATAAT-A-AAAACAA
*
30604765 ATGATAATAAATAAT-AAAACAA
1 AT-AAAAT-AATAATAAAAACAA
*
30604787 ATAATAATTAA-AATAAAATAAAA
1 ATAA-AA-TAATAATAAAA-ACAA
30604810 ATAAA
1 ATAAA
30604815 GAGCAAGGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
21 4 0.05
22 28 0.35
23 16 0.20
24 24 0.30
25 7 0.09
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
ATAAAATAATAATAAAAACAA
Found at i:30604759 original size:37 final size:36
Alignment explanation
Indices: 30604703--30604810 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 36
30604693 ACATAACAAT
30604703 AATAAGAACAAA-AATAATAAACATAATAATAAAAACA
1 AATAA-AACAAATAATAATAAACATAATAATAAAAA-A
* * *
30604740 AATAGAAA-GAATAATAATAAAACA-AATGATAATAAAT
1 AATA-AAACAAATAATAAT-AAACATAATAATAA-AAAA
30604777 AATAAAACAAATAATAATTAAA-ATAA-AATAAAAA
1 AATAAAACAAATAATAA-TAAACATAATAATAAAAA
30604811 TAAAGAGCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
35 3 0.05
36 10 0.17
37 36 0.61
38 10 0.17
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (36 bp):
AATAAAACAAATAATAATAAACATAATAATAAAAAA
Found at i:30604771 original size:12 final size:12
Alignment explanation
Indices: 30604700--30604793 Score: 63
Period size: 12 Copynumber: 7.7 Consensus size: 12
30604690 ATAACATAAC
30604700 AATAATAAGAACA
1 AATAATAA-AACA
30604713 AA-AATAATAAACA
1 AATAAT-A-AAACA
30604726 TAATAATAAAAACA
1 -AATAAT-AAAACA
*
30604740 AATAGA-AAGAA-T
1 AATA-ATAA-AACA
30604752 AATAATAAAACA
1 AATAATAAAACA
* *
30604764 AATGAT--AATA
1 AATAATAAAACA
30604774 AATAATAAAACA
1 AATAATAAAACA
30604786 AATAATAA
1 AATAATAA
30604794 TTAAAATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
10 8 0.12
11 3 0.05
12 27 0.42
13 13 0.20
14 9 0.14
15 5 0.08
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.19
Consensus pattern (12 bp):
AATAATAAAACA
Found at i:30608605 original size:5 final size:5
Alignment explanation
Indices: 30608597--30608623 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30608587 AACTAAAAAT
30608597 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
30608624 ATGGCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:30611923 original size:3 final size:3
Alignment explanation
Indices: 30611915--30611945 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30611905 CCAATGTCAG
30611915 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
30611946 AGATGGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:30613254 original size:19 final size:19
Alignment explanation
Indices: 30613222--30613263 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
30613212 TCTTATTTAT
30613222 TATATGTTATTTTTAAATA
1 TATATGTTATTTTTAAATA
*
30613241 TATAT-TTATATTTTAAATT
1 TATATGTTAT-TTTTAAATA
30613260 TATA
1 TATA
30613264 ATTTCAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATGTTATTTTTAAATA
Found at i:30613810 original size:12 final size:13
Alignment explanation
Indices: 30613795--30613827 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30613785 TTTGTAATAT
30613795 TTTTATTTTTC-A
1 TTTTATTTTTCTA
30613807 TTTTATTTTTCTA
1 TTTTATTTTTCTA
*
30613820 TTTAATTT
1 TTTTATTT
30613828 CTAATTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTCTA
Found at i:30621174 original size:28 final size:28
Alignment explanation
Indices: 30621134--30621187 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
30621124 TGTATACTTT
*
30621134 TATTTTTTGAACAAATTGGTTTAACATG
1 TATTTTTTGAACAAATTAGTTTAACATG
30621162 TATTTTTTGAACAAATTAGTTTAACA
1 TATTTTTTGAACAAATTAGTTTAACA
30621188 ATAACATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTTTTGAACAAATTAGTTTAACATG
Found at i:30623440 original size:18 final size:21
Alignment explanation
Indices: 30623417--30623454 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
30623407 TGGGAGTAAA
30623417 TTTAGG-TTT-TA-TTAAATT
1 TTTAGGATTTGTAGTTAAATT
30623435 TTTAGGATTTGTAGTTAAAT
1 TTTAGGATTTGTAGTTAAAT
30623455 CATGGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 2 0.12
21 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTAGGATTTGTAGTTAAATT
Found at i:30632161 original size:27 final size:26
Alignment explanation
Indices: 30632125--30632378 Score: 219
Period size: 27 Copynumber: 9.5 Consensus size: 26
30632115 CCCTAAAATA
30632125 GGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATAACTGAAATACCCC-ATAG
*
30632152 GGTAAAATAACCGAAATATCCCCATAG
1 GGTAAAATAACTGAAATA-CCCCATAG
* * * * *
30632179 GATAAAATGACTAAAATAGCCCGTAG
1 GGTAAAATAACTGAAATACCCCATAG
*
30632205 GGTAAAATGAAC-AAAATACCCCTATAG
1 GGTAAAAT-AACTGAAATACCCC-ATAG
* *
30632232 GGTAAAATAA-TCGAAGTACCCCTATAT
1 GGTAAAATAACT-GAAATACCCC-ATAG
*
30632259 GGTAAAATGAC-GTAAATAACCCCATAG
1 GGTAAAATAACTG-AAAT-ACCCCATAG
* *
30632286 GATAAAATGAAC-GAAATACCCTTATAG
1 GGTAAAAT-AACTGAAATACCC-CATAG
* * *
30632313 GGTAAAATGACCGAAATTCCCCCATAG
1 GGTAAAATAACTGAAA-TACCCCATAG
* *
30632340 GGTAAAATGACCGAAATACCCCATAG
1 GGTAAAATAACTGAAATACCCCATAG
*
30632366 GGTAAAATGACTG
1 GGTAAAATAACTG
30632379 TTATACCCTT
Statistics
Matches: 189, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
26 52 0.28
27 121 0.64
28 16 0.08
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (26 bp):
GGTAAAATAACTGAAATACCCCATAG
Found at i:30632265 original size:80 final size:77
Alignment explanation
Indices: 30632125--30632375 Score: 306
Period size: 80 Copynumber: 3.1 Consensus size: 77
30632115 CCCTAAAATA
30632125 GGTAAAAT-AACTGAAATACCCCTATAGGGTAAAATAACCGAAATATCCCCATAGGATAAAATGA
1 GGTAAAATGAAC-GAAATACCCCTATAGGGTAAAATAACCGAAATA-CCCCATAGG-TAAAATGA
* *
30632189 CTAAAATAGCCCGTAG
63 CT-AAATACCCCATAG
* * *
30632205 GGTAAAATGAACAAAATACCCCTATAGGGTAAAATAATCGAAGTACCCCTATATGGTAAAATGAC
1 GGTAAAATGAACGAAATACCCCTATAGGGTAAAATAACCGAAATACCCC-ATA-GGTAAAATGAC
30632270 GTAAATAACCCCATAG
64 -TAAAT-ACCCCATAG
* * * *
30632286 GATAAAATGAACGAAATACCCTTATAGGGTAAAATGACCGAAATTCCCCCATAGGGTAAAATGAC
1 GGTAAAATGAACGAAATACCCCTATAGGGTAAAATAACCGAAA-TACCCCATA-GGTAAAATGA-
*
30632351 CGAAATACCCCATAG
63 CTAAATACCCCATAG
30632366 GGTAAAATGA
1 GGTAAAATGA
30632376 CTGTTATACC
Statistics
Matches: 149, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
79 4 0.03
80 72 0.48
81 67 0.45
82 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (77 bp):
GGTAAAATGAACGAAATACCCCTATAGGGTAAAATAACCGAAATACCCCATAGGTAAAATGACTA
AATACCCCATAG
Found at i:30632276 original size:54 final size:51
Alignment explanation
Indices: 30632125--30632376 Score: 256
Period size: 54 Copynumber: 4.7 Consensus size: 51
30632115 CCCTAAAATA
*
30632125 GGTAAAATAACTGAAATACCCCTATAGGGTAAAATAACCGAAATATCCCCATAG
1 GGTAAAATAAC-GAAATACCCCTATAGGGTAAAATGA-CGAAATA-CCCCATAG
* * * * * *
30632179 GATAAAATGACTAAAATAGCCC-GTAGGGTAAAATGAACAAAATACCCCTATAG
1 GGTAAAATAAC-GAAATACCCCTATAGGGTAAAATG-ACGAAATACCCC-ATAG
* *
30632232 GGTAAAATAATCGAAGTACCCCTATATGGTAAAATGACGTAAATAACCCCATAG
1 GGTAAAATAA-CGAAATACCCCTATAGGGTAAAATGACG-AAAT-ACCCCATAG
* * *
30632286 GATAAAATGAACGAAATACCCTTATAGGGTAAAATGACCGAAATTCCCCCATAG
1 GGTAAAAT-AACGAAATACCCCTATAGGGTAAAATGA-CGAAA-TACCCCATAG
*
30632340 GGTAAAATGACCGAAATACCCC-ATAGGGTAAAATGAC
1 GGTAAAAT-AACGAAATACCCCTATAGGGTAAAATGAC
30632377 TGTTATACCC
Statistics
Matches: 166, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
52 5 0.03
53 52 0.31
54 99 0.60
55 10 0.06
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (51 bp):
GGTAAAATAACGAAATACCCCTATAGGGTAAAATGACGAAATACCCCATAG
Found at i:30639312 original size:59 final size:59
Alignment explanation
Indices: 30639239--30639481 Score: 218
Period size: 59 Copynumber: 4.1 Consensus size: 59
30639229 TAGATACCCG
* * * * **
30639239 ACAAAGGTTTTCCTTTTAGATATTTTCCACAAAGGCATCCTTTTCTTTCAGTATTCATC
1 ACAAAGGCTTTCCTTTTAAATATTTTCCACAAAGGCATCATTTTCTTTCAGTACTCGCC
* ** ** ** *
30639298 ACAAAAGCTTTCCTTTTGGATATTCGCCACAAACACATCATTTTCTTTCAATACTCGCC
1 ACAAAGGCTTTCCTTTTAAATATTTTCCACAAAGGCATCATTTTCTTTCAGTACTCGCC
* * * * * * * *
30639357 ATAAAGGCTTTCCATTAAAAAAGTTTCTATAAAGGCATCCTTTTCATTT-AGTACTCGCC
1 ACAAAGGCTTTCCTTTTAAATATTTTCCACAAAGGCATCATTTTC-TTTCAGTACTCGCC
* * * * **
30639416 ACAAAGGCTTTCCTTTTAAAGATTTTCAATAAAGGAATCATTTTCTTTCAGTACTCGAA
1 ACAAAGGCTTTCCTTTTAAATATTTTCCACAAAGGCATCATTTTCTTTCAGTACTCGCC
30639475 ACAAAGG
1 ACAAAGG
30639482 TATCCTTCCG
Statistics
Matches: 144, Mismatches: 38, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
58 3 0.02
59 138 0.96
60 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (59 bp):
ACAAAGGCTTTCCTTTTAAATATTTTCCACAAAGGCATCATTTTCTTTCAGTACTCGCC
Found at i:30644195 original size:986 final size:986
Alignment explanation
Indices: 30642284--30644256 Score: 3946
Period size: 986 Copynumber: 2.0 Consensus size: 986
30642274 TATTAGTTGT
30642284 ATTTGAAAAGTGAATTGGAACCCTGTTAACTGTATCGGGCTGAGTCGGATATAAATGGCATGCTA
1 ATTTGAAAAGTGAATTGGAACCCTGTTAACTGTATCGGGCTGAGTCGGATATAAATGGCATGCTA
30642349 TAGGATAGGAAGAGTTCAGGGATTTCTTTGACTTTGAGTCGATGAGGTATTGGGTGTTAATTTAC
66 TAGGATAGGAAGAGTTCAGGGATTTCTTTGACTTTGAGTCGATGAGGTATTGGGTGTTAATTTAC
30642414 TTTGGTTTAACCGATGAGACACTAGGTGTCAAATTTATATAGCGTTGGGCACATTTATTACTTCA
131 TTTGGTTTAACCGATGAGACACTAGGTGTCAAATTTATATAGCGTTGGGCACATTTATTACTTCA
30642479 AGTTTATCCGATGAGGCATTGGGTGCCAAACTGGTGTGTTGGTTGGATCGTGTATCCGACCGAGT
196 AGTTTATCCGATGAGGCATTGGGTGCCAAACTGGTGTGTTGGTTGGATCGTGTATCCGACCGAGT
30642544 TCGAGTCATGTTAGTAGGGGTAAATAAATAATAAATTTCTATAATTGATATTGAAATAGCATGGT
261 TCGAGTCATGTTAGTAGGGGTAAATAAATAATAAATTTCTATAATTGATATTGAAATAGCATGGT
30642609 ATGAGAAATGGAATTGATATAGTGAATTGAAAATAGAATGTGAAATATGTTGTAAATATATGGAA
326 ATGAGAAATGGAATTGATATAGTGAATTGAAAATAGAATGTGAAATATGTTGTAAATATATGGAA
30642674 AATTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAATATAGTATGAAATGATATGCTAT
391 AATTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAATATAGTATGAAATGATATGCTAT
30642739 TATGTATAAATTCAAAGGGTTGACATATGGTAGTAGTGATTTTTAAATATTAATATGTGCTTATA
456 TATGTATAAATTCAAAGGGTTGACATATGGTAGTAGTGATTTTTAAATATTAATATGTGCTTATA
30642804 ATTTTATTATGCATATGATATTATCTTGTCTTTAATATTTAGATTATTGAATTACCACTGAGTTT
521 ATTTTATTATGCATATGATATTATCTTGTCTTTAATATTTAGATTATTGAATTACCACTGAGTTT
30642869 TACTCAGCGTACGATTTTGTTTTCCATGCGCAGGTTAGGTACTTAACTTTTGATTACTGGTTGAG
586 TACTCAGCGTACGATTTTGTTTTCCATGCGCAGGTTAGGTACTTAACTTTTGATTACTGGTTGAG
30642934 CATCCAACAACGATTCCGAACTCAAATGTGATGATGTTTATCTTTTGTGCCGGCATGTAATTAGG
651 CATCCAACAACGATTCCGAACTCAAATGTGATGATGTTTATCTTTTGTGCCGGCATGTAATTAGG
30642999 ATGTCTAAATGATAATTATTTTGCAGATGGATTGTAAATAAGGTTATAAGTGTAATGATGGTTTG
716 ATGTCTAAATGATAATTATTTTGCAGATGGATTGTAAATAAGGTTATAAGTGTAATGATGGTTTG
30643064 GTATATGCATATAAAAATGTGTTTGTGTTTAAAGCCATATTATGGCATGGTAAATTGAACCAAAT
781 GTATATGCATATAAAAATGTGTTTGTGTTTAAAGCCATATTATGGCATGGTAAATTGAACCAAAT
30643129 CTAGATAGGTGCATGTGAATTTAAGTTGACGTTTAAGTGGTCATGAACTAGGCAAAATGAATTAA
846 CTAGATAGGTGCATGTGAATTTAAGTTGACGTTTAAGTGGTCATGAACTAGGCAAAATGAATTAA
30643194 ATTTTATATGTTTATAGTTTGGATTTAAGTGATGCTTTGATGATATGAATTGAGGATATAAATGT
911 ATTTTATATGTTTATAGTTTGGATTTAAGTGATGCTTTGATGATATGAATTGAGGATATAAATGT
30643259 GGTACCAATGA
976 GGTACCAATGA
30643270 ATTTGAAAAGTGAATTGGAACCCTGTTAACTGTATCGGGCTGAGTCGGATATAAATGGCATGCTA
1 ATTTGAAAAGTGAATTGGAACCCTGTTAACTGTATCGGGCTGAGTCGGATATAAATGGCATGCTA
30643335 TAGGATAGGAAGAGTTCAGGGATTTCTTTGACTTTGAGTCGATGAGGTATTGGGTGTTAATTTAC
66 TAGGATAGGAAGAGTTCAGGGATTTCTTTGACTTTGAGTCGATGAGGTATTGGGTGTTAATTTAC
30643400 TTTGGTTTAACCGATGAGACACTAGGTGTCAAATTTATATAGCGTTGGGCACATTTATTACTTCA
131 TTTGGTTTAACCGATGAGACACTAGGTGTCAAATTTATATAGCGTTGGGCACATTTATTACTTCA
30643465 AGTTTATCCGATGAGGCATTGGGTGCCAAACTGGTGTGTTGGTTGGATCGTGTATCCGACCGAGT
196 AGTTTATCCGATGAGGCATTGGGTGCCAAACTGGTGTGTTGGTTGGATCGTGTATCCGACCGAGT
30643530 TCGAGTCATGTTAGTAGGGGTAAATAAATAATAAATTTCTATAATTGATATTGAAATAGCATGGT
261 TCGAGTCATGTTAGTAGGGGTAAATAAATAATAAATTTCTATAATTGATATTGAAATAGCATGGT
30643595 ATGAGAAATGGAATTGATATAGTGAATTGAAAATAGAATGTGAAATATGTTGTAAATATATGGAA
326 ATGAGAAATGGAATTGATATAGTGAATTGAAAATAGAATGTGAAATATGTTGTAAATATATGGAA
30643660 AATTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAATATAGTATGAAATGATATGCTAT
391 AATTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAATATAGTATGAAATGATATGCTAT
30643725 TATGTATAAATTCAAAGGGTTGACATATGGTAGTAGTGATTTTTAAATATTAATATGTGCTTATA
456 TATGTATAAATTCAAAGGGTTGACATATGGTAGTAGTGATTTTTAAATATTAATATGTGCTTATA
30643790 ATTTTATTATGCATATGATATTATCTTGTCTTTAATATTTAGATTATTGAATTACCACTGAGTTT
521 ATTTTATTATGCATATGATATTATCTTGTCTTTAATATTTAGATTATTGAATTACCACTGAGTTT
30643855 TACTCAGCGTACGATTTTGTTTTCCATGCGCAGGTTAGGTACTTAACTTTTGATTACTGGTTGAG
586 TACTCAGCGTACGATTTTGTTTTCCATGCGCAGGTTAGGTACTTAACTTTTGATTACTGGTTGAG
30643920 CATCCAACAACGATTCCGAACTCAAATGTGATGATGTTTATCTTTTGTGCCGGCATGTAATTAGG
651 CATCCAACAACGATTCCGAACTCAAATGTGATGATGTTTATCTTTTGTGCCGGCATGTAATTAGG
30643985 ATGTCTAAATGATAATTATTTTGCAGATGGATTGTAAATAAGGTTATAAGTGTAATGATGGTTTG
716 ATGTCTAAATGATAATTATTTTGCAGATGGATTGTAAATAAGGTTATAAGTGTAATGATGGTTTG
30644050 GTATATGCATATAAAAATGTGTTTGTGTTTAAAGCCATATTATGGCATGGTAAATTGAACCAAAT
781 GTATATGCATATAAAAATGTGTTTGTGTTTAAAGCCATATTATGGCATGGTAAATTGAACCAAAT
30644115 CTAGATAGGTGCATGTGAATTTAAGTTGACGTTTAAGTGGTCATGAACTAGGCAAAATGAATTAA
846 CTAGATAGGTGCATGTGAATTTAAGTTGACGTTTAAGTGGTCATGAACTAGGCAAAATGAATTAA
30644180 ATTTTATATGTTTATAGTTTGGATTTAAGTGATGCTTTGATGATATGAATTGAGGATATAAATGT
911 ATTTTATATGTTTATAGTTTGGATTTAAGTGATGCTTTGATGATATGAATTGAGGATATAAATGT
30644245 GGTACCAATGA
976 GGTACCAATGA
30644256 A
1 A
30644257 GTACATTGGT
Statistics
Matches: 987, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
986 987 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (986 bp):
ATTTGAAAAGTGAATTGGAACCCTGTTAACTGTATCGGGCTGAGTCGGATATAAATGGCATGCTA
TAGGATAGGAAGAGTTCAGGGATTTCTTTGACTTTGAGTCGATGAGGTATTGGGTGTTAATTTAC
TTTGGTTTAACCGATGAGACACTAGGTGTCAAATTTATATAGCGTTGGGCACATTTATTACTTCA
AGTTTATCCGATGAGGCATTGGGTGCCAAACTGGTGTGTTGGTTGGATCGTGTATCCGACCGAGT
TCGAGTCATGTTAGTAGGGGTAAATAAATAATAAATTTCTATAATTGATATTGAAATAGCATGGT
ATGAGAAATGGAATTGATATAGTGAATTGAAAATAGAATGTGAAATATGTTGTAAATATATGGAA
AATTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAATATAGTATGAAATGATATGCTAT
TATGTATAAATTCAAAGGGTTGACATATGGTAGTAGTGATTTTTAAATATTAATATGTGCTTATA
ATTTTATTATGCATATGATATTATCTTGTCTTTAATATTTAGATTATTGAATTACCACTGAGTTT
TACTCAGCGTACGATTTTGTTTTCCATGCGCAGGTTAGGTACTTAACTTTTGATTACTGGTTGAG
CATCCAACAACGATTCCGAACTCAAATGTGATGATGTTTATCTTTTGTGCCGGCATGTAATTAGG
ATGTCTAAATGATAATTATTTTGCAGATGGATTGTAAATAAGGTTATAAGTGTAATGATGGTTTG
GTATATGCATATAAAAATGTGTTTGTGTTTAAAGCCATATTATGGCATGGTAAATTGAACCAAAT
CTAGATAGGTGCATGTGAATTTAAGTTGACGTTTAAGTGGTCATGAACTAGGCAAAATGAATTAA
ATTTTATATGTTTATAGTTTGGATTTAAGTGATGCTTTGATGATATGAATTGAGGATATAAATGT
GGTACCAATGA
Found at i:30644304 original size:19 final size:21
Alignment explanation
Indices: 30644280--30644322 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30644270 GCACCTAGGA
30644280 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
30644299 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
30644320 TGA
1 TGA
30644323 ACTGGTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:30647428 original size:11 final size:11
Alignment explanation
Indices: 30647412--30647436 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30647402 ACATTTCCAT
30647412 CAACCAACCAC
1 CAACCAACCAC
30647423 CAACCAACCAC
1 CAACCAACCAC
30647434 CAA
1 CAA
30647437 GCATAACTTA
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (11 bp):
CAACCAACCAC
Found at i:30653304 original size:10 final size:10
Alignment explanation
Indices: 30653289--30653317 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
30653279 TGTTTCACTT
30653289 ACTCTCTCAA
1 ACTCTCTCAA
30653299 ACTCTCTCAA
1 ACTCTCTCAA
30653309 A-TCTCTCAA
1 ACTCTCTCAA
30653318 TACCTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (10 bp):
ACTCTCTCAA
Found at i:30662331 original size:21 final size:21
Alignment explanation
Indices: 30662307--30662347 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30662297 ATTGATACTT
30662307 TTTAAAAAGTATCAGTACTCA
1 TTTAAAAAGTATCAGTACTCA
*
30662328 TTTAAAAAGTATCGGTACTC
1 TTTAAAAAGTATCAGTACTC
30662348 GTTGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
TTTAAAAAGTATCAGTACTCA
Found at i:30667794 original size:14 final size:15
Alignment explanation
Indices: 30667777--30667809 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
30667767 ATTTTACATG
30667777 TTTTAT-TTCAAAAT
1 TTTTATATTCAAAAT
30667791 TTTTATATTCAAAAT
1 TTTTATATTCAAAAT
30667806 TTTT
1 TTTT
30667810 CATACTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATATTCAAAAT
Found at i:30676254 original size:24 final size:25
Alignment explanation
Indices: 30676218--30676265 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
30676208 TTTCTTTCCA
30676218 TTTTCTTTCTATT-TCTTTATTATG
1 TTTTCTTTCTATTATCTTTATTATG
30676242 TTTTCATTT-TATTATCTTTATTAT
1 TTTTC-TTTCTATTATCTTTATTAT
30676266 TATCATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTCTTTCTATTATCTTTATTATG
Found at i:30676267 original size:12 final size:12
Alignment explanation
Indices: 30676245--30676279 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
30676235 TATTATGTTT
30676245 TCATT-TTATTA
1 TCATTATTATTA
*
30676256 TCTTTATTATTA
1 TCATTATTATTA
30676268 TCATTATTATTA
1 TCATTATTATTA
30676280 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:30676819 original size:100 final size:103
Alignment explanation
Indices: 30676643--30676841 Score: 296
Period size: 100 Copynumber: 2.0 Consensus size: 103
30676633 CTAATGGTAT
* * * *
30676643 TTCTTATATTTTTAATTAACTTGGAGAAAAGGGGATGAGAGTTTGAGTTGTTCAAGAACTTTTTC
1 TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
* *
30676708 CTTATCTTTTAAGAGAGCTTGAAGTTATTGGAAAGCTA
66 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAGCTA
* * *
30676746 TTCTTATATATTTGATTGACTT-G-GAAAA-GGGAGGAGAGTTTGAGTTGTTAAATAACTTTATC
1 TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
30676808 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAA
66 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAA
30676842 ATTGTTTTCT
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 62 0.71
101 5 0.06
102 1 0.01
103 19 0.22
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (103 bp):
TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAGCTA
Found at i:30679334 original size:33 final size:31
Alignment explanation
Indices: 30679292--30679360 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 31
30679282 TGTTACTATC
30679292 ACTGTAATGGGCTAAGG-CCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCA-ACTGA-ACTGA
30679324 TACTGTAATGGGCTAAGGCCCAACTGAACTGA
1 -ACTGTAATGGGCTAAGGCCCAACTGAACTGA
30679356 ACTGT
1 ACTGT
30679361 TATTGAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 22 0.63
34 3 0.09
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (31 bp):
ACTGTAATGGGCTAAGGCCCAACTGAACTGA
Found at i:30686159 original size:17 final size:17
Alignment explanation
Indices: 30686112--30686160 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
30686102 GGGTCGAAAT
*
30686112 GGGCTGTGTGGGCCCAAC
1 GGGCT-TGTGGACCCAAC
* * *
30686130 GGGTTTATAGACCCAAC
1 GGGCTTGTGGACCCAAC
30686147 GGGCTTGTGGACCC
1 GGGCTTGTGGACCC
30686161 CACACGGGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.16, C:0.27, G:0.37, T:0.20
Consensus pattern (17 bp):
GGGCTTGTGGACCCAAC
Found at i:30686773 original size:32 final size:31
Alignment explanation
Indices: 30686713--30686778 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
30686703 TTACTGTCAT
30686713 TGTAATGGGCTAAGGCCACATGATACTGATAC
1 TGTAATGGGCTAAGGCCACATGATACTGA-AC
30686745 TGTAATGGGCTAAGGCC-CAACTGA-ACTGAAC
1 TGTAATGGGCTAAGGCCAC-A-TGATACTGAAC
30686776 TGT
1 TGT
30686779 TATTGAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 6 0.19
32 23 0.72
33 3 0.09
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (31 bp):
TGTAATGGGCTAAGGCCACATGATACTGAAC
Found at i:30692649 original size:14 final size:14
Alignment explanation
Indices: 30692615--30692647 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30692605 TCAAACAAAC
30692615 AAAAAATTAGAATT
1 AAAAAATTAGAATT
*
30692629 TAAAAATTA-AATT
1 AAAAAATTAGAATT
30692642 AAAAAA
1 AAAAAA
30692648 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAAATTAGAATT
Found at i:30698069 original size:24 final size:24
Alignment explanation
Indices: 30698032--30698104 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
30698022 GAACACACCA
30698032 TAGCTTGTATGAGCTTACCAATTT
1 TAGCTTGTATGAGCTTACCAATTT
30698056 TAGCTTGTGA-GAGCTTACCAATTCT
1 TAGCTTGT-ATGAGCTTACCAATT-T
* * * *
30698081 CAACTCGTATGAGCTTACCGATTT
1 TAGCTTGTATGAGCTTACCAATTT
30698105 CCAGCTCGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 23 0.55
25 19 0.45
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (24 bp):
TAGCTTGTATGAGCTTACCAATTT
Found at i:30698112 original size:25 final size:26
Alignment explanation
Indices: 30698033--30698144 Score: 78
Period size: 25 Copynumber: 4.5 Consensus size: 26
30698023 AACACACCAT
* * *
30698033 AGCTTGTATGAGCTTACCAATTT--T
1 AGCTCGTATGAGCTTACCGATTTCAC
* *
30698057 AGCTTGTGA-GAGCTTACCAATTCTCA-
1 AGCTCGT-ATGAGCTTACCGATT-TCAC
30698083 A-CTCGTATGAGCTTACCGATTTC-C
1 AGCTCGTATGAGCTTACCGATTTCAC
* *
30698107 AGCTCGTGA-GAGCATACCGA-TTCAT
1 AGCTCGT-ATGAGCTTACCGATTTCAC
30698132 AGCTCGTATGAGC
1 AGCTCGTATGAGC
30698145 ATACATGTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
24 28 0.38
25 44 0.59
26 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (26 bp):
AGCTCGTATGAGCTTACCGATTTCAC
Done.