Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
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: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 8 of 17
Found at i:874422 original size:19 final size:19
Alignment explanation
Indices: 874398--874435 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
874388 AATGCCACTA
*
874398 ATAGAGAGTAGGTTCCAAG
1 ATAGAGAGTAGGTGCCAAG
874417 ATAGAGAGTAGGTGCCAAG
1 ATAGAGAGTAGGTGCCAAG
874436 TTTTTGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (19 bp):
ATAGAGAGTAGGTGCCAAG
Found at i:876687 original size:2 final size:2
Alignment explanation
Indices: 876680--876713 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
876670 TGTTACTGTA
876680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
876714 TTATGGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877030 original size:18 final size:18
Alignment explanation
Indices: 877007--877065 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
876997 TTTACTATAC
877007 TAAAATATTATAATAATA
1 TAAAATATTATAATAATA
*
877025 TAAAATATGAT-ATAGATA
1 TAAAATATTATAATA-ATA
*
877043 TAATATATT-TAATAAATA
1 TAAAATATTATAAT-AATA
877061 TAAAA
1 TAAAA
877066 ATAATATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 29 0.85
19 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TAAAATATTATAATAATA
Found at i:877061 original size:47 final size:45
Alignment explanation
Indices: 877009--877116 Score: 110
Period size: 47 Copynumber: 2.3 Consensus size: 45
876999 TACTATACTA
*
877009 AAATATTATAATAATATA-AAATATGATATAGATATAATATATTTAAT
1 AAATATTATAATAATATATAAATATAAT-TA-ATA-AATATATTTAAT
* * *
877056 AAATATAAAAATAATATATTTAAATATAATTAATACATATATTTAAT
1 AAATATTATAATAATATA--TAAATATAATTAATAAATATATTTAAT
877103 ATACATATTATAAT
1 A-A-ATATTATAAT
877117 TACAGTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
47 28 0.56
48 4 0.08
49 10 0.20
50 8 0.16
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (45 bp):
AAATATTATAATAATATATAAATATAATTAATAAATATATTTAAT
Found at i:877099 original size:23 final size:21
Alignment explanation
Indices: 877055--877105 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
877045 ATATATTTAA
877055 TAAATATAAAAATAATATATT
1 TAAATATAAAAATAATATATT
*
877076 TAAATATAATTAATACATATATT
1 TAAATATAA-AAATA-ATATATT
877099 T-AATATA
1 TAAATATA
877106 CATATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
23 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATAAAAATAATATATT
Found at i:877714 original size:15 final size:15
Alignment explanation
Indices: 877696--877796 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 15
877686 AATTTATATA
877696 ATATAAATTATTAA-T
1 ATATAAA-TATTAATT
877711 ATATTAAA-ATTAATT
1 ATA-TAAATATTAATT
* *
877726 ATATAAATATAAAAT
1 ATATAAATATTAATT
*
877741 -TATAAATA-AAATT
1 ATATAAATATTAATT
877754 ATATATGAATA-TAA-T
1 ATATA--AATATTAATT
*
877769 AT-TAAAATATAAATT
1 ATAT-AAATATTAATT
*
877784 ATA-AAATTTTAAT
1 ATATAAATATTAAT
877797 AATTGTTTAG
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
13 8 0.12
14 32 0.46
15 19 0.28
16 10 0.14
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (15 bp):
ATATAAATATTAATT
Found at i:877718 original size:32 final size:33
Alignment explanation
Indices: 877676--877772 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 33
877666 TAAATATAAA
*
877676 AATATCTTAAAATTTATAT-AATATAAATTATT
1 AATATATTAAAATTTATATAAATATAAATTATT
877708 AATATATTAAAATTAATTATATAAATATAAA--ATT
1 AATATATTAAAA-T--TTATATAAATATAAATTATT
* *
877742 -ATA-AATAAAATTATATATGAATATAATATTA
1 AATATATTAAAATT-TATATAAATATAA-ATTA
877773 AAATATAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
29 1 0.02
30 12 0.22
31 2 0.04
32 17 0.31
33 5 0.09
34 3 0.06
35 6 0.11
36 8 0.15
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
AATATATTAAAATTTATATAAATATAAATTATT
Found at i:877727 original size:21 final size:20
Alignment explanation
Indices: 877689--877742 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 20
877679 ATCTTAAAAT
877689 TTATAT-AATAT-AAATT-A
1 TTATATAAATATAAAATTAA
*
877706 TTA-ATATAT-TAAAATTAA
1 TTATATAAATATAAAATTAA
877724 TTATATAAATATAAAATTA
1 TTATATAAATATAAAATTA
877743 TAAATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 3 0.10
17 10 0.33
18 4 0.13
19 5 0.17
20 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATATAAATATAAAATTAA
Found at i:877759 original size:30 final size:30
Alignment explanation
Indices: 877665--877786 Score: 99
Period size: 30 Copynumber: 4.0 Consensus size: 30
877655 ATATAAATAA
* **
877665 ATAAATATAAAAATAT-CTTAAAATT-TAT
1 ATAAATATAAAATTATAAATAAAATTATAT
*
877693 AT-AATATAAATTATTAATATATTAAAATTAATTAT
1 ATAAATATAAA--ATT-ATA-AATAAAATT-A-TAT
877728 ATAAATATAAAATTATAAATAAAATTATAT
1 ATAAATATAAAATTATAAATAAAATTATAT
* *
877758 ATGAATATAATATTA-AAATATAAATTATA
1 ATAAATATAAAATTATAAATA-AAATTATA
877787 AAATTTTAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
27 8 0.10
28 2 0.03
29 7 0.09
30 26 0.33
31 1 0.01
32 16 0.20
33 3 0.04
34 3 0.04
35 5 0.06
36 8 0.10
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
ATAAATATAAAATTATAAATAAAATTATAT
Found at i:877977 original size:2 final size:2
Alignment explanation
Indices: 877970--878016 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
877960 AGCTAGTTGT
877970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
878012 TA TA T
1 TA TA T
878017 TCCAATTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:878238 original size:13 final size:12
Alignment explanation
Indices: 878204--878242 Score: 62
Period size: 11 Copynumber: 3.2 Consensus size: 12
878194 CAATATATTT
878204 TATTTTTAAAT-
1 TATTTTTAAATA
878215 TATTTTTAAATA
1 TATTTTTAAATA
878227 TATTTTTAAAATA
1 TATTTTT-AAATA
878240 TAT
1 TAT
878243 CCCACATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.42
12 7 0.27
13 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:879749 original size:2 final size:2
Alignment explanation
Indices: 879742--879790 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
879732 ACTACATTGA
879742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
879784 AT AT AT A
1 AT AT AT A
879791 GAGAGAGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:879795 original size:2 final size:2
Alignment explanation
Indices: 879790--879826 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
879780 ATATATATAT
879790 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
879827 TGATAGTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:881552 original size:15 final size:14
Alignment explanation
Indices: 881505--881551 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
881495 TTTAAATAAT
881505 TTATTAAATT-AAA
1 TTATTAAATTAAAA
*
881518 TT-TTAAATAAAAA
1 TTATTAAATTAAAA
*
881531 TTTTTATAATTAAAA
1 TTATTA-AATTAAAA
881546 TTATTA
1 TTATTA
881552 TTTAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 6 0.21
13 7 0.25
14 3 0.11
15 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTATTAAATTAAAA
Found at i:883171 original size:28 final size:26
Alignment explanation
Indices: 883112--883172 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
883102 ATTTAATTTA
883112 AATTA-TTATTTTAATAATAAAAAAT
1 AATTATTTATTTTAATAATAAAAAAT
* *
883137 AATTTATTTAATTTTAATTATAAATATAT
1 AA-TTATTT-ATTTTAATAATAAA-AAAT
883166 AATTATT
1 AATTATT
883173 AATATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.07
26 3 0.10
27 2 0.07
28 18 0.60
29 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AATTATTTATTTTAATAATAAAAAAT
Found at i:883612 original size:16 final size:16
Alignment explanation
Indices: 883591--883621 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
883581 CTGAAATCAG
*
883591 TTATTTTAATTTTAAA
1 TTATTTTAAATTTAAA
883607 TTATTTTAAATTTAA
1 TTATTTTAAATTTAA
883622 TTTTATTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTTAAATTTAAA
Found at i:886452 original size:20 final size:20
Alignment explanation
Indices: 886406--886478 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
886396 TTTTACCTAG
* **
886406 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCATCA
*
886426 A--TATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCATCA
* *
886444 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTCATCA
886464 ATGTATCGATACATT
1 ATGTATCGATACATT
886479 ATATCTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.31
19 2 0.05
20 27 0.64
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCATCA
Found at i:893861 original size:12 final size:12
Alignment explanation
Indices: 893835--893874 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
893825 CTTACCTCCT
893835 AAAAAAA-G-AA
1 AAAAAAACGAAA
893845 AAAAAAAC-AAA
1 AAAAAAACGAAA
*
893856 ACAAAAACGAAA
1 AAAAAAACGAAA
893868 AAAAAAA
1 AAAAAAA
893875 AACCTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 7 0.28
11 9 0.36
12 9 0.36
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAACGAAA
Found at i:895093 original size:82 final size:83
Alignment explanation
Indices: 894920--896031 Score: 1024
Period size: 82 Copynumber: 13.2 Consensus size: 83
894910 GTGGCATTTT
* * *
894920 CTTTTAAAGTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAG
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTAAAG
*
894985 TCCACAACTCTGTGGCACC
65 TCCACAACTCCGTGGCACC
* * * * *
895004 CTTTTAAAGTCCACAATTCCGTAGCATCATTTT-AAGTCCACAACTCCGTGGTACCCTTTAAAGT
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGT
*
895068 CCATAACTCCGTGGCACC
66 CCACAACTCCGTGGCACC
* *
895086 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTTCGTGGCACCCTTTTAAAG
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTAAAG
*
895151 TCCACAACTCCGTGGCATC
65 TCCACAACTCCGTGGCACC
* * * * *
895170 ATTTT-ATGTCCATAACTCCGTGGTACCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAA
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTAAAG
*
895233 TCCACAACTCCGTGGCATC
65 TCCACAACTCCGTGGCACC
*
895252 GTTTT-AAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAG
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTAAAG
*
895315 TCCACAACTACGTGGCACC
65 TCCACAACTCCGTGGCACC
* * *
895334 CTTTTAAAGTCCACAA-TCTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAG
1 CTTTTAAAGTCCACAACTC-CGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAG
* *
895398 TCCACAACTTCGTGGTACC
65 TCCACAACTCCGTGGCACC
* * * *
895417 C-TTTGAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGT
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGT
*
895481 CCACAACTCCGTGGTACC
66 CCACAACTCCGTGGCACC
* * * *
895499 C-TTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGC
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGT
* * *
895563 CCACAACTTCTTGGCATC
66 CCACAACTCCGTGGCACC
* * * * * * *
895581 CTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAG-TC-CACAACTCCGTGGC-ACCC-TTT-
* * *
895646 AAAGCCCACACAAGT-CGGGGCAACC
61 AAAG-TC-CACAACTCCGTGGC-ACC
* * ** * * * *
895671 CATTTGAAAGCCCAC-AC-AAGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTAA
1 C-TTTTAAAGTCCACAACTCCGTGGC-ACCC-TTTTAAAGTCCACAACTCCGTGGCACCCTTT-A
* * *
895734 AAGCCCACAAGTCAGTGGCACC
62 AAGTCCACAACTCCGTGGCACC
* * * * * * *
895756 CTTTTAAAGCCCACGAGTCGGTGGCAACTCTTTTAAAG-CCTACAAGTCAGTGGCACCCTTTCAA
1 CTTTTAAAGTCCACAACTCCGTGGC-ACCCTTTTAAAGTCC-ACAACTCCGTGGCACCCTTT-AA
* * *
895820 AGCCCACAAGTCAGTGGCACCC
63 AGTCCACAACTCCGTGGCA-CC
* * * * * * ** *
895842 CTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACTCTTTTCA
1 CTTTTAAAGTCCA--CAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCAC-CCTTT-A
* ** *
895907 AAGTCCATAAGACAGTGGCACCC
62 AAGTCCACAACTCCGTGGCA-CC
* * * * * * * * *
895930 CTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTTAAAGCCCGCAAGTCAGTGGCACTCTTTTCAA
1 CTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCAC-CCTTT-AA
* * *
895995 AGCCCACAAGTCAGTGGCACC
63 AGTCCACAACTCCGTGGCACC
*
896016 CTTTTAAAGCCCACAA
1 CTTTTAAAGTCCACAA
896032 GCCAGTGGTA
Statistics
Matches: 907, Mismatches: 93, Indels: 54
0.86 0.09 0.05
Matches are distributed among these distances:
82 335 0.37
83 136 0.15
84 99 0.11
85 71 0.08
86 63 0.07
87 87 0.10
88 58 0.06
89 24 0.03
90 16 0.02
91 18 0.02
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (83 bp):
CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGT
CCACAACTCCGTGGCACC
Found at i:895304 original size:220 final size:220
Alignment explanation
Indices: 894920--895615 Score: 1106
Period size: 220 Copynumber: 3.2 Consensus size: 220
894910 GTGGCATTTT
* * *
894920 CTTTTAAAGTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAG
1 CTTTTAAAGTCCACAACTCCGTGGCATCATTTT-AAGTCCACAACTCCGTGGTA-CCCTTTAAAG
* * *
894985 TCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCGTAGCATCATTTTAAGTCCACAACTC
64 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTC
*
895050 CGTGGTACCCTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
129 CGTGGTACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
895115 TTTTAAAGTCCACAATTTCGTGGCACC
194 TTTTAAAGTCCACAATTTCGTGGCACC
* *
895142 CTTTTAAAGTCCACAACTCCGTGGCATCATTTTATGTCCATAACTCCGTGGTACCCTTTAAAGTC
1 CTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTC
* *
895207 CACAACTCCGTGGCACCCTTTTAAAATCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCG
66 CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCG
* *
895272 TGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTACGTGGCACCCTT
131 TGGTACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTT
*
895337 TTAAAGTCCACAATCTCGTGGCACC
196 TTAAAGTCCACAATTTCGTGGCACC
* * *
895362 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTTCGTGGTACCCTTTGAAGTC
1 CTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTC
895427 CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCG
66 CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCG
* *
895492 TGGTACCCTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCTT
131 TGGTACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTT
* * * *
895557 TT-AAGCCCACAACTTCTTGGCATC
196 TTAAAGTCCACAATTTCGTGGCACC
* * * * * *
895581 CTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAA
1 CTTTTAAAGTCCACAACTCCGTGGCATCATTTTAA
895616 AGCCCACACA
Statistics
Matches: 438, Mismatches: 36, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
219 46 0.11
220 343 0.78
221 17 0.04
222 32 0.07
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (220 bp):
CTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTC
CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCATTTTAAGTCCACAACTCCG
TGGTACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTT
TTAAAGTCCACAATTTCGTGGCACC
Found at i:895953 original size:58 final size:57
Alignment explanation
Indices: 894920--896039 Score: 690
Period size: 55 Copynumber: 19.9 Consensus size: 57
894910 GTGGCATTTT
* * * * * * * * * *
894920 CTTTTAAAGTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACTCCGTGGCA-TC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * * * * *
894976 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAATTCCGTAGCA-TC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * * * * * *
895032 ATTT-TAAGTCCACAACTCCGTGGTACCC-TTTAAAGTCCATAACTCCGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
895086 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTTC-GTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAA-GTCAGTGGCACCC
* * * * * * * * * * * *
895142 CTTTTAAAGTCCACAACTCCGTGGCATCATTTT-ATGTCCATAACTCCGTGGTA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * ** * * *
895197 CTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAATCCACAACTCCGTGGCA-TC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * * * *
895252 GTTT-TAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCCGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
895306 CTTTTAAAGTCCACAACT-ACGTGGCACCCTTTTAAAGTCCACAA-TCTCGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCA-GTGGCACCCTTTTAAAGCCCACAAGTC-AGTGGCACCC
* * * * * * * * *
895362 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTT-AAGTCCACAACTTC-GTGGTA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAA-GTCAGTGGCACCC
* * * * * * * *
895417 CTTT-GAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-TC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * * * * *
895472 ATTT-TAAGTCCACAACTCCGTGGTACCC-TTTAAAGTCCACAACTCTGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
895526 CTTTTAAAGCCCACAACTCCGTGGCACCCTTTT-AAGCCCACAACTTC-TTGGCA-TC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAA-GTCAGTGGCACCC
** *
895581 CTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG-CC-CACAAGTCAGTGGC-ACCC
* * *
895641 ATTTCAAAGCCCACACAAGTC-GGGGCAACCCATTTGAAAGCCCAC-A--CAAGTGGCAACCC
1 CTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTTAAAGCCCACAAGTC-AGTGGC-ACCC
* * *
895700 ATTTCAAAGCCCACAAATCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
895756 CTTTTAAAGCCCACGAGTCGGTGGCAACTCTTTTAAAGCCTACAAGTCAGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
*
895813 CTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACGCAAGTCAGTGGCA-CC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTTAAAGCCCA--CAAGTCAGTGGCACCC
* * * * * *
895872 CTTTTAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGTCCATAAGACAGTGGCACCC
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
895930 CTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTTAAAGCCCGCAAGTCAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* *
895988 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGCCAGTGG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGG
896040 TAACTCTTTT
Statistics
Matches: 917, Mismatches: 108, Indels: 77
0.83 0.10 0.07
Matches are distributed among these distances:
54 134 0.15
55 256 0.28
56 201 0.22
57 118 0.13
58 97 0.11
59 73 0.08
60 8 0.01
61 9 0.01
62 14 0.02
63 7 0.01
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (57 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
Found at i:896039 original size:28 final size:28
Alignment explanation
Indices: 894888--896031 Score: 1078
Period size: 28 Copynumber: 40.6 Consensus size: 28
894878 AGTACTGTGA
* * *
894888 CCTTTTCAAAGTCCACGACTCAGTGGCATTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCA--C
* *
894919 TCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
894947 CTTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
894975 CCTTTTAAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
895003 CCTTTTAAAGTCCACAATTCCGTAGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
895031 CATTTT-AAGTCCACAACTCCGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895058 CC-TTTAAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
895085 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
895113 CCTTTTAAAGTCCACAATTTCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895141 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
895169 CATTTT-ATGTCCATAACTCCGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
895196 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
895223 CCTTTTAAAATCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895251 CGTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
895278 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895305 CCTTTTAAAGTCCACAACTACGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
895333 CCTTTTAAAGTCCACAA-TCTCGTGGCAC
1 CCTTTTAAAGTCCACAACTC-CGTGGCAC
*
895361 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
895389 CGTTTT-AAGTCCACAACTTCGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895416 CC-TTTGAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895443 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
895471 CATTTT-AAGTCCACAACTCCGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895498 CC-TTTAAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
895525 CCTTTTAAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
895553 CCTTTT-AAGCCCACAACTTCTTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
895580 CCTTTTTAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
895608 CCTTTTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTTAAAG-TC-CACAACTCCGTGGC-AC
* * * *
895639 CCATTTCAAAGCCCACACAAGT-CGGGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCCGTGGC-AC
* * **
895670 CCATTTGAAAGCCCAC-AC-AAGTGGCAAC
1 CC-TTTTAAAGTCCACAACTCCGTGGC-AC
* * * *
895698 CCATTTCAAAGCCCACAAATCAGTGGCAC
1 CC-TTTTAAAGTCCACAACTCCGTGGCAC
* * * *
895727 CCTTTAAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
895755 CCTTTTAAAGCCCACGAGTCGGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGC-AC
* * *
895784 TCTTTTAAAG-CCTACAAGTCAGTGGCAC
1 CCTTTTAAAGTCC-ACAACTCCGTGGCAC
* * * *
895812 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTTAAAGTCCACAACTCCGTGGCA-C
* * * *
895841 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC
1 CCTTTTAAAGTCCA--CAACTCCGTGGCAC
* * **
895871 CCTTTTAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * ** *
895899 TCTTTTCAAAGTCCATAAGACAGTGGCACC
1 CCTTTT-AAAGTCCACAACTCCGTGGCA-C
* * * *
895929 CCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CCTTTTAAAGTCCACAACTCCGTGGCA-C
* * * *
895958 CCTTTTAAAGCCCGCAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
895986 TCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
*
896015 CCTTTTAAAGCCCACAA
1 CCTTTTAAAGTCCACAA
896032 GCCAGTGGTA
Statistics
Matches: 976, Mismatches: 108, Indels: 61
0.85 0.09 0.05
Matches are distributed among these distances:
26 15 0.02
27 226 0.23
28 480 0.49
29 139 0.14
30 59 0.06
31 39 0.04
32 18 0.02
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (28 bp):
CCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:896701 original size:20 final size:19
Alignment explanation
Indices: 896676--896730 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
896666 TACCCAGATA
896676 TATCGATACATGTATGAATG
1 TATCGATACAT-TATGAATG
* * *
896696 TATCGATATATTCTTCAATG
1 TATCGATACATT-ATGAATG
896716 TATCGATACATTATG
1 TATCGATACATTATG
896731 TCTTTTTACC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (19 bp):
TATCGATACATTATGAATG
Found at i:903191 original size:3 final size:3
Alignment explanation
Indices: 903183--903208 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
903173 ACATGATGTT
903183 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
903209 TATTATTATT
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:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:904771 original size:20 final size:21
Alignment explanation
Indices: 904741--904779 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
904731 TACTACCAAG
904741 GAAATGTATCGATACATTAAT
1 GAAATGTATCGATACATTAAT
904762 GAAA-GTATCGATACATTA
1 GAAATGTATCGATACATTA
904780 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (21 bp):
GAAATGTATCGATACATTAAT
Found at i:904785 original size:13 final size:13
Alignment explanation
Indices: 904767--904793 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
904757 TTAATGAAAG
904767 TATCGATACATTA
1 TATCGATACATTA
904780 TATCGATACATTA
1 TATCGATACATTA
904793 T
1 T
904794 CATTGTATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:904789 original size:33 final size:32
Alignment explanation
Indices: 904747--904809 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
904737 CAAGGAAATG
*
904747 TATCGATACATTAATGAAAGTATCGATACATTA
1 TATCGATACATT-ATCAAAGTATCGATACATTA
**
904780 TATCGATACATTATCATTGTATCGATACAT
1 TATCGATACATTATCAAAGTATCGATACAT
904810 CTGGGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (32 bp):
TATCGATACATTATCAAAGTATCGATACATTA
Found at i:918665 original size:31 final size:30
Alignment explanation
Indices: 918630--918693 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
918620 TGTCCTCTGT
*
918630 AAAACAAAAAAAATACAAAAAAAAAAACAGA
1 AAAACAAAAAAAAAACAAAAAAAAAAACA-A
* *
918661 AAAACAAAAAAAAAATAAAAAAAACAACAA
1 AAAACAAAAAAAAAACAAAAAAAAAAACAA
918691 AAA
1 AAA
918694 GGGTTCGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.03
Consensus pattern (30 bp):
AAAACAAAAAAAAAACAAAAAAAAAAACAA
Found at i:918667 original size:20 final size:20
Alignment explanation
Indices: 918636--918693 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
918626 CTGTAAAACA
918636 AAAAAAATACAAAAAAAAAA-
1 AAAAAAA-ACAAAAAAAAAAT
*
918656 ACAGAAAAACAAAAAAAAAAT
1 A-AAAAAAACAAAAAAAAAAT
918677 AAAAAAAACAACAAAAA
1 AAAAAAAACAA-AAAAA
918694 GGGTTCGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.03
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAAAAT
Found at i:920279 original size:62 final size:62
Alignment explanation
Indices: 920182--920395 Score: 230
Period size: 62 Copynumber: 3.6 Consensus size: 62
920172 GCACCCTTTT
* * * * *
920182 AAGTCCACGACTCCATAGCACCTTTTTAAGTCCACAACTCCGTGGTACCTTTTTCTTTTCAA
1 AAGTCCACGACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA
* *
920244 AAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACC-----CTTTT---
1 AAGTCCACGACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA
* * * *
920298 AAGTCCATGACTGCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTCCAA
1 AAGTCCACGACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA
* * *
920360 AAGTTCACGAC-TCTGTGGCACCGTTTTAAGCCCACA
1 AAGTCCACGACTTC-GTGGCACCCTTTTAAGTCCACA
920396 CAAGTTGGTG
Statistics
Matches: 125, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
54 44 0.35
57 5 0.04
59 4 0.03
61 1 0.01
62 71 0.57
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (62 bp):
AAGTCCACGACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA
Found at i:920315 original size:89 final size:89
Alignment explanation
Indices: 920157--920324 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
920147 ACCCTTTTAC
* *
920157 GTCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCATAGCACCTTTTTAAGTCCACAACTC
1 GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCCTTTTAAGTCCACAACTC
* *
920222 CGTGGTACCTTTTTCTTTTCAAAA
66 CGTGGCACCCTTTTCTTTTCAAAA
* * * * ** *
920246 GTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATGACTG
1 GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCCTTTTAAGTCCACAACTC
920311 CGTGGCACCCTTTT
66 CGTGGCACCCTTTT
920325 AAGTCCACAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (89 bp):
GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCCTTTTAAGTCCACAACTC
CGTGGCACCCTTTTCTTTTCAAAA
Found at i:920332 original size:116 final size:116
Alignment explanation
Indices: 920128--920395 Score: 385
Period size: 116 Copynumber: 2.3 Consensus size: 116
920118 TTACCCTTTT
* *
920128 AAGTCCACAACTCTATGGCACCCTTTTACGTCCACAACTCCGTGGCACCCTTTTAAGTCCACGAC
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACGAC
* * * *
920193 TCCATAGCACCTTTTTAAGTCCACAACTCCGTGGTACCTTTTTCTTTTCAA
66 TCCATAGCACCCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTCCAA
* *
920244 AAGTCCACAACT-TCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATGA
1 AAGTCCACAACTCT-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACGA
* * *
920308 CTGCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTCCAA
65 CTCCATAGCACCCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTCCAA
* * * *
920360 AAGTTCACGACTCTGTGGCACCGTTTTAAGCCCACA
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACA
920396 CAAGTTGGTG
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
115 1 0.01
116 133 0.99
117 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (116 bp):
AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACGAC
TCCATAGCACCCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTCCAA
Found at i:920351 original size:27 final size:27
Alignment explanation
Indices: 920120--920345 Score: 263
Period size: 27 Copynumber: 8.1 Consensus size: 27
920110 GACACTCCTT
**
920120 ACCCTTTTAAGTCCACAACTCTATGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
920147 ACCCTTTTACGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
* * *
920174 ACCCTTTTAAGTCCACGACTCCATAGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
* *
920201 ACCTTTTTAAGTCCACAACTCCGTGGT
1 ACCCTTTTAAGTCCACAACTCCGTGGC
*
920228 ACCTTTTTCTTTTCAAAAGTCCACAACTTCGTGGC
1 ACC-----CTTTT---AAGTCCACAACTCCGTGGC
*
920263 ACCCTTTTAAGTCCACAACTTCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
** *
920290 ACCCTTTTAAGTCCATGACTGCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
920317 ACCCTTTTAAGTCCACAACTCCGTGGC
1 ACCCTTTTAAGTCCACAACTCCGTGGC
920344 AC
1 AC
920346 ATTTTTCTTT
Statistics
Matches: 170, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
27 141 0.83
30 5 0.03
32 4 0.02
35 20 0.12
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.30
Consensus pattern (27 bp):
ACCCTTTTAAGTCCACAACTCCGTGGC
Found at i:920425 original size:33 final size:33
Alignment explanation
Indices: 920387--920474 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
920377 GCACCGTTTT
*
920387 AAGCCCACACAAGTTGGTGGCAACCCTTTCTCA
1 AAGCCCACACAAGTTGGTGGCAACCCTTGCTCA
* *
920420 AAGCCCATACAAGTTGGTGGCAACCCTTGCTCT
1 AAGCCCACACAAGTTGGTGGCAACCCTTGCTCA
* *
920453 AAGCCCACATAAGTCGGTGGCA
1 AAGCCCACACAAGTTGGTGGCA
920475 TCTACTTCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (33 bp):
AAGCCCACACAAGTTGGTGGCAACCCTTGCTCA
Found at i:920649 original size:52 final size:52
Alignment explanation
Indices: 920482--920730 Score: 191
Period size: 52 Copynumber: 4.8 Consensus size: 52
920472 GCATCTACTT
* * * * * *
920482 CTAAGCCCAATGTTGTTGGCCTTGAATTAGCACATTGGCACCTT-TT-TCTTTC
1 CTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA--TTCTTCACATTC
* * * * * ** **
920534 TTCAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTGTCA-TC
1 CT-AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCACATTC
* * ** *
920586 TTTAAGTCCAATACCGTTGGCCTTGAATCAGCATATTGGCA-TCTTCAACATTC
1 -CTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTC-ACATTC
* * * *
920639 CTAGGCCCAATGTCGCTGGCCTTGAATTAGCATATTGGCATTCTTCTCATTT
1 CTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCACATTC
* *
920691 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
1 CTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
920731 CAAGCCCAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
51 3 0.02
52 112 0.71
53 43 0.27
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (52 bp):
CTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCACATTC
Found at i:920676 original size:104 final size:104
Alignment explanation
Indices: 920541--920730 Score: 281
Period size: 104 Copynumber: 1.8 Consensus size: 104
920531 TTCTTCAAGT
* *
920541 CCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTGTCATCTTTAAGTCCAATACCGTTGG
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTCTCATCTTTAAGTCCAATACCGCTGG
920606 CCTTGAATCAGCATATTGGCATCTTCAACATTCCTAGGC
66 CCTTGAATCAGCATATTGGCATCTTCAACATTCCTAGGC
* * * * ** * **
920645 CCAATGTCGCTGGCCTTGAATTAGCATATTGGCATTCTTCTCATTTTTAAGTCCAATGTCGCTGG
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTCTCATCTTTAAGTCCAATACCGCTGG
920710 CCTTGAATCAGCATATTGGCA
66 CCTTGAATCAGCATATTGGCA
920731 CAAGCCCAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
104 75 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (104 bp):
CCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTCTCATCTTTAAGTCCAATACCGCTGG
CCTTGAATCAGCATATTGGCATCTTCAACATTCCTAGGC
Found at i:920809 original size:88 final size:90
Alignment explanation
Indices: 920643--920819 Score: 268
Period size: 88 Copynumber: 2.0 Consensus size: 90
920633 ACATTCCTAG
* * *
920643 GCCCAATGTCGCTGGCCTTGAATTAGCATATTGGCATTCTTCTCATTTTTAAGTCCAATGTCGCT
1 GCCCAATGTCGCTGGCCTTGAATCAACATATTGGCA-TCCTCTCATTTTTAAGTCCAATGTCGCT
*
920708 GGCCTTGAATCAGCATATTGGCACAA
65 GGCCTTGAATCAGCACATTGGCACAA
* *
920734 GCCCAATGTCGTTGGCCTTGAATCAACATATTGGCA-CCT-TCATTTTTAAGTCCAATGTTGCTG
1 GCCCAATGTCGCTGGCCTTGAATCAACATATTGGCATCCTCTCATTTTTAAGTCCAATGTCGCTG
*
920797 GCCTTGACTCAGCACATTGGCAC
66 GCCTTGAATCAGCACATTGGCAC
920820 CCATGTCATT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
88 44 0.56
89 2 0.03
91 33 0.42
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (90 bp):
GCCCAATGTCGCTGGCCTTGAATCAACATATTGGCATCCTCTCATTTTTAAGTCCAATGTCGCTG
GCCTTGAATCAGCACATTGGCACAA
Found at i:920848 original size:140 final size:141
Alignment explanation
Indices: 920600--920870 Score: 355
Period size: 140 Copynumber: 1.9 Consensus size: 141
920590 AGTCCAATAC
* * *
920600 CGTTGGCCTTGAATCAGCATATTGGCATCTTCAACATTCCTAGGCCCAATGTCGCTGGCCTTGAA
1 CGTTGGCCTTGAATCAACATATTGGCACCTT--ACATTCCTAAGCCCAATGTCGCTGGCCTTGAA
* * ** * ** *
920665 TTAGCATATTGGCATTCTTCTCATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGC
64 TCAGCACATTGGCACCCATCTCATTTTTAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGC
920730 ACAAGCCCAATGT
129 ACAAGCCCAATGT
** * * *
920743 CGTTGGCCTTGAATCAACATATTGGCACCTT-CATTTTTAAGTCCAATGTTGCTGGCCTTGACTC
1 CGTTGGCCTTGAATCAACATATTGGCACCTTACATTCCTAAGCCCAATGTCGCTGGCCTTGAATC
* *
920807 AGCACATTGGCACCCATGTCATTTTTAAACCCAATATCGCTGGCCTTGAATTAGCATATTGGCA
66 AGCACATTGGCACCCATCTCATTTTTAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
920871 TCGTTAACAT
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
140 81 0.74
143 29 0.26
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (141 bp):
CGTTGGCCTTGAATCAACATATTGGCACCTTACATTCCTAAGCCCAATGTCGCTGGCCTTGAATC
AGCACATTGGCACCCATCTCATTTTTAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
AAGCCCAATGT
Found at i:920849 original size:52 final size:49
Alignment explanation
Indices: 920735--921030 Score: 180
Period size: 52 Copynumber: 5.8 Consensus size: 49
920725 TTGGCACAAG
* * *
920735 CCCAATGTCGTTGGCCTTGAATCAACATATTGGCACCTTCATTTTTAAG
1 CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTTTAAA
* * * *
920784 TCCAATGTTGCTGGCCTTGACTCAGCACATTGGCACCCATGTCATTTTTAAA
1 CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CC-T-TCATTTTTAAA
* * * ** **
920836 CCCAATATCGCTGGCCTTGAATTAGCATATTGGCATCGTTAACATTCCTAGG
1 CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CATTTTTAAA
** * * * *
920888 CCCAATGTCATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGA
1 CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA--CCT-TCATTTTTAA-A
* * * * * * * *
920941 -CTAATGTCGCTTGCCGTGAATCAGCACATTGACATTCTTCGCATCTTTAAG
1 CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CATTTTTAAA
* * * *
920992 CCCAATATCGTTAGCCTTGAATCAGCATGTTGGCACCTT
1 CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
921031 TATCATTCTT
Statistics
Matches: 186, Mismatches: 50, Indels: 20
0.73 0.20 0.08
Matches are distributed among these distances:
49 29 0.16
50 4 0.02
51 7 0.04
52 142 0.76
53 3 0.02
54 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTTTAAA
Found at i:920871 original size:192 final size:195
Alignment explanation
Indices: 920536--920922 Score: 462
Period size: 192 Copynumber: 2.0 Consensus size: 195
920526 TTTCTTTCTT
*
920536 CAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTGTCATCTTTAAGTCCAATACC
1 CAAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTGTCATCTTTAAGTCCAATACC
* * * ** *
920601 GTTGGCCTTGAATCAGCATATTGGCATCTTCAACATTCCTAGGCCCAATGTCGCTGGCCTTGAAT
66 GCTGGCCTTGAATCAGCACATTGGCATCTCCAACATTCCTAAACCCAATATCGCTGGCCTTGAAT
** ** * * *
920666 TAGCATATTGGCATTC-TTCTCATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGC
131 TAGCATATTGGCA-TCGTTAACATTCCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGC
920730 A
195 A
** * * ***
920731 CAAGCCCAATGTCGTTGGCCTTGAATCAACATATTGGCA-CC-T-TCATTTTTAAGTCCAATGTT
1 CAAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTGTCATCTTTAAGTCCAATACC
* * **
920793 GCTGGCCTTGACTCAGCACATTGGCA-C-CCATGTCATTTTTAAACCCAATATCGCTGGCCTTGA
66 GCTGGCCTTGAATCAGCACATTGGCATCTCCA--ACATTCCTAAACCCAATATCGCTGGCCTTGA
* *
920856 ATTAGCATATTGGCATCGTTAACATTCCTAGGCCCAATGTCATTGGCCTTGAATCAGCACATTGG
129 ATTAGCATATTGGCATCGTTAACATTCCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGG
920921 CA
194 CA
920923 TTCTTCTCAT
Statistics
Matches: 162, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
190 2 0.01
191 3 0.02
192 119 0.73
193 1 0.01
194 2 0.01
195 35 0.22
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (195 bp):
CAAGCCCAATGTCACTGGCCTTGAATCAACACATTGGCACCCTTGTCATCTTTAAGTCCAATACC
GCTGGCCTTGAATCAGCACATTGGCATCTCCAACATTCCTAAACCCAATATCGCTGGCCTTGAAT
TAGCATATTGGCATCGTTAACATTCCTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCA
Found at i:920922 original size:244 final size:246
Alignment explanation
Indices: 920484--920971 Score: 678
Period size: 244 Copynumber: 2.0 Consensus size: 246
920474 ATCTACTTCT
* * *
920484 AAGCCCAATGTTGTTGGCCTTGAATTAGCACATTGGCACCTTTTTCTTTCTTCAAGTCCAATGTC
1 AAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACC--TTTCTTTCTTCAAGTCCAATGTC
* ** *
920549 ACTGGCCTTGAATCAACACATTGGCACCCTTGTCATCTTTAAGTCCAATACCGTTGGCCTTGAAT
64 ACTGGCCTTGAATCAACACATTGGCACCCATGTCATCTTTAAACCCAATACCGCTGGCCTTGAAT
* * *
920614 CAGCATATTGGCATCTTCAACATTCCTAGGCCCAATGTCGCTGGCCTTGAATTAGCATATTGGCA
129 CAGCATATTGGCATCTTCAACATTCCTAGGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCA
* * * * *
920679 TTCTTCTCATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
194 TTCTTCTCATCTTCAAGACCAATGTCGCTGGCCGTGAATCAGCACATTGGCAC
* **
920732 AAGCCCAATGTCGTTGGCCTTGAATCAACATATTGGCACC-TTCATTT-TT-AAGTCCAATGTTG
1 AAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTC-TTTCTTCAAGTCCAATGTCA
* * * * *
920794 CTGGCCTTGACTCAGCACATTGGCACCCATGTCATTTTTAAACCCAATATCGCTGGCCTTGAATT
65 CTGGCCTTGAATCAACACATTGGCACCCATGTCATCTTTAAACCCAATACCGCTGGCCTTGAATC
*
920859 AGCATATTGGCATCGTT-AACATTCCTAGGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCA
130 AGCATATTGGCATC-TTCAACATTCCTAGGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCA
* *
920923 TTCTTCTCATCTTCAAGACTAATGTCGCTTGCCGTGAATCAGCACATTG
194 TTCTTCTCATCTTCAAGACCAATGTCGCTGGCCGTGAATCAGCACATTG
920972 ACATTCTTCG
Statistics
Matches: 212, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
244 166 0.78
245 7 0.03
246 3 0.01
248 36 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (246 bp):
AAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTCTTTCTTCAAGTCCAATGTCAC
TGGCCTTGAATCAACACATTGGCACCCATGTCATCTTTAAACCCAATACCGCTGGCCTTGAATCA
GCATATTGGCATCTTCAACATTCCTAGGCCCAATGTCACTGGCCTTGAATCAGCACATTGGCATT
CTTCTCATCTTCAAGACCAATGTCGCTGGCCGTGAATCAGCACATTGGCAC
Found at i:921019 original size:156 final size:153
Alignment explanation
Indices: 920734--921026 Score: 345
Period size: 156 Copynumber: 1.9 Consensus size: 153
920724 ATTGGCACAA
* * * * * *
920734 GCCCAATGTCGTTGGCCTTGAATCAACATATTGGCACCTTCATTTTTAAGTCCAATGTTGCTGGC
1 GCCCAATGTCATTGGCCTTGAATCAACACATTGGCACCTTCATCTTCAAGACCAATGTCGCTGGC
* * * * * *
920799 CTTGACTCAGCACATTGGCACCCATGTCATTTTTAAACCCAATATCGCTGGCCTTGAATTAGCAT
66 CGTGAATCAGCACATTGACACCCATGTCATCTTTAAACCCAATATCGCTAGCCTTGAATCAGCAT
920864 ATTGGCATCGTTAACATTCCTAG
131 ATTGGCATCGTTAACATTCCTAG
* * *
920887 GCCCAATGTCATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGACTAATGTCGCT
1 GCCCAATGTCATTGGCCTTGAATCAACACATTGGCA--CCT-TCATCTTCAAGACCAATGTCGCT
* ** * * *
920952 TGCCGTGAATCAGCACATTGACATTCTTCG-CATCTTTAAGCCCAATATCGTTAGCCTTGAATCA
63 GGCCGTGAATCAGCACATTGACACCCAT-GTCATCTTTAAACCCAATATCGCTAGCCTTGAATCA
*
921016 GCATGTTGGCA
127 GCATATTGGCA
921027 CCTTTATCAT
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
153 33 0.29
155 2 0.02
156 78 0.68
157 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (153 bp):
GCCCAATGTCATTGGCCTTGAATCAACACATTGGCACCTTCATCTTCAAGACCAATGTCGCTGGC
CGTGAATCAGCACATTGACACCCATGTCATCTTTAAACCCAATATCGCTAGCCTTGAATCAGCAT
ATTGGCATCGTTAACATTCCTAG
Found at i:921068 original size:61 final size:61
Alignment explanation
Indices: 920973--921167 Score: 311
Period size: 61 Copynumber: 3.2 Consensus size: 61
920963 AGCACATTGA
* * *
920973 CATTCTTCGCATCTTTAAGCCCAATATCGTTAGCCTTGAATCAGCATGTTGGCACCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
921034 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
921095 CATTTTTCTCATCTTTAAGCCCAATATCTCT-GACCCTGAATCAGCATATTGGCACCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAG-CCTTGAATCAGCATATTGGCACCTTTAT
*
921156 CACTCTTCTCAT
1 CATTCTTCTCAT
921168 ATTCATCATC
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
60 1 0.01
61 124 0.99
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (61 bp):
CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:921869 original size:11 final size:13
Alignment explanation
Indices: 921853--921887 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
921843 TATATGAGTT
921853 TTGTATC-ATAC-
1 TTGTATCGATACA
921864 TTGTATCGATACA
1 TTGTATCGATACA
921877 TTGTATCGATA
1 TTGTATCGATA
921888 GAAAGCAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:921953 original size:33 final size:32
Alignment explanation
Indices: 921916--921980 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
921906 GCCAAGGAAA
* *
921916 TGTATTGATGCATTAATGAAAGTATCGATACAT
1 TGTATTGATACATT-ATCAAAGTATCGATACAT
**
921949 TGTATTGATACATTATCATTGTATCGATACAT
1 TGTATTGATACATTATCAAAGTATCGATACAT
921981 CTGGGATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATTGATACATTATCAAAGTATCGATACAT
Found at i:924894 original size:34 final size:33
Alignment explanation
Indices: 924843--924982 Score: 138
Period size: 34 Copynumber: 4.2 Consensus size: 33
924833 GGTAAAAACC
*
924843 ACAATGGCAA-CCTACCAAATCTACCATTTAGTCA
1 ACAATGGCAAGCC-ACCAAATC-ACCATTTAATCA
*
924877 ACAATGGTAAGCCACCAAATCACCCATTTAATCA
1 ACAATGGCAAGCCACCAAATCA-CCATTTAATCA
* * * ** * *
924911 ATAATGGTAAGCTACCAAATTTCTTATTTAGTCA
1 ACAATGGCAAGCCACCAAATCAC-CATTTAATCA
* *
924945 ACAATGGCAAACTACCAAATCACCATTTAATCA
1 ACAATGGCAAGCCACCAAATCACCATTTAATCA
924978 ACAAT
1 ACAAT
924983 TCTCCCACTT
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
33 15 0.17
34 71 0.81
35 2 0.02
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.26
Consensus pattern (33 bp):
ACAATGGCAAGCCACCAAATCACCATTTAATCA
Found at i:929442 original size:34 final size:33
Alignment explanation
Indices: 929394--929545 Score: 137
Period size: 34 Copynumber: 4.5 Consensus size: 33
929384 TGGTAAAAAC
929394 CACCATTTAATCAACAATGACAACCTACCAAATT
1 CACCATTTAATCAACAATGACAACCTACCAAA-T
* * **
929428 TACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 CACCATTTAATCAACAATGACAA-CCTACCAAAT
* * * *
929461 CACCCATTTAATTAATAAT-AGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGA-CAACCTACCAAAT
** * *
929495 TTCTCATTTAGTCAACAATGACAAACTACCAAAT
1 CAC-CATTTAATCAACAATGACAACCTACCAAAT
929529 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
929546 AACAAAGCTC
Statistics
Matches: 92, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
33 17 0.18
34 72 0.78
35 3 0.03
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.26
Consensus pattern (33 bp):
CACCATTTAATCAACAATGACAACCTACCAAAT
Found at i:932412 original size:18 final size:18
Alignment explanation
Indices: 932389--932424 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
932379 TTGATATTTA
* *
932389 TATATAATATTAGTTTTT
1 TATATAAAATTAATTTTT
932407 TATATAAAATTAATTTTT
1 TATATAAAATTAATTTTT
932425 AAATATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATATAAAATTAATTTTT
Found at i:933582 original size:15 final size:16
Alignment explanation
Indices: 933544--933594 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
933534 TTCTCTTGGA
* *
933544 TTCAAGTTTTTTCAGG
1 TTCAGGTTTTTTTAGG
933560 TTCAGGTTTTTTTAGG
1 TTCAGGTTTTTTTAGG
*
933576 TT-TGGTTTTTTTTAGG
1 TTCAGG-TTTTTTTAGG
933592 TTC
1 TTC
933595 GGACTATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 2 0.07
16 28 0.93
ACGTcount: A:0.12, C:0.08, G:0.22, T:0.59
Consensus pattern (16 bp):
TTCAGGTTTTTTTAGG
Found at i:935633 original size:7 final size:7
Alignment explanation
Indices: 935621--935645 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
935611 AATATGTCAT
935621 TTATCAA
1 TTATCAA
935628 TTATCAA
1 TTATCAA
935635 TTATCAA
1 TTATCAA
935642 TTAT
1 TTAT
935646 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (7 bp):
TTATCAA
Found at i:940313 original size:13 final size:13
Alignment explanation
Indices: 940295--940320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
940285 ATTTTTTTGG
940295 TGTATCGATACAT
1 TGTATCGATACAT
940308 TGTATCGATACAT
1 TGTATCGATACAT
940321 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:941041 original size:39 final size:40
Alignment explanation
Indices: 940966--941046 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
940956 TTTTCTTTCT
**
940966 CCCTTAATCAAAATAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAATCAAAATAATTTTAACAAATTCACACATTCTCC
* * *
941006 CCCTTAAT-AAAGTAATTTTAGCAAATTCACGCATTCTCC
1 CCCTTAATCAAAATAATTTTAACAAATTCACACATTCTCC
941045 CC
1 CC
941047 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (40 bp):
CCCTTAATCAAAATAATTTTAACAAATTCACACATTCTCC
Found at i:942425 original size:21 final size:20
Alignment explanation
Indices: 942396--942438 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
942386 GGCTAGTGTG
*
942396 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
942417 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
942437 GG
1 GG
942439 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:942899 original size:13 final size:13
Alignment explanation
Indices: 942881--942919 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
942871 ATAATCCCCC
942881 TGTATCGATACAA
1 TGTATCGATACAA
942894 TGTATCGATACAA
1 TGTATCGATACAA
942907 TGTATCGATACAA
1 TGTATCGATACAA
942920 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:949094 original size:13 final size:13
Alignment explanation
Indices: 949076--949101 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
949066 AATTTTTTGG
949076 TGTATCGATACAT
1 TGTATCGATACAT
949089 TGTATCGATACAT
1 TGTATCGATACAT
949102 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:949224 original size:20 final size:20
Alignment explanation
Indices: 949172--949226 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
949162 CATATTTTTC
*
949172 ATGTATCGATACATTGCAAT
1 ATGTATCGATACTTTGCAAT
949192 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-T
*
949212 GTGTATCGATACTTT
1 ATGTATCGATACTTT
949227 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAT
Found at i:950254 original size:12 final size:13
Alignment explanation
Indices: 950237--950265 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
950227 TGGCGCATGG
950237 TTTTTTTAGAC-T
1 TTTTTTTAGACAT
950249 TTTTTTTAGACAT
1 TTTTTTTAGACAT
950262 TTTT
1 TTTT
950266 AACTTCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTTTAGACAT
Found at i:955105 original size:52 final size:52
Alignment explanation
Indices: 954959--955084 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
954949 AATATGAAAT
**
954959 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATGTATCTAGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
* * *
955011 TTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGTAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
*
955063 TTTGCCTACATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
955085 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
Found at i:956125 original size:49 final size:49
Alignment explanation
Indices: 955991--956658 Score: 813
Period size: 49 Copynumber: 14.1 Consensus size: 49
955981 CTTAGGAATG
* * * *
955991 TTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
956040 TTAAAAGATGACAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
956093 TTAAAGATGAAGGTGCCGATATGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
*
956142 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
*
956191 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
*
956234 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
956283 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAG-TGACATTGGTC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGAC
* *
956326 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
956375 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
956418 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
956467 TT----A-AAA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
*
956510 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
956559 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
956602 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
956651 TTAGAAGA
1 TTA-AAGA
956659 AGATGCCACC
Statistics
Matches: 536, Mismatches: 46, Indels: 73
0.82 0.07 0.11
Matches are distributed among these distances:
42 1 0.00
43 188 0.35
44 7 0.01
45 1 0.00
47 1 0.00
48 7 0.01
49 276 0.51
50 11 0.02
52 6 0.01
53 38 0.07
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
Found at i:956242 original size:92 final size:92
Alignment explanation
Indices: 956000--956653 Score: 1067
Period size: 92 Copynumber: 7.0 Consensus size: 92
955990 GTTAAAGATG
* * *
956000 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGTGTCAATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAT---AAAGGTGCCAATA
*
956065 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
62 TGCTGATTCAAGGCCAGCTATATTGGACTT----A
* *
956100 TGAAGGTGCCGATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
956165 CTGATTCAAGGCCAGCTATATTGGACTTA
64 CTGATTCAAGGCCAGCTATATTGGACTTA
956194 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
956259 GATTCAAGGCCAGCTATATTGGACTTA
66 GATTCAAGGCCAGCTATATTGGACTTA
*
956286 AAGGTGCCAATGTGCTGATTCAAGGCCAG-TGACATTGGTCTTAAAGATAAAGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
956350 TGATTCAAGGCCAACTATATTGGACTTA
65 TGATTCAAGGCCAGCTATATTGGACTTA
*
956378 AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
956443 GATTCAAGGCTAGCTATATTGGACTTA
66 GATTCAAGGCCAGCTATATTGGACTTA
* * *
956470 AAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
956535 GATTCAAGGCCAGCTATATTGGACTTA
66 GATTCAAGGCCAGCTATATTGGACTTA
*
956562 AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
956627 GATTCAAGGCCAGCGATATTGGACTTA
66 GATTCAAGGCCAGCTATATTGGACTTA
956654 GAAGAAGATG
Statistics
Matches: 526, Mismatches: 24, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
91 1 0.00
92 438 0.83
93 1 0.00
94 1 0.00
98 41 0.08
101 6 0.01
102 38 0.07
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCTATATTGGACTTA
Found at i:956740 original size:28 final size:28
Alignment explanation
Indices: 956675--956973 Score: 305
Period size: 28 Copynumber: 10.5 Consensus size: 28
956665 CACCAACTTG
**
956675 TGTGGGCTTTTGATAGGGTTG-CACCAACT
1 TGTGGGCTTTTGA-A-GGTTGCCACTGACT
*
956704 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * * *
956732 TGTGGGCTTTTGAAAAGATACCACTAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
*
956761 TGTGGGCTTTTGAAGGTTGCCACTGAGT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
956789 TGTAGGC-TTTGAAAGGTTGCCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
956817 TGTAGGCTTTGGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
956845 TGTGGGCTTTGGAAAAGGATGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
* *
956875 TATAGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * * *
956903 TATGGGCTTTTGAAGGTTGCTAGTGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* ***
956931 TGTGGGCTTTAGAAAAAATGCCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
*
956960 TGTGTGCTTTTGAA
1 TGTGGGCTTTTGAA
956974 AGAGTGAAGA
Statistics
Matches: 227, Mismatches: 36, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
27 9 0.04
28 135 0.59
29 59 0.26
30 24 0.11
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:956882 original size:58 final size:57
Alignment explanation
Indices: 956701--956912 Score: 295
Period size: 58 Copynumber: 3.7 Consensus size: 57
956691 GGTTGCACCA
* *
956701 ACTTGT-GTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAA-GATACCACTA
1 ACTTGTAG-GCTTTTGAAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGGATGCCACTG
* * * *
956758 ACTTGTGGGCTTTTGAAGGTTGCCACTGAGTTGTAGGCTTTG-AAAGGTTGCCACTG
1 ACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
*
956814 ACTTGTAGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTG
1 ACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-GAAAAGGATGCCACTG
* *
956872 ACTTATAGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTT
1 ACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT
956913 TGAAGGTTGC
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
55 3 0.02
56 48 0.35
57 35 0.25
58 52 0.38
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (57 bp):
ACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
Found at i:956894 original size:86 final size:86
Alignment explanation
Indices: 956701--956973 Score: 315
Period size: 86 Copynumber: 3.2 Consensus size: 86
956691 GGTTGCACCA
* * * * *
956701 ACTTGT-GTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTG
1 ACTTGTAG-GCTTTTGAAGGTTGCCACTGACTTGTGGGC-TTTGGAAGGTTGCCACTGACTTGTG
* *
956765 GGCTTTTG--AAGGTTGCCACTG
64 GGCTTTAGAAAAGGATGCCACTG
* *
956786 AGTTGTAGGC-TTTGAAAGGTTGCCACTGACTTGTAGGCTTTGGAAGGTTGCCACTGACTTGTGG
1 ACTTGTAGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGG
*
956850 GCTTTGGAAAAGGATGCCACTG
65 GCTTTAGAAAAGGATGCCACTG
* * * * * *
956872 ACTTATAGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTTGAAGGTTGCTAGTGGCTTGTGGG
1 ACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGG
*
956937 CTTTAGAAAA-AATGCCACTG
66 CTTTAGAAAAGGATGCCACTG
956957 ACTTGT-GTGCTTTTGAA
1 ACTTGTAG-GCTTTTGAA
956974 AGAGTGAAGA
Statistics
Matches: 162, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
84 32 0.20
85 52 0.32
86 74 0.46
87 4 0.02
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (86 bp):
ACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGG
CTTTAGAAAAGGATGCCACTG
Found at i:956933 original size:114 final size:113
Alignment explanation
Indices: 956701--956974 Score: 336
Period size: 114 Copynumber: 2.4 Consensus size: 113
956691 GGTTGCACCA
* * *
956701 ACTTGT-GTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTG
1 ACTTGTAG-GCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTATA
* *
956765 GGCTTTTGAAGGTTGCCACTGAGTTGTAGGCTTTGAAAGGTTGCCACTG
65 GGCTTTTGAAGGTTGCCACTGACTTATAGGCTTTGAAAGGTTGCCACTG
* * *
956814 ACTTGTAGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTATA
1 ACTTGTAGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAA-GATACCACTAACTTATA
* * *
956879 GGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTTG-AAGGTTGCTAGTG
65 GGCTTTTGAAGGTTGCCACTGACTTATAGGC-TTTGAAAGGTTGCCACTG
* * * *** *
956928 GCTTGTGGGCTTTAGAAAAAATGCCACTGACTTGTGTGCTTTTGAAA
1 ACTTGTAGGCTTT-GGAAGGTTGCCACTGACTTGTGGGCTTTTGAAA
956975 GAGTGAAGAA
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
113 43 0.31
114 64 0.46
115 31 0.22
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (113 bp):
ACTTGTAGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTATAG
GCTTTTGAAGGTTGCCACTGACTTATAGGCTTTGAAAGGTTGCCACTG
Found at i:958419 original size:10 final size:10
Alignment explanation
Indices: 958394--958453 Score: 68
Period size: 10 Copynumber: 5.8 Consensus size: 10
958384 CAACCGGACC
*
958394 TTTTTTTATTA
1 TTTTTTT-TTG
958405 TTTTTTTATT-
1 TTTTTTT-TTG
958415 TTTTTGTTTTG
1 TTTTT-TTTTG
958426 TTTTTTTTTG
1 TTTTTTTTTG
*
958436 TTTTTCTTTG
1 TTTTTTTTTG
958446 TTTTTTTT
1 TTTTTTTT
958454 ACGAAGGACG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
10 28 0.62
11 17 0.38
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:958431 original size:15 final size:15
Alignment explanation
Indices: 958394--958439 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
958384 CAACCGGACC
* *
958394 TTTTTTTATTATTTTT
1 TTTTTTT-TTGTTTTG
958410 TTATTTTTTTGTTTTG
1 TT-TTTTTTTGTTTTG
958426 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
958440 TCTTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 12 0.44
16 10 0.37
17 5 0.19
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTGTTTTG
Found at i:958449 original size:15 final size:13
Alignment explanation
Indices: 958394--958453 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
958384 CAACCGGACC
958394 TTTTTTTATTATTT-
1 TTTTTTT-TT-TTTG
*
958408 TTTTATTTTTTTG
1 TTTTTTTTTTTTG
*
958421 TTTTGTTTTTTT-
1 TTTTTTTTTTTTG
* *
958433 TTGTTTTTCTTTG
1 TTTTTTTTTTTTG
958446 TTTTTTTT
1 TTTTTTTT
958454 ACGAAGGACG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 12 0.32
13 20 0.53
14 6 0.16
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:966191 original size:25 final size:26
Alignment explanation
Indices: 966135--966192 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
966125 CAACCATGTC
966135 ATTTGC-CTCTAGTTGAGCCATCTGG
1 ATTTGCTCTCTAGTTGAGCCATCTGG
966160 ATTTGCTC-CTAGTTGAGCCATCTGG
1 ATTTGCTCTCTAGTTGAGCCATCTGG
966185 ATTTGCTC
1 ATTTGCTC
966193 AGCGAGGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
ATTTGCTCTCTAGTTGAGCCATCTGG
Found at i:972439 original size:13 final size:13
Alignment explanation
Indices: 972421--972445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
972411 CAAAGATCAG
972421 TGTATCGATACAA
1 TGTATCGATACAA
972434 TGTATCGATACA
1 TGTATCGATACA
972446 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:977108 original size:52 final size:52
Alignment explanation
Indices: 977030--977158 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
977020 CGAAATATGA
* *
977030 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
977082 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
977134 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
977159 AAGATCTGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:977170 original size:52 final size:51
Alignment explanation
Indices: 977030--977178 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 51
977020 CGAAATATGA
* * * *
977030 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATCT-GTGTATCGATACATCTGGGC
* *
977082 AAATTTGCCTGTATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATC-T-GTGTATCGATACATCTGGGC
*
977134 AAATTTGCCTGCATGTATCGATACAAAGATCTGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AATATCTGTGTATCGATACA
977179 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 3 0.03
52 80 0.92
53 1 0.01
54 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATATCTGTGTATCGATACATCTGGGC
Found at i:977185 original size:13 final size:13
Alignment explanation
Indices: 977167--977191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
977157 CAAAGATCTG
977167 TGTATCGATACAA
1 TGTATCGATACAA
977180 TGTATCGATACA
1 TGTATCGATACA
977192 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:977268 original size:19 final size:19
Alignment explanation
Indices: 977244--977295 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
977234 AGCAATACAT
977244 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
977263 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
977282 TGTATCGATACAAA
1 TGTATCGATACAAA
977296 TTGTTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:981349 original size:11 final size:11
Alignment explanation
Indices: 981329--981365 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
981319 TAGCCACTCA
*
981329 TTCTTCTTTTT
1 TTCTTTTTTTT
981340 TTCTTTTTTTT
1 TTCTTTTTTTT
*
981351 TTCTTTTTTTC
1 TTCTTTTTTTT
981362 TTCT
1 TTCT
981366 CCTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:982095 original size:34 final size:35
Alignment explanation
Indices: 982025--982095 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
982015 AGTAAGTGTA
* * *
982025 TTTTTTGTCAAACTTTAGATGGGTAAGTTGTTTTT
1 TTTTTTGTCAAACTTTAGATAGATAAGTTGTATTT
* *
982060 TTTTTTTTCAAACTTTAGGTAGATAAG-TGTATTT
1 TTTTTTGTCAAACTTTAGATAGATAAGTTGTATTT
982094 TT
1 TT
982096 CTTATAGAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 8 0.26
35 23 0.74
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.55
Consensus pattern (35 bp):
TTTTTTGTCAAACTTTAGATAGATAAGTTGTATTT
Found at i:982613 original size:13 final size:13
Alignment explanation
Indices: 982595--982619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
982585 TTTTACTTTG
982595 AGCATATTTGTTA
1 AGCATATTTGTTA
982608 AGCATATTTGTT
1 AGCATATTTGTT
982620 TTTCTTCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
AGCATATTTGTTA
Found at i:984107 original size:21 final size:21
Alignment explanation
Indices: 984083--984126 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
984073 TCTGTTACTA
*
984083 AATTCTTTACTAATTAGTCAC
1 AATTCATTACTAATTAGTCAC
* *
984104 AATTCATTACTATTTTGTCAC
1 AATTCATTACTAATTAGTCAC
984125 AA
1 AA
984127 AATCTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTCATTACTAATTAGTCAC
Found at i:984998 original size:13 final size:13
Alignment explanation
Indices: 984980--985006 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
984970 ACATTATGCT
984980 TTGTATCGATACA
1 TTGTATCGATACA
984993 TTGTATCGATACA
1 TTGTATCGATACA
985006 T
1 T
985007 GCACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:985017 original size:20 final size:20
Alignment explanation
Indices: 984992--985047 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
984982 GTATCGATAC
984992 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATGCACA
985012 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATGCACA
985032 ATTGTATCGATACATG
1 ATTGTATCGATACATG
985048 AAACTGGCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:985969 original size:13 final size:13
Alignment explanation
Indices: 985951--985981 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
985941 ACATTTCTTC
985951 ATGTATCAATACA
1 ATGTATCAATACA
985964 ATGTATCAATACA
1 ATGTATCAATACA
*
985977 TTGTA
1 ATGTA
985982 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:986052 original size:21 final size:21
Alignment explanation
Indices: 986026--986081 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
986016 CTGCTAGTTT
**
986026 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
986047 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
986066 CATGTATCGATACAAT
1 CATGTATCGATACAAT
986082 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:986085 original size:13 final size:13
Alignment explanation
Indices: 986067--986093 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
986057 TACATTGAAC
986067 ATGTATCGATACA
1 ATGTATCGATACA
986080 ATGTATCGATACA
1 ATGTATCGATACA
986093 A
1 A
986094 AGTAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:986780 original size:22 final size:21
Alignment explanation
Indices: 986745--986794 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
986735 TTTGTTGATG
*
986745 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
986765 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
986786 AATTTGAAG
1 ATTTTGAAG
986795 AAGATGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:986791 original size:21 final size:22
Alignment explanation
Indices: 986752--986794 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
986742 ATGATTTTGA
* *
986752 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
986774 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
986795 AAGATGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:992984 original size:13 final size:13
Alignment explanation
Indices: 992944--992992 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
992934 CCGTTTGAAG
992944 CAATGTATCGATA
1 CAATGTATCGATA
992957 CAA--T-TC-AT-
1 CAATGTATCGATA
992965 C-ATGTATCGATA
1 CAATGTATCGATA
992977 CAATGTATCGATA
1 CAATGTATCGATA
992990 CAA
1 CAA
992993 ACAGTGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.13
11 3 0.10
12 1 0.03
13 17 0.57
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:993045 original size:19 final size:21
Alignment explanation
Indices: 993021--993073 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
993011 CTGCCAGTTT
*
993021 CATGTATCGATACAATG-A-A
1 CATGTATCGATACAAAGCATA
993040 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAGCATA
993061 -ATGTATCGATACA
1 CATGTATCGATACA
993074 TCTGAGTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
CATGTATCGATACAAAGCATA
Found at i:994949 original size:165 final size:165
Alignment explanation
Indices: 994611--994950 Score: 352
Period size: 166 Copynumber: 2.1 Consensus size: 165
994601 TTCAAACATC
* * * * *
994611 AAATTAATCAAATATTATCATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCAT
1 AAATTCATCAAACATCATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCAT
* * * * * * *
994676 TCATTTTTTATTTTTTTCCTTGAAATTTCTTTTTTTTTGAAATACGGTGTTTTCAACTCCGTAAA
66 TCAGTTTTGATCTTTTTCCTTGAAATATCTTTTTTTTCGAAAAACGGAGTTTTCAACTCCGTAAA
* **
994741 TTTTTCTGAGGGATTTTTTTCTTGGTTTTCAATTTA
131 TTTTTCTGAGGGATTTTTTTC-TAGTTTAAAATTTA
* *
994777 AAATTCATCAAACATCATCATTTGA-TTCATATTAGTTCAGTTTTCAAAAATTTATTCATTTTCA
1 AAATTCATCAAACATCATCATTT-ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
* * **
994841 -TGAGTTTTGA-CTTTTTCTTTGAAAATAT-TTTTTTTTCGAAAAAATC-GAGTTTTCTTCTCCG
65 TTCAGTTTTGATCTTTTTCCTTG-AAATATCTTTTTTTTCG-AAAAA-CGGAGTTTTCAACTCCG
*
994902 T-AATTTTTTTGGAGGGATTTTTTTC-AGTTTAAAAATTTTA
127 TAAATTTTTCT-GAGGGATTTTTTTCTAGTTT-AAAA-TTTA
*
994942 GAATTCATC
1 AAATTCATC
994951 TAATGATTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
163 4 0.03
164 28 0.19
165 55 0.38
166 56 0.39
167 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.51
Consensus pattern (165 bp):
AAATTCATCAAACATCATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCAT
TCAGTTTTGATCTTTTTCCTTGAAATATCTTTTTTTTCGAAAAACGGAGTTTTCAACTCCGTAAA
TTTTTCTGAGGGATTTTTTTCTAGTTTAAAATTTA
Found at i:995489 original size:11 final size:11
Alignment explanation
Indices: 995473--995534 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
995463 AGGTTCAACT
995473 AAAAAAAGAGAA
1 AAAAAAAGAG-A
995485 AAAAAAAGTGAGAA
1 AAAAAAA--GAG-A
995499 AAAAAAAGGAGA
1 AAAAAAA-GAGA
*
995511 AAGAAAAGAGA
1 AAAAAAAGAGA
* *
995522 AAAGAAATAGA
1 AAAAAAAGAGA
995533 AA
1 AA
995535 CAAAGAGGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
11 14 0.33
12 14 0.33
13 3 0.07
14 12 0.28
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:995497 original size:14 final size:13
Alignment explanation
Indices: 995473--995517 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
995463 AGGTTCAACT
995473 AAAAAAA-GAGAA
1 AAAAAAAGGAGAA
995485 AAAAAAAGTGAGAA
1 AAAAAAAG-GAGAA
995499 AAAAAAAGGAGAA
1 AAAAAAAGGAGAA
995512 AGAAAA
1 A-AAAA
995518 GAGAAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.23
13 6 0.20
14 17 0.57
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAAAAGGAGAA
Found at i:995528 original size:12 final size:12
Alignment explanation
Indices: 995473--995524 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
995463 AGGTTCAACT
995473 AAAAAAAGAGAA
1 AAAAAAAGAGAA
995485 AAAAAAAGTGAGAA
1 AAAAAAA--GAGAA
995499 AAAAAAAG-GAGA
1 AAAAAAAGAGA-A
*
995511 AAGAAAAGAGAA
1 AAAAAAAGAGAA
995523 AA
1 AA
995525 GAAATAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 2 0.06
12 19 0.54
13 2 0.06
14 12 0.34
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:997374 original size:97 final size:97
Alignment explanation
Indices: 997228--997459 Score: 349
Period size: 97 Copynumber: 2.4 Consensus size: 97
997218 TATCAGAGAT
* * * * *
997228 ACTCTAACCCTATTCCTCCAAGGGGATACTACAACCCCGCTTTTAAACACATCAAAGTTTAAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTACAACCTCACTTTTAAACACATCAAAGTTTAAATC
997293 TTATTCTT-ACTTAAATTGTCATCATCGGGGAC
66 TTATT-TTCACTTAAATTGTCATCATCGGGGAC
* * *
997325 ACTCCAACCCCGTTCCTCCGAGAGGATACTCCAACCTCACTTTTAAACACATCAAAGTTTAAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTACAACCTCACTTTTAAACACATCAAAGTTTAAATC
*
997390 TTATTTTCACTTAAATTGTCATCATTGGGGAC
66 TTATTTTCACTTAAATTGTCATCATCGGGGAC
* *
997422 ACTCCAATCCCATTCCTCCGAGGGGATACTTCAACCTC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTACAACCTC
997460 GTTTTTCAAT
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 2 0.02
97 119 0.98
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (97 bp):
ACTCCAACCCCATTCCTCCGAGGGGATACTACAACCTCACTTTTAAACACATCAAAGTTTAAATC
TTATTTTCACTTAAATTGTCATCATCGGGGAC
Found at i:1003531 original size:78 final size:79
Alignment explanation
Indices: 1003446--1003970 Score: 549
Period size: 79 Copynumber: 6.7 Consensus size: 79
1003436 TATTTTGGAG
* * * * * * * *
1003446 ATAAAAACGGGGTTAGAATATCCCCTCAGAAATAATGGGTTTGGAGTATCCCCAATTGTGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
1003511 TTGATGTTTTAGAA
66 TCGATGTTTTAGAA
*
1003525 ATAAAACC-AGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGT-AGAA
1 ATAAAACCGA-GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AA
*
1003588 AATCGATGTTTTGGAA
64 AATCGATGTTTTAGAA
* **
1003604 ATAAAACCGAGGTTGGAGTATTCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * *
1003669 TTGATATTTTGGAA
66 TCGATGTTTTAGAA
* * ** * * * *
1003683 ATAAAACCGGGGTTGGAGTATTCTTTCAAAAATAACGGGATTGGAATATCCTCGATGGTTG-AAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTG-TGAAAA
* * *
1003747 ATTGGTGTTTTAAAA
65 ATCGATGTTTTAGAA
* * * * *
1003762 ATAAAATC-AGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCGA-TATGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
1003825 TCAATGTTTT-GAAA
66 TCGATGTTTTAG-AA
* * * * * *
1003839 ATAAAACTGAAGTTGGAGTATCTCTTCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
1003904 TCGGTGTTTTAGAA
66 TCGATGTTTTAGAA
* * * * * *
1003918 ATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAACGAGGTTGAAATATCCCC
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCC
1003971 TCAAAAATAA
Statistics
Matches: 373, Mismatches: 63, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
76 2 0.01
77 19 0.05
78 80 0.21
79 267 0.72
80 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
TCGATGTTTTAGAA
Found at i:1003883 original size:235 final size:236
Alignment explanation
Indices: 1003426--1003970 Score: 668
Period size: 235 Copynumber: 2.3 Consensus size: 236
1003416 TCTCCTGATA
* * * * * * *
1003426 AAAAATTTACTATTTTGGAGATAAAAACGGGGTTAGAATATCCCCTCAGAAATAATGGGTTTGGA
1 AAAAATTGA-TATTTTGGAAATAAAAACGGGGTTGGAGTATCCCTTCAAAAATAACGGG-TTGGA
* * *
1003491 GTATCCCCAATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAA
64 ATATCCCCAATGGTGAAAAATTGATGTTTTAAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAA
* * * *
1003556 ATAACGGGGTTGGAGTATCCCCGATTGTAGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGA
129 ATAACGGGGTTAGAGTATCCCCGATTGTAGAAAATCAATGTTTTGAAAATAAAACCGAAGTTGGA
1003621 GTATTCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTG
194 GTATTCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTG
* * *
1003664 AAAAATTGATATTTTGGAAATAAAACCGGGGTTGGAGTATTCTTTCAAAAATAACGGGATTGGAA
1 AAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCTTCAAAAATAACGGG-TTGGAA
* * * *
1003729 TATCCTCGATGGTTG-AAAATTGGTGTTTTAAAAATAAAATCA-GGTTGGAGTATCCCCTCAGAA
65 TATCCCCAATGG-TGAAAAATTGATGTTTTAAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAA
* *
1003792 ATAACGGGGTTAGAGTATCCTCGATATG-A-AAAATCAATGTTTTGAAAATAAAACTGAAGTTGG
129 ATAACGGGGTTAGAGTATCCCCGAT-TGTAGAAAATCAATGTTTTGAAAATAAAACCGAAGTTGG
* ** *
1003855 AGTA-TCTCTTCAAAAATAACGGGGTTGGAGTATCCTCGATTGTG
193 AGTATTC-CCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTG
* * * * * * * * *
1003899 GAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAACGAGGTTGAAA
1 AAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCTTCAAAAATAACG-GGTTGGAA
1003964 TATCCCC
65 TATCCCC
1003971 TCAAAAATAA
Statistics
Matches: 263, Mismatches: 40, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
234 2 0.01
235 124 0.47
236 47 0.18
237 80 0.30
238 10 0.04
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (236 bp):
AAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCTTCAAAAATAACGGGTTGGAAT
ATCCCCAATGGTGAAAAATTGATGTTTTAAAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAAT
AACGGGGTTAGAGTATCCCCGATTGTAGAAAATCAATGTTTTGAAAATAAAACCGAAGTTGGAGT
ATTCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTG
Found at i:1003958 original size:28 final size:28
Alignment explanation
Indices: 1003925--1003996 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1003915 GAAATAAAAT
* *
1003925 CGAGGTTGGAGTATCCCTTCGAAAATAA
1 CGAGGTTGGAGTATCCCCTCAAAAATAA
* *
1003953 CGAGGTTGAAATATCCCCTCAAAAATAA
1 CGAGGTTGGAGTATCCCCTCAAAAATAA
*
1003981 CGGGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
1003997 TTGATTGTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCTCAAAAATAA
Found at i:1003986 original size:107 final size:107
Alignment explanation
Indices: 1003864--1004077 Score: 349
Period size: 107 Copynumber: 2.0 Consensus size: 107
1003854 GAGTATCTCT
*
1003864 TCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATCGGTGTTTTAGAAATAAAATCGAG
1 TCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATCGATGTTTTAGAAATAAAATCGAG
*
1003929 GTTGGAGTATCCCTTCGAAAATAAC-GAGGTTGAAATATCCCC
66 GTTGGAATATCCCTTCGAAAATAACAG-GGTTGAAATATCCCC
* * *
1003971 TCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGGAAAATTGATGTTTTAGAAATAAAATTGAG
1 TCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATCGATGTTTTAGAAATAAAATCGAG
* *
1004036 GTTGGAATATCCCTTCGAAAATAACAGGGTTGGAGTATCCCC
66 GTTGGAATATCCCTTCGAAAATAACAGGGTTGAAATATCCCC
1004078 GATGGCAGAA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 98 0.99
108 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (107 bp):
TCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATCGATGTTTTAGAAATAAAATCGAG
GTTGGAATATCCCTTCGAAAATAACAGGGTTGAAATATCCCC
Found at i:1004045 original size:79 final size:79
Alignment explanation
Indices: 1003954--1004109 Score: 213
Period size: 79 Copynumber: 2.0 Consensus size: 79
1003944 CGAAAATAAC
* ** * ** *
1003954 GAGGTTGAAATATCCCCTCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGGAAAATTGATGTT
1 GAGGTTGAAATATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGCAGAAAATTGATATT
1004019 TTAGAAATAAAATT
66 TTAGAAATAAAATT
* * * *
1004033 GAGGTTGGAATATCCCTTCGAAAATAACAGGGTTGGAGTATCCCCGATGGCAGAAAATTGGTATT
1 GAGGTTGAAATATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGCAGAAAATTGATATT
1004098 TTAGAAATAAAA
66 TTAGAAATAAAA
1004110 ACATTAATGA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
GAGGTTGAAATATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGCAGAAAATTGATATT
TTAGAAATAAAATT
Found at i:1004070 original size:186 final size:185
Alignment explanation
Indices: 1003770--1004109 Score: 466
Period size: 186 Copynumber: 1.8 Consensus size: 185
1003760 AAATAAAATC
* * *
1003770 AGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCGATATGAAAAATCAATGTTTT
1 AGGTTGAAATATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATATGAAAAATCAATGTTTT
* * * * * **
1003835 GAAAATAAAACTGAAGTTGGAGTATCTCTTCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGG
66 GAAAATAAAACTGAAGTTGGAATATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCGATGGCAG
*
1003900 AAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAACG
131 AAAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAACG
* * * * **
1003955 AGGTTGAAATATCCCCTCAAAAATAACGGGGTTGGAGTATCCTTGATTGTGGAAAATTGATGTTT
1 AGGTTGAAATATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGA-TATGAAAAATCAATGTTT
* * *
1004020 T-AGAAATAAAATTGAGGTTGGAATATCCCTTCGAAAATAACAGGGTTGGAGTATCCCCGATGGC
65 TGA-AAATAAAACTGAAGTTGGAATATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCGATGGC
*
1004084 AGAAAATTGGTATTTTAGAAATAAAA
129 AGAAAATCGGTATTTTAGAAATAAAA
1004110 ACATTAATGA
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
185 42 0.32
186 90 0.68
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (185 bp):
AGGTTGAAATATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATATGAAAAATCAATGTTTT
GAAAATAAAACTGAAGTTGGAATATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCGATGGCAG
AAAATCGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAACG
Found at i:1009222 original size:18 final size:17
Alignment explanation
Indices: 1009196--1009230 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1009186 AAAATTAATT
1009196 ATTAAATTTATTAATATA
1 ATTAAATTTATT-ATATA
*
1009214 ATTATATTTATTATATA
1 ATTAAATTTATTATATA
1009231 TGTAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTAAATTTATTATATA
Found at i:1009656 original size:2 final size:2
Alignment explanation
Indices: 1009651--1009684 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1009641 AAAATGGGTT
1009651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1009685 AATGCATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1009752 original size:4 final size:4
Alignment explanation
Indices: 1009743--1009780 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
1009733 GACTTTGTTT
*
1009743 TTCC TTCC TTCG TTCC TTCC TTCC TTCC TTCC TTCC TT
1 TTCC TTCC TTCC TTCC TTCC TTCC TTCC TTCC TTCC TT
1009781 TTACGACTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (4 bp):
TTCC
Found at i:1012203 original size:50 final size:50
Alignment explanation
Indices: 1012128--1012228 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
1012118 GAATATTTTT
*
1012128 GAATAATTGATAGTTTAATGTATCTTATGAACTACATAAAATCAAACATA
1 GAATAATTGATAGTCTAATGTATCTTATGAACTACATAAAATCAAACATA
*
1012178 GAATAATTGATAGTCTAATGTATCTTATGAACTACATAAGATCAAACATA
1 GAATAATTGATAGTCTAATGTATCTTATGAACTACATAAAATCAAACATA
1012228 G
1 G
1012229 CCTACTTTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (50 bp):
GAATAATTGATAGTCTAATGTATCTTATGAACTACATAAAATCAAACATA
Found at i:1013695 original size:17 final size:17
Alignment explanation
Indices: 1013673--1013710 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1013663 AAACAATTTT
**
1013673 GTTTGAAATGTTTCTTG
1 GTTTGAAACATTTCTTG
1013690 GTTTGAAACATTTCTTG
1 GTTTGAAACATTTCTTG
1013707 GTTT
1 GTTT
1013711 TGAACTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.08, G:0.21, T:0.53
Consensus pattern (17 bp):
GTTTGAAACATTTCTTG
Found at i:1021183 original size:14 final size:14
Alignment explanation
Indices: 1021164--1021228 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 14
1021154 TTTGTAATTC
1021164 ATCACTGTTCATGT
1 ATCACTGTTCATGT
*
1021178 ATCACTATTCA--T
1 ATCACTGTTCATGT
1021190 A--ACTGTTCATGT
1 ATCACTGTTCATGT
1021202 ATCACTGTTCA--T
1 ATCACTGTTCATGT
1021214 A--ACTGTTCATGT
1 ATCACTGTTCATGT
1021226 ATC
1 ATC
1021229 GATACAGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
10 15 0.37
12 8 0.20
14 18 0.44
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.42
Consensus pattern (14 bp):
ATCACTGTTCATGT
Found at i:1021194 original size:24 final size:24
Alignment explanation
Indices: 1021160--1021228 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
1021150 ATTTTTTGTA
*
1021160 ATTCATCACTGTTCATGTATCACT
1 ATTCATAACTGTTCATGTATCACT
1021184 ATTCATAACTGTTCATGTATCACT
1 ATTCATAACTGTTCATGTATCACT
*
1021208 GTTCATAACTGTTCATGTATC
1 ATTCATAACTGTTCATGTATC
1021229 GATACAGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (24 bp):
ATTCATAACTGTTCATGTATCACT
Found at i:1022168 original size:70 final size:69
Alignment explanation
Indices: 1022094--1022242 Score: 235
Period size: 69 Copynumber: 2.1 Consensus size: 69
1022084 TTTCACAATT
*
1022094 TGTATCGATACATTGCTCATTATATCGATACATTCTGGGTTTTACACAGATGTATTGATACATTA
1 TGTATCGATACATTGCTCATTATATCGATACATTCTGAG-TTTACACAGATGTATTGATACATTA
*
1022159 TTCAC
65 TTCAA
* * * *
1022164 TGTATCGATACATTGTTCATTGTATCGATACATTCTGAGTTTACTCAGATGTATTGATACATTTT
1 TGTATCGATACATTGCTCATTATATCGATACATTCTGAGTTTACACAGATGTATTGATACATTAT
1022229 TCAA
66 TCAA
1022233 TGTATCGATA
1 TGTATCGATA
1022243 AATTCAGGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
69 37 0.51
70 36 0.49
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (69 bp):
TGTATCGATACATTGCTCATTATATCGATACATTCTGAGTTTACACAGATGTATTGATACATTAT
TCAA
Found at i:1022173 original size:20 final size:20
Alignment explanation
Indices: 1022144--1022197 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1022134 TTTACACAGA
*
1022144 TGTATTGATACATTATTCAC
1 TGTATCGATACATTATTCAC
* *
1022164 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTATTCAC
1022184 TGTATCGATACATT
1 TGTATCGATACATT
1022198 CTGAGTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATTCAC
Found at i:1024621 original size:79 final size:79
Alignment explanation
Indices: 1024487--1024718 Score: 313
Period size: 79 Copynumber: 2.9 Consensus size: 79
1024477 TTTTCATCTT
* * * *
1024487 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACATCAATTTTTCATAA-CTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATC-GGGGATACTCCAA
*
1024551 TCCCATTTTTTTTGA
65 TCCCATTTTTTCTGA
* * *
1024566 GGGGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAT
*
1024631 CCCATTATTTCTGA
66 CCCATTTTTTCTGA
* * * *
1024645 GGAGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATTGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAA-
*
1024710 TCCGATTTT
65 TCCCATTTT
1024719 ATTTCCAAAA
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 126 0.95
80 7 0.05
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAT
CCCATTTTTTCTGA
Found at i:1024702 original size:130 final size:127
Alignment explanation
Indices: 1024568--1024802 Score: 339
Period size: 130 Copynumber: 1.8 Consensus size: 127
1024558 TTTTTTGAGG
*
1024568 GGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
1024633 CATTATTTC-T-GAGGAGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATT
66 CATTATTTCATCG-GG-GATACTCCAACCCC-A--TTATTTCTAAAACATCAATTTTTCACAATT
1024696 GA
126 GA
* * * * *
1024698 GGATACTCCAACTCCGATTTTATTTCCAAAATATCAATTTTTGACAATCAGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
**
1024763 TGTTATTTCATCGGGGATACTCCAACCCCATTATTTCTAA
66 CATTATTTCATCGGGGATACTCCAACCCCATTATTTCTAA
1024803 GGGGATACTC
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
127 10 0.11
129 1 0.01
130 80 0.84
131 3 0.03
132 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.32
Consensus pattern (127 bp):
GGATACTCCAACCCCGATTTTATTCCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
CATTATTTCATCGGGGATACTCCAACCCCATTATTTCTAAAACATCAATTTTTCACAATTGA
Found at i:1024720 original size:51 final size:51
Alignment explanation
Indices: 1024648--1024762 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
1024638 TTTCTGAGGA
* *
1024648 GATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAAT-TGAG
1 GATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCAG-G
* * *
1024699 GATACTCCAACTCCGATTTTATTTCCAAAATATCAATTTTTGACAATCAGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCAGG
1024750 GATACTCCAACCC
1 GATACTCCAACCC
1024763 TGTTATTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCAGG
Found at i:1024788 original size:28 final size:28
Alignment explanation
Indices: 1024748--1024815 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
1024738 TTGACAATCA
** *
1024748 GGGATACTCCAACCCTGTTATTTC-ATCG
1 GGGATACTCCAACCCCATTATTTCTA-AG
1024776 GGGATACTCCAACCCCATTATTTCTAAG
1 GGGATACTCCAACCCCATTATTTCTAAG
1024804 GGGATACTCCAA
1 GGGATACTCCAA
1024816 TCCGGATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (28 bp):
GGGATACTCCAACCCCATTATTTCTAAG
Found at i:1037134 original size:21 final size:21
Alignment explanation
Indices: 1037093--1037150 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
1037083 ACCTTTTTCT
*
1037093 AAAAA-AACACAAAAAACAAA
1 AAAAAGAAAACAAAAAACAAA
* *
1037113 ACAAAGAAAACAAAGAAAAAAA
1 AAAAAGAAAACAAA-AAACAAA
*
1037135 AAAAGAGAAAAGAAAA
1 AAAA-AGAAAACAAAA
1037151 GAACCTACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 10 0.33
23 9 0.30
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAACAAAAAACAAA
Found at i:1037139 original size:12 final size:12
Alignment explanation
Indices: 1037093--1037153 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
1037083 ACCTTTTTCT
* *
1037093 AAAAAAACACAA
1 AAAAAAAAAGAA
* *
1037105 AAAACAAAACAA
1 AAAAAAAAAGAA
*
1037117 AGAAAACAAAGAA
1 A-AAAAAAAAGAA
*
1037130 AAAAAAAAAGAG
1 AAAAAAAAAGAA
*
1037142 AAAAGAAAAGAA
1 AAAAAAAAAGAA
1037154 CCTACTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 30 0.77
13 9 0.23
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:1038211 original size:62 final size:61
Alignment explanation
Indices: 1038115--1038266 Score: 232
Period size: 62 Copynumber: 2.5 Consensus size: 61
1038105 TTTCTCCTTT
* * *
1038115 CACTTTTCAGTCATCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
1038176 CACTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCGCACAAGTTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
*
1038238 CACTTTCCAGTCCTCAAAGAGCAGGACGC
1 CACTTTTCAGTCCTCAAAGAGCAGGACGC
1038267 TCTCTCCTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
61 28 0.34
62 54 0.66
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (61 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:1038661 original size:61 final size:61
Alignment explanation
Indices: 1038305--1038948 Score: 765
Period size: 62 Copynumber: 10.6 Consensus size: 61
1038295 GAGCAGGACG
* *
1038305 CCTTTTGAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCTTCAAAGAGCAGGACGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
*
1038365 -C----AAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTC-AAGAAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG-AGCAGGACGCCTTTT
** ** * * *
1038420 CCTTTTAAAGCCCACACAAGTTCATGGCACTTTTTTGGTCCTTAAAAAGCAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1038482 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTT-ATGGTCCTCAAATAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA--GTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1038544 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTCAAAGAGCAAGACACATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1038606 CTTTTTAAAGCCCGCACAAGTCGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1038667 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCATTCCTCAAGGAGCAGGAC-CTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * **
1038727 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCGTCCTC-CAGAAGCAGGACGTTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG-AGCAGGACGCCTTTT
* * * **
1038788 CCTTTTAAAGCCTACACAAGTTGGTGACACTTTTCAGTCCTCAAATAGCAGGA-GTTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1038848 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCATGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1038910 CCTTTTAAAGCTCGCACAAGTTGATGGCACTTTCCAGTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
1038949 TACGCTTTCT
Statistics
Matches: 506, Mismatches: 58, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.01
54 17 0.03
55 28 0.06
56 1 0.00
59 2 0.00
60 115 0.23
61 147 0.29
62 190 0.38
63 2 0.00
64 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:1038778 original size:121 final size:121
Alignment explanation
Indices: 1038305--1038948 Score: 761
Period size: 121 Copynumber: 5.3 Consensus size: 121
1038295 GAGCAGGACG
* * *
1038305 CCTTTTGAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCTTCAAAGAGCAGGA-C----GCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACCATTTTCCTT
* *
1038364 TCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCT-CAAGAAGCAGGACGCCTTTT
65 TTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCCAA-AAGCAGGACGCCTTTT
** ** * *
1038420 CCTTTTAAAGCCCACACAAGTTCATGGCACTTTTTTGGTCCTTAAAAAGCAGGACGCATTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTTCAGTCCTCAAAGAGCAGGAC-CATTTTCCT
* *
1038485 TTTAAAGCCCACACAAATTGGTGGCACTTTT-ATGGTCCT-CAAATAGCAGGATGCCTTTT
64 TTTAAAGCCCACACAAGTTGGTGGCACTTTTCA--GTCCTCCAAA-AGCAGGACGCCTTTT
* * *
1038544 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTCAAAGAGCAAGACACATTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGAC-CATTTTCCT
* * *
1038609 TTTAAAGCCCGCACAAGTCGGTGGCACTTTTCAGTCCT-CAAAGAGCAGGACACCTTTT
64 TTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCCAAA-AGCAGGACGCCTTTT
* * *
1038667 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCATTCCTCAAGGAGCAGGACCTTTTTCCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACCATTTTCCTTT
* * **
1038732 TAAAGCCCACACAAGTTGGTGGCACTTTTCCGTCCTCCAGAAGCAGGACGTTTTTT
66 TAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCCAAAAGCAGGACGCCTTTT
* * * ***
1038788 CCTTTTAAAGCCTACACAAGTTGGTGACACTTTTCAGTCCTCAAATAGCAGGAGTTTTTTCCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACCATTTTCCTTT
* * *
1038853 TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCATGATGCCTTTT
66 TAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCCAAAAGCAGGACGCCTTTT
* * * *
1038910 CCTTTTAAAGCTCGCACAAGTTGATGGCACTTTCCAGTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
1038949 TACGCTTTCT
Statistics
Matches: 451, Mismatches: 62, Indels: 25
0.84 0.12 0.05
Matches are distributed among these distances:
115 26 0.06
116 14 0.03
117 4 0.01
118 1 0.00
121 142 0.31
122 99 0.22
123 64 0.14
124 100 0.22
125 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (121 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACCATTTTCCTTT
TAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCCAAAAGCAGGACGCCTTTT
Found at i:1039061 original size:55 final size:55
Alignment explanation
Indices: 1038972--1039213 Score: 193
Period size: 55 Copynumber: 4.2 Consensus size: 55
1038962 TTCACCCTTT
1038972 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * **
1039027 AGTCTTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
** * * * * *
1039081 AGTCCTCAAGGAGCAGGACACCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCT
1 AGTCCTCAAAAAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
1039143 AGTCCTCAAAGAA-CAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAA-AAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCATTTTCC
1039203 TAGTCCTCAAA
1 -AGTCCTCAAA
1039214 GAGTAAGATG
Statistics
Matches: 150, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
54 18 0.12
55 50 0.33
56 1 0.01
60 23 0.15
61 13 0.09
62 44 0.29
63 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:1039168 original size:62 final size:61
Alignment explanation
Indices: 1038992--1039215 Score: 228
Period size: 62 Copynumber: 3.8 Consensus size: 61
1038982 AAGCAGGACG
* * * * ** *
1038992 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCTTCAAAGAGTAGG--A----TG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAACAGGACACCTTTT
* * * *
1039047 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAGGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAACAGGACACCTTTT
* * * *
1039107 CCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAGTCCTCAAAGAACAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAACAGGACACCTTTT
* * *
1039169 CTTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTAGTCCTCAAAGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGA
1039216 GTAAGATGCT
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
54 14 0.10
55 32 0.23
56 1 0.01
60 27 0.19
61 19 0.13
62 48 0.34
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAACAGGACACCTTTT
Found at i:1039289 original size:94 final size:97
Alignment explanation
Indices: 1039142--1039323 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 97
1039132 GGCACTTTTC
*
1039142 TAGTCCTCAAAGAACAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTAGT
1 TAGTCCTCAAAGAACAGGACGCCTTTTC----TAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
*
1039207 CCTCAAAGAGTAAGATG-CTTTCTCCTTTTTCCCTT
62 CCTCAAAAAGTAAGATGCCTTTCTCCTTTTTCCCTT
* * ** *
1039242 TAGTCCTCAAAGAGCAGGACGCC-TTTC-AAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTT
1 TAGTCCTCAAAGAACAGGACGCCTTTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
*
1039305 AAAAAGTAGGATGCCTTTC
66 AAAAAGTAAGATGCCTTTC
1039324 AAAGCCCACA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
94 42 0.58
95 5 0.07
99 4 0.05
100 22 0.30
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (97 bp):
TAGTCCTCAAAGAACAGGACGCCTTTTCTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
AAAAAGTAAGATGCCTTTCTCCTTTTTCCCTT
Found at i:1039300 original size:55 final size:55
Alignment explanation
Indices: 1039240--1039346 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
1039230 CCTTTTTCCC
*
1039240 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TTTAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * *
1039295 TTTAGTCCTTAAAAAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1039347 CCTTCAGTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (55 bp):
TTTAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
Found at i:1039440 original size:271 final size:270
Alignment explanation
Indices: 1038952--1039763 Score: 1265
Period size: 271 Copynumber: 3.0 Consensus size: 270
1038942 TCCAGTCTAC
*
1038952 GCTTTCT-CTTTTCACCCTTTAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGG
1 GCTTTCTCCTTTT-ACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGG
**
1039016 TGGCATTTTCCAGT-CTTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
65 TGGCATTTTTTAGTCCTT-AAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
*
1039080 CAGTCCTCAAGGAGCAGGACACCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAG
129 CAGTCCTCAAGGAGCAAGA-ACCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAG
1039145 TCCTCAAAGAACAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTAGTCCT
193 TCCTCAAAGAACAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTAGTCCT
*
1039210 CAAAGAGTAAGAT
258 CAAAGAGCAAGAT
*
1039223 GCTTTCTCCTTTTTCCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
1 GCTTTCTCCTTTTACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
*
1039288 GGCATTTTTTAGTCCTTAAAAAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCA
66 GGCATTTTTTAGTCCTTAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCA
*
1039353 GTCCTTAAGGAGCAAGATACCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAGTC
131 GTCCTCAAGGAGCAAGA-ACCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAGTC
* * *
1039418 CTCAAAGAACAGGACACCTTTTCTTTTTAAAGCTCGCACAAGTTGGTGGCACTTCCCAGTCCTCA
195 CTCAAAGAACAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTAGTCCTCA
*
1039483 AAGAGCAGGAT
260 AAGAGCAAGAT
* * *
1039494 GCTTTCTCCTTTTGCCCTTT-TTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGT
1 GCTTTCTCCTTTTACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
* * * *
1039558 GGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCA
66 GGCATTTTTTAGTCCTTAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCA
* * *
1039623 GTCCTCAAGGAGC-AGAACGCCTTTTCCTTTTAAAGCCTACGCAAGTTGGTGGCACTTTTCTGGT
131 GTCCTCAAGGAGCAAGAA--CCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAGT
* ** * * *
1039687 CCTCAAA-AAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTAGCACTTTTCTAGTCT
194 CCTCAAAGAA-CAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCAC-TTCCTAGTCC
1039751 TCAAAGAGCAAGA
257 TCAAAGAGCAAGA
1039764 CACCTTTTCC
Statistics
Matches: 500, Mismatches: 35, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
268 1 0.00
269 5 0.01
270 200 0.40
271 286 0.57
272 8 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (270 bp):
GCTTTCTCCTTTTACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
GGCATTTTTTAGTCCTTAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCA
GTCCTCAAGGAGCAAGAACCTTTTCCTTTTAAAGCCTACCCAAATTGGTGGCACTTTTCTAGTCC
TCAAAGAACAGGACGCCTTTTCTTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTAGTCCTCAA
AGAGCAAGAT
Done.