Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
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: 10737078
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 75620 characters in sequence are not A, C, G, or T
File 16 of 22
Found at i:6789898 original size:22 final size:20
Alignment explanation
Indices: 6789873--6789922 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
6789863 TATATCATTA
*
6789873 TTAATAAATAATAAAAATTTAT
1 TTAATAAA-AATAAAAA-TAAT
*
6789895 TTAATTTAAAATAAAAATAAT
1 TTAA-TAAAAATAAAAATAAT
6789916 TTAATAA
1 TTAATAA
6789923 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.29
22 12 0.50
23 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATAAAAATAAAAATAAT
Found at i:6789923 original size:24 final size:25
Alignment explanation
Indices: 6789878--6789925 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6789868 CATTATTAAT
*
6789878 AAATAATAAAAATTTATTTAATTTA
1 AAATAATAAAAATTTATATAATTTA
6789903 AAATAA-AAATAATTTA-ATAATTT
1 AAATAATAAA-AATTTATATAATTT
6789926 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATAATAAAAATTTATATAATTTA
Found at i:6794215 original size:38 final size:38
Alignment explanation
Indices: 6794164--6794240 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
6794154 TTGAGTGCAG
6794164 GATCCAATTGCAGTGTAAGTGAGAATTTGGCGTCTTAA
1 GATCCAATTGCAGTGTAAGTGAGAATTTGGCGTCTTAA
6794202 GATCCAATTGCAGTGTAAGTGAGAATTTGGCGTCTTAA
1 GATCCAATTGCAGTGTAAGTGAGAATTTGGCGTCTTAA
6794240 G
1 G
6794241 GTCACATCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (38 bp):
GATCCAATTGCAGTGTAAGTGAGAATTTGGCGTCTTAA
Found at i:6798773 original size:2 final size:2
Alignment explanation
Indices: 6798766--6798793 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6798756 AACCCATTGC
6798766 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6798794 AATGCCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6801833 original size:57 final size:57
Alignment explanation
Indices: 6801762--6801877 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
6801752 CTGATCTTAG
6801762 ATGCCAACAGGTTCTATTCAACTGTCTTTGTTGATTTTTCTTTCCCACAATTGAAAC
1 ATGCCAACAGGTTCTATTCAACTGTCTTTGTTGATTTTTCTTTCCCACAATTGAAAC
** *
6801819 ATGCCAATTGGTTCTATTCAACTGTCTTTGTTGATTTTTCTTTCCTACAATTGAAAC
1 ATGCCAACAGGTTCTATTCAACTGTCTTTGTTGATTTTTCTTTCCCACAATTGAAAC
6801876 AT
1 AT
6801878 ATTATTTACT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (57 bp):
ATGCCAACAGGTTCTATTCAACTGTCTTTGTTGATTTTTCTTTCCCACAATTGAAAC
Found at i:6803247 original size:41 final size:41
Alignment explanation
Indices: 6803186--6803271 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
6803176 GCTTTTGTCA
*
6803186 TTTGTATCAGTAGTTACCATTAAGATCTCTAGACGTGGTGT
1 TTTGTATCAGTAGTTACCATTAAGATCTCTAGACATGGTGT
* * * *
6803227 TTTGTATCAGTAGTTTCCATTAGGATTTCTTGACATGGTGT
1 TTTGTATCAGTAGTTACCATTAAGATCTCTAGACATGGTGT
6803268 TTTG
1 TTTG
6803272 CATGGAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.13, G:0.22, T:0.44
Consensus pattern (41 bp):
TTTGTATCAGTAGTTACCATTAAGATCTCTAGACATGGTGT
Found at i:6806717 original size:18 final size:18
Alignment explanation
Indices: 6806694--6806728 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6806684 GCAAAGAGCG
6806694 AAGAGAGGAAAAGAAAAA
1 AAGAGAGGAAAAGAAAAA
*
6806712 AAGAGAGGAATAGAAAA
1 AAGAGAGGAAAAGAAAA
6806729 GATTGATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (18 bp):
AAGAGAGGAAAAGAAAAA
Found at i:6810187 original size:2 final size:2
Alignment explanation
Indices: 6810182--6810206 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6810172 GTGTGAGCAT
6810182 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
6810207 TTTTGCAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6814219 original size:2 final size:2
Alignment explanation
Indices: 6814212--6814240 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6814202 GCTTAATCGA
6814212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6814241 GTTTTTAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6818964 original size:15 final size:15
Alignment explanation
Indices: 6818946--6818979 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6818936 CGCCGCCTGT
6818946 GGAGGAGACGAAGGC
1 GGAGGAGACGAAGGC
**
6818961 GGAGGAGGTGAAGGC
1 GGAGGAGACGAAGGC
6818976 GGAG
1 GGAG
6818980 CCTCCGTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.59, T:0.03
Consensus pattern (15 bp):
GGAGGAGACGAAGGC
Found at i:6836436 original size:3 final size:3
Alignment explanation
Indices: 6836418--6836674 Score: 71
Period size: 3 Copynumber: 86.7 Consensus size: 3
6836408 CCTTTTTATC
* *
6836418 CTT CTT CGTT -TT -TT CTT CTT CTC CTT GCCT -TT C-T CTT C-T CTCT
1 CTT CTT C-TT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CT-T
* * * * * *
6836461 CTT C-T CTT CTT -TT CTT CAT CTT CAT CTT TTT ACCT CAT CCT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT
* * *
6836505 -TAT CCTT CTT -TT CTTT CTT CTT C-T CTT CTT TTT CTT CAT CTT CAT
1 CT-T C-TT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * * * *
6836550 CTT TTT CTA CCT CAT CCT CTT -TAT CCTT CTT -TT CTTT CTT CTT C-T
1 CTT CTT CTT CTT CTT CTT CTT CT-T -CTT CTT CTT C-TT CTT CTT CTT
* * * *
6836595 CTT CTT TTT C-T CTT CGTT -TT CTT CAT CTT CAT CTT CTTT CCT CTT
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT C-TT CTT CTT
* *
6836640 C-T CTCT CTC CTT CTG CTT CTT -TT CTTT CTT CTT CT
1 CTT CT-T CTT CTT CTT CTT CTT CTT C-TT CTT CTT CT
6836675 CTTTCCCCCA
Statistics
Matches: 184, Mismatches: 40, Indels: 60
0.65 0.14 0.21
Matches are distributed among these distances:
2 31 0.17
3 123 0.67
4 28 0.15
5 2 0.01
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:6836467 original size:14 final size:13
Alignment explanation
Indices: 6836448--6836677 Score: 86
Period size: 12 Copynumber: 17.2 Consensus size: 13
6836438 CTCCTTGCCT
6836448 TTCTCTTCTCTCTC
1 TTCTCTTCT-TCTC
*
6836462 TTCTCTTCTTTTC
1 TTCTCTTCTTCTC
*
6836475 TTCATCTTCATCT-
1 TTC-TCTTCTTCTC
* * *
6836488 TTTTACCTCATCCTC
1 TTCT-CTTC-TTCTC
* *
6836503 TTTATCCTTCTTTTC
1 -TTCT-CTTCTTCTC
6836518 TT-TCTTCTTCTC
1 TTCTCTTCTTCTC
*
6836530 TTCTTTTTCTTCATC
1 TTC-TCTTCTTC-TC
6836545 TTCATCTT-TT-TC
1 TTC-TCTTCTTCTC
* * *
6836557 TACCTCATCCTCT-
1 T-TCTCTTCTTCTC
* *
6836570 TTATCCTTCTTTTC
1 TTCT-CTTCTTCTC
6836584 TT-TCTTCTTCTC
1 TTCTCTTCTTCTC
6836596 TTCT-TT-TTCTC
1 TTCTCTTCTTCTC
*
6836607 TTCGTTTTCTTCATC
1 TTC-TCTTCTTC-TC
6836622 TTCATCTTCTTTCCTC
1 TTC-TCTTC-TT-CTC
6836638 TTCTC-TC-TCTCC
1 TTCTCTTCTTCT-C
*
6836650 TTCTGCTTCTTTTC
1 TTCT-CTTCTTCTC
6836664 TT-TCTTCTTCTC
1 TTCTCTTCTTCTC
6836676 TT
1 TT
6836678 TCCCCCACTG
Statistics
Matches: 163, Mismatches: 29, Indels: 50
0.67 0.12 0.21
Matches are distributed among these distances:
11 10 0.06
12 47 0.29
13 26 0.16
14 42 0.26
15 24 0.15
16 13 0.08
17 1 0.01
ACGTcount: A:0.05, C:0.33, G:0.01, T:0.61
Consensus pattern (13 bp):
TTCTCTTCTTCTC
Found at i:6836547 original size:92 final size:91
Alignment explanation
Indices: 6836336--6836529 Score: 222
Period size: 91 Copynumber: 2.2 Consensus size: 91
6836326 TGAGCTTTCT
* * * * *
6836336 TTCTTTTTTCTTCTCC-TCCTCTTTGTCTT-TCT-TTTTCTCTCTTTTTCTACATCTTTTCTTCT
1 TTCTTTCTTCTTCTCCTTGC-CTTTCTCTTCTCTCTCTTCTCTCTTTTTCTACATCTTATCTTCT
* *
6836398 TCTACCTCGTCCTTTTTATCCTTCTTC
65 TCTACCTCATCCTCTTTATCCTTCTTC
* *
6836425 GTTTTTTCTTCTTCTCCTTGCCTTTCTCTTCTCTCTCTTCTCT-TCTTTTCTTCATCTTCATCTT
1 -TTCTTTCTTCTTCTCCTTGCCTTTCTCTTCTCTCTCTTCTCTCT-TTTTCTACATCTT-ATCTT
6836489 -TT-TACCTCATCCTCTTTATCCTTCTT-
63 CTTCTACCTCATCCTCTTTATCCTTCTTC
6836515 TTCTTTCTTCTTCTC
1 TTCTTTCTTCTTCTC
6836530 TTCTTTTTCT
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
89 14 0.16
90 22 0.25
91 28 0.31
92 21 0.24
93 4 0.04
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.61
Consensus pattern (91 bp):
TTCTTTCTTCTTCTCCTTGCCTTTCTCTTCTCTCTCTTCTCTCTTTTTCTACATCTTATCTTCTT
CTACCTCATCCTCTTTATCCTTCTTC
Found at i:6836578 original size:66 final size:64
Alignment explanation
Indices: 6836481--6836605 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 64
6836471 TTTCTTCATC
6836481 TTCATCTTTTTACCTCATCCTCTTTATCCTTCTTTTCTTTCTTCTTCTCTTCTTTTTCTTCATC
1 TTCATCTTTTTACCTCATCCTCTTTATCCTTCTTTTCTTTCTTCTTCTCTTCTTTTTCTTCATC
6836545 TTCATCTTTTTCTACCTCATCCTCTTTATCCTTCTTTTCTTTCTTCTTCTCTTCTTTTTCT
1 TTCATC-TTTT-TACCTCATCCTCTTTATCCTTCTTTTCTTTCTTCTTCTCTTCTTTTTCT
6836606 CTTCGTTTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 6 0.10
65 4 0.07
66 49 0.83
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (64 bp):
TTCATCTTTTTACCTCATCCTCTTTATCCTTCTTTTCTTTCTTCTTCTCTTCTTTTTCTTCATC
Found at i:6836600 original size:77 final size:77
Alignment explanation
Indices: 6836364--6836677 Score: 238
Period size: 77 Copynumber: 4.0 Consensus size: 77
6836354 CTCTTTGTCT
* * * * *
6836364 TTCTTTTTCTC-TCTTTTTCTACATCTT-TTCTTCTTCTACCTCGTCCTTTTTATCCTTCTTCGT
1 TTCTTTTTCTCTTCTTTTTCTTCATCTTCATCTTTTTCTACCTCATCCTCTTTATCCTTCTT--T
*
6836427 TTTTTCTTCTTCTCC
64 TCTTTCTTCTTCT-C
* * * * * *
6836442 TTGC-CTTTCTCTTCTCTCTCTTC-TCTTC-T-TTTCTTC-ATCTTCAT-CTTTTTACCTCATCC
1 TT-CTTTTTCTCTTCTTTTTCTTCATCTTCATCTTT-TTCTA-CCTCATCCTCTTTA--TC--CT
*
6836501 TCTTTATCCTTCTT-TTCT-
59 TCTTT-TCTTTCTTCTTCTC
*
6836519 TTCTTCTTCTCTTCTTTTTCTTCATCTTCATCTTTTTCTACCTCATCCTCTTTATCCTTCTTTTC
1 TTCTTTTTCTCTTCTTTTTCTTCATCTTCATCTTTTTCTACCTCATCCTCTTTATCCTTCTTTTC
6836584 TTTCTTCTTCTC
66 TTTCTTCTTCTC
* * * *
6836596 TTCTTTTTCTCTTCGTTTTCTTCATCTTCATCTTCTTTCCT-CTTCTC-TCTCTCCTTCTGCTTC
1 TTCTTTTTCTCTTCTTTTTCTTCATCTTCATCTT-TTT-CTAC--CTCATC-CTCTTTATCCTTC
6836659 TTTTCTTTCTTCTTCTC
61 TTTTCTTTCTTCTTCTC
6836676 TT
1 TT
6836678 TCCCCCACTG
Statistics
Matches: 190, Mismatches: 23, Indels: 44
0.74 0.09 0.17
Matches are distributed among these distances:
75 7 0.04
76 11 0.06
77 59 0.31
78 31 0.16
79 29 0.15
80 48 0.25
81 5 0.03
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.61
Consensus pattern (77 bp):
TTCTTTTTCTCTTCTTTTTCTTCATCTTCATCTTTTTCTACCTCATCCTCTTTATCCTTCTTTTC
TTTCTTCTTCTC
Found at i:6836605 original size:11 final size:11
Alignment explanation
Indices: 6836575--6836616 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
6836565 CCTCTTTATC
6836575 CTTC-TTTTCT
1 CTTCTTTTTCT
*
6836585 -TTCTTCTTCT
1 CTTCTTTTTCT
6836595 CTTCTTTTTCT
1 CTTCTTTTTCT
*
6836606 CTTCGTTTTCT
1 CTTCTTTTTCT
6836617 TCATCTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 3 0.11
10 5 0.19
11 19 0.70
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:6836630 original size:32 final size:31
Alignment explanation
Indices: 6836495--6836633 Score: 99
Period size: 31 Copynumber: 4.4 Consensus size: 31
6836485 TCTTTTTACC
* *
6836495 TCATCCTCTTTATCCTTCTTTTCTTTCTTCT
1 TCATCTTCTTTATCCTTCTTTTCTTTCATCT
* *
6836526 TC-TCTTCTTT-TTCTTCATCTTCATCTTTTTC-TACC
1 TCATCTTCTTTATCCTTC-T-TT--TC--TTTCAT-CT
* *
6836561 TCATCCTCTTTATCCTTCTTTTCTTTCTTCT
1 TCATCTTCTTTATCCTTCTTTTCTTTCATCT
*
6836592 TC-TCTTCTTTTTCTCTTCGTTTTC-TTCATCT
1 TCATCTTCTTTATC-CTTC-TTTTCTTTCATCT
6836623 TCATCTTCTTT
1 TCATCTTCTTT
6836634 CCTCTTCTCT
Statistics
Matches: 86, Mismatches: 9, Indels: 25
0.72 0.08 0.21
Matches are distributed among these distances:
29 5 0.06
30 17 0.20
31 23 0.27
32 14 0.16
33 4 0.05
34 1 0.01
35 9 0.10
36 8 0.09
37 5 0.06
ACGTcount: A:0.06, C:0.31, G:0.01, T:0.62
Consensus pattern (31 bp):
TCATCTTCTTTATCCTTCTTTTCTTTCATCT
Found at i:6836639 original size:31 final size:31
Alignment explanation
Indices: 6836575--6836679 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 31
6836565 CCTCTTTATC
* *
6836575 CTTCTTTTCTTTCTTCTTCTCTTCTTTTTCT
1 CTTCTTTTCTTTCATCTTCTCTTCTTTTCCT
6836606 CTTCGTTTTC-TTCATCTTCATCTTC-TTTCCT
1 CTTC-TTTTCTTTCATCTTC-TCTTCTTTTCCT
* * *
6836637 CTTC-TCTCTCTC--CTTCTGCTTCTTTTCTTT
1 CTTCTTTTCTTTCATCTTCT-CTTCTTTTC-CT
*
6836667 CTTCTTCTCTTTC
1 CTTCTTTTCTTTC
6836680 CCCCACTGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
27 1 0.02
28 8 0.13
29 7 0.11
30 7 0.11
31 28 0.46
32 10 0.16
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (31 bp):
CTTCTTTTCTTTCATCTTCTCTTCTTTTCCT
Found at i:6836768 original size:21 final size:21
Alignment explanation
Indices: 6836702--6836786 Score: 59
Period size: 21 Copynumber: 4.1 Consensus size: 21
6836692 TCTTTTTTTT
6836702 CTCTTTCTTC-TCTCC-TCTTC
1 CTCTTTCTTCTTCTCCTTC-TC
* ** *
6836722 CTC-TTCATCCTTCAGCTTCTT
1 CTCTTTC-TTCTTCTCCTTCTC
*
6836743 TTCTTTCTTCTTCTCCTTCTC
1 CTCTTTCTTCTTCTCCTTCTC
* * *
6836764 CTCTTTGTTTTTCTTCTTCTC
1 CTCTTTCTTCTTCTCCTTCTC
6836785 CT
1 CT
6836787 TCCTCTTGTT
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
19 3 0.06
20 5 0.10
21 35 0.73
22 5 0.10
ACGTcount: A:0.02, C:0.38, G:0.02, T:0.58
Consensus pattern (21 bp):
CTCTTTCTTCTTCTCCTTCTC
Found at i:6836801 original size:21 final size:24
Alignment explanation
Indices: 6836746--6836813 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 24
6836736 GCTTCTTTTC
6836746 TTTCTTCTTCTCCTTCTCCTCTTTGTT
1 TTTCTTCTTCTCC-T-TCCTCTTTG-T
6836773 TTTCTTCTTCTCCTTCCTC-TTGTT
1 TTTCTTCTTCTCCTTCCTCTTTG-T
6836797 TTTCTTCTTCTTCCTTC
1 TTTCTTCTTC-TCCTTC
6836814 TCCTCTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 15 0.38
25 11 0.28
26 1 0.03
27 13 0.32
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (24 bp):
TTTCTTCTTCTCCTTCCTCTTTGT
Found at i:6836824 original size:24 final size:24
Alignment explanation
Indices: 6836744--6836824 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
6836734 CAGCTTCTTT
6836744 TCTTTCTTCTTC-TCCTTCTCCTC
1 TCTTTCTTCTTCTTCCTTCTCCTC
* * * *
6836767 TTTGTTTTTCTTCTTCTCCTTCCTCTTG
1 TCT-TTCTTCTTC-T-TCCTT-CTCCTC
*
6836795 TTTTTCTTCTTCTTCCTTCTCCTC
1 TCTTTCTTCTTCTTCCTTCTCCTC
6836819 TCTTTC
1 TCTTTC
6836825 CCTTCATCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
23 2 0.04
24 17 0.38
25 5 0.11
26 1 0.02
27 13 0.29
28 7 0.16
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (24 bp):
TCTTTCTTCTTCTTCCTTCTCCTC
Found at i:6836898 original size:21 final size:21
Alignment explanation
Indices: 6836873--6836916 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
6836863 TTTCTTTCTT
*
6836873 TTTCTCCTTATCCTCCTTGTC
1 TTTCTCCTTATCCTCCTTATC
* * *
6836894 TTTCTTCTTTTCCTTCTTATC
1 TTTCTCCTTATCCTCCTTATC
6836915 TT
1 TT
6836917 CTGCCTCTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTCTCCTTATCCTCCTTATC
Found at i:6836996 original size:102 final size:101
Alignment explanation
Indices: 6836773--6837199 Score: 355
Period size: 108 Copynumber: 4.3 Consensus size: 101
6836763 CCTCTTTGTT
* ** *
6836773 TTTCTTCTTCTCC-TTCCT-CTTGTTTTTCTTCTTCTTCCTTCTCCTC-TCTTTCC-CTTCATCA
1 TTTCTTCTTCTCCTTTCCTCCTTGTCTTTCTTCTTCTTCCTTCTTATCTTC-TTCCTCTTCATCT
6836834 TCTTCTACCTCAG--CCTCTATCC-TGT--TTCTTTTC
65 TCTTCTACCTCAGCTCCT-TATCCTTGTGCTTCTTTTC
* *
6836867 TTTCTTTTTCTCCTTATCCTCCTTGTCTTTCTTCTT-TTCCTTCTTATCTTCTGCCTCTTCATCT
1 TTTCTTCTTCTCCTT-TCCTCCTTGTCTTTCTTCTTCTTCCTTCTTATCTTCTTCCTCTTCATCT
*
6836931 TCTTCTACCTCATGCTCCTTATCCTTGTGCTTCTTTGC
65 TCTTCTACCTCA-GCTCCTTATCCTTGTGCTTCTTTTC
* * **
6836969 TTTCTTTTTCTCCTTCTCCTCCTTGTCTTTCTTCTTCTTCTTCTTCTTCTTCTCATCTTTTTCTT
1 TTTCTTCTTCTCCTT-TCCTCCTTGTCTTTCTTCTTCTTC--CTTCTT-ATCT--TCTTCCTCTT
* * * * *
6837034 CATCTTCCTCAACCTCAACCTCTTTATCCTTGTGCTTTTTTTC
60 CATCTTCTTCTACCTC-AGCTCCTTATCCTTGTGCTTCTTTTC
* *
6837077 GTTT-TTCTTCTCCTTGTCTTCC-T-TCTTT-TTCTTC-T-CTTC-TATC-TCTTCATCTTCATC
1 -TTTCTTCTTCTCCTT-TCCTCCTTGTCTTTCTTCTTCTTCCTTCTTATCTTCTTCCTCTTCATC
* * * * *
6837134 TTCTTCTA-C-CACCTCTTTATCCTTATGATTTTTTTC
64 TTCTTCTACCTCAGCTCCTTATCCTTGTGCTTCTTTTC
6837170 -TT-TT-TTCT-CTTT-CTCCTTGTCTTTCTTCTT
1 TTTCTTCTTCTCCTTTCCTCCTTGTCTTTCTTCTT
6837200 TGTTTTTTCC
Statistics
Matches: 282, Mismatches: 29, Indels: 48
0.79 0.08 0.13
Matches are distributed among these distances:
87 3 0.01
88 2 0.01
89 8 0.03
90 9 0.03
91 4 0.01
93 24 0.09
94 13 0.05
95 2 0.01
96 35 0.12
97 35 0.12
98 1 0.00
99 7 0.02
100 7 0.02
101 4 0.01
102 42 0.15
103 3 0.01
104 1 0.00
105 12 0.04
106 8 0.03
107 1 0.00
108 57 0.20
109 4 0.01
ACGTcount: A:0.06, C:0.33, G:0.04, T:0.57
Consensus pattern (101 bp):
TTTCTTCTTCTCCTTTCCTCCTTGTCTTTCTTCTTCTTCCTTCTTATCTTCTTCCTCTTCATCTT
CTTCTACCTCAGCTCCTTATCCTTGTGCTTCTTTTC
Found at i:6837003 original size:3 final size:3
Alignment explanation
Indices: 6836997--6837040 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
6836987 CTCCTTGTCT
* * *
6836997 TTC TTC TTC TTC TTC TTC TTC TTC -TC ATC TTT TTC TTC ATC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6837041 CTCAACCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:6839479 original size:69 final size:69
Alignment explanation
Indices: 6839374--6839578 Score: 189
Period size: 69 Copynumber: 2.8 Consensus size: 69
6839364 GAGTTCGGGT
* * * *
6839374 AATAACATAAATATTTTAGATTCGATCCAAAATTTATAGGATATACACAAATTATTTCATATGTT
1 AATAACATATATATGTTAGATTCAATTCAAAATTTATAGGATATACACAAATTATTTCATATGTT
6839439 TATA
66 TATA
* * * *
6839443 AATAATATATATATGTTAGATTCAATTCAAATTTTATAAGATATACAGGAATTATTTTGTATTTA
1 AATAACATATATATGTTAGATTCAATTCAAAATTTATAGGATATACA-CAA--A---T-TA--T-
* *
6839508 TTAATATGTTTGTA
56 TTCATATGTTTATA
* *
6839522 AATAGC-TATATA-GTTTAGATTCAATTCAAACTTTATAGGATATACACAAATTATTTC
1 AATAACATATATATG-TTAGATTCAATTCAAAATTTATAGGATATACACAAATTATTTC
6839579 GTATTTATTG
Statistics
Matches: 109, Mismatches: 16, Indels: 23
0.74 0.11 0.16
Matches are distributed among these distances:
68 2 0.02
69 41 0.38
70 2 0.02
71 2 0.02
72 2 0.02
75 2 0.02
76 2 0.02
77 3 0.03
78 37 0.34
79 16 0.15
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (69 bp):
AATAACATATATATGTTAGATTCAATTCAAAATTTATAGGATATACACAAATTATTTCATATGTT
TATA
Found at i:6839557 original size:78 final size:79
Alignment explanation
Indices: 6839432--6839597 Score: 228
Period size: 78 Copynumber: 2.1 Consensus size: 79
6839422 AAATTATTTC
* **
6839432 ATATGTTTATAAATAATATATATATGTTAGATTCAATTCAAATTTTATAAGATATACAGGAATTA
1 ATATGTTTATAAATAATATATATATGTTAGATTCAATTCAAACTTTATAAGATATACACAAATTA
*
6839497 TTTTGTATTTATTA
66 TTTCGTATTTATTA
* ** *
6839511 ATATGTTTGTAAAT-AGCTATATA-GTTTAGATTCAATTCAAACTTTATAGGATATACACAAATT
1 ATATGTTTATAAATAATATATATATG-TTAGATTCAATTCAAACTTTATAAGATATACACAAATT
*
6839574 ATTTCGTATTTATTG
65 ATTTCGTATTTATTA
6839589 ATATGTTTA
1 ATATGTTTA
6839598 ATTGGATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
77 1 0.01
78 62 0.82
79 13 0.17
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (79 bp):
ATATGTTTATAAATAATATATATATGTTAGATTCAATTCAAACTTTATAAGATATACACAAATTA
TTTCGTATTTATTA
Found at i:6840779 original size:25 final size:25
Alignment explanation
Indices: 6840731--6840779 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6840721 TATATATTAA
* * *
6840731 TAATATTTAAATATTTTTTTAAAAG
1 TAATATTTAAATATTATCTAAAAAG
*
6840756 TAATATTTTAATATTATCTAAAAA
1 TAATATTTAAATATTATCTAAAAA
6840780 AAAATTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TAATATTTAAATATTATCTAAAAAG
Found at i:6840794 original size:12 final size:12
Alignment explanation
Indices: 6840777--6840801 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6840767 TATTATCTAA
6840777 AAAAAAATTTAT
1 AAAAAAATTTAT
6840789 AAAAAAATTTAT
1 AAAAAAATTTAT
6840801 A
1 A
6840802 TATTAGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAAATTTAT
Found at i:6841155 original size:30 final size:32
Alignment explanation
Indices: 6841105--6841163 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
6841095 ATTGAAAAAT
*
6841105 ATATATTTGATAATATTTTTACTA-ATATTATC
1 ATATAATTGATAATATTTTTA-TATATATTATC
6841137 ATATAATT-ATAAT-TTTTTATATATATT
1 ATATAATTGATAATATTTTTATATATATT
6841164 TTTACTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 11 0.44
31 5 0.20
32 7 0.28
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (32 bp):
ATATAATTGATAATATTTTTATATATATTATC
Found at i:6842249 original size:18 final size:18
Alignment explanation
Indices: 6842226--6842273 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
6842216 GATTCATTAG
6842226 TTCGTGATATGTCACTAC
1 TTCGTGATATGTCACTAC
*
6842244 TTCGTGATATGTTACTAC
1 TTCGTGATATGTCACTAC
*
6842262 TTCATGATATGT
1 TTCGTGATATGT
6842274 AACCAATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
TTCGTGATATGTCACTAC
Found at i:6862465 original size:3 final size:3
Alignment explanation
Indices: 6862457--6862499 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
6862447 ATGGTTTGAA
* * * *
6862457 TAT TAT TAT GAT GAT GAT TAT TAT TAT TAT GAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6862500 TTGAAATCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6862496 original size:15 final size:15
Alignment explanation
Indices: 6862458--6862499 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
6862448 TGGTTTGAAT
* *
6862458 ATTATTATGATGATG
1 ATTATTATTATTATG
6862473 ATTATTATTATTATG
1 ATTATTATTATTATG
6862488 ATTATTATTATT
1 ATTATTATTATT
6862500 TTGAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
ATTATTATTATTATG
Found at i:6876314 original size:310 final size:311
Alignment explanation
Indices: 6875743--6876355 Score: 806
Period size: 310 Copynumber: 2.0 Consensus size: 311
6875733 ATTTAAAGTG
* *
6875743 TATATATATTAAAAATATTTTAATATATATGAAATAGTAATTATACTTCATATAAATGAACTCAG
1 TATATATAATAAAAATATTTTAATATATAT-AAATAGTAATTATACTTCATATAAATAAACTCAG
* * *
6875808 AATAAATAAAGTATACATATTAAAAGAGACTAATAGTCAATTAATAATCATAGTTTCATTAATTA
65 AATAAATAAAATATACATATTAAAAGAGACTAATAGTCAATTAATAATCATAATTTCATAAATTA
*
6875873 ATTTAATTAACTATATAAATTTATCCTTAATTATATGAAATTAAAAAAAAAACTAAATTTCAAAA
130 ATTTAATTAACTATATAAATTTATCCTTAATTACATGAAATTAAAAAAAAAACTAAATTTCAAAA
* ** *
6875938 CTATTCTAATCTCGTAACTTCTCTTTAGATATATATATTATAAGTTTATATAAACAAAAGTATAT
195 CTAATCTAATCTCACAACTTCTCTTTAGATATATATATTATAAGTTTATATAAACAAAACTATAT
* * *
6876003 ATATTGTAATAAATAATATTATAGGTTATAATTTTTGTAATATTAAAGTACA
260 ATAATATAATAAATAATATTATAAGTTATAATTTTTGTAATATTAAAGTACA
* *
6876055 TATATATAATAAAAATATTTTAATATATAT-AATAGTAATTATATTTCTTATAAATAAA-TCTA-
1 TATATATAATAAAAATATTTTAATATATATAAATAGTAATTATACTTCATATAAATAAACTC-AG
* * * * * * * * *
6876117 ATATACATAAAATATATATATTACAAGATATTACTATTTAATTAATAATTATAATTTCATAAATT
65 A-ATAAATAAAATATACATATTAAAAGAGACTAATAGTCAATTAATAATCATAATTTCATAAATT
* * * * *
6876182 AATTTAATTAACTCTATGAGTTTATCCTTAATTACATGAAATTTAATAAAAATAACTAGATTTCA
129 AATTTAATTAACTATATAAATTTATCCTTAATTACATGAAA-TTAA-AAAAAAAACTAAATTTCA
* * * *
6876247 AAACTAATCTAATCTTACAACTTCTCTTTA-AGTTTATATATTATCAGTTTATA-AAA-ACAACT
192 AAACTAATCTAATCTCACAACTTCTCTTTAGA-TATATATATTATAAGTTTATATAAACAAAACT
* * *
6876309 ATATATAATATAATTAATACTTTTATAAGTTATAATTTTTGTAATAT
256 ATATATAATATAATAAATAATATTATAAGTTATAATTTTTGTAATAT
6876356 GAACACAAAA
Statistics
Matches: 260, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
309 3 0.01
310 159 0.61
311 8 0.03
312 90 0.35
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (311 bp):
TATATATAATAAAAATATTTTAATATATATAAATAGTAATTATACTTCATATAAATAAACTCAGA
ATAAATAAAATATACATATTAAAAGAGACTAATAGTCAATTAATAATCATAATTTCATAAATTAA
TTTAATTAACTATATAAATTTATCCTTAATTACATGAAATTAAAAAAAAAACTAAATTTCAAAAC
TAATCTAATCTCACAACTTCTCTTTAGATATATATATTATAAGTTTATATAAACAAAACTATATA
TAATATAATAAATAATATTATAAGTTATAATTTTTGTAATATTAAAGTACA
Found at i:6876743 original size:346 final size:341
Alignment explanation
Indices: 6876042--6876749 Score: 876
Period size: 347 Copynumber: 2.1 Consensus size: 341
6876032 AATTTTTGTA
*
6876042 ATATTAAAGTACATATATATAATAAAAATATTTTAATATATATAATAGTAATTATATTTCTTATA
1 ATATTAAAGTATATATATATAATAAAAATATTTTAATATATATAATAGTAATTATATTTCTTATA
* * * * *
6876107 AATAAATCTAATATACATAAAATATATATATTACAAGATATTACTATTTAATTAATAATTATAAT
66 AATAAATCTAATATA-ATAAAATATATATATTAAAAGACATTACAAGTTAATTAATAATCATAAT
*
6876172 TTCATAAATTAATTTAATTAACTCTATGAGTTTATCCTTAATTACATGAAATTTAATAAAAATAA
130 TTCATAAATTAATTTAATTAACTATATGAGTTTATCCTTAATTACATGAAATTTAATAAAAATAA
* * * * * *
6876237 CTAGATTTCAAAACTAATCTAATCTTACAACTTCTCTTTAAGTTTATATATTATCAGTTTATAAA
195 CTAGACTTCAAAACTAATCTAATCTCAAAACTTCTCTTTAAATATATATATTATAAGTTTATAAA
* *
6876302 AACAACTATATATAATATAATTAATACTTTTATAAGTTATAATTTTTGTAATATGAACACAAAAT
260 AACAACTAAATATAATATAATTAATAATTTTATAAGTTATAATTTTTGTAATATGAACACAAAAT
*
6876367 AGAAAGTAAAAATATTT
325 AGAAAATAAAAATATTT
*
6876384 ATATTTAAAGTATATATATATGTACACTAAAAATATTTTAGTGTATATATAATAGTAATTATATT
1 ATA-TTAAAGTATATATATA--TA-A-TAAAAATATTTTA--ATATATATAATAGTAATTATATT
* *
6876449 TTTTATAAATTAACA-C-AATAT-ATAAACTATATATATTAAAAGACATTACAAGTTAATTAATA
59 TCTTATAAA-TAA-ATCTAATATAATAAAATATATATATTAAAAGACATTACAAGTTAATTAATA
* * * * *
6876511 ATCATACTTTCATGAATTAATTTAATTAACTATATTGA-TTTGTCTTTAATTTCATGAAA-TTAA
122 ATCATAATTTCATAAATTAATTTAATTAACTATA-TGAGTTTATCCTTAATTACATGAAATTTAA
* * * * *
6876574 -AAGAATAATTAG-CTTCCAAACTATTTTAATCTCAAAAGCTT-TCTTTAAATATATATATTATA
186 TAAAAATAACTAGACTTCAAAACTAATCTAATCTCAAAA-CTTCTCTTTAAATATATATATTATA
* * * * * *
6876636 AGTTTATATAAACAATGGTAAATATATTTTAATTAATAATTTTATAAGTTATATTTTTTGTAATG
250 AGTTTATAAAAACAA--CTAAATATAATATAATTAATAATTTTATAAGTTATAATTTTTGTAATA
* *
6876701 TTAACACAAAATTA-AAAATAAATATATTT
313 TGAACACAAAA-TAGAAAATAAAAATATTT
6876730 ATATTAAAAGTATATATATA
1 ATATT-AAAGTATATATATA
6876750 ATAGTAATTA
Statistics
Matches: 314, Mismatches: 37, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
342 3 0.01
343 15 0.05
344 51 0.16
345 17 0.05
346 86 0.27
347 99 0.32
348 3 0.01
349 35 0.11
350 4 0.01
351 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (341 bp):
ATATTAAAGTATATATATATAATAAAAATATTTTAATATATATAATAGTAATTATATTTCTTATA
AATAAATCTAATATAATAAAATATATATATTAAAAGACATTACAAGTTAATTAATAATCATAATT
TCATAAATTAATTTAATTAACTATATGAGTTTATCCTTAATTACATGAAATTTAATAAAAATAAC
TAGACTTCAAAACTAATCTAATCTCAAAACTTCTCTTTAAATATATATATTATAAGTTTATAAAA
ACAACTAAATATAATATAATTAATAATTTTATAAGTTATAATTTTTGTAATATGAACACAAAATA
GAAAATAAAAATATTT
Found at i:6878341 original size:13 final size:13
Alignment explanation
Indices: 6878310--6878349 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6878300 AATTCAAAAG
6878310 TTTTTTAAAATAT
1 TTTTTTAAAATAT
**
6878323 CCTTTTAAAATAT
1 TTTTTTAAAATAT
*
6878336 TTTTTTAAAGTAT
1 TTTTTTAAAATAT
6878349 T
1 T
6878350 ATAACATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTTTTAAAATAT
Found at i:6880651 original size:30 final size:31
Alignment explanation
Indices: 6880593--6880652 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
6880583 GTTGGTCATC
6880593 AGAGTTTATTTGATTCAAAATAAAAAGTATT
1 AGAGTTTATTTGATTCAAAATAAAAAGTATT
6880624 AGAGTTTATTTGATTCAAAAT-AAAAGTAT
1 AGAGTTTATTTGATTCAAAATAAAAAGTAT
6880653 AAAGGCTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.38
Consensus pattern (31 bp):
AGAGTTTATTTGATTCAAAATAAAAAGTATT
Found at i:6883642 original size:3 final size:3
Alignment explanation
Indices: 6883634--6883659 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6883624 TGCGCTCGAA
6883634 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6883660 ACATAAAAAT
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:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6892136 original size:19 final size:22
Alignment explanation
Indices: 6892095--6892136 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6892085 TAATTTTAAA
6892095 AATTTTAAAATATATACATAAT
1 AATTTTAAAATATATACATAAT
6892117 AATTTT-AAATAT-TACA-AAT
1 AATTTTAAAATATATACATAAT
6892136 A
1 A
6892137 TATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 6 0.30
22 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTAAAATATATACATAAT
Found at i:6923073 original size:2 final size:2
Alignment explanation
Indices: 6923068--6923094 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6923058 TTTTGCTTCA
6923068 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 A
6923095 AATTTAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6926357 original size:13 final size:13
Alignment explanation
Indices: 6926339--6926364 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6926329 ATAAGATTAT
6926339 AATTAAAATAAAA
1 AATTAAAATAAAA
6926352 AATTAAAATAAAA
1 AATTAAAATAAAA
6926365 TATATAATAT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATTAAAATAAAA
Found at i:6926393 original size:31 final size:30
Alignment explanation
Indices: 6926336--6926402 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
6926326 TTTATAAGAT
6926336 TATAATTAAAATAAAAAATTAAAATAAAATA
1 TATAATTAAAATAAAAAATT-AAATAAAATA
*
6926367 TATAATATAAGAATCAAAAATT-AATAAAATA
1 TATAAT-TAA-AATAAAAAATTAAATAAAATA
*
6926398 AATAA
1 TATAA
6926403 AAATTAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 19 0.59
32 3 0.09
33 10 0.31
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (30 bp):
TATAATTAAAATAAAAAATTAAATAAAATA
Found at i:6926488 original size:31 final size:32
Alignment explanation
Indices: 6926436--6926515 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
6926426 TAAAACAAAT
* * *
6926436 TAAAATAAAAT-ATATATATAAAAATATATTAA
1 TAAAAAAAAATAAAATA-ATAAAAATATAATAA
*
6926468 -AAAAAAAAATAAAATAATAAAATTATAATAA
1 TAAAAAAAAATAAAATAATAAAAATATAATAA
*
6926499 TAAATAAAAATAAAATA
1 TAAAAAAAAATAAAATA
6926516 TATGACATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 22 0.54
32 19 0.46
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (32 bp):
TAAAAAAAAATAAAATAATAAAAATATAATAA
Found at i:6926513 original size:32 final size:31
Alignment explanation
Indices: 6926453--6926515 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
6926443 AAATATATAT
*
6926453 ATAAAAATATATTAAAAAAAAAAATAAAATA
1 ATAAAAATATAATAAAAAAAAAAATAAAATA
* *
6926484 ATAAAATTATAATAATAAATAAAAATAAAATA
1 ATAAAAATATAATAA-AAAAAAAAATAAAATA
6926516 TATGACATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (31 bp):
ATAAAAATATAATAAAAAAAAAAATAAAATA
Found at i:6926636 original size:107 final size:109
Alignment explanation
Indices: 6926473--6926801 Score: 528
Period size: 108 Copynumber: 3.0 Consensus size: 109
6926463 ATTAAAAAAA
6926473 AAAATAAAATAATAAAAT-TATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
1 AAAA-AAAAT-ATAAAATATATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
6926537 AAGATATGATA-TATATAAAAATTAATAATATAAATATAAATATATT
64 AAGATATGATATTATATAAAAATTAATAATATAAA-ATAAATATATT
6926583 AAAAAAAATATAAAATAT-TAATAAT-AATAAAAATAAAATATATGACATTAAAAATATA-TTAA
1 AAAAAAAATATAAAATATATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTAA
*
6926645 GATATGATATTATATAAAAATTAAATAA-ATATAATAAATATATT
66 GATATGATATTATATAAAAATT-AATAATATAAAATAAATATATT
*
6926689 AAAAATAA-ATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTA
1 AAAAAAAATATAAAATA-TATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTA
*
6926753 AGATATGATATTATATAAAAATTAATAATAAAAAATAAAATATATT
65 AGATATGATATTATATAAAAATTAATAATATAAAAT-AAATATATT
6926799 AAA
1 AAA
6926802 CTTGTATTTT
Statistics
Matches: 206, Mismatches: 4, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
105 8 0.04
106 32 0.16
107 56 0.27
108 57 0.28
109 37 0.18
110 16 0.08
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (109 bp):
AAAAAAAATATAAAATATATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTAA
GATATGATATTATATAAAAATTAATAATATAAAATAAATATATT
Found at i:6926664 original size:29 final size:27
Alignment explanation
Indices: 6926632--6926773 Score: 85
Period size: 28 Copynumber: 5.1 Consensus size: 27
6926622 ATATGACATT
*
6926632 AAAAATATATTAAGATATGATATTATATA
1 AAAAATA-AATAA-ATATGATATTATATA
* * * *
6926661 AAAATTAAATAAATATAATAAATATATT
1 AAAAATAAATAAATATGAT-ATTATATA
* *
6926689 AAAAATAAATAAAATATTATAATA-ATA
1 AAAAATAAAT-AAATATGATATTATATA
* * *
6926716 AATAA-AAATAAA-AT-ATATGACATTA
1 AAAAATAAATAAATATGATATTATA-TA
**
6926741 AAAATATATTTAAGATATGATATTATATA
1 AAAA-ATAAATAA-ATATGATATTATATA
6926770 AAAA
1 AAAA
6926774 TTAATAATAA
Statistics
Matches: 88, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
23 4 0.05
24 3 0.03
25 8 0.09
26 5 0.06
27 16 0.18
28 24 0.27
29 22 0.25
30 6 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAATAAATAAATATGATATTATATA
Found at i:6926672 original size:11 final size:10
Alignment explanation
Indices: 6926658--6926727 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 10
6926648 ATGATATTAT
6926658 ATAAAAATTAA
1 ATAAAAA-TAA
*
6926669 ATAAATAT-A
1 ATAAAAATAA
*
6926678 ATAAATAT-A
1 ATAAAAATAA
*
6926687 TTAAAAATAA
1 ATAAAAATAA
*
6926697 AT-AAAATATT
1 ATAAAAATA-A
*
6926707 ATAATAATAA
1 ATAAAAATAA
6926717 ATAAAAATAA
1 ATAAAAATAA
6926727 A
1 A
6926728 ATATATGACA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 22 0.46
10 15 0.31
11 11 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:6926698 original size:24 final size:25
Alignment explanation
Indices: 6926666--6926733 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 25
6926656 ATATAAAAAT
6926666 TAAATAAATATAATAAATATATTAA
1 TAAATAAATATAATAAATATATTAA
* * *
6926691 -AAATAAATAAAAT-ATTATAATAA
1 TAAATAAATATAATAAATATATTAA
*
6926714 TAAATAAAAAT-A-AAATATAT
1 TAAATAAATATAATAAATATAT
6926734 GACATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAATAAATATAATAAATATATTAA
Found at i:6926722 original size:20 final size:20
Alignment explanation
Indices: 6926551--6926722 Score: 76
Period size: 20 Copynumber: 8.3 Consensus size: 20
6926541 TATGATATAT
6926551 ATAAAA-ATTAATAAT-ATAA
1 ATAAAATATT-ATAATAATAA
* *
6926570 ATATAAATA-TATTAAAAAAAA
1 ATA-AAATATTA-TAATAATAA
6926591 TATAAAATATTAATAATAATAAAA
1 -ATAAAATATT-ATAATAAT--AA
6926615 ATAAAATA-TATGACATTAA-AA
1 ATAAAATATTAT-A-A-TAATAA
* * * *
6926636 ATATATTAAGA-TATGATATTAT
1 ATA-A--AATATTATAATAATAA
6926658 ATAAAA-ATTA-AATAAATATA
1 ATAAAATATTATAAT-AATA-A
6926678 ATAAATATATTA-AA-AATAA
1 ATAAA-ATATTATAATAATAA
6926697 ATAAAATATTATAATAATAA
1 ATAAAATATTATAATAATAA
6926717 ATAAAA
1 ATAAAA
6926723 ATAAAATATA
Statistics
Matches: 119, Mismatches: 11, Indels: 45
0.68 0.06 0.26
Matches are distributed among these distances:
18 9 0.08
19 19 0.16
20 27 0.23
21 20 0.17
22 23 0.19
23 10 0.08
24 11 0.09
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAATATTATAATAATAA
Found at i:6926847 original size:108 final size:108
Alignment explanation
Indices: 6926474--6926801 Score: 460
Period size: 107 Copynumber: 3.0 Consensus size: 108
6926464 TTAAAAAAAA
6926474 AAATAAA-ATAATAAAATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTA
1 AAATAAATATAAT--AATTATAATAAT-AATAAAAATAAAATATATGACATTAAAAATATATTTA
*
6926538 AGATATGATA-TATATAAAAATTAATAAT-ATAAATATAAATATATT
63 AGATATGATATTATATAAAAATTAATAATAAAAAATA-AAATATATT
*
6926583 AAAAAAAATATAA-AA-TATTAATAATAATAAAAATAAAATATATGACATTAAAAATATA-TTAA
1 -AAATAAATATAATAATTA-TAATAATAATAAAAATAAAATATATGACATTAAAAATATATTTAA
6926645 GATATGATATTATATAAAAATT-A-AATAAATATAAT-AAATATATT
64 GATATGATATTATATAAAAATTAATAATAAA-A-AATAAAATATATT
*
6926689 AAAAATAAATAAAAT-ATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTA
1 --AAATAAATATAATAATTATAATAAT-AATAAAAATAAAATATATGACATTAAAAATATATTTA
6926753 AGATATGATATTATATAAAAATTAATAATAAAAAATAAAATATATT
63 AGATATGATATTATATAAAAATTAATAATAAAAAATAAAATATATT
6926799 AAA
1 AAA
6926802 CTTGTATTTT
Statistics
Matches: 200, Mismatches: 4, Indels: 30
0.85 0.02 0.13
Matches are distributed among these distances:
105 3 0.01
106 24 0.12
107 67 0.34
108 50 0.25
109 29 0.14
110 17 0.09
111 10 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (108 bp):
AAATAAATATAATAATTATAATAATAATAAAAATAAAATATATGACATTAAAAATATATTTAAGA
TATGATATTATATAAAAATTAATAATAAAAAATAAAATATATT
Found at i:6926968 original size:15 final size:15
Alignment explanation
Indices: 6926948--6926983 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6926938 TTTTCCCTAT
*
6926948 AATCACATTGCTTGC
1 AATCACATTACTTGC
6926963 AATCACATTACTTGC
1 AATCACATTACTTGC
6926978 AATCAC
1 AATCAC
6926984 CCCATTACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (15 bp):
AATCACATTACTTGC
Found at i:6949056 original size:14 final size:15
Alignment explanation
Indices: 6949026--6949065 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
6949016 GTTGTAATCA
6949026 AATACTATTTATCTT
1 AATACTATTTATCTT
6949041 AATACT-TTTAT-TT
1 AATACTATTTATCTT
*
6949054 TA-ACTATTTATC
1 AATACTATTTATC
6949066 CACACATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
12 3 0.14
13 8 0.36
14 5 0.23
15 6 0.27
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (15 bp):
AATACTATTTATCTT
Found at i:6952242 original size:28 final size:28
Alignment explanation
Indices: 6952211--6952283 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
6952201 ATTAAAAAAT
*
6952211 TTAAATAAATTTTTATTTTTTTATTTT-A
1 TTAAATAAATTTTTA-TATTTTATTTTAA
*
6952239 TTAAATTAAGTTTTTATATTTTATTTTGAA
1 TTAAA-TAAATTTTTATATTTTATTTT-AA
*
6952269 TGAAATAAATTTTTA
1 TTAAATAAATTTTTA
6952284 CAATTAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 15 0.39
29 18 0.47
30 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (28 bp):
TTAAATAAATTTTTATATTTTATTTTAA
Found at i:6956016 original size:62 final size:62
Alignment explanation
Indices: 6955879--6956018 Score: 181
Period size: 62 Copynumber: 2.3 Consensus size: 62
6955869 GAGTAGGAAG
* * * * *
6955879 TGAGGAAGCATGTGAACAACTATTACAATAATTTATAGGTTGGTGTGGATCAAAGCAGAAAG
1 TGAGGAAGCATGTGAACAACTATTACAATAATTTACAGATTGGTCTGGACCAAAGCAGAAAA
* * * * *
6955941 TGAGAAAGAATGTGAACAACTTTTACAATACTTTACAGATTGGTCTGGACCAAAGCGGAAAA
1 TGAGGAAGCATGTGAACAACTATTACAATAATTTACAGATTGGTCTGGACCAAAGCAGAAAA
*
6956003 TGAGGAGGCATGTGAA
1 TGAGGAAGCATGTGAA
6956019 GAATCAATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (62 bp):
TGAGGAAGCATGTGAACAACTATTACAATAATTTACAGATTGGTCTGGACCAAAGCAGAAAA
Found at i:6961366 original size:10 final size:11
Alignment explanation
Indices: 6961347--6961371 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6961337 TTGTTGTGAA
6961347 TTTTCTTTTTT
1 TTTTCTTTTTT
6961358 TTTTCTTTTTT
1 TTTTCTTTTTT
6961369 TTT
1 TTT
6961372 GGGTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:6961928 original size:3 final size:3
Alignment explanation
Indices: 6961920--6961948 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6961910 AAAATATTAA
6961920 AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6961949 TTGCAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6970491 original size:3 final size:3
Alignment explanation
Indices: 6970483--6970515 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6970473 ATCTACCAAG
*
6970483 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6970516 TGCAAGCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6973079 original size:12 final size:12
Alignment explanation
Indices: 6973062--6973086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6973052 TTTAGTTATC
6973062 AAATATATATAT
1 AAATATATATAT
6973074 AAATATATATAT
1 AAATATATATAT
6973086 A
1 A
6973087 TATGTTATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATATATAT
Found at i:6973198 original size:22 final size:22
Alignment explanation
Indices: 6973156--6973199 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6973146 TTAAAAATCT
* *
6973156 AAATTACTAAATTATTCTATAC
1 AAATCACTAAATTATTATATAC
6973178 AAATCACTAAAATT-TTATATAC
1 AAATCACT-AAATTATTATATAC
6973200 TCTTTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATCACTAAATTATTATATAC
Found at i:6985584 original size:17 final size:17
Alignment explanation
Indices: 6985562--6985596 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6985552 TTTGGGGGGC
6985562 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
*
6985579 AAAAAAGAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
6985596 A
1 A
6985597 CTATTTCCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:7002308 original size:27 final size:27
Alignment explanation
Indices: 7002278--7002351 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
7002268 ATTTAAAAAA
*
7002278 ATTTAAATAAATGTTTATTTTTATTAT
1 ATTTAAATAAATCTTTATTTTTATTAT
* * * *
7002305 ATTTAATTAATTTTTTATATTTTTATTTT
1 ATTTAAATAA-ATCTT-TATTTTTATTAT
*
7002334 TTGTTAAATAAATCTTTA
1 AT-TTAAATAAATCTTTA
7002352 CAAATACTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
27 9 0.25
28 5 0.14
29 15 0.42
30 7 0.19
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (27 bp):
ATTTAAATAAATCTTTATTTTTATTAT
Found at i:7004594 original size:60 final size:62
Alignment explanation
Indices: 7004467--7004601 Score: 193
Period size: 60 Copynumber: 2.2 Consensus size: 62
7004457 GTGTTATTAG
* *
7004467 TTTTAAGGTATTGTGAGATTGGTTTTTAATTAACATTGCATGACTTAATAATTATGTCTTTGGT
1 TTTTAA-GTATTGTGAGATTAGTTTTTAA-TAACATTGCATGACTTAATAATTATGTCTTTGAT
* *
7004531 TTTTAAGTATTGTGAGATTAGTTTTT-A-AACATTGCATGACTTAATAGTTATGTTTTTGAT
1 TTTTAAGTATTGTGAGATTAGTTTTTAATAACATTGCATGACTTAATAATTATGTCTTTGAT
*
7004591 TTTTATGTATT
1 TTTTAAGTATT
7004602 AAGTGACTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
60 40 0.61
62 1 0.02
63 19 0.29
64 6 0.09
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (62 bp):
TTTTAAGTATTGTGAGATTAGTTTTTAATAACATTGCATGACTTAATAATTATGTCTTTGAT
Found at i:7004615 original size:60 final size:60
Alignment explanation
Indices: 7004498--7004618 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 60
7004488 GTTTTTAATT
* ** *
7004498 AACATTGCATGACTTAATAATTATGTCTTTGGTTTTTAAGTATTGTGAGATTAGTTTTTA
1 AACATTGCATGACTTAATAATTATGTCTTTGATTTTTAAGTATTAAGAGACTAGTTTTTA
* * * * *
7004558 AACATTGCATGACTTAATAGTTATGTTTTTGATTTTTATGTATTAAGTGACTGGTTTTTA
1 AACATTGCATGACTTAATAATTATGTCTTTGATTTTTAAGTATTAAGAGACTAGTTTTTA
7004618 A
1 A
7004619 GTATTACGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.49
Consensus pattern (60 bp):
AACATTGCATGACTTAATAATTATGTCTTTGATTTTTAAGTATTAAGAGACTAGTTTTTA
Found at i:7009340 original size:22 final size:22
Alignment explanation
Indices: 7009270--7009341 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
7009260 CTAAGTTATA
*
7009270 CAATGCCTTACTAACTAGTCATG
1 CAATG-CTTATTAACTAGTCATG
* * * * *
7009293 TAATACTTTATTAATTAGTTACG
1 CAATGC-TTATTAACTAGTCATG
7009316 CAATGCTTATTAACTAGTCATG
1 CAATGCTTATTAACTAGTCATG
7009338 CAAT
1 CAAT
7009342 ACCATATTAA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (22 bp):
CAATGCTTATTAACTAGTCATG
Found at i:7009350 original size:45 final size:45
Alignment explanation
Indices: 7009263--7009369 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 45
7009253 TCAATACCTA
* * ** **
7009263 AGTTATACAATGCCTTACTAACTAGTCATGTAATACTTTATTAATT
1 AGTTACACAATG-CTTACTAACTAGTCATGCAATACCATATTAACC
* *
7009309 AGTTACGCAATGCTTATTAACTAGTCATGCAATACCATATTAACC
1 AGTTACACAATGCTTACTAACTAGTCATGCAATACCATATTAACC
*
7009354 AGTTACACAATACTTA
1 AGTTACACAATGCTTA
7009370 AATATTAATC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 41 0.80
46 10 0.20
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (45 bp):
AGTTACACAATGCTTACTAACTAGTCATGCAATACCATATTAACC
Found at i:7009600 original size:61 final size:59
Alignment explanation
Indices: 7009496--7009623 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 59
7009486 TATTTAACAA
** * ** *
7009496 AAAATGCTCAAAATGTTTAAAAGTTTTTTTTTCATATATAAAAAATCATTCTAAAATGTTT
1 AAAATGCTCAAAATACTTAAAAGTTTTTTTGTCATAT-TAAAAAAT-ACCCTAAAATATTT
* * *
7009557 AAAATGCTCAAAATACTTAAACGTTTTCTTTGT-GTATCAAAAAATACCCTAAAATATTT
1 AAAATGCTCAAAATACTTAAAAGTTTT-TTTGTCATATTAAAAAATACCCTAAAATATTT
7009616 AAAATGCT
1 AAAATGCT
7009624 TAAACGTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 19 0.33
60 7 0.12
61 27 0.47
62 4 0.07
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (59 bp):
AAAATGCTCAAAATACTTAAAAGTTTTTTTGTCATATTAAAAAATACCCTAAAATATTT
Found at i:7015367 original size:2 final size:2
Alignment explanation
Indices: 7015360--7015389 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7015350 ATCAGGACAG
7015360 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7015390 ACTCAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7017133 original size:20 final size:19
Alignment explanation
Indices: 7017097--7017139 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7017087 TATATAATAT
**
7017097 TTTAAAAATTATTTAATTA
1 TTTAAAAATTAAATAATTA
*
7017116 TTTAAAAATTTAAATAATTT
1 TTTAAAAA-TTAAATAATTA
7017136 TTTA
1 TTTA
7017140 TTAAATTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAAATTAAATAATTA
Found at i:7017778 original size:33 final size:33
Alignment explanation
Indices: 7017719--7017783 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
7017709 GAAGTTGACG
* *
7017719 TGACATGTTAAAATATCATAATTGATGATAATA
1 TGACATGTTAAAATATAATAACTGATGATAATA
*
7017752 TGACATG-TAAATATATAATAACTGATGTTAAT
1 TGACATGTTAAA-ATATAATAACTGATGATAAT
7017784 GTAACATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (33 bp):
TGACATGTTAAAATATAATAACTGATGATAATA
Found at i:7017791 original size:33 final size:33
Alignment explanation
Indices: 7017721--7017791 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
7017711 AGTTGACGTG
* * *
7017721 ACATGTTAAAATATCATAATTGATGATAATATG
1 ACATGTTAAAATATAATAACTGATGATAATATA
* *
7017754 ACATG-TAAATATATAATAACTGATGTTAATGTA
1 ACATGTTAAA-ATATAATAACTGATGATAATATA
7017787 ACATG
1 ACATG
7017792 ATAATTTAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (33 bp):
ACATGTTAAAATATAATAACTGATGATAATATA
Found at i:7022314 original size:183 final size:183
Alignment explanation
Indices: 7021996--7022728 Score: 1078
Period size: 183 Copynumber: 4.0 Consensus size: 183
7021986 GTATTACTTA
7021996 CTTGACTGCCTTTTCTGCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTAGTGAGA
1 CTTGACTGCCTTTTCTGCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTAGTGAGA
* *
7022061 TCATTTTTCTTGCACTTGTTTGGGGTGTTAACCTTCTGATCACCTGTGTCACCTGAAGTAGAACT
66 TCATTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCTGATCACCTGTGTCACCTGAAGTACAACT
* *
7022126 TTCTTTTGGCTGAGTGAAGTTGGAATCATGTATGTCTCTGACACTATCATCCT
131 TTCTTTGGGCTGAGTGAAGTTGGAATCACGTATGTCTCTGACACTATCATCCT
* * * * * *
7022179 CTTGACTGCCTCTTCTGTTCAAATCTCTTGGTAACCTTCGAGATTTTAAGAAATCTGTAGTAAGA
1 CTTGACTGCCTTTTCTGCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTAGTGAGA
* * *
7022244 TCGTTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCCGATCACCTGTGTCACCTGAAGTACAAGT
66 TCATTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCTGATCACCTGTGTCACCTGAAGTACAACT
* * ** *
7022309 TTCTTTGGGCTGAGTTAACTTAAAATCACGCATGTCTCTGACACTATCATCCT
131 TTCTTTGGGCTGAGTGAAGTTGGAATCACGTATGTCTCTGACACTATCATCCT
* * ** *
7022362 CTTGACTGCCTTTTCTGCTCAAATCTCTAGCTGAGGTTCGAGGTTTTAAGCAATCTGTAGTGAGG
1 CTTGACTGCCTTTTCTGCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTAGTGAGA
*
7022427 TCATTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCTGATCACCAGTGTCACCTGAAGTACAACT
66 TCATTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCTGATCACCTGTGTCACCTGAAGTACAACT
* * * * * *
7022492 TTCTTTGAGCTGATTGAAGTTGGAATCACATATGTC-CTTGACAGC-ATCTTTCA
131 TTCTTTGGGCTGAGTGAAGTTGGAATCACGTATGTCTC-TGACA-CTATCATCCT
*
7022545 CTTGACTGACCTTTT-TTCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTA-TCGA
1 CTTGACTG-CCTTTTCTGCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTAGT-GA
*
7022608 GATCATTTTTCTTGCACTCGTTTGGGGTGTTAATCTTCTGATCACCTGTGTCACCTGAAGTACAA
64 GATCATTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCTGATCACCTGTGTCACCTGAAGTACAA
* * * *
7022673 CTTTCTTTGGGCTGGGTGAAGTTGCAATCACGTATGTCTTTGATACTATCATCCT
129 CTTTCTTTGGGCTGAGTGAAGTTGGAATCACGTATGTCTCTGACACTATCATCCT
7022728 C
1 C
7022729 CTTACCATGA
Statistics
Matches: 482, Mismatches: 62, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
182 3 0.01
183 472 0.98
184 7 0.01
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (183 bp):
CTTGACTGCCTTTTCTGCTCAAATCTCTTGGTGACCTTCGAGGTTTTAAGCAATCTGTAGTGAGA
TCATTTTTCTTGCACTTGTTTGGGGTGTTAATCTTCTGATCACCTGTGTCACCTGAAGTACAACT
TTCTTTGGGCTGAGTGAAGTTGGAATCACGTATGTCTCTGACACTATCATCCT
Found at i:7034691 original size:33 final size:35
Alignment explanation
Indices: 7034641--7034709 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
7034631 TTTTTTTAAG
*
7034641 AATATAATAATAGTAA-TTTATAAATTAATAAAAA
1 AATATAATAATAATAATTTTATAAATTAATAAAAA
*
7034675 AATAT-ATAATAATAATTTTTTAAATTAATAAAAA
1 AATATAATAATAATAATTTTATAAATTAATAAAAA
7034709 A
1 A
7034710 TAAAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (35 bp):
AATATAATAATAATAATTTTATAAATTAATAAAAA
Found at i:7034806 original size:19 final size:20
Alignment explanation
Indices: 7034784--7034821 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7034774 TGTTTAATGA
* *
7034784 AAAATATTT-TTTTTAAAAC
1 AAAACATTTATTTTCAAAAC
7034803 AAAACATTTATTTTCAAAA
1 AAAACATTTATTTTCAAAA
7034822 TTAATACACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAACATTTATTTTCAAAAC
Found at i:7039920 original size:108 final size:108
Alignment explanation
Indices: 7039727--7039932 Score: 272
Period size: 108 Copynumber: 1.9 Consensus size: 108
7039717 TAAAATGACT
* * *
7039727 AAATATGTTAATTTAGTTACAACTCTCACAATTTATAAATATACATTCTTTTGAAATTATTTAAT
1 AAATATATTAATTTAGTTACAACTCTCACAATTTATAAATACACATTCTTTTGAAATTATTCAAT
** * *
7039792 TCTTATTCAGTTTACCTTTTATTTAAATTTACTTAAATTAACA
66 TCTTACCCAATTTACCTTTTATTTAAAATTACTTAAATTAACA
* * * *
7039835 AAATATATTGATTTAGTTACAGCTTTTACAATTT-TCAAATACACATTCTTTTGAAATTATTCAA
1 AAATATATTAATTTAGTTACAACTCTCACAATTTAT-AAATACACATTCTTTTGAAATTATTCAA
*
7039899 CTT-TTACCCAATTTACTTTTTATTTAAAATTACT
65 -TTCTTACCCAATTTACCTTTTATTTAAAATTACT
7039933 CAAAATTTCT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 1 0.01
108 81 0.96
109 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (108 bp):
AAATATATTAATTTAGTTACAACTCTCACAATTTATAAATACACATTCTTTTGAAATTATTCAAT
TCTTACCCAATTTACCTTTTATTTAAAATTACTTAAATTAACA
Found at i:7040601 original size:19 final size:19
Alignment explanation
Indices: 7040577--7040635 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
7040567 CATTAACATA
7040577 TCAGCATGTCAGTATCATG
1 TCAGCATGTCAGTATCATG
*
7040596 TCAGCA--T---TATCATA
1 TCAGCATGTCAGTATCATG
*
7040610 TCAGCATGTCAGTACCATG
1 TCAGCATGTCAGTATCATG
7040629 TCAGCAT
1 TCAGCAT
7040636 TATCATATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 12 0.38
16 1 0.03
17 1 0.03
19 18 0.56
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (19 bp):
TCAGCATGTCAGTATCATG
Found at i:7040603 original size:33 final size:33
Alignment explanation
Indices: 7040566--7040645 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
7040556 CTGTCACGTG
* *
7040566 GCATTAACATATCAGCATGTCAGTATCATGTCA
1 GCATTATCATATCAGCATGTCAGTACCATGTCA
7040599 GCATTATCATATCAGCATGTCAGTACCATGTCA
1 GCATTATCATATCAGCATGTCAGTACCATGTCA
7040632 GCATTATCATATCA
1 GCATTATCATATCA
7040646 TCATATAGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (33 bp):
GCATTATCATATCAGCATGTCAGTACCATGTCA
Found at i:7040606 original size:14 final size:14
Alignment explanation
Indices: 7040589--7040641 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
7040579 AGCATGTCAG
7040589 TATCATGTCAGCAT
1 TATCATGTCAGCAT
*
7040603 TATCATATCAGCAT
1 TATCATGTCAGCAT
7040617 GTCAGTACCATGTCAGCAT
1 -T-A-T--CATGTCAGCAT
7040636 TATCAT
1 TATCAT
7040642 ATCATCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (14 bp):
TATCATGTCAGCAT
Found at i:7051594 original size:57 final size:57
Alignment explanation
Indices: 7051530--7051660 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 57
7051520 ACTTATCCAT
* * * *
7051530 CACGCAACTTA-ATCCAAA-TCTAAATTTAAATTACTATCTAACCCTAA-TTTTATACAA
1 CACGCAACTCAGAT-CAAATTC-AAACTTAAATCACTATATAACCCTAACTTTT-TACAA
* *
7051587 CACGCAACTCAGATCAAATTCAAACTTAAATCATTATATATCCCTAACTTTTTACAA
1 CACGCAACTCAGATCAAATTCAAACTTAAATCACTATATAACCCTAACTTTTTACAA
*
7051644 CACGCAACTCAAATCAA
1 CACGCAACTCAGATCAA
7051661 TGTAACTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 56 0.88
58 8 0.12
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (57 bp):
CACGCAACTCAGATCAAATTCAAACTTAAATCACTATATAACCCTAACTTTTTACAA
Found at i:7051711 original size:21 final size:21
Alignment explanation
Indices: 7051686--7051749 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
7051676 ACATAGCACT
7051686 TAACTCAAATCAATATAACCC
1 TAACTCAAATCAATATAACCC
* *
7051707 TAACT----TC-ATACAACAC
1 TAACTCAAATCAATATAACCC
*
7051723 TCAACTCAAACCAATATAACCC
1 T-AACTCAAATCAATATAACCC
7051745 TAACT
1 TAACT
7051750 TTGCACAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
16 8 0.25
17 6 0.19
21 10 0.31
22 8 0.25
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.23
Consensus pattern (21 bp):
TAACTCAAATCAATATAACCC
Found at i:7051729 original size:38 final size:38
Alignment explanation
Indices: 7051622--7051774 Score: 166
Period size: 38 Copynumber: 4.0 Consensus size: 38
7051612 TTAAATCATT
* *
7051622 ATATATCCCTAACTTTTTACAACACGCAACTCAAATCA
1 ATATAACCCTAACTTTTTACAACACTCAACTCAAATCA
* ** *
7051660 ATGTAACTATAA--TTTTACATAGCACTTAACTCAAATCA
1 ATATAACCCTAACTTTTTACA-A-CACTCAACTCAAATCA
** *
7051698 ATATAACCCTAACTTCATACAACACTCAACTCAAACCA
1 ATATAACCCTAACTTTTTACAACACTCAACTCAAATCA
** *
7051736 ATATAACCCTAACTTTGCACAACACACAACTCAAATCA
1 ATATAACCCTAACTTTTTACAACACTCAACTCAAATCA
7051774 A
1 A
7051775 ATTCAAACTT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
36 7 0.08
37 1 0.01
38 79 0.85
39 1 0.01
40 5 0.05
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (38 bp):
ATATAACCCTAACTTTTTACAACACTCAACTCAAATCA
Found at i:7068071 original size:16 final size:16
Alignment explanation
Indices: 7068050--7068080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7068040 ATAAAAATTA
*
7068050 AGAAACAAAATTGATG
1 AGAAACAAAAATGATG
7068066 AGAAACAAAAATGAT
1 AGAAACAAAAATGAT
7068081 TCACAAAAGT
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:0.61, C:0.06, G:0.16, T:0.16
Consensus pattern (16 bp):
AGAAACAAAAATGATG
Found at i:7070354 original size:15 final size:17
Alignment explanation
Indices: 7070329--7070362 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
7070319 TTAATTTTTA
7070329 AAAATTAAAATT-ATAT
1 AAAATTAAAATTCATAT
7070345 AAAA-TAAAATTCATAT
1 AAAATTAAAATTCATAT
7070361 AA
1 AA
7070363 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTAAAATTCATAT
Found at i:7070369 original size:21 final size:20
Alignment explanation
Indices: 7070345--7070416 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 20
7070335 AAAATTATAT
7070345 AAAATAAAATTCATATAACAA
1 AAAATAAAATT-ATATAACAA
* *
7070366 AAAA-AAAA-GATGATGACAA
1 AAAATAAAATTAT-ATAACAA
7070385 GTAAAGATAAAACTTATATAACAA
1 --AAA-ATAAAA-TTATATAACAA
7070409 AAAATAAA
1 AAAATAAA
7070417 GAATAAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 4 0.10
21 12 0.30
22 4 0.10
23 4 0.10
24 6 0.15
25 2 0.05
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAATAAAATTATATAACAA
Found at i:7090400 original size:2 final size:2
Alignment explanation
Indices: 7090393--7090417 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7090383 AAAGGAGATT
7090393 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7090418 GTGTGTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7095088 original size:30 final size:30
Alignment explanation
Indices: 7095053--7095113 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
7095043 ATATTCGTAA
*
7095053 TTTTATTTTGAATCAAATAAATTATTATAT
1 TTTTATTTTAAATCAAATAAATTATTATAT
* *
7095083 TTTTATTTTAAATTAAATAAATTTTTATAT
1 TTTTATTTTAAATCAAATAAATTATTATAT
7095113 T
1 T
7095114 AATAATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTTATTTTAAATCAAATAAATTATTATAT
Found at i:7098488 original size:79 final size:79
Alignment explanation
Indices: 7098343--7098500 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
7098333 GGCAACGGCC
* ** * * * * *
7098343 TTCACCATTTTTCTATGTGATCTATACTACACAATATTAGATATGCCAGTAAATAGTTTTACCAA
1 TTCACCACTTTTCTACATGATCTATACTAAACAATATTAGATATGCCAGTAAAAAATTCTAACAA
7098408 AATGAAACATATCT
66 AATGAAACATATCT
*
7098422 TTCACCACTTTTCTACATGATCTATACTAAACAATGA-TCGATATGCCAGTAAAAAATTCTAACA
1 TTCACCACTTTTCTACATGATCTATACTAAACAAT-ATTAGATATGCCAGTAAAAAATTCTAACA
* *
7098486 AAATGAGAGATATCT
65 AAATGAAACATATCT
7098501 AAGATGGCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 66 0.99
80 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (79 bp):
TTCACCACTTTTCTACATGATCTATACTAAACAATATTAGATATGCCAGTAAAAAATTCTAACAA
AATGAAACATATCT
Found at i:7099908 original size:20 final size:20
Alignment explanation
Indices: 7099883--7099922 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7099873 ATAAATTAAA
7099883 TTTATTGCAATAATT-TTTTT
1 TTTATTGCAA-AATTATTTTT
*
7099903 TTTATTTCAAAATTATTTTT
1 TTTATTGCAAAATTATTTTT
7099923 AGAATTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTATTGCAAAATTATTTTT
Found at i:7099921 original size:19 final size:20
Alignment explanation
Indices: 7099883--7099922 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7099873 ATAAATTAAA
*
7099883 TTTATTGCAATAATTTTTTT
1 TTTATTGCAATAATTATTTT
*
7099903 TTTATTTCAA-AATTATTTT
1 TTTATTGCAATAATTATTTT
7099922 T
1 T
7099923 AGAATTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTATTGCAATAATTATTTT
Found at i:7105896 original size:1 final size:1
Alignment explanation
Indices: 7105852--7105889 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
7105842 CGAGTTCCAT
7105852 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
7105890 TTCCCCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:7110734 original size:16 final size:16
Alignment explanation
Indices: 7110713--7110745 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7110703 AGCAATAAAC
7110713 TCCATTTTCATTTAAG
1 TCCATTTTCATTTAAG
7110729 TCCATTTTCATTTAAG
1 TCCATTTTCATTTAAG
7110745 T
1 T
7110746 AAAAGTGCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (16 bp):
TCCATTTTCATTTAAG
Found at i:7114993 original size:32 final size:32
Alignment explanation
Indices: 7114952--7115015 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
7114942 TCATTGTAAT
* * *
7114952 ATAATCATGATTCTCAAAATATTATATTATTC
1 ATAATCATGATTCCCAAAATAGTATATAATTC
*
7114984 ATAATCATGATTCCCAAGATAGTATATAATTC
1 ATAATCATGATTCCCAAAATAGTATATAATTC
7115016 TTTTACTACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (32 bp):
ATAATCATGATTCCCAAAATAGTATATAATTC
Found at i:7140321 original size:15 final size:14
Alignment explanation
Indices: 7140301--7140331 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
7140291 AAAATATATG
7140301 AATAAATAGAATAAA
1 AATAAATA-AATAAA
7140316 AATAAATAAATAAA
1 AATAAATAAATAAA
7140330 AA
1 AA
7140332 CTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:7149494 original size:24 final size:24
Alignment explanation
Indices: 7149467--7149514 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7149457 AAAGGAGTTG
7149467 GATGCATTGAAGGATGGCGAGGTA
1 GATGCATTGAAGGATGGCGAGGTA
7149491 GATGCATTGAAGGATGGCGAGGTA
1 GATGCATTGAAGGATGGCGAGGTA
7149515 AAAACATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.42, T:0.21
Consensus pattern (24 bp):
GATGCATTGAAGGATGGCGAGGTA
Found at i:7149522 original size:24 final size:24
Alignment explanation
Indices: 7149471--7149527 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
7149461 GAGTTGGATG
* **
7149471 CATTGAAGGATGGCGAGGTAGATG
1 CATTGAAGGATGGCGAGGTAAAAA
7149495 CATTGAAGGATGGCGAGGTAAAAA
1 CATTGAAGGATGGCGAGGTAAAAA
7149519 CATTGAAGG
1 CATTGAAGG
7149528 CTGTGGAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.37, T:0.19
Consensus pattern (24 bp):
CATTGAAGGATGGCGAGGTAAAAA
Found at i:7157806 original size:17 final size:17
Alignment explanation
Indices: 7157780--7157819 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
7157770 CATGGCATGT
7157780 TATC-ATACGATAATCA
1 TATCAATACGATAATCA
7157796 TATCAATACGATAATCA
1 TATCAATACGATAATCA
7157813 TATCAAT
1 TATCAAT
7157820 CTGATTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (17 bp):
TATCAATACGATAATCA
Found at i:7159450 original size:23 final size:23
Alignment explanation
Indices: 7159412--7159484 Score: 98
Period size: 23 Copynumber: 3.2 Consensus size: 23
7159402 ATTATTTAAA
7159412 ATTATAATAATAATAAATTAATT
1 ATTATAATAATAATAAATTAATT
7159435 ATTATAA-AATATATAAATT-ATT
1 ATTATAATAATA-ATAAATTAATT
7159457 -TTAATTAATAATAATAAATTAATT
1 ATT-A-TAATAATAATAAATTAATT
7159481 ATTA
1 ATTA
7159485 ATTATAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.05
22 8 0.18
23 24 0.55
24 8 0.18
25 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTATAATAATAATAAATTAATT
Found at i:7159468 original size:43 final size:45
Alignment explanation
Indices: 7159419--7159514 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 45
7159409 AAAATTATAA
* * *
7159419 TAATAATAAATTAATT-ATTATAAAATATATAAATTA-TTTTAAT
1 TAATAATAAATAAATTAATTATAAAATATAAAAATTACTTTGAAT
* * *
7159462 TAATAAT-AATAAATTAATTATTAATTATAAAAATTACTTTGATT
1 TAATAATAAATAAATTAATTATAAAATATAAAAATTACTTTGAAT
7159506 TAA-AATAAA
1 TAATAATAAA
7159515 AATATAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 7 0.16
43 27 0.61
44 10 0.23
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (45 bp):
TAATAATAAATAAATTAATTATAAAATATAAAAATTACTTTGAAT
Found at i:7159480 original size:18 final size:18
Alignment explanation
Indices: 7159457--7159492 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7159447 ATAAATTATT
7159457 TTAATTAATAATAATAAA
1 TTAATTAATAATAATAAA
* *
7159475 TTAATTATTAATTATAAA
1 TTAATTAATAATAATAAA
7159493 AATTACTTTG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAATAATAATAAA
Found at i:7159493 original size:50 final size:50
Alignment explanation
Indices: 7159390--7159484 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 50
7159380 TAATATTTAA
*
7159390 AAAATTTATTAAATTATTTAAAATTATAATAATAATAAATTAATTATTAT
1 AAAATATATTAAATTATTTAAAATTATAATAATAATAAATTAATTATTAT
*
7159440 AAAATATA-TAAATTATTT-TAA-T-TAATAATAATAAATTAATTATTA
1 AAAATATATTAAATTATTTAAAATTATAATAATAATAAATTAATTATTA
7159485 ATTATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 23 0.53
47 1 0.02
48 2 0.05
49 10 0.23
50 7 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (50 bp):
AAAATATATTAAATTATTTAAAATTATAATAATAATAAATTAATTATTAT
Found at i:7159513 original size:46 final size:46
Alignment explanation
Indices: 7159416--7159517 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 46
7159406 TTTAAAATTA
* *
7159416 TAATAATAATAAATTAATTATTATAAAATATATAAATTATTTTAAT
1 TAATAATAATAAATTAATTATTATAAAATATAAAAATTATTTGAAT
* *
7159462 TAATAATAATAAATTAATTA-T-T-AATTATAAAAATTACTTTGATT
1 TAATAATAATAAATTAATTATTATAAAATATAAAAATTA-TTTGAAT
7159506 TAA-AATAA-AAAT
1 TAATAATAATAAAT
7159518 ATAAAAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
42 4 0.08
43 17 0.33
44 9 0.18
45 1 0.02
46 20 0.39
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
TAATAATAATAAATTAATTATTATAAAATATAAAAATTATTTGAAT
Found at i:7173312 original size:2 final size:2
Alignment explanation
Indices: 7173305--7173335 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7173295 ATGAAATGAT
7173305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7173336 GAGTTTGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7176166 original size:21 final size:21
Alignment explanation
Indices: 7176142--7176186 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
7176132 TCTTGTTTCA
*
7176142 TTAAATTATATTAACTTGATT
1 TTAAATCATATTAACTTGATT
*
7176163 TTAAATCATATTAACTTGGTT
1 TTAAATCATATTAACTTGATT
7176184 TTA
1 TTA
7176187 TGGTTGCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
TTAAATCATATTAACTTGATT
Found at i:7176945 original size:14 final size:14
Alignment explanation
Indices: 7176921--7176969 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
7176911 TTATTAATAA
7176921 AAATT-AAATTAAT
1 AAATTAAAATTAAT
7176934 AAATTAAAATTAAT
1 AAATTAAAATTAAT
**
7176948 TTA-TAAAA--AAT
1 AAATTAAAATTAAT
7176959 AAATTAAAATT
1 AAATTAAAATT
7176970 TAAAATCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 10 0.36
14 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAAAATTAAT
Found at i:7176954 original size:33 final size:33
Alignment explanation
Indices: 7176912--7176993 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
7176902 TTATGTATAT
* *
7176912 TATTAATAAAAATTAAATTAATAAATTAAAATTA
1 TATTTATAAAAATTAAATTAA-AAATTAAAATCA
* *
7176946 -ATTTATAAAAAATAAATTAAAATTTAAAATCA
1 TATTTATAAAAATTAAATTAAAAATTAAAATCA
7176978 TATTTA-AAATAATTAA
1 TATTTATAAA-AATTAA
7176994 TAAATTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 13 0.32
33 28 0.68
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TATTTATAAAAATTAAATTAAAAATTAAAATCA
Found at i:7182700 original size:59 final size:60
Alignment explanation
Indices: 7182634--7182750 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 60
7182624 ACTGATATCT
* * * *
7182634 TTGTCTATGAGCTAACTTAATGTAAGAGCTGTAGTTTCT-CCAAAGAGTGGATCAGAAGC
1 TTGTCTATGAGCTAACTCAATGTAACAGCTATAATTTCTCCCAAAGAGTGGATCAGAAGC
* * *
7182693 TTGTCTATGAGCTAACTCCATGTGACAGCTATAATTTCTCCCAAAGGGTGGATCAGAA
1 TTGTCTATGAGCTAACTCAATGTAACAGCTATAATTTCTCCCAAAGAGTGGATCAGAA
7182751 ACTCAAAGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 33 0.66
60 17 0.34
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (60 bp):
TTGTCTATGAGCTAACTCAATGTAACAGCTATAATTTCTCCCAAAGAGTGGATCAGAAGC
Found at i:7197775 original size:2 final size:2
Alignment explanation
Indices: 7197768--7197799 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7197758 TGGCATCCTC
7197768 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7197800 TTTCTTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7199419 original size:3 final size:3
Alignment explanation
Indices: 7199411--7199436 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7199401 CTCCCCCCAA
7199411 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
7199437 CACATGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7207609 original size:2 final size:2
Alignment explanation
Indices: 7207602--7207631 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7207592 ATGCATACAC
7207602 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
7207632 TTGAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7210281 original size:88 final size:87
Alignment explanation
Indices: 7210074--7210256 Score: 233
Period size: 88 Copynumber: 2.1 Consensus size: 87
7210064 GTATGTACCT
*
7210074 ACCCATTCCTTTGTTCTTATTTCCC-CAATTTTTAATGAATTATTATTTCTTCTTCAAATTCGCT
1 ACCCATTCCTTTGTTC-TAATTCCCACAATTTTTAATGAATTATTATTTCTTCTTCAAATTCGCT
* * *
7210138 TGCTTAATCCATAGGAGCCACCT
65 TGCTTAATCCAAACGAGCCACCC
* * * * *
7210161 ACCCTTTCCTTTGTTCTTATTCCCCCAATTTTTAATTGAATTGTTATTTCTTCTTCAAATTTGCT
1 ACCCATTCCTTTGTTCTAATTCCCACAATTTTTAA-TGAATTATTATTTCTTCTTCAAATTCGCT
* * *
7210226 TGCTTATTCTAAACGAGCTACCC
65 TGCTTAATCCAAACGAGCCACCC
7210249 ACCCATTC
1 ACCCATTC
7210257 TTTTAGTCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 6 0.07
87 25 0.30
88 51 0.62
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.44
Consensus pattern (87 bp):
ACCCATTCCTTTGTTCTAATTCCCACAATTTTTAATGAATTATTATTTCTTCTTCAAATTCGCTT
GCTTAATCCAAACGAGCCACCC
Found at i:7210723 original size:27 final size:26
Alignment explanation
Indices: 7210667--7210733 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
7210657 AAAGATCAAG
* * *
7210667 TTACACGTCATATTAAAAGAATATTT
1 TTACACGTCATGTTAAAAGAAAATTA
* *
7210693 TTACATGTCATGTTGAAAATAAAATTA
1 TTACACGTCATGTT-AAAAGAAAATTA
*
7210720 TTACACGTGATGTT
1 TTACACGTCATGTT
7210734 TAAGGTGTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (26 bp):
TTACACGTCATGTTAAAAGAAAATTA
Found at i:7210865 original size:124 final size:123
Alignment explanation
Indices: 7210608--7211081 Score: 434
Period size: 124 Copynumber: 3.8 Consensus size: 123
7210598 ATAGGTTATG
* * * * * * *
7210608 TTTAAAGTATTTAGCTCTAAAAATTTATATTTTAACAAAATATAAAAATAAAGATCAAGTTACAC
1 TTTAAGGTGTTTAACTCTAAGAATTTATATTTTAATAAAATACAAAGATAAAGATCAAGTTACAC
* * * * * *** *
7210673 GTCATATTAAAAGAATATTTTTACATGTCATGTTGAAAATAAAATTATTACACGTGATG
66 GTCATATTAAAAAAATATTATTACATGCCATGTTGAAAA-AAAGTTATTATACACCATA
* * *
7210732 TTTAAGGTGTTTAACTCTAAGAGTTTATATTTTAATAAAATACAAAGATAGAGATCAAGTTATAC
1 TTTAAGGTGTTTAACTCTAAGAATTTATATTTTAATAAAATACAAAGATAAAGATCAAGTTACAC
* * *
7210797 G-CTATATTCAAAACAATATTGTTACATGCCATGTTGAAAAAAAGTTGTTATACACCATA
66 GTC-ATATT-AAAAAAATATTATTACATGCCATGTTGAAAAAAAGTTATTATACACCATA
* * * ** * *
7210856 TTTATGGTGTTTAACTTTAAGAATTTATGTTTTGGTGAAATATAAAGATAAAG-TCCAAGTTACA
1 TTTAAGGTGTTTAACTCTAAGAATTTATATTTTAATAAAATACAAAGATAAAGAT-CAAGTTACA
* * * * *
7210920 CGTCATGTTAATAAAAAAATATTATTATATGTCATGTTAAAAAAGAAGTTATTATACACTATA
65 CGTCA---TATTAAAAAAATATTATTACATGCCATGTTGAAAAA-AAGTTATTATACACCATA
* * * * * * *
7210983 TTTAAGGTGTTTAACT-TCAAGAGTTTGTATTTTAGTGAAATACAAAGATAGAGACCGAGTTACA
1 TTTAAGGTGTTTAACTCT-AAGAATTTATATTTTAATAAAATACAAAGATAAAGATCAAGTTACA
* * *
7211047 C-TCTATGTTAAAAAAAAATTATGACATGCCATGTT
65 CGTC-ATATTAAAAAAATATTATTACATGCCATGTT
7211082 TAAGGTATTT
Statistics
Matches: 286, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
123 2 0.01
124 152 0.53
125 29 0.10
126 30 0.10
127 73 0.26
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.36
Consensus pattern (123 bp):
TTTAAGGTGTTTAACTCTAAGAATTTATATTTTAATAAAATACAAAGATAAAGATCAAGTTACAC
GTCATATTAAAAAAATATTATTACATGCCATGTTGAAAAAAAGTTATTATACACCATA
Found at i:7211158 original size:97 final size:97
Alignment explanation
Indices: 7210983--7211159 Score: 255
Period size: 97 Copynumber: 1.8 Consensus size: 97
7210973 ATACACTATA
* * * * * *
7210983 TTTAAGGTGTTTAACTTCAAGAGTTTGTATTTTAGTGAAATACAAAGATAGAGACCGAGTTACAC
1 TTTAAGGTATTTAACTCCAAGAGTTTATATTCTAATGAAATACAAAGATAGAGACCAAGTTACAC
* * *
7211048 TCTATGTTAAAAAAAAATTATGACATGCCATG
66 ACCATATTAAAAAAAAATTATGACATGCCATG
*
7211080 TTTAAGGTATTTAACTCCAAGAGTTTATATTCTAATGAAATATAAAGATAGAGACCAAGTTACAC
1 TTTAAGGTATTTAACTCCAAGAGTTTATATTCTAATGAAATACAAAGATAGAGACCAAGTTACAC
*
7211145 ACCATATTTAAAAAA
66 ACCATATTAAAAAAA
7211160 TATTTGTGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 69 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (97 bp):
TTTAAGGTATTTAACTCCAAGAGTTTATATTCTAATGAAATACAAAGATAGAGACCAAGTTACAC
ACCATATTAAAAAAAAATTATGACATGCCATG
Found at i:7211233 original size:27 final size:27
Alignment explanation
Indices: 7211166--7211227 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
7211156 AAAATATTTG
* *
7211166 TGTTATATGTCATATTC-AAAAAATGT
1 TGTTACATGTCATATTCAAAAAAAAGT
*
7211192 TGTTGCATGTCATATTCAAAAAAAAGT
1 TGTTACATGTCATATTCAAAAAAAAGT
7211219 TGTTACATG
1 TGTTACATG
7211228 CTATATGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (27 bp):
TGTTACATGTCATATTCAAAAAAAAGT
Found at i:7211238 original size:27 final size:27
Alignment explanation
Indices: 7211166--7211238 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
7211156 AAAATATTTG
* * *
7211166 TGTTATATGTCATATTC-AAAAAATGT
1 TGTTACATGTCATATGCAAAAAAAAGT
* *
7211192 TGTTGCATGTCATATTCAAAAAAAAGT
1 TGTTACATGTCATATGCAAAAAAAAGT
7211219 TGTTACATG-CTATATGCAAA
1 TGTTACATGTC-ATATGCAAA
7211239 GTGTTTAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 16 0.40
27 24 0.60
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (27 bp):
TGTTACATGTCATATGCAAAAAAAAGT
Found at i:7212435 original size:3 final size:3
Alignment explanation
Indices: 7212429--7212454 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7212419 AAAAAAAGGA
7212429 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
7212455 TACTAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7220007 original size:16 final size:16
Alignment explanation
Indices: 7219969--7220012 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
7219959 GATAGGCTCG
*
7219969 ATTTTTTTTTTTGCAA
1 ATTTATTTTTTTGCAA
** *
7219985 AAATATTTTTTTGCAT
1 ATTTATTTTTTTGCAA
7220001 ATTTATTTTTTT
1 ATTTATTTTTTT
7220013 ATGTCATGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (16 bp):
ATTTATTTTTTTGCAA
Found at i:7220905 original size:31 final size:32
Alignment explanation
Indices: 7220842--7220918 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
7220832 CCCAGGCCGT
* **
7220842 CAGGGGGGAATCGAGACTCATGGGAGGGGGGG
1 CAGGGGGGAATCGGGACTCATGGGAGAAGGGG
**
7220874 CAGGGGGGAATCGGGACTTGTGGGA-AAGGGG
1 CAGGGGGGAATCGGGACTCATGGGAGAAGGGG
*
7220905 CCGGGGGGAATCGG
1 CAGGGGGGAATCGG
7220919 TAGGAGTGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 17 0.44
32 22 0.56
ACGTcount: A:0.21, C:0.13, G:0.56, T:0.10
Consensus pattern (32 bp):
CAGGGGGGAATCGGGACTCATGGGAGAAGGGG
Found at i:7220928 original size:31 final size:31
Alignment explanation
Indices: 7220870--7220929 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
7220860 CATGGGAGGG
**
7220870 GGGGCAGGGGGGAATCGGGACTTGTGGGAAA
1 GGGGCAGGGGGGAATCGGGACGAGTGGGAAA
* * *
7220901 GGGGCCGGGGGGAATCGGTAGGAGTGGGA
1 GGGGCAGGGGGGAATCGGGACGAGTGGGA
7220930 GGGGGGGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.58, T:0.12
Consensus pattern (31 bp):
GGGGCAGGGGGGAATCGGGACGAGTGGGAAA
Found at i:7224376 original size:2 final size:2
Alignment explanation
Indices: 7224369--7224407 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7224359 CACTCTCGCT
7224369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7224408 GGTTACGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7231020 original size:8 final size:8
Alignment explanation
Indices: 7231007--7231070 Score: 53
Period size: 8 Copynumber: 7.9 Consensus size: 8
7230997 TGCGACGGTC
7231007 ATAATATT
1 ATAATATT
7231015 ATAATATT
1 ATAATATT
7231023 AT-ATGA-T
1 ATAAT-ATT
* *
7231030 AGAACA-T
1 ATAATATT
7231037 ATTAATAGGTT
1 A-TAATA--TT
7231048 ATAATATT
1 ATAATATT
7231056 ATAATATT
1 ATAATATT
7231064 ATAATAT
1 ATAATAT
7231071 ATTTTATCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
10 5 0.11
11 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (8 bp):
ATAATATT
Found at i:7231122 original size:28 final size:26
Alignment explanation
Indices: 7231091--7231143 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7231081 TATATATCAC
7231091 ATAAC-AATAATAAACATATTAATATATT
1 ATAACAAAT-ATAAA-A-ATTAATATATT
*
7231119 ATAATAAATATAAAAATTAATATAT
1 ATAACAAATATAAAAATTAATATAT
7231144 ATATTATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 10 0.43
27 1 0.04
28 9 0.39
29 3 0.13
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAACAAATATAAAAATTAATATATT
Done.