Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 82 of 168
Found at i:24166997 original size:19 final size:20
Alignment explanation
Indices: 24166963--24167003 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
24166953 CTATAGATGA
*
24166963 TAATTAGTTCAATTTAATCT
1 TAATTAATTCAATTTAATCT
24166983 TAATTAATT-AATTTAATCT
1 TAATTAATTCAATTTAATCT
24167002 TA
1 TA
24167004 GTTTACCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
TAATTAATTCAATTTAATCT
Found at i:24170907 original size:26 final size:27
Alignment explanation
Indices: 24170861--24170913 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
24170851 AAAGGAAATC
* * *
24170861 CTTTCATATTCCTCCATAAAGG-TTTT
1 CTTTCATATTACACCACAAAGGCTTTT
24170887 CTTTCATATTACACCACAAAGGCTTTT
1 CTTTCATATTACACCACAAAGGCTTTT
24170914 TTCGCTGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (27 bp):
CTTTCATATTACACCACAAAGGCTTTT
Found at i:24173024 original size:50 final size:48
Alignment explanation
Indices: 24172900--24173046 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 48
24172890 GAGATCCCAT
* *
24172900 GTAAGACCATGTCTGGGACATGGTATTGGCACTATTGAGGTTATGAGAGGTCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCAC---CGA-G--ATGAGAGGTCCC
* * *
24172954 ATAAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GT-AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT--CCC
* * *
24173005 GTAAGACCATGTCTGGGACATGGCATCGGCGCCGATATGAGA
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
24173047 ACTGTCATTT
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
49 9 0.11
50 35 0.44
51 5 0.06
52 2 0.03
54 1 0.01
55 27 0.34
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:24173361 original size:20 final size:20
Alignment explanation
Indices: 24173336--24173374 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24173326 TGAGTTATTT
24173336 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
24173356 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
24173375 GAAGAGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:24178899 original size:56 final size:51
Alignment explanation
Indices: 24178827--24179075 Score: 197
Period size: 50 Copynumber: 4.9 Consensus size: 51
24178817 ACATTAAGGG
* **
24178827 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGTCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA
24178878 GGTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
** * *
24178931 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
* ** * * * * *
24178981 TATGAGAACTCCCATGTAAGACCATATTTAGGATATGGCATTGG-TA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCG-A
* * * ** * *
24179030 TAGGAAACATCCCATGTAAGACCATGTCTGGGAGATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24179076 TGTTATTATC
Statistics
Matches: 162, Mismatches: 28, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 36 0.22
50 80 0.49
52 2 0.01
53 3 0.02
54 6 0.04
56 35 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (51 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
Found at i:24179303 original size:20 final size:20
Alignment explanation
Indices: 24179278--24179326 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
24179268 TGAGTTATTT
24179278 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
24179298 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
24179318 AAG-AAGCAA
1 AAGTAAGCAA
24179327 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:24185828 original size:40 final size:40
Alignment explanation
Indices: 24185782--24185875 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
24185772 GTAAGGAGGA
* * *
24185782 AATACTGGCA-TCTTGTCTACAATACTAGCAATTTATTTGT
1 AATACTGGCAGT-TTGTCCACAATACTAGCAACTTATTTGC
* *
24185822 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATTTGC
1 AATACTGGCAGTTTGTCCACAATACTAGCAACTTATTTGC
24185862 AATACTGGCAGTTT
1 AATACTGGCAGTTT
24185876 ATCTACATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (40 bp):
AATACTGGCAGTTTGTCCACAATACTAGCAACTTATTTGC
Found at i:24185934 original size:59 final size:60
Alignment explanation
Indices: 24185822--24185960 Score: 167
Period size: 59 Copynumber: 2.3 Consensus size: 60
24185812 ATTTATTTGT
* *
24185822 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATTTGCAATACTGGCAGTTTATCTAC
1 ATTACTGGTGGTTTGTCCACAATACTAGCAACTTATCTGCAATACTGGCAGTTTATCTAC
* * * *
24185882 ATTACTGGTGGTTTGT-CACAATATTGGCAGC-TAGTCTGCAATACTGGTAGTTTATCTAC
1 ATTACTGGTGGTTTGTCCACAATACTAGCAACTTA-TCTGCAATACTGGCAGTTTATCTAC
* *
24185941 AATAGTGGTGGCTTT-TCCAC
1 ATTACTGGTGG-TTTGTCCAC
24185961 TAACTCGCGT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 2 0.03
59 45 0.66
60 21 0.31
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (60 bp):
ATTACTGGTGGTTTGTCCACAATACTAGCAACTTATCTGCAATACTGGCAGTTTATCTAC
Found at i:24185943 original size:20 final size:20
Alignment explanation
Indices: 24185824--24185949 Score: 76
Period size: 20 Copynumber: 6.3 Consensus size: 20
24185814 TTATTTGTAT
* *
24185824 TACTGGTAGTTTGTCCACAA
1 TACTGGTAGTTTATCTACAA
* * ** * *
24185844 TACTAGCAACTTATTTGCAA
1 TACTGGTAGTTTATCTACAA
* *
24185864 TACTGGCAGTTTATCTACAT
1 TACTGGTAGTTTATCTACAA
* *
24185884 TACTGGTGGTTTGTC-ACAA
1 TACTGGTAGTTTATCTACAA
* * * *
24185903 TATTGGCAG-CTAGTCTGCAA
1 TACTGGTAGTTTA-TCTACAA
24185923 TACTGGTAGTTTATCTACAA
1 TACTGGTAGTTTATCTACAA
*
24185943 TAGTGGT
1 TACTGGT
24185950 GGCTTTTCCA
Statistics
Matches: 74, Mismatches: 29, Indels: 6
0.68 0.27 0.06
Matches are distributed among these distances:
18 1 0.01
19 11 0.15
20 60 0.81
21 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (20 bp):
TACTGGTAGTTTATCTACAA
Found at i:24189919 original size:23 final size:23
Alignment explanation
Indices: 24189892--24189951 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
24189882 CAAACAGACG
* *
24189892 CTTTGTGGCGTATTCTGTGAAGC
1 CTTTGTGGCGTATTCTATAAAGC
** *
24189915 CTTTGTGGTATAATCTATAAAGC
1 CTTTGTGGCGTATTCTATAAAGC
*
24189938 CTTTGTCGCGTATT
1 CTTTGTGGCGTATT
24189952 GGGTAACGCC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (23 bp):
CTTTGTGGCGTATTCTATAAAGC
Found at i:24194846 original size:14 final size:14
Alignment explanation
Indices: 24194827--24194865 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
24194817 TTGTTTCAAT
*
24194827 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
24194841 GAAAATGATTTCTG
1 GAAAATGACTTCCG
24194855 GAAAATGACTT
1 GAAAATGACTT
24194866 ACTTGCTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:24200024 original size:49 final size:49
Alignment explanation
Indices: 24199971--24200089 Score: 175
Period size: 49 Copynumber: 2.4 Consensus size: 49
24199961 CTGCAAAATT
* * *
24199971 TGGTGGCTTGACCATAATATTCTGTATCTGGCAACTTGTTTACATTATC
1 TGGTGGCTTGACCACAATATTCTGTATCTGGCAACTTGTCTACACTATC
* *
24200020 TGGTGGCTTGACCACAATATTCTGTATCTGGTAGCTTGTCTACACTATC
1 TGGTGGCTTGACCACAATATTCTGTATCTGGCAACTTGTCTACACTATC
* *
24200069 GGGTGGCTTGACCACATTATT
1 TGGTGGCTTGACCACAATATT
24200090 GGTGTGATAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (49 bp):
TGGTGGCTTGACCACAATATTCTGTATCTGGCAACTTGTCTACACTATC
Found at i:24200303 original size:11 final size:12
Alignment explanation
Indices: 24200287--24200319 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
24200277 ATTTCACGAA
24200287 AAAATTTCTT-G
1 AAAATTTCTTCG
24200298 AAAATTTCATTCG
1 AAAATTTC-TTCG
24200311 AAAATTTCT
1 AAAATTTCT
24200320 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 9 0.45
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (12 bp):
AAAATTTCTTCG
Found at i:24201229 original size:102 final size:101
Alignment explanation
Indices: 24201052--24201395 Score: 426
Period size: 102 Copynumber: 3.4 Consensus size: 101
24201042 TATTGATGAA
* * *
24201052 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCAATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
24201117 TAAGTGAAGGCTACAAAGCGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTAAGTGTACCGA-AAGCTTTGGT
* * * *
24201154 TACGTGTGTAGTACTGTGTGAAGGCTACTACGTAAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
24201219 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTGGGT
66 TAAGTGAAGGCTACTAAGTGTACCG-AAAGCTTTGGT
* * * *
24201256 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * * *
24201319 CTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTAAGTGTACCG-AAAGCTTTGGT
*
24201356 CACGTGTGTAGTACTATGTGAAGGCT-CTTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTAC-TACGTGAATCGA
24201396 ATGATAAAAG
Statistics
Matches: 212, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
99 1 0.00
100 38 0.18
101 46 0.22
102 126 0.59
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTAAGTGTACCGAAAGCTTTGGT
Found at i:24201322 original size:50 final size:50
Alignment explanation
Indices: 24201052--24201389 Score: 351
Period size: 51 Copynumber: 6.7 Consensus size: 50
24201042 TATTGATGAA
* * ** *
24201052 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCAATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCGTAAA-ACTTGGT
* * * * * * *
24201103 CACATGTGTAGTACTAAGTGAAGGCTACAAAGCGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * * ***
24201154 TACGTGTGTAGTACTGTGTGAAGGCTACTACGTAAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
24201205 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTGGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-CTT-GGT
*
24201256 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
24201306 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
24201356 CACGTGTGTAGTACTATGTGAAGGCT-CTTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTAC-TACGTG
24201390 TATCGAATGA
Statistics
Matches: 237, Mismatches: 41, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
49 5 0.02
50 88 0.37
51 137 0.58
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:24213935 original size:91 final size:91
Alignment explanation
Indices: 24213806--24213979 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 91
24213796 TACGTTATAA
* *
24213806 TTGAAAATATCCAATGTGGTATTGAAACTATCAATTTGTGTAATATTTGGAACATGTACTTT-CA
1 TTGAAAATATCCAAAGTGGTACTGAAACTATCAATTTGTGTAATATTTGGAACATGTA-TTTCCA
*
24213870 TAAAATGTCGAATGTGGTATATGTACT
65 TAAAATGTCCAATGTGGTATATGTACT
* * * * *
24213897 TTGAAAATGTCCAAAGTGGTACCT-AAACTATTAATTTGTGTATTATTTGGTACCTGTATTTCCA
1 TTGAAAATATCCAAAGTGGTA-CTGAAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCA
24213961 TAAAATGTCCAATGTGGTA
65 TAAAATGTCCAATGTGGTA
24213980 CATGAACTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 3 0.04
91 69 0.95
92 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (91 bp):
TTGAAAATATCCAAAGTGGTACTGAAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCAT
AAAATGTCCAATGTGGTATATGTACT
Found at i:24214606 original size:26 final size:26
Alignment explanation
Indices: 24214577--24214642 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
24214567 TTATGAAATG
*
24214577 GCTCACACAAGCTTCAGATC-AAGGTT
1 GCTCACACAAGCTT-AGATCGAAGATT
* *
24214603 GCTCACACAAGCTTAGTTCGATGATT
1 GCTCACACAAGCTTAGATCGAAGATT
*
24214629 GCTCACATAAGCTT
1 GCTCACACAAGCTT
24214643 TAGAGAATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (26 bp):
GCTCACACAAGCTTAGATCGAAGATT
Found at i:24216533 original size:19 final size:19
Alignment explanation
Indices: 24216511--24216547 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24216501 TCGAAAACTT
24216511 AGTCCAAAAAAAAATTAAA
1 AGTCCAAAAAAAAATTAAA
*
24216530 AGTCCAAAAAAAACTTAA
1 AGTCCAAAAAAAAATTAA
24216548 TTAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.14, G:0.05, T:0.16
Consensus pattern (19 bp):
AGTCCAAAAAAAAATTAAA
Found at i:24219568 original size:23 final size:23
Alignment explanation
Indices: 24219542--24219595 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
24219532 CTAGATATTT
24219542 TTCTAAATATTACCACTAAATAA
1 TTCTAAATATTACCACTAAATAA
*
24219565 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTACCACTAAATAA
24219588 TTCTAAAT
1 TTCTAAAT
24219596 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCTAAATATTACCACTAAATAA
Found at i:24224340 original size:34 final size:34
Alignment explanation
Indices: 24224302--24224369 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24224292 AATATTCAAC
24224302 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
1 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
24224336 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
1 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
24224370 TAAATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (34 bp):
ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
Found at i:24230462 original size:3 final size:3
Alignment explanation
Indices: 24230444--24230500 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
24230434 TAGAACAAGC
* *
24230444 TTA TTT TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24230492 TTA TTA TTA
1 TTA TTA TTA
24230501 GTTACTTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24232846 original size:29 final size:30
Alignment explanation
Indices: 24232794--24232854 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
24232784 AGTCTATATC
*
24232794 TTTATAATTTTTAAAGAATTAAATCA-AATT
1 TTTATAATTTTTAAAGAATAAAAT-ATAATT
24232824 TTTAT-ATTTTTAAA-AACTAAAATATAATT
1 TTTATAATTTTTAAAGAA-TAAAATATAATT
24232853 TT
1 TT
24232855 ATCATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.11
29 20 0.71
30 5 0.18
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTATAATTTTTAAAGAATAAAATATAATT
Found at i:24233313 original size:19 final size:19
Alignment explanation
Indices: 24233278--24233314 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24233268 CAATTAAAAT
**
24233278 AATATTTTATATTTTTATC
1 AATATTTTATAAATTTATC
24233297 AATATTTTATAAATTTAT
1 AATATTTTATAAATTTAT
24233315 TACATAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATTTTATAAATTTATC
Found at i:24236677 original size:47 final size:49
Alignment explanation
Indices: 24236596--24236733 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 49
24236586 GTGGAAGTAT
* ** *
24236596 GTGGCAATTTATCTATAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TTA
1 GTGGCAATATATCTGCAAAT-AGTGGTGGCTTGTCCACAAAGTGTTATCA
*
24236645 GTGGCAATATATCTGCATAT-GTGGTGGCTTGTCCACAAAGTGTTATCA
1 GTGGCAATATATCTGCAAATAGTGGTGGCTTGTCCACAAAGTGTTATCA
* * *
24236693 GTGGTAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAA
1 GTGGCAATATATCTGCAAAT-AGTGGTGGCTTGTCCACAAA
24236734 TGGTGTTTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 24 0.31
48 18 0.23
49 16 0.21
50 19 0.25
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (49 bp):
GTGGCAATATATCTGCAAATAGTGGTGGCTTGTCCACAAAGTGTTATCA
Found at i:24236831 original size:17 final size:18
Alignment explanation
Indices: 24236800--24236834 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24236790 GGTAGGAAAT
*
24236800 TTTATAAAATGTGCATCG
1 TTTATAAAATATGCATCG
24236818 TTTA-AAAATATGCATCG
1 TTTATAAAATATGCATCG
24236835 GCATGTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
TTTATAAAATATGCATCG
Found at i:24248582 original size:24 final size:23
Alignment explanation
Indices: 24248530--24248576 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
24248520 ATACATATAT
*
24248530 ATATAATATTTTTTATATATGTAC
1 ATATAATA-TTTTTATATACGTAC
24248554 ATATAATATTTTTAGTATACGTA
1 ATATAATATTTTTA-TATACGTA
24248577 TGTATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (23 bp):
ATATAATATTTTTATATACGTAC
Found at i:24255009 original size:35 final size:35
Alignment explanation
Indices: 24254951--24255026 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 35
24254941 CAGATTTTAA
24254951 AAAAAAGAAGAAAAAAATCAAAATCAAAATCAAAGT
1 AAAAAAGAAGAAAAAAA-CAAAATCAAAATCAAAGT
*
24254987 AAAAAAGAAGAAATAGAA-AAAATCAAAATCAAAGT
1 AAAAAAGAAGAAA-AAAACAAAATCAAAATCAAAGT
*
24255022 CAAAA
1 AAAAA
24255027 TGAAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 21 0.57
36 13 0.35
37 3 0.08
ACGTcount: A:0.72, C:0.08, G:0.09, T:0.11
Consensus pattern (35 bp):
AAAAAAGAAGAAAAAAACAAAATCAAAATCAAAGT
Found at i:24255015 original size:47 final size:45
Alignment explanation
Indices: 24254964--24255052 Score: 124
Period size: 47 Copynumber: 1.9 Consensus size: 45
24254954 AAAGAAGAAA
*
24254964 AAAATCAAAATCAAAATCAAAGTAAAAAAGAAGAAATAGAAAAAATC
1 AAAATCAAAATCAAAATCAAAATAAAAAAG-AGAAA-AGAAAAAATC
* * *
24255011 AAAATCAAAGTCAAAATGAAAATGAAAAAGAGAAAAGAAAAA
1 AAAATCAAAATCAAAATCAAAATAAAAAAGAGAAAAGAAAAA
24255053 GAAAAAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 7 0.18
46 5 0.13
47 26 0.68
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (45 bp):
AAAATCAAAATCAAAATCAAAATAAAAAAGAGAAAAGAAAAAATC
Found at i:24255056 original size:19 final size:19
Alignment explanation
Indices: 24255023--24255070 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
24255013 AATCAAAGTC
* *
24255023 AAAATGAAAATGAAAAA-G
1 AAAAAGAAAAAGAAAAAGG
24255041 AGAAAAGAAAAAGAAAAAGG
1 A-AAAAGAAAAAGAAAAAGG
24255061 AAAAAGAAAA
1 AAAAAGAAAA
24255071 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 23 0.88
20 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAGG
Found at i:24255071 original size:5 final size:6
Alignment explanation
Indices: 24255023--24255070 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
24255013 AATCAAAGTC
* *
24255023 AAAATG AAAATG AAAAAG AGAAAAG AAAAAG AAAAAGG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAA-G AAAAAG AAAA
24255071 GGAGAGGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 27 0.69
7 12 0.31
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:24257466 original size:44 final size:44
Alignment explanation
Indices: 24257416--24257792 Score: 226
Period size: 44 Copynumber: 8.1 Consensus size: 44
24257406 GTAAGGAAGT
* *
24257416 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
* * * * *
24257460 AGATTGAATCTAGTAGTCCTATCTCCCTGAGATTACAGTGGAGT
1 AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
* ** * * *
24257504 GGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGAATC
1 AGATTGAAGCTAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--GA--G---C
* * *
24257558 AGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGC
1 AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
* *
24257602 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
* ** * *
24257646 GGATT-AAAATA-AAGGATCCTATCTCTCTGA-AGTTACAGTAGAGTAGATTGCATC
1 AGATTGAAGCTAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--GA--G---C
*
24257700 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
* * *
24257744 AGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
*
24257788 GGATT
1 AGATT
24257793 AAAATAAAGG
Statistics
Matches: 256, Mismatches: 45, Indels: 64
0.70 0.12 0.18
Matches are distributed among these distances:
42 2 0.01
43 10 0.04
44 164 0.64
47 8 0.03
49 8 0.03
51 8 0.03
54 43 0.17
55 9 0.04
56 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
AGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
Found at i:24257672 original size:142 final size:142
Alignment explanation
Indices: 24257416--24257841 Score: 739
Period size: 142 Copynumber: 3.0 Consensus size: 142
24257406 GTAAGGAAGT
* *
24257416 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
* *
24257481 TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGA
*
24257546 GTAGATCGAATC
131 GTAGATCGCATC
*
24257558 AGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
24257623 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGA
*
24257688 GTAGATTGCATC
131 GTAGATCGCATC
* *
24257700 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTA
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
* *
24257765 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT-CT-TATCTCTGAAGTTACAGTAAA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGA
24257828 GTAGATCGCATC
131 GTAGATCGCATC
24257840 AG
1 AG
24257842 GTCTTATCTC
Statistics
Matches: 271, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
140 32 0.12
141 2 0.01
142 237 0.87
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCATC
Found at i:24257780 original size:98 final size:97
Alignment explanation
Indices: 24257601--24257782 Score: 251
Period size: 98 Copynumber: 1.9 Consensus size: 97
24257591 TACAGCGGAG
* * * *
24257601 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
24257666 ATCTCTCTGAAGTTACAGTAGAGTAGATTGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATTGCAT
* *
24257699 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCT-AGTAATCC
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAA-ATAAG-AATCC
24257763 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
24257783 GGAGCGGATT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
97 4 0.05
98 69 0.93
99 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (97 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATTGCAT
Found at i:24259797 original size:26 final size:28
Alignment explanation
Indices: 24259768--24259831 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 28
24259758 GTATACATAT
24259768 ATATATAATATTTTT-TAT-ATATGTAC
1 ATATATAATATTTTTATATAATATGTAC
*
24259794 --ATATAATATTTTTAGTATACATATGTAT
1 ATATATAATATTTTTA-TATA-ATATGTAC
24259822 ATATATAATA
1 ATATATAATA
24259832 ATATATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 13 0.42
26 3 0.10
28 7 0.23
30 8 0.26
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (28 bp):
ATATATAATATTTTTATATAATATGTAC
Found at i:24268162 original size:42 final size:42
Alignment explanation
Indices: 24268103--24268203 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
24268093 AGCACATGGT
* *
24268103 CTGGCACACGAGCGTGTATGGCAACTCAGAAAGTTACACGGC
1 CTGGCACACGGGCGTGTAGGGCAACTCAGAAAGTTACACGGC
* ** *
24268145 CTGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGGG
1 CTGGCACACGGGCGTGTAGGGCAACTCAGAAAGTTACACGGC
*
24268187 CTAGG-ACACGGTCGTGT
1 CT-GGCACACGGGCGTGT
24268204 GTCCTTTGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.19
Consensus pattern (42 bp):
CTGGCACACGGGCGTGTAGGGCAACTCAGAAAGTTACACGGC
Found at i:24270093 original size:18 final size:18
Alignment explanation
Indices: 24270072--24270107 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24270062 TAATAGCAAT
24270072 ATTAATTCATTTTTGACA
1 ATTAATTCATTTTTGACA
*
24270090 ATTAATTCTTTTTTGACA
1 ATTAATTCATTTTTGACA
24270108 CTTTTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTAATTCATTTTTGACA
Found at i:24276253 original size:9 final size:9
Alignment explanation
Indices: 24276238--24276272 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
24276228 AAATTTCGAG
24276238 TTCGAATAA
1 TTCGAATAA
*
24276247 CTCGAATAA
1 TTCGAATAA
24276256 TTCGAATAA
1 TTCGAATAA
24276265 TTCGAATA
1 TTCGAATA
24276273 TCAAACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (9 bp):
TTCGAATAA
Found at i:24276519 original size:30 final size:31
Alignment explanation
Indices: 24276485--24276544 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24276475 AAACCTTTTA
*
24276485 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
24276515 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
24276545 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:24278477 original size:45 final size:44
Alignment explanation
Indices: 24278425--24278551 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 44
24278415 CTACTAGGCT
* * *
24278425 ACCATAGCATCTTTCAGCTATGGTTTTATTCATGTTTACCATGAT
1 ACCATAGCATCTTTCAGCTATGGTCTTACTCAT-TTTACCATGAC
* * * * * *
24278470 TCCATAGCGTCTTTCAACCATGGTCTTACTAATTTATATCATGAC
1 ACCATAGCATCTTTCAGCTATGGTCTTACTCATTT-TACCATGAC
*
24278515 ACCATATCATCTTTCAGCTATGGTCTTACTCATTTTA
1 ACCATAGCATCTTTCAGCTATGGTCTTACTCATTTTA
24278552 GGTGTATAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
44 4 0.06
45 62 0.94
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (44 bp):
ACCATAGCATCTTTCAGCTATGGTCTTACTCATTTTACCATGAC
Found at i:24282498 original size:21 final size:22
Alignment explanation
Indices: 24282469--24282509 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24282459 TCTTCCTTGG
*
24282469 AAGATGGATATCGTGATACCCA
1 AAGATGGATATCGCGATACCCA
24282491 AAGA-GGATATCGCGATACC
1 AAGATGGATATCGCGATACC
24282510 ACTGAAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (22 bp):
AAGATGGATATCGCGATACCCA
Found at i:24282964 original size:10 final size:10
Alignment explanation
Indices: 24282949--24282982 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24282939 CAATCTCTTA
*
24282949 TTTTAATTTG
1 TTTTAATCTG
24282959 TTTTAATCTG
1 TTTTAATCTG
*
24282969 TTTTAATCTA
1 TTTTAATCTG
24282979 TTTT
1 TTTT
24282983 TGCGGGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (10 bp):
TTTTAATCTG
Found at i:24292258 original size:97 final size:99
Alignment explanation
Indices: 24292110--24292310 Score: 327
Period size: 97 Copynumber: 2.1 Consensus size: 99
24292100 TTTTTAAATT
* *
24292110 TATTTTTAATTAATTAATTCTTTTATTTATATAAATAAAATAATAATTATATAATTATATAATAA
1 TATTTTTAATTAATTAACTCATTTATTTATATAAATAAAATAATAATTATATAATTATATAATAA
*
24292175 AATTATATATTTTATATATATCATTATGTTAAAA
66 AAATATATATTTTATATATATCATTATGTTAAAA
24292209 TATTTTTAATTAA-TAACTCATTTATTTATATAAAT-AAATAA-ATATTATATAATTATATAATA
1 TATTTTTAATTAATTAACTCATTTATTTATATAAATAAAATAATA-ATTATATAATTATATAATA
* *
24292271 AAAATATATTTTTTATATTTATCATTATGTTAAAA
65 AAAATATATATTTTATATATATCATTATGTTAAAA
24292306 TATTT
1 TATTT
24292311 ACTTTTTAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 1 0.01
97 62 0.65
98 20 0.21
99 13 0.14
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (99 bp):
TATTTTTAATTAATTAACTCATTTATTTATATAAATAAAATAATAATTATATAATTATATAATAA
AAATATATATTTTATATATATCATTATGTTAAAA
Found at i:24293284 original size:14 final size:15
Alignment explanation
Indices: 24293262--24293338 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24293252 TAATCAAACA
24293262 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
24293276 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
24293291 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
24293311 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
24293325 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
24293339 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:24293303 original size:20 final size:20
Alignment explanation
Indices: 24293278--24293317 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24293268 AATATTTTCC
*
24293278 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
24293298 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
24293318 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:24293323 original size:34 final size:35
Alignment explanation
Indices: 24293266--24293332 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24293256 CAAACACCAG
*
24293266 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
24293301 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
24293333 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:24293934 original size:20 final size:20
Alignment explanation
Indices: 24293909--24293955 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
24293899 AAAACTATCA
*
24293909 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTAAAAATT
24293929 ATTTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
24293948 ATTTTGAA
1 ATTTTGAA
24293956 CTTCTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:24296131 original size:30 final size:32
Alignment explanation
Indices: 24296070--24296134 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
24296060 ACTTAACAAG
24296070 CAAATGCCTCTAAAATAATAAAAAGAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAGAAATTAA
* *
24296102 CAAATGCCTTTAAAATAAT-AACA-AAATTAA
1 CAAATGCCTCTAAAATAATAAAAAGAAATTAA
24296132 CAA
1 CAA
24296135 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 3 0.10
32 18 0.58
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (32 bp):
CAAATGCCTCTAAAATAATAAAAAGAAATTAA
Found at i:24303030 original size:103 final size:103
Alignment explanation
Indices: 24302851--24303059 Score: 366
Period size: 103 Copynumber: 2.0 Consensus size: 103
24302841 GAAATTCAGT
* *
24302851 GACCATGCAATCTTGAGTCTAATACTCTTGGACTCTTTAGATCCATTTATCTGAAATTTGAAGAA
1 GACCATGCAATCTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
24302916 ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
66 ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
*
24302954 GACCATGCCAA-CTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTGTCTGAAATTTGAAGA
1 GACCATG-CAATCTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGA
*
24303018 AATGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
65 AACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
24303057 GAC
1 GAC
24303060 TTCAGCTTGC
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 98 0.97
104 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (103 bp):
GACCATGCAATCTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
Found at i:24304491 original size:15 final size:15
Alignment explanation
Indices: 24304471--24304517 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
24304461 GTTTGAAATG
24304471 TTACGTTTTAGTCAC
1 TTACGTTTTAGTCAC
*
24304486 TTACGTTATTATGTTA-
1 TTACGTT-TTA-GTCAC
*
24304502 TTACATTTTAGTCAC
1 TTACGTTTTAGTCAC
24304517 T
1 T
24304518 GAACTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 9 0.35
17 3 0.12
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:24304948 original size:23 final size:23
Alignment explanation
Indices: 24304922--24304970 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
24304912 TGAAAAAAAG
24304922 AAAAAAGAAAAAAAAG-AAAAGTT
1 AAAAAA-AAAAAAAAGAAAAAGTT
* *
24304945 AAAAAAACATAAAAGAAAAAGTT
1 AAAAAAAAAAAAAAGAAAAAGTT
24304968 AAA
1 AAA
24304971 TTGCTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (23 bp):
AAAAAAAAAAAAAAGAAAAAGTT
Found at i:24304964 original size:16 final size:14
Alignment explanation
Indices: 24304913--24304964 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
24304903 AGAAGAGAAT
24304913 GAAAAAAAGAAAAAA
1 GAAAAAAA-AAAAAA
*
24304928 GAAAAAAAAGAAAA
1 GAAAAAAAAAAAAA
*
24304942 GTTAAAAAAACATAAAA
1 G--AAAAAAA-AAAAAA
24304959 GAAAAA
1 GAAAAA
24304965 GTTAAATTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.19
15 13 0.41
16 7 0.22
17 6 0.19
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.06
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:24305359 original size:24 final size:24
Alignment explanation
Indices: 24305331--24305382 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24305321 TTAGTAAGTC
*
24305331 AAATAAACTAAACTAATAAATGCT
1 AAATAAACTAAACTAATAAATACT
* * *
24305355 AAATATATTATACTAATAAATACT
1 AAATAAACTAAACTAATAAATACT
24305379 AAAT
1 AAAT
24305383 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTAAACTAATAAATACT
Found at i:24307325 original size:24 final size:24
Alignment explanation
Indices: 24307298--24307349 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
24307288 TTAGTAAGTC
*
24307298 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
24307322 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
24307346 AAAT
1 AAAT
24307350 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:24308624 original size:2 final size:2
Alignment explanation
Indices: 24308617--24308644 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24308607 TCCTTTTATC
24308617 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
24308645 TTGCTTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24308674 original size:19 final size:20
Alignment explanation
Indices: 24308652--24308704 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
24308642 TATTTGCTTT
* *
24308652 CAGAATATTTTT-TCTGTTG
1 CAGAATATTTTTGACTATTG
*
24308671 CAGAAAATCTTTTGACTATTG
1 CAGAATAT-TTTTGACTATTG
*
24308692 TAGAATATTTTTG
1 CAGAATATTTTTG
24308705 GTTGAGGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.26
20 9 0.33
21 11 0.41
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (20 bp):
CAGAATATTTTTGACTATTG
Found at i:24320787 original size:2 final size:2
Alignment explanation
Indices: 24320780--24320812 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24320770 ATTCACTATC
24320780 AT AT 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 AT AT A
24320813 CACTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24322109 original size:43 final size:41
Alignment explanation
Indices: 24322014--24322115 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 41
24322004 TTTAGTAGAG
* *
24322014 AAAAGAAGAGAAAAGGAATTTGGAAGACGAAAAGTCACATGGA
1 AAAAGAAGAGAAAA--AATTGGGAAGAAGAAAAGTCACATGGA
*
24322057 AAAAGAAGAGAAGAAAATTGGGAAGAAGAAAAGTGACCA-GGA
1 AAAAGAAGAGAA-AAAATTGGGAAGAAGAAAAGTCA-CATGGA
24322099 AAAAGAAAGAGAAAAAA
1 AAAAG-AAGAGAAAAAA
24322116 AAGAAGATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 30 0.57
43 21 0.40
44 2 0.04
ACGTcount: A:0.60, C:0.05, G:0.27, T:0.08
Consensus pattern (41 bp):
AAAAGAAGAGAAAAAATTGGGAAGAAGAAAAGTCACATGGA
Found at i:24329101 original size:2 final size:2
Alignment explanation
Indices: 24329094--24329118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24329084 TCCCTCTTTC
24329094 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
24329119 TAGTACTATG
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:24330777 original size:2 final size:2
Alignment explanation
Indices: 24330766--24330798 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24330756 TTGTGTTGTA
*
24330766 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24330799 GTTGTATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24332786 original size:14 final size:14
Alignment explanation
Indices: 24332767--24332804 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24332757 GTCTTCTTTT
24332767 GAGTCCGCA-TATAA
1 GAGTCCGCATTA-AA
24332781 GAGTCCGCATTAAA
1 GAGTCCGCATTAAA
*
24332795 GAGTTCGCAT
1 GAGTCCGCAT
24332805 GATTATCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (14 bp):
GAGTCCGCATTAAA
Found at i:24334422 original size:27 final size:27
Alignment explanation
Indices: 24334390--24334709 Score: 376
Period size: 27 Copynumber: 11.9 Consensus size: 27
24334380 CACAAATTAT
*
24334390 CGAAATACCCCCGAAGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * *
24334417 CAAAATACCCTCGAAGGTTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
24334444 CGAAATACCCCCAAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
24334471 CAAAATACGCCCGAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * *
24334498 CGAAATAACCTCGAAGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
24334525 CGAAATACCCCTGAAAGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
**
24334552 TAAAATACCCCCG-AGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * * * *
24334578 TGAAATACCCTCGAAGGCTAAAATAAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
24334605 CAAAATACCCCC-ATAGGGTAAAATGAC
1 CGAAATACCCCCGA-AGGGTAAAATGAC
* * *
24334632 CGAAATACCCTCGAGGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
24334659 CGAAATACCCTCGAAGGTTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
24334686 CGAAATACCCCCAGAA-GGTAAAAT
1 CGAAATACCCCC-GAAGGGTAAAAT
24334710 TACTATTATA
Statistics
Matches: 244, Mismatches: 45, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.10
27 216 0.89
28 4 0.02
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (27 bp):
CGAAATACCCCCGAAGGGTAAAATGAC
Found at i:24334529 original size:81 final size:80
Alignment explanation
Indices: 24334392--24334709 Score: 431
Period size: 81 Copynumber: 3.9 Consensus size: 80
24334382 CAAATTATCG
* *
24334392 AAATACCCCCGAAGGGTAAAATGATCAAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
24334457 AAGGGTAAAATGACCA
66 AA-GGTAAAATGACCA
* * * * *
24334473 AAATACGCCCGAAGGGTAAAATGACCGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCTG
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCC-C
*
24334538 AAAGGTAAAATGACTA
65 AAAGGTAAAATGACCA
* * * * *
24334554 AAATACCCCCG-AGGGTAAAATGACTGAAATACCCTCGAAGGCTAAAATAATCAAAATACCCCCA
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
* *
24334618 TAGGGTAAAATGACCG
66 -AAGGTAAAATGACCA
* * *
24334634 AAATACCCTCGAGGGGTAAAATGATCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
24334699 GAAGGTAAAAT
66 -AAGGTAAAAT
24334710 TACTATTATA
Statistics
Matches: 206, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.00
80 68 0.33
81 134 0.65
82 3 0.01
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (80 bp):
AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
AAGGTAAAATGACCA
Found at i:24334940 original size:26 final size:26
Alignment explanation
Indices: 24334893--24334961 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
24334883 TTGCCACAAA
* * * *
24334893 TACTATTACTGGAAACTATGTTGCAT
1 TACTGTTACTGGCAGCTCTGTTGCAT
* *
24334919 TATTGTTACTGGCAGCTCTGTTGCGT
1 TACTGTTACTGGCAGCTCTGTTGCAT
*
24334945 TACTGTTATTGGCAGCT
1 TACTGTTACTGGCAGCT
24334962 ATGCCACGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTCTGTTGCAT
Found at i:24335148 original size:28 final size:28
Alignment explanation
Indices: 24335108--24335161 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
24335098 TTGTACTAAT
*
24335108 TACTGTATTGGGCTAAGGCCCACACTGC
1 TACTGAATTGGGCTAAGGCCCACACTGC
*
24335136 TACTGAATTGGGCTAAGGCCCTCACT
1 TACTGAATTGGGCTAAGGCCCACACT
24335162 ACACTATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (28 bp):
TACTGAATTGGGCTAAGGCCCACACTGC
Found at i:24339659 original size:20 final size:20
Alignment explanation
Indices: 24339622--24339659 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24339612 TAGAAAAAAA
*
24339622 AAACATATCATATTAATAGC
1 AAACATATCATATCAATAGC
24339642 AAACATATC-TAATCAATA
1 AAACATATCAT-ATCAATA
24339660 ATTATGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (20 bp):
AAACATATCATATCAATAGC
Found at i:24341556 original size:25 final size:26
Alignment explanation
Indices: 24341509--24341568 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
24341499 ATGTTTTAAT
*
24341509 AGGGGTAAAATCGTCATAATTTTACC
1 AGGGGTAAAATCATCATAATTTTACC
* *
24341535 AGGGGTAAAAT-ATCATATTTTTATC
1 AGGGGTAAAATCATCATAATTTTACC
*
24341560 GGGGGTAAA
1 AGGGGTAAA
24341569 TTTGGGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (26 bp):
AGGGGTAAAATCATCATAATTTTACC
Found at i:24347686 original size:31 final size:29
Alignment explanation
Indices: 24347651--24347727 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
24347641 CTAACGGCTC
* *
24347651 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
24347682 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
24347711 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
24347728 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:24355199 original size:31 final size:31
Alignment explanation
Indices: 24355164--24355241 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
24355154 AAATGTGTTT
* *
24355164 TATACATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTCGTATATAGA
*
24355195 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTCGTATATAGA
* *
24355226 TATATATTACCGAATT
1 TATACATTGCCGAATT
24355242 AATTTGAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTCGTATATAGA
Found at i:24356830 original size:65 final size:67
Alignment explanation
Indices: 24356754--24356882 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 67
24356744 AATCTGACTT
* *
24356754 AGACATGTAATAATGTTGTA-CAAACTAAGACATAATTAATA-GACTTGAAACAACTAAA-AACA
1 AGACATGTAATAATGTTGCATCAAACTAAAACATAATTAATATGA-TTGAAACAACTAAAGAACA
24356816 ATC
65 ATC
** * *
24356819 AGACATGTAATAATGTTGCATGGAATTAAAACATAATTAATATGATTGAAATAACTAAAGAACA
1 AGACATGTAATAATGTTGCATCAAACTAAAACATAATTAATATGATTGAAACAACTAAAGAACA
24356883 TTTAAGTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 19 0.35
66 30 0.55
67 6 0.11
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.26
Consensus pattern (67 bp):
AGACATGTAATAATGTTGCATCAAACTAAAACATAATTAATATGATTGAAACAACTAAAGAACAA
TC
Found at i:24371757 original size:39 final size:39
Alignment explanation
Indices: 24371703--24371821 Score: 238
Period size: 39 Copynumber: 3.1 Consensus size: 39
24371693 TCACAATTAC
24371703 ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
1 ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
24371742 ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
1 ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
24371781 ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
1 ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
24371820 AT
1 AT
24371822 GTGCCATTCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.24
Consensus pattern (39 bp):
ATAAACATGCCATTTTAGACACCCTAAATCAACTAACCA
Found at i:24372361 original size:13 final size:13
Alignment explanation
Indices: 24372343--24372367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24372333 AAATTGGATT
24372343 TTAATTAATTAAG
1 TTAATTAATTAAG
24372356 TTAATTAATTAA
1 TTAATTAATTAA
24372368 TTGAAGTGGT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTAATTAATTAAG
Found at i:24374135 original size:20 final size:20
Alignment explanation
Indices: 24374112--24374218 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
24374102 ATGTGAATTT
* *
24374112 AGGGGTACCGAAGTACAAGC
1 AGGGGTACCGAAGTGCAATC
* ** * *
24374132 AGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTGCAATC
24374152 AGGGGTACCGAAGTGCAATC
1 AGGGGTACCGAAGTGCAATC
* * *
24374172 AGGGGCA-CGTATGTGCATTC
1 AGGGGTACCG-AAGTGCAATC
* * *
24374192 AAGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTGCAATC
24374212 AGGGGTA
1 AGGGGTA
24374219 TGAATGTGCA
Statistics
Matches: 63, Mismatches: 22, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
19 2 0.03
20 59 0.94
21 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.17
Consensus pattern (20 bp):
AGGGGTACCGAAGTGCAATC
Found at i:24374146 original size:40 final size:40
Alignment explanation
Indices: 24374083--24374351 Score: 259
Period size: 40 Copynumber: 6.7 Consensus size: 40
24374073 GAGTTATTGG
* * * *
24374083 AGTATAAACAGGGGCATGTATGTGAATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* *
24374123 AGTACAAGCAGGGGCACATATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
24374163 AGTGCAATCAGGGGCACGTATGTGCATTCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * ***
24374203 AGTACAAACAGGGGTATGAATGTGCATTCAAGGGTATTAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * *
24374243 AGTACAACCAAGGGCACGAATGAGCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * * * *
24374283 AGTATAAACAGGGGTAGGAATGTGCATTTAGTGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* **
24374323 AGTACAAACAGGGACACAAATGTGCATTC
1 AGTACAAACAGGGGCACGTATGTGCATTC
24374352 TTCAATAATT
Statistics
Matches: 187, Mismatches: 42, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
Found at i:24374201 original size:80 final size:80
Alignment explanation
Indices: 24374083--24374351 Score: 288
Period size: 80 Copynumber: 3.4 Consensus size: 80
24374073 GAGTTATTGG
* * * * * * * *
24374083 AGTATAAACAGGGGCATGTATGTGAATTTAGGGGTACCGAAGTACAAGCAGGGGCA-CATATGTG
1 AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGA-ATGTG
*
24374147 CATTCAGGGGTACCGA
65 CATTCAGGGGTACCAA
* * * * *
24374163 AGTGCAATCAGGGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAACAGGGGTATGAATGTGC
1 AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGC
* **
24374228 ATTCAAGGGTATTAA
66 ATTCAGGGGTACCAA
* * * * *
24374243 AGTACAACCAAGGGCACGAATGAGCATTCAGGGGTACTGAAGTATAAACAGGGGTAGGAATGTGC
1 AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGC
* *
24374308 ATTTAGTGGTACCAA
66 ATTCAGGGGTACCAA
* *
24374323 AGTACAAACAGGGACACAAATGTGCATTC
1 AGTACAAACAGGGGCACGAATGTGCATTC
24374352 TTCAATAATT
Statistics
Matches: 155, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 154 0.99
81 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (80 bp):
AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGC
ATTCAGGGGTACCAA
Found at i:24374237 original size:20 final size:20
Alignment explanation
Indices: 24374142--24374310 Score: 83
Period size: 20 Copynumber: 8.4 Consensus size: 20
24374132 AGGGGCACAT
24374142 ATGTGCATTCAGGGGTACCGA
1 ATGTGCATTCAGGGGTA-CGA
* * *
24374163 A-GTGCAATCAGGGGCACGT
1 ATGTGCATTCAGGGGTACGA
*
24374182 ATGTGCATTCAAGGGTACCGA
1 ATGTGCATTCAGGGGTA-CGA
* ** *
24374203 A-GTACAAACAGGGGTATGA
1 ATGTGCATTCAGGGGTACGA
* **
24374222 ATGTGCATTCAAGGGTATTA
1 ATGTGCATTCAGGGGTACGA
* * ** * *
24374242 AAGTACAACCAAGGGCACGA
1 ATGTGCATTCAGGGGTACGA
*
24374262 ATGAGCATTCAGGGGTACTGA
1 ATGTGCATTCAGGGGTAC-GA
** ** *
24374283 A-GTATAAACAGGGGTAGGA
1 ATGTGCATTCAGGGGTACGA
24374302 ATGTGCATT
1 ATGTGCATT
24374311 TAGTGGTACC
Statistics
Matches: 102, Mismatches: 41, Indels: 11
0.66 0.27 0.07
Matches are distributed among these distances:
19 9 0.09
20 86 0.84
21 7 0.07
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
ATGTGCATTCAGGGGTACGA
Found at i:24374753 original size:39 final size:39
Alignment explanation
Indices: 24374704--24374786 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
24374694 GAATCAAATT
24374704 ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
1 ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
*
24374743 ACATCCGATTATTCTAGGCCCTTTAACAGTCTCTATTAC
1 ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
24374782 ACATC
1 ACATC
24374787 GAATTCACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.34
Consensus pattern (39 bp):
ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
Found at i:24378767 original size:2 final size:2
Alignment explanation
Indices: 24378760--24378786 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24378750 AAAAGAATCA
24378760 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 A
24378787 AAGATTAATA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24397499 original size:21 final size:20
Alignment explanation
Indices: 24397473--24397528 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
24397463 GTACTATGCA
24397473 AATGAAACGGGTAAGAAAAGG
1 AATGAAAC-GGTAAGAAAAGG
* *
24397494 AATGAAACATGCAAGAAAAGG
1 AATGAAAC-GGTAAGAAAAGG
*
24397515 AATGGAACGGTAAG
1 AATGAAACGGTAAG
24397529 TGACTAACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.52, C:0.07, G:0.30, T:0.11
Consensus pattern (20 bp):
AATGAAACGGTAAGAAAAGG
Found at i:24399398 original size:37 final size:37
Alignment explanation
Indices: 24399312--24399401 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
24399302 TATAATAAAG
* *
24399312 GTTAGCTGATTTAAGATCACAACCTAAAGTTTTTTGA
1 GTTAGCTGATTTAAGAACACAACCTAAAGTTTCTTGA
* *
24399349 CTTAACTGATTTAAGAACACAACCTAAA-TTTCCTTGA
1 GTTAGCTGATTTAAGAACACAACCTAAAGTTT-CTTGA
*
24399386 GTTAGCTAATTTAAGA
1 GTTAGCTGATTTAAGA
24399402 TCGCAACTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 3 0.07
37 42 0.93
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (37 bp):
GTTAGCTGATTTAAGAACACAACCTAAAGTTTCTTGA
Found at i:24401344 original size:50 final size:50
Alignment explanation
Indices: 24401241--24401433 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 50
24401231 GGGAATGAGA
*
24401241 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
24401297 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
24401347 TCCCCCGTAAGACCATGTCTAGGACATGGAATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
24401397 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24401434 GTACAGAAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 78 0.67
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:24403343 original size:34 final size:34
Alignment explanation
Indices: 24403305--24403535 Score: 284
Period size: 34 Copynumber: 6.8 Consensus size: 34
24403295 TTTTAAACAT
* * * *
24403305 ATTTGGCCATCATTGTAACATGCATAAA-AGCCAC
1 ATTTGGACAACATTATAACATGCA-AAACAACCAC
* * * *
24403339 ATTTGGACATCATTATAACATACAAAACAGCCGC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* *
24403373 ATTTGGACAACATTTTAATATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* * *
24403407 ATTTGAAGAACATTAAAACATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* *
24403441 ATTTGGACACCATTAAAACATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* *
24403475 ATTTGGACAGCATTATAATATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
*
24403509 ATTTGGACAACATTATAACATGAAAAA
1 ATTTGGACAACATTATAACATGCAAAA
24403536 ATTCAGCAGC
Statistics
Matches: 172, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
33 3 0.02
34 169 0.98
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (34 bp):
ATTTGGACAACATTATAACATGCAAAACAACCAC
Found at i:24408272 original size:23 final size:23
Alignment explanation
Indices: 24408215--24408272 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
24408205 GGTTATATTG
24408215 GTGAAATTGATTGAATGTTCAATA
1 GTGAAA-TGATTGAATGTTCAATA
* *
24408239 G-GAGAAGGATTGAATGTTTACA-A
1 GTGA-AATGATTGAATGTTCA-ATA
24408262 GTGAAATGATT
1 GTGAAATGATT
24408273 ACTTAGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (23 bp):
GTGAAATGATTGAATGTTCAATA
Found at i:24410468 original size:26 final size:27
Alignment explanation
Indices: 24410439--24410492 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
24410429 TTGTTAAAAC
* * *
24410439 TCTTCTAAAAGAAACTC-AAGAGAATT
1 TCTTCAAAAAAAAACTCAAAAAGAATT
*
24410465 TCTTGAAAAAAAAACTCAAAAAGAATT
1 TCTTCAAAAAAAAACTCAAAAAGAATT
24410492 T
1 T
24410493 ATTAACTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (27 bp):
TCTTCAAAAAAAAACTCAAAAAGAATT
Found at i:24411248 original size:23 final size:23
Alignment explanation
Indices: 24411222--24411268 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24411212 CTTTTAATAG
*
24411222 ATTGGAGTAATATGTATTTTCTC
1 ATTGGAGTAATATATATTTTCTC
24411245 ATTGGAGTAATATATATTTTCTC
1 ATTGGAGTAATATATATTTTCTC
24411268 A
1 A
24411269 GTTTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (23 bp):
ATTGGAGTAATATATATTTTCTC
Found at i:24418961 original size:24 final size:20
Alignment explanation
Indices: 24418907--24418953 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
24418897 ATGAAGAATC
*
24418907 TTCAAGTTCTTTAATAAATA
1 TTCATGTTCTTTAATAAATA
24418927 TTCATGTTCTTTAATAAATA
1 TTCATGTTCTTTAATAAATA
24418947 TTCATGT
1 TTCATGT
24418954 AAATTCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (20 bp):
TTCATGTTCTTTAATAAATA
Found at i:24419174 original size:43 final size:43
Alignment explanation
Indices: 24419113--24419204 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
24419103 TTTAACCATA
* **
24419113 CTAATATATGCATAGTACAAACTAGATGAAAGATTATAATTTT
1 CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
*
24419156 CTAATATATGCATAGTACAAACTAGAGGGAAGACGATAATTTT
1 CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
24419199 CTAATA
1 CTAATA
24419205 CAAAATTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (43 bp):
CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
Found at i:24420330 original size:12 final size:13
Alignment explanation
Indices: 24420308--24420336 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24420298 ATGATACCCA
24420308 CTTTAGTGAATAT
1 CTTTAGTGAATAT
24420321 CTTT-GTGAATAT
1 CTTTAGTGAATAT
24420333 CTTT
1 CTTT
24420337 TAAAACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (13 bp):
CTTTAGTGAATAT
Found at i:24421249 original size:15 final size:15
Alignment explanation
Indices: 24421219--24421252 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24421209 AAAAAAATCA
**
24421219 TAATTAATTATGAAT
1 TAATTAATTAAAAAT
24421234 TAATTAATTAAAAAT
1 TAATTAATTAAAAAT
24421249 TAAT
1 TAAT
24421253 AAAATATTAA
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:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAATTAATTAAAAAT
Found at i:24421438 original size:14 final size:14
Alignment explanation
Indices: 24421419--24421458 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24421409 TTGATAGCCA
24421419 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
24421433 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
24421447 GGAAAATGTTTT
1 GTAAAATGTTTT
24421459 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:24421467 original size:20 final size:20
Alignment explanation
Indices: 24421442--24421481 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24421432 CGTAAAATGA
*
24421442 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
24421462 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24421482 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24421471 original size:34 final size:35
Alignment explanation
Indices: 24421427--24421493 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24421417 CAGTAAAATG
*
24421427 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
24421461 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
24421494 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:24421497 original size:14 final size:15
Alignment explanation
Indices: 24421421--24421497 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24421411 GATAGCCAGT
* *
24421421 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
24421435 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
24421449 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
24421469 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
24421484 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
24421498 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:24432664 original size:5 final size:5
Alignment explanation
Indices: 24432654--24432679 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24432644 TGAGCATTCG
24432654 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
24432680 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:24433709 original size:9 final size:9
Alignment explanation
Indices: 24433695--24433731 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24433685 TATAGTTTGA
24433695 TATTCGAAT
1 TATTCGAAT
24433704 TATTCGAAT
1 TATTCGAAT
*
24433713 TATTCGAGT
1 TATTCGAAT
24433722 TATTCGAAT
1 TATTCGAAT
24433731 T
1 T
24433732 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24433800 original size:9 final size:9
Alignment explanation
Indices: 24433783--24433813 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24433773 TCGAGTTGAT
24433783 TCGAATAAC
1 TCGAATAAC
*
24433792 TCGATTAAC
1 TCGAATAAC
24433801 TCGAATAAC
1 TCGAATAAC
24433810 TCGA
1 TCGA
24433814 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:24438218 original size:18 final size:17
Alignment explanation
Indices: 24438190--24438223 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24438180 CATATTCATA
24438190 TGTCTGTAAGAATTTAG
1 TGTCTGTAAGAATTTAG
*
24438207 TGTCTAGTAAGAGTTTA
1 TGTCT-GTAAGAATTTA
24438224 CCGGTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTCTGTAAGAATTTAG
Found at i:24444827 original size:25 final size:25
Alignment explanation
Indices: 24444799--24444920 Score: 70
Period size: 25 Copynumber: 4.8 Consensus size: 25
24444789 TTGTATATTG
24444799 GGAAGCTCATAAGAGCCATAAATCA
1 GGAAGCTCATAAGAGCCATAAATCA
** * *
24444824 GGAAGCTCATGCGAGCCA-ATTATCG
1 GGAAGCTCATAAGAGCCATA-AATCA
* *
24444849 GGAATG-TCA-AGAGAGCCATTAATCG
1 GGAA-GCTCATA-AGAGCCATAAATCA
** * *
24444874 GGAAGCTCATGAAAGAGCTTTTAATTA
1 GGAAGCTCAT--AAGAGCCATAAATCA
* *
24444901 GGAAACTCGTAAGAGCCATA
1 GGAAGCTCATAAGAGCCATA
24444921 TGTTGGGATG
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
24 2 0.03
25 50 0.69
26 1 0.01
27 18 0.25
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATAAGAGCCATAAATCA
Found at i:24444965 original size:25 final size:25
Alignment explanation
Indices: 24444937--24445031 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 25
24444927 GATGGTCCTT
24444937 AGAGCTAAATAACGGGAAGCTCATG
1 AGAGCTAAATAACGGGAAGCTCATG
* * * * *
24444962 AGAGCCAAATATCAGAAAGCTCAAG
1 AGAGCTAAATAACGGGAAGCTCATG
* ** * *
24444987 AGAGC-CAATGTCGAGATGCTCATG
1 AGAGCTAAATAACGGGAAGCTCATG
*
24445011 AGAGCT-AATAACGGGACGCTC
1 AGAGCTAAATAACGGGAAGCTC
24445032 TTGTGAGTTG
Statistics
Matches: 53, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
24 28 0.53
25 25 0.47
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (25 bp):
AGAGCTAAATAACGGGAAGCTCATG
Found at i:24454016 original size:116 final size:116
Alignment explanation
Indices: 24453812--24454047 Score: 454
Period size: 116 Copynumber: 2.0 Consensus size: 116
24453802 TTTAAAAGGG
*
24453812 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
1 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
24453877 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
66 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
24453928 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
1 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
*
24453993 CTGCAAATCTCATACAACTAAATGTAATACTAGTCATTATGTGGGGGTGGA
66 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
24454044 AATT
1 AATT
24454048 CTTTTCTCGG
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (116 bp):
AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
Found at i:24455831 original size:31 final size:31
Alignment explanation
Indices: 24455790--24455849 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
24455780 TACCCGTTAT
*
24455790 AGAGAGAATATGTTCAAAAATAGAAAGAAGG
1 AGAGAGAATATGTTCAAAAATAAAAAGAAGG
*
24455821 AGAGATAATATGTTCAAAAATAAAAAGAA
1 AGAGAGAATATGTTCAAAAATAAAAAGAA
24455850 AGAAAGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.58, C:0.03, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAGAGAATATGTTCAAAAATAAAAAGAAGG
Found at i:24456028 original size:32 final size:31
Alignment explanation
Indices: 24455976--24456050 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 31
24455966 TAACAAGTTC
* * *
24455976 AATTAATTTATATGAGTTATTTAATTTAATT
1 AATTAATTTATATGAGTTATTAAATTCAAGT
24456007 AATTAATTTATCATGAGTTATTAAATTCAAGT
1 AATTAATTTAT-ATGAGTTATTAAATTCAAGT
*
24456039 AATCAATTTATA
1 AATTAATTTATA
24456051 AATTTATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 12 0.31
32 27 0.69
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (31 bp):
AATTAATTTATATGAGTTATTAAATTCAAGT
Found at i:24456029 original size:18 final size:17
Alignment explanation
Indices: 24455977--24456030 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
24455967 AACAAGTTCA
24455977 ATTAATTTATATGAGTT
1 ATTAATTTATATGAGTT
*
24455994 ATTTAATTTA-AT---TA
1 A-TTAATTTATATGAGTT
24456008 ATTAATTTATCATGAGTT
1 ATTAATTTAT-ATGAGTT
24456026 ATTAA
1 ATTAA
24456031 ATTCAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
13 8 0.28
14 2 0.07
15 2 0.07
17 3 0.10
18 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
ATTAATTTATATGAGTT
Found at i:24459966 original size:49 final size:47
Alignment explanation
Indices: 24459887--24460029 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 47
24459877 AAAAAGTGAT
* * * * * *
24459887 ATGGGCCACTGGTAAGGCATGTCAGCTGCTAACAATAATGGCGGATGA
1 ATGGACCACTAGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGAT-A
* * *
24459935 GATGGACCACTAGTAGGGCATGTTAGTTGCTAACCAGACTGACGGATA
1 -ATGGACCACTAGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGATA
* * *
24459983 AGGGATCACTAATAGGGCATGTTAGTTGCTAA-ACAGAATGGCGGATA
1 ATGGACCACTAGTAGGGCATGTTAGTTGCTAACA-AGAATGGCGGATA
24460030 TGTCGGGTCA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
47 40 0.51
48 1 0.01
49 37 0.47
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (47 bp):
ATGGACCACTAGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGATA
Found at i:24461293 original size:27 final size:26
Alignment explanation
Indices: 24461254--24461314 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
24461244 TCTTTGTATT
* *
24461254 TTTGAAAACATTTTATTTTTCTCAATA
1 TTTGAAAACA-TTTAGTTTTCTCAACA
* *
24461281 TTTGAGAATATTTAGTTTTCTCAACA
1 TTTGAAAACATTTAGTTTTCTCAACA
24461307 TTTGAAAA
1 TTTGAAAA
24461315 TTAGAGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (26 bp):
TTTGAAAACATTTAGTTTTCTCAACA
Found at i:24463161 original size:25 final size:25
Alignment explanation
Indices: 24463133--24463215 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
24463123 GGACACACCA
* * *
24463133 CAGCTAGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGTTTACTGATTCT
24463157 GCAGCTCGTGA-GAGTTTACTGATTCT
1 -CAGCTCGT-ATGAGTTTACTGATTCT
*
24463183 CAGCTCGTATGAGTTTACTGATTCA
1 CAGCTCGTATGAGTTTACTGATTCT
*
24463208 CAACTCGT
1 CAGCTCGT
24463216 GAGAGCATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 47 0.94
26 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGTTTACTGATTCT
Found at i:24463231 original size:50 final size:51
Alignment explanation
Indices: 24463133--24463246 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 51
24463123 GGACACACCA
** * **
24463133 CAGCTAGTATGAGCTTACCGATTTGCAGCTCGTGAGAGTTTACTGATTC-T
1 CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
* * *
24463183 CAGCTCGTATGAGTTTACTGATTCACAACTCGTGAGAGCATA-TCGATTCAT
1 CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACT-GATTCAT
*
24463234 -AGCTTGTATGAGC
1 CAGCTAGTATGAGC
24463247 ATACATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (51 bp):
CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
Found at i:24463437 original size:30 final size:30
Alignment explanation
Indices: 24463398--24463459 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
24463388 TACATGGAAT
24463398 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
24463429 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
24463458 AC
1 AC
24463460 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:24464961 original size:63 final size:63
Alignment explanation
Indices: 24464859--24464991 Score: 212
Period size: 63 Copynumber: 2.1 Consensus size: 63
24464849 TTTTTAAAAA
* *
24464859 CACTTCTCAAAAGCAATACTAAACTAGCCCTAAATATATTGACTAGAGAATACTCTCATAGCT
1 CACTTCTCAAAAGCAACACTAAACTAGCCCTAAACATATTGACTAGAGAATACTCTCATAGCT
* * * *
24464922 CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
1 CACTTCTCAAAAGCAACACTAAACTAGCCCTAAACATATTGACTAGAGAATACTCTCATAGCT
24464985 CACTTCT
1 CACTTCT
24464992 TTGCTATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (63 bp):
CACTTCTCAAAAGCAACACTAAACTAGCCCTAAACATATTGACTAGAGAATACTCTCATAGCT
Found at i:24465075 original size:68 final size:67
Alignment explanation
Indices: 24464965--24465157 Score: 287
Period size: 68 Copynumber: 2.8 Consensus size: 67
24464955 GCATATTGAC
* *
24464965 TAGAGAATACTCTCATAGCTCACTTCTTTGCTATTTTCATTAAAAAGTTAATTTTAATCCCACAT
1 TAGAGAATACTC-CATAACTCACTTCTTTACTATTTTCATTAAAAA-TTAATTTTAATCCCACAT
*
24465030 TAAT
64 CAAT
* * *
24465034 TAGAGAATACTCCACAACTCACTTCTTCACTATTTTCATTAAAAAATTAATTTTAATCTCACATC
1 TAGAGAATACTCCATAACTCACTTCTTTACTATTTTCATT-AAAAATTAATTTTAATCCCACATC
*
24465099 GAT
65 AAT
*
24465102 TAGAGAATACTCCATAACTCACTTCTTTACTATTTTCATTAAAAAATAATTTTAAT
1 TAGAGAATACTCCATAACTCACTTCTTTACTATTTTCATTAAAAATTAATTTTAAT
24465158 AATATAAAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
67 15 0.13
68 81 0.72
69 17 0.15
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.39
Consensus pattern (67 bp):
TAGAGAATACTCCATAACTCACTTCTTTACTATTTTCATTAAAAATTAATTTTAATCCCACATCA
AT
Found at i:24466005 original size:12 final size:12
Alignment explanation
Indices: 24465990--24466015 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24465980 GTTGTTTTAT
24465990 TATTATAATCAA
1 TATTATAATCAA
24466002 TATTATAATCAA
1 TATTATAATCAA
24466014 TA
1 TA
24466016 GCATCATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTATAATCAA
Found at i:24466071 original size:15 final size:16
Alignment explanation
Indices: 24466044--24466073 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24466034 AAATTATTTA
24466044 AATTTACTTATTAAAT
1 AATTTACTTATTAAAT
24466060 AATTTA-TTATTAAA
1 AATTTACTTATTAAA
24466074 CTTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTACTTATTAAAT
Found at i:24466225 original size:19 final size:18
Alignment explanation
Indices: 24466171--24466226 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
24466161 TAGTTTTGTA
24466171 ATAATTTTCTAAT-ATTTT
1 ATAATTTT-TAATCATTTT
*
24466189 ATAA-ATTTATATCAATTTT
1 ATAATTTTTA-ATC-ATTTT
24466208 CATAATTTTTAATCATTTT
1 -ATAATTTTTAATCATTTT
24466227 TATGGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 2 0.06
17 4 0.13
18 4 0.13
19 10 0.32
20 7 0.23
21 4 0.13
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTTTAATCATTTT
Found at i:24472821 original size:170 final size:168
Alignment explanation
Indices: 24472537--24472865 Score: 518
Period size: 170 Copynumber: 1.9 Consensus size: 168
24472527 AATTTGTATG
24472537 CTAACATTAAATTATTTTGAGGTATTGTTGTTTTGGATTATGCAACATCCAAGCTATTTTCAATA
1 CTAACATTAAATTATTTTGAGGTATTGTTGTTTTGGATTATGCAACATCCAAGCTATTTTCAATA
* * *
24472602 TCTTCTATTCACACTTGACTTTTTAGGCACTATTAGTTTGTTGATAATCCAACACTGAAGGGCTG
66 TCTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATCCAACACTGAAGGGCTG
*
24472667 TTATCTCATATTCCAGGAATATCATGGCAATTTATAAA
131 TTATCTCACATTCCAGGAATATCATGGCAATTTATAAA
* * *
24472705 CTAA-ATTAAA-TAGTTTTGAGGTATTGTTGTTTCTGGATTGTGCAACATACCCATGCTGTTTTC
1 CTAACATTAAATTA-TTTTGAGGTATTGTTGTTT-TGGATTATGCAACAT--CCAAGCTATTTTC
* *
24472768 AGTATCTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATCCCACACTGAAGG
62 AATATCTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATCCAACACTGAAGG
*
24472833 GCTGTTATCTCACATTCCAGGAATATCTTGGCA
127 GCTGTTATCTCACATTCCAGGAATATCATGGCA
24472866 TCATTTCGGC
Statistics
Matches: 147, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
166 2 0.01
167 25 0.17
168 18 0.12
170 102 0.69
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (168 bp):
CTAACATTAAATTATTTTGAGGTATTGTTGTTTTGGATTATGCAACATCCAAGCTATTTTCAATA
TCTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATCCAACACTGAAGGGCTG
TTATCTCACATTCCAGGAATATCATGGCAATTTATAAA
Found at i:24478482 original size:62 final size:63
Alignment explanation
Indices: 24478406--24478525 Score: 233
Period size: 62 Copynumber: 1.9 Consensus size: 63
24478396 TGTATCACGC
24478406 TTCATAGCTTAATTTAATCTTTACAAAATGTGAGGGG-CAACTCTGTAAGTATTGGGTCACAT
1 TTCATAGCTTAATTTAATCTTTACAAAATGTGAGGGGACAACTCTGTAAGTATTGGGTCACAT
24478468 TTCATAGCTTAATTTAATCTTTACAAAATGTGAGGGGACAACTCTGTAAGTATTGGGT
1 TTCATAGCTTAATTTAATCTTTACAAAATGTGAGGGGACAACTCTGTAAGTATTGGGT
24478526 TGAATGGTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 37 0.65
63 20 0.35
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (63 bp):
TTCATAGCTTAATTTAATCTTTACAAAATGTGAGGGGACAACTCTGTAAGTATTGGGTCACAT
Found at i:24483183 original size:30 final size:29
Alignment explanation
Indices: 24483116--24483187 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
24483106 TCAATTTGAT
* * *
24483116 AAATTTTAGTTTTTGTATTTTTTGAATTA
1 AAATTTTAATTTTTATATTTTTTAAATTA
*
24483145 ATTTATTTTAATTTTTATATTTTTTAAATTTA
1 A--AATTTTAATTTTTATATTTTTTAAA-TTA
24483177 AAATTTTAATT
1 AAATTTTAATT
24483188 CTAACTAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 9 0.26
31 21 0.60
32 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (29 bp):
AAATTTTAATTTTTATATTTTTTAAATTA
Found at i:24483935 original size:5 final size:5
Alignment explanation
Indices: 24483925--24483994 Score: 140
Period size: 5 Copynumber: 14.0 Consensus size: 5
24483915 TGAGTTGACT
24483925 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
24483975 ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA
24483995 GTGGTTCTGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 65 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:24484601 original size:19 final size:19
Alignment explanation
Indices: 24484579--24484640 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
24484569 TTTATGTTAT
24484579 AAATTATAAATTACTTCAA
1 AAATTATAAATTACTTCAA
* *
24484598 AAATTATAAA-TAATGTCAT
1 AAATTATAAATTACT-TCAA
24484617 AAATTATAAATTACTTCAA
1 AAATTATAAATTACTTCAA
*
24484636 TAATT
1 AAATT
24484641 TTATAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 30 0.83
20 3 0.08
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTATAAATTACTTCAA
Found at i:24484620 original size:38 final size:40
Alignment explanation
Indices: 24484572--24484650 Score: 126
Period size: 38 Copynumber: 2.0 Consensus size: 40
24484562 TCAATAATTT
*
24484572 ATGTTATAAATTATAAATTACTTCAA-AA-ATTATAAATA
1 ATGTCATAAATTATAAATTACTTCAATAATATTATAAATA
*
24484610 ATGTCATAAATTATAAATTACTTCAATAATTTTATAAATA
1 ATGTCATAAATTATAAATTACTTCAATAATATTATAAATA
24484650 A
1 A
24484651 AAATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 25 0.68
39 2 0.05
40 10 0.27
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (40 bp):
ATGTCATAAATTATAAATTACTTCAATAATATTATAAATA
Found at i:24484719 original size:26 final size:25
Alignment explanation
Indices: 24484645--24484724 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
24484635 ATAATTTTAT
* *
24484645 AAATAAAAATTATATTGATAAATTAA
1 AAATAAAACTTAAATT-ATAAATTAA
* *
24484671 AATATTAAACTTATATTATAAATTAA
1 AA-ATAAAACTTAAATTATAAATTAA
* * *
24484697 AAATAAAATTTAAATTTTAAAATAA
1 AAATAAAACTTAAATTATAAATTAA
24484722 AAA
1 AAA
24484725 ATTATTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
25 21 0.46
26 13 0.28
27 12 0.26
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (25 bp):
AAATAAAACTTAAATTATAAATTAA
Found at i:24484746 original size:20 final size:21
Alignment explanation
Indices: 24484721--24484764 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24484711 TTTTAAAATA
*
24484721 AAAAATTA-TTTA-AATATTAT
1 AAAAATAACTTTACAAT-TTAT
24484741 AAAAATAACTTTACAATTTAT
1 AAAAATAACTTTACAATTTAT
24484762 AAA
1 AAA
24484765 TAACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 11 0.52
22 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATAACTTTACAATTTAT
Done.