Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 79 of 109
Found at i:25415785 original size:97 final size:97
Alignment explanation
Indices: 25415603--25415822 Score: 289
Period size: 97 Copynumber: 2.3 Consensus size: 97
25415593 AAAAGTTGTT
*
25415603 AATACATTGTGGATGAACCACTGGTCATTGTAGATAAAATACTGACTAAAACACGTTGCGGATGA
1 AATACATTGTGGATGAACCACTGGTCATTGGAGATAAAATACTGACTAAAACACGTTGCGGATGA
* *
25415668 ACTACTGGTTATGCAGATAAACTGTT-GACTAA
66 ACTACTGGTTATGCAAATAAACT-TTCAACTAA
** * * ** * ** *
25415700 AATATGTTGTGGATGAACCATTGGTCATTGGAGATAAATTGTTGACTAAAATATTTTGTGGATGA
1 AATACATTGTGGATGAACCACTGGTCATTGGAGATAAAATACTGACTAAAACACGTTGCGGATGA
*
25415765 ACTACTGGTTGTGCAAATAAACTTTCAACTAA
66 ACTACTGGTTATGCAAATAAACTTTCAACTAA
*
25415797 AATACATTGTGGATGAATCACTGGTC
1 AATACATTGTGGATGAACCACTGGTC
25415823 GTGCAAATAA
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
96 2 0.02
97 102 0.98
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (97 bp):
AATACATTGTGGATGAACCACTGGTCATTGGAGATAAAATACTGACTAAAACACGTTGCGGATGA
ACTACTGGTTATGCAAATAAACTTTCAACTAA
Found at i:25415891 original size:17 final size:17
Alignment explanation
Indices: 25415869--25415907 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
25415859 CATCCCACCC
25415869 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
25415886 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
25415903 CATGC
1 CATGC
25415908 TTATAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (17 bp):
CATGCAATGTAACATAA
Found at i:25416032 original size:34 final size:33
Alignment explanation
Indices: 25415899--25416033 Score: 105
Period size: 34 Copynumber: 4.0 Consensus size: 33
25415889 GCAATGTAAC
* * **
25415899 ATAACATGCTTATAATAGATCAATAAGGTAGCA
1 ATAACATACTTATAACAGATCAATTCGGTAGCA
* * *
25415932 ATAACATACTTATAACACG-TCGATAT-AGTAGAA
1 ATAACATACTTATAACA-GATCAAT-TCGGTAGCA
* * *
25415965 ATTATCATACTTATAATAGATC-ATTACGATAGCA
1 A-TAACATACTTATAACAGATCAATT-CGGTAGCA
*
25415999 ATAAGCATGCTTATAACAGATCAATTCGGTAGCA
1 ATAA-CATACTTATAACAGATCAATTCGGTAGCA
25416033 A
1 A
25416034 AGTCATGATT
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
32 1 0.01
33 30 0.38
34 45 0.57
35 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (33 bp):
ATAACATACTTATAACAGATCAATTCGGTAGCA
Found at i:25430125 original size:12 final size:12
Alignment explanation
Indices: 25430101--25430154 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
25430091 GTAAACAAGT
*
25430101 AAAATTAACATTA
1 AAAATTAA-AATA
*
25430114 AAAATT-AAATT
1 AAAATTAAAATA
*
25430125 AAAATGAAAATA
1 AAAATTAAAATA
*
25430137 AAAATAAAAATA
1 AAAATTAAAATA
25430149 AAAATT
1 AAAATT
25430155 TTGAAGTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
11 7 0.21
12 21 0.62
13 6 0.18
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:25439902 original size:14 final size:14
Alignment explanation
Indices: 25439883--25439920 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
25439873 TATTTAGCAA
25439883 TTATAAAATAATAG
1 TTATAAAATAATAG
25439897 TTATAAAATAATAG
1 TTATAAAATAATAG
25439911 TTATAAAATA
1 TTATAAAATA
25439921 GTGGACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
TTATAAAATAATAG
Found at i:25441467 original size:28 final size:27
Alignment explanation
Indices: 25441435--25441532 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 27
25441425 TAATGAGATT
* *
25441435 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTT-ATTATTA
*
25441463 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAG-TTTATTATTA
25441491 AGCACTAAGTGTGCGAGATTTATTATTA
1 AGCACTAAGTGTGCGAG-TTTATTATTA
25441519 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
25441533 AAACTTATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
28 63 0.97
29 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTATTATTA
Found at i:25442400 original size:70 final size:71
Alignment explanation
Indices: 25442256--25442708 Score: 653
Period size: 70 Copynumber: 6.4 Consensus size: 71
25442246 TTTGATGCTT
* * * *
25442256 AAATGCTGC-CAATTTGTTGTATATATACTGCTCAATTTGTTGCATATAGGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
25442320 GTGTAA
66 ATGTAA
* * * *
25442326 AAATGCTGCTCAATTTTTTGTATTTATGCTACCCAAATTGTTGTATATATGCTGTCCAA-TTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
25442390 ATGTAA
66 ATGTAA
* * * *
25442396 AAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTAGTATATATGCTGTCCAA-TTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
25442460 ATGTAA
66 ATGTAA
* * *
25442466 AAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
25442531 GTGTAA
66 ATGTAA
* * *
25442537 AAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATGGTTGTATATATGCTGTCCAA-TTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
25442601 ATGTAA
66 ATGTAA
* * *
25442607 AAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
25442672 GTGTAA
66 ATGTAA
*
25442678 AAATGCTGCTCAATTTTTTGTATATATGCTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTG
25442709 TCTAGTTTGG
Statistics
Matches: 342, Mismatches: 38, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
70 201 0.59
71 141 0.41
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (71 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
ATGTAA
Found at i:25442410 original size:141 final size:141
Alignment explanation
Indices: 25442256--25442708 Score: 685
Period size: 141 Copynumber: 3.2 Consensus size: 141
25442246 TTTGATGCTT
* * * *
25442256 AAATGCTGC-CAATTTGTTGTATATATACTGCTCAATTTGTTGCATATAGGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAA-TTTTG
* * ** * * * *
25442320 GTGTAAAAATGCTGCTCAATTTTTTGTATTTATGCTACCCAAATTGTTGTATATATGCTGTCCAA
65 ATGTAAAAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAA
*
25442385 -TTTTGATGTAA
130 TTTTTGGTGTAA
* * * *
25442396 AAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTAGTATATATGCTGTCCAATTTTGA
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGA
25442461 TGTAAAAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAAT
66 TGTAAAAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAAT
25442526 TTTTGGTGTAA
131 TTTTGGTGTAA
* * *
25442537 AAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATGGTTGTATATATGCTGTCCAATTTTGA
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGA
*
25442602 TGTAAAAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAAT
66 TGTAAAAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAAT
25442667 TTTTGGTGTAA
131 TTTTGGTGTAA
*
25442678 AAATGCTGCTCAATTTTTTGTATATATGCTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTG
25442709 TCTAGTTTGG
Statistics
Matches: 284, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
140 70 0.25
141 214 0.75
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (141 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTGA
TGTAAAAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAAT
TTTTGGTGTAA
Found at i:25442629 original size:211 final size:212
Alignment explanation
Indices: 25442256--25442708 Score: 775
Period size: 211 Copynumber: 2.1 Consensus size: 212
25442246 TTTGATGCTT
* *
25442256 AAATGCTGC-CAATTTGTTGTATATATACTGCTCAATTTGTTGCATATAGGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGCATATAGGCTGTCCAATTTTTG
* *
25442320 GTGTAAAAATGCTGCTCAATTTTTTGTATTTATGCTACCCAAATTGTTGTATATATGCTGTCCAA
66 GTGTAAAAATGCTGCTCAATTTGTTGTATTTATGCTACCCAAATGGTTGTATATATGCTGTCCAA
25442385 TTTTGATGTAAAAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTAGTATATATGCTG
131 TTTTGATGTAAAAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTAGTATATATGCTG
25442450 TCCAA-TTTTGATGTAA
196 TCCAATTTTTGATGTAA
* * * * *
25442466 AAATGCAGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGCATATAGGCTGTCCAATTTTTG
*
25442531 GTGTAAAAATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAATGGTTGTATATATGCTGTCCAA
66 GTGTAAAAATGCTGCTCAATTTGTTGTATTTATGCTACCCAAATGGTTGTATATATGCTGTCCAA
*
25442596 TTTTGATGTAAAAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTG
131 TTTTGATGTAAAAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTAGTATATATGCTG
*
25442661 TCCAATTTTTGGTGTAA
196 TCCAATTTTTGATGTAA
*
25442678 AAATGCTGCTCAATTTTTTGTATATATGCTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTG
25442709 TCTAGTTTGG
Statistics
Matches: 225, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
210 8 0.04
211 180 0.80
212 37 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (212 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGCATATAGGCTGTCCAATTTTTG
GTGTAAAAATGCTGCTCAATTTGTTGTATTTATGCTACCCAAATGGTTGTATATATGCTGTCCAA
TTTTGATGTAAAAATGCGGCTCAATTTGGTATATATATGCTGCCCAATTTGTAGTATATATGCTG
TCCAATTTTTGATGTAA
Found at i:25442752 original size:23 final size:23
Alignment explanation
Indices: 25442258--25442821 Score: 376
Period size: 23 Copynumber: 24.1 Consensus size: 23
25442248 TGATGCTTAA
25442258 ATGCTG-CCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
25442280 ATACTGCTCAATTTGTTGCATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * * *
25442303 AGGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* * *
25442328 ATGCTGCTCAATTTTTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
* *
25442351 ATGCTACCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
25442374 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * *
25442398 ATGCGGCTCAATTTGGTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
25442421 ATGCTGCCCAATTTGTAGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
25442444 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * *
25442468 ATGCAGCTCAATTTGGTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
25442491 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
25442514 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* *
25442539 ATGCTGCTCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
* *
25442562 ATGCTGCCCAAATGGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
25442585 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * *
25442609 ATGCGGCTCAATTTGGTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
25442632 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
25442655 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* *
25442680 ATGCTGCTCAATTTTTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * * * *
25442703 ATGCTGTCTAGTTTGGTATATAA
1 ATGCTGCCCAATTTGTTGTATAT
*
25442726 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
25442749 ATGCTGTCCAAATTTTGGTGT-TAAA
1 ATGCTG-CCCAA-TTTGTTGTAT-AT
* * * * * * *
25442774 ATGCTGTCTAGTTAGGTATATAA
1 ATGCTGCCCAATTTGTTGTATAT
*
25442797 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
25442820 AT
1 AT
25442822 ATATGCTGTC
Statistics
Matches: 397, Mismatches: 131, Indels: 27
0.72 0.24 0.05
Matches are distributed among these distances:
22 5 0.01
23 272 0.69
24 55 0.14
25 65 0.16
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:25442802 original size:94 final size:94
Alignment explanation
Indices: 25442351--25442795 Score: 292
Period size: 94 Copynumber: 4.8 Consensus size: 94
25442341 TTTTGTATTT
* * *
25442351 ATGCTACCCAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGCGGCTCAAT-TT-G
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATGTTAG
* * * *
25442413 GTATATATATGCTGCCCAATTT-GTAGTATAT
66 G--TATATATGCTGTCTAGTTTGGTA-TATAA
* * * * * * * * * *
25442444 ATGCTGTCCAATTTTGATGTAAAAATGCAG-CTC-AA-TTTGGTATATATATGCTGCCCAAT-TT
1 ATGCTGCCCAA-ATTGTTGTATATATGCTGTC-CAAATTTTGGTGTAAAAATGCTGCTCAATGTT
* * * *
25442505 -GTTGTATATATGCTGTCCAATTTTTGGTGTAAAA
64 AG--GTATATATGCTGT-CTA-GTTTGGTATATAA
* * * * * * *
25442539 ATGCTGCTCAATTTGTTGTATTTATGCTGCCCAAA---TGGTTGTATATATGCTG-TCCAATTTT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGG-TGTAAAAATGCTGCT-CAATGTT
* * * * * *
25442600 GATGTAAAAATGC-GGCTCAATTTGGTATATAT
64 -AGGTATATATGCTGTCT-AGTTTGGTATATAA
* * * **
25442632 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATTTTTT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATGTTAG
25442697 GTATATATGCTGTCTAGTTTGGTATATAA
66 GTATATATGCTGTCTAGTTTGGTATATAA
* *
25442726 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTTAAAATGCTG-TCTA-GTTAG
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATGTTAG
25442789 GTATATA
66 GTATATA
25442796 AATGCTGCCC
Statistics
Matches: 276, Mismatches: 56, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
92 9 0.03
93 89 0.32
94 122 0.44
95 50 0.18
96 6 0.02
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (94 bp):
ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATGTTAG
GTATATATGCTGTCTAGTTTGGTATATAA
Found at i:25442861 original size:75 final size:74
Alignment explanation
Indices: 25442707--25442895 Score: 294
Period size: 75 Copynumber: 2.6 Consensus size: 74
25442697 GTATATATGC
25442707 TGTCTAGTTTGGTATATAAATGCTGCCCAAATTGTTG---TATATATGCTGTCCAAATTTTGGTG
1 TGTCTAGTTTGGTATATAAATGCTGCCCAAATTGTTGTAATATATATGCTGTCCAAATTTTGGTG
* *
25442769 TTAAAATGC
66 TGAAAATGA
* *
25442778 TGTCTAGTTAGGTATATAAATGCTGCCCAAATTGTTGTATATATATATGCTGTCTAAATTTTGGT
1 TGTCTAGTTTGGTATATAAATGCTGCCCAAATTGTTGTA-ATATATATGCTGTCCAAATTTTGGT
*
25442843 GTGACAATGA
65 GTGAAAATGA
*
25442853 TGTCTAGTTTGGTATATAAATGCTGTCCAAATTGTTGTAATAT
1 TGTCTAGTTTGGTATATAAATGCTGCCCAAATTGTTGTAATAT
25442896 GTTGTGTAGT
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
71 36 0.34
74 4 0.04
75 67 0.63
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (74 bp):
TGTCTAGTTTGGTATATAAATGCTGCCCAAATTGTTGTAATATATATGCTGTCCAAATTTTGGTG
TGAAAATGA
Found at i:25451347 original size:20 final size:20
Alignment explanation
Indices: 25451315--25451354 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25451305 CTAAATTTTG
25451315 AATTTCATTCAATTTAGTCC
1 AATTTCATTCAATTTAGTCC
25451335 AATTT-ATTGCAATTTAGTCC
1 AATTTCATT-CAATTTAGTCC
25451355 CTAACCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (20 bp):
AATTTCATTCAATTTAGTCC
Found at i:25455746 original size:15 final size:18
Alignment explanation
Indices: 25455711--25455746 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
25455701 AAGGAAATCT
25455711 AAATTATAACTGAAGGTA
1 AAATTATAACTGAAGGTA
25455729 AAATTA-AACT-AA-GTA
1 AAATTATAACTGAAGGTA
25455744 AAA
1 AAA
25455747 ATTTGTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 4 0.22
18 6 0.33
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (18 bp):
AAATTATAACTGAAGGTA
Found at i:25459641 original size:26 final size:26
Alignment explanation
Indices: 25459612--25459664 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
25459602 CCTAATTAAA
* *
25459612 ACTTTACATATTTGAGAGTGGATAAT
1 ACTTTACATATTTGAGACTGGACAAT
25459638 ACTTTACATATTTGAGACTGGACAAT
1 ACTTTACATATTTGAGACTGGACAAT
25459664 A
1 A
25459665 TATATTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (26 bp):
ACTTTACATATTTGAGACTGGACAAT
Found at i:25472472 original size:43 final size:43
Alignment explanation
Indices: 25472411--25472493 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
25472401 CTTAGTTGTC
25472411 CTTATTCCAAAGGTTCAAAACCCTGAGAATTTTTCACAATGTG
1 CTTATTCCAAAGGTTCAAAACCCTGAGAATTTTTCACAATGTG
*
25472454 CTTATTCCAAAGGTTCAAAACTCTGAGAATTTTTCACAAT
1 CTTATTCCAAAGGTTCAAAACCCTGAGAATTTTTCACAAT
25472494 TTCGGCCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (43 bp):
CTTATTCCAAAGGTTCAAAACCCTGAGAATTTTTCACAATGTG
Found at i:25474921 original size:24 final size:24
Alignment explanation
Indices: 25474887--25474949 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
25474877 ACTGGTCATA
*
25474887 GAGAGAGTTAAGGAGGGATATTTG
1 GAGAGAATTAAGGAGGGATATTTG
25474911 GAGAGAATTAAGGAGGGATATTTG
1 GAGAGAATTAAGGAGGGATATTTG
* *
25474935 GAGAGATTTGAGGAG
1 GAGAGAATTAAGGAG
25474950 AGAATATGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (24 bp):
GAGAGAATTAAGGAGGGATATTTG
Found at i:25475618 original size:27 final size:27
Alignment explanation
Indices: 25475586--25475791 Score: 181
Period size: 27 Copynumber: 7.6 Consensus size: 27
25475576 TCTGGACCAA
*
25475586 AATACCCTCGAT-GGGTAAAATGACCGA
1 AATACCCT-GATAGGGTAAAATGACCGT
25475613 AATACCCTCGA-AGGGTAAAATGACCGT
1 AATACCCT-GATAGGGTAAAATGACCGT
* * *
25475640 AATGCCCTTATAGGGTAAAATAACCGT
1 AATACCCTGATAGGGTAAAATGACCGT
* *
25475667 AATGCCCTTG-TAAGGTAAAATGACCGT
1 AATACCC-TGATAGGGTAAAATGACCGT
*
25475694 AATACCCATG-TAGGGTAAAATGATCGT
1 AATACCC-TGATAGGGTAAAATGACCGT
* * *
25475721 AATGCCCCTG-TAGGGTAAAATAATCGT
1 AAT-ACCCTGATAGGGTAAAATGACCGT
* * * *
25475748 AATGCCCTTATAGGGTAAAATTATCGT
1 AATACCCTGATAGGGTAAAATGACCGT
*
25475775 AATGCCTCTG-TAGGGTA
1 AATACC-CTGATAGGGTA
25475792 CCCCTGTAAG
Statistics
Matches: 156, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.03
27 145 0.93
28 6 0.04
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
AATACCCTGATAGGGTAAAATGACCGT
Found at i:25475686 original size:54 final size:54
Alignment explanation
Indices: 25475598--25475876 Score: 218
Period size: 54 Copynumber: 4.9 Consensus size: 54
25475588 TACCCTCGAT
* * * *
25475598 GGGTAAAATGACCGAAATACCCTCG-AAGGGTAAAATGACCGTAATGCCCTTATA
1 GGGTAAAATAACCGTAATGCCCTTGTAA-GGTAAAATGACCGTAATGCCCTTATA
* * *
25475652 GGGTAAAATAACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATACCCATGTA
1 GGGTAAAATAACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATGCCCTTATA
* * * * * *
25475706 GGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAATCGTAATGCCCTTATA
1 GGGTAAAATAACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATGCCCTTATA
* * ** * * *
25475760 GGGTAAAATTATCGTAATGCCTCTGTAGGGTACCCCTGTAAGGTAAAATGACCGTCATGCCCCTG
1 GGGTAAAATAACCGTAATGCC-CT-T---GTA---AGGT-A---AA-ATGACCGTAATGCCCTTA
25475825 TA
53 TA
* * *
25475827 GGGTAAAATAACCGTAATACCCTTGTAGGGTAAAATGATCGTAATGCCCT
1 GGGTAAAATAACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATGCCCT
25475877 GGTGGGTAAA
Statistics
Matches: 178, Mismatches: 33, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
54 122 0.69
55 5 0.03
56 1 0.01
58 1 0.01
59 5 0.03
62 5 0.03
63 1 0.01
65 1 0.01
66 4 0.02
67 33 0.19
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
GGGTAAAATAACCGTAATGCCCTTGTAAGGTAAAATGACCGTAATGCCCTTATA
Found at i:25475735 original size:81 final size:80
Alignment explanation
Indices: 25475599--25475791 Score: 260
Period size: 81 Copynumber: 2.4 Consensus size: 80
25475589 ACCCTCGATG
* * *
25475599 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGTAATGCCCTTATAGGGTAAAATAAC
1 GGTAAAATGACCGTAATACCCT-GTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATAAC
*
25475664 CGTAATGCCCTTGTAA
65 CGTAATGCCCTTATAA
* * *
25475680 GGTAAAATGACCGTAATACCCATGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAAT
1 GGTAAAATGACCGTAATACCC-TGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATAAC
*
25475745 CGTAATGCCCTTATAG
65 CGTAATGCCCTTATAA
* * *
25475761 GGTAAAATTATCGTAATGCCTCTGTAGGGTA
1 GGTAAAATGACCGTAATACC-CTGTAGGGTA
25475792 CCCCTGTAAG
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
81 97 0.98
82 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (80 bp):
GGTAAAATGACCGTAATACCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATAACC
GTAATGCCCTTATAA
Found at i:25475822 original size:27 final size:27
Alignment explanation
Indices: 25475792--25475875 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
25475782 CTGTAGGGTA
* *
25475792 CCCCTGTAAGGTAAAATGACCGTCATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
25475819 CCCCTGTAGGGTAAAATAACCGTAATA
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
25475846 CCCTTGTAGGGTAAAATGATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
25475873 CCC
1 CCC
25475876 TGGTGGGTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (27 bp):
CCCCTGTAGGGTAAAATGACCGTAATG
Found at i:25475833 original size:67 final size:67
Alignment explanation
Indices: 25475725--25475858 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 67
25475715 GATCGTAATG
* * * * * *
25475725 CCCCTGTAGGGTAAAATAATCGTAATGCCCTTATAGGGTAAAATTATCGTAAT-GCCTCTGTAGG
1 CCCCTGTAAGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATAACCGTAATACCCT-TGTAGG
25475789 GTA
65 GTA
* * *
25475792 CCCCTGTAAGGTAAAATGACCGTCATGCCCCTGTAGGGTAAAATAACCGTAATACCCTTGTAGGG
1 CCCCTGTAAGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATAACCGTAATACCCTTGTAGGG
25475857 TA
66 TA
25475859 AAATGATCGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 54 0.95
68 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (67 bp):
CCCCTGTAAGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATAACCGTAATACCCTTGTAGGG
TA
Found at i:25475857 original size:94 final size:94
Alignment explanation
Indices: 25475696--25475874 Score: 286
Period size: 94 Copynumber: 1.9 Consensus size: 94
25475686 ATGACCGTAA
* * * *
25475696 TACCCATGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAATCGTAATGCCCTTATAG
1 TACCCATGTAAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATACCCTTATAG
*
25475761 GGTAAAATTATCGTAATGCCTCTGTAGGG
66 GGTAAAATGATCGTAATGCCTCTGTAGGG
* * *
25475790 TACCCCTGTAAGGTAAAATGACCGTCATGCCCCTGTAGGGTAAAATAACCGTAATACCCTTGTAG
1 TACCCATGTAAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATACCCTTATAG
25475855 GGTAAAATGATCGTAATGCC
66 GGTAAAATGATCGTAATGCC
25475875 CTGGTGGGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (94 bp):
TACCCATGTAAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATACCCTTATAG
GGTAAAATGATCGTAATGCCTCTGTAGGG
Found at i:25475876 original size:27 final size:27
Alignment explanation
Indices: 25475796--25475886 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
25475786 AGGGTACCCC
* * *
25475796 TGTAAGGTAAAATGACCGTCATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCT
* *
25475823 TGTAGGGTAAAATAACCGTAATACCCT
1 TGTAGGGTAAAATGACCGTAATGCCCT
*
25475850 TGTAGGGTAAAATGATCGTAATGCCCT
1 TGTAGGGTAAAATGACCGTAATGCCCT
*
25475877 GGT-GGGTAAA
1 TGTAGGGTAAA
25475887 TAACTATTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
26 7 0.13
27 48 0.87
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (27 bp):
TGTAGGGTAAAATGACCGTAATGCCCT
Found at i:25475988 original size:24 final size:24
Alignment explanation
Indices: 25475936--25475993 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
25475926 CTGTGGTTAA
*
25475936 ATGACTGATTTATCTGTGTTTGGT
1 ATGACTGATTTATCTGTGTTTGAT
* *
25475960 ATGACAGATTTGTCTGTGATTTGAT
1 ATGACTGATTTATCTGTG-TTTGAT
25475985 -TGACTGATT
1 ATGACTGATT
25475994 CTGAGCATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.47
Consensus pattern (24 bp):
ATGACTGATTTATCTGTGTTTGAT
Found at i:25476097 original size:27 final size:27
Alignment explanation
Indices: 25476065--25476121 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
25476055 AGTACTGTAT
25476065 TGGTGGCTCT-ACCACA-ATCACTATTAC
1 TGGTGGCT-TGACCACATAT-ACTATTAC
*
25476092 TGGTGGCTTGGCCACATATACTATTAC
1 TGGTGGCTTGACCACATATACTATTAC
25476119 TGG
1 TGG
25476122 CAGCTTTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 24 0.89
28 2 0.07
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
TGGTGGCTTGACCACATATACTATTAC
Found at i:25476127 original size:27 final size:27
Alignment explanation
Indices: 25476076--25476127 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25476066 GGTGGCTCTA
**
25476076 CCACAATCACTATTACTGGTGGCTTGG
1 CCACAATCACTATTACTGGCAGCTTGG
25476103 CCACATAT-ACTATTACTGGCAGCTT
1 CCACA-ATCACTATTACTGGCAGCTT
25476128 TGCTGCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (27 bp):
CCACAATCACTATTACTGGCAGCTTGG
Found at i:25476174 original size:26 final size:26
Alignment explanation
Indices: 25476119--25476174 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
25476109 ATACTATTAC
* *
25476119 TGGCAGCTTTGCTGCAATACTTCTGC
1 TGGCAGCTTTGCTGCAATACTACTGA
* * *
25476145 TGGCAGTTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCAATACTACTGA
25476171 TGGC
1 TGGC
25476175 TTTATACCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.14, C:0.23, G:0.29, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCAATACTACTGA
Found at i:25476206 original size:32 final size:32
Alignment explanation
Indices: 25476165--25476384 Score: 296
Period size: 32 Copynumber: 6.9 Consensus size: 32
25476155 GCTGCGATGC
* *
25476165 TACTGATGGCTTTATACCGATTATATTACCGT
1 TACTGATGGCTTTGTACCGATCATATTACCGT
*
25476197 TACTGATGGCTTTGTACCAATCATATTACCGT
1 TACTGATGGCTTTGTACCGATCATATTACCGT
* *
25476229 TACTAATGGCTTTGTACCGATCATATTACCAT
1 TACTGATGGCTTTGTACCGATCATATTACCGT
* *
25476261 TATTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTACCGATCATATTACCGT
*
25476293 TATTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTACCGATCATATTACCGT
* * * * *
25476325 TACTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTACCGATCATATTACCGT
* * *
25476357 TACTTATGGCTTTGTGCCAATCATATTA
1 TACTGATGGCTTTGTACCGATCATATTA
25476385 TTGTACTTAT
Statistics
Matches: 167, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 167 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTACCGATCATATTACCGT
Found at i:25476434 original size:22 final size:22
Alignment explanation
Indices: 25476391--25476437 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
25476381 ATTATTGTAC
* *
25476391 TTATAGCTTGTAGACATTCTGT
1 TTATAGCTTATAGACATCCTGT
25476413 TTATAGCTTATAG-CTATCCTGT
1 TTATAGCTTATAGAC-ATCCTGT
25476435 TTA
1 TTA
25476438 CGGCTCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGACATCCTGT
Found at i:25480703 original size:51 final size:51
Alignment explanation
Indices: 25480589--25480718 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
25480579 TGATAGGTCG
*
25480589 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTTTCGATCA
* * * * * * * *
25480640 CGTGTGTTGTACTATATGCAGGCTACTACGTGTATCGGATGGTATTTG-TCA
1 CATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGT-TTCGATCA
* * *
25480691 CATGTATAGTACTACGTGTAGGCTACTA
1 CATGTGTAGTACTATGTGCAGGCTACTA
25480719 TGTGAACCGA
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
51 60 0.95
52 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTTTCGATCA
Found at i:25480780 original size:45 final size:45
Alignment explanation
Indices: 25480729--25480814 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
25480719 TGTGAACCGA
* ** *
25480729 ACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTAATTAATAAGGTGGTCACTATGTGCTGAATCCACCAG
*
25480774 ACATCATTGATTAATAAGGTGGTCACTATGTGCTGAATCCA
1 ACATCATTAATTAATAAGGTGGTCACTATGTGCTGAATCCA
25480815 TCGAGTATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (45 bp):
ACATCATTAATTAATAAGGTGGTCACTATGTGCTGAATCCACCAG
Found at i:25484957 original size:27 final size:27
Alignment explanation
Indices: 25484916--25485275 Score: 416
Period size: 27 Copynumber: 13.4 Consensus size: 27
25484906 CCCTAAAATA
* *
25484916 GGTAAAATAATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
25484943 GGTAGAATGACCGAAATATCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
25484970 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
25484997 GGTAGAATGACCGAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCCCATAG
** * *
25485024 AATAGAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * **
25485051 GATAGAATGACTGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
25485078 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
25485105 GGTAGAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
25485132 GATAAAATGACTGAAATA-TCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** *
25485158 GGTAAAATGACTAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
25485185 GGTAAAATAACCGATATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
25485212 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
25485239 GGTAAAATGACCTAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
25485266 GGTAATATGA
1 GGTAAAATGA
25485276 TTATTATACC
Statistics
Matches: 281, Mismatches: 51, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.08
27 258 0.92
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:25489353 original size:25 final size:25
Alignment explanation
Indices: 25489324--25489376 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
25489314 AAGAATATTA
25489324 GAATTTGTTGGTGTGTTTTCTAGAT
1 GAATTTGTTGGTGTGTTTTCTAGAT
25489349 GAATTTGTTGGTGTGTTTTCTAGAT
1 GAATTTGTTGGTGTGTTTTCTAGAT
25489374 GAA
1 GAA
25489377 ATCCCATTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.04, G:0.28, T:0.49
Consensus pattern (25 bp):
GAATTTGTTGGTGTGTTTTCTAGAT
Found at i:25489694 original size:32 final size:32
Alignment explanation
Indices: 25489652--25489712 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
25489642 TTTTTTGAAA
25489652 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
25489684 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
25489713 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:25489705 original size:20 final size:20
Alignment explanation
Indices: 25489671--25489712 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25489661 AACTATTTAA
** *
25489671 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
25489691 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
25489711 AT
1 AT
25489713 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:25500517 original size:105 final size:107
Alignment explanation
Indices: 25500388--25500599 Score: 410
Period size: 105 Copynumber: 2.0 Consensus size: 107
25500378 TATTTAGCTT
25500388 GATATTGTTTTCAAACTTATTATTAATATAATTTTAAAATATAATACACTATTCTTTCAAGTTAT
1 GATATTGTTTTCAAACTTATTATTAATATAATTTTAAAATATAATACACTATTCTTTCAAGTTAT
25500453 TATCAATAAGTTTTAAATTTATCAAACATTATTTTAAAAAAA
66 TATCAATAAGTTTTAAATTTATCAAACATTATTTTAAAAAAA
25500495 GATATTG-TTT-AAACTTATTATTAATATAATTTTAAAATATAATACACTATTCTTTCAAGTTAT
1 GATATTGTTTTCAAACTTATTATTAATATAATTTTAAAATATAATACACTATTCTTTCAAGTTAT
25500558 TATCAATAAGTTTTAAATTTATCAAACATTATTTTAAAAAAA
66 TATCAATAAGTTTTAAATTTATCAAACATTATTTTAAAAAAA
25500600 TTCTATTATA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
105 95 0.90
106 3 0.03
107 7 0.07
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (107 bp):
GATATTGTTTTCAAACTTATTATTAATATAATTTTAAAATATAATACACTATTCTTTCAAGTTAT
TATCAATAAGTTTTAAATTTATCAAACATTATTTTAAAAAAA
Found at i:25503958 original size:4 final size:4
Alignment explanation
Indices: 25503949--25503974 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
25503939 ATGATTTAGA
25503949 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
25503975 AATTTGTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:25505012 original size:20 final size:21
Alignment explanation
Indices: 25504969--25505013 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
25504959 TATGTTTGTA
*
25504969 ATTTATATATTAATTAATTAT
1 ATTTATATATTAATTAATGAT
* *
25504990 ATTTATAT-TTCATTAATGGT
1 ATTTATATATTAATTAATGAT
25505010 ATTT
1 ATTT
25505014 TCGCTTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTATATATTAATTAATGAT
Found at i:25505333 original size:33 final size:33
Alignment explanation
Indices: 25505291--25505355 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
25505281 CAAAAATTAT
25505291 TTACAAAAATAGGCTGAGATAACAATTATTTAC
1 TTACAAAAATAGGCTGAGATAACAATTATTTAC
* * *
25505324 TTACAAAAATAGGTTGAGTTAAGAATTATTTA
1 TTACAAAAATAGGCTGAGATAACAATTATTTA
25505356 TGAGAATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (33 bp):
TTACAAAAATAGGCTGAGATAACAATTATTTAC
Found at i:25508963 original size:21 final size:20
Alignment explanation
Indices: 25508923--25508962 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25508913 TGCCGAAGCA
25508923 ACTCACTTTTCCATTTTTTT
1 ACTCACTTTTCCATTTTTTT
25508943 ACTCACTTTTCCATTTTTTT
1 ACTCACTTTTCCATTTTTTT
25508963 TGAAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (20 bp):
ACTCACTTTTCCATTTTTTT
Found at i:25509993 original size:16 final size:18
Alignment explanation
Indices: 25509966--25509998 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25509956 TTTCATGATC
25509966 CATTTCAATTCT-ATTTT
1 CATTTCAATTCTCATTTT
25509983 CATTT-AATTCTCATTT
1 CATTTCAATTCTCATTT
25509999 CAATTCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (18 bp):
CATTTCAATTCTCATTTT
Found at i:25511020 original size:18 final size:18
Alignment explanation
Indices: 25510989--25511040 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
25510979 TGTATTATAA
* *
25510989 TATTAATTAATAAAATAT
1 TATTACTTATTAAAATAT
25511007 TATTACTTATTAAAATAT
1 TATTACTTATTAAAATAT
*
25511025 TATAACTTAATTAAAA
1 TATTACTT-ATTAAAA
25511041 AAATCATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTACTTATTAAAATAT
Found at i:25523103 original size:24 final size:24
Alignment explanation
Indices: 25523065--25523123 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
25523055 TGAATTGGAT
* *
25523065 AATTTACAATAAATAATATATA-ATA
1 AATTTAAAAT-AATAATACATATA-A
*
25523090 AATTTGAAATAATAATACATATAA
1 AATTTAAAATAATAATACATATAA
25523114 AATTTAAAAT
1 AATTTAAAAT
25523124 TTTTGATGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (24 bp):
AATTTAAAATAATAATACATATAA
Found at i:25523220 original size:24 final size:22
Alignment explanation
Indices: 25523166--25523246 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 22
25523156 ATAAATCCAA
*
25523166 AAATAATAGTATATAATAAATTT
1 AAATAATATTA-ATAATAAATTT
25523189 AAA-AATATTAATAATAAATTT
1 AAATAATATTAATAATAAATTT
*
25523210 GAAATAGATA-TACATGATAAATTT
1 -AAATA-ATATTA-ATAATAAATTT
25523234 AAAATAATATTAA
1 -AAATAATATTAA
25523247 CGATGAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 11 0.22
22 9 0.18
23 10 0.20
24 20 0.40
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (22 bp):
AAATAATATTAATAATAAATTT
Found at i:25523262 original size:47 final size:46
Alignment explanation
Indices: 25523181--25523315 Score: 118
Period size: 47 Copynumber: 2.9 Consensus size: 46
25523171 ATAGTATATA
* *
25523181 ATAAATTT-AAA-AATATTAATAATAAATTTGAAATAG-ATATACATG
1 ATAAATTTAAAATAATATTAACAATAAATTTAAAATAGTA-ATA-ATG
* * *
25523226 ATAAATTTAAAATAATATTAACGATGAATTTAAAATAGTAATATTG
1 ATAAATTTAAAATAATATTAACAATAAATTTAAAATAGTAATAATG
* * *
25523272 ATAAA-TTACAAATAATA-AAACATGATAAATCTAAAATAATAATA
1 ATAAATTTA-AAATAATATTAACA--ATAAATTTAAAATAGTAATA
25523316 TACAAAACAC
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
45 14 0.19
46 18 0.24
47 41 0.55
48 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (46 bp):
ATAAATTTAAAATAATATTAACAATAAATTTAAAATAGTAATAATG
Found at i:25524981 original size:85 final size:86
Alignment explanation
Indices: 25524887--25525126 Score: 216
Period size: 85 Copynumber: 2.8 Consensus size: 86
25524877 AGTCTGCTCT
* * * *
25524887 ACTGTAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAATAT
1 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCT-CTGCAACTTCAGAGAGATAAGAT
*
25524952 CT-AGC-ATTTTAATCAGCTCC
65 CTCAGCGATTTTAATCAGCCCC
* * * * * * * * * *
25524972 GCTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATCTACTTTGCTTCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTACTCT-CTGCAACTTCAGAGAGATAA
* * * *
25525037 GAT-TCATCGTTTTTAGTCTGCCCC
62 GATCTCAGCGATTTTAATCAGCCCC
* **
25525061 ACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTTTTCTCTGCAACTTCAGAGAGATAAGATC
1 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATC
25525126 T
66 T
25525127 GTGGTTTTAA
Statistics
Matches: 116, Mismatches: 33, Indels: 11
0.73 0.21 0.07
Matches are distributed among these distances:
85 41 0.35
86 10 0.09
87 1 0.01
88 31 0.27
89 33 0.28
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (86 bp):
ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATC
TCAGCGATTTTAATCAGCCCC
Found at i:25524992 original size:173 final size:171
Alignment explanation
Indices: 25524701--25525216 Score: 540
Period size: 173 Copynumber: 3.0 Consensus size: 171
25524691 ATTTGCTATC
* * * *
25524701 TTCAGTCTGCTCCATTACAACTTCAGTGAGATAAGACTTG-TAGCGATCTACTCTACTGCAACTT
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT-GCGATCTACTCTACTGCAACTT
* * * * *
25524765 CAGAGAGATAAGATCCATCATTTTAATCTGATTCACTGCAAATTTAGAGAGATAGGATTGTTGGT
65 CAGAGAGATAAGATCTAGCATTTTAATC-GCTTCACTGCAACTTCAGAGAGATAGGATTGTTGGT
* *
25524830 TTTAATCTACTCCACAGCAACTTCAAGGAGATAAGATTGGTTT
129 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTTT
* * * *
25524873 ATTCAGTCTGCTCTACTGTAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTT
1 -TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTT
* * * * * *
25524938 CAGAGAGATAATATCTAGCATTTTAATCAGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGC
65 CAGAGAGATAAGATCTAGCATTTTAATC-GCTTCACTGCAACTTCAGAGAGATAGGATTGTTGGT
*** * * * *
25525003 TTCAATCTACTTTGCTTCAACTTTAGGGAGATAAGATTCATCGTTT
129 TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGA-T--TGGTTT
* * **
25525049 TT-AGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTTTTCT-CTGCAACTTC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTC
** * *
25525112 AGAGAGATAAGATCT-GTGGTTTTAATTCGCTTTACTGCAACTTCAGTGAGATAGGATTGGTT--
66 AGAGAGATAAGATCTAG-CATTTTAA-TCGCTTCACTGCAACTTCAGAGAGATAGGATT-GTTGG
* * *
25525174 TCTTCAATCTGCTCCACTGCAACTTCAAGGAGATGAGACTGGT
128 T-TTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGT
25525217 GGCTTAAATC
Statistics
Matches: 280, Mismatches: 55, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
170 3 0.01
172 1 0.00
173 219 0.78
174 50 0.18
175 2 0.01
176 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (171 bp):
TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTC
AGAGAGATAAGATCTAGCATTTTAATCGCTTCACTGCAACTTCAGAGAGATAGGATTGTTGGTTT
CAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTTT
Found at i:25525227 original size:44 final size:44
Alignment explanation
Indices: 25525102--25525230 Score: 104
Period size: 44 Copynumber: 2.9 Consensus size: 44
25525092 GATCTTTTCT
* * * * **
25525102 CTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTAAT-TCGCTTTA
1 CTGCAACTTCAGTGAGATAGGA-CTGGTGGCTTAAATCT-GCTCCA
* ** *
25525146 CTGCAACTTCAGTGAGATAGGATTGGTTTCTTCAATCTGCTCCA
1 CTGCAACTTCAGTGAGATAGGACTGGTGGCTTAAATCTGCTCCA
25525190 CTGCAACTTCAAG-GAGAT-GAGACTGGTGGCTTAAATCTGCT
1 CTGCAACTTC-AGTGAGATAG-GACTGGTGGCTTAAATCTGCT
25525231 TCCCTACTAC
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
43 2 0.03
44 63 0.93
45 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (44 bp):
CTGCAACTTCAGTGAGATAGGACTGGTGGCTTAAATCTGCTCCA
Found at i:25525430 original size:89 final size:89
Alignment explanation
Indices: 25525318--25525614 Score: 407
Period size: 89 Copynumber: 3.3 Consensus size: 89
25525308 CTTCAACCTA
*
25525318 CTCCACTGCAAAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTATAAGAA
1 CTCCACTGC-AAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAAGAA
* *
25525383 GACAAGATTTGCTGT-TTTCAGTCTG
65 GACAAGATCTGCTATCTTT-AGTCTG
* * * * *
25525408 CTCCACTACAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGTTTCACTGCCAATACAGGAAG
1 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAAGAAG
*
25525473 ACAAGATCTACTATCTTTAGTCTG
66 ACAAGATCTGCTATCTTTAGTCTG
* * ** * *
25525497 CTCCGCTGCAAACTCAGAGAGGCAAGGCTAGTGTCTTCGATCTGCTTTGCAGCCAGTACATGAAG
1 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAAGAAG
*
25525562 GCAAGATCTGCTATCTTTAGTCTG
66 ACAAGATCTGCTATCTTTAGTCTG
* *
25525586 CTCCACTGCAAACTTAGGGAGGCAAGGCT
1 CTCCACTGCAAACTCAGAGAGGCAAGGCT
25525615 TATAGTTTCA
Statistics
Matches: 182, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
89 171 0.94
90 11 0.06
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAAGAAG
ACAAGATCTGCTATCTTTAGTCTG
Found at i:25528508 original size:44 final size:44
Alignment explanation
Indices: 25528460--25528788 Score: 136
Period size: 44 Copynumber: 7.5 Consensus size: 44
25528450 CTTTGATCTG
*
25528460 CTCCACTACTGCTTAGGAAGACAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTA
* * *** * * *
25528504 CTCCACTGCTGCTCAGGGAGACAAGA-CTGGTAGCTTAAACCTG
1 CTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTA
* * ** ** *
25528547 CTTCC-CTACT-ATATTGGGA-AGCTAAGAT-TCACCGTCTTTGATCTA
1 C-TCCACTACTGCT-TAGGGAGA-C-AAGATCT-ACAATCTTCAACCTA
* * * *
25528592 CTCCACTATTGTTTAGGGAGACAGGGTCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTA
* * * * * ***** * *
25528636 CTCCACTGCTGGTAAGGGAGATAGGA-CTGGTGGCTTAAACCTG
1 CTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTA
* * ** ** * *
25528679 CTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACCGTCTTTGATCTG
1 C-TCCACTACT-GCTTAGGG-AGACAAGATCT-ACAATCTTCAACCTA
*
25528724 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTA
*
25528768 CTCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGA
25528789 TAAGGCTGGG
Statistics
Matches: 200, Mismatches: 67, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
42 2 0.01
43 39 0.19
44 121 0.61
45 36 0.18
46 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTA
Found at i:25528665 original size:132 final size:132
Alignment explanation
Indices: 25528428--25528797 Score: 596
Period size: 132 Copynumber: 2.8 Consensus size: 132
25528418 NNNNNNNACC
* *
25528428 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAA
1 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
*
25528493 TCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGACTGGTAGCTTAAACCTGCTTCCCTACTA
66 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTGGTAGCTTAAACCTGCTTCCCTACTA
*
25528558 TA
131 CA
* * * * *
25528560 TTGGGAAGCTAAGATTCACCGTCTTTGATCTACTCCACTATTGTTTAGGGAGACAGGGTCTACAA
1 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
* * * *
25528625 TCTTCAACCTACTCCACTGCTGGTAAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTA
66 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTGGTAGCTTAAACCTGCTTCCCTACTA
*
25528690 CC
131 CA
25528692 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
1 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
* *
25528757 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTGG
66 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTGG
25528798 GGTTTTCGAT
Statistics
Matches: 214, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 214 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTGGTAGCTTAAACCTGCTTCCCTACTA
CA
Found at i:25528840 original size:88 final size:88
Alignment explanation
Indices: 25528742--25529061 Score: 370
Period size: 88 Copynumber: 3.6 Consensus size: 88
25528732 CTGCTTAGGG
* * * * * * **
25528742 AGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTGGGGTTTTCGA
1 AGACAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGACTTCGA
25528807 TCTACTTCGCTGCCAATACAGGA
66 TCTACTTCGCTGCCAATACAGGA
* * *
25528830 AGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGTGACTTCAA
1 AGACAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGACTTCGA
*
25528895 TCTACTTCGCTGCCAATACAGAA
66 TCTACTTCGCTGCCAATACAGGA
* ** * * *** * * * * *
25528918 AGACAAGATTTGCTATCTTTGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTAACTTC
1 AGACAAGATCTGCTATCTTCAACCTACTCCACTGCTGCT-CAGGGAGACAAG-GCTGGTGACTTC
*
25528983 GATCTACTTCGCTGCCAATACAGGC
64 GATCTACTTCGCTGCCAATACAGGA
* *
25529008 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
1 AGACAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT
25529062 TTGTGGTTTC
Statistics
Matches: 187, Mismatches: 43, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
88 108 0.58
89 19 0.10
90 60 0.32
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (88 bp):
AGACAAGATCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGACTTCGA
TCTACTTCGCTGCCAATACAGGA
Found at i:25529035 original size:45 final size:45
Alignment explanation
Indices: 25528806--25529035 Score: 234
Period size: 45 Copynumber: 5.2 Consensus size: 45
25528796 GGGGTTTTCG
*
25528806 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * * *** * *
25528851 ACCTACTCCACTGCTGCT-CAGGGAGACAAG-GCTTG-TGA-CTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT-ATCTTCA
* * **
25528894 ATCTACTTCGCTGCCAATACAGAAAGACAAGATTTGCTATCTTTG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * * *
25528939 ATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTAACTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* *
25528984 ATCTACTTCGCTGCCAATACAGGCAGGCAAGATCTGCTATCTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
*
25529029 ACCTACT
1 ATCTACT
25529036 CCACTGCTGC
Statistics
Matches: 145, Mismatches: 34, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
43 18 0.12
44 27 0.19
45 100 0.69
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
Found at i:25530249 original size:42 final size:42
Alignment explanation
Indices: 25530166--25530249 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
25530156 AGTATAGCAG
*
25530166 GACCACTGCATGCCCCATTCTGATCAATATTTGAACTGCCCT
1 GACCACTGCATGCCCCATTCTGATCAATATTTGAACCGCCCT
*
25530208 GACCATCT-CATGCCCTATTCTGATCAATATTT-AAGCCGCCCT
1 GACCA-CTGCATGCCCCATTCTGATCAATATTTGAA-CCGCCCT
25530250 TTTCGAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 2 0.05
42 34 0.89
43 2 0.05
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (42 bp):
GACCACTGCATGCCCCATTCTGATCAATATTTGAACCGCCCT
Found at i:25537469 original size:55 final size:53
Alignment explanation
Indices: 25537399--25537536 Score: 141
Period size: 45 Copynumber: 2.7 Consensus size: 53
25537389 ATTTTCTATT
* *
25537399 TTTAGTCTACTCCACTGCAATTTCAGGGAAATAAGACTTGATAAGATCCACCATC
1 TTTAGTCTGCCCCACTGCAATTTCAGGG--ATAAGACTTGATAAGATCCACCATC
*
25537454 TTTAGTCTGCCCCACTGCAACTTT-A--G---AGA---GATACGATCCACCATC
1 TTTAGTCTGCCCCACTGCAA-TTTCAGGGATAAGACTTGATAAGATCCACCATC
*
25537499 TTTAGTCTGCCCCACTGCAACTTCAGGGGATAAGACTT
1 TTTAGTCTGCCCCACTGCAATTTCA-GGGATAAGACTT
25537537 TCTTTTTTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
44 2 0.03
45 36 0.53
48 4 0.06
51 3 0.04
53 1 0.01
55 19 0.28
56 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (53 bp):
TTTAGTCTGCCCCACTGCAATTTCAGGGATAAGACTTGATAAGATCCACCATC
Found at i:25537804 original size:132 final size:132
Alignment explanation
Indices: 25537567--25538182 Score: 799
Period size: 132 Copynumber: 4.7 Consensus size: 132
25537557 TAAGGAGATG
* * * **
25537567 AGATTCACTGCCTTCGATCTACTCCACTACTGCTTAGGGAGACATGATCTACAATCTTCAACCTA
1 AGATTCACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGACGGGATCTACAATCTTCAACCTA
** * * * * * * *
25537632 CTCCACTATTGCTTAGGGATATAGGATTGGTGGTTTAAATCTGATTCCCTACTACCTTGGAAATA
66 CTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAA-A
25537697 C-A
130 CTA
* * * *
25537699 AGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGACGGGATCTGCATTCTTCAACCTA
1 AGATTCACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGACGGGATCTACAATCTTCAACCTA
** * * *
25537764 CTCCACTGCTATTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACCACCTTGGGAAGA
66 CTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAA-A
25537829 -TA
130 CTA
* * **
25537831 AGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATCTTCAACCTA
1 AGATTCACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGACGGGATCTACAATCTTCAACCTA
* * * ** *
25537896 CTCCACTGCTGCTCAGGGAGACAAGACTGGTAGCTTAAACCTGCTTCCCTACTATATTGGGAAGC
66 CTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAAAC
25537961 TA
131 TA
* *
25537963 AGATTCACCGTCTTTGATCTACTCCACTATTGTTTAGGGAGACAGGG-TCTACAATCTTCAACCT
1 AGATTCACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGAC-GGGATCTACAATCTTCAACCT
* * *
25538027 ACTCCACTGCTGGTAAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAAG
65 ACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAAA
25538092 CTA
130 CTA
* *
25538095 AGATTCACCGTCTTTGATCTACTCCACTATTGTTTAGGGAGACAGGG-TCTACAATCTTCAACCT
1 AGATTCACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGAC-GGGATCTACAATCTTCAACCT
*
25538159 ACTCCACTACTGCTCAGGGAGATA
65 ACTCCACTGCTGCTCAGGGAGATA
25538183 AGGCTGGGGT
Statistics
Matches: 428, Mismatches: 53, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
132 427 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (132 bp):
AGATTCACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGACGGGATCTACAATCTTCAACCTA
CTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAAAC
TA
Found at i:25538243 original size:88 final size:88
Alignment explanation
Indices: 25538151--25538453 Score: 356
Period size: 88 Copynumber: 3.4 Consensus size: 88
25538141 GTCTACAATC
* * * **
25538151 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTGGGGTTTTCGATCTACTTCGCTGCCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGACTTCGATCTACTTCGCTGCCAAT
25538216 ACAGGAAGACAAGATCTGCTATT
66 ACAGGAAGACAAGATCTGCTATT
* *
25538239 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGTGACTTCAATCTACTTCGCTGCCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGACTTCGATCTACTTCGCTGCCAAT
* *
25538304 ACAGAAAGACAAGATTTGCTATCT
66 ACAGGAAGACAAGATCTGCTAT-T
* * * *** * * * * *
25538328 TT-GATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTAACTTCGATCTACTTCGCTGCCA
1 TTCAACCTACTCCACTGCTGCT-CAGGGAGACAAG-GCTGGTGACTTCGATCTACTTCGCTGCCA
* * *
25538392 ATACAGGCAGGCAAGATCTGCTATC
64 ATACAGGAAGACAAGATCTGCTATT
*
25538417 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT
25538454 TTGTGGTTTC
Statistics
Matches: 174, Mismatches: 37, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
88 93 0.53
89 24 0.14
90 57 0.33
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (88 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGACTTCGATCTACTTCGCTGCCAAT
ACAGGAAGACAAGATCTGCTATT
Found at i:25538427 original size:45 final size:45
Alignment explanation
Indices: 25538198--25538427 Score: 234
Period size: 45 Copynumber: 5.2 Consensus size: 45
25538188 GGGGTTTTCG
*
25538198 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * * *** * *
25538243 ACCTACTCCACTGCTGCT-CAGGGAGACAAG-GCTTG-TGA-CTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT-ATCTTCA
* * **
25538286 ATCTACTTCGCTGCCAATACAGAAAGACAAGATTTGCTATCTTTG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * * *
25538331 ATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTAACTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* *
25538376 ATCTACTTCGCTGCCAATACAGGCAGGCAAGATCTGCTATCTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
*
25538421 ACCTACT
1 ATCTACT
25538428 CCACTGCTGC
Statistics
Matches: 145, Mismatches: 34, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
43 18 0.12
44 27 0.19
45 100 0.69
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
Found at i:25546351 original size:22 final size:22
Alignment explanation
Indices: 25546312--25546376 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
25546302 CTTAGAAAAA
*
25546312 TAATACATATAAAATTAAAATGG
1 TAATACA-ATAAATTTAAAATGG
*
25546335 TAATACAATAAATTTAAACAATGT
1 TAATACAATAAATTT-AA-AATGG
25546359 TAAT--AATAAATTTAAAAT
1 TAATACAATAAATTTAAAAT
25546377 AATATTTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 16 0.42
23 9 0.24
24 8 0.21
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
TAATACAATAAATTTAAAATGG
Found at i:25550374 original size:123 final size:125
Alignment explanation
Indices: 25550077--25550426 Score: 454
Period size: 123 Copynumber: 2.8 Consensus size: 125
25550067 TAATTTCGAG
* ** * * *
25550077 TTGACATTTCTGATAAAATAATATAAAATCACTTCTAGCAGAATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAACCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
25550142 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAAAAATAATTATTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAAAAATAATTATTTT
* * *
25550202 TTGACGTTTCTGAGCAAATAGTATAAAACCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
1 TTGACGTTTCTGAGCAAATAATATAAAACCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * **** ***
25550267 AAATTGCGGCCTCGT-CAGCGCGCTTTTGCTACAGTAGGT-TTTTAATCTATAATT-TTTT
66 AAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACAGAAAAAATAATTATTTT
* * *
25550325 TTGACGTTTCTGAGCAAATAATATAAAACCACTTATACCAGGATGCTATTTGTGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAACCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
25550390 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
25550427 CATGTTTGGG
Statistics
Matches: 193, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
123 93 0.48
124 10 0.05
125 90 0.47
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAATATAAAACCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAAAAATAATTATTTT
Found at i:25553265 original size:104 final size:103
Alignment explanation
Indices: 25552861--25553238 Score: 553
Period size: 104 Copynumber: 3.7 Consensus size: 103
25552851 AACCGTTGTT
* * *
25552861 GGTGGATTCCGCACTTAGC-ACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGG
* * *
25552925 AATCAGCACTTAGCAACCCCCTT-CACATTTCAGATGC
66 AATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
* * * ** *
25552962 GGTGGAATCAGCACTTAGCAACCACCAATAAATAGGAGAATCAGCACTTAGTAACCCCTCGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGG
*
25553027 AATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
66 AATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
** **
25553065 GGTGGAATCAGCACTTAGCAACCACCAAATGGGTCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACC-AATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGG
25553130 GAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
* * *
25553169 GGTGGAATTAGCACTTAGCAACCACCAATGAATCTGGGAATCAGCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGG
25553234 AATCA
66 AATCA
25553239 CGTGTTTTGC
Statistics
Matches: 248, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
101 17 0.07
102 61 0.25
103 75 0.30
104 95 0.38
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (103 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGG
AATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
Found at i:25556216 original size:18 final size:18
Alignment explanation
Indices: 25556189--25556225 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25556179 GAAAAAGAAA
* *
25556189 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGATAGGAT
25556207 ACATAAAAGGGATAGGAT
1 ACATAAAAGGGATAGGAT
25556225 A
1 A
25556226 GTCACCTGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (18 bp):
ACATAAAAGGGATAGGAT
Found at i:25558059 original size:11 final size:11
Alignment explanation
Indices: 25558026--25558053 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
25558016 AAAAAATTAA
25558026 AGAGAAATTTG
1 AGAGAAATTTG
25558037 AGAGAAATTTG
1 AGAGAAATTTG
25558048 AGAGAA
1 AGAGAA
25558054 TATTGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:25581543 original size:19 final size:19
Alignment explanation
Indices: 25581516--25581555 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25581506 CTATGTTGCG
25581516 ACATCAGTCCTCCCGTGTT
1 ACATCAGTCCTCCCGTGTT
*
25581535 ACATTAGTCCTCCCGTGTT
1 ACATCAGTCCTCCCGTGTT
25581554 AC
1 AC
25581556 GAAATAACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.33
Consensus pattern (19 bp):
ACATCAGTCCTCCCGTGTT
Found at i:25589189 original size:26 final size:25
Alignment explanation
Indices: 25589148--25589220 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
25589138 TCTCACCCCA
*
25589148 AATTTACCCCAG-TAAAATTTTGAC
1 AATTTACCCCCGATAAAATTTTGAC
25589172 AATTTCACCCCCGATAAAATTTTGAC
1 AATTT-ACCCCCGATAAAATTTTGAC
* *
25589198 GATTTTACCCCCAATAAAATTTT
1 -AATTTACCCCCGATAAAATTTT
25589221 AAAAAAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.12
25 6 0.14
26 28 0.65
27 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (25 bp):
AATTTACCCCCGATAAAATTTTGAC
Found at i:25590924 original size:75 final size:76
Alignment explanation
Indices: 25590760--25590932 Score: 186
Period size: 75 Copynumber: 2.3 Consensus size: 76
25590750 TGTAACGGTC
* * * ** * *
25590760 TATTCGGTGAAGCTTGTATGGCGTATTTTGTAATAACATATTCAGTGAAGCTTGTGTGGCGTATT
1 TATTCGGTGAAGCCTGTGTGGCGTATTCTGTAATAACATATTCAGTGAAGCCAGTATGGCATATT
*
25590825 CTATAATAGTA
66 CTATAATAGCA
** * * **
25590836 TATTTAGTGAAGCCTGTGTGGCGTATTCTGTAAT-GCGTATTTGGTGAAGCCAGTATGGCATATT
1 TATTCGGTGAAGCCTGTGTGGCGTATTCTGTAATAACATATTCAGTGAAGCCAGTATGGCATATT
* * *
25590900 CTGTAATGGCG
66 CTATAATAGCA
25590911 TATTCGGTGAAGCCTGTGTGGC
1 TATTCGGTGAAGCCTGTGTGGC
25590933 ATGCTATGTG
Statistics
Matches: 78, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
75 49 0.63
76 29 0.37
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.37
Consensus pattern (76 bp):
TATTCGGTGAAGCCTGTGTGGCGTATTCTGTAATAACATATTCAGTGAAGCCAGTATGGCATATT
CTATAATAGCA
Found at i:25590933 original size:38 final size:38
Alignment explanation
Indices: 25590716--25590934 Score: 165
Period size: 38 Copynumber: 5.8 Consensus size: 38
25590706 TAAGACCTTC
* * * * *
25590716 ATGGCGTATTCGATAAAGCCCGTGTCG-AGTATTATGTA
1 ATGGCGTATTCGGTGAAGCCTGTGTGGCA-TATTCTGTA
* * * * *
25590754 ACGGTC-TATTCGGTGAAGCTTGTATGGCGTATTTTGTA
1 ATGG-CGTATTCGGTGAAGCCTGTGTGGCATATTCTGTA
** * * * * *
25590792 ATAACATATTCAGTGAAGCTTGTGTGGCGTATTCTATA
1 ATGGCGTATTCGGTGAAGCCTGTGTGGCATATTCTGTA
* ** ** *
25590830 ATAGTATATTTAGTGAAGCCTGTGTGGCGTATTCTGTA
1 ATGGCGTATTCGGTGAAGCCTGTGTGGCATATTCTGTA
* * *
25590868 AT-GCGTATTTGGTGAAGCCAGTATGGCATATTCTGTA
1 ATGGCGTATTCGGTGAAGCCTGTGTGGCATATTCTGTA
25590905 ATGGCGTATTCGGTGAAGCCTGTGTGGCAT
1 ATGGCGTATTCGGTGAAGCCTGTGTGGCAT
25590935 GCTATGTGAT
Statistics
Matches: 147, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
37 32 0.22
38 114 0.78
39 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (38 bp):
ATGGCGTATTCGGTGAAGCCTGTGTGGCATATTCTGTA
Found at i:25604133 original size:43 final size:43
Alignment explanation
Indices: 25604079--25604200 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
25604069 CTCGTACAAT
* * *
25604079 GCCAACATCCCAAACGTGGTCTTACATGTGATCACAAATCGAC
1 GCCAACATCCCAGACGTGGTCTTACATGTAAACACAAATCGAC
* * *
25604122 GCC-ACTATCCCAGACAG-GGTCTTACACGTAAACACAAGTCGAT
1 GCCAAC-ATCCCAGAC-GTGGTCTTACATGTAAACACAAATCGAC
*
25604165 GCCAACATCCCAGACGTGGTCTTACATGAAAACACA
1 GCCAACATCCCAGACGTGGTCTTACATGTAAACACA
25604201 TTTCAGAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 3 0.04
43 61 0.91
44 3 0.04
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (43 bp):
GCCAACATCCCAGACGTGGTCTTACATGTAAACACAAATCGAC
Found at i:25621840 original size:8 final size:8
Alignment explanation
Indices: 25621819--25621860 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
25621809 ACAAAATAAT
25621819 AAAAGGAA
1 AAAAGGAA
*
25621827 AGAAAGGGA
1 A-AAAGGAA
25621836 AAAAGGAA
1 AAAAGGAA
25621844 AAAAGGAA
1 AAAAGGAA
25621852 AAAA-GAA
1 AAAAGGAA
25621859 AA
1 AA
25621861 TTTATGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 5 0.16
8 19 0.61
9 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (8 bp):
AAAAGGAA
Found at i:25623293 original size:25 final size:25
Alignment explanation
Indices: 25623246--25623293 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25623236 GTCTAAATTT
*
25623246 TGTTATATAATATACATATGTGTAC
1 TGTTATATAATATACATAGGTGTAC
*
25623271 TGTTATAT-ATATTATATAGGTGT
1 TGTTATATAATA-TACATAGGTGT
25623294 TTTTGGGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (25 bp):
TGTTATATAATATACATAGGTGTAC
Found at i:25626739 original size:16 final size:16
Alignment explanation
Indices: 25626720--25626750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25626710 TTGAAAAAGT
25626720 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
25626736 TTTCAAATTTATATG
1 TTTCAAATATATATG
25626751 CTCTAATATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:25628512 original size:555 final size:546
Alignment explanation
Indices: 25627469--25628568 Score: 1776
Period size: 555 Copynumber: 2.0 Consensus size: 546
25627459 ATATTCTATC
25627469 AATTTGATTCTAATTCTAAATATTTCAATAAATTTAACCCTTCACATTGACAAATTCTATCATTT
1 AATTTGATTCTAATTCTAAATATTTCAATAAATTTAACCCTTCACATTGACAAATTCTATCATTT
25627534 TGGTCTTCAAACTTCCTAACCAAAGCTTTCAGGTTTTAAAACAAAGACATTCTACATCTATTAAT
66 TGGTCTTCAAACTTCCTAACCAAAGCTTTCAGGTTTTAAAACAAAGACATTCTACATCTATTAAT
* *** * * *
25627599 TGTTTTATTTATGGGGGAAATTATCCAATTCTTTTTTTCACTATGATTAGCATAATTTTAGTTTA
131 TGTTTTATTTATGGGGGAAATTATCCAATTCTGTGCATAACCATGATTA-CATAATATTA-TTTA
* * *** * ** * *** * * **
25627664 AAATTAATTTTGTAAATGATTTGACACTAAATCAAATTATTAGTGATACATATTGCTTGTTGTTG
194 AAATTAATGTAGTAAATGATAAAACACTAAATAAAAAAATAAAAAATAAAAATTGAATGTTGTTG
25627729 ATTTAAAAATTAAAAACAAACAATTAAAAAGAAAAAGAAAACATAATAATCTTTTAATCAATTTA
259 ATTTAAAAATTAAAAACAAACAATTAAAAAGAAAAAGAAAACATAATAATCTTTTAATCAATTTA
25627794 TAAAATTAAAAAAATCATTATCAATGTAGAAAAGGAAATTCAATTAATTCTTTCACATTTTTTTC
324 TAAAATTAAAAAAATCATTATCAATGTAGAAAAGGAAATTCAATTAATTCTTTCACATTTTTTTC
25627859 TTAAGAAAATAGACATTTTCATAATTTTTCTTATATAATTATTGATTGAACAATTGGATTTTTCA
389 TTAAGAAAATAGACATTTTCATAATTTTTCTTATATAATTATTGATTGAACAATTGGATTTTTCA
25627924 AAGCCATAATTTTTAACTTTGGATTTAATATCTAATTTCAAGGATCAACTTCGAAGACTATTTTT
454 AAGCCATAATTTTTAACTTTGGATTTAATATCTAATTTCAAGGATCAACTTCGAAGACTATTTTT
25627989 ATGTACCTTGAAGGAAATGACATACATA
519 ATGTACCTTGAAGGAAATGACATACATA
25628017 AATTTGATTCTAATTCTAAATATTTCAATAAATTTAACCCTTCACATTGACAAATTCTATCATTT
1 AATTTGATTCTAATTCTAAATATTTCAATAAATTTAACCCTTCACATTGACAAATTCTATCATTT
25628082 TGGTCTTCAAACTTCCTAACCAAAGCTTTCAGGTTTTAAAACAAAGACATTCTACATCTATTAAT
66 TGGTCTTCAAACTTCCTAACCAAAGCTTTCAGGTTTTAAAACAAAGACATTCTACATCTATTAAT
** * *
25628147 TGTTTTATTTATGGGGGAAATTATCCAATTCTGTGCATAACCATTTTTA-TTTATATT-TTTAAG
131 TGTTTTATTTATGGGGGAAATTATCCAATTCTGTGCATAACCATGATTACATAATATTATTTAA-
* *
25628210 AAGTTAGTGGTAG-AAATGAACTAAAACCATTAAAAATAATAGAAAATAAAAAATTTAAAAATAT
195 AA-TTAAT-GTAGTAAATG-A-TAAAA-CACT--AAATAA-A-AAAATAAAAAA--TAAAAAT-T
25628274 -AATGTTGTTGATTTAAAAATTAAAAACAAACAATTAAAAAGAAAAAGAAAACATAATAATCTTT
248 GAATGTTGTTGATTTAAAAATTAAAAACAAACAATTAAAAAGAAAAAGAAAACATAATAATCTTT
25628338 TAATCAATTTATAAAATTAAAAAAATCATTATCAATGTAGAAAAGGAAATTCAATTAATTCTTTC
313 TAATCAATTTATAAAATTAAAAAAATCATTATCAATGTAGAAAAGGAAATTCAATTAATTCTTTC
25628403 ACATTTTTTTCTTAAGAAAATAGACATTTTCATAATTTTTCTTATATAATTATTGATTGAACAAT
378 ACATTTTTTTCTTAAGAAAATAGACATTTTCATAATTTTTCTTATATAATTATTGATTGAACAAT
25628468 TGGATTTTTCAAAGCCATAATTTTTAACTTTGGATTTAATATCTAATTTCAAGGATCAACTTCGA
443 TGGATTTTTCAAAGCCATAATTTTTAACTTTGGATTTAATATCTAATTTCAAGGATCAACTTCGA
25628533 AGACTATTTTTATGTACCTTGAAGGAAATGACATAC
508 AGACTATTTTTATGTACCTTGAAGGAAATGACATAC
25628569 CGTAAACAAC
Statistics
Matches: 510, Mismatches: 29, Indels: 19
0.91 0.05 0.03
Matches are distributed among these distances:
544 5 0.01
545 2 0.00
546 14 0.03
547 3 0.01
548 173 0.34
549 3 0.01
551 5 0.01
552 1 0.00
553 5 0.01
555 298 0.58
556 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (546 bp):
AATTTGATTCTAATTCTAAATATTTCAATAAATTTAACCCTTCACATTGACAAATTCTATCATTT
TGGTCTTCAAACTTCCTAACCAAAGCTTTCAGGTTTTAAAACAAAGACATTCTACATCTATTAAT
TGTTTTATTTATGGGGGAAATTATCCAATTCTGTGCATAACCATGATTACATAATATTATTTAAA
ATTAATGTAGTAAATGATAAAACACTAAATAAAAAAATAAAAAATAAAAATTGAATGTTGTTGAT
TTAAAAATTAAAAACAAACAATTAAAAAGAAAAAGAAAACATAATAATCTTTTAATCAATTTATA
AAATTAAAAAAATCATTATCAATGTAGAAAAGGAAATTCAATTAATTCTTTCACATTTTTTTCTT
AAGAAAATAGACATTTTCATAATTTTTCTTATATAATTATTGATTGAACAATTGGATTTTTCAAA
GCCATAATTTTTAACTTTGGATTTAATATCTAATTTCAAGGATCAACTTCGAAGACTATTTTTAT
GTACCTTGAAGGAAATGACATACATA
Found at i:25629184 original size:124 final size:125
Alignment explanation
Indices: 25629034--25629282 Score: 482
Period size: 124 Copynumber: 2.0 Consensus size: 125
25629024 TAGAAATGGG
25629034 AAGACTTTGGAAAAATCAAAGAAGAATGAGAGAAATAGAACTCTAGAGAAAAAAAAAAGGAGCTA
1 AAGACTTTGGAAAAATCAAAGAAGAATGAGAGAAATAGAACTCTAGAGAAAAAAAAAAGGAGCTA
*
25629099 AAGTAATATTAAAATAAAATTTTATACTTTTATAGGTAGAATTTTAATAATATTTTTAAA
66 AAGTAATATTAAAATAAAATTTTATACCTTTATAGGTAGAATTTTAATAATATTTTTAAA
25629159 AAGACTTTGG-AAAATCAAAGAAGAATGAGAGAAATAGAACTCTAGAGAAAAAAAAAAGGAGCTA
1 AAGACTTTGGAAAAATCAAAGAAGAATGAGAGAAATAGAACTCTAGAGAAAAAAAAAAGGAGCTA
25629223 AAGTAATATTAAAATAAAATTTTATACCTTTATAGGTAGAATTTTAATAATATTTTTAAA
66 AAGTAATATTAAAATAAAATTTTATACCTTTATAGGTAGAATTTTAATAATATTTTTAAA
25629283 TATTTAAATA
Statistics
Matches: 123, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
124 113 0.92
125 10 0.08
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (125 bp):
AAGACTTTGGAAAAATCAAAGAAGAATGAGAGAAATAGAACTCTAGAGAAAAAAAAAAGGAGCTA
AAGTAATATTAAAATAAAATTTTATACCTTTATAGGTAGAATTTTAATAATATTTTTAAA
Found at i:25630102 original size:121 final size:121
Alignment explanation
Indices: 25629674--25630087 Score: 812
Period size: 121 Copynumber: 3.4 Consensus size: 121
25629664 NNNNNNNNNN
25629674 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
25629739 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
25629795 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
25629860 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
25629916 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
25629981 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
25630037 A-TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
25630088 CTAAAGTTTG
Statistics
Matches: 292, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
120 49 0.17
121 243 0.83
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (121 bp):
ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:25630241 original size:27 final size:28
Alignment explanation
Indices: 25630211--25630269 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
25630201 TAAATATAGT
*
25630211 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACAATTAA
*
25630238 AATGCTAATAATTTATAGTATACAATTAA
1 AATGC-AAGAATTTATAGTATACAATTAA
25630267 AAT
1 AAT
25630270 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACAATTAA
Found at i:25634715 original size:101 final size:101
Alignment explanation
Indices: 25634586--25635065 Score: 619
Period size: 101 Copynumber: 4.7 Consensus size: 101
25634576 GGTACCAGAG
* *
25634586 TACGAGAAAAAGTAAAAAAAAAA-ATTGGTGGTGACCTGGCAATGGCCGGCACCACCTTTTTAAA
1 TACGA-AAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAA
*
25634650 AAAAATTACTTTTTTCGTGTCAGATAAGATACCAGTA
65 AAAAATTACTTTTTTCGTGTCAGATAAGATATCAGTA
* *
25634687 TACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGACCTGGAAATGGCCGGCACCACC--TTTAAAA
1 TACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAA
** *
25634750 AATTTTTTAATTTTTTCGTGTCAGATAAGATATCAGTA
66 AA--AATTACTTTTTTCGTGTCAGATAAGATATCAGTA
*
25634788 TACGAAAAAAGTAAAAAAAAATTATTTTTTTTGGTGGTGGCCTGGCAATGGCCAGCACCACCTTT
1 TACGAAAAAAGTAAAAAAAAA--A----TTTTGGTGGTGGCCTGGCAATGGCCGGCACCACC---
* *
25634853 TTTTTTAAAAAAATTACTTTTTTCGTGTCAGATAAGGTATCAGTA
57 TTTTTAAAAAAAATTACTTTTTTCGTGTCAGATAAGATATCAGTA
* * *
25634898 TACGAAAAAAGTAAAAAAAATTATTTTTTTGTGGTGGCCTGGCAATGGCCTGCACCACCTTTTTA
1 TACGAAAAAAGTAAAAAAAA--A-ATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTA
* *
25634963 AAAAAATTTACTTTTTTCGTGTCAGATAAGCTATCAGTA
63 AAAAAAATTACTTTTTTCGTGTCAGATAAGATATCAGTA
* * *
25635002 TACGAAAAAAGT-TAAAAAAAA-TTTAGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTAAAA
1 TACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAA
25635065 A
66 A
25635066 TATATAGGGT
Statistics
Matches: 338, Mismatches: 25, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
99 49 0.14
100 17 0.05
101 88 0.26
103 7 0.02
104 54 0.16
107 63 0.19
110 50 0.15
111 1 0.00
112 9 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (101 bp):
TACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAAA
AAAATTACTTTTTTCGTGTCAGATAAGATATCAGTA
Found at i:25635011 original size:214 final size:207
Alignment explanation
Indices: 25634610--25635024 Score: 616
Period size: 214 Copynumber: 2.0 Consensus size: 207
25634600 AAAAAAAAAA
*
25634610 TTGGTGGTGACCTGGCAATGGCCGGCACCACCTTTTTAAAAAAAATTACTTTTTTCGTGTCAGAT
1 TTGGTGGTGACCTGGCAATGGCCAGCACCACCTTTTTAAAAAAAATTACTTTTTTCGTGTCAGAT
25634675 AAGATACCAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGACCTGGAAATGGCCGGCACC
66 AAGATACCAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGACCTGGAAATGGCCGGCACC
*
25634740 ACCTTTAAAAAATTTTTTAATTTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAA
131 ACCTTTAAAAAA-TATTTAATTTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAA
25634805 AAAATTATTTTTT
195 AAAATTATTTTTT
* *
25634818 TTGGTGGTGGCCTGGCAATGGCCAGCACCACCTTTTTTTTTAAAAAAATTACTTTTTTCGTGTCA
1 TTGGTGGTGACCTGGCAATGGCCAGCACCACC---TTTTTAAAAAAAATTACTTTTTTCGTGTCA
* * * * * *
25634883 GATAAGGTATCAGTATACGAAAAAAGTAAAAAAAATTATTTTTTTGTGGTGGCCTGGCAATGGCC
63 GATAAGATACCAGTATACGAAAAAAGTAAAAAAAA--A-ATTTTGGTGGTGACCTGGAAATGGCC
* * *
25634948 TGCACCACCTTTTTAAAAAA-ATTTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAA
125 GGCACCACC--TTTAAAAAATATTTAATTTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAA
*
25635012 GTTAAAAAAAATT
188 GTAAAAAAAAATT
25635025 TAGTGGTGGC
Statistics
Matches: 185, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
208 30 0.16
211 62 0.34
213 1 0.01
214 83 0.45
216 9 0.05
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (207 bp):
TTGGTGGTGACCTGGCAATGGCCAGCACCACCTTTTTAAAAAAAATTACTTTTTTCGTGTCAGAT
AAGATACCAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTGGTGACCTGGAAATGGCCGGCACC
ACCTTTAAAAAATATTTAATTTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAAA
AAATTATTTTTT
Found at i:25637611 original size:54 final size:54
Alignment explanation
Indices: 25637547--25637712 Score: 282
Period size: 54 Copynumber: 3.1 Consensus size: 54
25637537 ACCACCCAAA
*
25637547 TTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACATGAAAAAAGTAAT
1 TTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAT
25637601 TTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAA-
1 TTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAT
* * *
25637654 -TTTTTTTTACTTTTTTTGTATACTGATATCTTATCTAACACGAAAAAAGTAAT
1 TTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAT
25637707 TTTTTT
1 TTTTTT
25637713 AAAAGGTGGT
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
52 49 0.46
54 57 0.54
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (54 bp):
TTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAT
Found at i:25637680 original size:52 final size:52
Alignment explanation
Indices: 25637548--25637712 Score: 276
Period size: 52 Copynumber: 3.1 Consensus size: 52
25637538 CCACCCAAAT
*
25637548 TTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACATGAAAAAAGTAA
1 TTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAA
25637600 TTTTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAA
1 --TTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAA
* * *
25637654 TTTTTTTTACTTTTTTTGTATACTGATATCTTATCTAACACGAAAAAAGTAA
1 TTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAA
25637706 TTTTTTT
1 TTTTTTT
25637713 AAAAGGTGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
52 56 0.52
54 51 0.48
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.49
Consensus pattern (52 bp):
TTTTTTTTACTTTTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAA
Found at i:25637754 original size:96 final size:99
Alignment explanation
Indices: 25637654--25637864 Score: 358
Period size: 96 Copynumber: 2.2 Consensus size: 99
25637644 AAAAAAGTAA
*
25637654 TTTTTTTTACTTTTTTTGTATACTGATATCTTATCT-AACACGAAAAAAGT-AA-TTTTTTTAAA
1 TTTTTTTTACTTTTTTTGTATACTGATATCTTATCTGAA-ACAAAAAAAGTAAATTTTTTTTAAA
*
25637716 AGGTGGTGCCGGCCATTGCCAGGCCACCACCAA-T
65 AGGTGGTGCCGGCCATTGCCAAGCCACCACCAATT
25637750 TTTTTTTTACTTTTTTTGTATACTGATATCTTATCTGAAACAAAAAAAGTAAATTTTTTTTAAAA
1 TTTTTTTTACTTTTTTTGTATACTGATATCTTATCTGAAACAAAAAAAGTAAATTTTTTTTAAAA
25637815 GGTGGTGCCGGCCATTGCCAAGCCACCACCAATTT
66 GGTGGTGCCGGCCATTGCCAAGCCACCACCAA-TT
25637850 TTTTTTTTACTTTTT
1 TTTTTTTTACTTTTT
25637865 CTCGTACTCT
Statistics
Matches: 108, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
96 46 0.43
97 4 0.04
98 42 0.39
100 16 0.15
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (99 bp):
TTTTTTTTACTTTTTTTGTATACTGATATCTTATCTGAAACAAAAAAAGTAAATTTTTTTTAAAA
GGTGGTGCCGGCCATTGCCAAGCCACCACCAATT
Found at i:25641078 original size:22 final size:22
Alignment explanation
Indices: 25641050--25641095 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
25641040 GACCAATTCA
25641050 GACCAAGTGGTTGAATGAAGTG
1 GACCAAGTGGTTGAATGAAGTG
25641072 GACCAAGTGGTTGAATGAAGTG
1 GACCAAGTGGTTGAATGAAGTG
25641094 GA
1 GA
25641096 AATGATTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.37, T:0.22
Consensus pattern (22 bp):
GACCAAGTGGTTGAATGAAGTG
Found at i:25646572 original size:30 final size:30
Alignment explanation
Indices: 25646536--25646593 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
25646526 AAGGATCTTG
*
25646536 CCCAATTTCATTTCTTAATAACCCATTTAT
1 CCCAATTTCATTTCTTAACAACCCATTTAT
*
25646566 CCCAATTTCATTTCTTAGCAACCCATTT
1 CCCAATTTCATTTCTTAACAACCCATTT
25646594 GACCGTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.29, G:0.02, T:0.41
Consensus pattern (30 bp):
CCCAATTTCATTTCTTAACAACCCATTTAT
Found at i:25646687 original size:57 final size:56
Alignment explanation
Indices: 25646610--25646774 Score: 174
Period size: 57 Copynumber: 2.9 Consensus size: 56
25646600 TCAACAGGCC
* * * * *
25646610 CTTCATTAATGCCTTCGCCCACCACTATTTCATCATTATTCTTTTCCACCATATGCA
1 CTTCATTAATGCATTGGCCCACCACTATTT-ATCTTTATTCTTTTCCACCACAAGCA
* * *
25646667 CTTCATTAATGCATTGGCCCACCACTTATTTAT-TTTTTTCCTTTCCACCACAAGCC
1 CTTCATTAATGCATTGGCCCACCAC-TATTTATCTTTATTCTTTTCCACCACAAGCA
* *
25646723 CTTCATT-ATGACCA-TGGCCCACCACTTTTTTTTCTTTATTCTTTTCCACCAC
1 CTTCATTAATG--CATTGGCCCACCAC-TATTTATCTTTATTCTTTTCCACCAC
25646775 TAACCCAACA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
55 3 0.03
56 41 0.45
57 43 0.47
58 5 0.05
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.41
Consensus pattern (56 bp):
CTTCATTAATGCATTGGCCCACCACTATTTATCTTTATTCTTTTCCACCACAAGCA
Found at i:25646741 original size:56 final size:56
Alignment explanation
Indices: 25646607--25646774 Score: 173
Period size: 56 Copynumber: 3.0 Consensus size: 56
25646597 CGTTCAACAG
* * * * * *
25646607 GCCCTTCATTAATGCCTTCGCCCACCAC-TATTTCATCATTATTCTTTTCCACCATAT
1 GCCCTTCATTAATGCCATGGCCCACCACTTATTT-AT-TTTTTTCTTTTCCACCACAA
* *
25646664 GCACTTCATTAATG-CATTGGCCCACCACTTATTTATTTTTTTCCTTTCCACCACAA
1 GCCCTTCATTAATGCCA-TGGCCCACCACTTATTTATTTTTTTCTTTTCCACCACAA
*
25646720 GCCCTTCATT-ATGACCATGGCCCACCACTT-TTTTTTCTTTATTCTTTTCCACCAC
1 GCCCTTCATTAATG-CCATGGCCCACCACTTATTTATT-TTT-TTCTTTTCCACCAC
25646775 TAACCCAACA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
55 8 0.09
56 41 0.44
57 40 0.43
58 5 0.05
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (56 bp):
GCCCTTCATTAATGCCATGGCCCACCACTTATTTATTTTTTTCTTTTCCACCACAA
Found at i:25647042 original size:3 final size:3
Alignment explanation
Indices: 25647034--25647074 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
25647024 CCTGGGCAAT
*
25647034 AGA AGA AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
25647075 GAAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:25650716 original size:3 final size:3
Alignment explanation
Indices: 25650706--25650737 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
25650696 GAAGAGATAG
25650706 ACA A-A ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
25650738 GACTTGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:25651091 original size:22 final size:21
Alignment explanation
Indices: 25651047--25651088 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25651037 TTCAATTTAC
*
25651047 ACAAAAAGTATCGATACCTTT
1 ACAAAAAGTATCAATACCTTT
*
25651068 ACAAAAATTATCAATACCTTT
1 ACAAAAAGTATCAATACCTTT
25651089 TACCATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (21 bp):
ACAAAAAGTATCAATACCTTT
Found at i:25652317 original size:47 final size:47
Alignment explanation
Indices: 25652237--25652396 Score: 221
Period size: 47 Copynumber: 3.4 Consensus size: 47
25652227 GTCACAGTAA
* * **
25652237 TGCAGATAAACTGCCATTTAATAATATTATGGACAAACCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGTCACCACTTT
* * *
25652284 TGTAGATGAACTGCCACTTAATAAAATTGTGGACAAGTCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGTCACCACTTT
* *
25652331 TGCAGATAAACTGCCACTTTACAATATTGTGGACAAGTCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGTCACCACTTT
* *
25652378 TGCAAATAAACTTCCACTT
1 TGCAGATAAACTGCCACTT
25652397 TTTCTTCATT
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (47 bp):
TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGTCACCACTTT
Found at i:25652467 original size:20 final size:21
Alignment explanation
Indices: 25652442--25652482 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25652432 ATATGACCAC
25652442 AAAAATC-ACTTTTTCACTTT
1 AAAAATCAACTTTTTCACTTT
*
25652462 AAAAATCAATTTTTTCACTTT
1 AAAAATCAACTTTTTCACTTT
25652483 GGCATGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAATCAACTTTTTCACTTT
Found at i:25652666 original size:32 final size:32
Alignment explanation
Indices: 25652625--25652692 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
25652615 TCACATATGC
25652625 CATAATATCACTTAACATGAGAATGATATTTT
1 CATAATATCACTTAACATGAGAATGATATTTT
25652657 CATAATATCACTTAACATGAGAATGATATTTT
1 CATAATATCACTTAACATGAGAATGATATTTT
25652689 CATA
1 CATA
25652693 CATTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (32 bp):
CATAATATCACTTAACATGAGAATGATATTTT
Found at i:25659349 original size:27 final size:26
Alignment explanation
Indices: 25658847--25659363 Score: 539
Period size: 27 Copynumber: 19.2 Consensus size: 26
25658837 AGTTATGGGC
*
25658847 AAATGACCGAAATACCCCTAAAGGGTA
1 AAATGACCGAAATACCCC-GAAGGGTA
* * *
25658874 AAATGACCGAAACACACTCGAATGGTA
1 AAATGACCGAAATAC-CCCGAAGGGTA
* *
25658901 AAATGACCAAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
*
25658928 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
25658955 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
25658982 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
* * *
25659009 AAATGATCGAAATACCCTCAAAGGCTA
1 AAATGACCGAAATACCC-CGAAGGGTA
*
25659036 AAATGACCGAAATACCCCCGAAGGATA
1 AAATGACCGAAATA-CCCCGAAGGGTA
* ** *
25659063 AAATGACTGAAATACCCTTAAAGGATA
1 AAATGACCGAAATACCC-CGAAGGGTA
**
25659090 AAATGATTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
* *
25659117 AAATGACCGAAATACCCTCAAAAGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
*
25659144 AAATGACCGAAATACCCCAAAGGGTA
1 AAATGACCGAAATACCCCGAAGGGTA
* * *
25659170 AAATGATCGAAATACCCTTGAAGGGTT
1 AAATGACCGAAATACCC-CGAAGGGTA
* *
25659197 AAATGATCAAAATACCCCTGAAGGGTA
1 AAATGACCGAAATACCCC-GAAGGGTA
*
25659224 AAATGACCTAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
* * *
25659251 AAATAATCGAAATACCTCGAAGGGTA
1 AAATGACCGAAATACCCCGAAGGGTA
* ** *
25659277 AAATAATAGAAATACCCCCGAAGGATA
1 AAATGACCGAAATA-CCCCGAAGGGTA
* *
25659304 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCGA-AGGGTA
* * *
25659331 GAATGACCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCGA-AGGGTA
25659358 AAATGA
1 AAATGA
25659364 TTTTTATACC
Statistics
Matches: 427, Mismatches: 54, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
26 55 0.13
27 366 0.86
28 6 0.01
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (26 bp):
AAATGACCGAAATACCCCGAAGGGTA
Found at i:25659779 original size:28 final size:28
Alignment explanation
Indices: 25659736--25659811 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
25659726 ACTGTAATGT
25659736 TACTGTATTGGGCTAAGGCCCACACTGA
1 TACTGTATTGGGCTAAGGCCCACACTGA
* *
25659764 TATTGTATTGGGCTAAGGCCCACACTGC
1 TACTGTATTGGGCTAAGGCCCACACTGA
**
25659792 TACTAAATTGGGCTAAGGCC
1 TACTGTATTGGGCTAAGGCC
25659812 TTCATTGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGA
Found at i:25660707 original size:23 final size:23
Alignment explanation
Indices: 25660681--25660731 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
25660671 ATGCAATTAA
* *
25660681 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
25660704 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
25660727 AGTAA
1 TGTAA
25660732 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:25666321 original size:49 final size:49
Alignment explanation
Indices: 25666268--25666369 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 49
25666258 TGATAAAAAA
* *
25666268 ATAAACGCTTTAATTTAATCCAAGAAAAGA-AGCAAAAATAAATAAAATC
1 ATAAACACATTAATTTAATCCAAGAAAAGACA-CAAAAATAAATAAAATC
*
25666317 ATAAATACATTAATTTAATCCAAGAAAAGACACAAAAATAAATAAAATC
1 ATAAACACATTAATTTAATCCAAGAAAAGACACAAAAATAAATAAAATC
25666366 ATAA
1 ATAA
25666370 TAAATTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 48 0.98
50 1 0.02
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.23
Consensus pattern (49 bp):
ATAAACACATTAATTTAATCCAAGAAAAGACACAAAAATAAATAAAATC
Found at i:25667200 original size:20 final size:21
Alignment explanation
Indices: 25667175--25667230 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
25667165 CTTTAAGAAA
*
25667175 ATATTTTAAGAATTTAAAA-T
1 ATATTTTAAGAATTCAAAACT
25667195 ATATTTTAAGAATATCAAAACT
1 ATATTTTAAGAAT-TCAAAACT
* *
25667217 TTATTTTAAAAATT
1 ATATTTTAAGAATT
25667231 GTTTAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.42
21 6 0.19
22 12 0.39
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATTTTAAGAATTCAAAACT
Found at i:25667463 original size:6 final size:6
Alignment explanation
Indices: 25667454--25667487 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
25667444 TTTAAATTTC
25667454 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
25667488 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:25667518 original size:116 final size:118
Alignment explanation
Indices: 25667354--25667569 Score: 289
Period size: 116 Copynumber: 1.8 Consensus size: 118
25667344 TAAATTTCAA
**
25667354 ATTTTATTTTGATTTAAATACACAATCTTACTTATTTAATTATTTTTAAATTATAAAAATTTAAC
1 ATTTTATTTTGATTTAAATACACAATAATACTTATTTAATTATTTTTAAATTATAAAAATTTAAC
25667419 TA-GATAACAATGATAATATATAAAATTT-AAATTTCATTTTGATTTTGATTTTG
66 -AGGATAACAATGATAATATAT-AAATTTCAAATTTCATTTTGATTTTGATTTTG
* * * *
25667472 ATTTTGATTTTGATTTAAATA-A-AA-AATATTTATTTAGTTATTTTTAAATTGTAAAATTTTAA
1 ATTTT-ATTTTGATTTAAATACACAATAATACTTATTTAATTATTTTTAAATTATAAAAATTTAA
* * *
25667534 CAGGATAACCATGATAGTGTATAAATTTCAAATTTC
65 CAGGATAACAATGATAATATATAAATTTCAAATTTC
25667570 TTTCTGACTT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 7 0.08
116 56 0.65
117 2 0.02
118 6 0.07
119 15 0.17
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.48
Consensus pattern (118 bp):
ATTTTATTTTGATTTAAATACACAATAATACTTATTTAATTATTTTTAAATTATAAAAATTTAAC
AGGATAACAATGATAATATATAAATTTCAAATTTCATTTTGATTTTGATTTTG
Found at i:25667946 original size:21 final size:20
Alignment explanation
Indices: 25667922--25667963 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 20
25667912 ACCAAAAATT
25667922 TATTTTAAAAATTAAAAAAAA
1 TATTTT-AAAATTAAAAAAAA
25667943 TATTTTAAAATTAAAAAAAA
1 TATTTTAAAATTAAAAAAAA
25667963 T
1 T
25667964 TTAAAAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTTTAAAATTAAAAAAAA
Found at i:25667952 original size:11 final size:11
Alignment explanation
Indices: 25667953--25668003 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
25667943 TATTTTAAAA
*
25667953 TTAAAAAAAAT
1 TTAAAAAAATT
*
25667964 TTAAAAAGTATT
1 TTAAAAA-AATT
25667976 TTAAAAAAATT
1 TTAAAAAAATT
*
25667987 TAAAAAAAATT
1 TTAAAAAAATT
25667998 TTAAAA
1 TTAAAA
25668004 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:25667977 original size:50 final size:50
Alignment explanation
Indices: 25667922--25668028 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 50
25667912 ACCAAAAATT
*
25667922 TATTTT-AAAAATTAAAAAAAATATTTTAAAATTAAAAAAAATT-TAAAAAG
1 TATTTTAAAAAATTAAAAAAAA-ATTTTAAAATT-AAAAAAATTAAAAAAAG
*
25667972 TATTTTAAAAAAATTTAAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAG
1 TATTTT-AAAAAATTAAAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAG
25668023 TATTTT
1 TATTTT
25668029 CCTCGTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
50 15 0.29
51 23 0.44
52 14 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (50 bp):
TATTTTAAAAAATTAAAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAG
Found at i:25667981 original size:22 final size:22
Alignment explanation
Indices: 25667956--25668003 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
25667946 TTTAAAATTA
**
25667956 AAAAAAATTTAAAAAGTATTTT
1 AAAAAAATTTAAAAAAAATTTT
25667978 AAAAAAATTTAAAAAAAATTTT
1 AAAAAAATTTAAAAAAAATTTT
25668000 AAAA
1 AAAA
25668004 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAAATTTAAAAAAAATTTT
Found at i:25671740 original size:35 final size:35
Alignment explanation
Indices: 25671700--25671770 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25671690 TATATTTTGA
25671700 GAATTAACTTTCAGATGCCGTTTAAAATATAATGT
1 GAATTAACTTTCAGATGCCGTTTAAAATATAATGT
*
25671735 GAATTAACTTTCAGATGCTGTTTAAAATATAATGT
1 GAATTAACTTTCAGATGCCGTTTAAAATATAATGT
25671770 G
1 G
25671771 TCATCTGTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (35 bp):
GAATTAACTTTCAGATGCCGTTTAAAATATAATGT
Found at i:25674857 original size:15 final size:15
Alignment explanation
Indices: 25674814--25674860 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25674804 ATAACTTAAA
*
25674814 TTCAACACTTAATTT
1 TTCAACACTTATTTT
* *
25674829 TTCAATACTAATTTT
1 TTCAACACTTATTTT
*
25674844 TTCAACATTTATTTT
1 TTCAACACTTATTTT
25674859 TT
1 TT
25674861 GGACACTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCAACACTTATTTT
Found at i:25682185 original size:19 final size:19
Alignment explanation
Indices: 25682161--25682233 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
25682151 GTCGAATAAC
25682161 TTAATTTAATAATTATAGT
1 TTAATTTAATAATTATAGT
* *
25682180 TTAATTTTTAAATGTAATTCTAAT
1 TTAA--TTT-AA--TAATTATAGT
*
25682204 TT-TTTTAATAATTATAGT
1 TTAATTTAATAATTATAGT
*
25682222 TCAATTTAATAA
1 TTAATTTAATAA
25682234 ATTTTAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 9 0.22
19 12 0.29
20 2 0.05
21 6 0.15
22 2 0.05
24 10 0.24
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (19 bp):
TTAATTTAATAATTATAGT
Found at i:25685464 original size:49 final size:49
Alignment explanation
Indices: 25685399--25685521 Score: 210
Period size: 49 Copynumber: 2.5 Consensus size: 49
25685389 CAATAAGTGA
* * *
25685399 TATGTGATTCCTTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGACATCGGTATATGT
*
25685448 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTAGGCTATGACATCGGTATATGT
25685497 TATGTGATTACGTGTAAGACCATAG
1 TATGTGATTACGTGTAAGACCATAG
25685522 TTGAACTATG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTAGGCTATGACATCGGTATATGT
Found at i:25685531 original size:49 final size:49
Alignment explanation
Indices: 25685399--25685537 Score: 208
Period size: 49 Copynumber: 2.8 Consensus size: 49
25685389 CAATAAGTGA
* * * *
25685399 TATGTGATTCCTTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGAGCTATGGCATCGGTATATGT
25685448 TATGTGATTACGTGTAAGACCATAGCT-AGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGA-GCTATGGCATCGGTATATGT
* *
25685497 TATGTGATTACGTGTAAGACCATAGTTGAACTATGGCATCG
1 TATGTGATTACGTGTAAGACCATAGCTGAGCTATGGCATCG
25685538 AGAAAATAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
49 81 0.99
50 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGAGCTATGGCATCGGTATATGT
Found at i:25685702 original size:42 final size:42
Alignment explanation
Indices: 25685655--25685743 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
25685645 AATTCATTTA
*
25685655 AGTGATTTCACCAATTGGATATTGTATATGGCAAGATGTGTT
1 AGTGATTTCACCAATTGGATATTGTATATGGAAAGATGTGTT
25685697 AGTGATTTCACCAATTGGATATTGTATATGGAAAGATGTGTT
1 AGTGATTTCACCAATTGGATATTGTATATGGAAAGATGTGTT
25685739 AGTGA
1 AGTGA
25685744 ATTACATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.37
Consensus pattern (42 bp):
AGTGATTTCACCAATTGGATATTGTATATGGAAAGATGTGTT
Found at i:25688960 original size:59 final size:61
Alignment explanation
Indices: 25688890--25689006 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
25688880 ATCATATTAA
* * * *
25688890 TATTAAATTAATATAATATTTA-T-CAAGATGAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
25688949 TATTAAGTTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAAAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
25689007 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:25689032 original size:20 final size:18
Alignment explanation
Indices: 25688985--25689033 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
25688975 CAAGATAAAC
25688985 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
25689002 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
25689022 ATTAAATTAATA
1 ATTAAATTAATA
25689034 AAATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:25690015 original size:20 final size:18
Alignment explanation
Indices: 25689968--25690016 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
25689958 CAAGATAAAC
25689968 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
25689985 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
25690005 ATTAAATTAATA
1 ATTAAATTAATA
25690017 AAATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:25692055 original size:12 final size:12
Alignment explanation
Indices: 25692030--25692062 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
25692020 AAAAAAGAAA
25692030 GAGCTTTCTAGAG
1 GAGCTTT-TAGAG
25692043 GAGCTTTTAGAG
1 GAGCTTTTAGAG
25692055 GAGCTTTT
1 GAGCTTTT
25692063 GAATGTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (12 bp):
GAGCTTTTAGAG
Found at i:25696218 original size:29 final size:29
Alignment explanation
Indices: 25696184--25696239 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
25696174 CGCGGAAAAT
25696184 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
*
25696213 GGCCCATTTCGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
25696240 AAGGACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:25701551 original size:15 final size:15
Alignment explanation
Indices: 25701531--25701560 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25701521 TACGAGAGAA
25701531 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
*
25701546 AAAAGAAAATAAAAG
1 AAAAGAAAAAAAAAG
25701561 TATCTATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:25706933 original size:67 final size:67
Alignment explanation
Indices: 25706825--25706982 Score: 271
Period size: 67 Copynumber: 2.4 Consensus size: 67
25706815 AATTACACCA
* *
25706825 GTTTGACACCTAGTGCCTCATCGGACAATGCCGAGGTAAATAGTTTGCACTCAGTGATCATTAGT
1 GTTTGGCACCTAGTGCCTCATCGGACAATACCGAGGTAAATAGTTTGCACTCAGTGATCATTAGT
25706890 GT
66 GT
*
25706892 GTTTGGCACCTAGTGCCTCATCGGACAATACCGAGGTAAATAGTTTGCACTCAGTGCTCATTAGT
1 GTTTGGCACCTAGTGCCTCATCGGACAATACCGAGGTAAATAGTTTGCACTCAGTGATCATTAGT
25706957 GT
66 GT
* *
25706959 GTTTGGCACCCAGTGCTTCATCGG
1 GTTTGGCACCTAGTGCCTCATCGG
25706983 TAGAACCAGA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 86 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (67 bp):
GTTTGGCACCTAGTGCCTCATCGGACAATACCGAGGTAAATAGTTTGCACTCAGTGATCATTAGT
GT
Found at i:25722502 original size:66 final size:66
Alignment explanation
Indices: 25722338--25722505 Score: 168
Period size: 65 Copynumber: 2.6 Consensus size: 66
25722328 ATAATACAAA
* * * * **
25722338 TTCTTTGAGTTGAACTTAATGTTATAAATTGTATATATATATGTGGTTCGAATAAATGATGTAAT
1 TTCTTTGAGTTGAACTTAATGTTATAAATTATATATATATAAGAGGTTCAAATAAATGATACAAT
25722403 G
66 G
* *
25722404 TT-TTTGAATTGAA-TGTAATGTTATGAAA-TATATATATATAAGAGGTTCAAATGTAA-GATAC
1 TTCTTTGAGTTGAACT-TAATGTTAT-AAATTATATATATATAAGAGGTTCAAAT-AAATGATAC
25722465 AA-G
63 AATG
*
25722468 TTTCTTTGAGCTGAACTTAATGTTAGT-AATTATATATA
1 -TTCTTTGAGTTGAACTTAATGTTA-TAAATTATATATA
25722506 ATTATACATG
Statistics
Matches: 84, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
64 2 0.02
65 48 0.57
66 32 0.38
67 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (66 bp):
TTCTTTGAGTTGAACTTAATGTTATAAATTATATATATATAAGAGGTTCAAATAAATGATACAAT
G
Found at i:25724626 original size:18 final size:18
Alignment explanation
Indices: 25724595--25724642 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
25724585 TGTCATTCGT
**
25724595 TTTCAAAATATTATTC-A
1 TTTCAAAACGTTATTCAA
*
25724612 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
25724631 TTTCAAAACGTT
1 TTTCAAAACGTT
25724643 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:25729887 original size:24 final size:24
Alignment explanation
Indices: 25729854--25729907 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
25729844 TTAAAATCAA
* *
25729854 TTTTTCATATAATGATTAATAAAT
1 TTTTTGATATAATGATTAACAAAT
* *
25729878 TTTTTGATATATTGATTAACAATT
1 TTTTTGATATAATGATTAACAAAT
25729902 TTTTTG
1 TTTTTG
25729908 GGGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTTTGATATAATGATTAACAAAT
Found at i:25735119 original size:22 final size:21
Alignment explanation
Indices: 25735084--25735190 Score: 73
Period size: 19 Copynumber: 5.2 Consensus size: 21
25735074 AAAGGGTATC
* * *
25735084 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
25735105 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
25735128 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
25735147 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
25735168 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
25735187 TACA
1 TACA
25735191 TATCCTCGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
19 28 0.38
21 21 0.28
22 15 0.20
23 10 0.14
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:25735129 original size:23 final size:22
Alignment explanation
Indices: 25735084--25735141 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25735074 AAAGGGTATC
* * *
25735084 TACAAATTAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
25735105 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
25735128 TACATATCATATCT
1 TACAAATCATATCT
25735142 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.