Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 65 of 335
Found at i:22647635 original size:11 final size:11
Alignment explanation
Indices: 22647608--22647649 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
22647598 TGACCTTTCC
22647608 AAGGTATGGGT
1 AAGGTATGGGT
22647619 -AGGTATGGGT
1 AAGGTATGGGT
*
22647629 AAGGTATGGGC
1 AAGGTATGGGT
*
22647640 AAGGAATGGG
1 AAGGTATGGG
22647650 GTATATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGT
Found at i:22651704 original size:18 final size:18
Alignment explanation
Indices: 22651681--22651737 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
22651671 CAATCTCAAC
*
22651681 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
22651699 TACTGTATACATGAATAG
1 TACTGTATACGTGAATAG
*
22651717 TGCTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
22651735 TAC
1 TAC
22651738 CGTAAACGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:22652302 original size:11 final size:11
Alignment explanation
Indices: 22652274--22652316 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
22652264 TTGGCCTTTC
22652274 CAAGGTATGGG
1 CAAGGTATGGG
*
22652285 -TAGGTATGGG
1 CAAGGTATGGG
*
22652295 CAAGGTATGGA
1 CAAGGTATGGG
*
22652306 CAAGGAATGGG
1 CAAGGTATGGG
22652317 GTATATTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.30, C:0.07, G:0.44, T:0.19
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:22652946 original size:20 final size:20
Alignment explanation
Indices: 22652930--22653002 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
22652920 TTGTTTTCTG
*
22652930 TTTAAATCGATTCTTTTCTGT
1 TTTAAATCGATTCTTTT-TGA
*
22652951 TTTAAATCGATTATTTATTG-
1 TTTAAATCGATTCTTT-TTGA
* * * *
22652971 TTTGAATTGATTCATCTTGA
1 TTTAAATCGATTCTTTTTGA
22652991 TTTAAATCGATT
1 TTTAAATCGATT
22653003 TTCTATGGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.07
20 21 0.50
21 17 0.40
22 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTAAATCGATTCTTTTTGA
Found at i:22652956 original size:21 final size:21
Alignment explanation
Indices: 22652909--22652962 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
22652899 TTTTTCTTTT
* * *
22652909 TTTTGAATGGATTGTTTTCTG
1 TTTTAAATCGATTCTTTTCTG
22652930 -TTTAAATCGATTCTTTTCTG
1 TTTTAAATCGATTCTTTTCTG
22652950 TTTTAAATCGATT
1 TTTTAAATCGATT
22652963 ATTTATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.20, C:0.09, G:0.15, T:0.56
Consensus pattern (21 bp):
TTTTAAATCGATTCTTTTCTG
Found at i:22656418 original size:4 final size:4
Alignment explanation
Indices: 22656400--22656445 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
22656390 TAGTTATATA
* * *
22656400 TATG TATA TAT- TATG TATG TATG TATG TATG CATG TATG TCTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
22656446 ACCTGAATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:22656752 original size:2 final size:2
Alignment explanation
Indices: 22656745--22656785 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22656735 CTGTCTTTTA
22656745 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22656786 TCAAATGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22659659 original size:2 final size:2
Alignment explanation
Indices: 22659652--22659682 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22659642 GTAACTCAAC
22659652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22659683 ACACATCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22661162 original size:46 final size:44
Alignment explanation
Indices: 22661058--22661165 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22661048 TGTCTTTGAC
** * * *
22661058 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22661102 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22661148 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22661166 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22667306 original size:46 final size:44
Alignment explanation
Indices: 22667202--22667309 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22667192 TGTCTTTAAC
** * * *
22667202 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22667246 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22667292 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22667310 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22671531 original size:22 final size:21
Alignment explanation
Indices: 22671515--22671562 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
22671505 GGATTGATTA
22671515 GGATATTTTATACGATTTTATG
1 GGATATTTTATACGATTTTA-G
22671537 GGATATTTTATGA-GATTTTAAG
1 GGATATTTTAT-ACGATTTT-AG
22671559 GGAT
1 GGAT
22671563 TGATTATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (21 bp):
GGATATTTTATACGATTTTAG
Found at i:22672771 original size:39 final size:38
Alignment explanation
Indices: 22672727--22672890 Score: 121
Period size: 39 Copynumber: 4.2 Consensus size: 38
22672717 ACCTATGTCA
** *
22672727 TATATTACCCAAGAATCCACGGTAAGGGCTAGATCTCAT
1 TATATTACCCAAGAATCCACAATAA-GGCTAAATCTCAT
* * **
22672766 TATATTACCCTAGTATCTGCAATAAGGCTAAATCTCAT
1 TATATTACCCAAGAATCCACAATAAGGCTAAATCTCAT
* ** * * *
22672804 TATATTACCCCTAGAATCTGCAACAAGGCTAGATCTCGT
1 TATATTA-CCCAAGAATCCACAATAAGGCTAAATCTCAT
* * ** * * *
22672843 TATATTACTCGAGAATCTGCAACAAATGCTAGATCTCAT
1 TATATTACCCAAGAATCCACAA-TAAGGCTAAATCTCAT
22672882 TATATTACC
1 TATATTACC
22672891 TTAGAATCTA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
38 32 0.30
39 74 0.70
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (38 bp):
TATATTACCCAAGAATCCACAATAAGGCTAAATCTCAT
Found at i:22672834 original size:77 final size:77
Alignment explanation
Indices: 22672753--22672899 Score: 206
Period size: 77 Copynumber: 1.9 Consensus size: 77
22672743 CCACGGTAAG
* * *
22672753 GGCTAGATCTCATTATATTACCCTAGTATCTGCAA-TAAGGCTAAATCTCATTATATTACCCCTA
1 GGCTAGATCTCATTATATTACCCGAGAATCTGCAACAAAGGCTAAATCTCATTATATTA-CCCTA
22672817 GAATCTGCAACAA
65 GAATCTGCAACAA
* * * * *
22672830 GGCTAGATCTCGTTATATTACTCGAGAATCTGCAACAAATGCTAGATCTCATTATATTACCTTAG
1 GGCTAGATCTCATTATATTACCCGAGAATCTGCAACAAAGGCTAAATCTCATTATATTACCCTAG
22672895 AATCT
66 AATCT
22672900 ATAATAGATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 41 0.67
78 20 0.33
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (77 bp):
GGCTAGATCTCATTATATTACCCGAGAATCTGCAACAAAGGCTAAATCTCATTATATTACCCTAG
AATCTGCAACAA
Found at i:22672897 original size:39 final size:38
Alignment explanation
Indices: 22672753--22672899 Score: 204
Period size: 39 Copynumber: 3.8 Consensus size: 38
22672743 CCACGGTAAG
* *
22672753 GGCTAGATCTCATTATATTACCCTAGTATCTGCAATAA
1 GGCTAGATCTCATTATATTACCCTAGAATCTGCAACAA
*
22672791 GGCTAAATCTCATTATATTACCCCTAGAATCTGCAACAA
1 GGCTAGATCTCATTATATTA-CCCTAGAATCTGCAACAA
* * *
22672830 GGCTAGATCTCGTTATATTACTCGAGAATCTGCAACAAA
1 GGCTAGATCTCATTATATTACCCTAGAATCTGCAAC-AA
* *
22672869 TGCTAGATCTCATTATATTACCTTAGAATCT
1 GGCTAGATCTCATTATATTACCCTAGAATCT
22672900 ATAATAGATT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
38 33 0.35
39 62 0.65
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (38 bp):
GGCTAGATCTCATTATATTACCCTAGAATCTGCAACAA
Found at i:22673174 original size:2 final size:2
Alignment explanation
Indices: 22673167--22673197 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22673157 AATCCAACTC
22673167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22673198 ATTTTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22675847 original size:19 final size:19
Alignment explanation
Indices: 22675823--22675859 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22675813 TATTTTTATA
22675823 TTATTAA-ATTATATTATTG
1 TTATTAATA-TATATTATTG
22675842 TTATTAATATATATTATT
1 TTATTAATATATATTATT
22675860 AATCCTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATTAATATATATTATTG
Found at i:22677778 original size:21 final size:19
Alignment explanation
Indices: 22677748--22677786 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
22677738 TATTTAATAA
22677748 TTTTTTATAATTTTCTAAAT
1 TTTTTTATAATTTT-TAAAT
22677768 TTTTTTAATAATTTTTAAA
1 TTTTTT-ATAATTTTTAAA
22677787 ACTTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTATAATTTTTAAAT
Found at i:22678708 original size:39 final size:39
Alignment explanation
Indices: 22678660--22678738 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
22678650 AACTTAAAAA
22678660 CCTAAATATAAATCATATTTAAACCCTATAACCCTTAAC
1 CCTAAATATAAATCATATTTAAACCCTATAACCCTTAAC
22678699 CCTAAATATAAATCATATTTAAACCCTATAACCCTTAAC
1 CCTAAATATAAATCATATTTAAACCCTATAACCCTTAAC
22678738 C
1 C
22678739 ACTTTATTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (39 bp):
CCTAAATATAAATCATATTTAAACCCTATAACCCTTAAC
Found at i:22682547 original size:29 final size:29
Alignment explanation
Indices: 22682514--22682578 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
22682504 GTGACGAGAT
22682514 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
22682543 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
22682572 CGGCACT
1 TGGCACT
22682579 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:22682684 original size:2 final size:2
Alignment explanation
Indices: 22682679--22682729 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
22682669 GTGCGTACTC
22682679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22682721 TA TA TA TA T
1 TA TA TA TA T
22682730 CTCCGATCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22691012 original size:6 final size:6
Alignment explanation
Indices: 22691003--22691029 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22690993 CACCGTAAGG
22691003 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
22691030 GCGGTACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:22692195 original size:2 final size:2
Alignment explanation
Indices: 22692188--22692227 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
22692178 TTATTTACTT
22692188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22692228 ATTTAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22692373 original size:3 final size:3
Alignment explanation
Indices: 22692347--22692433 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
22692337 TTATTTAATT
* * *
22692347 TAA TAA T-A TAA T-A TCAA TTA -AA TAA TAA TAA CAA TAA CAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
22692390 TAA TTA -AA T-A TAA -AA CT-A TAA TAA TAAA TAA TAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA
22692433 T
1 T
22692434 TTAATATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.17
3 48 0.75
4 5 0.08
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:22692393 original size:21 final size:19
Alignment explanation
Indices: 22692367--22692433 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
22692357 ATATCAATTA
22692367 AATAATAATAACAATAACAAT
1 AATAATAATAA-AATAA-AAT
22692388 AATAAT--TAAATATAAAACT
1 AATAATAATAAA-ATAAAA-T
*
22692407 -ATAATAAT-AAATAATAAG
1 AATAATAATAAAATAA-AAT
22692425 AATAATAAT
1 AATAATAAT
22692434 TTAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.31
19 20 0.51
20 1 0.03
21 6 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:22693076 original size:17 final size:17
Alignment explanation
Indices: 22693054--22693088 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22693044 GGTTCCATAC
22693054 TATACCAACATAAGCGG
1 TATACCAACATAAGCGG
22693071 TATACCAACATAAGCGG
1 TATACCAACATAAGCGG
22693088 T
1 T
22693089 TTGATAGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (17 bp):
TATACCAACATAAGCGG
Found at i:22696006 original size:21 final size:21
Alignment explanation
Indices: 22695980--22696020 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22695970 AGACAAGCGA
* *
22695980 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
22696001 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
22696021 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:22705705 original size:20 final size:20
Alignment explanation
Indices: 22705680--22705718 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22705670 TTTTTTTAGG
22705680 ATTA-TTTTATTTTAATATTT
1 ATTATTTTTA-TTTAATATTT
22705700 ATTATTTTTATTTAATATT
1 ATTATTTTTATTTAATATT
22705719 ATTTGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTATTTTTATTTAATATTT
Found at i:22707475 original size:19 final size:20
Alignment explanation
Indices: 22707447--22707486 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
22707437 TTGTGTGTTA
* *
22707447 TTTTTTCTTT-CATTCTTTC
1 TTTTTACTTTGCAATCTTTC
22707466 TTTTTACTTTGCAATCTTTC
1 TTTTTACTTTGCAATCTTTC
22707486 T
1 T
22707487 ATATTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTACTTTGCAATCTTTC
Found at i:22708571 original size:21 final size:21
Alignment explanation
Indices: 22708541--22708580 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22708531 AAATATTTCA
22708541 TTTTAATATTTAT-AATTTTAT
1 TTTTAATA-TTATCAATTTTAT
*
22708562 TTTTACTATTATCAATTTT
1 TTTTAATATTATCAATTTT
22708581 CGAATTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAATATTATCAATTTTAT
Found at i:22712601 original size:26 final size:25
Alignment explanation
Indices: 22712566--22712614 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
22712556 ACCCCTAAGC
22712566 CATCAATGCTATACAAAATATTGAA
1 CATCAATGCTATACAAAATATTGAA
22712591 CATCATATGCTATACAAAATATTG
1 CATCA-ATGCTATACAAAATATTG
22712615 TAATCAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
CATCAATGCTATACAAAATATTGAA
Found at i:22715497 original size:30 final size:29
Alignment explanation
Indices: 22715463--22715540 Score: 106
Period size: 31 Copynumber: 2.7 Consensus size: 29
22715453 AGTCATTGGA
22715463 TTATTCAAAAGTTTTTTTTAAGTGACAAGG
1 TTATT-AAAAGTTTTTTTTAAGTGACAAGG
*
22715493 TTATTAAAAAGTTTTTATTTAAGTTACAAGG
1 TTATT-AAAAGTTTTT-TTTAAGTGACAAGG
22715524 TTATT--AAGTTTTTTTTA
1 TTATTAAAAGTTTTTTTTA
22715541 TAATAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
27 4 0.09
28 8 0.18
30 15 0.33
31 18 0.40
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (29 bp):
TTATTAAAAGTTTTTTTTAAGTGACAAGG
Found at i:22715541 original size:31 final size:31
Alignment explanation
Indices: 22715463--22715530 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
22715453 AGTCATTGGA
*
22715463 TTATTCAAAAGTTTTT-TTTAAGTGACAAGG
1 TTATTAAAAAGTTTTTATTTAAGTGACAAGG
*
22715493 TTATTAAAAAGTTTTTATTTAAGTTACAAGG
1 TTATTAAAAAGTTTTTATTTAAGTGACAAGG
22715524 TTATTAA
1 TTATTAA
22715531 GTTTTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 15 0.43
31 20 0.57
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (31 bp):
TTATTAAAAAGTTTTTATTTAAGTGACAAGG
Found at i:22716216 original size:20 final size:20
Alignment explanation
Indices: 22716187--22716227 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22716177 AGCTTGCTAA
*
22716187 TAATTTAGTGACACTGAATG
1 TAATTGAGTGACACTGAATG
*
22716207 TAATTGAGTGACATTGAATG
1 TAATTGAGTGACACTGAATG
22716227 T
1 T
22716228 GATTTACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (20 bp):
TAATTGAGTGACACTGAATG
Found at i:22716579 original size:26 final size:25
Alignment explanation
Indices: 22716525--22716573 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22716515 ATGAATTAAG
*
22716525 TAATTATTTACTTTTTTAATATAAAT
1 TAATTATTTAC-TTATTAATATAAAT
*
22716551 TAATTATTTA-TTATTAATTTAAA
1 TAATTATTTACTTATTAATATAAA
22716574 GGTTAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TAATTATTTACTTATTAATATAAAT
Found at i:22722595 original size:14 final size:14
Alignment explanation
Indices: 22722576--22722605 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22722566 ATTGAGTTAG
22722576 TATTAAAGTTTTGT
1 TATTAAAGTTTTGT
22722590 TATTAAAGTTTTGT
1 TATTAAAGTTTTGT
22722604 TA
1 TA
22722606 GAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (14 bp):
TATTAAAGTTTTGT
Found at i:22724982 original size:23 final size:22
Alignment explanation
Indices: 22724956--22725015 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
22724946 TTTAATTAGA
22724956 TAATTATTATTTATTTAATATTT
1 TAATTA-TATTTATTTAATATTT
* *
22724979 TAATAAGATATTTA-TTATTATTT
1 TAAT--TATATTTATTTAATATTT
22725002 T-ATTAT-TTTATTTA
1 TAATTATATTTATTTA
22725016 GTATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
22 2 0.06
23 13 0.42
24 6 0.19
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTATATTTATTTAATATTT
Found at i:22724988 original size:31 final size:31
Alignment explanation
Indices: 22724946--22725011 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
22724936 TTTATAGTTA
*
22724946 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
* *
22724977 TTTAATAAGATATTTATTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
22725008 TTTA
1 TTTA
22725012 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:22725630 original size:23 final size:23
Alignment explanation
Indices: 22725604--22725650 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22725594 GTGAGATATA
22725604 GAATTAAATCTTATTGAGTCTAT
1 GAATTAAATCTTATTGAGTCTAT
22725627 GAATTAAATCTTATTGAGTCTAT
1 GAATTAAATCTTATTGAGTCTAT
22725650 G
1 G
22725651 TTCATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
GAATTAAATCTTATTGAGTCTAT
Found at i:22731974 original size:46 final size:46
Alignment explanation
Indices: 22731913--22732136 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
22731903 AATATTTGGG
* *
22731913 CATCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
22731959 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * * * * *
22732005 CGTCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
*
22732052 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * *
22732098 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22732137 GCGGGTTACA
Statistics
Matches: 150, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
45 1 0.01
46 114 0.76
47 34 0.23
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:22732080 original size:93 final size:93
Alignment explanation
Indices: 22731959--22732129 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
22731949 TGGATGCGAA
* * *
22731959 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
22732024 GAGTCCGAGTTCGTGAAATGTAACTAGG
66 GAGTCCGAGTTCGTGAAATGTAACTAGG
* *
22732052 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
22732117 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
22732130 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:22737915 original size:22 final size:23
Alignment explanation
Indices: 22737890--22737935 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22737880 CAACCAAATC
22737890 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
22737912 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
22737935 A
1 A
22737936 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:22737941 original size:23 final size:23
Alignment explanation
Indices: 22737897--22737941 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22737887 ATCAATTCAA
*
22737897 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
22737920 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
22737942 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:22741685 original size:19 final size:21
Alignment explanation
Indices: 22741663--22741708 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
22741653 ATTGTTTGAA
*
22741663 AAATAATTTTC-T-TGTACAT
1 AAATAATTTGCTTGTGTACAT
22741682 AAATAATTTGCTTGTGTACAT
1 AAATAATTTGCTTGTGTACAT
22741703 AAATAA
1 AAATAA
22741709 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.42
20 1 0.04
21 13 0.54
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (21 bp):
AAATAATTTGCTTGTGTACAT
Found at i:22742467 original size:15 final size:16
Alignment explanation
Indices: 22742450--22742492 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
22742440 GAAAATCTTA
22742450 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
*
22742466 TTAT-TTTTATTTTAT
1 TTTTATTTTATTTTAT
22742481 TTTTGATTTTAT
1 TTTT-ATTTTAT
22742493 ATTAAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 14 0.61
16 3 0.13
17 6 0.26
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:22742470 original size:4 final size:5
Alignment explanation
Indices: 22742447--22742483 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
22742437 TAGGAAAATC
22742447 TTATT TTATT TTATT TTA-T TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTA-TT TTATT TTATT TT
22742484 TGATTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:22746443 original size:3 final size:3
Alignment explanation
Indices: 22746425--22746501 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
22746415 ATATAATACC
* * * *
22746425 AAT AGT AAT AAT -AT AAT AAT GAC AA- AAGT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
22746469 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22746502 GAATGATGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.91
4 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22753352 original size:16 final size:17
Alignment explanation
Indices: 22753327--22753376 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
22753317 TTTTCTTACT
22753327 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
22753343 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
22753359 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
22753376 T
1 T
22753377 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:22753524 original size:3 final size:3
Alignment explanation
Indices: 22753516--22753552 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22753506 AGTAAAAAGA
22753516 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22753553 CAGCTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22755004 original size:2 final size:2
Alignment explanation
Indices: 22754997--22755026 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22754987 GTACATTAGT
22754997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22755027 GTTAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22779185 original size:40 final size:41
Alignment explanation
Indices: 22779134--22779242 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 41
22779124 GTAAAAATTG
22779134 TAAAACACAGAGCAATAGCGGCG-TTTTAACAAAAACGCCAC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTAACAAAAACGCCAC
* * * **** *
22779175 TAAAAACAGAGTAATAGCTGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAACAAAAACGCCAC
* *
22779216 TAAAAACAAAGCACTAGCGGCGCTTTT
1 TAAAAACAGAGCAATAGCGGCGCTTTT
22779243 GGTAAAACGC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 15 0.27
41 40 0.73
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTAACAAAAACGCCAC
Found at i:22779254 original size:40 final size:41
Alignment explanation
Indices: 22779134--22779260 Score: 123
Period size: 40 Copynumber: 3.1 Consensus size: 41
22779124 GTAAAAATTG
* **** *
22779134 TAAAACACAGAGCAATAGCGGCGT-TTTAACAAAAACGCCAC
1 TAAAA-ACAAAGCAATAGCGGCGTCTTTTGGTAAAACGCCGC
* * * * *
22779175 TAAAAACAGAGTAATAGCTGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACAAAGCAATAGCGGCGTCTTTTGGTAAAACGCCGC
*
22779216 TAAAAACAAAGCACTAGCGGCG-CTTTTGGTAAAACGCCGC
1 TAAAAACAAAGCAATAGCGGCGTCTTTTGGTAAAACGCCGC
22779256 TAAAA
1 TAAAA
22779261 GTCATATAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 37 0.51
41 35 0.49
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (41 bp):
TAAAAACAAAGCAATAGCGGCGTCTTTTGGTAAAACGCCGC
Found at i:22779387 original size:54 final size:56
Alignment explanation
Indices: 22779280--22779387 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 56
22779270 TCCTAAAATT
* * * *
22779280 CTAAACCCTAAAAAAACCATAAGACACTAATCTATAACCTTTAAAATAGTAAACCG
1 CTAAACCCTAAAAAAACCATAAGACACTAAACTATAACCCTTAAAACACTAAACCG
* * * *
22779336 CTAAACCCT-AACAAGCCCTAA-ACACTAAACTATAACCCTTAAAACCCTAAAC
1 CTAAACCCTAAAAAAACCATAAGACACTAAACTATAACCCTTAAAACACTAAAC
22779388 GCCACAATAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 26 0.59
55 9 0.20
56 9 0.20
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.19
Consensus pattern (56 bp):
CTAAACCCTAAAAAAACCATAAGACACTAAACTATAACCCTTAAAACACTAAACCG
Found at i:22780507 original size:17 final size:17
Alignment explanation
Indices: 22780466--22780514 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
22780456 TTTATATGTT
**
22780466 AATTTAAAAATTATAAA
1 AATTTAAAAAAAATAAA
*
22780483 AATCTTAAAAAAAATTAA
1 AAT-TTAAAAAAAATAAA
22780501 AATTTAAAATAAAA
1 AATTTAAAA-AAAA
22780515 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTTAAAAAAAATAAA
Found at i:22780513 original size:22 final size:22
Alignment explanation
Indices: 22780488--22780550 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
22780478 ATAAAAATCT
22780488 TAAAAAAAATTAAAATTTAAAA
1 TAAAAAAAATTAAAATTTAAAA
**
22780510 T-AAAAAAA-TAAAAAATAAAA
1 TAAAAAAAATTAAAATTTAAAA
*
22780530 -AATAAAAACTTAAATATTTAA
1 TAA-AAAAAATTAAA-ATTTAA
22780551 TATTTAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 11 0.34
21 12 0.38
22 5 0.16
23 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAAAAAATTAAAATTTAAAA
Found at i:22780516 original size:7 final size:7
Alignment explanation
Indices: 22780506--22780537 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
22780496 ATTAAAATTT
22780506 AAAATAAA
1 AAAAT-AA
22780514 AAAATAA
1 AAAATAA
22780521 AAAATAA
1 AAAATAA
22780528 AAAATAA
1 AAAATAA
22780535 AAA
1 AAA
22780538 CTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:22783495 original size:15 final size:16
Alignment explanation
Indices: 22783475--22783505 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22783465 GTTTTTATCT
22783475 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
22783490 TATATATGATCTAAAA
1 TATATATGATCTAAAA
22783506 GCAAGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:22784949 original size:43 final size:43
Alignment explanation
Indices: 22784884--22785022 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
22784874 GATCATTATT
* *
22784884 TTTAGCGGCGTTTG-TGAGAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCT-AAAAAAGCGCCGCTAAAGGTCATGGTC
22784927 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
*
22784970 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTTATGG--
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
22785011 -TTAGCGGCGTTT
1 TTTAGCGGCGTTT
22785023 TTTTCGAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
40 12 0.13
43 79 0.86
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:22786948 original size:11 final size:11
Alignment explanation
Indices: 22786932--22786964 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
22786922 TCTAGAATTT
22786932 TCTTCATTTTC
1 TCTTCATTTTC
22786943 TCTTCATTTTC
1 TCTTCATTTTC
*
22786954 TTTTCATTTTC
1 TCTTCATTTTC
22786965 ATCTGCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTCATTTTC
Found at i:22788242 original size:25 final size:25
Alignment explanation
Indices: 22788213--22788264 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
22788203 AAGAATAATT
**
22788213 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
22788238 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
22788263 TG
1 TG
22788265 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:22790332 original size:14 final size:14
Alignment explanation
Indices: 22790315--22790341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22790305 ATTATTGATG
22790315 TTATTATTATTTTT
1 TTATTATTATTTTT
22790329 TTATTATTATTTT
1 TTATTATTATTTT
22790342 ATTTCTACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTATTATTTTT
Found at i:22790554 original size:22 final size:23
Alignment explanation
Indices: 22790529--22790574 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22790519 CAACCAAATC
22790529 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
22790551 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
22790574 A
1 A
22790575 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:22790580 original size:23 final size:23
Alignment explanation
Indices: 22790536--22790580 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22790526 ATCAATTCAA
*
22790536 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
22790559 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
22790581 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:22797895 original size:2 final size:2
Alignment explanation
Indices: 22797888--22797921 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22797878 ATTTTGTTTC
22797888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22797922 CTTTTTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22810109 original size:44 final size:44
Alignment explanation
Indices: 22810060--22810348 Score: 425
Period size: 44 Copynumber: 6.6 Consensus size: 44
22810050 TTGGTAAATC
**
22810060 TAGCAGATTTGGCGTCTCTGTATTGGCAAAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* * *
22810104 TAGCAGATTTAGCATCTCTGTATTGGCGGAGAGCAGATCGAGGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
** * * *
22810148 TCTCAGATTTGGCATCTCTATATTGGCGGGGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
22810192 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
22810236 TAGCAGATTTGGCGTCTCTGTTTTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* * * *
22810280 TAGCAGATTTAGAGTCTCTGTTTTGGTGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
22810324 TAGCATATTTGGCGTCTCTGTATTG
1 TAGCAGATTTGGCGTCTCTGTATTG
22810349 ACAAGAAGCA
Statistics
Matches: 219, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 219 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (44 bp):
TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
Found at i:22813179 original size:2 final size:2
Alignment explanation
Indices: 22813172--22813203 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22813162 ATTTTGTTTC
22813172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22813204 CTTTTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22827426 original size:15 final size:15
Alignment explanation
Indices: 22827404--22827437 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22827394 TTAATTATAT
*
22827404 TTTG-GTTTTTTTTG
1 TTTGAGTTTTTTTTA
22827418 TTTGAGTTTTTTTTA
1 TTTGAGTTTTTTTTA
22827433 TTTGA
1 TTTGA
22827438 TCCATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (15 bp):
TTTGAGTTTTTTTTA
Found at i:22835070 original size:18 final size:17
Alignment explanation
Indices: 22835030--22835087 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
22835020 AAATCATATA
* *
22835030 TAAAATATATAAATAATT
1 TAAAAAATATAAA-ATTT
*
22835048 CAAAAAATA-AAAAGGTTT
1 TAAAAAATATAAAA--TTT
22835066 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
22835083 TAAAA
1 TAAAA
22835088 TATGTAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
18 17 0.52
19 4 0.12
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAAAAATATAAAATTT
Found at i:22835442 original size:65 final size:65
Alignment explanation
Indices: 22835324--22835451 Score: 195
Period size: 65 Copynumber: 2.0 Consensus size: 65
22835314 AATTTGACCA
* *
22835324 TTTTTCAATTTTTATATAATATTTTATTTTTTTAAAATCTATATTTATATATTTTAGAATTTTTA
1 TTTTTCAATTTTTATATAATATTTTA-TTTTTTAAAATCTATAATTACATATTTTAGAATTTTTA
22835389 T
65 T
* *
22835390 TTTTTCAATTTTTATGTAATATTTTGA-TTTTTAAAATTTATAATTACATATTTTAGAATTTT
1 TTTTTCAATTTTTATATAATATTTT-ATTTTTTAAAATCTATAATTACATATTTTAGAATTTT
22835452 GGGTTGAAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 32 0.56
66 24 0.42
67 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (65 bp):
TTTTTCAATTTTTATATAATATTTTATTTTTTAAAATCTATAATTACATATTTTAGAATTTTTAT
Found at i:22837756 original size:2 final size:2
Alignment explanation
Indices: 22837749--22837778 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22837739 ATATGTGCAA
*
22837749 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22837779 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22838001 original size:18 final size:18
Alignment explanation
Indices: 22837951--22837994 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
22837941 AACTAATGGC
22837951 ATATATACAT-AATATAT
1 ATATATACATAAATATAT
*
22837968 ATAATACACATAATATATAT
1 AT-ATATACATAA-ATATAT
22837988 ATATATA
1 ATATATA
22837995 TACATATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 7 0.32
19 5 0.23
20 8 0.36
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATACATAAATATAT
Found at i:22838563 original size:11 final size:11
Alignment explanation
Indices: 22838521--22838555 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22838511 AAAAAAAAGA
* *
22838521 AGAGAGACGGA
1 AGAGAGAAGGG
22838532 AGAGAGAAGGG
1 AGAGAGAAGGG
22838543 AGAGAGAAGGG
1 AGAGAGAAGGG
22838554 AG
1 AG
22838556 GGGGAAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:22839847 original size:54 final size:54
Alignment explanation
Indices: 22839769--22840071 Score: 534
Period size: 54 Copynumber: 5.6 Consensus size: 54
22839759 GACCCGAGGC
* *
22839769 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
* *
22839823 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGGAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
22839877 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
22839931 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
* * * *
22839985 TCAACCCACCTCTCGAAATATGATTTGATTTTTGAAAAACAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
22840039 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
22840072 TTGAAACTTA
Statistics
Matches: 236, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 236 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
Found at i:22840335 original size:127 final size:128
Alignment explanation
Indices: 22840128--22840362 Score: 375
Period size: 127 Copynumber: 1.8 Consensus size: 128
22840118 GACCCGAGGC
* * *
22840128 TCAACTCACCTCTCGCAATATGAGTTGATTCTTCCAAAAATAGAAATTGAAAATACCTCGGCGTG
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
22840193 ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
66 ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
* * *
22840256 TCAACCCACCTCTCGCAATATGAGTTGATTCTT-GACAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
* *
22840320 -TCCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
66 AT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGA
22840363 CAAACAGAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
126 1 0.01
127 65 0.66
128 32 0.33
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (128 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:22840389 original size:72 final size:72
Alignment explanation
Indices: 22840256--22840447 Score: 312
Period size: 72 Copynumber: 2.6 Consensus size: 72
22840246 ATTAAAAGGT
* **
22840256 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTGAAATTAAATCAGCGTGT
*
22840321 CCTGGGGC
65 CCTGAGGC
22840329 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
22840394 CTGAGGC
66 CTGAGGC
* *
22840401 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATT
22840448 AAAAGGCTTA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
72 67 0.60
73 45 0.40
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
CTGAGGC
Found at i:22840467 original size:199 final size:196
Alignment explanation
Indices: 22840120--22840632 Score: 692
Period size: 199 Copynumber: 2.6 Consensus size: 196
22840110 CGACATATGA
* * * *
22840120 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTCCAAAAATAGAAATTGAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TT-GACAAACAGAAATTGAAATTACC
* * * *
22840185 TCGGCGTGAT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGTAGAAAT
64 TCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAAT
* * * * *
22840248 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCT
128 TAAAAGGTTCAACCCACCTCTCGCAATATGAG-TCAAT-TT-A-AAACAGAAACTAAAAATACCT
*
22840313 CAGCGTGT
189 CAGCGTGC
* * **
22840321 CCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTC
22840386 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAAAAATTAA
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAATTAA
* *
22840450 AAGGCTT-AACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGT
131 AAGG-TTCAACCCACCTCTCGCAATATGAGTCAATTTAAAACAGAAACTAAAAATACCTCAGCGT
22840514 GC
195 GC
* *
22840516 CCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACAAACATAAATTGAAATTA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTGACAAACAGAAATTGAAATTA
22840581 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
62 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
22840633 TTGAAAAGCA
Statistics
Matches: 279, Mismatches: 26, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
195 57 0.20
196 1 0.00
197 2 0.01
198 4 0.01
199 165 0.59
200 14 0.05
201 36 0.13
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (196 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTC
AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGCAAAAATTAA
AAGGTTCAACCCACCTCTCGCAATATGAGTCAATTTAAAACAGAAACTAAAAATACCTCAGCGTG
C
Found at i:22840553 original size:123 final size:126
Alignment explanation
Indices: 22840326--22840556 Score: 333
Period size: 123 Copynumber: 1.9 Consensus size: 126
22840316 CGTGTCCTGG
* * * * *
22840326 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGT
1 GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGACAAACAGAAACTAAAAATAAATCAGCGT
* *
22840391 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
* * **
22840452 GGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-A-AAACATAAACTAAAAATACCTCAGCGT
1 GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGACAAACAGAAACTAAAAATAAATCAGCGT
*
22840514 GCCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
22840557 TTTGACAAAC
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
123 61 0.66
124 1 0.01
125 5 0.05
126 26 0.28
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (126 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGACAAACAGAAACTAAAAATAAATCAGCGT
GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
Found at i:22840613 original size:76 final size:78
Alignment explanation
Indices: 22840487--22840712 Score: 323
Period size: 76 Copynumber: 2.9 Consensus size: 78
22840477 AGTCAATTTA
* * * *
22840487 AAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
22840552 TTTTTTTTG-A-C
66 TTTTTTTTGAAGC
* *
22840563 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
22840628 -TTTTTTTGAAAAGC
66 TTTTTTTTG--AAGC
* *
22840642 AGAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 A-AA-CATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
22840707 GATTTT
64 GATTTT
22840713 CGAAAAACAT
Statistics
Matches: 133, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
75 8 0.06
76 59 0.44
78 1 0.01
79 2 0.02
80 2 0.02
81 58 0.44
82 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (78 bp):
AAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTGAAGC
Found at i:22840686 original size:81 final size:76
Alignment explanation
Indices: 22840499--22840712 Score: 313
Period size: 81 Copynumber: 2.8 Consensus size: 76
22840489 ACATAAACTA
* *
22840499 AAAATACCTCAGCGTGCCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGACA
*
22840564 AA-CATAAATTG
65 AAGCAAAAATTG
* *
22840575 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG---A
22840640 GCAGAAGCAAAAATTG
63 -CA-AAGCAAAAATTG
*
22840656 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
22840713 CGAAAAACAT
Statistics
Matches: 124, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
75 8 0.06
76 49 0.40
78 1 0.01
79 2 0.02
80 2 0.02
81 62 0.50
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (76 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA
AGCAAAAATTG
Found at i:22840737 original size:16 final size:16
Alignment explanation
Indices: 22840716--22840746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22840706 TGATTTTCGA
*
22840716 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
22840732 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
22840747 ATTACCTCAG
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:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:22840801 original size:89 final size:88
Alignment explanation
Indices: 22840650--22840910 Score: 425
Period size: 89 Copynumber: 2.9 Consensus size: 88
22840640 GCAGAAGCAA
* *
22840650 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
22840715 AAAAACATAAATTGAAGAAAACAG
66 AAAAGCATAAATTGAA-AAAACAG
* * *
22840739 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
22840804 AAAAGCATAAATTG-AAAAACGG
66 AAAAGCATAAATTGAAAAAACAG
22840826 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
22840891 TGAAAAGCATAAATTGAAAA
64 TGAAAAGCATAAATTGAAAA
22840911 TACCTCAACG
Statistics
Matches: 159, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
87 62 0.39
88 1 0.01
89 93 0.58
90 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCATAAATTGAAAAAACAG
Found at i:22841003 original size:73 final size:73
Alignment explanation
Indices: 22840815--22841050 Score: 319
Period size: 73 Copynumber: 3.2 Consensus size: 73
22840805 AAAGCATAAA
*
22840815 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
22840880 GTTGATTTTT
66 GTTGA--TTT
* * * * * * ** *
22840890 TTGAAAAGCATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCGACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
22840955 GTTGAGTT
66 GTTGATTT
* * * *
22840963 TTGACAAACAGAAATTGAAATTACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
22841028 GTTGATTT
66 GTTGATTT
22841036 TTGAAAAACAGAAAT
1 TTGAAAAACAGAAAT
22841051 AAAACATCAA
Statistics
Matches: 135, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
73 75 0.56
75 60 0.44
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:22847567 original size:9 final size:9
Alignment explanation
Indices: 22847549--22847590 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
22847539 CTAATGGCAT
*
22847549 ATATACATA
1 ATATATATA
22847558 ATATATATA
1 ATATATATA
* *
22847567 ATACACATA
1 ATATATATA
22847576 ATATATAT-
1 ATATATATA
22847584 ATATATA
1 ATATATA
22847591 CATATTAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (9 bp):
ATATATATA
Found at i:22847576 original size:18 final size:19
Alignment explanation
Indices: 22847547--22847594 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
22847537 AACTAATGGC
*
22847547 ATATATACATAATATATAT
1 ATATACACATAATATATAT
22847566 A-ATACACATAATATATAT
1 ATATACACATAATATATAT
*
22847584 ATATATACATA
1 ATATACACATA
22847595 TTAGAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATACACATAATATATAT
Found at i:22848156 original size:11 final size:11
Alignment explanation
Indices: 22848114--22848148 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22848104 AAAAAAAAGA
* *
22848114 AGAGAGACGGA
1 AGAGAGAAGGG
22848125 AGAGAGAAGGG
1 AGAGAGAAGGG
22848136 AGAGAGAAGGG
1 AGAGAGAAGGG
22848147 AG
1 AG
22848149 GGGGAAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:22851130 original size:49 final size:49
Alignment explanation
Indices: 22851075--22851169 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
22851065 ATATATTTAT
* *
22851075 AGGTTGAAA-ACCCTTATTCTAATCAATGTCAAATAGAAACAGTGTAATA
1 AGGTTGAAACA-CCTTATTCTAATCAATATCAAATAAAAACAGTGTAATA
*
22851124 AGGTTGAAACACCTTATTCTAATCAATATCAAATAAAAAGAGTGTA
1 AGGTTGAAACACCTTATTCTAATCAATATCAAATAAAAACAGTGTA
22851170 CTTCTATACG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (49 bp):
AGGTTGAAACACCTTATTCTAATCAATATCAAATAAAAACAGTGTAATA
Found at i:22851419 original size:119 final size:119
Alignment explanation
Indices: 22851208--22851447 Score: 376
Period size: 119 Copynumber: 2.0 Consensus size: 119
22851198 TGGCCTTCGC
* * **
22851208 CCCCACAGATCCCCTTATTTTGTCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAAC
1 CCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAAAAATTTGGGTCACACAAC
*
22851273 TCTAACAAATTCCTCCTTAACACGAATTCTCAACGAACAAGTTCTCCACCCCTT
66 TCTAACAAATTCCTCCTTAACAAGAATTCTCAACGAACAAGTTCTCCACCCCTT
*
22851327 CCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAAAAATTTGGGTCATACAAC
1 CCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAAAAATTTGGGTCACACAAC
* *
22851392 TCTAAC-AATCTTCTCCTTGAA-AAGAATTCTCAACGAACAAGTTCTCCACCTCTT
66 TCTAACAAAT-TCCTCCTT-AACAAGAATTCTCAACGAACAAGTTCTCCACCCCTT
22851446 CC
1 CC
22851448 ACAAAACCCC
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
118 3 0.03
119 106 0.95
120 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (119 bp):
CCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAAAAATTTGGGTCACACAAC
TCTAACAAATTCCTCCTTAACAAGAATTCTCAACGAACAAGTTCTCCACCCCTT
Found at i:22859352 original size:2 final size:2
Alignment explanation
Indices: 22859345--22859373 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22859335 GGCTGTTATC
22859345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22859374 CATCTAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22860129 original size:2 final size:2
Alignment explanation
Indices: 22860124--22860153 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22860114 ATTTTGGCTT
22860124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22860154 ATTGGACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22862890 original size:42 final size:43
Alignment explanation
Indices: 22862808--22862890 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 43
22862798 AATAATTATG
* *
22862808 TTTATCTTTATCTTTATATTATATTACAATATTTATTTTATTT
1 TTTATCTTTATCTTTATATTATATTACAATATTGAATTTATTT
*
22862851 TTTATCTTTAT-TTTATATTATATTACAGTATTGAATTTAT
1 TTTATCTTTATCTTTATATTATATTACAATATTGAATTTAT
22862891 AGATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 26 0.70
43 11 0.30
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (43 bp):
TTTATCTTTATCTTTATATTATATTACAATATTGAATTTATTT
Found at i:22868129 original size:46 final size:46
Alignment explanation
Indices: 22868062--22868374 Score: 369
Period size: 46 Copynumber: 6.8 Consensus size: 46
22868052 TGATGTCATA
* * * * *
22868062 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATG
* * * *** *
22868108 GTATCTTTCAACCATAGTTTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATG
* * *
22868155 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* *
22868201 GTATCTTTCAACCATGGTCTTATTCATGTT-ATATCACGTTACCATG
1 GTATCTTTCAACCATGGTCTTACTCAT-TTCATATCACGTTGCCATG
*
22868247 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* * *
22868293 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
* * *
22868339 GTATCTTTCAACTATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
22868375 GAGAGCACAC
Statistics
Matches: 239, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.01
46 198 0.83
47 39 0.16
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
Found at i:22868333 original size:138 final size:139
Alignment explanation
Indices: 22868055--22868361 Score: 427
Period size: 138 Copynumber: 2.2 Consensus size: 139
22868045 TTCGACATGA
* * * * * * * *
22868055 TGTCATAGTATCTTTCAACTATGGTTTTACTCGTTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGTCATGGTATCTTTCAACTATGGTCTTACTCATGTTATATCACGTTACCATGGTATCTTTCAAC
* ** * * * *
22868120 CATAGTTTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
66 CATAGTCTTACACATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
22868185 ATGTCAGGT
131 ATATCAGGT
* *
22868194 TGTCATGGTATCTTTCAACCATGGTCTTATTCATGTTATATCACGTTACCATGGTATCTTTCAAC
1 TGTCATGGTATCTTTCAACTATGGTCTTACTCATGTTATATCACGTTACCATGGTATCTTTCAAC
* *
22868259 CATGGTCTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
66 CATAGTCTTACACATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
22868323 ATATCAGGT
131 ATATCAGGT
22868332 TGTCATGGTATCTTTCAACTATGGTCTTAC
1 TGTCATGGTATCTTTCAACTATGGTCTTAC
22868362 ACATTCCATA
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
138 81 0.55
139 65 0.45
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (139 bp):
TGTCATGGTATCTTTCAACTATGGTCTTACTCATGTTATATCACGTTACCATGGTATCTTTCAAC
CATAGTCTTACACATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
ATATCAGGT
Found at i:22874842 original size:101 final size:101
Alignment explanation
Indices: 22874737--22874963 Score: 391
Period size: 101 Copynumber: 2.2 Consensus size: 101
22874727 ACACTGATCA
* * *
22874737 CATTTATCACTTGTTACTGATCAGATAAGTGTAGCTAAACCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACCTACCACTTATCACTTATCACTTGT
22874802 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
* **
22874838 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACCTACCACTTATCACTTATCACTTGT
*
22874903 CATTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
22874939 CATTTGTCACTTATCACTGATCAGA
1 CATTTGTCACTTATCACTGATCAGA
22874964 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 119 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:22874855 original size:50 final size:51
Alignment explanation
Indices: 22874737--22874963 Score: 323
Period size: 50 Copynumber: 4.5 Consensus size: 51
22874727 ACACTGATCA
* * *
22874737 CATTTATCACTTGTTACTGATCAGATAAGTGTAGCTAAACCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
*
22874788 CACTTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
* * * * *
22874838 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
* *
22874889 CACTTATCACTTGTCATTGATCAGATAAGAGTAGCT-AAGCTACCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
* *
22874939 CATTTGTCACTTATCACTGATCAGA
1 CATTTATCACTTGTCACTGATCAGA
22874964 AGTACTCAAA
Statistics
Matches: 156, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
50 79 0.51
51 77 0.49
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (51 bp):
CATTTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
Found at i:22877735 original size:62 final size:62
Alignment explanation
Indices: 22877634--22877783 Score: 228
Period size: 62 Copynumber: 2.4 Consensus size: 62
22877624 GGAATTGACG
* *
22877634 GTAAAAAGGATCTAGCCCGGATGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGT
1 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATACGT
** * *
22877696 GTAAAAAGGATCTAGCATGGACGGGTGATCCTATTCTGATATAGCCCTCCCGAAGAATACGT
1 GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATACGT
* *
22877758 GTAAAATGGATTTAGCCCGGACGGGT
1 GTAAAAAGGATCTAGCCCGGACGGGT
22877784 AATTCGAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 78 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (62 bp):
GTAAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATACGT
Found at i:22878032 original size:38 final size:39
Alignment explanation
Indices: 22877982--22878147 Score: 181
Period size: 46 Copynumber: 3.9 Consensus size: 39
22877972 CTGATATGAA
22877982 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTG
22878021 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-C---T-T--G
*
22878066 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTG
*
22878105 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
22878148 ATGACAGAAA
Statistics
Matches: 110, Mismatches: 2, Indels: 23
0.81 0.01 0.17
Matches are distributed among these distances:
38 34 0.31
39 2 0.02
41 4 0.04
42 1 0.01
43 1 0.01
44 1 0.01
45 2 0.02
46 65 0.59
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTG
Found at i:22878088 original size:46 final size:46
Alignment explanation
Indices: 22878024--22878191 Score: 230
Period size: 46 Copynumber: 3.7 Consensus size: 46
22878014 CAACTTGTGT
* * * *
22878024 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
22878070 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
22878116 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
22878162 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
22878192 TCACGTCAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 108 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:22880353 original size:51 final size:51
Alignment explanation
Indices: 22880294--22880396 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
22880284 TAAGGTTGCT
22880294 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
1 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
*
22880345 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTGATCAAACA
1 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
22880396 T
1 T
22880397 ATAAACATGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (51 bp):
TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
Found at i:22882437 original size:6 final size:6
Alignment explanation
Indices: 22882426--22882469 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
22882416 TTCTTGGGGT
*
22882426 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCCTCA TC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TC
22882470 GTCAGTGGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
TCTTCA
Found at i:22882834 original size:3 final size:3
Alignment explanation
Indices: 22882826--22882869 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
22882816 TTAAGGAGAC
22882826 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
22882870 CGCTTATTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:22887288 original size:25 final size:23
Alignment explanation
Indices: 22887226--22887290 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
22887216 TATATATATT
*
22887226 TATAAATAATAATAGTGTTAGAAA
1 TATACATAA-AATAGTGTTAGAAA
* *
22887250 TATAC-TATATATAGTGTTTGAAGTA
1 TATACATA-AAATAGTGTTAGAA--A
22887275 TATACATAAAATAGTG
1 TATACATAAAATAGTG
22887291 AAAATATAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
23 13 0.39
24 5 0.15
25 13 0.39
26 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (23 bp):
TATACATAAAATAGTGTTAGAAA
Found at i:22887676 original size:22 final size:24
Alignment explanation
Indices: 22887622--22887680 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
22887612 TAATATTTAT
*
22887622 ATATGTACATAATATAGTGTTAAAA
1 ATATATACATAATATAG-GTTAAAA
*
22887647 ATACATACATAATATA-GTT-AAA
1 ATATATACATAATATAGGTTAAAA
22887669 ATATATACATAA
1 ATATATACATAA
22887681 GATAACATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.45
23 3 0.10
25 14 0.45
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (24 bp):
ATATATACATAATATAGGTTAAAA
Found at i:22887756 original size:25 final size:24
Alignment explanation
Indices: 22887704--22887759 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
22887694 AAAAATATAT
* *
22887704 ATATATAATAATATAGTATTAAAG
1 ATATATAATAAAATAGTATTAAAA
22887728 ATATATACATAAAATAGTA-TAGAAA
1 ATATATA-ATAAAATAGTATTA-AAA
22887753 ATATATA
1 ATATATA
22887760 TACGTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (24 bp):
ATATATAATAAAATAGTATTAAAA
Found at i:22887768 original size:25 final size:26
Alignment explanation
Indices: 22887647--22887768 Score: 77
Period size: 27 Copynumber: 4.4 Consensus size: 26
22887637 AGTGTTAAAA
*
22887647 ATACATACATAATATAGTTAAA-ATAT
1 ATACATA-ATAATATAGTAAAATATAT
* *
22887673 ATACATAAGATAACATGTAGAAAAAATATAT
1 ATACAT-A-AT-A-ATATAG-TAAAATATAT
* *
22887704 ATATATAATAATATAGTATTAAAGATAT
1 ATACATAATAATATAGTA--AAATATAT
*
22887732 ATACATAAAATAGTATAG-AAAATATAT
1 ATACAT--AATAATATAGTAAAATATAT
*
22887759 ATACGTAATA
1 ATACATAATA
22887769 TAGAATTTAG
Statistics
Matches: 75, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
25 4 0.05
26 7 0.09
27 20 0.27
28 14 0.19
29 8 0.11
30 13 0.17
31 9 0.12
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (26 bp):
ATACATAATAATATAGTAAAATATAT
Found at i:22887834 original size:23 final size:25
Alignment explanation
Indices: 22887791--22887836 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22887781 TATACCTAAT
22887791 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
22887816 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
22887837 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:22887836 original size:45 final size:49
Alignment explanation
Indices: 22887702--22887836 Score: 122
Period size: 45 Copynumber: 2.8 Consensus size: 49
22887692 GAAAAAATAT
* * *
22887702 ATATATATAATAATATAGTATTAAAGATATATACATAAAATAGTATAGAAA
1 ATATATAT-ATAATATAATATT-AAGAAATATACATAATATAGTATAGAAA
* *
22887753 ATATATATACGTAATATAGA-ATTTAG-AATATACCTAATATA-T-TA-AAA
1 ATATATATA--TAATATA-ATATTAAGAAATATACATAATATAGTATAGAAA
22887800 GA-ATATATATAATATAATATTAAGAAATATA-ATAATA
1 -ATATATATATAATATAATATTAAGAAATATACATAATA
22887837 ACAAAAAAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
44 1 0.01
45 17 0.24
46 6 0.08
47 10 0.14
48 3 0.04
49 1 0.01
50 13 0.18
51 10 0.14
52 10 0.14
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.35
Consensus pattern (49 bp):
ATATATATATAATATAATATTAAGAAATATACATAATATAGTATAGAAA
Found at i:22889119 original size:89 final size:86
Alignment explanation
Indices: 22888955--22889719 Score: 586
Period size: 89 Copynumber: 8.8 Consensus size: 86
22888945 GTGATCCTGA
** * * * * *
22888955 GCTCAACTCATTTCTCGCGATATGAATTGACTCTTT-AAAACTA-AACATT-AAAAATAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAA-ATTGAAAAACAGAAATT
* *
22889017 GAAAATAGCTCAGCAGGTGAGCCAAG
64 GAAAATACCTCAGC--GTG-GCCGAG
* * *
22889043 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGAAAAACAAAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATTGA
* *
22889108 AAATACCTCAGCGTGTCATGAG
66 AAATACCTCAGCGTGGC-CGAG
** *
22889130 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAACAGAAATTG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATTGA
* ** * *
22889194 AAA-A--GCAGAAAT---TGAA
66 AAATACCTCAG-CGTGGCCGAG
** * * * *** * ** * * * * * * ** * *
22889210 AAT-ACCTCAGCGTGTC-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAATA
1 GCTCAACTCA-CCTCTCGC--AATATGAGTTGA-TTTTTGAAAAAT-A--T-AAATTGAAAAACA
*
22889273 GAAATTGAAAATACTTCAGCATGTGAGCCGAG
58 GAAATTGAAAATACCTCAGC--GTG-GCCGAG
*
22889305 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAAAACAGAAATT
*
22889370 GAAAATACCTCAGCGTGCCCCGAG
64 GAAAATACCTCAGCGTG-GCCGAG
22889394 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAT-T--A-T---AAACAGAAATT-
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAACAGAAATTG
* *
22889450 AAAATTACCTTAGCGTGTCCTGAG
65 AAAA-TACCTCAGCGTGGCC-GAG
** * *
22889474 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATTGA
22889538 AAATACCTCAGCATGTGAGCCGAG
66 AAATACCTCAGC--GTG-GCCGAG
**
22889562 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-ATAAATTGAAAAGTAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAACAGAAATTG
22889626 AAAATACCTCAGCATGTGAGCCGAG
65 AAAATACCTCAGC--GTG-GCCGAG
*
22889651 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTG-AAAAACAGAAATTG
22889716 AAAA
65 AAAA
22889720 GCAGAAATTA
Statistics
Matches: 541, Mismatches: 92, Indels: 86
0.75 0.13 0.12
Matches are distributed among these distances:
78 5 0.01
79 14 0.03
80 62 0.11
81 5 0.01
82 6 0.01
83 6 0.01
84 2 0.00
85 1 0.00
86 40 0.07
87 79 0.15
88 91 0.17
89 147 0.27
90 28 0.05
91 28 0.05
92 1 0.00
94 6 0.01
95 14 0.03
96 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (86 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATTGA
AAATACCTCAGCGTGGCCGAG
Found at i:22889182 original size:14 final size:14
Alignment explanation
Indices: 22889163--22889211 Score: 89
Period size: 14 Copynumber: 3.5 Consensus size: 14
22889153 GAGTTGATTT
22889163 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
22889177 TTGAAAAACAGAAA
1 TTGAAAAGCAGAAA
22889191 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
22889205 TTGAAAA
1 TTGAAAA
22889212 TACCTCAGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.16
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:22889251 original size:101 final size:100
Alignment explanation
Indices: 22889089--22889283 Score: 329
Period size: 101 Copynumber: 1.9 Consensus size: 100
22889079 AAAAATATAG
22889089 ATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
1 ATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
22889154 AGTTGATTTTTGA-AAAGCAGAAATTGAAAAACAGAA
66 AGTTGA-TTTTGACAAA-CAGAAATTGAAAAACAGAA
* * *
22889190 ATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 ATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
*
22889255 AGTTGATTTTGACAAATAGAAATTGAAAA
66 AGTTGATTTTGACAAACAGAAATTGAAAA
22889284 TACTTCAGCA
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
100 18 0.20
101 71 0.80
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (100 bp):
ATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTGACAAACAGAAATTGAAAAACAGAA
Found at i:22889321 original size:74 final size:72
Alignment explanation
Indices: 22889200--22889338 Score: 226
Period size: 74 Copynumber: 1.9 Consensus size: 72
22889190 ATTGAAAAGC
*
22889200 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
22889265 GACAAAT
66 GACAAAT
*
22889272 AGAAATTGAAAATACTTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGAAATTGAAAATACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
22889336 TTT
63 TTT
22889339 TTTGAAAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
72 20 0.32
74 40 0.65
75 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (72 bp):
AGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
GACAAAT
Found at i:22889529 original size:14 final size:14
Alignment explanation
Indices: 22889512--22889540 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22889502 GATTTTGACG
22889512 AACAGAAATTGAAA
1 AACAGAAATTGAAA
22889526 AACAGAAATTGAAA
1 AACAGAAATTGAAA
22889540 A
1 A
22889541 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:22889703 original size:14 final size:14
Alignment explanation
Indices: 22889684--22889746 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
22889674 GAGTTGATTT
*
22889684 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
22889698 TTGAAAAAATAGAAA
1 TTG-AAAAATAGAAA
**
22889713 TTGAAAAGCAGAAA
1 TTGAAAAATAGAAA
* *
22889727 TT-AAAAACAGAAT
1 TTGAAAAATAGAAA
22889740 TTGAAAA
1 TTGAAAA
22889747 GACCTCAGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 18 0.43
15 13 0.31
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.22
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:22889707 original size:15 final size:15
Alignment explanation
Indices: 22889687--22889719 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22889677 TTGATTTTTG
*
22889687 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
22889702 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
22889717 AAA
1 AAA
22889720 GCAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:22889719 original size:13 final size:13
Alignment explanation
Indices: 22889703--22889746 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
22889693 ATAAATTGAA
*
22889703 AAAATAGAAATTG
1 AAAACAGAAATTG
*
22889716 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
22889730 AAAACAGAATTTG
1 AAAACAGAAATTG
22889743 AAAA
1 AAAA
22889747 GACCTCAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:22889896 original size:14 final size:14
Alignment explanation
Indices: 22889877--22889911 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22889867 GTTGATTCTT
*
22889877 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
22889891 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
22889905 TTGAAAA
1 TTGAAAA
22889912 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:22889957 original size:89 final size:89
Alignment explanation
Indices: 22889800--22890152 Score: 419
Period size: 89 Copynumber: 4.1 Consensus size: 89
22889790 TGAGTTGATT
**
22889800 TTGAAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
22889865 GAGTTGATTCTTTTGAAAAGTAGAAA
64 GAGTTGATTCTTTTGAAAAGTAGAAA
*
22889891 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
22889956 GTTGATT-TTTT-AAAAGCAGAAA
66 GTTGATTCTTTTGAAAAGTAGAAA
** ** * * *
22889978 TTGAAAA-C-------G--CCT-CAGC-GTGTGACCCGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
22890031 GTTGATTCTTTTGAAAAGTAGAAA
66 GTTGATTCTTTTGAAAAGTAGAAA
* * *
22890055 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
22890120 GTTGATTTTTTTGATAAAAATAGAAT
66 GTTGATTCTTTTG--AAAAGTAGAAA
22890146 TTGAAAA
1 TTGAAAA
22890153 TACCTCAGCG
Statistics
Matches: 220, Mismatches: 26, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
75 40 0.18
76 6 0.03
77 18 0.08
78 1 0.00
79 1 0.00
85 1 0.00
86 1 0.00
87 18 0.08
88 6 0.03
89 80 0.36
91 48 0.22
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (89 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTCTTTTGAAAAGTAGAAA
Found at i:22890032 original size:75 final size:75
Alignment explanation
Indices: 22889891--22890061 Score: 265
Period size: 75 Copynumber: 2.3 Consensus size: 75
22889881 AAAGTAGAAA
* *
22889891 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTGA
1 TTGAAAAGCAGAAATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
22889956 GTTGATT-TT
66 GTTGATTCTT
* *
22889965 TT-AAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGTTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAACACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
22890029 GAGTTGATTCTT
64 GAGTTGATTCTT
*
22890041 TTGAAAAGTAGAAATTGAAAA
1 TTGAAAAGCAGAAATTGAAAA
22890062 GCAGAAATTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
73 29 0.33
74 2 0.02
75 36 0.41
76 4 0.05
77 17 0.19
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (75 bp):
TTGAAAAGCAGAAATTGAAAACACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTCTT
Found at i:22890060 original size:14 final size:14
Alignment explanation
Indices: 22890041--22890075 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22890031 GTTGATTCTT
*
22890041 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
22890055 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
22890069 TTGAAAA
1 TTGAAAA
22890076 TACCTCAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:22890150 original size:91 final size:90
Alignment explanation
Indices: 22889967--22890152 Score: 257
Period size: 91 Copynumber: 2.0 Consensus size: 90
22889957 TTGATTTTTT
* * *
22889967 AAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAGCAGAAATTGAAAACACCTCAACGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
22890032 TTGATTCTTTTGAAAAGTAGAAATTG
65 TTGATTCTTTTGAAAAATAGAAATTG
* * *
22890058 AAAAGCAGAAATTGAAAATACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTCGCAATGTGAGT
1 AAAAGCAGAAATTGAAAACACCTCAACGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
22890122 TGATTTTTTTGATAAAAATAGAATTTG
66 TGATTCTTTTG--AAAAATAGAAATTG
22890149 AAAA
1 AAAA
22890153 TACCTCAGCG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 40 0.48
91 44 0.52
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (90 bp):
AAAAGCAGAAATTGAAAACACCTCAACGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTCTTTTGAAAAATAGAAATTG
Found at i:22890152 original size:537 final size:515
Alignment explanation
Indices: 22889004--22890238 Score: 1562
Period size: 537 Copynumber: 2.4 Consensus size: 515
22888994 ACTAAACATT
* * * * *
22889004 AAAAATAGAAATTGAAAATAGCTCAGCAGGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCA-CACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
22889069 TTGA-TTTTTGAAAAATATAG-ATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCATGAGGC
65 TTGATTTTTTGAAAAA-ATAGAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTCACGAGGC
*
22889132 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAA
129 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAA
* * *
22889197 AGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
194 AGCAGAAATTGAAAAGACCTCAGCGTGTCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
22889262 TTTGACAAATAGAAATTGAAAATACTTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
259 TTTGACAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* *
22889327 TGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCCG
324 TGAGTTGATTCTTTTGAAAAATAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCCG
*
22889392 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATTATAAACAGAAATTAAAATTA
389 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---AA-TATAAACAGAAATTAAAATCA
* * *
22889457 CCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATT
450 CCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATT
22889522 G
515 G
*
22889523 AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCA-CACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
** * *
22889588 TTGATTTTTTGAAAAAATA-AATTGAAAAGTAGAAATTGAAAATACCTCAGCATGTGAGCCGAGG
65 TTGATTTTTTGAAAAAATAGAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTCA--CGAGG
* * *
22889652 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATAGAAATTGA
128 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAAAACAGAAATTGA
22889717 AAAGCAGAAATTAAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCACCTC
192 AAAGCAG-----------A-AA-TTGAAAAGACCTCAGCGTGT--CCCGAGACTCAACTCACCTC
* *
22889782 TCGCAATATGAGTTGATTTTGA-AAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTC
242 TCGCAATATGAGTTGATTTTGACAAA-CAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTC
*
22889846 AACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAAGCAGAAATTGAAA
306 AACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAATAGAAATTGAAAAGCAGAAATTGAAA
* * *
22889911 ATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTT-A-A-AAGC
371 ATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAATATAAAC
* *
22889973 AGAAATTGAAAA-CGCCTCAGCGTGTGACCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
436 AGAAATT-AAAATCACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
22890037 TCTTTTGA-AAAGTAGAAATTG
497 --TTTTGACAAA-CAGAAATTG
* * *
22890058 AAAAGCAGAAATTGAAAATACCTCA-ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 AAAAACAGAAATTGAAAATACCTCACACGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
22890121 TTGATTTTTT-------T-G-A-T-AAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCT
65 TTGATTTTTTGAAAAAATAGAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTCACGAGGCT
** *
22890175 CAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAATAGAAATTGAAAAACAGAAATTGAAAA
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAA
22890239 TACTCAGCAT
Statistics
Matches: 636, Mismatches: 50, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
519 116 0.18
520 27 0.04
521 84 0.13
522 21 0.03
523 28 0.04
524 1 0.00
525 1 0.00
526 1 0.00
530 20 0.03
531 5 0.01
532 36 0.06
533 44 0.07
534 4 0.01
535 57 0.09
536 3 0.00
537 188 0.30
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (515 bp):
AAAAACAGAAATTGAAAATACCTCACACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAAATAGAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTCACGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAAG
CAGAAATTGAAAAGACCTCAGCGTGTCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
TGACAAACAGAAATTGAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTCTTTTGAAAAATAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCCGAG
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAATATAAACAGAAATTAAAATCACCTCAG
CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTG
Found at i:22890378 original size:84 final size:84
Alignment explanation
Indices: 22890135--22890377 Score: 307
Period size: 87 Copynumber: 2.8 Consensus size: 84
22890125 TTTTTTTGAT
* *
22890135 AAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGC-TGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
22890200 GA-TTTTGACGAATAGAAATTG
64 GATTTTTGAC-AAAAGAAATTG
22890221 AAAAACAGAAATTGAAAATA-CTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGT---CCGAGGCTCAACTCACCTCTCGCAATATGAG
*
22890285 TTGGATTTTTGA-AAAATAAATTG
62 TT-GATTTTTGACAAAAGAAATTG
* *
22890308 ACAAAC-GAAAATTGAAAATACCTCAGC-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAG-AAATTGAAAATACCTCAGCTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTT
22890371 GATTTTT
64 GATTTTT
22890378 TTTTGAAAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
83 8 0.06
84 31 0.22
85 9 0.06
86 21 0.15
87 59 0.42
88 8 0.06
89 6 0.04
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (84 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGACAAAAGAAATTG
Done.