Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 168 of 214
Found at i:49507212 original size:16 final size:17
Alignment explanation
Indices: 49507180--49507214 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
49507170 CCACTCTCAT
49507180 ATTTTATAATGCATATAC
1 ATTTTATAA-GCATATAC
49507198 ATTTTATAA-CATATAC
1 ATTTTATAAGCATATAC
49507214 A
1 A
49507215 CCTTCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTTTATAAGCATATAC
Found at i:49509072 original size:8 final size:8
Alignment explanation
Indices: 49509059--49509099 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
49509049 TAAAAGTTAC
49509059 AAAAAATA
1 AAAAAATA
49509067 AAAAAATA
1 AAAAAATA
* *
49509075 TAAATATA
1 AAAAAATA
49509083 AATAAAATA
1 AA-AAAATA
49509092 AAAAAATA
1 AAAAAATA
49509100 TTAATTACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAAATA
Found at i:49511622 original size:19 final size:19
Alignment explanation
Indices: 49511598--49511644 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
49511588 AACGTCTCTT
*
49511598 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
49511617 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
49511636 TATGCATTA
1 TTTGCATTA
49511645 AACACCGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:49514499 original size:7 final size:7
Alignment explanation
Indices: 49514474--49514515 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
49514464 GTGATGTGAA
49514474 AAAAATG
1 AAAAATG
49514481 AAAAGATG
1 AAAA-ATG
49514489 -AAAATG
1 AAAAATG
49514495 AAAAATG
1 AAAAATG
49514502 AAAAA-G
1 AAAAATG
49514508 TAAAAATG
1 -AAAAATG
49514516 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:49514513 original size:21 final size:21
Alignment explanation
Indices: 49514474--49514515 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49514464 GTGATGTGAA
*
49514474 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
49514495 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
49514516 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:49515988 original size:44 final size:44
Alignment explanation
Indices: 49515791--49516601 Score: 811
Period size: 44 Copynumber: 18.4 Consensus size: 44
49515781 GCTAAAAAGC
* * *
49515791 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
*** * ***
49515835 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTA-TTGACATGAAGTAGATCGAAGAT
*** * *
49515880 AATTGATCTTGTCTTCATGTATTGACACGGAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGAT
49515924 A-CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGAT
* *
49515967 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
** * *
49516011 AGTGGATCTTATCTTTATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGAT
*
49516055 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
** * *
49516099 AATAGATATTGTCTTCATGTATTGACATGAAGTAGGTC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGAT
* * * *
49516143 AGAAGATCTTATCTTCATGTATTAACATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
***
49516187 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGAT
* *** *
49516231 AGCAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
* * * * *
49516275 AGCATATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
* * * *
49516319 AGTAGATCTTGTCTTCCTGTACT-AGCAATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGA-C-ATGAAGTAGATCGAAGAT
* * ** * *
49516364 AACAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTT--CAT-GTATTGACATGAAGTAGATCGAAGAT
* *
49516409 AGCAGATCTTGTCTTCATGT-TTTAGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATCGAAGAT
*
49516453 AGCAGATCTTGTCTTCATGCATTGGA-ATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATT-GACATGAAGTAGATCGAAGAT
* ** *
49516497 AGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTT--CAT-GTATTGACATGAAGTAGATCGAAGAT
* * * *
49516542 AGTAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
49516586 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
49516602 CCATACTGGT
Statistics
Matches: 646, Mismatches: 94, Indels: 54
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.00
42 7 0.01
43 49 0.08
44 452 0.70
45 126 0.20
46 5 0.01
47 3 0.00
48 3 0.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAT
Found at i:49525518 original size:106 final size:104
Alignment explanation
Indices: 49525408--49525731 Score: 410
Period size: 106 Copynumber: 3.1 Consensus size: 104
49525398 TTTTATTGTG
49525408 ATTTTTTATGAATGTAAATTTTTAAAAATTATTTT-TTAGTATTTATGATTAGGTTATAAATTGT
1 ATTTTTT-TGAATGT--ATTTTTAAAAATTATTTTGTTAGTATTTATGATTAGGTTATAAATTGT
* * * *
49525472 TTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTAAGAATG-C
63 TTGTGTTTAGTTTAGTG-TTTATTTTTATTTTTTATGAATGTA
* *
49525514 ATTTTTTTAAAT-TA-TTTT-AAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTT
1 ATTTTTTTGAATGTATTTTTAAAAATTATTTTGTTAGT-ATTTATGATTAGGTTATAAATTGTTT
* * *
49525576 GTGTTTAATTTAGTGTTTATTTTTAATTTTTATGAAGGTA
65 GTGTTTAGTTTAGTGTTTATTTTTATTTTTTATGAATGTA
* *
49525616 AGTTTTTTTG-GT-TTTTTTTAAAAAAATTATTTTGTTAGTAGTTTATGATTAGGTTATAAATTG
1 A-TTTTTTTGAATGTATTTTT--AAAAATTATTTTGTTAGTA-TTTATGATTAGGTTATAAATTG
49525679 TTTGTGTTTAGTTTAGTGTTTATTTTTATTTTTTATGAATGTA
62 TTTGTGTTTAGTTTAGTGTTTATTTTTATTTTTTATGAATGTA
49525722 ATTTTATTTG
1 ATTTT-TTTG
49525732 TTTTTGATTT
Statistics
Matches: 192, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
100 10 0.05
101 27 0.14
102 44 0.23
103 11 0.06
104 1 0.01
105 9 0.05
106 90 0.47
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (104 bp):
ATTTTTTTGAATGTATTTTTAAAAATTATTTTGTTAGTATTTATGATTAGGTTATAAATTGTTTG
TGTTTAGTTTAGTGTTTATTTTTATTTTTTATGAATGTA
Found at i:49525610 original size:53 final size:53
Alignment explanation
Indices: 49525551--49525716 Score: 135
Period size: 53 Copynumber: 3.1 Consensus size: 53
49525541 TTGTTAGTAA
49525551 TTTATGATTAGGTTATAAATTGTTTGTGTTTAATTTAGTGTTTATTTTTAATT
1 TTTATGATTAGGTTATAAATTGTTTGTGTTTAATTTAGTGTTTATTTTTAATT
** * ** **** * *
49525604 TTTATGA--AGG-TA-AGTTTTTTTG-GTTTTTTTTAAAAAAATTATTTTGTTAGTAG
1 TTTATGATTAGGTTATAAATTGTTTGTGTTTAATTT--AGTGTTTA-TTT-TTAAT-T
* *
49525657 TTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTTTTATTT
1 TTTATGATTAGGTTATAAATTGTTTGTGTTTAATTTAGTGTTTATTTTTAATT
49525710 TTTATGA
1 TTTATGA
49525717 ATGTAATTTT
Statistics
Matches: 81, Mismatches: 22, Indels: 20
0.66 0.18 0.16
Matches are distributed among these distances:
48 7 0.09
49 7 0.09
50 6 0.07
51 6 0.07
52 4 0.05
53 21 0.26
54 4 0.05
55 6 0.07
56 6 0.07
57 7 0.09
58 7 0.09
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (53 bp):
TTTATGATTAGGTTATAAATTGTTTGTGTTTAATTTAGTGTTTATTTTTAATT
Found at i:49526028 original size:21 final size:22
Alignment explanation
Indices: 49525977--49526029 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
49525967 TTGTTGTAAT
* *
49525977 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
** *
49525999 TATCGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
49526020 TATAATATTA
1 TATAATATTA
49526030 ATGGGTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:49528291 original size:48 final size:47
Alignment explanation
Indices: 49528193--49528296 Score: 145
Period size: 48 Copynumber: 2.2 Consensus size: 47
49528183 GTATTTATTT
* * * *
49528193 AATTGAGATTCATTGCAACATTAAAAATAGAACAAACTTTGTAATTTA
1 AATT-AGATTAATTGCAACATTAAAAAGAGAACAAAATTTGTAATATA
*
49528241 AATTAGATTAATTGCAACATTAAAACGAGGAACAAAATTTGTAATATA
1 AATTAGATTAATTGCAACATTAAAAAGA-GAACAAAATTTGTAATATA
49528289 AATTAGAT
1 AATTAGAT
49528297 ACATTGGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 21 0.42
48 29 0.58
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.32
Consensus pattern (47 bp):
AATTAGATTAATTGCAACATTAAAAAGAGAACAAAATTTGTAATATA
Found at i:49528981 original size:26 final size:26
Alignment explanation
Indices: 49528951--49529002 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
49528941 GTAGCCGAGA
*
49528951 ACATAGATAAAATTAGAAGATGTCGT
1 ACATAGATAAAATCAGAAGATGTCGT
49528977 ACATAGATAAAATCAGAAGATGTCGT
1 ACATAGATAAAATCAGAAGATGTCGT
49529003 TTTTTCATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (26 bp):
ACATAGATAAAATCAGAAGATGTCGT
Found at i:49533428 original size:42 final size:42
Alignment explanation
Indices: 49533346--49533475 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
49533336 CAGAGAAACA
* * * *
49533346 CATAAGTGCTAAACAGAAACCTATAAAGGTTGAACGGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACGGAAGCT
* *
49533388 CATAAGAGCTGAAC-GAAAGCCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACAGAAA-CCCATAAGGGTTAAACGGAAGCT
* * * * * *
49533430 CAAAATAACTAAACAGAAACCCATTAGGGTTAAACGAAAACT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACGGAAGCT
49533472 CATA
1 CATA
49533476 TGAGTTAACT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.06
42 63 0.89
43 4 0.06
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACGGAAGCT
Found at i:49534875 original size:11 final size:11
Alignment explanation
Indices: 49534839--49534874 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
49534829 GCTGTTACAC
49534839 AAAATTAATTA
1 AAAATTAATTA
49534850 AAAATTAATTA
1 AAAATTAATTA
*
49534861 AAAACTAA-TA
1 AAAATTAATTA
49534871 AAAA
1 AAAA
49534875 AATTACATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:49534935 original size:17 final size:18
Alignment explanation
Indices: 49534909--49534947 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
49534899 CACAATAAAC
49534909 ATTAAACTAAACA-AAAA
1 ATTAAACTAAACACAAAA
* *
49534926 ATTAACCTAATCACAAAA
1 ATTAAACTAAACACAAAA
49534944 ATTA
1 ATTA
49534948 CAAACAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (18 bp):
ATTAAACTAAACACAAAA
Found at i:49534941 original size:19 final size:20
Alignment explanation
Indices: 49534896--49534944 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
49534886 TAACCTAACA
49534896 AATCACAATAAACATTAAACT
1 AATCACAA-AAACATTAAACT
*
49534917 AA--ACAAAAA-ATTAACCT
1 AATCACAAAAACATTAAACT
49534934 AATCACAAAAA
1 AATCACAAAAA
49534945 TTACAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (20 bp):
AATCACAAAAACATTAAACT
Found at i:49535029 original size:113 final size:114
Alignment explanation
Indices: 49534837--49535041 Score: 315
Period size: 113 Copynumber: 1.8 Consensus size: 114
49534827 AGGCTGTTAC
* *
49534837 ACAAAATTAATTAAAAATTAATTAAAAACTAATAAAAAAATTACATTCATAACCTAACAAATCAC
1 ACAAAATTAATTAAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
49534902 AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
66 AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
* * * * *
49534951 ACAAAA-TAAGTTTAAAATAAATTAAAAATTAAT-AAAAATTTATATTTATAACCGAACAAATCA
1 ACAAAATTAA-TTAAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCA
*
49535014 CAATAAACATTAAACTAAACAAATAATT
65 CAATAAACATTAAACTAAACAAAAAATT
49535042 TATAATAGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
113 56 0.68
114 26 0.32
ACGTcount: A:0.60, C:0.13, G:0.01, T:0.26
Consensus pattern (114 bp):
ACAAAATTAATTAAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
Found at i:49535070 original size:105 final size:108
Alignment explanation
Indices: 49534837--49535094 Score: 299
Period size: 113 Copynumber: 2.3 Consensus size: 108
49534827 AGGCTGTTAC
* * *
49534837 ACAAAATTAATTAAAAATTAATTAAAAACTAATAAAAAAATTACATTCATAACCTAACAAATCAC
1 ACAAAA-TAATTTAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
49534902 AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
65 AATAAACATTAAACTAAACAAAAAATT-A--TAAT--CAAAAATTACAA
* * * *
49534951 ACAAAATAAGTTTAAAATAAATTAAAAATTAAT-AAAAATTTATATTTATAACCGAACAAATCAC
1 ACAAAATAA-TTTAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
* * * *
49535015 AATAAACATTAAACTAAACAAATAATT-T-AT-AATAGTTACTA
65 AATAAACATTAAACTAAACAAAAAATTATAATCAAAAATTACAA
*
49535056 ACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAA
1 ACAAAATAA-TTTAAAATAAATTAAAAACTA-ATAAAAA
49535095 CAACAATAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
105 36 0.28
106 2 0.02
107 4 0.03
108 2 0.02
109 1 0.01
113 56 0.44
114 26 0.20
ACGTcount: A:0.61, C:0.12, G:0.01, T:0.26
Consensus pattern (108 bp):
ACAAAATAATTTAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCACA
ATAAACATTAAACTAAACAAAAAATTATAATCAAAAATTACAA
Found at i:49541720 original size:27 final size:27
Alignment explanation
Indices: 49541682--49542014 Score: 307
Period size: 27 Copynumber: 12.4 Consensus size: 27
49541672 GTGATAACAG
* **
49541682 TCATTTGACCCTATGGTTGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
49541709 TCATTCTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
49541736 TTATTTTACCCTATGGGGATATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
49541763 TCATTTTACCCTATGGGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * ** *
49541789 GTCATTCTACCATACAGAGGTATTTC-A
1 -TCATTTTACCCTATGGGGGTATTTCGA
* * * * *
49541816 GCCACTCTACCATATGGGGGTATTTCGG
1 -TCATTTTACCCTATGGGGGTATTTCGA
* *
49541844 TTATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
49541871 TCATTTTACCCTAT-GGGCTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
49541896 GTAATTTTACCCTATGAGGGTATTTCGG
1 -TCATTTTACCCTATGGGGGTATTTCGA
*
49541924 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* ** * *
49541951 TCATTTCACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
49541978 TTATTTTACTCTATGTGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
49542004 GTCATTTTACC
1 -TCATTTTACC
49542015 TATTTTGGGG
Statistics
Matches: 246, Mismatches: 54, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
25 1 0.00
26 23 0.09
27 222 0.90
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:49545535 original size:19 final size:19
Alignment explanation
Indices: 49545511--49545567 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
49545501 TACCCAATGC
49545511 ATAAAAGACATTCGTTCAA
1 ATAAAAGACATTCGTTCAA
*
49545530 AT-AAA-ACA-T-GTGC--
1 ATAAAAGACATTCGTTCAA
49545543 ATAAAAGACATTCGTTCAA
1 ATAAAAGACATTCGTTCAA
49545562 ATAAAA
1 ATAAAA
49545568 CATGTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 2 0.07
14 3 0.10
15 6 0.20
16 2 0.07
17 6 0.20
18 3 0.10
19 8 0.27
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (19 bp):
ATAAAAGACATTCGTTCAA
Found at i:49545549 original size:32 final size:32
Alignment explanation
Indices: 49545508--49545572 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
49545498 TTGTACCCAA
49545508 TGCATAAAAGACATTCGTTCAAATAAAACATG
1 TGCATAAAAGACATTCGTTCAAATAAAACATG
49545540 TGCATAAAAGACATTCGTTCAAATAAAACATG
1 TGCATAAAAGACATTCGTTCAAATAAAACATG
49545572 T
1 T
49545573 TTATAGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (32 bp):
TGCATAAAAGACATTCGTTCAAATAAAACATG
Found at i:49545975 original size:72 final size:72
Alignment explanation
Indices: 49545877--49546015 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
49545867 TTTATATATC
* *
49545877 TATATATATAATGTGGCTTGGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
1 TATATATATAACGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
49545942 AACCCAT
66 AACCCAT
* *
49545949 TATATATATAACGTGGCTTAGCCACTAATTCAGAGCAGATCACTTCCTCTTTCACAAATATCCTA
1 TATATATATAACGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
49546014 AA
66 AA
49546016 TTCATGCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (72 bp):
TATATATATAACGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
AACCCAT
Found at i:49547182 original size:36 final size:38
Alignment explanation
Indices: 49547142--49547234 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 38
49547132 TCAAGTATTG
* *
49547142 AAACAAGCAAAAAT-ATAA-AAGAAGAAGAAAAGAAAA
1 AAACAAGAAAAAATAAGAATAAGAAGAAGAAAAGAAAA
* *
49547178 AAACAAAGAAAAAATAAGAATAAGAATAAGAAAGGAAACA
1 AAAC-AAGAAAAAATAAGAATAAGAAGAAGAAAAGAAA-A
* *
49547218 AAA-AGGAAAAAAAAAGA
1 AAACAAGAAAAAATAAGA
49547235 TCATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
36 4 0.09
37 9 0.19
38 15 0.32
39 15 0.32
40 4 0.09
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.05
Consensus pattern (38 bp):
AAACAAGAAAAAATAAGAATAAGAAGAAGAAAAGAAAA
Found at i:49547243 original size:39 final size:39
Alignment explanation
Indices: 49547160--49547234 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
49547150 AAAAATATAA
* *
49547160 AAGAAGAAGAAAAGAAAAAAACAAAGAAAAAATAAGAAT
1 AAGAATAAGAAAAGAAAAAAACAAAGAAAAAAAAAGAAT
* * *
49547199 AAGAATAAGAAAGGAAACAAA-AAGGAAAAAAAAAGA
1 AAGAATAAGAAAAGAAAAAAACAAAGAAAAAAAAAGA
49547235 TCATAGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 13 0.42
39 18 0.58
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (39 bp):
AAGAATAAGAAAAGAAAAAAACAAAGAAAAAAAAAGAAT
Found at i:49554898 original size:12 final size:12
Alignment explanation
Indices: 49554806--49554898 Score: 65
Period size: 12 Copynumber: 7.8 Consensus size: 12
49554796 TAAAATAAAT
49554806 GAAAGAAAAAGA
1 GAAAGAAAAAGA
*
49554818 -ATAG-AAAA-A
1 GAAAGAAAAAGA
49554827 G-AAGAACAAAGTA
1 GAAAGAA-AAAG-A
*
49554840 GAACA-AAATAGA
1 GAA-AGAAAAAGA
49554852 G-AAGAAAACGAGA
1 GAAAGAAAA--AGA
49554865 GAAAGAAAAAGA
1 GAAAGAAAAAGA
49554877 GAAAGAAAAATGA
1 GAAAGAAAAA-GA
49554890 GAAA-AAAAA
1 GAAAGAAAAA
49554899 ATTAGGGTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
9 3 0.05
10 6 0.09
11 10 0.15
12 20 0.31
13 15 0.23
14 10 0.15
15 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.22, T:0.04
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:49563379 original size:22 final size:25
Alignment explanation
Indices: 49563353--49563406 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
49563343 TTAAAAATTC
49563353 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
49563375 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
49563400 AATTTAA
1 AATTTAA
49563407 TCAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:49568457 original size:18 final size:18
Alignment explanation
Indices: 49568426--49568460 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49568416 ACCATACATT
*
49568426 ATTGTGGACGAACCACTC
1 ATTGTGGACAAACCACTC
*
49568444 ATTGTGGATAAACCACT
1 ATTGTGGACAAACCACT
49568461 AGTGATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (18 bp):
ATTGTGGACAAACCACTC
Found at i:49568824 original size:34 final size:34
Alignment explanation
Indices: 49568763--49568827 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
49568753 CATTACGGTA
* *
49568763 GCAATCATTATGCTTATAATAGTTTGATTCAGTG
1 GCAATCATTATGCCTATAACAGTTTGATTCAGTG
*
49568797 GCAATTATTATGCCTATAACA-TATTGATTCA
1 GCAATCATTATGCCTATAACAGT-TTGATTCA
49568828 ATAGCAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (34 bp):
GCAATCATTATGCCTATAACAGTTTGATTCAGTG
Found at i:49569370 original size:8 final size:8
Alignment explanation
Indices: 49569357--49569384 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
49569347 GATTTTTAAA
49569357 TATTATTT
1 TATTATTT
49569365 TATTATTT
1 TATTATTT
49569373 TATTATTT
1 TATTATTT
49569381 TATT
1 TATT
49569385 GTTTAGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTATTT
Found at i:49575931 original size:19 final size:19
Alignment explanation
Indices: 49575907--49575944 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
49575897 CTCCATGACA
49575907 TTTTTAAGCAGGTTCTATT
1 TTTTTAAGCAGGTTCTATT
*
49575926 TTTTTAAGTAGGTTCTATT
1 TTTTTAAGCAGGTTCTATT
49575945 GTTGGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (19 bp):
TTTTTAAGCAGGTTCTATT
Found at i:49578438 original size:17 final size:18
Alignment explanation
Indices: 49578407--49578440 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49578397 GAATTTTGTG
*
49578407 TTTATGTTTTGAGGGTTC
1 TTTATGTTTTCAGGGTTC
49578425 TTTAT-TTTTCAGGGTT
1 TTTATGTTTTCAGGGTT
49578441 TAGTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.59
Consensus pattern (18 bp):
TTTATGTTTTCAGGGTTC
Found at i:49587868 original size:21 final size:21
Alignment explanation
Indices: 49587850--49587887 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
49587840 ATTTTAAACC
49587850 TTTTGTTA-ATT-TAAATAAA
1 TTTTGTTATATTATAAATAAA
49587869 TTTTGTTATATTATAAATA
1 TTTTGTTATATTATAAATA
49587888 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTGTTATATTATAAATAAA
Found at i:49587890 original size:19 final size:19
Alignment explanation
Indices: 49587850--49587895 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
49587840 ATTTTAAACC
49587850 TTTTGTTA-ATTTAAATAAA
1 TTTTGTTATATTTAAAT-AA
49587869 TTTTGTTATATTATAAAT-A
1 TTTTGTTATATT-TAAATAA
49587888 TTTT-TTAT
1 TTTTGTTAT
49587896 TTAAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.16
19 13 0.52
20 3 0.12
21 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTGTTATATTTAAATAA
Found at i:49587993 original size:21 final size:21
Alignment explanation
Indices: 49587969--49588013 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
49587959 TATATAAAAA
49587969 AAATTTTGA-ATTATAGA-ATTT
1 AAATTTT-ATATTATA-ATATTT
49587990 AAATTTTATATTATAATATTT
1 AAATTTTATATTATAATATTT
49588011 AAA
1 AAA
49588014 AAATGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
AAATTTTATATTATAATATTT
Found at i:49589025 original size:47 final size:47
Alignment explanation
Indices: 49588943--49589048 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
49588933 TTGCGGGAAA
* *
49588943 CTCAATTATGCATGATTGAAACTTATTAATGGATTCCACCTCCCTTT
1 CTCAATTATGCAAGATTGAAACTTATCAATGGATTCCACCTCCCTTT
* * *
49588990 CTCGATTTTGCAAGATTGAAACTTATCAATGGATTCCACTTCCCTTT
1 CTCAATTATGCAAGATTGAAACTTATCAATGGATTCCACCTCCCTTT
49589037 CTCAATTATGCA
1 CTCAATTATGCA
49589049 TGGAAACTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (47 bp):
CTCAATTATGCAAGATTGAAACTTATCAATGGATTCCACCTCCCTTT
Found at i:49597634 original size:47 final size:47
Alignment explanation
Indices: 49597583--49598135 Score: 880
Period size: 47 Copynumber: 11.7 Consensus size: 47
49597573 TTAGGATTCT
* * *
49597583 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
* *
49597630 ATGTGATGAATGTGAAAGTATATATATGTGATAAGACCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49597677 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49597724 ATGTGATGAATGTGAAACTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCG
49597773 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49597819 ATGTGATGAATGTGAAAGTGTATATATGTGATAA-G-CTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49597864 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49597911 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
49597960 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49598007 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
49598054 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
49598101 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49598136 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 24, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
44 5 0.01
45 38 0.08
46 40 0.08
47 298 0.63
49 93 0.20
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:49597925 original size:234 final size:236
Alignment explanation
Indices: 49597583--49598135 Score: 864
Period size: 234 Copynumber: 2.3 Consensus size: 236
49597573 TTAGGATTCT
* * * * *
49597583 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAAA
49597647 GTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
65 GTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
49597711 GGCCTAATGGCCGATGTGATGAATGTGAAACTGTATATATATGTGATAAGGCCTAATGGCCGATG
130 GGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATG
49597776 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCG
193 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
49597819 ATGTGATGAATGTGAAAGTGTATATATGTGATAA-G-CTAATAGCCGATGTGATAAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAAAG
* *
49597882 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
49597947 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
130 GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTG
49598012 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
195 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * * * * * * **
49598054 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAAAG
* *
49598119 TGTATAAATGTGATAAG
66 TATATATATGTGATAAG
49598136 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 18, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
234 144 0.49
235 38 0.13
236 74 0.25
237 37 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (236 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAAAG
TATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:49604258 original size:43 final size:43
Alignment explanation
Indices: 49604209--49604322 Score: 192
Period size: 43 Copynumber: 2.7 Consensus size: 43
49604199 AATCACCACA
* * *
49604209 AAAGATCATGTTCTTTAGCGGCATTTGTAGTAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
49604252 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
*
49604295 AAAGATAATGTTCTTTAGCGGCGTTTGT
1 AAAGATCATGTTCTTTAGCGGCGTTTGT
49604323 GGGACCACTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
Found at i:49606323 original size:29 final size:31
Alignment explanation
Indices: 49606284--49606352 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
49606274 CCACAATTAG
49606284 AGTTTCATGTATATAATTGC-ATTAAATCAA
1 AGTTTCATGTATATAATTGCAATTAAATCAA
49606314 AGTTT-ATGTATATAATTGCAGATTAAATCAA
1 AGTTTCATGTATATAATTGCA-ATTAAATCAA
49606345 AG-TTCATG
1 AGTTTCATG
49606353 CATAATTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 14 0.39
30 7 0.19
31 15 0.42
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (31 bp):
AGTTTCATGTATATAATTGCAATTAAATCAA
Found at i:49606357 original size:29 final size:28
Alignment explanation
Indices: 49606287--49606359 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
49606277 CAATTAGAGT
*
49606287 TTCATGTATATAATTGCATTAAATCAAAG
1 TTCATG-ACATAATTGCATTAAATCAAAG
* *
49606316 TTTATGTATATAATTGCAGATTAAATCAAAG
1 TTCATG-ACATAATTGC--ATTAAATCAAAG
49606347 TTCATG-CATAATT
1 TTCATGACATAATT
49606360 TGTTAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 22 0.56
31 17 0.44
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (28 bp):
TTCATGACATAATTGCATTAAATCAAAG
Found at i:49609325 original size:12 final size:12
Alignment explanation
Indices: 49609308--49609334 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49609298 TATATTTTAT
49609308 AAAGTTATATAA
1 AAAGTTATATAA
49609320 AAAGTTATATAA
1 AAAGTTATATAA
49609332 AAA
1 AAA
49609335 TTAGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
AAAGTTATATAA
Found at i:49609396 original size:29 final size:29
Alignment explanation
Indices: 49609355--49609426 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
49609345 TCAATAATTT
* *
49609355 TTTTATATTTTTTT-CTATATTTATACATA
1 TTTTATATTTTTTTACAATATTTATA-AAA
*
49609384 TTTTATATTTTTTTACAATTTTTATAAAA
1 TTTTATATTTTTTTACAATATTTATAAAA
49609413 TTTTACTATTTTTT
1 TTTTA-TATTTTTT
49609427 ATAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTATATTTTTTTACAATATTTATAAAA
Found at i:49609416 original size:19 final size:19
Alignment explanation
Indices: 49609394--49609487 Score: 73
Period size: 19 Copynumber: 4.8 Consensus size: 19
49609384 TTTTATATTT
49609394 TTTTACAATTTTTATAAAA
1 TTTTACAATTTTTATAAAA
*
49609413 TTTTACTATTTTTTATAAAAAA
1 TTTTAC-AATTTTTAT--AAAA
* * * **
49609435 ATTTATAATTTTTTTCTAA
1 TTTTACAATTTTTATAAAA
*
49609454 TTTTA-AATTTTTATTTAAA
1 TTTTACAATTTTTA-TAAAA
*
49609473 TTTAACAATTTTTAT
1 TTTTACAATTTTTAT
49609488 TGATTTTTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
18 7 0.12
19 20 0.34
20 16 0.28
21 7 0.12
22 8 0.14
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTACAATTTTTATAAAA
Found at i:49609439 original size:22 final size:20
Alignment explanation
Indices: 49609402--49609448 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
49609392 TTTTTTACAA
*
49609402 TTTTTATAAAATTTTACT-AT
1 TTTTTATAAAAATTTA-TAAT
49609422 TTTTTATAAAAAAATTTATAAT
1 TTTTTAT--AAAAATTTATAAT
49609444 TTTTT
1 TTTTT
49609449 TCTAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 1 0.04
22 15 0.65
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATAAAAATTTATAAT
Found at i:49609476 original size:18 final size:20
Alignment explanation
Indices: 49609433--49609488 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
49609423 TTTTATAAAA
*
49609433 AAATTTATAATTTTT-TTCT
1 AAATTTACAATTTTTATTCT
*
49609452 AATTTTA-AATTTTTATT-T
1 AAATTTACAATTTTTATTCT
49609470 AAATTTAACAATTTTTATT
1 AAATTT-ACAATTTTTATT
49609489 GATTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 13 0.41
19 9 0.28
20 10 0.31
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
AAATTTACAATTTTTATTCT
Found at i:49612427 original size:11 final size:11
Alignment explanation
Indices: 49612407--49612437 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49612397 TATTATCAAA
49612407 TTTTAACTTTT
1 TTTTAACTTTT
*
49612418 TTTTACCTTTT
1 TTTTAACTTTT
49612429 TTTTAACTT
1 TTTTAACTT
49612438 AAATTAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTAACTTTT
Found at i:49613548 original size:30 final size:30
Alignment explanation
Indices: 49613514--49613571 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
49613504 ACAAATCCTA
*
49613514 TCTCAATTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAAAC
49613544 TCTCAATTTCCTTCCAAAATCCTCTCAA
1 TCTCAATTTCCTTCCAAAATCCTCTCAA
49613572 TTTCCTTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.36
Consensus pattern (30 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAAAC
Found at i:49613568 original size:22 final size:22
Alignment explanation
Indices: 49613543--49613593 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
49613533 TTCTCTCAAA
49613543 CTCTCAATTTCCTTCC-AAAAT
1 CTCTCAATTTCCTTCCAAAAAT
49613564 CCTCTCAATTTCCTTCCAAAAAT
1 -CTCTCAATTTCCTTCCAAAAAT
49613587 CTCTCAA
1 CTCTCAA
49613594 ATCCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAAAT
Found at i:49613669 original size:32 final size:31
Alignment explanation
Indices: 49613628--49613693 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 31
49613618 TTCAATTTCA
49613628 TTTTTTAAAAATAATTTTAATTTTTTTTATAT
1 TTTTTTAAAAATAATTTTAA-TTTTTTTATAT
49613660 TTTTTTAAAAATAATTTTAATTTTTTTATAT
1 TTTTTTAAAAATAATTTTAATTTTTTTATAT
49613691 TTT
1 TTT
49613694 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.41
32 20 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTTTAAAAATAATTTTAATTTTTTTATAT
Found at i:49614923 original size:25 final size:25
Alignment explanation
Indices: 49614895--49614969 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
49614885 ATTTATACCT
49614895 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
*
49614920 GAATATATA--T-ATACAT--ATTC
1 GAATACATAGCTAATACATACATTC
49614940 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
49614965 GAATA
1 GAATA
49614970 TATATATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 12 0.28
22 7 0.16
23 7 0.16
25 17 0.40
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
GAATACATAGCTAATACATACATTC
Found at i:49614935 original size:18 final size:18
Alignment explanation
Indices: 49614912--49614980 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
49614902 TAGCTAATAC
49614912 ATACATTCGAATATATAT
1 ATACATTCGAATATATAT
49614930 ATACATATTCGAATACATAGCTAAT
1 ATAC--ATTCGAAT--ATA--T-AT
49614955 ACATACATTCGAATATATAT
1 --ATACATTCGAATATATAT
49614975 ATACAT
1 ATACAT
49614981 ATTCATCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
18 10 0.24
20 10 0.24
21 1 0.02
22 3 0.07
23 3 0.07
24 1 0.02
25 10 0.24
27 4 0.10
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (18 bp):
ATACATTCGAATATATAT
Found at i:49614941 original size:20 final size:20
Alignment explanation
Indices: 49614916--49614984 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
49614906 TAATACATAC
49614916 ATTCGAATATATATATACAT
1 ATTCGAATATATATATACAT
*
49614936 ATTCGAATACATAGCTAATACAT
1 ATTCGAATATATA--T-ATACAT
49614959 ACATTCGAATATATATATACAT
1 --ATTCGAATATATATATACAT
49614981 ATTC
1 ATTC
49614985 ATCATATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 16 0.38
22 7 0.17
23 7 0.17
25 12 0.29
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTCGAATATATATATACAT
Found at i:49614948 original size:45 final size:45
Alignment explanation
Indices: 49614895--49614984 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
49614885 ATTTATACCT
49614895 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
49614940 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
49614985 ATCATATACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (45 bp):
GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
Found at i:49615395 original size:41 final size:41
Alignment explanation
Indices: 49615334--49615437 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
49615324 ACCAGCTTTT
* * * *
49615334 AGCCTGCTAGACCTATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
* *
49615375 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
49615416 AGCCTGCTAGACGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTG
49615438 TATTACATTC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
Found at i:49617660 original size:7 final size:7
Alignment explanation
Indices: 49617648--49617680 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
49617638 AGTGGATTGA
49617648 TATTTAG
1 TATTTAG
49617655 TATTTAG
1 TATTTAG
49617662 TATTTAG
1 TATTTAG
49617669 TATTTAG
1 TATTTAG
49617676 TATTT
1 TATTT
49617681 TGTCTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (7 bp):
TATTTAG
Found at i:49618927 original size:30 final size:30
Alignment explanation
Indices: 49618891--49619188 Score: 295
Period size: 30 Copynumber: 9.7 Consensus size: 30
49618881 TAATTAAAAT
*
49618891 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
49618921 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
49618950 TCTAATTTAATT-AAAACCCTAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAA
** * **
49618985 CCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 -CCTAATTTAA-TT-A--AAAACCCTAAA-CCCTAA
*
49619021 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
49619050 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* ** *
49619080 CCCTGACCTAATTTAATTAA----AAACCCTAA
1 -CCTAATTTAA-TTAA-AAACCCTAAACCCTAA
49619109 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
49619139 CCTAATTTAATTAAAAACCATAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
49619169 CCTAATTTAATTAAAAACCC
1 CCTAATTTAATTAAAAACCC
49619189 CCAAACTTGT
Statistics
Matches: 222, Mismatches: 24, Indels: 44
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 15 0.07
29 53 0.24
30 88 0.40
31 13 0.06
32 4 0.02
33 3 0.01
34 2 0.01
35 17 0.08
36 13 0.06
37 2 0.01
41 6 0.03
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (30 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:49618955 original size:24 final size:23
Alignment explanation
Indices: 49618912--49618956 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
49618902 TAAAAACCCT
*
49618912 AAACACTAACCTAATTTAATTAA
1 AAACACTAACCTAATCTAATTAA
*
49618935 AAACCCTAACCCTAATCTAATT
1 AAACACTAA-CCTAATCTAATT
49618957 TAATTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
AAACACTAACCTAATCTAATTAA
Found at i:49618984 original size:59 final size:60
Alignment explanation
Indices: 49618892--49619188 Score: 329
Period size: 59 Copynumber: 4.8 Consensus size: 60
49618882 AATTAAAATC
*
49618892 CTAATTTAATTAAAAACCCTAAACACTAACCTAATTTAATTAAAAACCCT-AACCCTAAT
1 CTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAT
*
49618951 CTAATTTAATTAAAACCCTAAATCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAC
1 CTAATTTAATT--AA----AAACCCT-A----AACCCTAACCTAATTTAATTAAAAACCCTAAAC
49619016 CCTAA-
55 CCTAAT
*
49619021 CTTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACC
1 C-TAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA-T
* ** * *
49619082 CTGACCTAATTTAATTAA----AAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAA-TTAA-AAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAT
*
49619140 CTAATTTAATTAAAAACCATAAACCCTAACCTAATTTAATTAAAAACCC
1 CTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCC
49619189 CCAAACTTGT
Statistics
Matches: 205, Mismatches: 11, Indels: 43
0.79 0.04 0.17
Matches are distributed among these distances:
56 2 0.01
57 4 0.02
58 7 0.03
59 87 0.42
60 34 0.17
61 7 0.03
62 2 0.01
65 12 0.06
66 1 0.00
69 2 0.01
70 29 0.14
71 18 0.09
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (60 bp):
CTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAT
Found at i:49618996 original size:41 final size:42
Alignment explanation
Indices: 49618936--49619021 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 42
49618926 TTTAATTAAA
* *
49618936 AACCCTAACCCTAATCTAATTTAATT-AAAACCCTAAATCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
49618977 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
49619019 AAC
1 AAC
49619022 TTAATTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 25 0.60
42 17 0.40
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (42 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
Found at i:49619054 original size:70 final size:70
Alignment explanation
Indices: 49618906--49619051 Score: 224
Period size: 71 Copynumber: 2.1 Consensus size: 70
49618896 TTTAATTAAA
*
49618906 AACCCTAAACACTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAACCCTA
1 AACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAACCCTA
*
49618971 AATCCT
65 AACCCT
49618977 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA-CTTAATTTAATTAAAAACCC
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAATC-TAATTTAATT-AAAACCC
49619041 T-AACCCT
63 TAAACCCT
49619048 AACC
1 AACC
49619052 TAATTTAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
70 29 0.41
71 33 0.47
72 8 0.11
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.27
Consensus pattern (70 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAATTTAATTAAAACCCTAA
ACCCT
Found at i:49619059 original size:100 final size:98
Alignment explanation
Indices: 49618891--49619170 Score: 393
Period size: 100 Copynumber: 2.9 Consensus size: 98
49618881 TAATTAAAAT
*
49618891 CCTAATTTAATTAAAAACCCTAAACACTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAAT
1 CCTAATTTAATTAAAAACCCTAAAC-CTAA-CTAATTTAATTAAAAACCCTAACCCTAACCTAAT
49618956 TTAATT-AAAACCCTAAATCCTAACCCTAACCCTAA
64 TTAATTAAAAACCCTAAA-CCTAACCCTAACCCTAA
49618991 CCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCTAAA-CCTAAC-TAATTTAATTAAAAACCCTAACCCTAACCTAAT
*
49619056 TTAATTAAAAACCCT--A---AACCCTAACCCTGA
64 TTAATTAAAAACCCTAAACCTAACCCTAACCCTAA
49619086 CCTAATTTAATTAAAAACCCT-AA-C---CTAATTTAATTAAAAACCCTAAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAAACCTAACTAATTTAATTAAAAACCCT-AACCCTAACCTAATT
*
49619146 TAATTAAAAACCATAAACCCTAACC
65 TAATTAAAAACCCTAAA-CCTAACC
49619171 TAATTTAATT
Statistics
Matches: 167, Mismatches: 3, Indels: 25
0.86 0.02 0.13
Matches are distributed among these distances:
88 19 0.11
89 29 0.17
91 1 0.01
92 1 0.01
94 2 0.01
95 38 0.23
99 2 0.01
100 66 0.40
101 9 0.05
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (98 bp):
CCTAATTTAATTAAAAACCCTAAACCTAACTAATTTAATTAAAAACCCTAACCCTAACCTAATTT
AATTAAAAACCCTAAACCTAACCCTAACCCTAA
Found at i:49619111 original size:23 final size:23
Alignment explanation
Indices: 49619078--49619131 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
49619068 CCTAAACCCT
*
49619078 AACCCTGACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49619101 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49619124 AACCCTAA
1 AACCCTAA
49619132 ACCCTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:49620447 original size:123 final size:124
Alignment explanation
Indices: 49620227--49620505 Score: 517
Period size: 123 Copynumber: 2.3 Consensus size: 124
49620217 CCACGAGGGT
49620227 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
*
49620292 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCTTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
49620351 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TTATTTCTTACATGACCAATTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
49620415 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
*
49620474 GCGATTTTATACTATTTGAC-CAGAAATGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
49620506 CTCGAAATAA
Statistics
Matches: 152, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
123 114 0.75
124 38 0.25
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:49626158 original size:13 final size:13
Alignment explanation
Indices: 49626140--49626166 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49626130 CCAGATGATA
49626140 ATAAGGAGTATAT
1 ATAAGGAGTATAT
49626153 ATAAGGAGTATAT
1 ATAAGGAGTATAT
49626166 A
1 A
49626167 GTTAATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
ATAAGGAGTATAT
Found at i:49626549 original size:18 final size:18
Alignment explanation
Indices: 49626513--49626587 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 18
49626503 AGATAAGTAC
*
49626513 AAAAGTATAAAAACT-TTA
1 AAAATTATAAAAA-TATTA
49626531 AAAATTATAAAAATATTA
1 AAAATTATAAAAATATTA
*
49626549 ATAATCATT-TAAAAATTTTA
1 A-AA--ATTATAAAAATATTA
*
49626569 AATA-TATTAAAAA-ATTA
1 AAAATTA-TAAAAATATTA
49626586 AA
1 AA
49626588 TTTTAGTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
16 1 0.02
17 7 0.15
18 22 0.47
19 3 0.06
20 11 0.23
21 3 0.06
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTATAAAAATATTA
Found at i:49627758 original size:22 final size:21
Alignment explanation
Indices: 49627729--49627770 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
49627719 TTATTTTATA
**
49627729 ATTTTTAATTTTTTTAAAAAT
1 ATTTTTAATCATTTTAAAAAT
49627750 ATTTATTAATCATTTTAAAAA
1 ATTT-TTAATCATTTTAAAAA
49627771 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAATCATTTTAAAAAT
Found at i:49632103 original size:21 final size:21
Alignment explanation
Indices: 49632078--49632133 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
49632068 AATAGCGGTG
*
49632078 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
49632099 TCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
49632120 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
49632134 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:49632336 original size:29 final size:29
Alignment explanation
Indices: 49632301--49632452 Score: 216
Period size: 29 Copynumber: 5.2 Consensus size: 29
49632291 ATTCATTTAA
*
49632301 TAAAATACACTACATATATTTTTTATTTC
1 TAAAATACACTACATATATTTTTTATTTT
*
49632330 TAGAATACACTACATATATTTTTT-TATTT
1 TAAAATACACTACATATATTTTTTAT-TTT
*
49632359 GAAAATACACTACATATATTTTTTTATTTT
1 TAAAATACACTACATATA-TTTTTTATTTT
* *
49632389 TAAAATACACCACATGTATTTTTTATTTT
1 TAAAATACACTACATATATTTTTTATTTT
* *
49632418 TAAAATCCATTACATATATTTTTTATTTT
1 TAAAATACACTACATATATTTTTTATTTT
49632447 TAAAAT
1 TAAAAT
49632453 TTTAAATACA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
28 1 0.01
29 83 0.76
30 24 0.22
31 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAAATACACTACATATATTTTTTATTTT
Found at i:49632410 original size:59 final size:58
Alignment explanation
Indices: 49632302--49632452 Score: 214
Period size: 59 Copynumber: 2.6 Consensus size: 58
49632292 TTCATTTAAT
* * *
49632302 AAAATACACTACATATATTTTTTATTTCTAGAATACACTACATATATTTTTT-TATTTG
1 AAAATACACTACATATATTTTTTATTTTTAAAATACACCACATATATTTTTTAT-TTTG
* *
49632360 AAAATACACTACATATATTTTTTTATTTTTAAAATACACCACATGTATTTTTTATTTTT
1 AAAATACACTACATATA-TTTTTTATTTTTAAAATACACCACATATATTTTTTATTTTG
* *
49632419 AAAATCCATTACATATATTTTTTATTTTTAAAAT
1 AAAATACACTACATATATTTTTTATTTTTAAAAT
49632453 TTTAAATACA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
58 34 0.40
59 49 0.58
60 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (58 bp):
AAAATACACTACATATATTTTTTATTTTTAAAATACACCACATATATTTTTTATTTTG
Found at i:49634529 original size:11 final size:12
Alignment explanation
Indices: 49634513--49634547 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
49634503 AAGAAAAAAA
49634513 AAGAGAG-AGGG
1 AAGAGAGAAGGG
49634524 AAGAGAGAAGGG
1 AAGAGAGAAGGG
49634536 -AGAGAGAAGGG
1 AAGAGAGAAGGG
49634547 A
1 A
49634548 GGGGGAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:49635735 original size:88 final size:90
Alignment explanation
Indices: 49635628--49636135 Score: 464
Period size: 88 Copynumber: 5.8 Consensus size: 90
49635618 ACAGGGACAA
* * * *
49635628 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCA
1 GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
*
49635692 CTTC-CTATCAATATAGGAAGATAG
66 CTTCACTACCAATATAGGAAGATAG
* * * * * * *
49635716 GACCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
1 GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
* * * *
49635780 CTTCGCCACCAATATGGGAAGACAAG
66 CTTCACTACCAATATAGGAAGA-TAG
* * * * * *
49635806 G-TCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
* * * * *
49635868 CTTCAC-GCCAATACATGAAGACAA
66 CTTCACTACCAATATAGGAAGATAG
* * * * *
49635892 TATCTGCTTTCTGCGATCTACTTCGCCACCAATATTGGAAGACAAGATCTGC-ATCTTCGATCCA
1 GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
*
49635956 TTTC-CTACCAATATAGGAAGATAG
66 CTTCACTACCAATATAGGAAGATAG
* * * * * *
49635980 GATCAGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
* * * * *
49636044 CTTCGCCACCAATATGGGAAGACAA
66 CTTCACTACCAATATAGGAAGATAG
* * * * * * *
49636069 GATCTGC-ATTTTCGATCTATTTC-CTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
49636132 CTTC
66 CTTC
49636136 TTGCCCCGAG
Statistics
Matches: 333, Mismatches: 76, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
86 1 0.00
87 60 0.18
88 206 0.62
89 63 0.19
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (90 bp):
GATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCA
CTTCACTACCAATATAGGAAGATAG
Found at i:49635811 original size:132 final size:132
Alignment explanation
Indices: 49635623--49636135 Score: 873
Period size: 132 Copynumber: 3.9 Consensus size: 132
49635613 CAAATACAGG
* * * *
49635623 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
49635688 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
49635753 AA
131 AA
*
49635755 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGGTCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
49635820 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
49635885 AA
131 AA
* *
49635887 GACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATTGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
49635952 TCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
49636017 AA
131 AA
* *
49636019 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATTTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
49636084 TCTATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
66 TCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
49636136 TTGCCCCGAG
Statistics
Matches: 362, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 362 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:49636686 original size:135 final size:134
Alignment explanation
Indices: 49636145--49637212 Score: 1687
Period size: 134 Copynumber: 8.0 Consensus size: 134
49636135 CTTGCCCCGA
** * * * * **
49636145 GAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
* * *
49636210 CCTGCTTTGCTGCCAAATACAGGAAAGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
49636275 CAGG
131 CAGG
*
49636279 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
*
49636344 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCCATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
49636409 CAGG
131 CAGG
* * *
49636413 GAGATAAAGTTATCGGCTTCAGTGTACTCCACTGTAGTCAGGGAGGTAAAATCTGTCATCTTTGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
*
49636478 TCTGCTTCGCTGCCAAATACAGGATGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
49636543 CAGG
131 CAGG
* *
49636547 GAGATAGAGTTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTTG
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC-TTTG
49636612 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAAT
65 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAAT
49636677 ACAGG
130 ACAGG
* *
49636682 GAGATAGAGTTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTTG
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC-TTTG
*
49636747 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGTCAAAT
65 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAAT
49636812 ACAGG
130 ACAGG
*
49636817 GAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
* * * * *** * * ** *
49636882 TCTACTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
*
49636945 TAGG
131 CAGG
* *
49636949 GAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
*
49637014 TCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
49637079 CAGG
131 CAGG
* *
49637083 GAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
* *
49637148 TCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCGATCTACTT-CAC-GCC-AAT
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA-TTCCACTGCCAAAT
49637210 ACA
130 ACA
49637213 TGAATATAAG
Statistics
Matches: 870, Mismatches: 60, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
132 119 0.14
133 7 0.01
134 478 0.55
135 266 0.31
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGA
TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
CAGG
Found at i:49637226 original size:44 final size:46
Alignment explanation
Indices: 49636999--49637360 Score: 169
Period size: 44 Copynumber: 8.1 Consensus size: 46
49636989 GGGAGGTAAA
* * * *
49636999 ATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAG
1 ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * *
49637045 ATCTGCAATCTTCAATCTA-TTCCACTGCCAAATACAGGGAGA-TAG
1 ATCTGCAATCTTCGATCTACTT-CACTGCCAAATACAGGAAGACAAG
* ** * * * * * * ** *
49637090 AAT-TATC-GGCTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAA
1 -ATCT-GCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * * *
49637133 ATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAG
1 ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * *
49637179 ATCTGCAATCTTCGATCTACTTCAC-GCC-AATACATGAATATAAG
1 ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
** * ** * ** *
49637223 ATCTGCTTTCTTCGATCTACTTCGCCACC-AGTATGGGAAGATAAG
1 ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * * * * **
49637268 ATCTGC-ATCGTCAATCCACTTC-CTACC-AATATAGGAAGACCGG
1 ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* ** * *
49637311 ACCTGTTATCTTTGATCTACTTCAC-GCC-AATACATGAAGACAAG
1 ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
49637355 ATCTGC
1 ATCTGC
49637361 TTTAATGACT
Statistics
Matches: 234, Mismatches: 69, Indels: 28
0.71 0.21 0.08
Matches are distributed among these distances:
42 10 0.04
43 36 0.15
44 76 0.32
45 44 0.19
46 68 0.29
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (46 bp):
ATCTGCAATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
Found at i:49638854 original size:11 final size:10
Alignment explanation
Indices: 49638824--49638894 Score: 52
Period size: 11 Copynumber: 6.5 Consensus size: 10
49638814 CCAGTAGAGG
49638824 TTTTTCTTTT
1 TTTTTCTTTT
* **
49638834 ATTTGGTTTT
1 TTTTTCTTTT
49638844 TTTTTACTTTT
1 TTTTT-CTTTT
49638855 TATTTTCTCGTTT
1 T-TTTTCT--TTT
*
49638868 TTTTACCTTTT
1 TTTT-TCTTTT
49638879 TTTTGTCTTTT
1 TTTT-TCTTTT
49638890 TTTTT
1 TTTTT
49638895 GTCCTTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
10 11 0.23
11 23 0.49
12 7 0.15
13 6 0.13
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:49638855 original size:12 final size:11
Alignment explanation
Indices: 49638840--49638906 Score: 53
Period size: 11 Copynumber: 5.7 Consensus size: 11
49638830 TTTTATTTGG
*
49638840 TTTTTTTTTAC
1 TTTTTTTTTTC
49638851 TTTTTATTTTCTC
1 TTTTT-TTTT-TC
* **
49638864 GTTTTTTTACC
1 TTTTTTTTTTC
*
49638875 TTTTTTTTGTC
1 TTTTTTTTTTC
49638886 TTTTTTTTTGTCC
1 TTTTTTTTT-T-C
49638899 TTTTTTTT
1 TTTTTTTT
49638907 GCCTCCACTG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 22 0.50
12 8 0.18
13 14 0.32
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:49638858 original size:22 final size:23
Alignment explanation
Indices: 49638830--49638908 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
49638820 GAGGTTTTTC
*
49638830 TTTTATTTGGTTTTTTTTTA-CT
1 TTTTATTTGCTTTTTTTTTACCT
* *
49638852 TTTTATTTTCTCGTTTTTTTACCT
1 TTTTATTTGCT-TTTTTTTTACCT
*
49638876 TTTT-TTTGTCTTTTTTTTTGTCCT
1 TTTTATTTG-CTTTTTTTTT-ACCT
49638900 TTTT-TTTGC
1 TTTTATTTGC
49638909 CTCCACTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 9 0.19
23 19 0.40
24 19 0.40
ACGTcount: A:0.05, C:0.11, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTATTTGCTTTTTTTTTACCT
Found at i:49638872 original size:23 final size:22
Alignment explanation
Indices: 49638842--49638893 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
49638832 TTATTTGGTT
*
49638842 TTTTTTTACTTTTTATTTTCTCG
1 TTTTTTTACCTTTT-TTTTCTCG
* *
49638865 TTTTTTTACCTTTTTTTTGTCT
1 TTTTTTTACCTTTTTTTTCTCG
49638887 TTTTTTT
1 TTTTTTT
49638894 TGTCCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTTTTACCTTTTTTTTCTCG
Found at i:49638892 original size:24 final size:24
Alignment explanation
Indices: 49638840--49638907 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
49638830 TTTTATTTGG
49638840 TTTTTTTTTA-CTTTTTATTT-TCT
1 TTTTTTTTTACCTTTTT-TTTGTCT
**
49638863 CGTTTTTTTACCTTTTTTTTGTCT
1 TTTTTTTTTACCTTTTTTTTGTCT
49638887 TTTTTTTTGT-CCTTTTTTTTG
1 TTTTTTTT-TACCTTTTTTTTG
49638908 CCTCCACTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 11 0.29
24 26 0.68
25 1 0.03
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTACCTTTTTTTTGTCT
Found at i:49638907 original size:12 final size:12
Alignment explanation
Indices: 49638873--49638907 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
49638863 CGTTTTTTTA
49638873 CCTTTTTTTTGT
1 CCTTTTTTTTGT
*
49638885 CTTTTTTTTTGT
1 CCTTTTTTTTGT
49638897 CCTTTTTTTTG
1 CCTTTTTTTTG
49638908 CCTCCACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (12 bp):
CCTTTTTTTTGT
Found at i:49640296 original size:62 final size:62
Alignment explanation
Indices: 49640192--49640308 Score: 189
Period size: 62 Copynumber: 1.9 Consensus size: 62
49640182 GACGTACTTC
* *
49640192 TGGATTTTAGGAAATTTACTGTATGCAATGAAACGTAGTGTTGATGCATGAATGCGTATTTT
1 TGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATGCGTATTTT
* * *
49640254 TGGATTTTAGGAAATTTATTGCATGCGATGAAATGTAATGTTGATGCATGAATGC
1 TGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATGC
49640309 AAAAAAAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (62 bp):
TGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATGCGTATTTT
Found at i:49643285 original size:11 final size:12
Alignment explanation
Indices: 49643269--49643303 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
49643259 AAGAAAAAAA
49643269 AAGAGAG-AGGG
1 AAGAGAGAAGGG
49643280 AAGAGAGAAGGG
1 AAGAGAGAAGGG
49643292 -AGAGAGAAGGG
1 AAGAGAGAAGGG
49643303 A
1 A
49643304 GGGGGAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:49643924 original size:6 final size:6
Alignment explanation
Indices: 49643913--49643950 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
49643903 CGTTCCCTCC
49643913 TCCCAT TCCCAT TCCCAT TCCCAT TCCCATT TCCCAT T
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT T
49643951 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCAT
Found at i:49645298 original size:23 final size:23
Alignment explanation
Indices: 49645272--49645320 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
49645262 ATTATAAAAA
49645272 TAAT-ATATATTAAAT-CATTAATC
1 TAATAATA-ATTAAATACATT-ATC
49645295 TAATAATAATTAAATACATTATC
1 TAATAATAATTAAATACATTATC
49645318 TAA
1 TAA
49645321 AACCTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAATAATTAAATACATTATC
Found at i:49655493 original size:19 final size:20
Alignment explanation
Indices: 49655471--49655515 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
49655461 ATTTATATAC
*
49655471 ATATCAAACACA-ATTTCGA
1 ATATCAAACACATATTTCAA
* *
49655490 ATATTAATCACATATTTCAA
1 ATATCAAACACATATTTCAA
49655510 ATATCA
1 ATATCA
49655516 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATCAAACACATATTTCAA
Found at i:49664597 original size:21 final size:21
Alignment explanation
Indices: 49664571--49664611 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49664561 TGGGTGGATT
49664571 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
49664592 AGCTCTTATGAGCTTTTGTT
1 AGCTCTTACGAGCTTCTGTT
49664612 GGCGTATTCT
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:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:49668742 original size:46 final size:46
Alignment explanation
Indices: 49668689--49668890 Score: 251
Period size: 46 Copynumber: 4.3 Consensus size: 46
49668679 TGACAAGTGG
* *
49668689 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
** *
49668735 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
49668781 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* * **
49668833 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
49668879 AAAGTGATAAGT
1 AAAGTGATAAGT
49668891 GGCTACACTT
Statistics
Matches: 134, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
46 93 0.69
52 41 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
Found at i:49668838 original size:98 final size:98
Alignment explanation
Indices: 49668669--49668874 Score: 403
Period size: 98 Copynumber: 2.1 Consensus size: 98
49668659 TTTGAGTACT
49668669 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
*
49668734 CAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
49668767 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
49668832 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
49668865 TCTGATCAAG
1 TCTGATCAAG
49668875 AAACAAAGTG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 107 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:49668891 original size:46 final size:44
Alignment explanation
Indices: 49668787--49668965 Score: 156
Period size: 37 Copynumber: 4.3 Consensus size: 44
49668777 TGACAAGTGG
* * **
49668787 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAAAC
49668833 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAAAC
49668879 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAAAC
**
49668916 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAAAC
49668952 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
49668966 CATACGTAAG
Statistics
Matches: 121, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
35 7 0.06
36 7 0.06
37 53 0.44
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 48 0.40
47 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAAAC
Found at i:49668899 original size:37 final size:37
Alignment explanation
Indices: 49668855--49668963 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
49668845 GATAGCTTTA
49668855 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49668892 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
49668929 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49668964 ATCATACGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:49670292 original size:58 final size:58
Alignment explanation
Indices: 49670215--49670382 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
49670205 CATGTGAACA
49670215 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
49670274 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
49670330 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
49670381 TG
1 TG
49670383 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:49670324 original size:28 final size:28
Alignment explanation
Indices: 49670234--49670324 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
49670224 GTGATTCCGT
49670234 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
49670262 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
49670291 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
49670320 GTAAG
1 GTAAG
49670325 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:49670347 original size:49 final size:49
Alignment explanation
Indices: 49670275--49670417 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
49670265 AGTGATATGT
* *
49670275 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
49670324 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
49670373 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
49670418 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:49673613 original size:46 final size:46
Alignment explanation
Indices: 49673560--49673761 Score: 251
Period size: 46 Copynumber: 4.3 Consensus size: 46
49673550 TGACAAGTGG
* *
49673560 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
** *
49673606 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
49673652 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* * **
49673704 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
49673750 AAAGTGATAAGT
1 AAAGTGATAAGT
49673762 GGCTACACTT
Statistics
Matches: 134, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
46 93 0.69
52 41 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC
Found at i:49673709 original size:98 final size:98
Alignment explanation
Indices: 49673540--49673745 Score: 403
Period size: 98 Copynumber: 2.1 Consensus size: 98
49673530 TTTGAGTACT
49673540 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
*
49673605 CAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
49673638 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
49673703 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
49673736 TCTGATCAAG
1 TCTGATCAAG
49673746 AAACAAAGTG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 107 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
CAAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:49673762 original size:46 final size:44
Alignment explanation
Indices: 49673658--49673836 Score: 156
Period size: 37 Copynumber: 4.3 Consensus size: 44
49673648 TGACAAGTGG
* * **
49673658 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAAAC
49673704 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAAAC
49673750 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAAAC
**
49673787 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAAAC
49673823 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
49673837 CATACGTAAG
Statistics
Matches: 121, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
35 7 0.06
36 7 0.06
37 53 0.44
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 48 0.40
47 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAAAC
Found at i:49673770 original size:37 final size:37
Alignment explanation
Indices: 49673726--49673834 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
49673716 GATAGCTTTA
49673726 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49673763 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
49673800 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49673835 ATCATACGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:49683442 original size:4 final size:4
Alignment explanation
Indices: 49683433--49683466 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
49683423 CAGTACAAAC
49683433 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
49683467 TTGCAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:49688022 original size:19 final size:21
Alignment explanation
Indices: 49687979--49688023 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
49687969 TTACTTAAAT
*
49687979 TTATTTTAATTAAATAAATAA
1 TTATTTTAATGAAATAAATAA
49688000 -TATTTTAA-GAAATAAA-AA
1 TTATTTTAATGAAATAAATAA
49688018 TTATTT
1 TTATTT
49688024 GTTCAGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.09
19 12 0.55
20 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATTTTAATGAAATAAATAA
Found at i:49688918 original size:88 final size:86
Alignment explanation
Indices: 49688730--49688929 Score: 235
Period size: 86 Copynumber: 2.3 Consensus size: 86
49688720 AATTTTTTTC
* * * * *
49688730 AAAAAAAAGTAATTAAG--TCTTTTTTTTTTGCACTCAGTTGGGTACTTGAACTTTCAAAATGCA
1 AAAAAAAAGTAATTAAGCCCCTTCTTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
* *
49688793 TAAAAGGCCCTCAAACCTTTT
66 TAAAAGACCCTCAAACCTTTA
* ** * * *
49688814 CACCAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATTGGGTATTTAAACTTTCAAAATGCA
1 AAAAAAAAGTAATTAAGCCCCTTCTTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
49688879 TCAAAAAGACCCTCAAA-CTTTAA
66 T--AAAAGACCCTCAAACCTTT-A
49688902 AAAAAAAAGTAATTAAGCCCCTTCTTTT
1 AAAAAAAAGTAATTAAGCCCCTTCTTTT
49688930 ATTAAAAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
84 13 0.14
86 40 0.43
87 4 0.04
88 36 0.39
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (86 bp):
AAAAAAAAGTAATTAAGCCCCTTCTTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
TAAAAGACCCTCAAACCTTTA
Found at i:49688960 original size:11 final size:10
Alignment explanation
Indices: 49688932--49688983 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 10
49688922 CTTCTTTTAT
49688932 TAAAAAT-TA
1 TAAAAATATA
*
49688941 AAAAAATATA
1 TAAAAATATA
49688951 T-AAAATATA
1 TAAAAATATA
*
49688960 TAGAAATATA
1 TAAAAATATA
*
49688970 AAAAAAT-TA
1 TAAAAATATA
49688979 TAAAA
1 TAAAA
49688984 TTTTATAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 21 0.60
10 14 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
TAAAAATATA
Found at i:49689279 original size:29 final size:30
Alignment explanation
Indices: 49689189--49689280 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 30
49689179 GGGGTTGTTA
*
49689189 AATTTTTTATGATTTTT-TATAAAATTTAC
1 AATTTTTTATGATTTTTATATAAAATTTAT
* * *
49689218 AATTTTTTATGA-TTTTATAAAAAAATTCT
1 AATTTTTTATGATTTTTATATAAAATTTAT
49689247 -ATTTTTTAT-ATTTTTAT-TAAAATTTAAT
1 AATTTTTTATGATTTTTATATAAAATTT-AT
49689275 AATTTT
1 AATTTT
49689281 CTAAAATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.13
28 20 0.38
29 25 0.48
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
AATTTTTTATGATTTTTATATAAAATTTAT
Found at i:49689305 original size:17 final size:17
Alignment explanation
Indices: 49689255--49689305 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
49689245 CTATTTTTTA
49689255 TATT-TTTATTAAAATT
1 TATTATTTATTAAAATT
*
49689271 TAATAATTT-TCTAAAATT
1 T-ATTATTTAT-TAAAATT
*
49689289 TATTATTTATTATAATT
1 TATTATTTATTAAAATT
49689306 CTTTTCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.04
17 15 0.54
18 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTATTAAAATT
Found at i:49689434 original size:87 final size:89
Alignment explanation
Indices: 49689326--49689547 Score: 263
Period size: 88 Copynumber: 2.5 Consensus size: 89
49689316 TTTTAATAAG
* * *
49689326 AGTAGGGGCTTAATTACTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAGAGTTCAA
1 AGTAAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAA
49689391 GTACCCAATTGAGTG-AAAAAA-A
66 GTACCCAATTGAGTGCAAAAAAGA
* * * * **
49689413 AGTAAGGGCTTAATTGCTTTTTCTGAAGAAGTTTGAGGGCCTTTTTGATGTTTTTTGAAAGTTCA
1 AGTAAGGGCTTAATTACTTTTT-TGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCA
* * *
49689478 CGTGCTCAATTGAGTGCAAAAAAGA
65 AGTACCCAATTGAGTGCAAAAAAGA
* *
49689503 AG-GAGGGACTTAATTATTTTTCTTGAAAAAATTTGAGGGT-TTTTT
1 AGTAAGGG-CTTAATTACTTTT-TTGAAAAAATTTGAGGGTCTTTTT
49689548 ACTCCTTGAA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
87 20 0.18
88 49 0.43
89 15 0.13
90 28 0.25
91 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (89 bp):
AGTAAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAA
GTACCCAATTGAGTGCAAAAAAGA
Found at i:49692494 original size:2 final size:2
Alignment explanation
Indices: 49692487--49692514 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
49692477 GTGATACCCT
49692487 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
49692515 GTTAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:49694206 original size:60 final size:60
Alignment explanation
Indices: 49694024--49694206 Score: 185
Period size: 60 Copynumber: 3.1 Consensus size: 60
49694014 CTTTAGGATT
* * * * *
49694024 TTCAAGGACC-AAATTGGACCAAAAAAAAATTCAAGTCCCAATGTGGGAACATTTGCCAAA
1 TTCAAGG-CCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
* * * ** *
49694084 TTCAAGGTCTAACTT-GA-CCAAAAAAAGTTC-AGACCCCTATGTGGGAACAATTATTAAG
1 TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAG-CCCCAATGTGGGAACAATTACCAAA
** * *
49694142 TTCAAGGCCTAACTTGGACCCAAAAAATTTTCAAGCCCCAATGTGAGAAAAATTACCAAA
1 TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
49694202 TTCAA
1 TTCAA
49694207 ACCTCAAAAT
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
57 2 0.02
58 43 0.44
59 5 0.05
60 46 0.47
61 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (60 bp):
TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
Found at i:49696437 original size:17 final size:17
Alignment explanation
Indices: 49696415--49696456 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
49696405 ATTAATGAGG
49696415 CACACGGTCATATGTGA
1 CACACGGTCATATGTGA
49696432 CACACGGTCATATGTGA
1 CACACGGTCATATGTGA
49696449 CACACGGT
1 CACACGGT
49696457 TGTGTGACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (17 bp):
CACACGGTCATATGTGA
Found at i:49696462 original size:15 final size:16
Alignment explanation
Indices: 49696415--49696465 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
49696405 ATTAATGAGG
49696415 CACACGGTCATATGTGA
1 CACACGGT-ATATGTGA
49696432 CACACGGTCATATGTGA
1 CACACGGT-ATATGTGA
*
49696449 CACACGGT-TGTGTGA
1 CACACGGTATATGTGA
49696464 CA
1 CA
49696466 GCCCGTGCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 8 0.24
17 25 0.76
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (16 bp):
CACACGGTATATGTGA
Found at i:49703307 original size:18 final size:19
Alignment explanation
Indices: 49703261--49703313 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
49703251 AGTCTCAACC
*
49703261 AAAAT-TTTTTAAAATAATT
1 AAAATATTTTTAAAAT-ATA
49703280 AAAATAATTTTTAAAAT-TA
1 AAAAT-ATTTTTAAAATATA
*
49703299 AAAATATTTATAAAA
1 AAAATATTTTTAAAA
49703314 ATTCCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
21 10 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATTTTTAAAATATA
Found at i:49710793 original size:14 final size:15
Alignment explanation
Indices: 49710767--49710796 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49710757 TCAAAATATT
49710767 AAATAATTATGTTTA
1 AAATAATTATGTTTA
49710782 AAATAATT-TGTTTA
1 AAATAATTATGTTTA
49710796 A
1 A
49710797 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AAATAATTATGTTTA
Found at i:49712170 original size:14 final size:14
Alignment explanation
Indices: 49712151--49712178 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49712141 ATCACCGCGT
49712151 CAGTTTGGTTGGGC
1 CAGTTTGGTTGGGC
49712165 CAGTTTGGTTGGGC
1 CAGTTTGGTTGGGC
49712179 TAAATGACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.43, T:0.36
Consensus pattern (14 bp):
CAGTTTGGTTGGGC
Found at i:49717291 original size:14 final size:14
Alignment explanation
Indices: 49717272--49717303 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
49717262 TCCAATCACC
49717272 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
49717286 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
49717300 GGGC
1 GGGC
49717304 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:49718337 original size:92 final size:91
Alignment explanation
Indices: 49718236--49718497 Score: 272
Period size: 93 Copynumber: 2.8 Consensus size: 91
49718226 TCTTGACATT
* *
49718236 AGACTCAAGCCCATGTGCCCCAAAAATGGAATCAAATAACTAGTAATTTGTATAACTATTATGGA
1 AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAATTT-TATAACTATTATGGA
*
49718301 AAATTAAAAATATATTATTGCAATACC
65 AAATTAAAAATATATTATTGCAACACC
* * * * * * *
49718328 AGACTCAAGCCCAAGTGCTCCGAAAATAAAATAAAATAACTAGTAATTTTTTATAATTATTTTGA
1 AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAA--TTTTATAACTATTATGG
* * * * * **
49718393 AAAATTAAAAAGACATTGTTGTAGCATT
64 AAAATTAAAAATATATTATTGCAACACC
* * * * * * * *
49718421 AGACTGAATCCCAAGTGCCTCAAAAATGAAATCAAATAACTAATAATCTTATAACTAGTCTAGAA
1 AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAATTTTATAACTATTATGGAA
49718486 AATTAAAAATAT
66 AATTAAAAATAT
49718498 TTTTTAGCAC
Statistics
Matches: 135, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
91 23 0.17
92 40 0.30
93 69 0.51
94 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (91 bp):
AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAATTTTATAACTATTATGGAA
AATTAAAAATATATTATTGCAACACC
Found at i:49721087 original size:21 final size:21
Alignment explanation
Indices: 49721063--49721102 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49721053 AACATTTTAC
49721063 TACAAAATA-AAATAAAATTAA
1 TACAAAATAGAAA-AAAATTAA
*
49721084 TACAAAGTAGAAAAAAATT
1 TACAAAATAGAAAAAAATT
49721103 GGATAAGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
TACAAAATAGAAAAAAATTAA
Found at i:49721270 original size:6 final size:6
Alignment explanation
Indices: 49721259--49721285 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49721249 CTACATTTAT
49721259 ATCCCC ATCCCC ATCCCC ATCCCC ATC
1 ATCCCC ATCCCC ATCCCC ATCCCC ATC
49721286 TCATATCAAT
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:0.19, C:0.63, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCCCC
Found at i:49726038 original size:374 final size:374
Alignment explanation
Indices: 49725344--49726471 Score: 2202
Period size: 374 Copynumber: 3.0 Consensus size: 374
49725334 CGATACAATA
*
49725344 AGCCACATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
1 AGCCTCATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
49725409 GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
66 GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
49725474 GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAACATGTTTGGTTTGGGGAGAGTA
131 GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAACATGTTTGGTTTGGGGAGAGTA
49725539 TGAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
196 TGAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
49725604 TATTACGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGAGAGAACATAACAATTCCCTGTTCT
261 TATTACGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGAGAGAACATAACAATTCCCTGTTCT
49725669 TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
326 TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
49725718 AGCCTCATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
1 AGCCTCATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
49725783 GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
66 GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
49725848 GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAACATGTTTGGTTTGGGGAGAGTA
131 GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAACATGTTTGGTTTGGGGAGAGTA
*
49725913 TTAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
196 TGAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
* *
49725978 TATTATGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGCGAGAACATAACAATTCCCTGTTCT
261 TATTACGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGAGAGAACATAACAATTCCCTGTTCT
49726043 TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
326 TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
49726092 AGCCTCATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
1 AGCCTCATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
49726157 GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
66 GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
*
49726222 GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAAAATGTTTGGTTTGGGGAGAGTA
131 GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAACATGTTTGGTTTGGGGAGAGTA
49726287 TGAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
196 TGAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
*
49726352 TATTACGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGAGAGAACATAACAATTCCCTGTTTT
261 TATTACGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGAGAGAACATAACAATTCCCTGTTCT
49726417 TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
326 TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
49726466 AGCCTC
1 AGCCTC
49726472 CGTTACTTGC
Statistics
Matches: 745, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
374 745 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (374 bp):
AGCCTCATTTTCAACCTTTTTCTTTTACATTCCATCTCTCTTAAAGTTGCAAAACATAATGAAAA
GTATTGAACTCTTGATTACTCGTATACACCCAAAATACATGTAAATATATATGTAAATTGCAATT
GATCCAATTATAATATATATAATTCATACAACAAATCCCTTAACATGTTTGGTTTGGGGAGAGTA
TGAATGCATTATAGCTCAATTCAGCGGGCTATCACTAAACTATTGTTTGGTTCATTGTAATTGTC
TATTACGGCCCGTGTATGCATACGAGCTTAATTAGGGAAGAGAGAACATAACAATTCCCTGTTCT
TCCCACTGAATGGGTGATTCAGGGTGTGACTTGATATCCCCTCTCACTC
Found at i:49729638 original size:6 final size:6
Alignment explanation
Indices: 49729627--49729688 Score: 54
Period size: 6 Copynumber: 9.7 Consensus size: 6
49729617 TTTAGCATTT
**
49729627 TTTTAA TTTTAA TTTTAA TTTTAATA TTTTTGT TTTTAA -TTTAA TTGTTACA
1 TTTTAA TTTTAA TTTTAA TTTT-A-A -TTTTAA TTTTAA TTTTAA TT-TTA-A
49729679 TTTTAA TTTT
1 TTTTAA TTTT
49729689 TCTTTTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
6 26 0.57
7 7 0.15
8 4 0.09
9 4 0.09
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:49729655 original size:20 final size:20
Alignment explanation
Indices: 49729632--49729688 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
49729622 CATTTTTTTA
49729632 ATTTTAATTTTAATTTTAAT
1 ATTTTAATTTTAATTTTAAT
**
49729652 ATTTTTGTTTTTAA-TTTAAT
1 A-TTTTAATTTTAATTTTAAT
*
49729672 -TGTTACATTTTAATTTT
1 ATTTTA-ATTTTAATTTT
49729689 TCTTTTGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.10
19 6 0.21
20 10 0.34
21 10 0.34
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTAATTTTAATTTTAAT
Found at i:49729656 original size:26 final size:26
Alignment explanation
Indices: 49729626--49729688 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
49729616 ATTTAGCATT
*
49729626 TTTTTAATTTTAATTTTAATT-TTAATA
1 TTTTTAATTTTAA-TTTAATTGTT-ACA
**
49729653 TTTTTGTTTTTAATTTAATTGTTACA
1 TTTTTAATTTTAATTTAATTGTTACA
49729679 -TTTTAATTTT
1 TTTTTAATTTT
49729689 TCTTTTGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 8 0.27
26 9 0.30
27 13 0.43
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTTAATTTTAATTTAATTGTTACA
Found at i:49729689 original size:26 final size:27
Alignment explanation
Indices: 49729627--49729689 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
49729617 TTTAGCATTT
*
49729627 TTTTAA-TTTTAATTTTAATTTTAATA
1 TTTTAATTTTTAATTTTAATTTTAACA
**
49729653 TTTTTGTTTTTAA-TTTAATTGTT-ACA
1 TTTTAATTTTTAATTTTAATT-TTAACA
49729679 TTTTAATTTTT
1 TTTTAATTTTT
49729690 CTTTTGTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (27 bp):
TTTTAATTTTTAATTTTAATTTTAACA
Found at i:49732535 original size:14 final size:13
Alignment explanation
Indices: 49732512--49732544 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
49732502 TTTATTTCTT
49732512 AAAAAAATAAATA
1 AAAAAAATAAATA
49732525 AAAATAAATAAATA
1 AAAA-AAATAAATA
49732539 AAAAAA
1 AAAAAA
49732545 TGGTCAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAATAAATA
Done.