Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 54
Found at i:10062996 original size:15 final size:16
Alignment explanation
Indices: 10062976--10063005 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10062966 AATAATCAAG
10062976 TAAACTAAA-TAAAAT
1 TAAACTAAAGTAAAAT
10062991 TAAACTAAAGTAAAA
1 TAAACTAAAGTAAAA
10063006 GCAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAACTAAAGTAAAAT
Found at i:10068362 original size:17 final size:16
Alignment explanation
Indices: 10068336--10068367 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10068326 AAGAAATATT
10068336 TATTCAACATGCTTTA
1 TATTCAACATGCTTTA
10068352 TATTCCAACATGCTTT
1 TATT-CAACATGCTTT
10068368 CATTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (16 bp):
TATTCAACATGCTTTA
Found at i:10070674 original size:85 final size:85
Alignment explanation
Indices: 10070526--10070692 Score: 289
Period size: 85 Copynumber: 2.0 Consensus size: 85
10070516 TTGTAAGGTT
* *
10070526 CTTGTACAAAATCATAAACAACTAACATAAAAAATACATCTCATAGGTTACTCGTTAGAGCAATT
1 CTTGAACAAAATCATAAACAACTAACATAAAAAATACATCTCATAGGTTACTCGTTAGAGCAATA
10070591 GAATTCTCTCAAAATAAATA
66 GAATTCTCTCAAAATAAATA
* * *
10070611 CTTGAACAAAATCATAACCAACTGACATAAAAAATAGATCTCATAGGTTACTCGTTAGAGCAATA
1 CTTGAACAAAATCATAAACAACTAACATAAAAAATACATCTCATAGGTTACTCGTTAGAGCAATA
10070676 GAATTCTCTCAAAATAA
66 GAATTCTCTCAAAATAA
10070693 CAAATACATG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.27
Consensus pattern (85 bp):
CTTGAACAAAATCATAAACAACTAACATAAAAAATACATCTCATAGGTTACTCGTTAGAGCAATA
GAATTCTCTCAAAATAAATA
Found at i:10075140 original size:12 final size:11
Alignment explanation
Indices: 10075119--10075174 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
10075109 ACGAGATTCG
10075119 AAAATAAAGGGA
1 AAAATAAA-GGA
*
10075131 AAAATTAAGGA
1 AAAATAAAGGA
*
10075142 AAAAGAAATGGA
1 AAAATAAA-GGA
*
10075154 AAAATTAAGGA
1 AAAATAAAGGA
*
10075165 AAAAGAAAGG
1 AAAATAAAGG
10075175 GAGAAACTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 20 0.56
12 16 0.44
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (11 bp):
AAAATAAAGGA
Found at i:10075145 original size:23 final size:23
Alignment explanation
Indices: 10075119--10075176 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
10075109 ACGAGATTCG
*
10075119 AAAATAAAGGGAAAAATTAAGGA
1 AAAAGAAAGGGAAAAATTAAGGA
*
10075142 AAAAGAAATGGAAAAATTAAGGA
1 AAAAGAAAGGGAAAAATTAAGGA
10075165 AAAAGAAAGGGA
1 AAAAGAAAGGGA
10075177 GAAACTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (23 bp):
AAAAGAAAGGGAAAAATTAAGGA
Found at i:10075898 original size:10 final size:9
Alignment explanation
Indices: 10075878--10075930 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
10075868 TTTAATATTA
10075878 ATATTATAT
1 ATATTATAT
10075887 ATATTAATAT
1 ATATT-ATAT
10075897 ATATTTATAT
1 ATA-TTATAT
10075907 ATATGTATAT
1 ATAT-TATAT
*
10075917 -TATTTTAT
1 ATATTATAT
*
10075925 GTATTA
1 ATATTA
10075931 ATTATTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 4 0.11
9 13 0.34
10 19 0.50
11 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (9 bp):
ATATTATAT
Found at i:10075906 original size:20 final size:20
Alignment explanation
Indices: 10075881--10075940 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
10075871 AATATTAATA
10075881 TTATATATATTAATATATAT
1 TTATATATATTAATATATAT
10075901 TTATATATATGT-ATAT-TAT
1 TTATATATAT-TAATATATAT
*
10075920 TT-TATGTATTAAT-TAT-T
1 TTATATATATTAATATATAT
10075937 TTAT
1 TTAT
10075941 TTAAAGAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 5 0.14
18 10 0.29
19 5 0.14
20 14 0.40
21 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTATATATATTAATATATAT
Found at i:10079852 original size:22 final size:22
Alignment explanation
Indices: 10079827--10079870 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10079817 ATTCTTTTAT
10079827 TAGAATGAGGGAGAGTTTTGAC
1 TAGAATGAGGGAGAGTTTTGAC
10079849 TAGAATGAGGGAGAGTTTTGAC
1 TAGAATGAGGGAGAGTTTTGAC
10079871 GATAATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (22 bp):
TAGAATGAGGGAGAGTTTTGAC
Found at i:10079877 original size:22 final size:22
Alignment explanation
Indices: 10079828--10079877 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
10079818 TTCTTTTATT
*
10079828 AGAATGAGGGAGAGTTTTGACT
1 AGAATGAGGGAGAGTTTTGACG
10079850 AGAATGAGGGAGAGTTTTGACG
1 AGAATGAGGGAGAGTTTTGACG
*
10079872 ATAATG
1 AGAATG
10079878 CATACTCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.36, T:0.26
Consensus pattern (22 bp):
AGAATGAGGGAGAGTTTTGACG
Found at i:10082280 original size:19 final size:21
Alignment explanation
Indices: 10082258--10082299 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
10082248 CTCTTATTTT
10082258 TGCTATGATCTCT-A-ATCTC
1 TGCTATGATCTCTGATATCTC
*
10082277 TGCTATGATTTCTGATATCTC
1 TGCTATGATCTCTGATATCTC
10082298 TG
1 TG
10082300 TTTACTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (21 bp):
TGCTATGATCTCTGATATCTC
Found at i:10087991 original size:25 final size:23
Alignment explanation
Indices: 10087931--10087992 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
10087921 GCGACACCAT
*
10087931 TTTTTAAAA-ACTTCATCAAACA
1 TTTTTAAAATTCTTCATCAAACA
* *
10087953 TTCTTCAAAGTTCTTCCATCAAACA
1 TT-TTTAAAATTCTT-CATCAAACA
10087978 TCTTTTAAAATTCTT
1 T-TTTTAAAATTCTT
10087993 TCATTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.06
23 5 0.16
24 3 0.10
25 20 0.65
26 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (23 bp):
TTTTTAAAATTCTTCATCAAACA
Found at i:10094730 original size:2 final size:2
Alignment explanation
Indices: 10094723--10094751 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10094713 GTCCCTTTTA
10094723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10094752 CATTTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10106893 original size:18 final size:18
Alignment explanation
Indices: 10106865--10106923 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
10106855 GGGATTATTC
10106865 TTAGG-ATTTTATTTTCT
1 TTAGGTATTTTATTTTCT
* * *
10106882 TTAGGTATTTTAATCTCA
1 TTAGGTATTTTATTTTCT
*
10106900 TTAGGAATTTTATTTTCT
1 TTAGGTATTTTATTTTCT
10106918 TTAGGT
1 TTAGGT
10106924 TTTCTCAAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.22, C:0.07, G:0.14, T:0.58
Consensus pattern (18 bp):
TTAGGTATTTTATTTTCT
Found at i:10110919 original size:19 final size:20
Alignment explanation
Indices: 10110895--10110944 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
10110885 AACGATTTTC
*
10110895 TTTTGAAAAAGAAAATG-GA
1 TTTTGAAAAAGAAAATGAAA
**
10110914 TTTTGAAAATCAAAATGAAA
1 TTTTGAAAAAGAAAATGAAA
10110934 TTTTGAAAAAG
1 TTTTGAAAAAG
10110945 GATTTAGATC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.16, T:0.30
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATGAAA
Found at i:10112446 original size:20 final size:20
Alignment explanation
Indices: 10112421--10112468 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
10112411 TACATAGTAG
10112421 TATCGATACCGTGAGCATAC
1 TATCGATACCGTGAGCATAC
10112441 TATCGATACCGTGAGCATAC
1 TATCGATACCGTGAGCATAC
10112461 TATCGATA
1 TATCGATA
10112469 TTGGTCAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (20 bp):
TATCGATACCGTGAGCATAC
Found at i:10119508 original size:91 final size:89
Alignment explanation
Indices: 10119396--10119578 Score: 321
Period size: 91 Copynumber: 2.0 Consensus size: 89
10119386 TTTAATATTG
*
10119396 ATTTATGAAAAAACAATATTTAGTCTTTCACTTTCATTTTATAACTTGGTACCAAAGTGCTATAA
1 ATTTATGAAAAAAAAATATTTAGTCTTTCACTTTCATTTTATAACTTGGTACCAAAGTGCTATAA
*
10119461 AATGTGAAGCAGAGTCATCCTCAT
66 AATGTGAAGCAGAGTCATCCCCAT
10119485 ATTTATGGAAAAAAAAATTATTTAGTCTTTCACTTTCATTTTATAACTTGGTACCAAAGTGCTAT
1 ATTTAT-GAAAAAAAAA-TATTTAGTCTTTCACTTTCATTTTATAACTTGGTACCAAAGTGCTAT
*
10119550 AAAATTTGAAGCAGAGTCATCCCCAT
64 AAAATGTGAAGCAGAGTCATCCCCAT
10119576 ATT
1 ATT
10119579 GCCGACGAGT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
89 6 0.07
90 9 0.10
91 74 0.83
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (89 bp):
ATTTATGAAAAAAAAATATTTAGTCTTTCACTTTCATTTTATAACTTGGTACCAAAGTGCTATAA
AATGTGAAGCAGAGTCATCCCCAT
Found at i:10121518 original size:21 final size:21
Alignment explanation
Indices: 10121494--10121538 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10121484 AAATGACCGG
* *
10121494 ATTAACATAATATTTTAGGTA
1 ATTAACAGAAAATTTTAGGTA
* *
10121515 ATTACCGGAAAATTTTAGGTA
1 ATTAACAGAAAATTTTAGGTA
10121536 ATT
1 ATT
10121539 TTTACCAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (21 bp):
ATTAACAGAAAATTTTAGGTA
Found at i:10121935 original size:21 final size:20
Alignment explanation
Indices: 10121909--10121948 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10121899 AAATCCTACA
*
10121909 CACAAACCTCAAACTTTAAAT
1 CACAAA-CTCAAACCTTAAAT
10121930 CACAAACTCAAACCTTAAA
1 CACAAACTCAAACCTTAAA
10121949 CCCCAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (20 bp):
CACAAACTCAAACCTTAAAT
Found at i:10121955 original size:20 final size:21
Alignment explanation
Indices: 10121909--10121955 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
10121899 AAATCCTACA
* *
10121909 CACAAACCTCAAACTTTAAAT
1 CACAAACCTCAAACCTTAAAC
10121930 CACAAA-CTCAAACCTTAAAC
1 CACAAACCTCAAACCTTAAAC
*
10121950 CCCAAA
1 CACAAA
10121956 TAATACCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (21 bp):
CACAAACCTCAAACCTTAAAC
Found at i:10122898 original size:29 final size:29
Alignment explanation
Indices: 10122855--10122915 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
10122845 TTGTACTGTA
* *
10122855 AAATAATTCTGATTGATCATTATTCGAAC
1 AAATAATTCTAATTGATAATTATTCGAAC
*
10122884 AAATAATTCTAATTGATAATTATTCGAGC
1 AAATAATTCTAATTGATAATTATTCGAAC
10122913 AAA
1 AAA
10122916 ATTATTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (29 bp):
AAATAATTCTAATTGATAATTATTCGAAC
Found at i:10123780 original size:35 final size:35
Alignment explanation
Indices: 10123741--10123814 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
10123731 AAAACAGTCC
*
10123741 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
* *
10123776 TCAATTACATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
10123811 TCAA
1 TCAA
10123815 AATAATATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:10124930 original size:35 final size:35
Alignment explanation
Indices: 10124884--10124953 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
10124874 TATTTTTTTG
* *
10124884 ATTATTTTGGAATTTGGGGTTTAGAATGTAATTGA
1 ATTATTTTGGAATTTGGAGTTTAGAATGAAATTGA
10124919 ATTATTTTGGAATTTGGAGTTTAGAATGAAATTGA
1 ATTATTTTGGAATTTGGAGTTTAGAATGAAATTGA
10124954 GGACTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
ATTATTTTGGAATTTGGAGTTTAGAATGAAATTGA
Found at i:10128700 original size:110 final size:110
Alignment explanation
Indices: 10128507--10128731 Score: 450
Period size: 110 Copynumber: 2.0 Consensus size: 110
10128497 AGTAGTATCG
10128507 ATACCCTACTTGCAGTACTGATACCCTAGGGTCAAGTATTGATACCCCTAGGAGTATTGGTACCA
1 ATACCCTACTTGCAGTACTGATACCCTAGGGTCAAGTATTGATACCCCTAGGAGTATTGGTACCA
10128572 AAATTGGCTTATGTTGCTAAAAATGTGGCCTAGTATTGATACTCT
66 AAATTGGCTTATGTTGCTAAAAATGTGGCCTAGTATTGATACTCT
10128617 ATACCCTACTTGCAGTACTGATACCCTAGGGTCAAGTATTGATACCCCTAGGAGTATTGGTACCA
1 ATACCCTACTTGCAGTACTGATACCCTAGGGTCAAGTATTGATACCCCTAGGAGTATTGGTACCA
10128682 AAATTGGCTTATGTTGCTAAAAATGTGGCCTAGTATTGATACTCT
66 AAATTGGCTTATGTTGCTAAAAATGTGGCCTAGTATTGATACTCT
10128727 ATACC
1 ATACC
10128732 TTGAGTATCG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 115 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (110 bp):
ATACCCTACTTGCAGTACTGATACCCTAGGGTCAAGTATTGATACCCCTAGGAGTATTGGTACCA
AAATTGGCTTATGTTGCTAAAAATGTGGCCTAGTATTGATACTCT
Found at i:10128821 original size:54 final size:54
Alignment explanation
Indices: 10128739--10128848 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
10128729 ACCTTGAGTA
10128739 TCGATAGTGTCGGGGCAGTATCGATACTTCCAGTTGGAAATCCCTAATTTTTGT
1 TCGATAGTGTCGGGGCAGTATCGATACTTCCAGTTGGAAATCCCTAATTTTTGT
10128793 TCGATAGTGTCGGGGCAGTATCGATACTTCCAGTTGGAAATCCCTAATTTTTGT
1 TCGATAGTGTCGGGGCAGTATCGATACTTCCAGTTGGAAATCCCTAATTTTTGT
10128847 TC
1 TC
10128849 TAATTCATCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (54 bp):
TCGATAGTGTCGGGGCAGTATCGATACTTCCAGTTGGAAATCCCTAATTTTTGT
Found at i:10129807 original size:2 final size:2
Alignment explanation
Indices: 10129800--10129841 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10129790 TTTCTTAATA
10129800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10129842 CCGCATCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10134824 original size:7 final size:6
Alignment explanation
Indices: 10134796--10134833 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
10134786 TTTTGTTATT
10134796 TTTTAA TTTTAA TTTTAA TTTTAA GTTTTAAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA -TTTT-AA TTTTAA
10134834 ATTATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 20 0.67
7 8 0.27
8 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (6 bp):
TTTTAA
Found at i:10134834 original size:7 final size:7
Alignment explanation
Indices: 10134795--10134836 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
10134785 GTTTTGTTAT
*
10134795 TTTTTAA
1 TTTTAAA
10134802 TTTT-AA
1 TTTTAAA
10134808 TTTT-AA
1 TTTTAAA
*
10134814 TTTTAAG
1 TTTTAAA
10134821 TTTTAAA
1 TTTTAAA
10134828 TTTTAAA
1 TTTTAAA
10134835 TT
1 TT
10134837 ATTTTTACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:10159538 original size:7 final size:7
Alignment explanation
Indices: 10159528--10159560 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10159518 CTTTTTTCTT
10159528 TTTTTAA
1 TTTTTAA
10159535 TTTTTAA
1 TTTTTAA
10159542 TTTTTAA
1 TTTTTAA
10159549 TTTTTAA
1 TTTTTAA
10159556 TTTTT
1 TTTTT
10159561 TCTTTTGAAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:10159566 original size:21 final size:21
Alignment explanation
Indices: 10159528--10159572 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10159518 CTTTTTTCTT
*
10159528 TTTTTAATTTTTAATTTTTAA
1 TTTTTAATTTTTAATTTTGAA
**
10159549 TTTTTAATTTTTTCTTTTGAA
1 TTTTTAATTTTTAATTTTGAA
10159570 TTT
1 TTT
10159573 CTCTTTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTAATTTTTAATTTTGAA
Found at i:10174510 original size:66 final size:66
Alignment explanation
Indices: 10174433--10174605 Score: 235
Period size: 66 Copynumber: 2.7 Consensus size: 66
10174423 CAATACACAT
* * * * *
10174433 GGAGTGTATCGATGTACTCATTTAAAATAAATGAACATCGAATGCCATTAGTGCATTGATGCATA
1 GGAGTGCATCGATGCACTCATTTAAAATAAATGAACATCGAATGACATTAGTACATCGATGCATA
10174498 A
66 A
*
10174499 GGAGTGCATCGATGCACTCATTTAAAATAAATGAACATCGAATGACATTAGTATATCGATGCATA
1 GGAGTGCATCGATGCACTCATTTAAAATAAATGAACATCGAATGACATTAGTACATCGATGCATA
10174564 A
66 A
* * *
10174565 GAAGTGCATCGATGCAC-CTTATTAAAATACA--AACATCGAAT
1 GGAGTGCATCGATGCACTCAT-TTAAAATAAATGAACATCGAAT
10174606 AGGATTTATG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 10 0.10
65 2 0.02
66 85 0.88
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (66 bp):
GGAGTGCATCGATGCACTCATTTAAAATAAATGAACATCGAATGACATTAGTACATCGATGCATA
A
Found at i:10175221 original size:22 final size:22
Alignment explanation
Indices: 10175196--10175272 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
10175186 GGGTATATTA
*
10175196 GTCCTTCGGGTCGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
10175218 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
10175240 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
10175262 GTCCTTCGGGA
1 GTCCTTCGGGA
10175273 TAAATACTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:10182170 original size:22 final size:22
Alignment explanation
Indices: 10182141--10182215 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
10182131 TATATTAGTC
10182141 CTTT-GGGACGTATCCAGTGGT
1 CTTTCGGGACGTATCCAGTGGT
10182162 CTTTCGGGACGTATCCAGTGGT
1 CTTTCGGGACGTATCCAGTGGT
*
10182184 CTTTCGAGACGTATCCAGTGGT
1 CTTTCGGGACGTATCCAGTGGT
*
10182206 CCTTCGGGAC
1 CTTTCGGGAC
10182216 ATAGTGGTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
21 4 0.08
22 46 0.92
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.31
Consensus pattern (22 bp):
CTTTCGGGACGTATCCAGTGGT
Found at i:10182223 original size:18 final size:18
Alignment explanation
Indices: 10182200--10182252 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
10182190 AGACGTATCC
10182200 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
10182218 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
10182236 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
10182253 AATACTGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:10184413 original size:75 final size:74
Alignment explanation
Indices: 10184285--10184432 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 74
10184275 GAAGTGAATC
* * * *
10184285 CATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATTCGTCCTAAGCCTTCACCGAAAAAGTAGT
1 CATCCTAAGCCTTCACCAAAAAGTAGTGAAGCAAATCCATCCTAAGCCTTCACCG-AAAAGTAGT
10184350 GAAGCAAATT
65 GAAGCAAATT
* * *
10184360 CATCCTAAGCCTTCACCAAAAAGTAGTGAAGCAAATCCATCGTAAGCCTTCACCGAAGATTAGTG
1 CATCCTAAGCCTTCACCAAAAAGTAGTGAAGCAAATCCATCCTAAGCCTTCACCGAAAAGTAGTG
10184425 AAGCAAAT
66 AAGCAAAT
10184433 CCATTAGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
74 16 0.24
75 50 0.76
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (74 bp):
CATCCTAAGCCTTCACCAAAAAGTAGTGAAGCAAATCCATCCTAAGCCTTCACCGAAAAGTAGTG
AAGCAAATT
Found at i:10184433 original size:37 final size:37
Alignment explanation
Indices: 10184281--10184436 Score: 222
Period size: 37 Copynumber: 4.2 Consensus size: 37
10184271 TAAAGAAGTG
* *
10184281 AATCCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCA
1 AATCCATCCTAAGCCTTCACCAAAAAGTAGTGAAGCA
* *
10184318 AATTCGTCCTAAGCCTTCACCGAAAAAGTAGTGAAGCA
1 AATCCATCCTAAGCCTTCACC-AAAAAGTAGTGAAGCA
*
10184356 AATTCATCCTAAGCCTTCACCAAAAAGTAGTGAAGCA
1 AATCCATCCTAAGCCTTCACCAAAAAGTAGTGAAGCA
* * * *
10184393 AATCCATCGTAAGCCTTCACCGAAGATTAGTGAAGCA
1 AATCCATCCTAAGCCTTCACCAAAAAGTAGTGAAGCA
10184430 AATCCAT
1 AATCCAT
10184437 TAGTAAGTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 73 0.68
38 35 0.32
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (37 bp):
AATCCATCCTAAGCCTTCACCAAAAAGTAGTGAAGCA
Found at i:10184544 original size:13 final size:13
Alignment explanation
Indices: 10184526--10184550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10184516 TGAAGCAAAT
10184526 CCATCAGTAAGTG
1 CCATCAGTAAGTG
10184539 CCATCAGTAAGT
1 CCATCAGTAAGT
10184551 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:10184591 original size:93 final size:92
Alignment explanation
Indices: 10184396--10184595 Score: 249
Period size: 93 Copynumber: 2.2 Consensus size: 92
10184386 TGAAGCAAAT
* * *
10184396 CCATCGTAAGCCTTCACCGAAGATTAGTGAAGCAAATCCATTAGTAAGTTCCATCAGTAAGTCTT
1 CCATCGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCTT
* * * *
10184461 TCGAGCTTTATAATTAAATCATTCGGG
66 TCGAGCATGATAATGAAATCATTCAGG
** * *
10184488 TAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCT
1 CCA-TCGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCT
* *
10184553 TTCGAGCATGATGATGAAGTTC-TTCAGG
65 TTCGAGCATGATAATGAA-ATCATTCAGG
10184581 CCATCAGTAAGCCTT
1 CCATC-GTAAGCCTT
10184596 TCGAGCATGA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
92 2 0.02
93 85 0.96
94 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (92 bp):
CCATCGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCTT
TCGAGCATGATAATGAAATCATTCAGG
Found at i:10184597 original size:42 final size:41
Alignment explanation
Indices: 10184538--10184668 Score: 140
Period size: 42 Copynumber: 3.1 Consensus size: 41
10184528 ATCAGTAAGT
*
10184538 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTTCTTCAG
1 GCCATCAGTAAGCCTTTCGAGCATGATGAT-AAGTTCTTCAG
* *
10184580 GCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCAG
1 GCCATCAGTAAGCCTTTCGAGCATGATGA-TAAGTTCTTCAG
* ** * *
10184622 GTCATTTGTAAGTCC-TTCGAGCAAGATGATAAG-TCATTCGG
1 GCCATCAGTAAG-CCTTTCGAGCATGATGATAAGTTC-TTCAG
10184663 GCCATC
1 GCCATC
10184669 TATAAGTCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 11 0.15
42 59 0.80
43 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (41 bp):
GCCATCAGTAAGCCTTTCGAGCATGATGATAAGTTCTTCAG
Found at i:10185994 original size:53 final size:53
Alignment explanation
Indices: 10185187--10185975 Score: 1128
Period size: 53 Copynumber: 14.9 Consensus size: 53
10185177 AGAATCACAC
*
10185187 CAGAAGATTGTTTGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
10185240 CAGAAGATTGTTTGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCTTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
10185293 CAGAAGATTGTTCGAGTTCTACTCCTTGAAGAAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
10185346 CTGATGATTGTTCGAGTTATACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
10185399 CAGAAGATTGTTCGAGTTCTACTCCCTCAAGTAAGAGGGAGTGAACCCATAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * **
10185452 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCTATAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* ** * **
10185505 CTGAAGATTGTTCGAGTTCTACTCTATGAAGCAAGAGGGAGTGAATTCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* ** *
10185558 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGAAAGTGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * *
10185611 CTGAAGATTATTTGAGTTCTACTCCCTGAAGCAATAGAGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
10185664 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* **
10185717 CTGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAAAGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * **
10185770 CAGAAGATTGTTCAAGTTATACTCCCTGAAGCAAGAGGGATCGAACCCGTAAT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
*
10185823 CAGAAGATTGTTCCAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
10185876 CAGAAGATTGTTCGAGTTCTACTCCATGTAGCAAGAGAGATCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * **
10185929 TAGAAGATTGTTCGAGTTCCACTCCCTGAAGCAAGAAAGAGCGAACC
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACC
10185976 TGCTGGTCGA
Statistics
Matches: 654, Mismatches: 82, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 654 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:10197182 original size:21 final size:21
Alignment explanation
Indices: 10197143--10197227 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
10197133 CATGAAATGA
* * *
10197143 TTAAATCCTTTTATGAAAAGG
1 TTAAGTCCTTTCATCAAAAGG
* * *
10197164 TTAAGCCCTTTCATTAAAATG
1 TTAAGTCCTTTCATCAAAAGG
** * *
10197185 AGAAGTCTTTTAATCAAAAGG
1 TTAAGTCCTTTCATCAAAAGG
*
10197206 TTAAGTCCTTTCATCGAAAGG
1 TTAAGTCCTTTCATCAAAAGG
10197227 T
1 T
10197228 CTTAACCTTT
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAAGTCCTTTCATCAAAAGG
Found at i:10200727 original size:42 final size:42
Alignment explanation
Indices: 10200681--10200762 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
10200671 GAAAAAGATT
*
10200681 AAATCCTTTAATGAAAAGGTTCAGCCCTTTCATCAAAAGGAG
1 AAATCCTTTAATGAAAAGGTTAAGCCCTTTCATCAAAAGGAG
* * *
10200723 AAATCTTTTAATGAAAAGGTTAAGTCCTTTCATCGAAAGG
1 AAATCCTTTAATGAAAAGGTTAAGCCCTTTCATCAAAAGG
10200763 TCTTAACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (42 bp):
AAATCCTTTAATGAAAAGGTTAAGCCCTTTCATCAAAAGGAG
Found at i:10201888 original size:74 final size:74
Alignment explanation
Indices: 10201767--10201914 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
10201757 TTTGATTTAG
*
10201767 CTATTGATTTCTTAAATTTTTAAGTTGGATTTGAGTCTTTGGGGGTTATATATGCTTAAGGAAAA
1 CTATTGATTTCTTAAATTTTTAAGTTGGATTTGAGTCTTTGGGGGTTATATAAGCTTAAGGAAAA
10201832 CTTATATAA
66 CTTATATAA
10201841 CTATTGATTTCTTAAATTTTTAAGTTGGATTTGAGTCTTTGGGGGTTATATAAGCTTAAGGAAAA
1 CTATTGATTTCTTAAATTTTTAAGTTGGATTTGAGTCTTTGGGGGTTATATAAGCTTAAGGAAAA
10201906 CTTATATAA
66 CTTATATAA
10201915 GTTTAAAACA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (74 bp):
CTATTGATTTCTTAAATTTTTAAGTTGGATTTGAGTCTTTGGGGGTTATATAAGCTTAAGGAAAA
CTTATATAA
Found at i:10202439 original size:45 final size:45
Alignment explanation
Indices: 10202340--10202443 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
10202330 ATGTATAGGA
* *
10202340 AGTGCATCGATGCACCCATTAAAAATGGAAACATCGAATGCAATT
1 AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGCAATT
* **
10202385 AGTGCATCGATGCACCCCCTT-AAAATGAAAACATCGAAGGTGATT
1 AGTGCATCGATGCA-CCCATTAAAAATGAAAACATCGAAGGCAATT
* *
10202430 TGTGTATCGATGCA
1 AGTGCATCGATGCA
10202444 TGAGTAGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 46 0.90
46 5 0.10
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGCAATT
Found at i:10202478 original size:24 final size:24
Alignment explanation
Indices: 10202451--10202531 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
10202441 GCATGAGTAG
10202451 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTTAAAGAA
10202475 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTTAAAGAA
*
10202499 TGTATCGATGCAC-TG-T--AGAA
1 TGCATCGATGCACATGTTAAAGAA
*
10202519 TGCATCAATGCAC
1 TGCATCGATGCAC
10202532 TTCAAAGGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
20 15 0.28
22 1 0.02
23 2 0.04
24 36 0.67
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
TGCATCGATGCACATGTTAAAGAA
Found at i:10202856 original size:19 final size:19
Alignment explanation
Indices: 10202832--10202874 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
10202822 GTTATGAATT
10202832 ATATGTTATTGTAGGTATG
1 ATATGTTATTGTAGGTATG
*
10202851 ATATGTTGTTGTAGGTATG
1 ATATGTTATTGTAGGTATG
10202870 ATATG
1 ATATG
10202875 ACTTGTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (19 bp):
ATATGTTATTGTAGGTATG
Found at i:10206627 original size:20 final size:20
Alignment explanation
Indices: 10206602--10206639 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10206592 CACATGTTAA
10206602 AGAATGCATCAATGCACTAT
1 AGAATGCATCAATGCACTAT
*
10206622 AGAATGCATCGATGCACT
1 AGAATGCATCAATGCACT
10206640 TCAAAGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AGAATGCATCAATGCACTAT
Found at i:10211225 original size:24 final size:24
Alignment explanation
Indices: 10211192--10211247 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
10211182 AAGTTATTTC
* *
10211192 TTTTC-TTTTC-TTTTCTTTTCAGG
1 TTTTCATTTTCATTTTATTTT-AAG
10211215 TTTTCATTTTCATTTTATTTTAAG
1 TTTTCATTTTCATTTTATTTTAAG
10211239 TTTT-ATTTT
1 TTTTCATTTT
10211248 TAAACGTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.34
24 11 0.38
25 8 0.28
ACGTcount: A:0.12, C:0.11, G:0.05, T:0.71
Consensus pattern (24 bp):
TTTTCATTTTCATTTTATTTTAAG
Found at i:10218297 original size:13 final size:13
Alignment explanation
Indices: 10218279--10218329 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
10218269 TATAAAAACA
10218279 AAACAATTCAAAT
1 AAACAATTCAAAT
* *
10218292 AGACAAAT-ATAAT
1 AAACAATTCA-AAT
10218305 GACAACAATTCAAAT
1 -A-AACAATTCAAAT
10218320 AAACAATTCA
1 AAACAATTCA
10218330 TATATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 1 0.03
13 18 0.60
14 2 0.07
15 8 0.27
16 1 0.03
ACGTcount: A:0.59, C:0.16, G:0.04, T:0.22
Consensus pattern (13 bp):
AAACAATTCAAAT
Found at i:10218336 original size:2 final size:2
Alignment explanation
Indices: 10218329--10218361 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10218319 TAAACAATTC
10218329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10218362 ATAATTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10226262 original size:21 final size:22
Alignment explanation
Indices: 10226236--10226291 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
10226226 TTTAGGATAG
10226236 AAGTATTGATACTCATA-CAAT
1 AAGTATTGATACTCATAGCAAT
*
10226257 AAGTATCGATACT-ATAGGCAAT
1 AAGTATTGATACTCATA-GCAAT
10226279 --GTATTGATACTCA
1 AAGTATTGATACTCA
10226292 CAGGGTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 13 0.43
21 13 0.43
22 4 0.13
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
AAGTATTGATACTCATAGCAAT
Found at i:10230725 original size:18 final size:18
Alignment explanation
Indices: 10230674--10230716 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
10230664 TAATTTAAAC
* *
10230674 TATAATAAAAATATA-AT
1 TATAATAATAATATATTT
10230691 TATAATAATAATATATTT
1 TATAATAATAATATATTT
10230709 TATAATAA
1 TATAATAA
10230717 CTCATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAATAATAATATATTT
Found at i:10230794 original size:19 final size:19
Alignment explanation
Indices: 10230761--10230805 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
10230751 TTTTATTTAC
10230761 TTTTAAGTAATTAAAATAAT
1 TTTTAAGTAATTAAAAT-AT
* *
10230781 TTTTAATTAA-TAAACTAT
1 TTTTAAGTAATTAAAATAT
10230799 TTTTAAG
1 TTTTAAG
10230806 GATGTTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 9 0.41
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TTTTAAGTAATTAAAATAT
Found at i:10232050 original size:22 final size:22
Alignment explanation
Indices: 10232024--10232068 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10232014 GAGGTCCCTG
10232024 ATATAAGAC-CTAAATATCAAAT
1 ATATAA-ACACTAAATATCAAAT
* *
10232046 ATATAAACATTTAATATCAAAT
1 ATATAAACACTAAATATCAAAT
10232068 A
1 A
10232069 ATTGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAACACTAAATATCAAAT
Found at i:10232976 original size:17 final size:17
Alignment explanation
Indices: 10232956--10232991 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10232946 AAGTATTCTT
10232956 CCTCCAACAATATTCCC
1 CCTCCAACAATATTCCC
10232973 CCTCCAACAATATTCCC
1 CCTCCAACAATATTCCC
10232990 CC
1 CC
10232992 CAATGTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.50, G:0.00, T:0.22
Consensus pattern (17 bp):
CCTCCAACAATATTCCC
Found at i:10233899 original size:29 final size:29
Alignment explanation
Indices: 10233866--10234014 Score: 119
Period size: 29 Copynumber: 5.2 Consensus size: 29
10233856 TTTACACATT
10233866 TATCACCATTTTCAAAAAAAATT-CCAAAA
1 TATCACCATTTTC-AAAAAAATTACCAAAA
** * * *
10233895 TATCACTTTTTTTTAAAACAATTACGAAAA
1 TATCAC-CATTTTCAAAAAAATTACCAAAA
* * *
10233925 TATCA-C-TTTT--TAAAACTTACAAAAA
1 TATCACCATTTTCAAAAAAATTACCAAAA
* * *
10233950 TAGCACCATTTTCAAAATAATTACCAGAA
1 TATCACCATTTTCAAAAAAATTACCAAAA
* * *
10233979 TACCACCATTTTCAAAATAATTACTAAAA
1 TATCACCATTTTCAAAAAAATTACCAAAA
10234008 TATCACC
1 TATCACC
10234015 TGGTCAACGG
Statistics
Matches: 94, Mismatches: 20, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
25 15 0.16
26 1 0.01
27 8 0.09
29 56 0.60
30 14 0.15
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.32
Consensus pattern (29 bp):
TATCACCATTTTCAAAAAAATTACCAAAA
Found at i:10234046 original size:18 final size:18
Alignment explanation
Indices: 10234023--10234057 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10234013 CCTGGTCAAC
10234023 GGTCAACGGGTCAGGTCA
1 GGTCAACGGGTCAGGTCA
*
10234041 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCAGGTC
10234058 GGGTTGGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCAGGTCA
Found at i:10240644 original size:160 final size:152
Alignment explanation
Indices: 10240372--10240685 Score: 450
Period size: 160 Copynumber: 2.0 Consensus size: 152
10240362 TATAGTGTTG
* *
10240372 ATTTTGATGTAAACCCTAATTGGGGTCCTTCAAATAGTTTACCTTTTTGTAAGCTCAGAGGCGGC
1 ATTTTGATGCAAACCCTAATTGGGGTCATTCAAATAGTTTACCTTTTTGTAAGCTCAGAGGCGGC
* * *
10240437 TTACTTTTCTATTTATTTCTGTTTTAAGTAATTTACAGTCTCTTAGTTGTTTTTCTGTTTTTTTT
66 TTACTTTTC---TTATGTCTGTTTTAAGTAATTTACAGTCTCTTAGTTGTTTTTCTATTTTCTTT
10240502 TTATAATATGCAGTACGTGGTGGTC
128 TTATAATATGCAGTACGTGGTGGTC
10240527 ATTTTGATGCAAACCCTAATTGGGGTTCATTCAAATAGTTTACCTTTTTTTAAGCTCAGAGCCTC
1 ATTTTGATGCAAACCCTAATTGGGG-TCATTCAAATAGTTTACC--TTTTT--G-T-A-AG-CTC
*
10240592 AGAGGCGGCTTACTTTTC-TGTGTCTGTTTTAAGTAATTTACAGTCTCTTAGTTGTTTTTCTATT
57 AGAGGCGGCTTACTTTTCTTATGTCTGTTTTAAGTAATTTACAGTCTCTTAGTTGTTTTTCTATT
*
10240656 TTCTTTTTATAATATGCAGTCCGTGGTGGT
122 TTCTTTTTATAATATGCAGTACGTGGTGGT
10240686 GGTGGTGGTG
Statistics
Matches: 143, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
155 24 0.17
156 17 0.12
158 5 0.03
160 72 0.50
161 1 0.01
162 1 0.01
163 2 0.01
164 21 0.15
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (152 bp):
ATTTTGATGCAAACCCTAATTGGGGTCATTCAAATAGTTTACCTTTTTGTAAGCTCAGAGGCGGC
TTACTTTTCTTATGTCTGTTTTAAGTAATTTACAGTCTCTTAGTTGTTTTTCTATTTTCTTTTTA
TAATATGCAGTACGTGGTGGTC
Found at i:10240686 original size:3 final size:3
Alignment explanation
Indices: 10240678--10240711 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10240668 TATGCAGTCC
10240678 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
10240712 GTTTAGGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:10249126 original size:93 final size:94
Alignment explanation
Indices: 10248966--10249152 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 94
10248956 TGTGTACGTG
10248966 ATGTACAACGCCCAAGAAATTTGAAAGCTGGATCCAAAATCCAGGAAATGCAAATTCTTGGGGTA
1 ATGTACAACGCCCAAGAAATTTGAAAGCTGGATCCAAAATCCAGGAAATGCAAATTCTTGGGGTA
10249031 TACTGAAGGAGTAAAGGGATATCGCTTGT
66 TACTGAAGGAGTAAAGGGATATCGCTTGT
10249060 ATGTACAACGCCCAAG-AATTTGAAAGCTGGATCCAAAATCCAGGAAATGCAAATTCTTGGGGTA
1 ATGTACAACGCCCAAGAAATTTGAAAGCTGGATCCAAAATCCAGGAAATGCAAATTCTTGGGGTA
10249124 TACTGAAGGAGTAAAGGGATATCGCTTGT
66 TACTGAAGGAGTAAAGGGATATCGCTTGT
10249153 GGGATCCCAC
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 77 0.83
94 16 0.17
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (94 bp):
ATGTACAACGCCCAAGAAATTTGAAAGCTGGATCCAAAATCCAGGAAATGCAAATTCTTGGGGTA
TACTGAAGGAGTAAAGGGATATCGCTTGT
Found at i:10252184 original size:19 final size:19
Alignment explanation
Indices: 10252160--10252197 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10252150 TGTTAACGTG
10252160 AGATTATAGTTAATATTTA
1 AGATTATAGTTAATATTTA
*
10252179 AGATTATGGTTAATATTTA
1 AGATTATAGTTAATATTTA
10252198 GGGTTATGTT
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:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (19 bp):
AGATTATAGTTAATATTTA
Found at i:10252204 original size:19 final size:18
Alignment explanation
Indices: 10252160--10252209 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
10252150 TGTTAACGTG
10252160 AGATTATAGTTAATATTTA
1 AGATTAT-GTTAATATTTA
10252179 AGATTATGGTTAATATTTA
1 AGATTAT-GTTAATATTTA
* *
10252198 GGGTTATGTTAA
1 AGATTATGTTAA
10252210 CAAACAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (18 bp):
AGATTATGTTAATATTTA
Found at i:10252757 original size:43 final size:43
Alignment explanation
Indices: 10252691--10252775 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
10252681 ATTGATGACA
10252691 CTAACAGTTTTAATCATACTATAGGATACTTTTTGAACAATTT
1 CTAACAGTTTTAATCATACTATAGGATACTTTTTGAACAATTT
*
10252734 CTAATAGTTTTAATCATACTATAGGATACTTTTTGAACAATT
1 CTAACAGTTTTAATCATACTATAGGATACTTTTTGAACAATT
10252776 AATAAATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (43 bp):
CTAACAGTTTTAATCATACTATAGGATACTTTTTGAACAATTT
Found at i:10254640 original size:37 final size:37
Alignment explanation
Indices: 10254585--10254684 Score: 157
Period size: 37 Copynumber: 2.7 Consensus size: 37
10254575 TAAGTATTTG
10254585 AATAACTTATTATACATTTTAGTTGGCTGCTTGGTTA
1 AATAACTTATTATACATTTTAGTTGGCTGCTTGGTTA
* * *
10254622 AATAGCTTATTATGCATTTTAGTTGGCTGCTTGGTTG
1 AATAACTTATTATACATTTTAGTTGGCTGCTTGGTTA
*
10254659 AACAACTTATTATACATTTTA-TTGGC
1 AATAACTTATTATACATTTTAGTTGGC
10254685 GTAAATTAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 5 0.09
37 52 0.91
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (37 bp):
AATAACTTATTATACATTTTAGTTGGCTGCTTGGTTA
Found at i:10257815 original size:16 final size:16
Alignment explanation
Indices: 10257790--10257822 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10257780 TACCGGGTGC
10257790 TTAATAATTCAGAATG
1 TTAATAATTCAGAATG
*
10257806 TTAATGATTCAGAATG
1 TTAATAATTCAGAATG
10257822 T
1 T
10257823 ACTTTAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (16 bp):
TTAATAATTCAGAATG
Found at i:10265871 original size:206 final size:208
Alignment explanation
Indices: 10265516--10265929 Score: 814
Period size: 206 Copynumber: 2.0 Consensus size: 208
10265506 GAACCTAAGT
10265516 TATTACATGATAGGGTTATAATCAGAATAATAATCTAAATTAAATATTAACAGGATTACAAACTA
1 TATTACATGATAGGGTTATAATCAGAATAATAATCTAAATTAAATATTAACAGGATTACAAACTA
10265581 TACAAGTATTCACGGGCTCTCACGGATGAGAGGATTGGGAGGAACTGGGTCAAGTAGGCAAACGG
66 TACAAGTATTCACGGGCTCTCACGGATGAGAGGATTGGGAGGAACTGGGTCAAGTAGGCAAACGG
10265646 TTAGCAGATCCACGAGTACCTTAAATATTTGATAACATTAATAAGTCTTTGACCCTTCAGC-AAA
131 TTAGCAGATCCACGAGTACCTTAAATATTTGATAACATTAATAAGTCTTTGACCCTTCAGCAAAA
10265710 TTTTATGCACTGA
196 TTTTATGCACTGA
10265723 TATTACATGATAGGGTTATAATCAGAATAATAATCT-AATTAAATATTAACAGGATTACAAACTA
1 TATTACATGATAGGGTTATAATCAGAATAATAATCTAAATTAAATATTAACAGGATTACAAACTA
10265787 TACAAGTATTCACGGGCTCTCACGGATGAGAGGATTGGGAGGAACTGGGTCAAGTAGGCAAACGG
66 TACAAGTATTCACGGGCTCTCACGGATGAGAGGATTGGGAGGAACTGGGTCAAGTAGGCAAACGG
10265852 TTAGCAGATCCACGAGTACCTTAAATATTTGATAACATTAATAAGTCTTTGACCCTTCAGCAAAA
131 TTAGCAGATCCACGAGTACCTTAAATATTTGATAACATTAATAAGTCTTTGACCCTTCAGCAAAA
10265917 TTTTATGCACTGA
196 TTTTATGCACTGA
10265930 AATAAATACT
Statistics
Matches: 206, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
206 154 0.75
207 52 0.25
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (208 bp):
TATTACATGATAGGGTTATAATCAGAATAATAATCTAAATTAAATATTAACAGGATTACAAACTA
TACAAGTATTCACGGGCTCTCACGGATGAGAGGATTGGGAGGAACTGGGTCAAGTAGGCAAACGG
TTAGCAGATCCACGAGTACCTTAAATATTTGATAACATTAATAAGTCTTTGACCCTTCAGCAAAA
TTTTATGCACTGA
Found at i:10266129 original size:19 final size:19
Alignment explanation
Indices: 10266105--10266145 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
10266095 AGTCAACTCT
*
10266105 GGTCAAAGTCAACGGGTCA
1 GGTCAAAGTCAACGAGTCA
10266124 GGTCAAAGTCAACGAGTCA
1 GGTCAAAGTCAACGAGTCA
10266143 GGT
1 GGT
10266146 TGGGTTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.17
Consensus pattern (19 bp):
GGTCAAAGTCAACGAGTCA
Found at i:10269280 original size:30 final size:30
Alignment explanation
Indices: 10269239--10269299 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
10269229 TTCATCGAGT
*
10269239 AGTGCAGTTGTGGTAAGAGATTGTAGGTAC
1 AGTGCAATTGTGGTAAGAGATTGTAGGTAC
*
10269269 AGTGCAATTGTGGTAAGAGATTGTTGGTAC
1 AGTGCAATTGTGGTAAGAGATTGTAGGTAC
10269299 A
1 A
10269300 AGACTTAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.34, T:0.31
Consensus pattern (30 bp):
AGTGCAATTGTGGTAAGAGATTGTAGGTAC
Found at i:10270491 original size:21 final size:21
Alignment explanation
Indices: 10270451--10270522 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
10270441 AGCTAATTTT
10270451 GGTATCGATACTT-A--AAGG
1 GGTATCGATACTTGATTAAGG
10270469 GGTATCGATACTTGATTAAGG
1 GGTATCGATACTTGATTAAGG
10270490 GGTATCGATACTTGATTAAGG
1 GGTATCGATACTTGATTAAGG
10270511 GGTATCGATACT
1 GGTATCGATACT
10270523 ACCTATTTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.25
19 1 0.02
21 37 0.73
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (21 bp):
GGTATCGATACTTGATTAAGG
Found at i:10285198 original size:22 final size:23
Alignment explanation
Indices: 10285153--10285198 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10285143 TTATATAACA
* * *
10285153 TTTAAAAAATAAAATTATATATT
1 TTTAAAAAATAAAATCAAAAATT
10285176 TTTAAAAAATAAAA-CAAAAATT
1 TTTAAAAAATAAAATCAAAAATT
10285198 T
1 T
10285199 CAAAATAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TTTAAAAAATAAAATCAAAAATT
Found at i:10285214 original size:19 final size:20
Alignment explanation
Indices: 10285181--10285224 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10285171 ATATTTTTAA
10285181 AAAATAAAACAAAAA-TTTC
1 AAAATAAAACAAAAACTTTC
* * *
10285200 AAAATAAACCCAAAACTTTG
1 AAAATAAAACAAAAACTTTC
10285220 AAAAT
1 AAAAT
10285225 CTTCATTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAATAAAACAAAAACTTTC
Found at i:10287925 original size:25 final size:25
Alignment explanation
Indices: 10287897--10287946 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10287887 ATCCGGAAAA
10287897 GAAACAATGTGTATTACTTTCTGGG
1 GAAACAATGTGTATTACTTTCTGGG
10287922 GAAACAATGTGTATTACTTTCTGGG
1 GAAACAATGTGTATTACTTTCTGGG
10287947 TAGTACAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (25 bp):
GAAACAATGTGTATTACTTTCTGGG
Found at i:10290352 original size:23 final size:23
Alignment explanation
Indices: 10290322--10290373 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
10290312 GCAAAGGCAC
10290322 CAGTCAGTTGGAAGTCCACCTTA
1 CAGTCAGTTGGAAGTCCACCTTA
10290345 CAGTCAGTTGGAAGTCCACCTTA
1 CAGTCAGTTGGAAGTCCACCTTA
10290368 CAGTCA
1 CAGTCA
10290374 ACAGTGGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (23 bp):
CAGTCAGTTGGAAGTCCACCTTA
Found at i:10293175 original size:3 final size:3
Alignment explanation
Indices: 10293167--10293238 Score: 108
Period size: 3 Copynumber: 23.3 Consensus size: 3
10293157 TTTGTTTTTC
*
10293167 ATT ATT ATT ATT ATT ATT ATT ATT ATAC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
*
10293213 ATAC ATT ATT ATT ATT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT ATT ATT A
10293239 AATAAATATT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
3 59 0.94
4 4 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:10293199 original size:22 final size:22
Alignment explanation
Indices: 10293173--10293236 Score: 128
Period size: 22 Copynumber: 2.9 Consensus size: 22
10293163 TTTCATTATT
10293173 ATTATTATTATTATTATTATAC
1 ATTATTATTATTATTATTATAC
10293195 ATTATTATTATTATTATTATAC
1 ATTATTATTATTATTATTATAC
10293217 ATTATTATTATTATTATTAT
1 ATTATTATTATTATTATTAT
10293237 TAAATAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTATTATTATTATTATTATAC
Found at i:10294884 original size:18 final size:19
Alignment explanation
Indices: 10294858--10294899 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10294848 TTTTAAATAA
10294858 ATAAA-TATAT-TACTTTT
1 ATAAATTATATCTACTTTT
*
10294875 ATAAATTATATCTATTTTT
1 ATAAATTATATCTACTTTT
10294894 ATAAAT
1 ATAAAT
10294900 GTTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 12 0.55
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAAATTATATCTACTTTT
Found at i:10295526 original size:28 final size:28
Alignment explanation
Indices: 10295485--10295561 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 28
10295475 AAAAATTCAT
*
10295485 ATATTTAATTTATAATTCTTTTCTTTCAAA
1 ATATTT-ATATATAATTCTTTT-TTTCAAA
* * **
10295515 AT-TTTATATATATTTATGGTTTTCAAA
1 ATATTTATATATAATTCTTTTTTTCAAA
* *
10295542 ATATTTTTATATTATTCTTT
1 ATATTTATATATAATTCTTT
10295562 ATTAATTGTT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
27 9 0.26
28 21 0.60
29 3 0.09
30 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (28 bp):
ATATTTATATATAATTCTTTTTTTCAAA
Found at i:10300128 original size:7 final size:8
Alignment explanation
Indices: 10300108--10300143 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
10300098 AAAACAAAAA
10300108 AAAAAAGGG
1 AAAAAA-GG
10300117 AAAAAAGG
1 AAAAAAGG
10300125 AAAAAAGG
1 AAAAAAGG
10300133 AAAAAAGG
1 AAAAAAGG
10300141 AAA
1 AAA
10300144 GAAAATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:10303793 original size:22 final size:22
Alignment explanation
Indices: 10303768--10303844 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
10303758 ATCTACACTT
*
10303768 TTCAAAGATGATAGACTCTTTC
1 TTCAAAGATGATAGACTATTTC
* *
10303790 TTCAAAGATGATAGCCTATCTC
1 TTCAAAGATGATAGACTATTTC
* *
10303812 TTTAAAGATGATAGATTATCTT-
1 TTCAAAGATGATAGACTAT-TTC
10303834 TTCAAAGATGA
1 TTCAAAGATGA
10303845 AAGCTTTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 45 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGATAGACTATTTC
Found at i:10304643 original size:78 final size:78
Alignment explanation
Indices: 10304507--10304719 Score: 304
Period size: 76 Copynumber: 2.8 Consensus size: 78
10304497 CTTCAGTGCA
* * * * * *
10304507 TGATATTTTCAAAACCTTCGAGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTCCAAAAAAAACC
1 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCTGGATGTTTTCAAAAAAAACC
10304572 TTCGGGAGCTTTT
66 TTCGGGAGCTTTT
*
10304585 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCTGGATGTTTTC--AAAAAGCC
1 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCTGGATGTTTTCAAAAAAAACC
10304648 TTCGGGAGCTTTT
66 TTCGGGAGCTTTT
* * * * *
10304661 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCTTTTAGTGCTTGATATTTTCAAAA
1 TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCTGGATGTTTTCAAAA
10304720 CCTTCGGGTC
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
76 70 0.58
78 51 0.42
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (78 bp):
TGATGTTTTCAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCTGGATGTTTTCAAAAAAAACC
TTCGGGAGCTTTT
Found at i:10304724 original size:45 final size:45
Alignment explanation
Indices: 10304660--10305394 Score: 1148
Period size: 45 Copynumber: 16.3 Consensus size: 45
10304650 CGGGAGCTTT
* *
10304660 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCTTTTAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* *
10304705 TTGATATTTTCAAAACCTTCGGGTCATTTGTAAGTCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* *
10304750 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAATGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* * *
10304795 TTGATGCTTTCAAATCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* * * * *
10304840 ATGATGTTTTCAAAACATTTGGGTCATCTGTAAGCCCTTTAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10304885 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGA
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10304930 TTGATGTTTTCAAAACCTTCGGGTCATTTGTAAGTCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* * * *
10304975 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTAAGTGT
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* *
10305020 TTGATGTTTTCAAAACCTTCGGGTCATATGTAAATCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* *
10305065 ATGAT-TATTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 TTGATGT-TTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10305110 TTGACGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* *
10305155 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10305200 TTGATGTTTTCAAAACATTCGGGTCATCTGTAAGTCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10305245 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10305290 TTGATGTTTTCAAAACCTTCGGGTAATCTGTAAGTCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
* * *
10305335 TTGATGTTTTCAAAACCATCGGGTCATCTGTGAGCCCTTCAGTGC
1 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
*
10305380 ATGATGTTTTCAAAA
1 TTGATGTTTTCAAAA
10305395 AAGCCTTAAG
Statistics
Matches: 628, Mismatches: 60, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 626 1.00
46 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (45 bp):
TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
Found at i:10305637 original size:3 final size:3
Alignment explanation
Indices: 10305629--10305690 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
10305619 TTTCAGTTTG
* *
10305629 TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA TACA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
10305675 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
10305691 AATAAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
3 48 0.91
4 5 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10307220 original size:8 final size:7
Alignment explanation
Indices: 10307199--10307234 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
10307189 TAATAAATAA
10307199 TATTTATT
1 TATTT-TT
10307207 TATTTTT
1 TATTTTT
10307214 TATTTTT
1 TATTTTT
10307221 TATTTTT
1 TATTTTT
10307228 TATTTTT
1 TATTTTT
10307235 AAGTTTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:10307377 original size:18 final size:19
Alignment explanation
Indices: 10307350--10307392 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10307340 TTTTAAATAA
*
10307350 ATAAAATATAT-TACTTTT
1 ATAAATTATATCTACTTTT
*
10307368 ATAAATTATATCTATTTTT
1 ATAAATTATATCTACTTTT
10307387 ATAAAT
1 ATAAAT
10307393 GTTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAAATTATATCTACTTTT
Found at i:10310216 original size:15 final size:15
Alignment explanation
Indices: 10310196--10310228 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10310186 ATCGAACGGC
10310196 CATAGCTGATTCTGT
1 CATAGCTGATTCTGT
10310211 CATAGCTGATTCTGT
1 CATAGCTGATTCTGT
10310226 CAT
1 CAT
10310229 CATCATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (15 bp):
CATAGCTGATTCTGT
Found at i:10312237 original size:3 final size:3
Alignment explanation
Indices: 10312223--10312263 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
10312213 AATTATTTAT
*
10312223 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10312264 TTTGCTTACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:10312822 original size:105 final size:105
Alignment explanation
Indices: 10312686--10312900 Score: 304
Period size: 105 Copynumber: 2.0 Consensus size: 105
10312676 TGAGCAAGTA
* *
10312686 GAAGCAAGTTCAAATAAAGTAAAGCAGCTACAAGAACTTGATAAAATTGCCACAGGTGTCACTAA
1 GAAGCAAGTTCAAATAAAGTAAAGCAACTACAAGAACTTGATAAAATTGCCAAAGGTGTCACTAA
* *
10312751 GGACAATGAAACTAAAAAGAATTCAAGTTTAGAGCATGAG
66 GGACAAGGAAACTAAAAAGAATTCAAGTTTAAAGCATGAG
* * * *
10312791 GAAGCAAGTTCAAATAAATTAAAGCAACTACAGGAAGTTGATAAAATTGCCAAAGGTGTCACTGA
1 GAAGCAAGTTCAAATAAAGTAAAGCAACTACAAGAACTTGATAAAATTGCCAAAGGTGTCACTAA
** * * **
10312856 GGACGGGGAAACTGAAATGAATTTGAGTTTAAAGCATGAG
66 GGACAAGGAAACTAAAAAGAATTCAAGTTTAAAGCATGAG
10312896 GAAGC
1 GAAGC
10312901 TGAAACAAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (105 bp):
GAAGCAAGTTCAAATAAAGTAAAGCAACTACAAGAACTTGATAAAATTGCCAAAGGTGTCACTAA
GGACAAGGAAACTAAAAAGAATTCAAGTTTAAAGCATGAG
Found at i:10315460 original size:16 final size:17
Alignment explanation
Indices: 10315439--10315477 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
10315429 CATCTTCTTA
10315439 TTTTTAC-TTTAATTGC
1 TTTTTACTTTTAATTGC
10315455 TTTTTACTTATTTAATTGC
1 TTTTTAC-T-TTTAATTGC
10315474 TTTT
1 TTTT
10315478 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
19 13 0.65
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTACTTTTAATTGC
Found at i:10320845 original size:19 final size:19
Alignment explanation
Indices: 10320821--10320872 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
10320811 AATGCATTTG
*
10320821 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGAC
10320840 ATGCATCGATGCACCAGAC
1 ATGCATCGATGCACCAGAC
10320859 ATGCATCGATGCAC
1 ATGCATCGATGCAC
10320873 TCTGGCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACCAGAC
Found at i:10320850 original size:84 final size:83
Alignment explanation
Indices: 10320755--10320917 Score: 213
Period size: 84 Copynumber: 2.0 Consensus size: 83
10320745 GAATGCATTT
* * *
10320755 CATGCATCGATGCA-CATACCATGCACCAATGCACTGAGGAT-TTTATGAAAACATAGAATGCAT
1 CATGCATCGATGCACCAGA-CATGCACCAATGCACTCAGGATATTT-TG-AAACATAGAATGCAA
10320818 TTGATGCATCGATGCACCAGC
63 TTGATGCATCGATGCACCAGC
* * * * *
10320839 CATGCATCGATGCACCAGACATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCAATTG
1 CATGCATCGATGCACCAGACATGCACCAATGCACTCAGGATATTTTGAAACATAGAATGCAATTG
10320904 ATGCATCGATGCAC
66 ATGCATCGATGCAC
10320918 TCTTAGTGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
83 30 0.43
84 33 0.48
85 6 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CATGCATCGATGCACCAGACATGCACCAATGCACTCAGGATATTTTGAAACATAGAATGCAATTG
ATGCATCGATGCACCAGC
Found at i:10326179 original size:15 final size:15
Alignment explanation
Indices: 10326155--10326190 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
10326145 TTTCCCTTGT
10326155 AAAA-AATTAAAATG
1 AAAATAATTAAAATG
10326169 AAAATAATTAAAATG
1 AAAATAATTAAAATG
10326184 AGAAATA
1 A-AAATA
10326191 TGAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (15 bp):
AAAATAATTAAAATG
Found at i:10333679 original size:20 final size:20
Alignment explanation
Indices: 10333642--10333684 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10333632 AATCCACCAT
10333642 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGCTTCTAA
* * *
10333662 ATGCATCTATATGGTTCTAA
1 ATGCAACTAAATGCTTCTAA
10333682 ATG
1 ATG
10333685 GGCCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGCTTCTAA
Found at i:10342252 original size:16 final size:16
Alignment explanation
Indices: 10342231--10342268 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10342221 TTAGTGAATT
10342231 TGTGGAAAATCCTTAG
1 TGTGGAAAATCCTTAG
10342247 TGTGGAAAATCCTTAG
1 TGTGGAAAATCCTTAG
10342263 TGTGGA
1 TGTGGA
10342269 TAACTAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (16 bp):
TGTGGAAAATCCTTAG
Found at i:10342826 original size:21 final size:21
Alignment explanation
Indices: 10342802--10342906 Score: 97
Period size: 21 Copynumber: 5.1 Consensus size: 21
10342792 GCAAATTCGC
10342802 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
10342823 GTTGAAAATCGCGTTGTGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
10342843 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
10342864 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
10342884 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
10342905 GT
1 GT
10342907 CTACAGTTGT
Statistics
Matches: 61, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 29 0.48
21 32 0.52
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:10342834 original size:41 final size:39
Alignment explanation
Indices: 10342806--10342906 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 39
10342796 ATTCGCGTTG
* *
10342806 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCG--TTTC
*
10342847 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCG--TTTC
10342888 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
10342907 CTACAGTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (39 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGTTTC
Found at i:10342856 original size:20 final size:20
Alignment explanation
Indices: 10342831--10342903 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
10342821 TAGTTGAAAA
*
10342831 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
10342851 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
10342872 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
10342892 TCGCGTTGCGAT
1 TCGCGTTGCGAT
10342904 AGTCTACAGT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:10342983 original size:22 final size:22
Alignment explanation
Indices: 10342949--10342999 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
10342939 TGCGAAAAAT
* *
10342949 TCGTTGTGGTAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
10342971 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
10342993 TCGTTGC
1 TCGTTGC
10343000 AATTTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.14, C:0.18, G:0.29, T:0.39
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:10342988 original size:77 final size:76
Alignment explanation
Indices: 10342895--10343037 Score: 250
Period size: 77 Copynumber: 1.9 Consensus size: 76
10342885 TTCCATTTCG
* *
10342895 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAAATTCGTTGTGGTA
1 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATTCGTTGCG-AAAATTCGTTGTGATA
10342960 GTCTACAGTTGT
65 GTCTACAGTTGT
*
10342972 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATTTGTTGCGAAAATTCGTTGTGATAG
1 CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATTCGTTGCGAAAATTCGTTGTGATAG
10343037 T
66 T
10343038 TAAAAAAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
76 17 0.27
77 46 0.73
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (76 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCAATTTTCCAAATTCGTTGCGAAAATTCGTTGTGATAG
TCTACAGTTGT
Found at i:10343133 original size:6 final size:6
Alignment explanation
Indices: 10343117--10343168 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
10343107 GACACGTATT
*
10343117 ACCACG TCCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
10343165 ACCA
1 ACCA
10343169 GACGGACGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.33, C:0.50, G:0.15, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:10343673 original size:6 final size:6
Alignment explanation
Indices: 10343658--10343772 Score: 129
Period size: 6 Copynumber: 20.2 Consensus size: 6
10343648 TCGTCTCGTC
**
10343658 TCGT-G TCGTGG TCGT-G TCGTGG TC-TCA TC-TCGGG TCGT-G TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGT-G-G TCGTGG TCGTGG
10343703 TCGT-G TCGTGG TCGTGG TCGTGG TCGT-G TCGTGG TCGTGG TCGT-G
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
10343748 TCGTGG TCGTAG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
10343773 AATACGTGTC
Statistics
Matches: 95, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
5 33 0.35
6 59 0.62
7 2 0.02
8 1 0.01
ACGTcount: A:0.02, C:0.19, G:0.43, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:10343689 original size:34 final size:34
Alignment explanation
Indices: 10343651--10343747 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 34
10343641 CCGCCGTTCG
*
10343651 TCTCGTCTCGTGTCGTGGTCGTGTCGTGGTCTCA
1 TCTCGGCTCGTGTCGTGGTCGTGTCGTGGTCTCA
* **
10343685 TCTCGGGTCGTGTCGTGGTCGTGTCGTGGTCGTGG
1 TCTCGGCTCGTGTCGTGGTCGTGTCGTGGTC-TCA
10343720 TCGT-GG-TCGTGTCGTGGTCGTGGTCGTG
1 TC-TCGGCTCGTGTCGTGGTCGT-GTCGTG
10343748 TCGTGGTCGT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
34 44 0.79
35 11 0.20
36 1 0.02
ACGTcount: A:0.01, C:0.22, G:0.41, T:0.36
Consensus pattern (34 bp):
TCTCGGCTCGTGTCGTGGTCGTGTCGTGGTCTCA
Found at i:10343718 original size:17 final size:17
Alignment explanation
Indices: 10343690--10343772 Score: 132
Period size: 17 Copynumber: 4.8 Consensus size: 17
10343680 TCTCATCTCG
10343690 GGTCGTGTCGTGGTCGT
1 GGTCGTGTCGTGGTCGT
10343707 -GTCGTGGTCGTGGTCGT
1 GGTCGT-GTCGTGGTCGT
10343724 GGTCGTGTCGTGGTCGT
1 GGTCGTGTCGTGGTCGT
10343741 GGTCGTGTCGTGGTCGT
1 GGTCGTGTCGTGGTCGT
*
10343758 AGTCGTGGTCGTGGT
1 GGTCGT-GTCGTGGT
10343773 AATACGTGTC
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
16 5 0.08
17 44 0.71
18 13 0.21
ACGTcount: A:0.01, C:0.17, G:0.47, T:0.35
Consensus pattern (17 bp):
GGTCGTGTCGTGGTCGT
Found at i:10343722 original size:23 final size:23
Alignment explanation
Indices: 10343658--10343772 Score: 148
Period size: 23 Copynumber: 5.0 Consensus size: 23
10343648 TCGTCTCGTC
10343658 TCGTGTCGTGGTCGT-GTCGTGG
1 TCGTGTCGTGGTCGTGGTCGTGG
* *
10343680 TCTCATCTCG-GGTCGT-GTCGTGG
1 --TCGTGTCGTGGTCGTGGTCGTGG
10343703 TCGTGTCGTGGTCGTGGTCGTGG
1 TCGTGTCGTGGTCGTGGTCGTGG
10343726 TCGTGTCGTGGTCGTGGTCGT-G
1 TCGTGTCGTGGTCGTGGTCGTGG
*
10343748 TCGTGGTCGTAGTCGTGGTCGTGG
1 TCGT-GTCGTGGTCGTGGTCGTGG
10343772 T
1 T
10343773 AATACGTGTC
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
21 6 0.07
22 11 0.13
23 57 0.70
24 8 0.10
ACGTcount: A:0.02, C:0.19, G:0.43, T:0.36
Consensus pattern (23 bp):
TCGTGTCGTGGTCGTGGTCGTGG
Found at i:10343898 original size:22 final size:22
Alignment explanation
Indices: 10343871--10343964 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 22
10343861 AATTTGGAAA
10343871 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
10343893 ATCGCAACAACAATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
10343915 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
10343934 ATCGCAACGACAACTGTAAACT
1 ATCGCAACGACAACTGTAGACT
10343956 ATCGCAACG
1 ATCGCAACG
10343965 TGAAATGGGA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 13 0.23
20 2 0.04
21 2 0.04
22 40 0.70
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:10344170 original size:41 final size:41
Alignment explanation
Indices: 10343912--10344176 Score: 408
Period size: 41 Copynumber: 6.5 Consensus size: 41
10343902 ACAATTGTAG
* * * * *
10343912 ACTATCGCAA--CGAATTTGGAAAATCGCAACGACAACTGTAA
1 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGATTTTCA
* *
10343953 ACTATCGCAACGTGAAATGGGAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
10343994 ACTATCGCAACGCGAAATGGAAAATCGCAACGTGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
10344035 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
10344076 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
10344117 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
10344158 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
10344177 CAACGCGAAT
Statistics
Matches: 209, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
41 192 0.92
42 14 0.07
43 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:10346046 original size:21 final size:20
Alignment explanation
Indices: 10345979--10346117 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 20
10345969 AAATGACCAA
***
10345979 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
10345999 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
10346019 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
10346040 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
10346061 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
10346081 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
10346102 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
10346118 ACACATAAAT
Statistics
Matches: 88, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.47
21 46 0.52
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:10346132 original size:40 final size:39
Alignment explanation
Indices: 10346085--10346278 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
10346075 GATTTTCCAG
* ** *
10346085 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
10346125 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* * *
10346165 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
10346205 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
* *
10346246 AATCGCAACGAGAATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
10346279 TATTTAAAGC
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.75
41 31 0.24
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:10346168 original size:60 final size:60
Alignment explanation
Indices: 10346085--10346277 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 60
10346075 GATTTTCCAG
* ** *
10346085 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
* * * *
10346145 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTA
* ** * * *
10346205 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT-AAATCGCAACGCGTATCCGTA
10346266 AATCGCAACGCG
1 AATCGCAACGCG
10346278 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.71
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
Found at i:10346250 original size:21 final size:20
Alignment explanation
Indices: 10346085--10346275 Score: 96
Period size: 20 Copynumber: 9.5 Consensus size: 20
10346075 GATTTTCCAG
* *
10346085 AATCGCAACGCGAATATGA-A
1 AATCGCAACGAGAATA-CATA
* *
10346105 AATCGCAACGCGAACACATA
1 AATCGCAACGAGAATACATA
* * * *
10346125 AATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAATACATA
* * * *
10346145 AATCGCAACGTGTATCCGTA
1 AATCGCAACGAGAATACATA
* * * *
10346165 AATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAATACATA
* * * * *
10346185 AATCGCAATGCGTATCCGTA
1 AATCGCAACGAGAATACATA
* * * * *
10346205 TATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAATACATA
*
10346225 AATCGCAACGATAATACATAA
1 AATCGCAACGAGAATACAT-A
* *
10346246 AATCGCAACGAGAATCCGTA
1 AATCGCAACGAGAATACATA
10346266 AATCGCAACG
1 AATCGCAACG
10346276 CGATATTTAA
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
19 1 0.01
20 131 0.88
21 17 0.11
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGAGAATACATA
Found at i:10346694 original size:33 final size:33
Alignment explanation
Indices: 10346655--10346725 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
10346645 TTCACTTAGA
*
10346655 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
* *
10346688 TTTCATTTCGCGTTGCTATTCTCTCGTTACGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
10346721 TTTCA
1 TTTCA
10346726 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTACGAT
Found at i:10346831 original size:21 final size:20
Alignment explanation
Indices: 10346805--10346912 Score: 95
Period size: 21 Copynumber: 5.7 Consensus size: 20
10346795 TGCAGAAGAG
10346805 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
10346826 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
10346846 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
10346867 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
10346881 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
*
10346900 TCGCAACGCGAAA
1 TCGCAACGAGAAA
10346913 CCAAAATCGC
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
14 11 0.15
16 2 0.03
17 2 0.03
19 12 0.17
20 18 0.25
21 26 0.37
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:10346849 original size:20 final size:20
Alignment explanation
Indices: 10346805--10346881 Score: 100
Period size: 21 Copynumber: 3.8 Consensus size: 20
10346795 TGCAGAAGAG
*
10346805 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
10346826 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
10346846 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
10346867 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
10346882 CGCAACGCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 20 0.42
21 28 0.58
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:10346862 original size:41 final size:41
Alignment explanation
Indices: 10346804--10346881 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
10346794 TTGCAGAAGA
*
10346804 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
10346845 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
10346882 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:10346903 original size:19 final size:19
Alignment explanation
Indices: 10346817--10346923 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 19
10346807 GCAACGAGAT
*
10346817 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
*** *
10346836 AGAATGACTGTCGCAACGAGAG
1 A-AATGAAAATCGCAAC--GCG
10346858 AAATGAAAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
10346875 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
10346891 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
10346910 AAACCAAAATCGCA
1 AAATGAAAATCGCA
10346924 TTGCGATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 1 0.01
18 1 0.01
19 27 0.39
20 12 0.17
21 11 0.16
22 4 0.06
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:10346941 original size:19 final size:19
Alignment explanation
Indices: 10346919--10347046 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
10346909 GAAACCAAAA
*
10346919 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
10346938 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
10346952 TCTCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
10346971 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
10346985 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
10347005 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
10347025 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
10347045 TC
1 TC
10347047 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.22
16 6 0.07
17 6 0.07
19 21 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:10346970 original size:33 final size:33
Alignment explanation
Indices: 10346924--10347046 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
10346914 CAAAATCGCA
10346924 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
10346957 TTGTGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
10346990 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
10347031 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
10347047 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 43 0.54
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:10346993 original size:14 final size:14
Alignment explanation
Indices: 10346941--10346997 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
10346931 TTTCATTTCG
10346941 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
10346955 CGTTGTGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
10346974 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
10346988 CGTTGCGATT
1 CGTTGCGATT
10346998 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:10347008 original size:21 final size:21
Alignment explanation
Indices: 10346982--10347046 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
10346972 CGCGTTGCGA
10346982 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
10347003 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
10347023 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
10347044 TTC
1 TTC
10347047 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:10347043 original size:20 final size:20
Alignment explanation
Indices: 10346981--10347044 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
10346971 TCGCGTTGCG
10346981 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
10347001 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
10347022 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
10347042 ATT
1 ATT
10347045 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:10348899 original size:93 final size:93
Alignment explanation
Indices: 10348740--10349208 Score: 922
Period size: 93 Copynumber: 5.1 Consensus size: 93
10348730 TAGATTGCTT
*
10348740 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
10348805 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
10348833 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
10348898 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
10348926 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
10348991 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
10349019 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
10349084 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
10349112 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
10349177 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
10349204 AGTAA
1 AGTAA
10349209 TGCAATCCAT
Statistics
Matches: 375, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.02
93 369 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:10349297 original size:19 final size:19
Alignment explanation
Indices: 10349253--10349380 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
10349243 TAGTTTACTT
* *
10349253 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
10349273 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* **
10349292 TTGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
10349311 TCGCAA--C-AAA--AGAA
1 TCGCAACGCGAAACCAAAA
10349325 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
10349343 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
10349357 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
10349376 TCGCA
1 TCGCA
10349381 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
13 1 0.01
14 19 0.21
16 8 0.09
17 4 0.04
18 9 0.10
19 35 0.39
20 13 0.15
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Done.