Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 52 of 74
Found at i:10464622 original size:22 final size:22
Alignment explanation
Indices: 10464594--10464637 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10464584 ATTTTCTATC
* *
10464594 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATAAAAATA
10464616 CTTAATTCTAGAGATAAAAATA
1 CTTAATTCTAGAGATAAAAATA
10464638 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATAAAAATA
Found at i:10468770 original size:22 final size:22
Alignment explanation
Indices: 10468742--10468785 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10468732 CTAAATCTTC
*
10468742 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10468764 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10468786 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:10470344 original size:25 final size:25
Alignment explanation
Indices: 10470316--10470376 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
10470306 TTTCTCTAAG
10470316 GCCTCCATTTCTATTTTCATGGCTT
1 GCCTCCATTTCTATTTTCATGGCTT
10470341 GCCTCCATTTCTATTTTCATGGCTT
1 GCCTCCATTTCTATTTTCATGGCTT
*
10470366 GCCTTCATTTC
1 GCCTCCATTTC
10470377 CCACTGGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.11, C:0.30, G:0.11, T:0.48
Consensus pattern (25 bp):
GCCTCCATTTCTATTTTCATGGCTT
Found at i:10472668 original size:22 final size:22
Alignment explanation
Indices: 10472640--10472683 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10472630 CTAAATCTTC
*
10472640 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10472662 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10472684 TAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:10472695 original size:22 final size:22
Alignment explanation
Indices: 10472643--10472695 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
10472633 AATCTTCCTT
* * *
10472643 AATTCTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
10472665 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
10472686 AATATATAGA
1 AAT-TATAGA
10472696 TTACAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:10473987 original size:62 final size:62
Alignment explanation
Indices: 10473890--10474015 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
10473880 AGGACATTGA
*
10473890 CTGATAGACAGTGCAACTTATTTACATTAGGAAGGCAGGTTTTGCTGTAGCTTTCTTTTTTC
1 CTGATAGACAGTGCAACTTATTTACATTAGGAAGGCAGGTTTAGCTGTAGCTTTCTTTTTTC
10473952 CTGATAGACAGTGCAACTTATTTACATTAGGAAGGCAGGTTTAGCTGTAGCTTTCTTTTTTC
1 CTGATAGACAGTGCAACTTATTTACATTAGGAAGGCAGGTTTAGCTGTAGCTTTCTTTTTTC
10474014 CT
1 CT
10474016 TTGAACAGTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (62 bp):
CTGATAGACAGTGCAACTTATTTACATTAGGAAGGCAGGTTTAGCTGTAGCTTTCTTTTTTC
Found at i:10475919 original size:30 final size:30
Alignment explanation
Indices: 10475883--10475939 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10475873 AGAAATTAAT
* * *
10475883 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
10475913 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
10475940 AAATAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:10475950 original size:26 final size:24
Alignment explanation
Indices: 10475900--10475966 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 24
10475890 TATTTTTTAA
**
10475900 ATATAAATATTTAAAAATATCATT
1 ATATAAATATTTAAAAATAAAATT
*
10475924 ATATAAATATATATATAAATAAAATT
1 ATATAAATAT-T-TAAAAATAAAATT
* * *
10475950 AAATAATTAATTAAAAA
1 ATATAAATATTTAAAAA
10475967 ATAATTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
24 15 0.44
25 2 0.06
26 17 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAATATTTAAAAATAAAATT
Found at i:10476528 original size:17 final size:19
Alignment explanation
Indices: 10476502--10476538 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
10476492 CCTTTGCCAA
10476502 TCATTGTTTA-AAT-ATTT
1 TCATTGTTTATAATAATTT
*
10476519 TCATTTTTTATAATAATTT
1 TCATTGTTTATAATAATTT
10476538 T
1 T
10476539 TCACACCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TCATTGTTTATAATAATTT
Found at i:10478412 original size:31 final size:31
Alignment explanation
Indices: 10478377--10478453 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
10478367 GAAAAATATC
* ***
10478377 AATAATTAATTTAATTAATTTTTATTTAATA
1 AATAATTAAATTAATTAAAAATTATTTAATA
10478408 AATAATTAAATTAATTAAAAATTATTTAATA
1 AATAATTAAATTAATTAAAAATTATTTAATA
* *
10478439 ATTAATCATAATTAA
1 AATAATTA-AATTAA
10478454 ATCGATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
AATAATTAAATTAATTAAAAATTATTTAATA
Found at i:10478455 original size:37 final size:39
Alignment explanation
Indices: 10478409--10478500 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 39
10478399 TATTTAATAA
*
10478409 ATAATTAAATTAATTAAAAATT-ATTTAA-TAATTAATC
1 ATAATTAAATTAATTAAAAATTAATTCAATTAATTAATC
**
10478446 ATAATTAAATCGA-TAAAAATTAATTCAATTTAATTAATC
1 ATAATTAAATTAATTAAAAATTAATTCAA-TTAATTAATC
*
10478485 -TTATTAAA-TAATTAAA
1 ATAATTAAATTAATTAAA
10478501 TTTTTTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
36 8 0.18
37 17 0.38
38 11 0.24
39 9 0.20
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (39 bp):
ATAATTAAATTAATTAAAAATTAATTCAATTAATTAATC
Found at i:10479770 original size:14 final size:15
Alignment explanation
Indices: 10479741--10479773 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10479731 TTCCCATTTT
*
10479741 TCAAATTTTAAAAAA
1 TCAAAATTTAAAAAA
10479756 TCAAAATTT-AAAAA
1 TCAAAATTTAAAAAA
10479770 TCAA
1 TCAA
10479774 TCTTTTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TCAAAATTTAAAAAA
Found at i:10480573 original size:15 final size:14
Alignment explanation
Indices: 10480553--10480601 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 14
10480543 CTAAAGAGAC
10480553 TATGTTTTTTATTTT
1 TATGTTTTTT-TTTT
10480568 TATGTTTTATGTTTTT
1 TATGTTTT-T-TTTTT
10480584 T-TGTTTTTGTTTTT
1 TATGTTTTT-TTTTT
10480598 TATG
1 TATG
10480602 GCTTGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.26
15 16 0.52
16 6 0.19
17 1 0.03
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (14 bp):
TATGTTTTTTTTTT
Found at i:10480597 original size:22 final size:22
Alignment explanation
Indices: 10480553--10480596 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10480543 CTAAAGAGAC
10480553 TATGTTTTTTATTTTTATGTTT
1 TATGTTTTTTATTTTTATGTTT
10480575 TATGTTTTTT-TGTTTT-TGTTT
1 TATGTTTTTTAT-TTTTATGTTT
10480596 T
1 T
10480597 TTATGGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (22 bp):
TATGTTTTTTATTTTTATGTTT
Found at i:10481353 original size:15 final size:15
Alignment explanation
Indices: 10481306--10481354 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
10481296 TTTTTTTTTG
*
10481306 TATTTTTTAATATTT
1 TATTATTTAATATTT
* * * *
10481321 AATTAATTAATGTAT
1 TATTATTTAATATTT
10481336 TATTATTTAATATTT
1 TATTATTTAATATTT
10481351 TATT
1 TATT
10481355 TAATATCATT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTATTTAATATTT
Found at i:10481708 original size:26 final size:28
Alignment explanation
Indices: 10481679--10481742 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 28
10481669 AAAAATTGTA
10481679 AAATAATTTCATTAATTT-AT-TA-TAAT
1 AAATAATTTCATT-ATTTAATATATTAAT
*
10481705 AAATAAATTTTATTATTTAATATATTAAT
1 AAAT-AATTTCATTATTTAATATATTAAT
10481734 AAATAATTT
1 AAATAATTT
10481743 GAATAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.24
27 10 0.30
28 7 0.21
29 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
AAATAATTTCATTATTTAATATATTAAT
Found at i:10481759 original size:29 final size:27
Alignment explanation
Indices: 10481679--10481768 Score: 67
Period size: 29 Copynumber: 3.2 Consensus size: 27
10481669 AAAAATTGTA
*
10481679 AAATAATTTCATTAA-TTTATTA-TAAT
1 AAATAATTT-AATAATTTTATTATTAAT
* * *
10481705 AAATAAATTTTATTATTTAATATATTAAT
1 AAAT-AATTTAATAATTTTAT-TATTAAT
*
10481734 AAATAATTTGAATAAATTTTATTATTTAT
1 AAATAATTT-AAT-AATTTTATTATTAAT
*
10481763 TAATAA
1 AAATAA
10481769 ATTTTATATA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
26 6 0.12
27 9 0.18
28 7 0.14
29 21 0.43
30 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
AAATAATTTAATAATTTTATTATTAAT
Found at i:10481841 original size:12 final size:12
Alignment explanation
Indices: 10481824--10481857 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10481814 TTTTTATTAT
10481824 ATATTTAATCTA
1 ATATTTAATCTA
*
10481836 ATATTTAATTTA
1 ATATTTAATCTA
10481848 ATATCTTAAT
1 ATAT-TTAAT
10481858 GATCATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTAATCTA
Found at i:10482980 original size:21 final size:21
Alignment explanation
Indices: 10482954--10482995 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10482944 TGATACATTT
* *
10482954 GAGGTGGATGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
10482975 GAGGTGGAGGATACATTTGAG
1 GAGGTGGAGGATACATTTGAG
10482996 ATAGATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.40, T:0.29
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:10489153 original size:19 final size:20
Alignment explanation
Indices: 10489121--10489164 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10489111 ATTAGGCACA
10489121 TGGGGAGAGATTGGATGGGG
1 TGGGGAGAGATTGGATGGGG
* *
10489141 TGGGGAG-GATTGGGTGTGG
1 TGGGGAGAGATTGGATGGGG
10489160 TGGGG
1 TGGGG
10489165 CGTTGGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.14, C:0.00, G:0.64, T:0.23
Consensus pattern (20 bp):
TGGGGAGAGATTGGATGGGG
Found at i:10489722 original size:26 final size:26
Alignment explanation
Indices: 10489694--10489742 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10489684 TAAAAAATAA
*
10489694 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
10489719 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
10489743 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:10493483 original size:18 final size:18
Alignment explanation
Indices: 10493460--10493586 Score: 93
Period size: 18 Copynumber: 7.1 Consensus size: 18
10493450 CATGGTTATT
10493460 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
*
10493478 ATCCACCTCCTCAAATATATC
1 ATCCA---CCTCAAATGTATC
*
10493499 ATTCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
* * * *
10493517 AGT-TACCACAAATTTACC
1 A-TCCACCTCAAATGTATC
10493535 ATCCACCAT-AAATGTATC
1 ATCCACC-TCAAATGTATC
*
10493553 AT---CCTCAAATATATC
1 ATCCACCTCAAATGTATC
* *
10493568 CTCCATCTCAAATGTATC
1 ATCCACCTCAAATGTATC
10493586 A
1 A
10493587 AGAATAATGG
Statistics
Matches: 83, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
14 1 0.01
15 11 0.13
17 1 0.01
18 53 0.64
19 1 0.01
21 16 0.19
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (18 bp):
ATCCACCTCAAATGTATC
Found at i:10493491 original size:21 final size:21
Alignment explanation
Indices: 10493465--10493507 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10493455 TTATTATCCA
*
10493465 CCTCAAATGTATCATCCACCT
1 CCTCAAATATATCATCCACCT
*
10493486 CCTCAAATATATCATTCACCT
1 CCTCAAATATATCATCCACCT
10493507 C
1 C
10493508 AAATGTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.37, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTCAAATATATCATCCACCT
Found at i:10496975 original size:53 final size:53
Alignment explanation
Indices: 10496829--10497037 Score: 171
Period size: 53 Copynumber: 3.9 Consensus size: 53
10496819 ATTATTTTAA
* * * * *
10496829 AAGGAAA-ATTTATATTTTAA-TTCTTCCTTAAAACCTTTAAAATTGTTTTCATTT
1 AAGGAAAGATTGATATTTTAACTTTTTCCTT-AAA-TTTTGAAATT-ATTTCATTT
* * *
10496883 AAGGAAAGATTGATATTTCAA-TTTTTACCTTAAATTTTGAATTTATTTCCTTT
1 AAGGAAAGATTGATATTTTAACTTTTT-CCTTAAATTTTGAAATTATTTCATTT
* * *
10496936 AAGGAAAGATTGATATTTTAACTCTTTCTTCTAAA-TTTGAAATTATTT-GTTAT
1 AAGGAAAGATTGATATTTTAACTTTTTCCT-TAAATTTTGAAATTATTTCATT-T
* * *
10496989 AA-GAAA-ATTTGATATTTTAACTTTTTCCTCAAATGTTTAAAATTTTTTC
1 AAGGAAAGA-TTGATATTTTAACTTTTTCCTTAAAT-TTTGAAATTATTTC
10497038 GGCTAAATAA
Statistics
Matches: 128, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
51 4 0.03
52 25 0.20
53 55 0.43
54 22 0.17
55 18 0.14
56 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (53 bp):
AAGGAAAGATTGATATTTTAACTTTTTCCTTAAATTTTGAAATTATTTCATTT
Found at i:10497326 original size:18 final size:18
Alignment explanation
Indices: 10497305--10497348 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
10497295 CAAACCCTAC
**
10497305 ACCCTAACAAAACCTTTA
1 ACCCTAACAAAACCTCAA
*
10497323 ACCCTAAACTAAACCTCAA
1 ACCCT-AACAAAACCTCAA
10497342 ACCCTAA
1 ACCCTAA
10497349 ACTCTTAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (18 bp):
ACCCTAACAAAACCTCAA
Found at i:10497493 original size:18 final size:19
Alignment explanation
Indices: 10497460--10497497 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10497450 AAACAATACC
*
10497460 CTAAACCATTAACCTTAAA
1 CTAAACCATCAACCTTAAA
10497479 CTAAACC-TCAACCTTAAA
1 CTAAACCATCAACCTTAAA
10497497 C
1 C
10497498 CTTAAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (19 bp):
CTAAACCATCAACCTTAAA
Found at i:10499255 original size:6 final size:6
Alignment explanation
Indices: 10499241--10499273 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10499231 AAAAAGGTAG
*
10499241 AAAACA AAAATA AAAACA AAAACA AAAA-A AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
10499274 GAATAAAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:10499270 original size:26 final size:25
Alignment explanation
Indices: 10499241--10499294 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10499231 AAAAAGGTAG
*
10499241 AAAACAAA-AATAAAAACAAAAACAA
1 AAAAAAAAGAATAAAAACAAAAA-AA
* *
10499266 AAAAAAAAGAATAAAAGCAAAGAAA
1 AAAAAAAAGAATAAAAACAAAAAAA
10499291 AAAA
1 AAAA
10499295 TGGAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.83, C:0.07, G:0.06, T:0.04
Consensus pattern (25 bp):
AAAAAAAAGAATAAAAACAAAAAAA
Found at i:10499314 original size:14 final size:14
Alignment explanation
Indices: 10499271--10499308 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
10499261 AACAAAAAAA
* *
10499271 AAAGAATAAAA-GC
1 AAAGAAAAAAATGG
10499284 AAAGAAAAAAATGG
1 AAAGAAAAAAATGG
10499298 AAAGAAAAAAA
1 AAAGAAAAAAA
10499309 ATGAAATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAATGG
Found at i:10499408 original size:19 final size:20
Alignment explanation
Indices: 10499380--10499420 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10499370 TTTTACTAAT
*
10499380 TTTTCTTTTTTTTTTGTGTG
1 TTTTCTTTTTGTTTTGTGTG
*
10499400 TTTTC-TTTTGTTTTGTTTG
1 TTTTCTTTTTGTTTTGTGTG
10499419 TT
1 TT
10499421 ACATACATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.00, C:0.05, G:0.15, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTTGTTTTGTGTG
Found at i:10504318 original size:50 final size:52
Alignment explanation
Indices: 10504256--10504358 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
10504246 TATAAGCATA
* * *
10504256 CAAACTTGCCTA-TTAAGAATCTTTTTCT-TTAGAATTCTTCTTATGCAAGT
1 CAAACTTACCTATTTAAGAATATTTTTCTCTTAGAATTCTTCTTATACAAGT
* * *
10504306 CAAACTTACCTATTTAAGAATATTTTTTTCTTATAATTCTTCTTCTACAAGT
1 CAAACTTACCTATTTAAGAATATTTTTCTCTTAGAATTCTTCTTATACAAGT
10504358 C
1 C
10504359 TTTTTTTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 11 0.24
51 14 0.31
52 20 0.44
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (52 bp):
CAAACTTACCTATTTAAGAATATTTTTCTCTTAGAATTCTTCTTATACAAGT
Found at i:10506237 original size:18 final size:19
Alignment explanation
Indices: 10506209--10506247 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10506199 TATTTAATAT
10506209 TTATAAAATTAATAAATTA
1 TTATAAAATTAATAAATTA
*
10506228 TTAT-AAATTATTAAATTA
1 TTATAAAATTAATAAATTA
10506246 TT
1 TT
10506248 TCTATGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATAAAATTAATAAATTA
Found at i:10512221 original size:3 final size:3
Alignment explanation
Indices: 10512213--10512242 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10512203 TCACTTGTGA
10512213 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10512243 CAAATTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10515477 original size:21 final size:21
Alignment explanation
Indices: 10515453--10515497 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
10515443 ACCCGAAGTT
*
10515453 GATAATTATGTTTTGAAAGCC
1 GATAATTATGTATTGAAAGCC
10515474 GATAATTATGTATTGAAAGCC
1 GATAATTATGTATTGAAAGCC
10515495 GAT
1 GAT
10515498 CAATGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (21 bp):
GATAATTATGTATTGAAAGCC
Found at i:10517260 original size:11 final size:11
Alignment explanation
Indices: 10517224--10517260 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
10517214 TTTTTTTTTC
10517224 TTTTTAT-TTA
1 TTTTTATGTTA
10517234 -TTTTATGTTGA
1 TTTTTATGTT-A
10517245 TTTTTATGTTA
1 TTTTTATGTTA
10517256 TTTTT
1 TTTTT
10517261 TATGATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 7 0.29
12 9 0.38
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTATGTTA
Found at i:10517261 original size:12 final size:12
Alignment explanation
Indices: 10517234--10517289 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
10517224 TTTTTATTTA
10517234 TTTTATGTTGA-T
1 TTTTATGTT-ATT
10517246 TTTTATGTTATT
1 TTTTATGTTATT
*
10517258 TTTTATGATATT
1 TTTTATGTTATT
*
10517270 ATTGTTATTATTATT
1 -TT-TTA-TGTTATT
10517285 TTTTA
1 TTTTA
10517290 AACAAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.03
12 21 0.57
13 5 0.14
14 5 0.14
15 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (12 bp):
TTTTATGTTATT
Found at i:10517486 original size:18 final size:18
Alignment explanation
Indices: 10517465--10517507 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
10517455 TAATTTTTGC
* *
10517465 TAAAAGATTAATAAATTA
1 TAAAAGATAAATAAAATA
10517483 TAAAATGATAAATAAAATA
1 TAAAA-GATAAATAAAATA
10517502 -AAAAGA
1 TAAAAGA
10517508 ATAAGTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
19 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
TAAAAGATAAATAAAATA
Found at i:10517689 original size:13 final size:14
Alignment explanation
Indices: 10517673--10517701 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10517663 GATAATGTAT
10517673 AACAATAAT-AAAA
1 AACAATAATGAAAA
10517686 AACAATAATGAAAA
1 AACAATAATGAAAA
10517700 AA
1 AA
10517702 TAAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (14 bp):
AACAATAATGAAAA
Found at i:10534404 original size:3 final size:3
Alignment explanation
Indices: 10534396--10534425 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10534386 TCACTTGTGA
10534396 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10534426 CAAATTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10537657 original size:21 final size:21
Alignment explanation
Indices: 10537633--10537675 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10537623 ACCTGAAGTT
*
10537633 GATAATTATGTTTTGAAAGCC
1 GATAATTATGTATTGAAAGCC
10537654 GATAATTATGTATTGAAAGCC
1 GATAATTATGTATTGAAAGCC
10537675 G
1 G
10537676 GTCAATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (21 bp):
GATAATTATGTATTGAAAGCC
Found at i:10539450 original size:12 final size:12
Alignment explanation
Indices: 10539412--10539478 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
10539402 TTTTTTTTTT
10539412 TTTTTTAT-TTA
1 TTTTTTATGTTA
10539423 --TTTTATGTTGA
1 TTTTTTATGTT-A
10539434 -TTTTTATGTTA
1 TTTTTTATGTTA
*
10539445 TTTTTTATGATA
1 TTTTTTATGTTA
*
10539457 TTATTGTTATTATTA
1 TT-TT-TTA-TGTTA
10539472 TTTTTTA
1 TTTTTTA
10539479 AACAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 6 0.13
10 2 0.04
11 2 0.04
12 21 0.46
13 5 0.11
14 5 0.11
15 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTTTATGTTA
Found at i:10539677 original size:18 final size:18
Alignment explanation
Indices: 10539656--10539698 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
10539646 TAATTTTTGC
* *
10539656 TAAAAGATTAATAAATTA
1 TAAAAGATAAATAAAATA
10539674 TAAAATGATAAATAAAATA
1 TAAAA-GATAAATAAAATA
10539693 -AAAAGA
1 TAAAAGA
10539699 ATAAGTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
19 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
TAAAAGATAAATAAAATA
Found at i:10552208 original size:40 final size:40
Alignment explanation
Indices: 10552066--10552340 Score: 250
Period size: 40 Copynumber: 6.9 Consensus size: 40
10552056 AAAAGAACCG
* *
10552066 TTTAAAGTTCATTACCTCTGGTTAGAAGAGCCTTTTTAACA
1 TTTAAAGTTCATTGCCTCTGGTGAGAAGAGCC-TTTTAACA
* * * *
10552107 TTTAAAGTTCGTTACCTCTGGTGAGAGGAGCCTTTTGA-A
1 TTTAAAGTTCATTGCCTCTGGTGAGAAGAGCCTTTTAACA
* * * *
10552146 TTTAAAGTTCGTTGCCTTTGGTGAGAGGAGCTTTTTAACA
1 TTTAAAGTTCATTGCCTCTGGTGAGAAGAGCCTTTTAACA
* *
10552186 TTTAAAGTTCATTGTCTCTGGTGAGATGAGCCTTTTAACA
1 TTTAAAGTTCATTGCCTCTGGTGAGAAGAGCCTTTTAACA
* * * * *
10552226 TTTAAAGTCCATTGCCTTTGATGAGAAAATCCTTTTAACA
1 TTTAAAGTTCATTGCCTCTGGTGAGAAGAGCCTTTTAACA
* * * ** * * *
10552266 TTTAAAG-TCTGTTGCTTTTGGTCTGATGAGCTTTTTGA-A
1 TTTAAAGTTC-ATTGCCTCTGGTGAGAAGAGCCTTTTAACA
* * *
10552305 TTTAAAGTTTCATAGCCTCTGTTTAGAAGAGCCTTT
1 TTTAAAG-TTCATTGCCTCTGGTGAGAAGAGCCTTT
10552341 CAAATATTTT
Statistics
Matches: 190, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
39 44 0.23
40 115 0.61
41 31 0.16
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTAAAGTTCATTGCCTCTGGTGAGAAGAGCCTTTTAACA
Found at i:10552269 original size:120 final size:118
Alignment explanation
Indices: 10552066--10552340 Score: 318
Period size: 120 Copynumber: 2.3 Consensus size: 118
10552056 AAAAGAACCG
* * * *
10552066 TTTAAAGTTCATTACCTCTGGTTAGAAGAGCCTTTTTAACATTTAAAGTTCGTTACCTCTGGTGA
1 TTTAAAGTTCATTGCCTCTGGTTAGAAGAGCC-TTTTAACATTTAAAGTCCATTACCTCTGATGA
** * *
10552131 GAGGAGCCTTTTGAATTTAAAGT-TCGTTGCCTTTGGTGAGAGGAGCTTTTTAACA
65 GAAAAGCCTTTTAAATTTAAAGTCT-GTTGCCTTTGGTCAGAGGAGCTTTTTAA-A
* * * * *
10552186 TTTAAAGTTCATTGTCTCTGGTGAGATGAGCCTTTTAACATTTAAAGTCCATTGCCTTTGATGAG
1 TTTAAAGTTCATTGCCTCTGGTTAGAAGAGCCTTTTAACATTTAAAGTCCATTACCTCTGATGAG
* * * * *
10552251 AAAATCCTTTTAACATTTAAAGTCTGTTGCTTTTGGTCTGATGAGCTTTTTGAA
66 AAAAGCCTTTTAA-ATTTAAAGTCTGTTGCCTTTGGTCAGAGGAGCTTTTTAAA
* *
10552305 TTTAAAGTTTCATAGCCTCTGTTTAGAAGAGCCTTT
1 TTTAAAG-TTCATTGCCTCTGGTTAGAAGAGCCTTT
10552341 CAAATATTTT
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
119 45 0.35
120 83 0.64
121 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (118 bp):
TTTAAAGTTCATTGCCTCTGGTTAGAAGAGCCTTTTAACATTTAAAGTCCATTACCTCTGATGAG
AAAAGCCTTTTAAATTTAAAGTCTGTTGCCTTTGGTCAGAGGAGCTTTTTAAA
Found at i:10552516 original size:6 final size:6
Alignment explanation
Indices: 10552505--10552541 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10552495 ATCTTTTTAT
* *
10552505 ATATTA ATATTA ATATTA ATATTG ATATTA TTATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
10552542 CCTTTAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:10553457 original size:3 final size:3
Alignment explanation
Indices: 10553443--10553495 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
10553433 TTTTTTATAA
*
10553443 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10553491 TAT TA
1 TAT TA
10553496 ATTTTTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10553731 original size:17 final size:18
Alignment explanation
Indices: 10553684--10553733 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
10553674 TAATTTTTAC
10553684 TAAAAGAAT-AATAAATTA
1 TAAAAGAATAAATAAA-TA
*
10553702 TAAAAAATGATAAATAAA-A
1 TAAAAGA--ATAAATAAATA
10553721 TAAAAGAATAAAT
1 TAAAAGAATAAAT
10553734 TATTTAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 7 0.26
20 2 0.07
21 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
TAAAAGAATAAATAAATA
Found at i:10554768 original size:50 final size:50
Alignment explanation
Indices: 10554692--10554839 Score: 174
Period size: 50 Copynumber: 2.9 Consensus size: 50
10554682 ATAATTGCCT
* * *
10554692 TTGCATAATTGTTTGGGTCATGCATTTGCATCATTTAG-GGAATTTATAAA
1 TTGCATAATTGTTTGGATCATTCATTTGCATCATTT-GTGAAATTTATAAA
*
10554742 TTGCATGATTGTTTGGATCATTCATTTGCATCATTTGTGAAATTTATAAA
1 TTGCATAATTGTTTGGATCATTCATTTGCATCATTTGTGAAATTTATAAA
* * * *
10554792 TTGCATCATTGTTTGGACCATTTC-TATGTATCATTTGGTGAAAATTTA
1 TTGCATAATTGTTTGGATCA-TTCATTTGCATCATTT-GTG-AAATTTA
10554840 AATCATTGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
49 1 0.01
50 72 0.84
51 6 0.07
52 7 0.08
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.45
Consensus pattern (50 bp):
TTGCATAATTGTTTGGATCATTCATTTGCATCATTTGTGAAATTTATAAA
Found at i:10555458 original size:24 final size:24
Alignment explanation
Indices: 10555430--10555475 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10555420 AGTATGATCC
10555430 CTAAAACCTCTTGGTACCTTTTCA
1 CTAAAACCTCTTGGTACCTTTTCA
*
10555454 CTAAAACCTTTTGGTACCTTTT
1 CTAAAACCTCTTGGTACCTTTT
10555476 GGTTATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (24 bp):
CTAAAACCTCTTGGTACCTTTTCA
Found at i:10555782 original size:43 final size:41
Alignment explanation
Indices: 10555730--10555868 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 41
10555720 TTCTTTCATT
*
10555730 TTTTAAAAGTTTCATTATGTTTGGTTAAATAAGTCTTTTTAAAA
1 TTTT-AAAGTTTCA-TATGTTTGGTTAAATGAG-CTTTTTAAAA
** * * * *
10555774 TTTTAAAGTTTCAATACCTATGGTTACAGGAGCTTTTTAAAT
1 TTTTAAAGTTTC-ATATGTTTGGTTAAATGAGCTTTTTAAAA
* *
10555816 TTTTAAAATTTCA-ATGTCATTGCTTAAATGAGCTTTTTAAAA
1 TTTTAAAGTTTCATATGT--TTGGTTAAATGAGCTTTTTAAAA
10555858 TTTTAAAGTTT
1 TTTTAAAGTTT
10555869 TATAACCTCT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
40 2 0.03
41 1 0.01
42 48 0.63
43 20 0.26
44 5 0.07
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (41 bp):
TTTTAAAGTTTCATATGTTTGGTTAAATGAGCTTTTTAAAA
Found at i:10555821 original size:42 final size:42
Alignment explanation
Indices: 10555764--10556244 Score: 267
Period size: 42 Copynumber: 11.6 Consensus size: 42
10555754 TTAAATAAGT
* * *
10555764 CTTTTTAAAATTTTAAAGTTTCAATACCTATGGTTACAGGAG
1 CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * * *
10555806 CTTTTTAAATTTTTAAAATTTCAATGTCAT-TGCTTAAATGAG
1 CTTTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* * * **
10555848 CTTTTTAAAATTTTAAAGTTT-TATAACCTCTGATTAGATAAG
1 CTTTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* * * * * * * * * *
10555890 CTCTTTCATTTTTTAAAAGCTTCATTGCATTTGATTAGATGAG
1 CTTTTTAAATTTTT-AAAGTTTCAATACCTCTGGTTAGAGGAG
* * *
10555933 CCTTTTTAAAAATTTTAAAGTTTTAATATCTCTGGTTAGAGGAG
1 -CTTTTT-AAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * *
10555977 -TATTTTAAATTTTTAAAATTTTAATGCCTCTTGTTAGAAGAG
1 CT-TTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
*
10556019 -TCTTTTAAA-TTCTAAAGTTTCAATA-C-C---TTA-A-GAG
1 CT-TTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * *
10556053 CCTTTTAATTTTTTAAAGTTTTAATACATTTGGTT-GAGGAG
1 CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
* * * * *
10556094 -TCTTTTAAATTTTTAAAGTTTTAATGA-CTTTGATTAAAGAAG
1 CT-TTTTAAATTTTTAAAGTTTCAAT-ACCTCTGGTTAGAGGAG
* * *
10556136 CTTTTTAAAATTTTAATA-TTTCAATACTTCTAGTTAGAGGAG
1 CTTTTTAAATTTTTAA-AGTTTCAATACCTCTGGTTAGAGGAG
* * *
10556178 CCTTTTAAATTTTTAAAGTTTTAATACCTCT-GTTGAGGATGAG
1 CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTT-A-GAGGAG
* * *
10556221 CTTTTTGAACTTTTAAAATTTCAA
1 CTTTTTAAATTTTTAAAGTTTCAA
10556245 CTCCTTTATT
Statistics
Matches: 333, Mismatches: 81, Indels: 49
0.72 0.17 0.11
Matches are distributed among these distances:
34 9 0.03
35 15 0.05
36 3 0.01
39 1 0.00
40 4 0.01
41 52 0.16
42 168 0.50
43 51 0.15
44 25 0.08
45 5 0.02
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (42 bp):
CTTTTTAAATTTTTAAAGTTTCAATACCTCTGGTTAGAGGAG
Found at i:10556037 original size:170 final size:170
Alignment explanation
Indices: 10555706--10556038 Score: 426
Period size: 170 Copynumber: 2.0 Consensus size: 170
10555696 TTCCATAGCT
* * ** * *
10555706 TCTGATTAGAAAAGTTCTTTCATTTTTTAAAAGTTTCATTATGTTTGGTTAAATAAGTCTTTTTA
1 TCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGCTTCATTACATTTGATTAAATAAGCCTTTTTA
10555771 AAATTTTAAAGTTTCAATACCTATGGTTACAGGAGCTTTTTAAATTTTTAAAATTTCAATGTCAT
66 AAATTTTAAAGTTTCAATACCTATGGTTACAGGAGCTTTTTAAATTTTTAAAATTTCAATGTCAT
*
10555836 TGCTTAAATGAGCTTTTTAAAATTTTAAAGTTTTATAACC
131 TGCTTAAATGAGCTTTTTAAAATTCTAAAGTTTTATAACC
* * * *
10555876 TCTGATTAGATAAGCTCTTTCATTTTTTAAAAGCTTCATTGCATTTGATTAGATGAGCCTTTTTA
1 TCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGCTTCATTACATTTGATTAAATAAGCCTTTTT-
* * * * *
10555941 AAAATTTTAAAGTTTTAATATCTCTGGTTAGAGGAG-TATTTTAAATTTTTAAAATTTTAATGCC
65 AAAATTTTAAAGTTTCAATACCTATGGTTACAGGAGCT-TTTTAAATTTTTAAAATTTCAATG--
10556005 TC-TTG-TTAGAA-GAG-TCTTTT-AAATTCTAAAGTTT
127 TCATTGCTTA-AATGAGCT-TTTTAAAATTCTAAAGTTT
10556039 CAATACCTTA
Statistics
Matches: 141, Mismatches: 16, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
170 69 0.49
171 65 0.46
172 5 0.04
173 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (170 bp):
TCTGATTAGAAAAGCTCTTTCATTTTTTAAAAGCTTCATTACATTTGATTAAATAAGCCTTTTTA
AAATTTTAAAGTTTCAATACCTATGGTTACAGGAGCTTTTTAAATTTTTAAAATTTCAATGTCAT
TGCTTAAATGAGCTTTTTAAAATTCTAAAGTTTTATAACC
Found at i:10556052 original size:34 final size:35
Alignment explanation
Indices: 10556014--10556079 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
10556004 CTCTTGTTAG
*
10556014 AAGAGTCTTTTAA-ATTCTAAAGTTTCAATACCTT
1 AAGAGCCTTTTAATATTCTAAAGTTTCAATACCTT
* * *
10556048 AAGAGCCTTTTAATTTTTTAAAGTTTTAATAC
1 AAGAGCCTTTTAATATTCTAAAGTTTCAATAC
10556080 ATTTGGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (35 bp):
AAGAGCCTTTTAATATTCTAAAGTTTCAATACCTT
Found at i:10559176 original size:17 final size:16
Alignment explanation
Indices: 10559154--10559197 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
10559144 TTTTAATTAA
*
10559154 ATTTTAATTTAAAAAC
1 ATTTTAATATAAAAAC
*
10559170 ATATTTAAATATAAAAAT
1 AT-TTT-AATATAAAAAC
10559188 ATTTTAATAT
1 ATTTTAATAT
10559198 TTGAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAATATAAAAAC
Found at i:10559191 original size:16 final size:17
Alignment explanation
Indices: 10559165--10559197 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10559155 TTTTAATTTA
10559165 AAAACATATTTAAATAT
1 AAAACATATTTAAATAT
*
10559182 AAAA-ATATTTTAATAT
1 AAAACATATTTAAATAT
10559198 TTGAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAACATATTTAAATAT
Found at i:10567294 original size:49 final size:52
Alignment explanation
Indices: 10567234--10567358 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 52
10567224 ATTTTAGGAA
*
10567234 AAAATTCATATTTCAATTTTTCTCAAAA-ATTTGAAATTATTTT-A-AAAGG
1 AAAATTCATATTTCAATTTTTCTCAAAACATTTAAAATTATTTTCATAAAGG
* * * * * *
10567283 AAAATTTATATTTTAATTCTTTCTTAAAACCTTTAAAATTGTTTTCATTTAAGG
1 AAAATTCATATTTCAATT-TTTCTCAAAACATTTAAAATTATTTTCA-TAAAGG
*
10567337 AAAGATTGATATTTCAATTTTT
1 AAA-ATTCATATTTCAATTTTT
10567359 GCCTTAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 16 0.26
50 9 0.15
51 12 0.20
52 1 0.02
54 10 0.16
55 13 0.21
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (52 bp):
AAAATTCATATTTCAATTTTTCTCAAAACATTTAAAATTATTTTCATAAAGG
Found at i:10567422 original size:53 final size:52
Alignment explanation
Indices: 10567241--10567466 Score: 167
Period size: 53 Copynumber: 4.3 Consensus size: 52
10567231 GAAAAAATTC
* * * ** *
10567241 ATATTTCAA-TTTTTCTCAAAAATTTGAAATTA-TT-TTAAAAGGAAA-ATTT
1 ATATTTTAACTTTTTCT-TAAATTTTGAAATTATTTCTTTTAAGGAAAGATTG
* * * *
10567290 ATATTTTAA-TTCTTTCTTAAAACCTTTAAAATTGTTTTCATTTAAGGAAAGATTG
1 ATATTTTAACTT-TTTCTT-AAA-TTTTGAAATT-ATTTCTTTTAAGGAAAGATTG
* *
10567345 ATATTTCAA-TTTTTGCCTTAAATTTTGAATTTATTTCTTTTAAGGAAAGATTG
1 ATATTTTAACTTTTT--CTTAAATTTTGAAATTATTTCTTTTAAGGAAAGATTG
* * * * * **
10567398 ATATTTTAACTCTTTCTTCTAATTTTGAAATTATTTGTTATAAGAAAATTTTG
1 ATATTTTAACTTTTTCTT-AAATTTTGAAATTATTTCTTTTAAGGAAAGATTG
10567451 ATATTTTAACTTTTTC
1 ATATTTTAACTTTTTC
10567467 CTCAAATGTT
Statistics
Matches: 141, Mismatches: 25, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
49 10 0.07
50 8 0.06
51 8 0.06
52 3 0.02
53 71 0.50
54 22 0.16
55 16 0.11
56 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (52 bp):
ATATTTTAACTTTTTCTTAAATTTTGAAATTATTTCTTTTAAGGAAAGATTG
Found at i:10567802 original size:19 final size:18
Alignment explanation
Indices: 10567758--10567804 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10567748 CAAACCCTAC
* *
10567758 ACCCTAAACAAAACTTTA
1 ACCCTAAACTAAACTTAA
*
10567776 ACCATAAACTAAACTTCAA
1 ACCCTAAACTAAACTT-AA
10567795 ACCCTAAACT
1 ACCCTAAACT
10567805 CTTAACCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (18 bp):
ACCCTAAACTAAACTTAA
Found at i:10567847 original size:7 final size:7
Alignment explanation
Indices: 10567837--10567964 Score: 62
Period size: 7 Copynumber: 19.4 Consensus size: 7
10567827 AACATAAAAA
10567837 TAAACCT
1 TAAACCT
*
10567844 TAAACTT
1 TAAACCT
*
10567851 TAAACCC
1 TAAACCT
*
10567858 TAAGCC-
1 TAAACCT
*
10567864 -ACATCCT
1 TA-AACCT
*
10567871 -AAACCC
1 TAAACCT
10567877 TAAACCCT
1 TAAA-CCT
10567885 T-AACCT
1 TAAACCT
10567891 TAAA-C-
1 TAAACCT
**
10567896 TAGCCCT
1 TAAACCT
10567903 TAAACC-
1 TAAACCT
*
10567909 -ATACCT
1 TAAACCT
10567915 TAAACCCT
1 TAAA-CCT
10567923 T-AACCT
1 TAAACCT
10567929 TAAA-C-
1 TAAACCT
10567934 TAAACCT
1 TAAACCT
*
10567941 CAAACCT
1 TAAACCT
10567948 TAAACCT
1 TAAACCT
*
10567955 TAAATCT
1 TAAACCT
10567962 TAA
1 TAA
10567965 TCCAAACCCC
Statistics
Matches: 91, Mismatches: 17, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
5 11 0.12
6 18 0.20
7 55 0.60
8 7 0.08
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:10567929 original size:26 final size:26
Alignment explanation
Indices: 10567900--10567958 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
10567890 TTAAACTAGC
* *
10567900 CCTTAAACCATACCTTAAACCCTT-AA
1 CCTTAAACCAAACCTCAAA-CCTTAAA
*
10567926 CCTTAAACTAAACCTCAAACCTTAAA
1 CCTTAAACCAAACCTCAAACCTTAAA
10567952 CCTTAAA
1 CCTTAAA
10567959 TCTTAATCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.25
Consensus pattern (26 bp):
CCTTAAACCAAACCTCAAACCTTAAA
Found at i:10567937 original size:19 final size:19
Alignment explanation
Indices: 10567876--10567952 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
10567866 ATCCTAAACC
10567876 CTAAACCCTTAACCTTAAA
1 CTAAACCCTTAACCTTAAA
* * *
10567895 CT-AGCCCTTAAACCAT-AC
1 CTAAACCCTT-AACCTTAAA
10567913 CTTAAACCCTTAACCTTAAA
1 C-TAAACCCTTAACCTTAAA
*
10567933 CTAAA-CCTCAAACCTTAAA
1 CTAAACCCT-TAACCTTAAA
10567952 C
1 C
10567953 CTTAAATCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 11 0.24
19 27 0.59
20 8 0.17
ACGTcount: A:0.40, C:0.34, G:0.01, T:0.25
Consensus pattern (19 bp):
CTAAACCCTTAACCTTAAA
Found at i:10567972 original size:33 final size:32
Alignment explanation
Indices: 10567911--10567986 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
10567901 CTTAAACCAT
* *
10567911 ACCTTAAACCCTTAACCTTAAACTAAACCTCAA
1 ACCTTAAA-CCTTAACCTTAAACCAAACCCCAA
* *
10567944 ACCTTAAACCTTAAATCTTAATCCAAACCCCAA
1 ACCTTAAACCTT-AACCTTAAACCAAACCCCAA
*
10567977 ACCCTAAACC
1 ACCTTAAACC
10567987 ATAAGCCCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (32 bp):
ACCTTAAACCTTAACCTTAAACCAAACCCCAA
Found at i:10569713 original size:20 final size:21
Alignment explanation
Indices: 10569690--10569729 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10569680 AAATGAAAAC
10569690 AAAAACAAA-AAAAAAGAATA
1 AAAAACAAAGAAAAAAGAATA
*
10569710 AAAAGCAAAGAAAAAAGAAT
1 AAAAACAAAGAAAAAAGAAT
10569730 GGAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAACAAAGAAAAAAGAATA
Found at i:10569723 original size:21 final size:19
Alignment explanation
Indices: 10569690--10569748 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
10569680 AAATGAAAAC
10569690 AAAAACAAAAAAAAAGAAT
1 AAAAACAAAAAAAAAGAAT
10569709 AAAAAGCAAAGAAAAAAGAAT
1 AAAAA-CAAA-AAAAAAGAAT
** * *
10569730 GGAAAGAAAAAAAATGAAT
1 AAAAACAAAAAAAAAGAAT
10569749 TGCTTGAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 14 0.41
20 7 0.21
21 13 0.38
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (19 bp):
AAAAACAAAAAAAAAGAAT
Found at i:10569745 original size:15 final size:15
Alignment explanation
Indices: 10569702--10569745 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
10569692 AAACAAAAAA
*
10569702 AAAGAATAAAAA-GC
1 AAAGAAAAAAAATGC
*
10569716 AAAGAAAAAAGAATGG
1 AAAGAAAAAA-AATGC
10569732 AAAGAAAAAAAATG
1 AAAGAAAAAAAATG
10569746 AATTGCTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.35
15 6 0.23
16 11 0.42
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (15 bp):
AAAGAAAAAAAATGC
Found at i:10569835 original size:19 final size:21
Alignment explanation
Indices: 10569813--10569851 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
10569803 TTTTACTAAT
10569813 TTTTCTTTT-TTTT-TTTGTG
1 TTTTCTTTTGTTTTGTTTGTG
10569832 TTTTCTTTTGTTTTGTTTGT
1 TTTTCTTTTGTTTTGTTTGT
10569852 TACATACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (21 bp):
TTTTCTTTTGTTTTGTTTGTG
Found at i:10578001 original size:21 final size:21
Alignment explanation
Indices: 10577945--10577994 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
10577935 TTTATTTTTC
*
10577945 TATTTTGATTTTGATTTTGATT
1 TATTTT-ATGTTGATTTTGATT
*
10577967 TATTTTATGTTGATTTTTATGT
1 TATTTTATGTTGATTTTGAT-T
10577989 TATTTT
1 TATTTT
10577995 TTATGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (21 bp):
TATTTTATGTTGATTTTGATT
Found at i:10578015 original size:3 final size:3
Alignment explanation
Indices: 10578001--10578034 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
10577991 TTTTTTATGA
* *
10578001 TAT TAT TGT TAT TAT TAT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10578035 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10578019 original size:15 final size:15
Alignment explanation
Indices: 10578001--10578034 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
10577991 TTTTTTATGA
10578001 TATTATTGTTATTAT
1 TATTATTGTTATTAT
10578016 TATTATTGTTATTAT
1 TATTATTGTTATTAT
10578031 TATT
1 TATT
10578035 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TATTATTGTTATTAT
Found at i:10578262 original size:17 final size:18
Alignment explanation
Indices: 10578215--10578264 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
10578205 TAATTTTTGC
10578215 TAAAAGAAT-AATAAATTA
1 TAAAAGAATAAATAAA-TA
*
10578233 TAAAAAATGATAAATAAA-A
1 TAAAAGA--ATAAATAAATA
10578252 TAAAAGAATAAAT
1 TAAAAGAATAAAT
10578265 TGTTTAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 7 0.26
20 2 0.07
21 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
TAAAAGAATAAATAAATA
Found at i:10578631 original size:4 final size:4
Alignment explanation
Indices: 10578622--10578648 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10578612 CATAATAAAG
10578622 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
10578649 CCTTTAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:10590424 original size:40 final size:40
Alignment explanation
Indices: 10590339--10590425 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
10590329 TGCTTCTCAA
* * *
10590339 CCTTTTGA-ATTTAAAGTTCGTTGCCTCTGGTCAGATGAG
1 CCTTTTAACATTTAAAATTCGTTGCCTCTGGTCAGAAGAG
10590378 CCTTTTAACATTTAAAATTCGTTGCCTCTGGTCA-AAGAAG
1 CCTTTTAACATTTAAAATTCGTTGCCTCTGGTCAGAAG-AG
*
10590418 CTTTTTAA
1 CCTTTTAA
10590426 TTTTAAGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 9 0.21
40 33 0.79
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.39
Consensus pattern (40 bp):
CCTTTTAACATTTAAAATTCGTTGCCTCTGGTCAGAAGAG
Found at i:10590559 original size:33 final size:33
Alignment explanation
Indices: 10590517--10590582 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
10590507 CAAATTTTTA
* *
10590517 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCC
1 ATTTAAAGTTCGTTGCCTCTGGTTAAAGGAGCC
*
10590550 ATTTAAAGTTCGTTGCCTCTGGTTAAATGAGCC
1 ATTTAAAGTTCGTTGCCTCTGGTTAAAGGAGCC
10590583 TTTTTAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (33 bp):
ATTTAAAGTTCGTTGCCTCTGGTTAAAGGAGCC
Found at i:10590637 original size:40 final size:40
Alignment explanation
Indices: 10590549--10590731 Score: 226
Period size: 40 Copynumber: 4.5 Consensus size: 40
10590539 TTAAAGGAGC
* *
10590549 CATTTAAAGTTCGTTGCCTCTGGTTA-AATGAGCCTTTTTAA
1 CATTTAAAGTTTGTTGCCTCTGGTGAGAA-GAG-CTTTTTAA
* *
10590590 CATTTAAAATTTGTTGCCTCTAGTGAGAAGAGCTTTTTAA
1 CATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAA
* *
10590630 CATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCCTTTTAA
1 CATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAA
* * * *
10590670 CATTTAAAGTCTGTTGCCTCTGGTCAGAGGAGCTTTTTGA
1 CATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAA
*
10590710 -ATTTAAAGTTTCGTAGCCTCTG
1 CATTTAAAGTTT-GTTGCCTCTG
10590732 TTTAAATGAG
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 10 0.08
40 89 0.71
41 25 0.20
42 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (40 bp):
CATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAA
Found at i:10590651 original size:81 final size:81
Alignment explanation
Indices: 10590549--10590746 Score: 265
Period size: 80 Copynumber: 2.5 Consensus size: 81
10590539 TTAAAGGAGC
* *
10590549 CATTTAAAGTTCGTTGCCTCTGGTTAAATGAGCCTTTTTAACATTTAAAATTTGTTGCCTCTAGT
1 CATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCCTTTTTAACATTTAAAATCTGTTGCCTCTAGT
*
10590614 GAGAAGAGCTTTTTAA
66 CAGAAGAGCTTTTTAA
* * * * *
10590630 CATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCC-TTTTAACATTTAAAGTCTGTTGCCTCTGGT
1 CATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCCTTTTTAACATTTAAAATCTGTTGCCTCTAGT
* *
10590694 CAGAGGAGCTTTTTGA
66 CAGAAGAGCTTTTTAA
* *
10590710 -ATTTAAAGTTTCGTAGCCTCTGTTTAAATGAGCCTTT
1 CATTTAAAGTTT-GTTGCCTCTGGTTAAATGAGCCTTT
10590747 CAAATTTTCT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 11 0.11
80 57 0.57
81 32 0.32
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (81 bp):
CATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCCTTTTTAACATTTAAAATCTGTTGCCTCTAGT
CAGAAGAGCTTTTTAA
Found at i:10591855 original size:3 final size:3
Alignment explanation
Indices: 10591847--10591899 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
10591837 TTTTTTATGA
*
10591847 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10591895 TAT TA
1 TAT TA
10591900 ATTTTTTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10592140 original size:17 final size:18
Alignment explanation
Indices: 10592093--10592142 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
10592083 TAATTTTTAC
10592093 TAAAAGAAT-AATAAATTA
1 TAAAAGAATAAATAAA-TA
*
10592111 TAAAAAATGATAAATAAA-A
1 TAAAAGA--ATAAATAAATA
10592130 TAAAAGAATAAAT
1 TAAAAGAATAAAT
10592143 TATTTAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 7 0.26
20 2 0.07
21 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
TAAAAGAATAAATAAATA
Found at i:10592330 original size:14 final size:13
Alignment explanation
Indices: 10592300--10592339 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
10592290 TAGATAATGT
*
10592300 AAAACAATAATAA
1 AAAATAATAATAA
10592313 AAAATAATAATGAA
1 AAAATAATAAT-AA
10592327 AAAATAATAATAA
1 AAAATAATAATAA
10592340 TTGATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:10593365 original size:57 final size:57
Alignment explanation
Indices: 10593217--10593395 Score: 168
Period size: 58 Copynumber: 3.1 Consensus size: 57
10593207 TGTAAATGGC
* * * ** **
10593217 AAAAATATTTCTCTTTTAAATGATAAATTATTATAATGCTTTTTATTTCTTCAATGAT
1 AAAAATATCTCTCTTATAAATGATAAATTATTATAATAC-CCTTATTTCTAAAATGAT
* *
10593275 AAAAATATCCCTCTTATAAAT-ATCAAATCATTATAATACCACTTATATT-TAAAATGAT
1 AAAAATATCTCTCTTATAAATGAT-AAATTATTATAATACC-CTTAT-TTCTAAAATGAT
* * * * *
10593333 -GAAATATCTCTCTTATAAATGATAAATTATTATGATACCCTTATGTC-ATAATTAT
1 AAAAATATCTCTCTTATAAATGATAAATTATTATAATACCCTTATTTCTAAAATGAT
10593388 AAAAATAT
1 AAAAATAT
10593396 TCTTCATGTT
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
55 7 0.07
56 11 0.11
57 34 0.35
58 44 0.45
59 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (57 bp):
AAAAATATCTCTCTTATAAATGATAAATTATTATAATACCCTTATTTCTAAAATGAT
Found at i:10594408 original size:14 final size:14
Alignment explanation
Indices: 10594389--10594415 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10594379 TATTTTAAAT
10594389 TATTTTTATATTAA
1 TATTTTTATATTAA
10594403 TATTTTTATATTA
1 TATTTTTATATTA
10594416 TAAAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTATATTAA
Found at i:10595938 original size:50 final size:50
Alignment explanation
Indices: 10595862--10595997 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 50
10595852 ATAATTGCCT
* * * *
10595862 CTGCATAATTGTTTGGGTCATGCATTTGCATCATTTAAGGAATTTATAAA
1 CTGCATAATTGTTTGGATCATTCATTTGCATCATTTAAGAAATTTAAAAA
* **
10595912 CTGCATAATTGTTTGGATCATTCATTTACATCATTTGTGAAATTTAAAAA
1 CTGCATAATTGTTTGGATCATTCATTTGCATCATTTAAGAAATTTAAAAA
* * * *
10595962 TTGCATCATTGTTTGGACCATGTC-TGTGCATCATTT
1 CTGCATAATTGTTTGGATCAT-TCATTTGCATCATTT
10595998 GGTGAAAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 71 0.97
51 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (50 bp):
CTGCATAATTGTTTGGATCATTCATTTGCATCATTTAAGAAATTTAAAAA
Found at i:10596757 original size:44 final size:44
Alignment explanation
Indices: 10596703--10596803 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
10596693 TGGTTATGAA
10596703 TTTTAAAATTTTATAGCATTTAGTTAAACGAACTTTTTTATTTT
1 TTTTAAAATTTTATAGCATTTAGTTAAACGAACTTTTTTATTTT
* * * * * * ** *
10596747 TTTTAAAATTTCATTGCCTTTGGTTAGAGGAGTTTTTTTTTTTT
1 TTTTAAAATTTTATAGCATTTAGTTAAACGAACTTTTTTATTTT
*
10596791 TTTTCAAATTTTA
1 TTTTAAAATTTTA
10596804 AAGTTTCATA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (44 bp):
TTTTAAAATTTTATAGCATTTAGTTAAACGAACTTTTTTATTTT
Found at i:10596983 original size:43 final size:40
Alignment explanation
Indices: 10596931--10597069 Score: 118
Period size: 42 Copynumber: 3.3 Consensus size: 40
10596921 TTCTTTCATT
10596931 TTTTAAAAGTTTCATTATGTTTGGTTAAAGAAGTCTTTTTAAAA
1 TTTT-AAAGTTTCA-TATGTTTGGTTAAAG-AG-CTTTTTAAAA
** * * * *
10596975 TTTTAAAGTTTCAATACCTATAGTTACAGGAGCTTTTTAAAT
1 TTTTAAAGTTTC-ATATGTTTGGTTA-AAGAGCTTTTTAAAA
* *
10597017 TTTTAAAATTTCA-ATGCCTTTGCTTAAATGAGCTTTTTAAAA
1 TTTTAAAGTTTCATATG--TTTGGTTAAA-GAGCTTTTTAAAA
10597059 TTTTAAAGTTT
1 TTTTAAAGTTT
10597070 TACAACCTCT
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 47 0.63
43 18 0.24
44 7 0.09
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (40 bp):
TTTTAAAGTTTCATATGTTTGGTTAAAGAGCTTTTTAAAA
Found at i:10597015 original size:42 final size:42
Alignment explanation
Indices: 10596955--10597396 Score: 146
Period size: 42 Copynumber: 10.6 Consensus size: 42
10596945 TTATGTTTGG
*
10596955 TTAAAGAAGTCTTTTTAAAATTTTAAAGTTTCAATACCTATAG-
1 TTAAAGGAG-CTTTTTAAAATTTTAAAGTTTCAATACCT-TAGC
* * * * *
10596998 TTACAGGAGCTTTTTAAATTTTTAAAATTTCAATGCCTTTGC
1 TTAAAGGAGCTTTTTAAAATTTTAAAGTTTCAATACCTTAGC
* * *
10597040 TTAAATGAGCTTTTTAAAATTTTAAAGTTTTACA-ACCTCTA-A
1 TTAAAGGAGCTTTTTAAAATTTTAAAGTTTCA-ATACCT-TAGC
* ** * * ** * * * * * *
10597082 TTAGATAAGCTCTTTCATTTTTTAAAAGGTTCATTGCATTTGG
1 TTAAAGGAGCTTTTTAAAATTTT-AAAGTTTCAATACCTTAGC
* * * * *
10597125 TTAGAGGAGCCTTTTTAAAAATTTTAAAGTTTTAATATCTTTGG
1 TTAAAGGAG-CTTTTT-AAAATTTTAAAGTTTCAATACCTTAGC
* * * * * *
10597169 TTAGAGAAG-TATTTTAAATTTTTAAAATTTTAATACCTCTTG-
1 TTAAAGGAGCT-TTTTAAAATTTTAAAGTTTCAATACCT-TAGC
* * *
10597211 TTAAAAGAG-TCTTTTCAAATTCTAAAGTTTCAATACC-T--C
1 TTAAAGGAGCT-TTTTAAAATTTTAAAGTTTCAATACCTTAGC
* * ** * * *
10597250 ----AGGTGCCTTTTAATTTTTTAAAGTTTTAATACCTTTGGT
1 TTAAAGGAGCTTTTTAAAATTTTAAAGTTTCAATACC-TTAGC
* * * * *
10597289 TTGAA-GAG-TCTTTTAAATTTTTAAAGTTTTAATGA-CTTTGA
1 TTAAAGGAGCT-TTTTAAAATTTTAAAGTTTCAAT-ACCTTAGC
* * *
10597330 TTAAAGAAGCTTTTTAAATTTTTAAAGTTTCAATACTTCTAG-
1 TTAAAGGAGCTTTTTAAAATTTTAAAGTTTCAATACCT-TAGC
* *
10597372 TTAGAA-GAGCCTTTTAAATTTTTAA
1 TTA-AAGGAGCTTTTTAAAATTTTAA
10597397 TACCTCTGTT
Statistics
Matches: 299, Mismatches: 73, Indels: 55
0.70 0.17 0.13
Matches are distributed among these distances:
35 24 0.08
37 1 0.00
40 1 0.00
41 10 0.03
42 193 0.65
43 39 0.13
44 26 0.09
45 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (42 bp):
TTAAAGGAGCTTTTTAAAATTTTAAAGTTTCAATACCTTAGC
Found at i:10597065 original size:84 final size:83
Alignment explanation
Indices: 10596965--10597396 Score: 262
Period size: 84 Copynumber: 5.2 Consensus size: 83
10596955 TTAAAGAAGT
* *
10596965 CTTTTTAAAATTTTAAAGTTTCAATACCTATAGTTACAGGAGCTTTTTAAATTTTTAAAATTTCA
1 CTTTTTAAAATTTTAAAGTTTCAATACCTATAGTTAGAGAAGCTTTTTAAATTTTTAAAATTTCA
*
10597030 ATGCCTTTGCTTAAATGAG
66 ATGCCTTTG-TTAAAAGAG
* * * * * * * *
10597049 CTTTTTAAAATTTTAAAGTTTTACA-ACCTCTAATTAGATAAGCTCTTTCATTTTTTAAAAGGTT
1 CTTTTTAAAATTTTAAAGTTTCA-ATACCTATAGTTAGAGAAGCTTTTTAAATTTTTAAAA-TTT
* * * *
10597113 CATTGCATTTGGTTAGAGGAG
64 CAATGCCTTT-GTTAAAAGAG
* * * *
10597134 CCTTTTTAAAAATTTTAAAGTTTTAATATCTTTGGTTAGAGAAG-TATTTTAAATTTTTAAAATT
1 -CTTTTT-AAAATTTTAAAGTTTCAATACCTATAGTTAGAGAAGCT-TTTTAAATTTTTAAAATT
* *
10597198 TTAATACCTCTTGTTAAAAGAG
63 TCAATGCCT-TTGTTAAAAGAG
* * * * * * * *
10597220 -TCTTTTCAAATTCTAAAGTTTCAATACC-----TCAG-G-TGCCTTTTAATTTTTTAAAGTTTT
1 CT-TTTTAAAATTTTAAAGTTTCAATACCTATAGTTAGAGAAGCTTTTTAAATTTTTAAAATTTC
* **
10597277 AATACCTTTGGTTTGAAGAG
65 AATGCCTTT-GTTAAAAGAG
* * * * *
10597297 -TCTTTTAAATTTTTAAAGTTTTAATGA-CT-TTGATTAAAGAAGCTTTTTAAATTTTTAAAGTT
1 CT-TTTTAAAATTTTAAAGTTTCAAT-ACCTATAG-TTAGAGAAGCTTTTTAAATTTTTAAAATT
* *
10597359 TCAAT-ACTTCTAGTTAGAAGAG
63 TCAATGCCTT-T-GTTAAAAGAG
* *
10597381 CCTTTTAAATTTTTAA
1 CTTTTTAAAATTTTAA
10597397 TACCTCTGTT
Statistics
Matches: 273, Mismatches: 54, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
76 2 0.01
77 56 0.21
78 2 0.01
79 3 0.01
82 2 0.01
83 4 0.01
84 115 0.42
85 22 0.08
86 23 0.08
87 44 0.16
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (83 bp):
CTTTTTAAAATTTTAAAGTTTCAATACCTATAGTTAGAGAAGCTTTTTAAATTTTTAAAATTTCA
ATGCCTTTGTTAAAAGAG
Found at i:10597239 original size:171 final size:170
Alignment explanation
Indices: 10596912--10597240 Score: 421
Period size: 171 Copynumber: 1.9 Consensus size: 170
10596902 TAGCCTCTGG
* * ** *
10596912 TTAGAAAAGTTCTTTCATTTTTTAAAAGTTTCATTATGTTTGGTTAAAGAAGTCTTTTTAAAATT
1 TTAGAAAAGCTCTTTCATTTTTTAAAAGGTTCATTACATTTGGTTAAAGAAGCCTTTTTAAAATT
* *
10596977 TTAAAGTTTCAATACCTATAGTTACAGGAGCTTTTTAAATTTTTAAAATTTCAATGCCTTTGCTT
66 TTAAAGTTTCAATACCTATAGTTACAGAAGCTTTTTAAATTTTTAAAATTTCAATACCTTTGCTT
* *
10597042 AAATGAGCTTTTTAAAATTTTAAAGTTTTACAACCTCTAA
131 AAAAGAGCTTTTTAAAATTCTAAAGTTTTACAACCTCTAA
* * * *
10597082 TTAGATAAGCTCTTTCATTTTTTAAAAGGTTCATTGCATTTGGTTAGAGGAGCCTTTTTAAAAAT
1 TTAGAAAAGCTCTTTCATTTTTTAAAAGGTTCATTACATTTGGTTAAAGAAGCCTTTTT-AAAAT
* * * * * *
10597147 TTTAAAGTTTTAATATCTTTGGTTAGAGAAG-TATTTTAAATTTTTAAAATTTTAATACCTCTTG
65 TTTAAAGTTTCAATACCTATAGTTACAGAAGCT-TTTTAAATTTTTAAAATTTCAATACCT-TTG
*
10597211 -TTAAAAGAG-TCTTTTCAAATTCTAAAGTTT
128 CTTAAAAGAGCT-TTTTAAAATTCTAAAGTTT
10597241 CAATACCTCA
Statistics
Matches: 135, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
170 52 0.39
171 80 0.59
172 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.46
Consensus pattern (170 bp):
TTAGAAAAGCTCTTTCATTTTTTAAAAGGTTCATTACATTTGGTTAAAGAAGCCTTTTTAAAATT
TTAAAGTTTCAATACCTATAGTTACAGAAGCTTTTTAAATTTTTAAAATTTCAATACCTTTGCTT
AAAAGAGCTTTTTAAAATTCTAAAGTTTTACAACCTCTAA
Found at i:10597286 original size:119 final size:119
Alignment explanation
Indices: 10597146--10597365 Score: 306
Period size: 119 Copynumber: 1.8 Consensus size: 119
10597136 TTTTTAAAAA
*
10597146 TTTTAAAGTTTTAATATCTTTGGTTAG-AGAAGTATTTTAAATTTTTAAAATTTTAAT-ACCTCT
1 TTTTAAAGTTTTAATACCTTTGGTTAGAAG-AGTATTTTAAATTTTTAAAATTTTAATGA-CT-T
10597209 TG-TTAAA-AGAGTCTTTTCAAA-TTCTAAAGTTTCAATACCTCAGGTGCCTTTTAATT
63 TGATTAAAGA-AG-CTTTTCAAATTTCTAAAGTTTCAATACCTCAGGTGCCTTTTAATT
* * *
10597265 TTTTAAAGTTTTAATACCTTTGGTTTGAAGAGTCTTTTAAATTTTTAAAGTTTTAATGACTTTGA
1 TTTTAAAGTTTTAATACCTTTGGTTAGAAGAGTATTTTAAATTTTTAAAATTTTAATGACTTTGA
* *
10597330 TTAAAGAAGCTTTTTAAATTTTTAAAGTTTCAATAC
66 TTAAAGAAGCTTTTCAAATTTCTAAAGTTTCAATAC
10597366 TTCTAGTTAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
118 11 0.12
119 75 0.83
120 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (119 bp):
TTTTAAAGTTTTAATACCTTTGGTTAGAAGAGTATTTTAAATTTTTAAAATTTTAATGACTTTGA
TTAAAGAAGCTTTTCAAATTTCTAAAGTTTCAATACCTCAGGTGCCTTTTAATT
Found at i:10600384 original size:17 final size:16
Alignment explanation
Indices: 10600362--10600405 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
10600352 TTTTAATTAA
*
10600362 ATTTTAATTTAAAAAC
1 ATTTTAATATAAAAAC
*
10600378 ATATTTAAATATAAAAAT
1 AT-TTT-AATATAAAAAC
10600396 ATTTTAATAT
1 ATTTTAATAT
10600406 TTGAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAATATAAAAAC
Found at i:10600399 original size:16 final size:17
Alignment explanation
Indices: 10600373--10600405 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10600363 TTTTAATTTA
10600373 AAAACATATTTAAATAT
1 AAAACATATTTAAATAT
*
10600390 AAAA-ATATTTTAATAT
1 AAAACATATTTAAATAT
10600406 TTGAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAACATATTTAAATAT
Found at i:10603750 original size:3 final size:3
Alignment explanation
Indices: 10603742--10603774 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10603732 CTTTTCAAAA
10603742 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10603775 TTCAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10604488 original size:10 final size:10
Alignment explanation
Indices: 10604473--10604573 Score: 68
Period size: 10 Copynumber: 10.4 Consensus size: 10
10604463 TAGTATTAAA
10604473 AAAAATTTTT
1 AAAAATTTTT
10604483 AAAAA-TTTT
1 AAAAATTTTT
10604492 -AAAATTTTCT
1 AAAAATTTT-T
*
10604502 -AAATTTTTT
1 AAAAATTTTT
** *
10604511 TTAATTTTTT
1 AAAAATTTTT
10604521 AAAAA-TTTT
1 AAAAATTTTT
**
10604530 AAAAATTTCC
1 AAAAATTTTT
10604540 AAAAA-TTTT
1 AAAAATTTTT
* **
10604549 AAAAACTTCA
1 AAAAATTTTT
10604559 AAAAATTTTT
1 AAAAATTTTT
10604569 CAAAA
1 -AAAA
10604574 CTTCAAAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
8 4 0.06
9 24 0.34
10 39 0.55
11 4 0.06
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:10604497 original size:8 final size:9
Alignment explanation
Indices: 10604473--10604567 Score: 64
Period size: 9 Copynumber: 10.0 Consensus size: 9
10604463 TAGTATTAAA
10604473 AAAAATTTTT
1 AAAAA-TTTT
10604483 AAAAATTTT
1 AAAAATTTT
*
10604492 AAAATTTTCT
1 AAAAATTT-T
**
10604502 AAATTTTTTT
1 AAA-AATTTT
* **
10604512 TAATTTTTT
1 AAAAATTTT
10604521 AAAAATTTT
1 AAAAATTTT
*
10604530 AAAAATTTCC
1 AAAAATTT-T
10604540 AAAAATTTT
1 AAAAATTTT
**
10604549 AAAAACTTCA
1 AAAAA-TTTT
10604559 AAAAATTTT
1 AAAAATTTT
10604568 TCAAAACTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
9 38 0.55
10 27 0.39
11 4 0.06
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (9 bp):
AAAAATTTT
Found at i:10604504 original size:19 final size:19
Alignment explanation
Indices: 10604474--10604567 Score: 91
Period size: 19 Copynumber: 5.0 Consensus size: 19
10604464 AGTATTAAAA
10604474 AAAATTTT-TAAAAATTTT
1 AAAATTTTCTAAAAATTTT
**
10604492 AAAATTTTCTAAATTTTTT
1 AAAATTTTCTAAAAATTTT
** *
10604511 TTAATTTTTTAAAAATTTT
1 AAAATTTTCTAAAAATTTT
* *
10604530 AAAAATTTCCAAAAATTTT
1 AAAATTTTCTAAAAATTTT
** *
10604549 AAAAACTTCAAAAAATTTT
1 AAAATTTTCTAAAAATTTT
10604568 TCAAAACTTC
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
18 8 0.13
19 53 0.87
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTTTCTAAAAATTTT
Found at i:10604563 original size:20 final size:20
Alignment explanation
Indices: 10604521--10604583 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
10604511 TTAATTTTTT
* *
10604521 AAAAATTTTAAAAATTTC-C
1 AAAAATTTTAAAAACTTCAA
10604540 AAAAATTTTAAAAACTTCAA
1 AAAAATTTTAAAAACTTCAA
* *
10604560 AAAATTTTTCAAAACTTCAA
1 AAAAATTTTAAAAACTTCAA
10604580 AAAA
1 AAAA
10604584 TTCAAAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATTTTAAAAACTTCAA
Found at i:10604581 original size:19 final size:18
Alignment explanation
Indices: 10604521--10604605 Score: 80
Period size: 19 Copynumber: 4.5 Consensus size: 18
10604511 TTAATTTTTT
*
10604521 AAAAATTTTAAAAATTTCC
1 AAAAATTTTAAAAACTT-C
10604540 AAAAATTTTAAAAACTTC
1 AAAAATTTTAAAAACTTC
*
10604558 AAAAAATTTTTCAAAACTTC
1 -AAAAA-TTTTAAAAACTTC
* * * *
10604578 AAAAAATTCAAAACAATTA
1 AAAAATTTTAAAA-ACTTC
10604597 AAAAATTTT
1 AAAAATTTT
10604606 TTTTTAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
18 6 0.11
19 36 0.67
20 12 0.22
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTTTAAAAACTTC
Found at i:10604584 original size:20 final size:19
Alignment explanation
Indices: 10604521--10604585 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
10604511 TTAATTTTTT
* *
10604521 AAAAATTTTAAAAATTTCC
1 AAAAATTTTAAAAACTTCA
10604540 AAAAATTTTAAAAACTTCA
1 AAAAATTTTAAAAACTTCA
*
10604559 AAAAATTTTTCAAAACTTCA
1 AAAAA-TTTTAAAAACTTCA
10604579 AAAAATT
1 AAAAATT
10604586 CAAAACAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 24 0.57
20 18 0.43
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTTTAAAAACTTCA
Found at i:10604702 original size:18 final size:18
Alignment explanation
Indices: 10604648--10604702 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 18
10604638 TTAATTTATT
*
10604648 AAAAAATATT-TAATTTC
1 AAAAAATATTAAAATTTC
*
10604665 AAAAAAT-TAACAAATTTTTC
1 AAAAAATATTA-AAA--TTTC
10604685 AAAAAATATTAAAATTTC
1 AAAAAATATTAAAATTTC
10604703 TTTACAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
16 1 0.03
17 7 0.23
18 6 0.20
20 14 0.47
21 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAATATTAAAATTTC
Found at i:10604810 original size:21 final size:21
Alignment explanation
Indices: 10604767--10604810 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
10604757 AAAAAATTCT
*
10604767 AAAAATTATTTTTAAATTTACA
1 AAAAAATATTTTT-AATTTACA
10604789 AAAAAATATTTTT-ATTTCACA
1 AAAAAATATTTTTAATTT-ACA
10604810 A
1 A
10604811 CAAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 12 0.60
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAAATATTTTTAATTTACA
Found at i:10604923 original size:24 final size:23
Alignment explanation
Indices: 10604871--10604924 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
10604861 TAAATTTATA
*
10604871 AAAATTATAAAATTAAATATTTT
1 AAAATTATAAAATTAAATATTTG
*
10604894 ATAAATTAT-AAATTATCATAATTTG
1 A-AAATTATAAAATTA-AAT-ATTTG
10604919 AAAATT
1 AAAATT
10604925 TTTAGAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 14 0.54
25 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
AAAATTATAAAATTAAATATTTG
Found at i:10610554 original size:53 final size:52
Alignment explanation
Indices: 10610373--10610598 Score: 160
Period size: 53 Copynumber: 4.3 Consensus size: 52
10610363 AAAAAAATTC
* * * ** *
10610373 ATATTTCAA-TTTTTCTCAAAAATTTGAAATTATTT--TAAAAGGAAA-ATTT
1 ATATTTTAACTTTTTCT-TAAATTTTGAAATTATTTCATTTAAGGAAAGATTG
* * *
10610422 ATATTTTAA-TTCTTTCTTAAAACCTTTAAAATTGTTTTCATTTAAGGAAAGATTG
1 ATATTTTAACTT-TTTCTT-AAA-TTTTGAAATT-ATTTCATTTAAGGAAAGATTG
* * *
10610477 ATATTTCAA-TTTTTGCCTTAAATTTTGAATTTATTTCCTTTAAGGAAAGATTG
1 ATATTTTAACTTTTT--CTTAAATTTTGAAATTATTTCATTTAAGGAAAGATTG
* * * * **
10610530 ATATTTTAACTCTTTCTTCTAATTTTGAAATTATTT-GTTATAAGAAAATTTTG
1 ATATTTTAACTTTTTCTT-AAATTTTGAAATTATTTCATT-TAAGGAAAGATTG
10610583 ATATTTTAACTTTTTC
1 ATATTTTAACTTTTTC
10610599 CTCAAATGTT
Statistics
Matches: 142, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
49 10 0.07
50 8 0.06
51 8 0.06
52 8 0.06
53 67 0.47
54 22 0.15
55 16 0.11
56 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (52 bp):
ATATTTTAACTTTTTCTTAAATTTTGAAATTATTTCATTTAAGGAAAGATTG
Found at i:10610977 original size:7 final size:7
Alignment explanation
Indices: 10610967--10611094 Score: 53
Period size: 7 Copynumber: 19.4 Consensus size: 7
10610957 AAACATAAAA
10610967 TAAACCT
1 TAAACCT
*
10610974 TAAACTT
1 TAAACCT
*
10610981 TAAACCC
1 TAAACCT
*
10610988 TAAGCC-
1 TAAACCT
*
10610994 -ACATCCT
1 TA-AACCT
*
10611001 -AAACCC
1 TAAACCT
10611007 TAAACCCT
1 TAAA-CCT
10611015 T-AACCT
1 TAAACCT
10611021 TAAA-C-
1 TAAACCT
**
10611026 TAGCCCT
1 TAAACCT
10611033 TAAACC-
1 TAAACCT
* *
10611039 -ATACCC
1 TAAACCT
10611045 TAAACCCT
1 TAAA-CCT
10611053 T-AACCT
1 TAAACCT
10611059 TAAA-C-
1 TAAACCT
10611064 TAAACCT
1 TAAACCT
*
10611071 CAAACCT
1 TAAACCT
10611078 TAAACCT
1 TAAACCT
*
10611085 TAAATCT
1 TAAACCT
10611092 TAA
1 TAA
10611095 TCCAAACCCC
Statistics
Matches: 90, Mismatches: 18, Indels: 26
0.67 0.13 0.19
Matches are distributed among these distances:
5 11 0.12
6 18 0.20
7 55 0.61
8 6 0.07
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:10611059 original size:26 final size:26
Alignment explanation
Indices: 10611030--10611088 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
10611020 TTAAACTAGC
*
10611030 CCTTAAACCATACC-CTAAACCCTT-AA
1 CCTTAAACCAAACCTC-AAA-CCTTAAA
*
10611056 CCTTAAACTAAACCTCAAACCTTAAA
1 CCTTAAACCAAACCTCAAACCTTAAA
10611082 CCTTAAA
1 CCTTAAA
10611089 TCTTAATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.14
26 24 0.83
27 1 0.03
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (26 bp):
CCTTAAACCAAACCTCAAACCTTAAA
Found at i:10611066 original size:19 final size:19
Alignment explanation
Indices: 10611006--10611082 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
10610996 ATCCTAAACC
10611006 CTAAACCCTTAACCTTAAA
1 CTAAACCCTTAACCTTAAA
* * **
10611025 CT-AGCCCTTAAACCATACC
1 CTAAACCCTT-AACCTTAAA
10611044 CTAAACCCTTAACCTTAAA
1 CTAAACCCTTAACCTTAAA
*
10611063 CTAAA-CCTCAAACCTTAAA
1 CTAAACCCT-TAACCTTAAA
10611082 C
1 C
10611083 CTTAAATCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
18 9 0.20
19 31 0.67
20 6 0.13
ACGTcount: A:0.40, C:0.35, G:0.01, T:0.23
Consensus pattern (19 bp):
CTAAACCCTTAACCTTAAA
Found at i:10611076 original size:38 final size:38
Alignment explanation
Indices: 10611003--10611076 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
10610993 CACATCCTAA
** *
10611003 ACCCTAAACCCTTAACCTTAAACTAGCCCTTAAACCAT
1 ACCCTAAACCCTTAACCTTAAACTAAACCTCAAACCAT
10611041 ACCCTAAACCCTTAACCTTAAACTAAACCTCAAACC
1 ACCCTAAACCCTTAACCTTAAACTAAACCTCAAACC
10611077 TTAAACCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.22
Consensus pattern (38 bp):
ACCCTAAACCCTTAACCTTAAACTAAACCTCAAACCAT
Found at i:10612828 original size:20 final size:22
Alignment explanation
Indices: 10612805--10612852 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
10612795 GGTAGAAAAT
10612805 AAAATAAA-AACAAAAA-CAAA-
1 AAAA-AAAGAACAAAAAGCAAAG
*
10612825 AAAAAAAGAATAAAAAGCAAAG
1 AAAAAAAGAACAAAAAGCAAAG
10612847 AAAAAA
1 AAAAAA
10612853 GAATGGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 4 0.17
22 6 0.25
ACGTcount: A:0.83, C:0.06, G:0.06, T:0.04
Consensus pattern (22 bp):
AAAAAAAGAACAAAAAGCAAAG
Found at i:10612852 original size:21 final size:20
Alignment explanation
Indices: 10612816--10612870 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
10612806 AAATAAAAAC
10612816 AAAAACAAAAAAAAAAGAAT
1 AAAAACAAAAAAAAAAGAAT
*
10612836 AAAAAGCAAAGAAAAAAGAAT
1 AAAAA-CAAAAAAAAAAGAAT
** *
10612857 GGAAAGAAAAAAAA
1 AAAAACAAAAAAAA
10612871 TGAATTGCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAGAAT
Found at i:10612872 original size:15 final size:15
Alignment explanation
Indices: 10612829--10612872 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
10612819 AACAAAAAAA
*
10612829 AAAGAATAAAAA-GC
1 AAAGAAAAAAAATGC
*
10612843 AAAGAAAAAAGAATGG
1 AAAGAAAAAA-AATGC
10612859 AAAGAAAAAAAATG
1 AAAGAAAAAAAATG
10612873 AATTGCTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.35
15 6 0.23
16 11 0.42
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (15 bp):
AAAGAAAAAAAATGC
Found at i:10612962 original size:19 final size:21
Alignment explanation
Indices: 10612940--10612978 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
10612930 TTTTACTAAT
10612940 TTTTCTTTT-TTTT-TTTGTG
1 TTTTCTTTTGTTTTGTTTGTG
10612959 TTTTCTTTTGTTTTGTTTGT
1 TTTTCTTTTGTTTTGTTTGT
10612979 TACATACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (21 bp):
TTTTCTTTTGTTTTGTTTGTG
Found at i:10616699 original size:14 final size:14
Alignment explanation
Indices: 10616680--10616707 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10616670 TACATATCCC
10616680 TATGAAATGAAACA
1 TATGAAATGAAACA
10616694 TATGAAATGAAACA
1 TATGAAATGAAACA
10616708 AGTGCAAGCT
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:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
TATGAAATGAAACA
Found at i:10617457 original size:62 final size:62
Alignment explanation
Indices: 10617368--10617503 Score: 166
Period size: 62 Copynumber: 2.2 Consensus size: 62
10617358 CAAAAAAAAA
* * * *
10617368 TTGAAAAGGATTATTGAAGGAGTTTTTGGCCAAAAACACCTTGAATAA-TCTCATTCAATTTT
1 TTGAAAGGGATTATTCAAGGAGCTTTTGGCCAAAAACACCTTGAATAACTC-CATTCAATTAT
* * * *
10617430 TTGAAAGGGATTATTCAATGCGCTTTTGGCCAGAAATACCTTGAATAACTCCATTCAATTAT
1 TTGAAAGGGATTATTCAAGGAGCTTTTGGCCAAAAACACCTTGAATAACTCCATTCAATTAT
* *
10617492 TTGTAAGAGATT
1 TTGAAAGGGATT
10617504 CTTAAAAACA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 61 0.97
63 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (62 bp):
TTGAAAGGGATTATTCAAGGAGCTTTTGGCCAAAAACACCTTGAATAACTCCATTCAATTAT
Found at i:10629956 original size:22 final size:22
Alignment explanation
Indices: 10629917--10629966 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10629907 TTTATTTTTC
*
10629917 TATTTTGATTTTGATTTTGAT-T
1 TATTTTGATGTTGATTTT-ATGT
10629939 TATTTT-ATGTTGATTTTTATGT
1 TATTTTGATGTTGA-TTTTATGT
10629961 TATTTT
1 TATTTT
10629967 TTATGATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (22 bp):
TATTTTGATGTTGATTTTATGT
Found at i:10629973 original size:21 final size:21
Alignment explanation
Indices: 10629928--10629998 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 21
10629918 ATTTTGATTT
*
10629928 TGATTTTGAT-TTATTTTATGT-
1 TGATTTTTATGTTATTTT-T-TA
10629949 TGATTTTTATGTTATTTTTTA
1 TGATTTTTATGTTATTTTTTA
* *
10629970 TGA-TATTATTGTTA-TTATTA
1 TGATTTTTA-TGTTATTTTTTA
*
10629990 TTATTTTTA
1 TGATTTTTA
10629999 AAAAATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 12 0.29
21 22 0.54
22 7 0.17
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (21 bp):
TGATTTTTATGTTATTTTTTA
Found at i:10642557 original size:33 final size:33
Alignment explanation
Indices: 10642515--10642580 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10642505 CAAATTTTTA
** * *
10642515 ATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCC
1 ATTTAAAGTTCATTACCTCTGGTTAAAAGAGCC
*
10642548 ATTTAAAGTTCATTACCTCTGGTTAGAAGAGCC
1 ATTTAAAGTTCATTACCTCTGGTTAAAAGAGCC
10642581 TTTTTAACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (33 bp):
ATTTAAAGTTCATTACCTCTGGTTAAAAGAGCC
Found at i:10642631 original size:40 final size:40
Alignment explanation
Indices: 10642547--10642757 Score: 203
Period size: 40 Copynumber: 5.3 Consensus size: 40
10642537 TTAAAAGAGC
* * * *
10642547 CATTTAAAGTTCATTACCTCTGGTTAGAAGAGCCTTTTTAA
1 CATTTAAAGTTCGTTGCCTTTGGTGAGAAGAG-CTTTTTAA
*
10642588 CATTTAAAGTTCGTTGCCTTTGGTGAGAGGAGCTTTTTAA
1 CATTTAAAGTTCGTTGCCTTTGGTGAGAAGAGCTTTTTAA
* * * *
10642628 CATTTAAAGTTCGTTGTCTCTGGTGAGATGAGCCTTTTAA
1 CATTTAAAGTTCGTTGCCTTTGGTGAGAAGAGCTTTTTAA
* * * *
10642668 CATTTAAAGTCCATTGCCTTTGATGAGAAGAGCCTTTTAA
1 CATTTAAAGTTCGTTGCCTTTGGTGAGAAGAGCTTTTTAA
* * ** * *
10642708 CACTCAAAG-TCTGTTG-CTTCTGGTCTGATGAGCTTTTTGA
1 CATTTAAAGTTC-GTTGCCTT-TGGTGAGAAGAGCTTTTTAA
10642748 -ATTTAAAGTT
1 CATTTAAAGTT
10642758 TCATAGCCTT
Statistics
Matches: 140, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 10 0.07
40 103 0.74
41 27 0.19
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (40 bp):
CATTTAAAGTTCGTTGCCTTTGGTGAGAAGAGCTTTTTAA
Found at i:10642695 original size:80 final size:79
Alignment explanation
Indices: 10642547--10642784 Score: 228
Period size: 80 Copynumber: 3.0 Consensus size: 79
10642537 TTAAAAGAGC
* * * * * * *
10642547 CATTTAAAGTTCATTACCTCTGGTTAGAAGAGCCTTTTTAACATTTAAAGTTCGTTGCCTTTGGT
1 CATTTAAAGTTCGTT-GCTCTGGTCAGATGAGCC-TTTTAACATTTAAAGTCCATTGCCTTTGAT
* *
10642612 GAGAGGAGCTTTTTAA
64 GAGAAGAGCCTTTTAA
*
10642628 CATTTAAAGTTCGTTGTCTCTGGTGAGATGAGCCTTTTAACATTTAAAGTCCATTGCCTTTGATG
1 CATTTAAAGTTCGTTG-CTCTGGTCAGATGAGCCTTTTAACATTTAAAGTCCATTGCCTTTGATG
10642693 AGAAGAGCCTTTTAA
65 AGAAGAGCCTTTTAA
* * * * * * * *
10642708 CACTCAAAG-TCTGTTGCTTCTGGTCTGATGAGCTTTTTGA-ATTTAAAGTTTCATAGCCTTTGT
1 CATTTAAAGTTC-GTTGC-TCTGGTCAGATGAGCCTTTTAACATTTAAAG-TCCATTGCCTTTGA
* *
10642771 TTAGAAAAGCCTTT
63 TGAGAAGAGCCTTT
10642785 CAAATTTTTT
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 11 0.08
80 93 0.70
81 29 0.22
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (79 bp):
CATTTAAAGTTCGTTGCTCTGGTCAGATGAGCCTTTTAACATTTAAAGTCCATTGCCTTTGATGA
GAAGAGCCTTTTAA
Found at i:10642961 original size:6 final size:6
Alignment explanation
Indices: 10642950--10642986 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10642940 ATCTTTTTAT
* *
10642950 ATATTA ATATTA ATATTA ATATTG ATATTA TTATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
10642987 CCTTTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:10643915 original size:3 final size:3
Alignment explanation
Indices: 10643901--10643947 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
10643891 ATTTTTATAA
*
10643901 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10643948 ATTTTTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10644183 original size:17 final size:17
Alignment explanation
Indices: 10644136--10644185 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
10644126 TAATTTTTAC
*
10644136 TAAAAGAAGAATAAATTA
1 TAAAAAAAGAATAAA-TA
*
10644154 TAAAAAATG-ATAAATA
1 TAAAAAAAGAATAAATA
10644170 -AAATAAAAGAATAAAT
1 TAAA-AAAAGAATAAAT
10644186 TATTTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.11
16 6 0.22
17 11 0.41
18 7 0.26
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (17 bp):
TAAAAAAAGAATAAATA
Found at i:10644193 original size:17 final size:17
Alignment explanation
Indices: 10644142--10644198 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
10644132 TTACTAAAAG
*
10644142 AAGAATAAATTATAAAA
1 AAGAATAAATTATATAA
* *
10644159 AATG-ATAAATAAAATAA
1 AA-GAATAAATTATATAA
*
10644176 AAGAATAAATTATTTAA
1 AAGAATAAATTATATAA
*
10644193 ATGAAT
1 AAGAAT
10644199 CTTTTAAATG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
AAGAATAAATTATATAA
Found at i:10645235 original size:50 final size:50
Alignment explanation
Indices: 10645159--10645306 Score: 183
Period size: 50 Copynumber: 2.9 Consensus size: 50
10645149 ATAATTGCCT
* * *
10645159 TTGCATAATTGTTTGGGTCATGCATTTGCATCATTTAG-GGAATTTATAAA
1 TTGCATAATTGTTTGGATCATTCATTTGCATCATTT-GTGAAATTTATAAA
*
10645209 TTGCATGATTGTTTGGATCATTCATTTGCATCATTTGTGAAATTTATAAA
1 TTGCATAATTGTTTGGATCATTCATTTGCATCATTTGTGAAATTTATAAA
* * *
10645259 TTGCATCATTGTTTGGACCATTTC-TATGCATCATTTGGTGAAAATTTA
1 TTGCATAATTGTTTGGATCA-TTCATTTGCATCATTT-GTG-AAATTTA
10645307 AATCATTGTT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
49 1 0.01
50 73 0.84
51 6 0.07
52 7 0.08
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (50 bp):
TTGCATAATTGTTTGGATCATTCATTTGCATCATTTGTGAAATTTATAAA
Done.