Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 125 of 131
Found at i:22742891 original size:44 final size:43
Alignment explanation
Indices: 22742789--22742878 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
22742779 GATTAATTAT
* * * * * **
22742789 TAAATTATCAATTATTTATTACTAAATTATATTGATTTACTTT
1 TAAATTTTCAATGATTAACTACTAAATTATATTGATATACTAC
22742832 TAAATTTTCAATGATTAACTACTAAATTATCATTGATATACTAC
1 TAAATTTTCAATGATTAACTACTAAATTAT-ATTGATATACTAC
22742876 TAA
1 TAA
22742879 GTTATTTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 26 0.67
44 13 0.33
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (43 bp):
TAAATTTTCAATGATTAACTACTAAATTATATTGATATACTAC
Found at i:22742956 original size:22 final size:22
Alignment explanation
Indices: 22742719--22742990 Score: 118
Period size: 22 Copynumber: 12.6 Consensus size: 22
22742709 ATTATCCATC
* * *
22742719 ACTATCAAGTTATTATTGATTT
1 ACTATTAAGTTATCATTAATTT
*
22742741 A-TATTTAA-TTATCAATAATTT
1 ACTA-TTAAGTTATCATTAATTT
* * *
22742762 ATTATTAAGTTATCATTGATTA
1 ACTATTAAGTTATCATTAATTT
* *
22742784 ATTATTAAATTATCAATT-ATTT
1 ACTATTAAGTTATC-ATTAATTT
* * * *
22742806 ATTACTAAATTAT-ATTGATTT
1 ACTATTAAGTTATCATTAATTT
* * * * * *
22742827 ACTTTTAAATTTTCAATGATTA
1 ACTATTAAGTTATCATTAATTT
* * * *
22742849 ACTACTAAATTATCATTGATAT
1 ACTATTAAGTTATCATTAATTT
*
22742871 ACTACTAAGTTAT--TTATGATTT
1 ACTATTAAGTTATCATTA--ATTT
22742893 --T-TTAAGTTTATCAATTAA-TT
1 ACTATTAAG-TTATC-ATTAATTT
* * * *
22742913 ACTATTAAACTGA-AATTGATTT
1 ACTATT-AAGTTATCATTAATTT
*
22742935 ACTGTTAAGTTATCATTAATTT
1 ACTATTAAGTTATCATTAATTT
*
22742957 ACTATTAATTTATCATTAATTT
1 ACTATTAAGTTATCATTAATTT
*
22742979 ATTATTAA-TTAT
1 ACTATTAAGTTAT
22742991 TAATAATTAA
Statistics
Matches: 194, Mismatches: 38, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
19 4 0.02
20 12 0.06
21 43 0.22
22 123 0.63
23 10 0.05
24 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
ACTATTAAGTTATCATTAATTT
Found at i:22742963 original size:11 final size:10
Alignment explanation
Indices: 22742939--22742988 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
22742929 TGATTTACTG
*
22742939 TTAAGTTATCA
1 TTAATTTAT-A
22742950 TTAATTTACTA
1 TTAATTTA-TA
22742961 TTAATTTATCA
1 TTAATTTAT-A
22742972 TTAATTTATTA
1 TTAATTTA-TA
22742983 TTAATT
1 TTAATT
22742989 ATTAATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
10 1 0.03
11 32 0.91
12 2 0.06
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (10 bp):
TTAATTTATA
Found at i:22743395 original size:63 final size:63
Alignment explanation
Indices: 22743321--22743450 Score: 145
Period size: 63 Copynumber: 2.1 Consensus size: 63
22743311 CAATTAAGTT
* ** * *
22743321 ATTATCGATTTACAACT-ATGTTATTAATGATTTACTATTATGCTATGAGTGATTTACTATTAA
1 ATTATCAATTTACAACTAAT-TTACAAATGATTTACTATTAAGCTATGAATGATTTACTATTAA
* * ** * *
22743384 ATTATCAATTTACTATTAATTTACAAATGATTTGTTATTAAGTTATGAATGATTTATTATTAA
1 ATTATCAATTTACAACTAATTTACAAATGATTTACTATTAAGCTATGAATGATTTACTATTAA
22743447 ATTA
1 ATTA
22743451 CGAATGATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 53 0.96
64 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (63 bp):
ATTATCAATTTACAACTAATTTACAAATGATTTACTATTAAGCTATGAATGATTTACTATTAA
Found at i:22743443 original size:22 final size:22
Alignment explanation
Indices: 22743303--22743470 Score: 101
Period size: 22 Copynumber: 7.8 Consensus size: 22
22743293 AAAGATTATC
* * *
22743303 ATGATTAACAATTAAGTTAT-T
1 ATGATTTACTATTAAGTTATGA
* * * *
22743324 ATCGATTTACAACTATGTTATTA
1 AT-GATTTACTATTAAGTTATGA
* *
22743347 ATGATTTACTATTATGCTATGA
1 ATGATTTACTATTAAGTTATGA
* * *
22743369 GTGATTTACTATTAAATTAT-C
1 ATGATTTACTATTAAGTTATGA
* **
22743390 A--ATTTACTATTAATTTACAA
1 ATGATTTACTATTAAGTTATGA
**
22743410 ATGATTTGTTATTAAGTTATGA
1 ATGATTTACTATTAAGTTATGA
* * *
22743432 ATGATTTATTATTAAATTACGA
1 ATGATTTACTATTAAGTTATGA
* *
22743454 ATGATTAACTGTTAAGT
1 ATGATTTACTATTAAGT
22743471 CGTCACTAAT
Statistics
Matches: 113, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.13
20 1 0.01
21 2 0.02
22 93 0.82
23 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (22 bp):
ATGATTTACTATTAAGTTATGA
Found at i:22743590 original size:44 final size:44
Alignment explanation
Indices: 22743505--22743614 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
22743495 TTGATGATTT
* *
22743505 ACTACTAAATTA-TACTAATTTATTTTTAAAATTTCAATTATTA
1 ACTACTAAATTATTAATAATTTATTATTAAAATTTCAATTATTA
* * * *
22743548 ACTACTAAATTATTAATTATTTATTATT-AAGTTATCATTTATTT
1 ACTACTAAATTATTAATAATTTATTATTAAAATT-TCAATTATTA
*
22743592 A-TCACTAAATTATTTATAATTTA
1 ACT-ACTAAATTATTAATAATTTA
22743615 CTACTATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 17 0.30
44 39 0.70
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (44 bp):
ACTACTAAATTATTAATAATTTATTATTAAAATTTCAATTATTA
Found at i:22743604 original size:22 final size:22
Alignment explanation
Indices: 22743533--22743604 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
22743523 TTTATTTTTA
*
22743533 AAATT-TCAATTA-TTAACTACT
1 AAATTATCAATTATTTATC-ACT
* * *
22743554 AAATTATTAATTATTTATTATT
1 AAATTATCAATTATTTATCACT
* *
22743576 AAGTTATCATTTATTTATCACT
1 AAATTATCAATTATTTATCACT
22743598 AAATTAT
1 AAATTAT
22743605 TTATAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
21 5 0.13
22 31 0.79
23 3 0.08
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.50
Consensus pattern (22 bp):
AAATTATCAATTATTTATCACT
Found at i:22743620 original size:22 final size:21
Alignment explanation
Indices: 22743543--22743620 Score: 52
Period size: 22 Copynumber: 3.6 Consensus size: 21
22743533 AAATTTCAAT
* *
22743543 TATTAACTACTAAATTATTAA
1 TATTTACTACTAAATTATTTA
* * *
22743564 TTATTTATTATTAAGTTATCATT-
1 -TATTTACTACTAAATTAT--TTA
22743587 TATTTA-TCACTAAATTATTTA
1 TATTTACT-ACTAAATTATTTA
22743608 TAATTTACTACTA
1 T-ATTTACTACTA
22743621 TAAATTAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 37 0.86
23 1 0.02
24 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (21 bp):
TATTTACTACTAAATTATTTA
Found at i:22743819 original size:22 final size:21
Alignment explanation
Indices: 22743741--22743884 Score: 60
Period size: 22 Copynumber: 6.6 Consensus size: 21
22743731 TTTTAATAAG
* * *
22743741 TTATTATTAATTTACTAGTATA
1 TTATTA-TCATTTACTACTAAA
* *
22743763 TTGTTATGCATTTACAACTATAA
1 TTATTAT-CATTTACTACTA-AA
* *
22743786 -TATAATTGATTTACTACTAAA
1 TTATTA-TCATTTACTACTAAA
** * **
22743807 TTATTATACATTTGTTATTATG
1 TTATTAT-CATTTACTACTAAA
* *
22743829 TTATT-TGATTTACTACTAAG
1 TTATTATCATTTACTACTAAA
*
22743849 TTATCGAT-ATTTGACTACTAAA
1 TTAT-TATCATTT-ACTACTAAA
22743871 TTATTATTCATTTA
1 TTATTA-TCATTTA
22743885 TTATTAAGTT
Statistics
Matches: 88, Mismatches: 24, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
20 13 0.15
21 10 0.11
22 59 0.67
23 6 0.07
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
TTATTATCATTTACTACTAAA
Found at i:22743868 original size:64 final size:64
Alignment explanation
Indices: 22743794--22743919 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
22743784 AATATAATTG
* * *
22743794 ATTTACTACTAAATTATTATACATTTGTTATTATGTTAT-TTGATTTACTACTAAGTTATCGAT
1 ATTTACTACTAAATTATTATACATTTATTATTAAGTTATACTGATTTACTACTAAGTTATCGAT
* *
22743857 ATTTGACTACTAAATTATTATTCATTTATTATTAAGTTATCACTGATTTACTATTAAGTTATC
1 ATTT-ACTACTAAATTATTATACATTTATTATTAAGTTAT-ACTGATTTACTACTAAGTTATC
22743920 ACTTATTAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 4 0.07
64 32 0.58
66 19 0.35
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (64 bp):
ATTTACTACTAAATTATTATACATTTATTATTAAGTTATACTGATTTACTACTAAGTTATCGAT
Found at i:22743905 original size:22 final size:22
Alignment explanation
Indices: 22743834--22743936 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
22743824 TTATGTTATT
*
22743834 TGATTTACTACTAAGTTATCGA-
1 TGATTTACTATTAAGTTATC-AC
* * * *
22743856 T-ATTTGACTACTAAATTATTAT
1 TGATTT-ACTATTAAGTTATCAC
* *
22743878 TCATTTATTATTAAGTTATCAC
1 TGATTTACTATTAAGTTATCAC
22743900 TGATTTACTATTAAGTTATCAC
1 TGATTTACTATTAAGTTATCAC
* *
22743922 TTATTAACTATTAAG
1 TGATTTACTATTAAG
22743937 CTATTGATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.07
22 58 0.87
23 4 0.06
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.47
Consensus pattern (22 bp):
TGATTTACTATTAAGTTATCAC
Found at i:22744941 original size:14 final size:14
Alignment explanation
Indices: 22744909--22744940 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
22744899 TTAAATTAAA
22744909 ATTTTAATAAATGT
1 ATTTTAATAAATGT
22744923 ATTTTAATAAAT-T
1 ATTTTAATAAATGT
22744936 ATTTT
1 ATTTT
22744941 TTAGTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTTTAATAAATGT
Found at i:22745796 original size:14 final size:14
Alignment explanation
Indices: 22745777--22745825 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
22745767 TGTTATGATA
*
22745777 TATAAATTAAAATT
1 TATAAAATAAAATT
***
22745791 TATAAAATATTTTT
1 TATAAAATAAAATT
22745805 TATAAAATAAAA-T
1 TATAAAATAAAATT
22745818 TATAAAAT
1 TATAAAAT
22745826 TTTTGAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAAAATAAAATT
Found at i:22745810 original size:28 final size:26
Alignment explanation
Indices: 22745777--22745829 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
22745767 TGTTATGATA
*
22745777 TATAAATTAAAATTTATAAAATATTTTT
1 TATAAAATAAAA-TTATAAAAT-TTTTT
22745805 TATAAAATAAAATTATAAAATTTTT
1 TATAAAATAAAATTATAAAATTTTT
22745830 GAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAAAATAAAATTATAAAATTTTTT
Found at i:22747523 original size:17 final size:17
Alignment explanation
Indices: 22747501--22747534 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22747491 CTTATTTTTT
22747501 ATATTTAAAAAATATAA
1 ATATTTAAAAAATATAA
**
22747518 ATATTTACTAAATATAA
1 ATATTTAAAAAATATAA
22747535 TACTTGAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATTTAAAAAATATAA
Found at i:22748759 original size:159 final size:159
Alignment explanation
Indices: 22748524--22748819 Score: 386
Period size: 159 Copynumber: 1.9 Consensus size: 159
22748514 TATAAATGAC
** *
22748524 AACTTTTTCACACATATCATCCGTAGAAACCAAGTTCCGTCATTCGAATAAGTTTAATATCATGT
1 AACTTTTTCACACATATCATCCGTAGAAACCAAGTTCAATCATTCGAATAAATTTAATATCATGT
* * *
22748589 ATTGAAGCTATCCAAACTGTT-AAATAGAACAATAA-TAATAATTT-TGCATTTTTACCTATTAA
66 ATTGAAACTATCAAAACTATTAAAATAGAA-AATAATTAATAATTTAT--ATTTTTACCTATTAA
22748651 CGACATAAAAGTCCTAAATAGATGTAAACAAT
128 CGACATAAAAGTCCTAAATAGATGTAAACAAT
* * * *
22748683 AACTTTTTCATACATATCAAT-CGTAGAAACTAAGTTCAAT-ACTTTGGATAAATTTAATATCAT
1 AACTTTTTCACACATATC-ATCCGTAGAAACCAAGTTCAATCA-TTCGAATAAATTTAATATCAT
* ** *
22748746 GTATTGAAACTATCAAAACTATTAAAATAGAATATAATTGTTAATTTATATTTTTACCTTTTAAC
64 GTATTGAAACTATCAAAACTATTAAAATAGAAAATAATTAATAATTTATATTTTTACCTATTAAC
22748811 GACATAAAA
129 GACATAAAA
22748820 AGTTCATTCA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
158 1 0.01
159 99 0.84
160 17 0.14
161 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (159 bp):
AACTTTTTCACACATATCATCCGTAGAAACCAAGTTCAATCATTCGAATAAATTTAATATCATGT
ATTGAAACTATCAAAACTATTAAAATAGAAAATAATTAATAATTTATATTTTTACCTATTAACGA
CATAAAAGTCCTAAATAGATGTAAACAAT
Found at i:22751213 original size:10 final size:9
Alignment explanation
Indices: 22751193--22751226 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
22751183 CATTCACCCA
*
22751193 TTTTTCATT
1 TTTTTTATT
22751202 TTTTTTATT
1 TTTTTTATT
22751211 TTTTTTATT
1 TTTTTTATT
22751220 TTTTTTA
1 TTTTTTA
22751227 AATAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:22751291 original size:41 final size:41
Alignment explanation
Indices: 22751244--22751408 Score: 240
Period size: 41 Copynumber: 4.0 Consensus size: 41
22751234 AAAGCTCCTC
*
22751244 TAAACAGAGGCACCACAACTTTGAAAAATAAAATGCTCTTT
1 TAAACAGAGGCACCACAACTTTGAAAAATAAAATGCTCATT
* *
22751285 TAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTT
1 TAAACAGAGGCACCACAACTTTGAAAAATAAAATGCTCATT
* *
22751326 TAAACAGAGGCATCACAACTTTGAAAAGTAAAATGCTCATT
1 TAAACAGAGGCACCACAACTTTGAAAAATAAAATGCTCATT
* * * *
22751367 CAAACAGAGGTACTACAATTTTGAAAAAATAAAATGCTCATT
1 TAAACAGAGGCACCACAACTTTG-AAAAATAAAATGCTCATT
22751409 GACAATCTTG
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
41 94 0.85
42 17 0.15
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (41 bp):
TAAACAGAGGCACCACAACTTTGAAAAATAAAATGCTCATT
Found at i:22751847 original size:25 final size:25
Alignment explanation
Indices: 22751819--22752002 Score: 147
Period size: 25 Copynumber: 7.7 Consensus size: 25
22751809 TTGACATCTC
* *
22751819 AAAGACTCTCATTTAAGGATTTCTT
1 AAAGATTCTCATTTAAGGATGTCTT
*
22751844 AAAGATTCTCATTTAAGGATGCCTT
1 AAAGATTCTCATTTAAGGATGTCTT
*
22751869 AAAGATT-TCATTTGAA-AATGTCTT
1 AAAGATTCTCATTT-AAGGATGTCTT
*
22751893 AAAGATTCTCATTTAA-GA---CTC
1 AAAGATTCTCATTTAAGGATGTCTT
* * *
22751914 AAAGGTTCTCATTTGAA-AATATCTT
1 AAAGATTCTCATTT-AAGGATGTCTT
* *
22751939 AAAAGATTCTTATTTAA-GA---CTC
1 -AAAGATTCTCATTTAAGGATGTCTT
* *
22751961 AAAGATTCTCATTTGAGGACGTCTT
1 AAAGATTCTCATTTAAGGATGTCTT
*
22751986 AAAGAGTCTCATTTAAG
1 AAAGATTCTCATTTAAG
22752003 ACTCAAAGGT
Statistics
Matches: 129, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
21 29 0.22
22 7 0.05
24 22 0.17
25 59 0.46
26 12 0.09
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (25 bp):
AAAGATTCTCATTTAAGGATGTCTT
Found at i:22752007 original size:46 final size:46
Alignment explanation
Indices: 22751816--22752026 Score: 235
Period size: 46 Copynumber: 4.5 Consensus size: 46
22751806 AATTTGACAT
* * *
22751816 CTCAAAGACTCTCATTTAAGGATTTCTTAAAGATTCTCATTTAAGGA
1 CTCAAAGATTCTCATTTGAGGATGTCTTAAAGATTCTCATTTAA-GA
* **
22751863 TGCCTTAAAGATT-TCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
1 ---CTCAAAGATTCTCATTTGAGGATGTCTTAAAGATTCTCATTTAAGA
* ** * *
22751911 CTCAAAGGTTCTCATTTGAAAATATCTTAAAAGATTCTTATTTAAGA
1 CTCAAAGATTCTCATTTGAGGATGTCTT-AAAGATTCTCATTTAAGA
* *
22751958 CTCAAAGATTCTCATTTGAGGACGTCTTAAAGAGTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAGGATGTCTTAAAGATTCTCATTTAAGA
* *
22752004 CTCAAAGGTTCTCATTCGAGGAT
1 CTCAAAGATTCTCATTTGAGGAT
22752027 TCAAAACTTT
Statistics
Matches: 139, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
45 8 0.06
46 52 0.37
47 40 0.29
48 2 0.01
49 29 0.21
50 8 0.06
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAGGATGTCTTAAAGATTCTCATTTAAGA
Found at i:22752531 original size:71 final size:71
Alignment explanation
Indices: 22752415--22752759 Score: 232
Period size: 71 Copynumber: 4.7 Consensus size: 71
22752405 TTGATACTTG
* *
22752415 ACCACAATTCATAGGCCTT-TTAGTACTAGCAATTTCAAAATAAATTTTGTCCATTGATCCATAC
1 ACCACAATTCATAGG-CTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCATTGATCCATAC
22752479 TATTTTC
65 TATTTTC
* * * * * * * *
22752486 ACCACAATTCATAGGCTTCTTAGCACTAGTCATTTGAGAATAAATTTTATCAATTGATCTACATT
1 ACCACAATTCATAGGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCATTGATCCATACT
22752551 ATGTTAATC
66 AT-TT--TC
* * * * *
22752560 ACTTGATCACCATTCACAGGCTTCTCAGCACTAGCCATTTCAAAATGAATTTCGTCCATTGATTC
1 AC-----CACAATTCATAGGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCATTGA-TC
*
22752625 TCAT-C-A-TTTG
60 -CATACTATTTTC
* * * ** ** ** * **
22752635 ATCACAATTTATAAGCTT-TTCAAGCTTTAGTAATTTCATTATAGATTTCATCCATTGATCCATA
1 ACCACAATTCATAGGCTTCTT--AGCACTAGCCATTTCAAAATAAATTTTGTCCATTGATCCATA
*
22752699 CTATTTTT
64 CTATTTTC
* * * *
22752707 ACCATAATTTATATGGCTTCTTAGCACTAGCCATTTCAGAATAAATTATGTCC
1 ACCACAATTCATA-GGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCC
22752760 TCTAATCTAC
Statistics
Matches: 203, Mismatches: 53, Indels: 35
0.70 0.18 0.12
Matches are distributed among these distances:
69 4 0.02
70 18 0.09
71 81 0.40
72 37 0.18
73 4 0.02
74 6 0.03
75 2 0.01
77 2 0.01
79 46 0.23
80 2 0.01
81 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (71 bp):
ACCACAATTCATAGGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCATTGATCCATACT
ATTTTC
Found at i:22753475 original size:13 final size:11
Alignment explanation
Indices: 22753456--22753536 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 11
22753446 TTTTATCCCC
22753456 TTTTTCATATTT
1 TTTTTCAT-TTT
22753468 TCTTTTCATCCTTT
1 T-TTTTCAT--TTT
*
22753482 CATTTTC-TTTT
1 -TTTTTCATTTT
*
22753493 TTTTTCTTTATTT
1 TTTTTC-AT-TTT
22753506 TTTTTCATTTT
1 TTTTTCATTTT
*
22753517 TTTTCTCTTTTT
1 TTTT-TCATTTT
22753529 TTTTTCAT
1 TTTTTCAT
22753537 CCATTAGTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.09
11 13 0.23
12 13 0.23
13 17 0.30
14 8 0.14
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCATTTT
Found at i:22753497 original size:10 final size:11
Alignment explanation
Indices: 22753484--22753534 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 11
22753474 CATCCTTTCA
22753484 TTTTC-TTTTT
1 TTTTCTTTTTT
22753494 TTTTCTTTATTTT
1 TTTTC-TT-TTTT
22753507 TTTTCATTTTTT
1 TTTTC-TTTTTT
*
22753519 TTCTCTTTTTT
1 TTTTCTTTTTT
22753530 TTTTC
1 TTTTC
22753535 ATCCATTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 5 0.14
11 10 0.29
12 9 0.26
13 11 0.31
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:22753510 original size:23 final size:23
Alignment explanation
Indices: 22753484--22753536 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
22753474 CATCCTTTCA
*
22753484 TTTTCTTTTTTTTTCT-TTATTTT
1 TTTTCATTTTTTTTCTCTT-TTTT
22753507 TTTTCATTTTTTTTCTCTTTTTT
1 TTTTCATTTTTTTTCTCTTTTTT
22753530 TTTTCAT
1 TTTTCAT
22753537 CCATTAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTCATTTTTTTTCTCTTTTTT
Found at i:22753922 original size:12 final size:12
Alignment explanation
Indices: 22753894--22753938 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
22753884 GTGGCATTCA
*
22753894 TTTTTTCTCTCT
1 TTTTTTCTTTCT
22753906 ATTTTTTCTTT-T
1 -TTTTTTCTTTCT
*
22753918 GTTTTTCTTTCT
1 TTTTTTCTTTCT
22753930 TTTTTTCTT
1 TTTTTTCTT
22753939 CTATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 9 0.32
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:22753940 original size:11 final size:11
Alignment explanation
Indices: 22753894--22753940 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
22753884 GTGGCATTCA
22753894 TTTTTTCTCTCT
1 TTTTTTCT-TCT
22753906 ATTTTTTCTT-T
1 -TTTTTTCTTCT
22753917 TGTTTTTCTTTCT
1 T-TTTTTC-TTCT
22753930 TTTTTTCTTCT
1 TTTTTTCTTCT
22753941 ATATTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.03
11 11 0.35
12 9 0.29
13 10 0.32
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:22757193 original size:15 final size:15
Alignment explanation
Indices: 22757165--22757197 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22757155 CTTAGGTCTT
22757165 AATTTTAATGGTTTTA
1 AATTTTAATGG-TTTA
22757181 AATTTTAAT-GTTTA
1 AATTTTAATGGTTTA
22757195 AAT
1 AAT
22757198 ATTGGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 1 0.06
16 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
AATTTTAATGGTTTA
Found at i:22757345 original size:14 final size:14
Alignment explanation
Indices: 22757319--22757355 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22757309 GTAGGAAAGA
22757319 TTTTTGTTG-GTTT
1 TTTTTGTTGAGTTT
22757332 TATTTT-TTGAGTTT
1 T-TTTTGTTGAGTTT
22757346 TTTTTGTTGA
1 TTTTTGTTGA
22757356 AAATATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.08, C:0.00, G:0.19, T:0.73
Consensus pattern (14 bp):
TTTTTGTTGAGTTT
Found at i:22757545 original size:54 final size:55
Alignment explanation
Indices: 22757473--22757586 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
22757463 TTATTTTTAA
* *
22757473 TTTTTATTGAATTTCTAAA-TTTTCACCATTTGGGTCAATTT-AGAAATATTTTC
1 TTTTTATTGAATTTCTAAATTTTTCACCATTTAGGTCAATTTAAAAAATATTTTC
* ** *
22757526 TTTTTCTTGAAATTTCTAAATTTTTCACCATTTAGGTTTATTTAAAAAATTTTTTC
1 TTTTTATTG-AATTTCTAAATTTTTCACCATTTAGGTCAATTTAAAAAATATTTTC
22757582 TTTTT
1 TTTTT
22757587 TTTTTGTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 8 0.15
54 10 0.19
55 19 0.37
56 15 0.29
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.55
Consensus pattern (55 bp):
TTTTTATTGAATTTCTAAATTTTTCACCATTTAGGTCAATTTAAAAAATATTTTC
Found at i:22762695 original size:61 final size:62
Alignment explanation
Indices: 22762630--22762773 Score: 150
Period size: 63 Copynumber: 2.3 Consensus size: 62
22762620 AAATGAATGG
* * ** **
22762630 GATTATTGAAGGCGTTTTT-TTAAAAAACGCCTTCAATGAATTTC-TTTTAAAAATTTT-TTGA
1 GATTATTGAAGGCGTTTTTAGTAAAAAACGCCTTCAAT-AATCTCGTAGT-AAAATTTTAAGGA
* * * *
22762691 GATTATTAAAGGCATCTTTTAGTAAAAAATGCCTTCAGTAATCTCGTAGTAAAATTTTAAGGA
1 GATTATTGAAGGCGT-TTTTAGTAAAAAACGCCTTCAATAATCTCGTAGTAAAATTTTAAGGA
22762754 GATTATTGAAGGCGTTTTTA
1 GATTATTGAAGGCGTTTTTA
22762774 CTATAAATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
61 13 0.19
62 22 0.33
63 32 0.48
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (62 bp):
GATTATTGAAGGCGTTTTTAGTAAAAAACGCCTTCAATAATCTCGTAGTAAAATTTTAAGGA
Found at i:22763797 original size:21 final size:21
Alignment explanation
Indices: 22763782--22763824 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22763772 TTTTAGTTTG
22763782 AATTTTGATTTCTTTATCTCT
1 AATTTTGATTTCTTTATCTCT
*
22763803 ACTTTTGATTTCTTTATCTCT
1 AATTTTGATTTCTTTATCTCT
22763824 A
1 A
22763825 TTGTCATCAC
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:0.19, C:0.16, G:0.05, T:0.60
Consensus pattern (21 bp):
AATTTTGATTTCTTTATCTCT
Found at i:22764092 original size:28 final size:28
Alignment explanation
Indices: 22764047--22764122 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
22764037 TTTGGTTTAA
22764047 ATATTATGGTTTGCTGAATGATATTGTATG
1 ATATTAT--TTTGCTGAATGATATTGTATG
* * *
22764077 ATATTATTTTGATGAATGGTATTTTATG
1 ATATTATTTTGCTGAATGATATTGTATG
*
22764105 ATATTAGTTTGCTGAATG
1 ATATTATTTTGCTGAATG
22764123 GTGTTTCTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 34 0.83
30 7 0.17
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (28 bp):
ATATTATTTTGCTGAATGATATTGTATG
Found at i:22764123 original size:28 final size:28
Alignment explanation
Indices: 22764055--22764124 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
22764045 AAATATTATG
*
22764055 GTTTGCTGAATGATATTGTATGATATTA
1 GTTTGCTGAATGGTATTGTATGATATTA
* * *
22764083 TTTTGATGAATGGTATTTTATGATATTA
1 GTTTGCTGAATGGTATTGTATGATATTA
22764111 GTTTGCTGAATGGT
1 GTTTGCTGAATGGT
22764125 GTTTCTGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (28 bp):
GTTTGCTGAATGGTATTGTATGATATTA
Found at i:22764134 original size:13 final size:13
Alignment explanation
Indices: 22764111--22764148 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
22764101 TATGATATTA
22764111 GTTTGCTGAATGGT
1 GTTT-CTGAATGGT
22764125 GTTTCTGAATGGT
1 GTTTCTGAATGGT
*
22764138 GTTTCTAAATG
1 GTTTCTGAATG
22764149 CATTGCTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.18, C:0.08, G:0.29, T:0.45
Consensus pattern (13 bp):
GTTTCTGAATGGT
Found at i:22767593 original size:61 final size:62
Alignment explanation
Indices: 22767436--22767650 Score: 184
Period size: 61 Copynumber: 3.4 Consensus size: 62
22767426 TAACAAAATG
** * * * * * *
22767436 TTATTGAAGGTATTTTTGATCAAAATCGCCTTCAATAAT-TCTCATAAAGATTTATTAAATGAA
1 TTATTGAAGGCGTTTTTGACCAAAAACGCCTTCAAGAATCTCTTATAAA-ATTTATT-GATCAA
* * * * *
22767499 TTATTGAAGGCGTTTTGGGCCAAAAACGCCTTCAAGAATCTGTT-T-CAATTTTTTGTATCAA
1 TTATTGAAGGCGTTTTTGACCAAAAACGCCTTCAAGAATCTCTTATAAAATTTATTG-ATCAA
** * * * *
22767560 TTATTGAAGGCGTTTTTGACCAAAATTGTCTTCAATAATTTCTTATAAAAATTTATTGATTAGA
1 TTATTGAAGGCGTTTTTGACCAAAAACGCCTTCAAGAATCTCTTAT-AAAATTTATTGATCA-A
*
22767624 TTATTGAAGGCATTTTTGACCAAAAAC
1 TTATTGAAGGCGTTTTTGACCAAAAAC
22767651 ACTTTAAAAA
Statistics
Matches: 119, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
61 46 0.39
62 2 0.02
63 36 0.30
64 35 0.29
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (62 bp):
TTATTGAAGGCGTTTTTGACCAAAAACGCCTTCAAGAATCTCTTATAAAATTTATTGATCAA
Found at i:22767670 original size:125 final size:124
Alignment explanation
Indices: 22767436--22767775 Score: 303
Period size: 125 Copynumber: 2.7 Consensus size: 124
22767426 TAACAAAATG
* * *
22767436 TTATTGAAGGTATTTTTGATCAAAATCGCCTTCAATAATTCTCATAAAGATTTATTAAATGAATT
1 TTATTGAAGGCATTTTTGACCAAAATCGCCTTCAATAATTCTCATAAAAATTTATTAAATGAATT
* * * * * *
22767501 ATTGAAGGCGTTTTGGGCCAAAAACGCCTTCAAGAATCTGTTTCAATTTTTTGTATCAA
66 ATTGAAGGCATTTTGGACCAAAAACACCTTAAAAAATCTATTTCAATTTTTTGTATCAA
* * * * * *
22767560 TTATTGAAGGCGTTTTTGACCAAAATTGTCTTCAATAATTTCTTATAAAAATTTATT-GATTAGA
1 TTATTGAAGGCATTTTTGACCAAAATCGCCTTCAATAA-TTCTCATAAAAATTTATTAAATGA-A
* * * * **
22767624 TTATTGAAGGCATTTTTGACCAAAAACACTTTAAAAAAT-TCATTTCAAAATTTTTCTATGGA
64 TTATTGAAGGCATTTTGGACCAAAAACACCTTAAAAAATCT-ATTTC-AATTTTTTGTATCAA
* * * * * * *
22767686 TTATTGAATGCATTTTTTTATCGAAAAT-GCCTTCAATATTCTCTCTTCAAAATTT-TTAAATGG
1 TTATTGAAGGCA-TTTTTGA-CCAAAATCGCCTTCAATAAT-TCTCATAAAAATTTATTAAATGA
* *
22767749 ATTAGTGAAGACATTTT-GACCCAAAAA
63 ATTATTGAAGGCATTTTGGA-CCAAAAA
22767776 ATACATTGAA
Statistics
Matches: 172, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
124 37 0.22
125 55 0.32
126 46 0.27
127 28 0.16
128 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (124 bp):
TTATTGAAGGCATTTTTGACCAAAATCGCCTTCAATAATTCTCATAAAAATTTATTAAATGAATT
ATTGAAGGCATTTTGGACCAAAAACACCTTAAAAAATCTATTTCAATTTTTTGTATCAA
Found at i:22767797 original size:17 final size:14
Alignment explanation
Indices: 22767784--22767812 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22767774 AAATACATTG
22767784 AATAATCCCTTACA
1 AATAATCCCTTACA
22767798 AATAATCCCTT-CA
1 AATAATCCCTTACA
22767811 AA
1 AA
22767813 AACCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATCCCTTACA
Found at i:22771625 original size:30 final size:32
Alignment explanation
Indices: 22771589--22771648 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
22771579 TTTAATAATT
*
22771589 TATGTATT-T-ATATTATATT-TTATAAAAAAA
1 TATGTATTATAAT-TTATATTAATATAAAAAAA
22771619 TATGTATTATAATTTATATTAATATAAAAA
1 TATGTATTATAATTTATATTAATATAAAAA
22771649 TATAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 8 0.31
31 8 0.31
32 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
TATGTATTATAATTTATATTAATATAAAAAAA
Found at i:22771649 original size:30 final size:30
Alignment explanation
Indices: 22771589--22771651 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
22771579 TTTAATAATT
*
22771589 TATGTATTTATATTATATTTTATAAAAAAA
1 TATGTATTTATATTATATTTAATAAAAAAA
*
22771619 TATGTA-TTATAATT-TATATTAATATAAAAA
1 TATGTATTTAT-ATTATAT-TTAATAAAAAAA
22771649 TAT
1 TAT
22771652 AAGATAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TATGTATTTATATTATATTTAATAAAAAAA
Found at i:22773837 original size:21 final size:22
Alignment explanation
Indices: 22773795--22773838 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
22773785 CCAATTTTAA
*
22773795 TTTAAATAATTAAAATTTAATC
1 TTTAAATAATTAAAATTAAATC
22773817 TTTAAAT-ATTATAAA-TAAATC
1 TTTAAATAATTA-AAATTAAATC
22773838 T
1 T
22773839 AAATAGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAAATAATTAAAATTAAATC
Found at i:22780619 original size:16 final size:16
Alignment explanation
Indices: 22780598--22780635 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22780588 AATTTATTTA
22780598 TATAAAAGT-AAAATAT
1 TATAAAA-TAAAAATAT
22780614 TATAAAATAAAAATAT
1 TATAAAATAAAAATAT
*
22780630 AATAAA
1 TATAAA
22780636 TACAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TATAAAATAAAAATAT
Found at i:22780623 original size:21 final size:22
Alignment explanation
Indices: 22780576--22780625 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
22780566 TGTATTTTAC
*
22780576 AATAAAAGTCAAAATTTATTTA
1 AATAAAAGTCAAAATTTATTAA
*
22780598 TATAAAAGT-AAAATATTA-TAA
1 AATAAAAGTCAAAAT-TTATTAA
22780619 AATAAAA
1 AATAAAA
22780626 ATATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (22 bp):
AATAAAAGTCAAAATTTATTAA
Found at i:22780718 original size:22 final size:22
Alignment explanation
Indices: 22780672--22780719 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22780662 ATAATCAATT
* *
22780672 AAATTAATATTTAATATTTTCA
1 AAATTAATATTAAATAATTTCA
22780694 AAATTAATATTAAATTAATTT-A
1 AAATTAATATTAAA-TAATTTCA
22780716 AAAT
1 AAAT
22780720 ATTACTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAATATTAAATAATTTCA
Found at i:22780729 original size:54 final size:54
Alignment explanation
Indices: 22780671--22780787 Score: 153
Period size: 54 Copynumber: 2.2 Consensus size: 54
22780661 TATAATCAAT
* * *
22780671 TAAATTAATATTTAATATTTTCAAAATTAATATTAAATTAATTTAAAATATTAC
1 TAAATTAATATTTAATATTTTCAAAATGAAAATTAAATAAATTTAAAATATTAC
* ** * *
22780725 TAAATCAATATTTAATATTTTTTAAATGAAAATTAAATAAATTTAAGATATTAT
1 TAAATTAATATTTAATATTTTCAAAATGAAAATTAAATAAATTTAAAATATTAC
*
22780779 TAAAATAAT
1 TAAATTAAT
22780788 TGAAATCACT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (54 bp):
TAAATTAATATTTAATATTTTCAAAATGAAAATTAAATAAATTTAAAATATTAC
Found at i:22790253 original size:125 final size:125
Alignment explanation
Indices: 22790027--22790261 Score: 357
Period size: 125 Copynumber: 1.9 Consensus size: 125
22790017 ATCCTTTTAG
* *
22790027 TTGTGCTGTATTGCATACTTTGTTAGAATGATATCTTCGGACATTAGCTGTTCTGTCTATCAAAG
1 TTGTGCTGTATTGCATACTTTGTTAGAATGATATCTTCGGACACTAGCTGTTCGGTCTATCAAAG
* * *
22790092 ATAAAAATTGCATTGCTTTATCAATATGCTTGATATGGAAACTTAGCGACATGGCTACTTT
66 AGAAAAATTGCATGGCTTTATCAATATGCTTCATATGGAAA-TTAGCGACATGGCTACTTT
* *
22790153 TTGTGCTGTATTGCATGA-TTTG-TAGAATGATATCTTGGGACACTAGCTGTTCGGTCTATCGAA
1 TTGTGCTGTATTGCAT-ACTTTGTTAGAATGATATCTTCGGACACTAGCTGTTCGGTCTATCAAA
* *
22790216 GAGAAGAATTGCATGGCTTTATCAATTTGCTTCATATGGAAATTAG
65 GAGAAAAATTGCATGGCTTTATCAATATGCTTCATATGGAAATTAG
22790262 GACTTTTTAC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
124 4 0.04
125 74 0.75
126 20 0.20
127 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (125 bp):
TTGTGCTGTATTGCATACTTTGTTAGAATGATATCTTCGGACACTAGCTGTTCGGTCTATCAAAG
AGAAAAATTGCATGGCTTTATCAATATGCTTCATATGGAAATTAGCGACATGGCTACTTT
Found at i:22802392 original size:125 final size:125
Alignment explanation
Indices: 22802166--22802400 Score: 373
Period size: 125 Copynumber: 1.9 Consensus size: 125
22802156 ATCCTTTTAG
* * *
22802166 TTGTGCTGTATTGCATGCTTTGTTAGAATGATATCTTGGGACATTAGCTGTTCTGTCTATCAAAG
1 TTGTGCTGTATTGCATGATTTGTTAGAATGATATCTTGGGACACTAGCTGTTCGGTCTATCAAAG
* * *
22802231 ATAAAAATTGCATTGCTTTATCAATATGCTTGATATGGAAACTTAGCGACATGGCTACTTT
66 AGAAAAATTGCATGGCTTTATCAATATGCTTCATATGGAAA-TTAGCGACATGGCTACTTT
*
22802292 TTGTGCTGTATTGCATGATTTG-TAGAATGATATCTTGGGACACTAGCTGTTCGGTCTATCGAAG
1 TTGTGCTGTATTGCATGATTTGTTAGAATGATATCTTGGGACACTAGCTGTTCGGTCTATCAAAG
* *
22802356 AGAAGAATTGCATGGCTTTATCAATTTGCTTCATATGGAAATTAG
66 AGAAAAATTGCATGGCTTTATCAATATGCTTCATATGGAAATTAG
22802401 GACTTTTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 4 0.04
125 75 0.75
126 21 0.21
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (125 bp):
TTGTGCTGTATTGCATGATTTGTTAGAATGATATCTTGGGACACTAGCTGTTCGGTCTATCAAAG
AGAAAAATTGCATGGCTTTATCAATATGCTTCATATGGAAATTAGCGACATGGCTACTTT
Found at i:22806085 original size:5 final size:5
Alignment explanation
Indices: 22806075--22806108 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
22806065 TTTGCCTTCA
* *
22806075 TTTGC TTTGC TTTGC TTGGC TTTGT TTTGC TTTG
1 TTTGC TTTGC TTTGC TTTGC TTTGC TTTGC TTTG
22806109 ATGTCTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.15, G:0.24, T:0.62
Consensus pattern (5 bp):
TTTGC
Found at i:22811842 original size:126 final size:126
Alignment explanation
Indices: 22811613--22811872 Score: 486
Period size: 126 Copynumber: 2.1 Consensus size: 126
22811603 GTGGTAAAGT
* *
22811613 GATT-AAAGGGTTTTTCATGCGGCCGAAATTAATAATTAATTAAAGGGTTTTTATATGGCCGAAA
1 GATTCAAAGGGTTTTTCATACGGCCGAAATTAATAATTAATTAAAGGGTTTCTATATGGCCGAAA
22811677 TTAATTAAAGGGTTTAGGTATATCATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
66 TTAATTAAAGGGTTTAGGTATATCATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
22811738 GATTCAAAGGGTTTTTCATACGGCCGAAATTAATAATTAATTAAAGGGTTTCTATATGGCCGAAA
1 GATTCAAAGGGTTTTTCATACGGCCGAAATTAATAATTAATTAAAGGGTTTCTATATGGCCGAAA
*
22811803 TTAATTAAAGGGTTTAGGTATATTATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
66 TTAATTAAAGGGTTTAGGTATATCATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
22811864 GATTCAAAG
1 GATTCAAAG
22811873 TTTGGTATAA
Statistics
Matches: 131, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
125 4 0.03
126 127 0.97
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (126 bp):
GATTCAAAGGGTTTTTCATACGGCCGAAATTAATAATTAATTAAAGGGTTTCTATATGGCCGAAA
TTAATTAAAGGGTTTAGGTATATCATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
Found at i:22812361 original size:60 final size:62
Alignment explanation
Indices: 22812262--22812385 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 62
22812252 TTAAATTCTG
* *
22812262 AATTTAATTATAAAAAAAAAAAATTCAAGACCTAAATTTATCTTTTATCTCTAAACTATGTT
1 AATTTAATTATAAAAAAAAAAAATTCAAGACCCAAATTTATCTTTTATCTCTAAACTATATT
* * * * *
22812324 AATTTAA-T-TAACAAAAAAAAGTTTAAGACCCACATTTATCTTTTATCTCTGAACTATATT
1 AATTTAATTATAAAAAAAAAAAATTCAAGACCCAAATTTATCTTTTATCTCTAAACTATATT
22812384 AA
1 AA
22812386 ATAAGAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 47 0.85
61 1 0.02
62 7 0.13
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (62 bp):
AATTTAATTATAAAAAAAAAAAATTCAAGACCCAAATTTATCTTTTATCTCTAAACTATATT
Found at i:22816705 original size:17 final size:16
Alignment explanation
Indices: 22816689--22816734 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
22816679 AGTACAAATA
22816689 AAAATATAAATATAAT
1 AAAATATAAATATAAT
* *
22816705 AAAATTTAAAATTTAAT
1 AAAATAT-AAATATAAT
22816722 AAAATCATAAATA
1 AAAAT-ATAAATA
22816735 AATTTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.25
17 17 0.71
18 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATAAATATAAT
Found at i:22817843 original size:21 final size:21
Alignment explanation
Indices: 22817816--22817895 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
22817806 CTAAAAGACG
*
22817816 GTGACTCATAACTATGGTACA
1 GTGACTCATCACTATGGTACA
* * * *
22817837 ATGACTCATTATTATGGTACG
1 GTGACTCATCACTATGGTACA
*
22817858 GTGACTCATCACTTATGGTATA
1 GTGACTCATCAC-TATGGTACA
22817880 GTGACTCATCACTATG
1 GTGACTCATCACTATG
22817896 ACTTATACTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 30 0.61
22 19 0.39
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (21 bp):
GTGACTCATCACTATGGTACA
Found at i:22825057 original size:31 final size:29
Alignment explanation
Indices: 22825021--22825134 Score: 81
Period size: 31 Copynumber: 3.8 Consensus size: 29
22825011 ATTAATTTAT
22825021 ATTAAGAGCTTATTTAAGTATAAAATAAAAA
1 ATTAAGAGCTTATTT-AGTATAAAAT-AAAA
* *
22825052 ATTAAGAGTTTATTTAG-ATACAAATTGAATA
1 ATTAAGAGCTTATTTAGTATA-AAA-T-AAAA
* * *
22825083 ATAAAGA-CTTATTTTGATATAAAATTAAA
1 ATTAAGAGCTTATTTAG-TATAAAATAAAA
*
22825112 ATTCAA-AACTTATTTAAGTATAA
1 ATT-AAGAGCTTATTT-AGTATAA
22825135 TAAAAGTATA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
29 8 0.12
30 27 0.41
31 28 0.42
32 3 0.05
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (29 bp):
ATTAAGAGCTTATTTAGTATAAAATAAAA
Found at i:22825134 original size:30 final size:28
Alignment explanation
Indices: 22825029--22825134 Score: 72
Period size: 30 Copynumber: 3.5 Consensus size: 28
22825019 ATATTAAGAG
* *
22825029 CTTATTTAAGTATAAAATAAAAAATTAAGAG
1 CTTATTT-AGTATAAAAT-TAAAATTAA-AA
*
22825060 TTTATTTAG-ATACAAATTGAATAA-TAAAGA
1 CTTATTTAGTATA-AAATT-AA-AATTAAA-A
*
22825090 CTTATTTTGATATAAAATTAAAATTCAAAA
1 CTTATTTAG-TATAAAATTAAAATT-AAAA
22825120 CTTATTTAAGTATAA
1 CTTATTT-AGTATAA
22825135 TAAAAGTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
29 6 0.10
30 34 0.57
31 17 0.28
32 3 0.05
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (28 bp):
CTTATTTAGTATAAAATTAAAATTAAAA
Found at i:22826545 original size:59 final size:58
Alignment explanation
Indices: 22826453--22826983 Score: 630
Period size: 59 Copynumber: 8.8 Consensus size: 58
22826443 TTTTTTTTTA
22826453 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTC-
1 AAGGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTT--ATTTTCT
* ** *
22826512 AAGGAAAATTGATAGTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTA-TTTCT
1 AAGGAAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTGGAAATTTATTTTCT
22826571 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTT
1 AAGGAAAATTGATACTTTCAACTTTT-CCCAAAAATA--TTTTTTTGGAAATTTA-TTTTC---T
*
22826636 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTCT-T
1 AAGGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAATTTATTTTCT
*
22826693 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTA-TTTCT
1 AAGGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAATTTATTTTCT
* *
22826751 GAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGAAAATTTATTTTTCTT
1 AAGGAAAATTGATACTTTCAACTTTTCCC--AAAA-ATA--TTTTTTTGGAAATTTA-TTTTC--
22826816 TT
58 -T
*
22826818 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTA-TTTCT
1 AAGGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTTGGAAATTTATTTTCT
* * *
22826877 GAGGAAAATTGATATTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTA-TTTAT
1 AAGGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTTATTTTCT
22826934 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
1 AAGGAAAATTGATACTTTCAACTTTTCCC--AAAA-ATATTTTTTTGGAA
22826984 TTTTTTATTT
Statistics
Matches: 418, Mismatches: 25, Indels: 57
0.84 0.05 0.11
Matches are distributed among these distances:
56 3 0.01
57 82 0.20
58 53 0.13
59 102 0.24
60 33 0.08
61 16 0.04
62 37 0.09
64 22 0.05
65 37 0.09
66 4 0.01
67 29 0.07
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTCT
Found at i:22826798 original size:183 final size:180
Alignment explanation
Indices: 22826441--22826979 Score: 814
Period size: 183 Copynumber: 2.9 Consensus size: 180
22826431 GGAAAGAATG
* *
22826441 ATTTTTTTTTTAAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCG
1 ATTTTTCTTTT-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--
* **
22826506 ATTTTCAAGGAAAATTGATAGTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTC
63 ATTTT-AAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTG-AAATTTATTTC
* * *
22826570 TAAGGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATACTTTTTTTTGGAAATTT
124 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGAAAATTT
22826625 ATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATT
1 ATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATT
*
22826690 CTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTGAGG
66 -TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAAGG
22826755 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGAAAATTT
129 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGAAAATTT
*
22826807 ATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTA
1 ATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTA
* * * * *
22826872 TTTCTGAGGAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTATAAG
64 TTT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAG
22826937 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
128 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
22826980 GGAATTTTTT
Statistics
Matches: 331, Mismatches: 16, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
180 40 0.12
181 45 0.14
182 71 0.21
183 114 0.34
184 61 0.18
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (180 bp):
ATTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATT
TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGGAA
AATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGAAAATTT
Found at i:22826803 original size:18 final size:19
Alignment explanation
Indices: 22826782--22826817 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22826772 CTTTTCCCTA
22826782 AAAATATATTTTT-TTTTG
1 AAAATATATTTTTCTTTTG
*
22826800 AAAATTTATTTTTCTTTT
1 AAAATATATTTTTCTTTT
22826818 AAGGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
AAAATATATTTTTCTTTTG
Found at i:22826914 original size:241 final size:237
Alignment explanation
Indices: 22826449--22826986 Score: 759
Period size: 241 Copynumber: 2.2 Consensus size: 237
22826439 TGATTTTTTT
* *
22826449 TTTA-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTC
1 TTTATAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTC-ATTTTC
* * *
22826512 AAGGAAAATTGATAGTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAA
65 AAGGAAAATTGATACTTTCAACTTTTCCTAAAAAAACCTTTTTTTGAAAATTTATTTCTAAGGAA
22826577 AATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTTCTTTTAAGGAA
130 AATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTA-TTTTC--TTAAGGAA
*
22826642 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA
192 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
22826688 TTCT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTT-A-TTTC
1 TT-TATAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTCATTTTC
* **
22826750 TGAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGAAAATTTATTTTTCT
65 -AAGGAAAATTGATACTTTCAACTTTT-CCTAAAAA-A-ACCTTTTTTTGAAAATTTA--TTTC-
* *
22826815 TTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTGAAATTTA-TTTC-T
123 --TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTCTT
* *
22826877 GAGGAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
186 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
*
22826929 TTTATAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAATTT
1 TTTATAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTGAAATTT
22826987 TTTATTTTTA
Statistics
Matches: 271, Mismatches: 14, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
238 4 0.01
239 27 0.10
240 45 0.17
241 105 0.39
242 29 0.11
244 8 0.03
246 16 0.06
247 37 0.14
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (237 bp):
TTTATAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTCATTTTCA
AGGAAAATTGATACTTTCAACTTTTCCTAAAAAAACCTTTTTTTGAAAATTTATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTGGAAATTTATTTTCTTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
Found at i:22827470 original size:19 final size:20
Alignment explanation
Indices: 22827430--22827475 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
22827420 GAACACCGGT
*
22827430 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
22827450 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
22827469 GCCGGAA
1 GCCGGAA
22827476 GTTGGCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:22827568 original size:31 final size:31
Alignment explanation
Indices: 22827530--22827597 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
22827520 TGGGTAGGTC
* *
22827530 GCCGGAAACTTC-AATATTCGCCGGAATTGTT
1 GCCGGAAAATTCAAAT-TTCGCCGAAATTGTT
*
22827561 GCCGGAAAATTCAAATTTCGCCGAAATTTTT
1 GCCGGAAAATTCAAATTTCGCCGAAATTGTT
22827592 GCCGGA
1 GCCGGA
22827598 TTCTGGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 30 0.91
32 3 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (31 bp):
GCCGGAAAATTCAAATTTCGCCGAAATTGTT
Found at i:22828395 original size:1 final size:1
Alignment explanation
Indices: 22828385--22828491 Score: 151
Period size: 1 Copynumber: 107.0 Consensus size: 1
22828375 CAACTCAACA
* ** ** * *
22828385 TTTTTATTTTTTTGATTTTTTTTTTTTTAATTTGTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22828450 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22828492 GCAATTCAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 95 1.00
ACGTcount: A:0.04, C:0.00, G:0.03, T:0.93
Consensus pattern (1 bp):
T
Found at i:22828676 original size:80 final size:84
Alignment explanation
Indices: 22828581--22828738 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 84
22828571 TTTCCCTCTA
22828581 AACAGAGGTCCCACGACTTTGGAAAAAT-AATTGCTCCTCT-ACAGAGGCACCA-GACTTTT-G-
1 AACAGAGGTCCCACGACTTTGGAAAAATAAATTGCTCCTCTCA-AGAGGCACCACGACTTTTGGA
22828641 AAAATAAATTGCTCCTCTGT
65 AAAATAAATTGCTCCTCTGT
* * *
22828661 AACAGAGG-CACCACGACTTTTGAAAAGTAAATTGCTCCTCTCAAGAGGTACCACGACTTTTGGA
1 AACAGAGGTC-CCACGACTTTGGAAAAATAAATTGCTCCTCTCAAGAGGCACCACGACTTTTGGA
22828725 AAAATAAATTGCTC
65 AAAATAAATTGCTC
22828739 GTTTTTGATT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
79 1 0.01
80 24 0.35
81 21 0.30
82 8 0.12
83 1 0.01
84 14 0.20
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (84 bp):
AACAGAGGTCCCACGACTTTGGAAAAATAAATTGCTCCTCTCAAGAGGCACCACGACTTTTGGAA
AAATAAATTGCTCCTCTGT
Found at i:22828718 original size:40 final size:40
Alignment explanation
Indices: 22828582--22828738 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 40
22828572 TTCCCTCTAA
*
22828582 ACAGAGGTC-CCACGACTTTGGAAAAAT-AATTGCTCCTCT
1 ACAGAGG-CACCACGACTTTTGAAAAATAAATTGCTCCTCT
22828621 ACAGAGGCACCA-GACTTTTG-AAAATAAATTGCTCCTCTGT
1 ACAGAGGCACCACGACTTTTGAAAAATAAATTGCTCCTC--T
*
22828661 AACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCT
1 -ACAGAGGCACCACGACTTTTGAAAAATAAATTGCTCCTCT
*
22828702 -CAAGAGGTACCACGACTTTTGGAAAAATAAATTGCTC
1 AC-AGAGGCACCACGACTTTT-GAAAAATAAATTGCTC
22828739 GTTTTTGATT
Statistics
Matches: 105, Mismatches: 4, Indels: 16
0.84 0.03 0.13
Matches are distributed among these distances:
37 5 0.05
38 19 0.18
39 11 0.10
40 18 0.17
41 28 0.27
42 8 0.08
43 16 0.15
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (40 bp):
ACAGAGGCACCACGACTTTTGAAAAATAAATTGCTCCTCT
Found at i:22831531 original size:3 final size:3
Alignment explanation
Indices: 22831523--22831557 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22831513 TTATCAAACA
22831523 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22831558 GAAAAGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22832372 original size:126 final size:126
Alignment explanation
Indices: 22832143--22832402 Score: 495
Period size: 126 Copynumber: 2.1 Consensus size: 126
22832133 GTGGTAAAGT
* *
22832143 GATT-AAAGGGTTTTTCATGCGGCCGAAATTAATAATTAATTAAAGGGTTTTTATATGGCCGAAA
1 GATTCAAAGGGTTTTTCATACGGCCGAAATTAACAATTAATTAAAGGGTTTTTATATGGCCGAAA
22832207 TTAATTAAAGGGTTTAGGTATATTATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
66 TTAATTAAAGGGTTTAGGTATATTATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
22832268 GATTCAAAGGGTTTTTCATACGGCCGAAATTAACAATTAATTAAAGGGTTTTTATATGGCCGAAA
1 GATTCAAAGGGTTTTTCATACGGCCGAAATTAACAATTAATTAAAGGGTTTTTATATGGCCGAAA
22832333 TTAATTAAAGGGTTTAGGTATATTATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
66 TTAATTAAAGGGTTTAGGTATATTATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
22832394 GATTCAAAG
1 GATTCAAAG
22832403 TTTGGTATAA
Statistics
Matches: 132, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
125 4 0.03
126 128 0.97
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (126 bp):
GATTCAAAGGGTTTTTCATACGGCCGAAATTAACAATTAATTAAAGGGTTTTTATATGGCCGAAA
TTAATTAAAGGGTTTAGGTATATTATTTAATTAAGTGCTTTTTTCTTAATCAAAGCTTTAA
Found at i:22832976 original size:230 final size:219
Alignment explanation
Indices: 22832730--22833170 Score: 585
Period size: 219 Copynumber: 2.0 Consensus size: 219
22832720 TAAATGCTAG
* * *
22832730 AATTTGAATATAAAATCTATTAAATATCAATGATGGTATAAATCAATTAAGTTAAATTCTGAATT
1 AATTTGAATATAAAATCTATTAAATATCAACGACGGTATAAATCAATTAAGTTAAACTCTGAATT
* * * *
22832795 TAATTATCAAAAAAAAAAAAATTCAAGGCCTAAATTTATCTTTTATCTCTAAACTATGTTAAATA
66 TAA-T-T--AAAAAAAAAAAATTCAAGACCCAAATTTATCTTTTATATCTAAACTATATTAAAT-
22832860 AAAAAAAAAAAAAAGGAAGAAATCAATGGCCAAGAGATATGGATAATTAAAGTCACTTGTCAAAA
126 ------AAAAAAAAGGAAGAAATCAATGGCCAAGAGATATGGATAATTAAAGTCACTTGTCAAAA
* *
22832925 ACTAGGGAAAAGAAGATTTGAAATTTAATGGACTT
185 ACTAGGGAAAAGAAAATTCGAAATTTAATGGACTT
* * * *
22832960 AATTTGAATTTAAAATCTATTAAATATTAACGACGTTATAAATCAATTAAGTTAAACTCTTAATT
1 AATTTGAATATAAAATCTATTAAATATCAACGACGGTATAAATCAATTAAGTTAAACTCTGAATT
* * * * * * *
22833025 TAATTAACAAAAAAAAGTTTAAGACCCACATTTATCTTTTATATCTGAATTATATTAAATAAGAA
66 TAATTAAAAAAAAAAAATTCAAGACCCAAATTTATCTTTTATATCTAAACTATATTAAATAAAAA
* *
22833090 AAAGGAAGAAATCAATGGCCAAGAGATATGGATAATTAAAGTCACTTGTCAAAATCTTGGGAAAA
131 AAAGGAAGAAATCAATGGCCAAGAGATATGGATAATTAAAGTCACTTGTCAAAAACTAGGGAAAA
22833155 GAAAATTCGAAATTTA
196 GAAAATTCGAAATTTA
22833171 GTTAATTTAA
Statistics
Matches: 189, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
219 81 0.43
226 45 0.24
228 1 0.01
229 1 0.01
230 61 0.32
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (219 bp):
AATTTGAATATAAAATCTATTAAATATCAACGACGGTATAAATCAATTAAGTTAAACTCTGAATT
TAATTAAAAAAAAAAAATTCAAGACCCAAATTTATCTTTTATATCTAAACTATATTAAATAAAAA
AAAGGAAGAAATCAATGGCCAAGAGATATGGATAATTAAAGTCACTTGTCAAAAACTAGGGAAAA
GAAAATTCGAAATTTAATGGACTT
Found at i:22836763 original size:233 final size:233
Alignment explanation
Indices: 22836343--22837143 Score: 681
Period size: 233 Copynumber: 3.4 Consensus size: 233
22836333 AAGAATTGCC
* * ** * *
22836343 ATGTAGCATTGCCATTTT-TTCATTAACAAATAATTTTTTTTATCAATTGATAAGAAAACAATAA
1 ATGTAGCATTGCCATTTTATTTATAAACAAATAA--TTTTTTATCAAAAGATAAAAAAACAATCA
* ** *** * * * *
22836407 TATTGTTTTGTCAACAAAACTATTTTAATCCATTTAGTTAGGAAAATAGCATAGCTAATCTTATA
64 CACCG-TACATCAGCAAAACTATTTTAATCAATTTAATTAGGAAAATAGCATTGCTAATCTTATA
*
22836472 A--T-TTAATATATTATAAAATGATTAAATAATATTTACATCTTCTCCCTCTTGACTC-TAT-T-
128 ATTTATTAATATATTATAAAATGATTCAATAATATTTACATCTTCTCCCTCTTGACTCTTATATA
* *
22836531 TG-AATTT-AGCTCATTTGTAAGTAACAATGAAGAATTTTA
193 TGCAATTTCAGCTCATTTGTAAGTAACAAAGAAGAATTATA
* *
22836570 ATGTAGCATTGCCATTTTTTTTTTATAAACAAATAATTTTTTATCAAAAGATAAAAAAAACAGTC
1 ATGTAGCATTGCCA--TTTTATTTATAAACAAATAATTTTTTATCAAAAGAT-AAAAAAACAATC
* *
22836635 ACACCATTACATCATCAAAACTATTTTAATCAATTTAATTAGGAAAATAGCATTGCTAATCTTAT
63 ACACC-GTACATCAGCAAAACTATTTTAATCAATTTAATTAGGAAAATAGCATTGCTAATCTTAT
*
22836700 AATTTAATTAATATATTATAAAATGATTCAATAATATTTACAT-TTCCTTCCTCTTGACTCTATT
127 AATTT-ATTAATATATTATAAAATGATTCAATAATATTTACATCTT-CTCCCTCTTGACTC---T
* *
22836764 TATAATGATGCAATTTCCGAATCTCATTTGTAAGTAACAAAGAAGAATTATC
187 TAT-AT-ATGCAATTT-C--AGCTCATTTGTAAGTAACAAAGAAGAATTATA
* * ** *
22836816 ATTTAGCATTGCCATTTTATTTATAAATAAATAATTTTTTATCAAAAGATTGAAAAACAATCATA
1 ATGTAGCATTGCCATTTTATTTATAAACAAATAATTTTTTATCAAAAGATAAAAAAACAATCACA
* * * * * *
22836881 TCGTATATCAGCAAAACTATTTTAACCAATTTAATTAAGAAACTAGCATCT-CTAATTTTATAAT
66 CCGTACATCAGCAAAACTATTTTAATCAATTTAATTAGGAAAATAGCAT-TGCTAATCTTATAAT
* * * * *
22836945 TTATT--TA-ATTATAAAATAATTCAATAATATTTACATATTCTCTCTTTTGACT-TTGGT-TAT
130 TTATTAATATATTATAAAATGATTCAATAATATTTACATCTTCTCCCTCTTGACTCTT-ATATAT
* ** * * * * * * * *
22837005 AACAATGAGTAAATCGCATGTATAAGTAATAATGAA-AATTTGTG
194 -GCAAT---TTCAGCTCATTTGTAAGTAACAAAGAAGAA-TTATA
** * * **
22837049 ACCTAGCATTGTCATTTT-CTTATAAACAAATAATTTTTTTATCAAAAGATAAGTAAACAA--AC
1 ATGTAGCATTGCCATTTTATTTATAAACAAATAA-TTTTTTATCAAAAGATAAAAAAACAATCAC
**
22837111 -CATTACATCAGCAAAACTATTTTAATCAATTTA
65 ACCGTACATCAGCAAAACTATTTTAATCAATTTA
22837144 GGTTTCATTT
Statistics
Matches: 473, Mismatches: 69, Indels: 61
0.78 0.11 0.10
Matches are distributed among these distances:
227 14 0.03
228 14 0.03
229 68 0.14
230 41 0.09
231 2 0.00
232 19 0.04
233 112 0.24
234 2 0.00
235 1 0.00
236 1 0.00
237 3 0.01
238 38 0.08
239 5 0.01
241 5 0.01
242 60 0.13
243 13 0.03
244 34 0.07
246 41 0.09
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (233 bp):
ATGTAGCATTGCCATTTTATTTATAAACAAATAATTTTTTATCAAAAGATAAAAAAACAATCACA
CCGTACATCAGCAAAACTATTTTAATCAATTTAATTAGGAAAATAGCATTGCTAATCTTATAATT
TATTAATATATTATAAAATGATTCAATAATATTTACATCTTCTCCCTCTTGACTCTTATATATGC
AATTTCAGCTCATTTGTAAGTAACAAAGAAGAATTATA
Found at i:22837227 original size:27 final size:28
Alignment explanation
Indices: 22837194--22837257 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
22837184 TTAAAAAAAT
22837194 AATAAAATTTATTATAATTACAATTGAA
1 AATAAAATTTATTATAATTACAATTGAA
* * **
22837222 AA-AAAA-TTATTGTAGTTATGATTGAA
1 AATAAAATTTATTATAATTACAATTGAA
22837248 AATAAAATTT
1 AATAAAATTT
22837258 TAATGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 18 0.60
27 8 0.27
28 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (28 bp):
AATAAAATTTATTATAATTACAATTGAA
Found at i:22839276 original size:21 final size:21
Alignment explanation
Indices: 22839250--22839328 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
22839240 TAAAAGACGG
*
22839250 TGACTCATAACTATGGTACAA
1 TGACTCATCACTATGGTACAA
* * *
22839271 TGACTCATTATTATGGTACGA
1 TGACTCATCACTATGGTACAA
* *
22839292 TGACTCATCACTTATGGTATAG
1 TGACTCATCAC-TATGGTACAA
22839314 TGACTCATCACTATG
1 TGACTCATCACTATG
22839329 ACTCATACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 31 0.63
22 18 0.37
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (21 bp):
TGACTCATCACTATGGTACAA
Found at i:22844225 original size:12 final size:12
Alignment explanation
Indices: 22844208--22844239 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22844198 AAAAAAGGTT
*
22844208 TTGGAGGTGAGG
1 TTGGAGGAGAGG
22844220 TTGGAGGAGAGG
1 TTGGAGGAGAGG
22844232 TTGGAGGA
1 TTGGAGGA
22844240 TTGTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.56, T:0.22
Consensus pattern (12 bp):
TTGGAGGAGAGG
Found at i:22844818 original size:12 final size:12
Alignment explanation
Indices: 22844803--22844827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22844793 TGGGTAAAGG
22844803 TTGGGTGGAATC
1 TTGGGTGGAATC
22844815 TTGGGTGGAATC
1 TTGGGTGGAATC
22844827 T
1 T
22844828 GGTTTTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.40, T:0.36
Consensus pattern (12 bp):
TTGGGTGGAATC
Found at i:22846488 original size:31 final size:29
Alignment explanation
Indices: 22846451--22846565 Score: 90
Period size: 31 Copynumber: 3.8 Consensus size: 29
22846441 GTTAATTTAT
22846451 ATTAAGAGCTTATTTAAGTATAAAATAAAAA
1 ATTAAGAGCTTATTT-AGTATAAAAT-AAAA
* *
22846482 ATTAAGAGTTTATTTAG-ATACAAATTGAATA
1 ATTAAGAGCTTATTTAGTATA-AAA-T-AAAA
* * *
22846513 ATAAAGA-CTTATTTTGATATAAAATTAAA
1 ATTAAGAGCTTATTTAG-TATAAAATAAAA
*
22846542 ATTCAAAAGCTTATTTAAGTATAA
1 ATT-AAGAGCTTATTT-AGTATAA
22846566 TAAAAGTATA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
29 7 0.11
30 16 0.24
31 39 0.59
32 4 0.06
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (29 bp):
ATTAAGAGCTTATTTAGTATAAAATAAAA
Found at i:22850669 original size:16 final size:18
Alignment explanation
Indices: 22850643--22850680 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22850633 ATAACTTATA
22850643 TTATCATTTATA-AAAAT
1 TTATCATTTATATAAAAT
*
22850660 TTAT-ATTTATATAAGAT
1 TTATCATTTATATAAAAT
22850677 TTAT
1 TTAT
22850681 TGATATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTATCATTTATATAAAAT
Found at i:22854225 original size:14 final size:16
Alignment explanation
Indices: 22854193--22854225 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22854183 CTTAAAATTA
22854193 ATTATAATTATTCTAT
1 ATTATAATTATTCTAT
22854209 ATTATAATT-TT-TAT
1 ATTATAATTATTCTAT
22854223 ATT
1 ATT
22854226 TTCGAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 2 0.12
16 9 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATAATTATTCTAT
Found at i:22855149 original size:3 final size:3
Alignment explanation
Indices: 22855141--22855189 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
22855131 TTCATATGTA
22855141 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22855189 A
1 A
22855190 TTTAACTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22857593 original size:27 final size:26
Alignment explanation
Indices: 22857563--22857620 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
22857553 ATAAGATAGG
*
22857563 ATAATATCAT-TTAATTTAATTTTATTT
1 ATAATATCATCTT-ATTTAATCTTA-TT
*
22857590 ATAATATCATCTTATTTTATCTTATT
1 ATAATATCATCTTATTTAATCTTATT
22857616 ATAAT
1 ATAAT
22857621 TTTGTATACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAATATCATCTTATTTAATCTTATT
Found at i:22857648 original size:2 final size:2
Alignment explanation
Indices: 22857641--22857665 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22857631 GAATACATCT
22857641 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22857666 TGTATATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22858132 original size:21 final size:22
Alignment explanation
Indices: 22858103--22858231 Score: 147
Period size: 21 Copynumber: 6.0 Consensus size: 22
22858093 GTTAATGAAT
*
22858103 GTAACATATACATATAGTTGTA
1 GTAACATATACATATAGTTATA
*
22858125 GTAA-ATATACATATAATTATA
1 GTAACATATACATATAGTTATA
** *
22858146 ACAA-ATATATATATAGTTATA
1 GTAACATATACATATAGTTATA
* *
22858167 ATAACATTTACATATAGTTATA
1 GTAACATATACATATAGTTATA
* *
22858189 GTAACATATACATATAATTGTA
1 GTAACATATACATATAGTTATA
*
22858211 GTAA-ATATAGATATAGTTATA
1 GTAACATATACATATAGTTATA
22858232 ACATATGTAC
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
21 49 0.54
22 41 0.46
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (22 bp):
GTAACATATACATATAGTTATA
Found at i:22858203 original size:86 final size:85
Alignment explanation
Indices: 22858103--22858266 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 85
22858093 GTTAATGAAT
* * *
22858103 GTAACATATACATATAGTTGTAGTAAATATACATATAATTATAACAAATATATATATAGTTATAA
1 GTAACATATACATATAATTGTAGTAAATATACATATAATTATAACAAATATACATATAGTCATAA
*
22858168 TAACATTTACATATAGTTATA
66 TAA-ATGTACATATAGTTATA
* * * *
22858189 GTAACATATACATATAATTGTAGTAAATATAGATATAGTTATAACATATGTACATATAGTCATAA
1 GTAACATATACATATAATTGTAGTAAATATACATATAATTATAACAAATATACATATAGTCATAA
22858254 TAAATGTACATAT
66 TAAATGTACATAT
22858267 CTATAGCCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 9 0.13
86 61 0.87
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (85 bp):
GTAACATATACATATAATTGTAGTAAATATACATATAATTATAACAAATATACATATAGTCATAA
TAAATGTACATATAGTTATA
Found at i:22858245 original size:21 final size:21
Alignment explanation
Indices: 22858111--22858317 Score: 107
Period size: 21 Copynumber: 9.9 Consensus size: 21
22858101 ATGTAACATA
* ** *
22858111 TACATATAGTTGTAGTAAATA
1 TACATATAGTTATAACAAATG
* *
22858132 TACATATAATTATAACAAATA
1 TACATATAGTTATAACAAATG
* * *
22858153 TATATATAGTTATAATAACATT
1 TACATATAGTTATAACAA-ATG
** *
22858175 TACATATAGTTATAGTAACATA
1 TACATATAGTTATAACAA-ATG
* * ** *
22858197 TACATATAATTGTAGTAAATA
1 TACATATAGTTATAACAAATG
* *
22858218 TAGATATAGTTATAACATATG
1 TACATATAGTTATAACAAATG
* *
22858239 TACATATAGTCATAATAAATG
1 TACATATAGTTATAACAAATG
* * * *
22858260 TACATAT--CTATAGCCATTG
1 TACATATAGTTATAACAAATG
**
22858279 TATGTATAGTTATGTAAC--ATG
1 TACATATAGTTA--TAACAAATG
22858300 TACATATAGTTATAACAA
1 TACATATAGTTATAACAA
22858318 TTGTTCGTAT
Statistics
Matches: 142, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
19 15 0.11
21 87 0.61
22 37 0.26
23 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
TACATATAGTTATAACAAATG
Found at i:22859900 original size:58 final size:58
Alignment explanation
Indices: 22859831--22860100 Score: 307
Period size: 58 Copynumber: 4.6 Consensus size: 58
22859821 TTGTACAGAA
* * *
22859831 AAAATTGATACTTTCAATTTTTCCTAAAAAATCCA-TTTTT-GAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAATTTTTCCTAAAAAAT--ATTTTTTAAAAAACTTATTTTCAAAG
* * * *
22859889 AAAAATGATACTTTTAACTTTTCCCT-AAAAATATTTTTTAAAAAGCTTATTTTC-AAG
1 AAAATTGATACTTTCAA-TTTTTCCTAAAAAATATTTTTTAAAAAACTTATTTTCAAAG
* * *
22859946 AAAATTTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGG
1 AAAA-TTGATACTTTCAATTTTTCCTAAAAAATATTTTTTAAAAAACTTATTTTCAAAG
* *
22860005 AAAATTGATACTTTCAACTTTTT-CTCAAAAATAATTTTTTTAAAAAATTTATTTTCAAAG
1 AAAATTGATACTTTCAA-TTTTTCCTAAAAAAT-A-TTTTTTAAAAAACTTATTTTCAAAG
* **
22860065 AAAATTGATACTTTCAACTTTTCCTCGAAAATATTT
1 AAAATTGATACTTTCAATTTTTCCTAAAAAATATTT
22860101 AAAGAACCAA
Statistics
Matches: 184, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
56 1 0.01
57 19 0.10
58 93 0.51
59 24 0.13
60 47 0.26
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAATTTTTCCTAAAAAATATTTTTTAAAAAACTTATTTTCAAAG
Found at i:22859965 original size:116 final size:118
Alignment explanation
Indices: 22859831--22860100 Score: 354
Period size: 116 Copynumber: 2.3 Consensus size: 118
22859821 TTGTACAGAA
* *
22859831 AAAATTGATACTTTCAATTTTTCCTAAAAAATCCA-TTTTT-GAAAATTTATTTTTAAAGAAAAA
1 AAAATTGATACTTTCAATTTTTCCTAAAAAAT--ATTTTTTAGAAAACTTATTTTCAAAGAAAAA
* *
22859894 TGATACTTTTAACTTTTCC-CTAAAAAT-A-TTTTTTAAAAAGCTTATTTTC-AAG
64 TGATACTTTCAACTTTTCCTC-AAAAATAATTTTTTTAAAAAACTTATTTTCAAAG
* * *
22859946 AAAATTTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATT
1 AAAA-TTGATACTTTCAATTTTTCCTAAAAAATATTTTTTAGAAAACTTATTTTCAAAGAAAAAT
* *
22860011 GATACTTTCAACTTTTTCTCAAAAATAATTTTTTTAAAAAATTTATTTTCAAAG
65 GATACTTTCAACTTTTCCTCAAAAATAATTTTTTTAAAAAACTTATTTTCAAAG
* **
22860065 AAAATTGATACTTTCAACTTTTCCTCGAAAATATTT
1 AAAATTGATACTTTCAATTTTTCCTAAAAAATATTT
22860101 AAAGAACCAA
Statistics
Matches: 137, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
114 1 0.01
115 9 0.07
116 69 0.50
117 2 0.01
118 49 0.36
119 7 0.05
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (118 bp):
AAAATTGATACTTTCAATTTTTCCTAAAAAATATTTTTTAGAAAACTTATTTTCAAAGAAAAATG
ATACTTTCAACTTTTCCTCAAAAATAATTTTTTTAAAAAACTTATTTTCAAAG
Found at i:22862253 original size:23 final size:25
Alignment explanation
Indices: 22862195--22862254 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
22862185 AAAAAGGAAA
* *
22862195 AAAAATTAAACAATAGATAAACCAT
1 AAAAATTAAAAAATAGATAAACCAC
* *
22862220 AAAAAAT-AAAAAT-GATAAA-TAC
1 AAAAATTAAAAAATAGATAAACCAC
22862242 AAAAATTAAAAAA
1 AAAAATTAAAAAA
22862255 ATCTAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 7 0.24
23 11 0.38
24 5 0.17
25 6 0.21
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAAATTAAAAAATAGATAAACCAC
Found at i:22862261 original size:23 final size:23
Alignment explanation
Indices: 22862224--22862280 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
22862214 AACCATAAAA
* *
22862224 AATAAAAATGATAAATACAAAAATT
1 AATAAAAAT-CTAAA-ACAAAAATG
*
22862249 AA-AAAAATCTAAAATAAAAATG
1 AATAAAAATCTAAAACAAAAATG
22862271 AATAAAAATC
1 AATAAAAATC
22862281 CCTATAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 11 0.39
24 6 0.21
25 2 0.07
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (23 bp):
AATAAAAATCTAAAACAAAAATG
Found at i:22862565 original size:42 final size:42
Alignment explanation
Indices: 22862489--22862973 Score: 243
Period size: 41 Copynumber: 11.7 Consensus size: 42
22862479 AGCTCAACGA
* * *
22862489 CAGAGACTCAACAACTTTGGAAAAATAAATAAAGCTACTCTAAAT
1 CAGAGGCTCAACGACTTT-GAAAAAT-AA-AAAGCTCCTCTAAAT
* * * *
22862534 -AGAGGCTCAACGACTTTTAGAAAGTAAAAAGCT-CTTTTAAT
1 CAGAGGCTCAACGACTTTGA-AAAATAAAAAGCTCCTCTAAAT
* **
22862575 CAGAAGCTCAACGACTTTGAAAAATAAACGGCTCCTCT-AAT
1 CAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* * **
22862616 TAGAGGTTCAACGACTTTGAAAAATAAACGGCTCCTCT-AAT
1 CAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* * *
22862657 CAGAGGCTCAACGACTTTGAAAAATAAATAA-ATTCTCT-AAG
1 CAGAGGCTCAACGACTTTGAAAAATAAA-AAGCTCCTCTAAAT
** * * *
22862698 CAGAAACATC-ATGAC-TTCAAAAAT-AAATGCTCCTCTAAA-
1 CAGAGGC-TCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* * * ** * ** **
22862737 CAAAGGCACCATAACTTTGAAAAGTAAATTGCTTATCTAAAT
1 CAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* ***
22862779 -A-AAGC-CAACCATGACTTTGAAAAATAAATTTCTCCTCTAAA-
1 CAGAGGCTCAA-C--GACTTTGAAAAATAAAAAGCTCCTCTAAAT
* * * **
22862820 CAGAGGCAACAA-AACTTTGAAAAGTAAATTGCTCCTCTAAAT
1 CAGAGGC-TCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* * * **
22862862 -AGAGGCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAAT
1 CAGAGGC-TCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* * * **
22862904 -AGAGGCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAAT
1 CAGAGGC-TCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
* *
22862946 -AGAGGCAACAA-AACTTTGAAAAATAAAA
1 CAGAGGC-TCAACGACTTTGAAAAATAAAA
22862974 TTGCTCCTTA
Statistics
Matches: 363, Mismatches: 57, Indels: 44
0.78 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 17 0.05
40 20 0.06
41 163 0.45
42 133 0.37
43 6 0.02
44 19 0.05
45 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (42 bp):
CAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAAAT
Found at i:22862620 original size:83 final size:82
Alignment explanation
Indices: 22862526--22862973 Score: 239
Period size: 83 Copynumber: 5.4 Consensus size: 82
22862516 AATAAAGCTA
* * * *
22862526 CTCTAAATAGAGGCTCAACGACTTTTAGAAAGTAAAAAGCTCTTTTAATCAGAAGCTCAACGACT
1 CTCTAAATAGAGGCTCAACGACTTTGA-AAAATAAAAAGCTCCTCTAATCAGAAGCTCAACGACT
22862591 TTGAAAAATAAACGGCTC
65 TTGAAAAATAAACGGCTC
* * ** *
22862609 CTCTAATTAGAGGTTCAACGACTTTGAAAAATAAACGGCTCCTCTAATCAGAGGCTCAACGACTT
1 CTCTAAATAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAATCAGAAGCTCAACGACTT
**** *
22862674 TGAAAAATAAATAAATT
66 TGAAAAATAAACGGCTC
** ** * * * * * * **
22862691 CTCTAAGCAGAAACATC-ATGAC-TTCAAAAAT-AAATGCTCCTCTAAACA-AAGGCACCATAAC
1 CTCTAAATAGAGGC-TCAACGACTTTGAAAAATAAAAAGCTCCTCTAATCAGAA-GCTCAACGAC
* ** *
22862752 TTTGAAAAGTAAATTGCTT
64 TTTGAAAAATAAACGGCTC
* * *** * * * *
22862771 ATCTAAATA-AAGC-CAACCATGACTTTGAAAAATAAATTTCTCCTCTAAACAGAGGCAACAA-A
1 CTCTAAATAGAGGCTCAA-C--GACTTTGAAAAATAAAAAGCTCCTCTAATCAGAAGC-TCAACG
* **
22862833 ACTTTGAAAAGTAAATTGCTC
62 ACTTTGAAAAATAAACGGCTC
* * * ** * * * *
22862854 CTCTAAATAGAGGCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAAT-AGAGGCAACCATGA
1 CTCTAAATAGAGGC-TCAACGACTTTGAAAAATAAAAAGCTCCTCT-AATCAGAAGC-TCAACGA
**
22862918 CTTTGAAAAATAAATTGCTC
63 CTTTGAAAAATAAACGGCTC
* *
22862938 CTCTAAATAGAGGCAACAA-AACTTTGAAAAATAAAA
1 CTCTAAATAGAGGC-TCAACGACTTTGAAAAATAAAA
22862974 TTGCTCCTTA
Statistics
Matches: 294, Mismatches: 56, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
77 1 0.00
78 1 0.00
79 4 0.01
80 41 0.14
81 11 0.04
82 65 0.22
83 122 0.41
84 47 0.16
86 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (82 bp):
CTCTAAATAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAATCAGAAGCTCAACGACTT
TGAAAAATAAACGGCTC
Found at i:22862893 original size:125 final size:124
Alignment explanation
Indices: 22862716--22862981 Score: 408
Period size: 125 Copynumber: 2.1 Consensus size: 124
22862706 TCATGACTTC
* *
22862716 AAAAATAAA-TGCTCCTCTAAACAAAGGCACCATAACTTTGAAAAGTAAATTGCTTATCTAAATA
1 AAAAATAAATTGCTCCTCTAAACAAAGGCACCATAACTTTGAAAAATAAATTGCTCATCTAAATA
*
22862780 AAGCCAACCATGACTTTGAAAAATAAATTTCTCCTCTAAACAGAGGCAACAAAACTTTG
66 AAGCCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACAAAACTTTG
* * * * *
22862839 AAAAGTAAATTGCTCCTCTAAATAGAGGCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAAT
1 AAAAATAAATTGCTCCTCTAAACAAAGGC-ACCATAACTTTGAAAAATAAATTGCTCATCTAAAT
* * *
22862904 AGAGGCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAACTTTG
65 AAAGCCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACAAAACTTTG
22862964 AAAAATAAAATTGCTCCT
1 AAAAAT-AAATTGCTCCT
22862982 TAACAATCAT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
123 8 0.06
124 17 0.13
125 92 0.72
126 11 0.09
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (124 bp):
AAAAATAAATTGCTCCTCTAAACAAAGGCACCATAACTTTGAAAAATAAATTGCTCATCTAAATA
AAGCCAACCATGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACAAAACTTTG
Found at i:22862975 original size:42 final size:42
Alignment explanation
Indices: 22862716--22862981 Score: 360
Period size: 42 Copynumber: 6.4 Consensus size: 42
22862706 TCATGACTTC
* *
22862716 AAAAATAAA-TGCTCCTCTAAACAAAGGC-ACCATAACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
* ** * * *
22862756 AAAAGTAAATTGCTTATCTAAATAAAGCCAACCATGACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
* * *
22862798 AAAAATAAATTTCTCCTCTAAACAGAGGCAA-CAAAACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
* *
22862839 AAAAGTAAATTGCTCCTCTAAATAGAGGCAACCATGACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
*
22862881 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATGACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
*
22862923 AAAAATAAATTGCTCCTCTAAATAGAGGCAA-CAAAACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
22862964 AAAAATAAAATTGCTCCT
1 AAAAAT-AAATTGCTCCT
22862982 TAACAATCAT
Statistics
Matches: 199, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 8 0.04
41 65 0.33
42 126 0.63
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (42 bp):
AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATAACTTTG
Found at i:22864761 original size:25 final size:26
Alignment explanation
Indices: 22864733--22864796 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
22864723 TCAATTTGAA
22864733 TCTTTTTTTTCATTTTCTC-ATTTTT
1 TCTTTTTTTTCATTTTCTCTATTTTT
22864758 TCTTTCTTTTTC--TTTCTCTATTTTT
1 TCTTT-TTTTTCATTTTCTCTATTTTT
22864783 TCATTTTTTTTCAT
1 TC-TTTTTTTTCAT
22864797 CATCTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
24 6 0.18
25 19 0.56
26 9 0.26
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (26 bp):
TCTTTTTTTTCATTTTCTCTATTTTT
Found at i:22864806 original size:25 final size:23
Alignment explanation
Indices: 22864733--22864813 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 23
22864723 TCAATTTGAA
*
22864733 TCTTTTTTTTCATTTTCTCATTTTT
1 TCTTTTTTTTCA-TCTCT-ATTTTT
*
22864758 TCTTTCTTTTTCTTTCTCTATTTTT
1 TCTTT-TTTTTC-ATCTCTATTTTT
22864783 TCATTTTTTTTCATCATCT-TTTTT
1 TC-TTTTTTTTCATC-TCTATTTTT
22864807 T-TTTTTT
1 TCTTTTTT
22864814 CATTTTTCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
22 6 0.12
24 8 0.16
25 22 0.45
26 13 0.27
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (23 bp):
TCTTTTTTTTCATCTCTATTTTT
Found at i:22868914 original size:31 final size:30
Alignment explanation
Indices: 22868879--22868970 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 30
22868869 CTTTTCCTCA
22868879 AAAATTCATTTTTGAAAACTTATTTTTAAGG
1 AAAATTCATTTTTGAAAACTTATTTTTAA-G
* * * **
22868910 AAAATTGATACTTT--CAACTT-TTCCTAA-
1 AAAATTCAT-TTTTGAAAACTTATTTTTAAG
*
22868937 AAAATTTATTTTTGAAAACTTATTTTTAAG
1 AAAATTCATTTTTGAAAACTTATTTTTAAG
22868967 AAAA
1 AAAA
22868971 ATTGATACTT
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 3 0.07
27 8 0.17
28 5 0.11
29 10 0.22
30 9 0.20
31 8 0.17
32 3 0.07
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (30 bp):
AAAATTCATTTTTGAAAACTTATTTTTAAG
Found at i:22868919 original size:58 final size:57
Alignment explanation
Indices: 22868793--22869180 Score: 449
Period size: 58 Copynumber: 6.7 Consensus size: 57
22868783 TTTTGTACAG
* * * *
22868793 GGAAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTAAAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAAC-TTATTTTCAA
* *
22868850 GGAAAATTGATACGTTCAACTTTTCCTCAAAAAT-TCATTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTGAAAACTTATTTTCAA
* * *
22868908 GGAAAATTGATACTTTCAACTTTTCCTAAAAAATTTATTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTGAAAACTTATTTTCAA
* * * *
22868966 GAAAAATTGATACTTTCAATTTTTCC-CTAAAAATATTTTTTAGAAAGCTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTT-GAAAACTTATTTTCAA
* *
22869024 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAACTTATTTTCAA
* * *
22869082 GAAAAATTGATACTTTTAACTTTTCCTCAAAAATAATTTTTTGAAAAAAATTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTG---AAAACTTATTTTCAA
** ** *
22869143 AAAAAATTGATACTTTCAACTTTTTTTCCAAAATATTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
22869181 AAGGAACTAG
Statistics
Matches: 293, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
57 31 0.11
58 197 0.67
59 19 0.06
60 4 0.01
61 42 0.14
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTATTTTCAA
Found at i:22868940 original size:27 final size:27
Alignment explanation
Indices: 22868852--22868942 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
22868842 AATTTCGAGG
* *
22868852 AAAATTGATACGTTCAACTTTTCCTCA
1 AAAATTGATACTTTCAACTTTTCCTAA
* * * **
22868879 AAAATTCAT-TTTTGAAAACTTATTTTTAA
1 AAAATTGATACTTT--CAACTT-TTCCTAA
22868908 GGAAAATTGATACTTTCAACTTTTCCTAA
1 --AAAATTGATACTTTCAACTTTTCCTAA
22868937 AAAATT
1 AAAATT
22868943 TATTTTTGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 14 0.30
28 5 0.11
29 9 0.20
30 5 0.11
31 8 0.17
32 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCTAA
Found at i:22868971 original size:31 final size:31
Alignment explanation
Indices: 22868878--22868973 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
22868868 ACTTTTCCTC
22868878 AAAAATTCATTTTTGAAAACTTATTTTTAAG
1 AAAAATTCATTTTTGAAAACTTATTTTTAAG
* * * * **
22868909 GAAAATTGATACTTT--CAACTT-TTCCT-A-
1 AAAAATTCAT-TTTTGAAAACTTATTTTTAAG
*
22868936 AAAAATTTATTTTTGAAAACTTATTTTTAAG
1 AAAAATTCATTTTTGAAAACTTATTTTTAAG
22868967 AAAAATT
1 AAAAATT
22868974 GATACTTTCA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
26 3 0.06
27 8 0.17
28 6 0.13
29 6 0.13
30 6 0.13
31 15 0.32
32 3 0.06
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (31 bp):
AAAAATTCATTTTTGAAAACTTATTTTTAAG
Found at i:22871337 original size:23 final size:23
Alignment explanation
Indices: 22871300--22871355 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
22871290 GACCATAAAA
* *
22871300 AATAAAAATGATAAATACAAAAATT
1 AATAAAAAT-TTAAA-ACAAAAATG
*
22871325 AA-AAAAATTTAAAATAAAAATG
1 AATAAAAATTTAAAACAAAAATG
22871347 AATAAAAAT
1 AATAAAAAT
22871356 CTCTACAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.33
23 10 0.37
24 6 0.22
25 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (23 bp):
AATAAAAATTTAAAACAAAAATG
Found at i:22871562 original size:26 final size:26
Alignment explanation
Indices: 22871532--22871596 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
22871522 AATTAATCTT
*
22871532 ATAAGATTAAATTAGATCAAATTTTA
1 ATAAGATCAAATTAGATCAAATTTTA
* *
22871558 ATAAGATCAAATTAGGTCGAATTTTA
1 ATAAGATCAAATTAGATCAAATTTTA
*
22871584 ATAAAATCAAATT
1 ATAAGATCAAATT
22871597 GAATTCTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.35
Consensus pattern (26 bp):
ATAAGATCAAATTAGATCAAATTTTA
Found at i:22872736 original size:30 final size:31
Alignment explanation
Indices: 22872683--22872768 Score: 104
Period size: 30 Copynumber: 2.8 Consensus size: 31
22872673 TATTTAGGTT
* *
22872683 AAATTAAAAGTTTAAGAACTTATTTAG-ATGC
1 AAATT-AAAGATTAAGAATTTATTTAGAATGC
* *
22872714 AAATTAAAGATTAAAAATTTATTT-GAATGT
1 AAATTAAAGATTAAGAATTTATTTAGAATGC
*
22872744 AAATTAAATATTAAGAATTTATTTA
1 AAATTAAAGATTAAGAATTTATTTA
22872769 AATATAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.87
31 5 0.11
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (31 bp):
AAATTAAAGATTAAGAATTTATTTAGAATGC
Found at i:22873167 original size:30 final size:31
Alignment explanation
Indices: 22873110--22873174 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
22873100 TCGCAAGCTA
* *
22873110 ATTTAGGTATAAATTAAAAGTTTAAAAACTT
1 ATTTAGATATAAATTAAAAGATTAAAAACTT
*
22873141 ATTTAGATATAAATTAAAA-ATTAAAAATTT
1 ATTTAGATATAAATTAAAAGATTAAAAACTT
22873171 ATTT
1 ATTT
22873175 GAATGCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (31 bp):
ATTTAGATATAAATTAAAAGATTAAAAACTT
Found at i:22873185 original size:30 final size:28
Alignment explanation
Indices: 22873118--22873238 Score: 111
Period size: 30 Copynumber: 4.2 Consensus size: 28
22873108 TAATTTAGGT
* *
22873118 ATAAATTAAAAGTTTAAAAACTTATTTAGA
1 ATAAATTAAAA-ATTAAAAATTTATTT-GA
22873148 TATAAATTAAAAATTAAAAATTTATTTGA
1 -ATAAATTAAAAATTAAAAATTTATTTGA
** *
22873177 ATGCAAATTAAATCTTAAGAATTTATTTGA
1 AT--AAATTAAAAATTAAAAATTTATTTGA
* *
22873207 AT--ATAAAAAATATAAAAATTTATTTAA
1 ATAAATTAAAAAT-TAAAAATTTATTTGA
22873234 ATAAA
1 ATAAA
22873239 ATTGTAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
26 6 0.08
27 15 0.20
28 2 0.03
29 3 0.04
30 38 0.51
31 11 0.15
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (28 bp):
ATAAATTAAAAATTAAAAATTTATTTGA
Found at i:22874137 original size:11 final size:11
Alignment explanation
Indices: 22874123--22874163 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
22874113 TATTTATAAA
22874123 TAATTTAAATT
1 TAATTTAAATT
*
22874134 TAATTTAAATA
1 TAATTTAAATT
* *
22874145 AAATTTTAATT
1 TAATTTAAATT
22874156 TAATTTAA
1 TAATTTAA
22874164 TTATTATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATTTAAATT
Found at i:22880177 original size:20 final size:21
Alignment explanation
Indices: 22880144--22880199 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
22880134 AAGTTTCTGA
*
22880144 ATATAA-AATTTTGAAAAATC
1 ATATAACATTTTTGAAAAATC
*
22880164 ATA-AACCTTTTTG-AAAATC
1 ATATAACATTTTTGAAAAATC
*
22880183 ATATAACATTTTAGAAA
1 ATATAACATTTTTGAAA
22880200 TAGATTTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 11 0.38
20 16 0.55
21 2 0.07
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATAACATTTTTGAAAAATC
Found at i:22880200 original size:19 final size:19
Alignment explanation
Indices: 22880144--22880200 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
22880134 AAGTTTCTGA
* *
22880144 ATATAAAATTTTGAAAAATC
1 ATATAACATTTT-AGAAATC
* *
22880164 ATA-AACCTTTTTGAAAATC
1 ATATAACATTTTAG-AAATC
22880183 ATATAACATTTTAGAAAT
1 ATATAACATTTTAGAAAT
22880201 AGATTTTCGG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (19 bp):
ATATAACATTTTAGAAATC
Found at i:22881709 original size:40 final size:40
Alignment explanation
Indices: 22881665--22881742 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
22881655 AAGGATGATG
*
22881665 ATCATGGTGAGTATTTTCACTTTTCACTAATGAATTGTGA
1 ATCATGCTGAGTATTTTCACTTTTCACTAATGAATTGTGA
22881705 ATCATGCTGAGTATTTTCACTTTTCACTAATGAATTGT
1 ATCATGCTGAGTATTTTCACTTTTCACTAATGAATTGT
22881743 TTGTTTGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (40 bp):
ATCATGCTGAGTATTTTCACTTTTCACTAATGAATTGTGA
Found at i:22888800 original size:7 final size:7
Alignment explanation
Indices: 22888784--22888823 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
22888774 AAACTTTGAA
22888784 TTTTTA-
1 TTTTTAT
22888790 TTTTTAT
1 TTTTTAT
*
22888797 TTTTTCT
1 TTTTTAT
22888804 TTTTTATT
1 TTTTTA-T
22888812 TTTTTAT
1 TTTTTAT
22888819 TTTTT
1 TTTTT
22888824 GAATTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:22888801 original size:14 final size:14
Alignment explanation
Indices: 22888784--22888822 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
22888774 AAACTTTGAA
22888784 TTTTTATTTTTATT
1 TTTTTATTTTTATT
22888798 TTTTCT-TTTTTATT
1 TTTT-TATTTTTATT
22888812 TTTTTATTTTT
1 TTTTTATTTTT
22888823 TGAATTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:22888873 original size:15 final size:15
Alignment explanation
Indices: 22888790--22888881 Score: 53
Period size: 16 Copynumber: 5.7 Consensus size: 15
22888780 TGAATTTTTA
22888790 TTTTTATTTT-T-TCT
1 TTTTTATTTTATAT-T
*
22888804 TTTTTATTTTTTTATT
1 TTTTTA-TTTTATATT
* * *
22888820 TTTTGAATTTATGTT
1 TTTTTATTTTATATT
*
22888835 ATTTATATATATTTATCTT
1 -TTT-T-TAT-TTTATATT
22888854 GTTTTTATTTTATATT
1 -TTTTTATTTTATATT
22888870 TTTTTATATTTA
1 TTTTTAT-TTTA
22888882 CTTTTATTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
14 6 0.10
15 17 0.28
16 21 0.34
17 5 0.08
18 2 0.03
19 10 0.16
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTATATT
Found at i:22888886 original size:12 final size:11
Alignment explanation
Indices: 22888842--22888888 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
22888832 GTTATTTATA
*
22888842 TATATTTATCT
1 TATATTTATTT
* *
22888853 TGTTTTTATTT
1 TATATTTATTT
22888864 TATATTT-TTT
1 TATATTTATTT
22888874 TATATTTACTTT
1 TATATTTA-TTT
22888886 TAT
1 TAT
22888889 TGATTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 10 0.34
11 13 0.45
12 6 0.21
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (11 bp):
TATATTTATTT
Found at i:22888886 original size:15 final size:16
Alignment explanation
Indices: 22888790--22888886 Score: 60
Period size: 15 Copynumber: 6.1 Consensus size: 16
22888780 TGAATTTTTA
*
22888790 TTTTTAT-TTTTTC-T
1 TTTTTATATTTATCTT
* * *
22888804 TTTTTATTTTTTTATT
1 TTTTTATATTTATCTT
* *
22888820 TTTTGA-ATTTATGTT
1 TTTTTATATTTATCTT
22888835 ATTTATATATATTTATCTT
1 -TTT-T-TATATTTATCTT
*
22888854 GTTTTTAT-TTTATATT
1 -TTTTTATATTTATCTT
22888870 TTTTTATATTTA-CTT
1 TTTTTATATTTATCTT
22888885 TT
1 TT
22888887 ATTGATTATT
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
14 7 0.11
15 22 0.33
16 20 0.30
17 4 0.06
18 2 0.03
19 11 0.17
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTATATTTATCTT
Found at i:22889554 original size:30 final size:35
Alignment explanation
Indices: 22889518--22889593 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 35
22889508 TATTTTCTAT
22889518 TAAAAATATTA-TTT-TATTCAT-AAAT-TATA-A
1 TAAAAATATTATTTTCTATTCATAAAATATATATA
*
22889548 TAAAAATATTATTTTCTATTCATAAAATATATATT
1 TAAAAATATTATTTTCTATTCATAAAATATATATA
22889583 TAAAAATATTA
1 TAAAAATATTA
22889594 GATATCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 11 0.28
31 3 0.08
32 7 0.17
33 4 0.10
34 4 0.10
35 11 0.28
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
TAAAAATATTATTTTCTATTCATAAAATATATATA
Found at i:22889701 original size:15 final size:15
Alignment explanation
Indices: 22889681--22889726 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
22889671 AATTGATTTT
*
22889681 TATATTTTTCAAATA
1 TATATTTTTAAAATA
22889696 TATATTTTTAAAATA
1 TATATTTTTAAAATA
*
22889711 T-TATAATTTAAAATA
1 TATAT-TTTTAAAATA
22889726 T
1 T
22889727 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTTTTAAAATA
Found at i:22889782 original size:18 final size:17
Alignment explanation
Indices: 22889757--22889798 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
22889747 ATTATTTATC
*
22889757 AATAAAATAATATTTTT
1 AATAAAATAAGATTTTT
*
22889774 AATAGAAATTAGATTTTT
1 AATA-AAATAAGATTTTT
22889792 AA-AAAAT
1 AATAAAAT
22889799 TAAAATTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 5 0.23
18 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
AATAAAATAAGATTTTT
Found at i:22889905 original size:30 final size:31
Alignment explanation
Indices: 22889848--22889915 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
22889838 TACATATTAT
*
22889848 TTTAAAAATTTAAGTAAAAATTTTTATATCGA
1 TTTAAAAATTTAAGTAAAAATCTTTATATC-A
22889880 TTTAATAAA-TTAA-TAAAAA-CTTTATATCA
1 TTTAA-AAATTTAAGTAAAAATCTTTATATCA
22889909 TTTAAAA
1 TTTAAAA
22889916 TATTATGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 6 0.18
30 8 0.24
31 6 0.18
32 9 0.26
33 3 0.09
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
TTTAAAAATTTAAGTAAAAATCTTTATATCA
Found at i:22889927 original size:30 final size:31
Alignment explanation
Indices: 22889852--22889927 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
22889842 TATTATTTTA
*
22889852 AAAAT-TTAAGTAAAAATTTTTATATCGATTT
1 AAAATATT-AGTAAAAATCTTTATATCGATTT
*
22889883 AATAA-ATTAATAAAAA-CTTTATATC-ATTT
1 AA-AATATTAGTAAAAATCTTTATATCGATTT
22889912 AAAATATTATGTAAAA
1 AAAATATTA-GTAAAA
22889928 TTTTCATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 2 0.05
29 10 0.26
30 13 0.34
31 9 0.24
32 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (31 bp):
AAAATATTAGTAAAAATCTTTATATCGATTT
Found at i:22890756 original size:23 final size:23
Alignment explanation
Indices: 22890722--22890767 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
22890712 AGAGAAGAAA
*
22890722 GAGAAATGAAAGCTTTGGGATTC
1 GAGAAATAAAAGCTTTGGGATTC
22890745 GAGAAATAAAAGCTTTGGGATTC
1 GAGAAATAAAAGCTTTGGGATTC
22890768 TTTTGCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (23 bp):
GAGAAATAAAAGCTTTGGGATTC
Found at i:22891427 original size:24 final size:24
Alignment explanation
Indices: 22891400--22891448 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
22891390 TTTTTAAAAA
22891400 TTTTAAGCAATATTATTTTTATAT
1 TTTTAAGCAATATTATTTTTATAT
* **
22891424 TTTTTATTAATATTATTTTTATAT
1 TTTTAAGCAATATTATTTTTATAT
22891448 T
1 T
22891449 ATGTCATCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTAAGCAATATTATTTTTATAT
Found at i:22891449 original size:11 final size:11
Alignment explanation
Indices: 22891409--22891450 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
22891399 ATTTTAAGCA
22891409 ATATTATTTTT
1 ATATTATTTTT
*
22891420 ATATTTTTTATT
1 ATATTATTT-TT
22891432 AATATTATTTTT
1 -ATATTATTTTT
22891444 ATATTAT
1 ATATTAT
22891451 GTCATCGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.56
12 4 0.15
13 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:22892704 original size:30 final size:29
Alignment explanation
Indices: 22892570--22892704 Score: 98
Period size: 30 Copynumber: 4.6 Consensus size: 29
22892560 ATCATTTTGT
* *
22892570 TTAAATAAATTTTT-ATCTTTTTA-TTACA
1 TTAAATAAATTTTTAAT-TTTTAATTTATA
*
22892598 TCTAAATAAATTTTTAATATTTAATTT-TCA
1 T-TAAATAAATTTTTAATTTTTAATTTAT-A
* * * **
22892628 TTTAAA-AAGTATTAAAACTTTAATTTATA
1 -TTAAATAAATTTTTAATTTTTAATTTATA
* *
22892657 TCTAAATAAACTCTTAATTTTTAATTTATA
1 T-TAAATAAATTTTTAATTTTTAATTTATA
22892687 CTTAAATAAATTTTTAAT
1 -TTAAATAAATTTTTAAT
22892705 ATATATTAAT
Statistics
Matches: 81, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
28 2 0.02
29 37 0.46
30 40 0.49
31 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (29 bp):
TTAAATAAATTTTTAATTTTTAATTTATA
Found at i:22892817 original size:110 final size:110
Alignment explanation
Indices: 22892690--22892919 Score: 433
Period size: 110 Copynumber: 2.1 Consensus size: 110
22892680 ATTTATACTT
*
22892690 AAATAAATTTTTAATATATATTAATTTTTTATTTAAAATAAAGATTTATATAAATACAAATGGAA
1 AAATAAAGTTTTAATATATATTAATTTTTTATTTAAAATAAAGATTTATATAAATACAAATGGAA
*
22892755 ATATAAAAATTTGTTCAAATATAATAAACATATAACAACTTATTA
66 ATATAAAAATTTATTCAAATATAATAAACATATAACAACTTATTA
*
22892800 AAATAAAGTTTTAATATATGTTAATTTTTTATTTAAAATAAAGATTTATATAAATACAAATGGAA
1 AAATAAAGTTTTAATATATATTAATTTTTTATTTAAAATAAAGATTTATATAAATACAAATGGAA
22892865 ATATAAAAATTTATTCAAATATAATAAACATATAACAACTTATTA
66 ATATAAAAATTTATTCAAATATAATAAACATATAACAACTTATTA
22892910 AAATAAAGTT
1 AAATAAAGTT
22892920 GAAATAATTA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
110 117 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (110 bp):
AAATAAAGTTTTAATATATATTAATTTTTTATTTAAAATAAAGATTTATATAAATACAAATGGAA
ATATAAAAATTTATTCAAATATAATAAACATATAACAACTTATTA
Found at i:22893433 original size:29 final size:29
Alignment explanation
Indices: 22893368--22893425 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
22893358 TGATTTTGTT
22893368 CCAAGTATAAATTTGTTATTTAAGATTAG
1 CCAAGTATAAATTTGTTATTTAAGATTAG
22893397 CCAAGTATAAATTTGTTATTTAAGATTAG
1 CCAAGTATAAATTTGTTATTTAAGATTAG
22893426 TTTAGTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (29 bp):
CCAAGTATAAATTTGTTATTTAAGATTAG
Found at i:22900075 original size:22 final size:23
Alignment explanation
Indices: 22900050--22900125 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
22900040 TTAAAAAATA
22900050 AAAAATCATAAAAAT-TAATTTT
1 AAAAATCATAAAAATATAATTTT
*
22900072 -AAAAT-ATAAAAATAAAAATTTT
1 AAAAATCATAAAAAT-ATAATTTT
** * *
22900094 AAATGTTAAAAAAATATAATTTT
1 AAAAATCATAAAAATATAATTTT
22900117 AAAATATCA
1 AAAA-ATCA
22900126 AAGGAAATCA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 8 0.20
21 5 0.12
22 6 0.15
23 13 0.32
24 9 0.22
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (23 bp):
AAAAATCATAAAAATATAATTTT
Found at i:22902001 original size:81 final size:81
Alignment explanation
Indices: 22901861--22902101 Score: 356
Period size: 81 Copynumber: 3.0 Consensus size: 81
22901851 TCTCTAAAAG
* ** * * * * *
22901861 GCTTAAACAGAACATGATCTTGAATAGAACCCGATCCTTCAACGTATCCTTGCTCGTTCCACCCA
1 GCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCCA
22901926 TTCGACGTTTGCAGCA
66 TTCGACGTTTGCAGCA
* * *
22901942 GCTTTAACAGAATCCGATCTTGAACAGAACCCGATCCCTCAATGAAGCCCTGCTCGTTCCACCCA
1 GCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCCA
22902007 TTCGACGTTTGCAGCA
66 TTCGACGTTTGCAGCA
* * *
22902023 GCTTCAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAACGAAGCCCTGCTCGTTCTACCTA
1 GCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCCA
22902088 TTCGACGTTTGCAG
66 TTCGACGTTTGCAG
22902102 TAGCACCCAT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 144 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (81 bp):
GCTTCAACAGAACCCGATCTTGAACAGAACCCGATCCCTCAACGAAGCCCTGCTCGTTCCACCCA
TTCGACGTTTGCAGCA
Done.