Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, 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: 12062019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 103452 characters in sequence are not A, C, G, or T
File 23 of 26
Found at i:9859805 original size:28 final size:28
Alignment explanation
Indices: 9859774--9859923 Score: 100
Period size: 29 Copynumber: 5.4 Consensus size: 28
9859764 GAGATGATAT
9859774 TATATAAAAATTAATAATAAAAAATAAA
1 TATATAAAAATTAATAATAAAAAATAAA
*
9859802 TATATTAAAAA-TAA-AAT---ATATAAGA
1 TATA-TAAAAATTAATAATAAAAAATAA-A
* * * *
9859827 T-TATAATAATAAATAAAAATAAAATATA
1 TATATAAAAATTAATAATAA-AAAATAAA
* * *
9859855 TGATATTAAAAA-T-ATATCTAAGAGATGAAA
1 T-ATA-TAAAAATTAATA-ATAAAAAAT-AAA
9859885 TTATATAAAAATTAATAATAAAAAATAAA
1 -TATATAAAAATTAATAATAAAAAATAAA
9859914 TATATAAAAA
1 TATATAAAAA
9859924 GTAAATATAT
Statistics
Matches: 90, Mismatches: 16, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
23 5 0.06
24 9 0.10
25 4 0.04
27 3 0.03
28 19 0.21
29 25 0.28
30 16 0.18
31 9 0.10
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
TATATAAAAATTAATAATAAAAAATAAA
Found at i:9859812 original size:16 final size:15
Alignment explanation
Indices: 9859774--9859933 Score: 73
Period size: 15 Copynumber: 10.3 Consensus size: 15
9859764 GAGATGATAT
*
9859774 TATA-TAAAAATTAA
1 TATATTAAAAATAAA
*
9859788 TA-ATAAAAAATAAA
1 TATATTAAAAATAAA
9859802 TATATTAAAAATAAA
1 TATATTAAAAATAAA
* *
9859817 -ATATATAAGATTATAA
1 TATAT-TAAAAATA-AA
*
9859833 TAATAAATAAAAATAAAA
1 T-AT-ATTAAAAAT-AAA
**
9859851 TATATGATATTAA-AAA
1 TATAT--TAAAAATAAA
*
9859867 TATATCTAAGAGATGAAA
1 TATAT-TAA-AAAT-AAA
*
9859885 T-TATATAAAAATTAA
1 TATAT-TAAAAATAAA
*
9859900 TA-ATAAAAAATAAA
1 TATATTAAAAATAAA
9859914 TATA-TAAAAAGTAAA
1 TATATTAAAAA-TAAA
9859929 TATAT
1 TATAT
9859934 AAGATTATAA
Statistics
Matches: 108, Mismatches: 21, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
13 1 0.01
14 31 0.29
15 33 0.31
16 15 0.14
17 8 0.07
18 18 0.17
19 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (15 bp):
TATATTAAAAATAAA
Found at i:9859829 original size:112 final size:112
Alignment explanation
Indices: 9859695--9860035 Score: 605
Period size: 112 Copynumber: 3.0 Consensus size: 112
9859685 TATTAAAAAA
*
9859695 TAAAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGACATTAAAAATATAT
1 TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
* *
9859760 TTAAGAGATGATATTATATAAAAATTAATAATAAAAAATAAATATAT
66 CTAAGAGATGAAATTATATAAAAATTAATAATAAAAAATAAATATAT
*
9859807 TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATAT
1 TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
9859872 CTAAGAGATGAAATTATATAAAAATTAATAATAAAAAATAAATATA-
66 CTAAGAGATGAAATTATATAAAAATTAATAATAAAAAATAAATATAT
9859918 TAAAAAGT-AAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATA
1 TAAAAA-TAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATA
9859982 TCTAAGAGATGAAATTATATAAAAATTAATAATAAAAAATATAAATATAT
65 TCTAAGAGATGAAATTATATAAAAATTAATAAT-AAAAA-ATAAATATAT
9860032 TAAA
1 TAAA
9860036 CTTGTATTTT
Statistics
Matches: 220, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
111 94 0.43
112 113 0.51
113 9 0.04
114 4 0.02
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (112 bp):
TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
CTAAGAGATGAAATTATATAAAAATTAATAATAAAAAATAAATATAT
Found at i:9859849 original size:33 final size:33
Alignment explanation
Indices: 9859807--9859966 Score: 117
Period size: 33 Copynumber: 4.5 Consensus size: 33
9859797 ATAAATATAT
9859807 TAAAAATAAAATATATAAGATTATAATAATAAA
1 TAAAAATAAAATATATAAGATTATAATAATAAA
* * *
9859840 TAAAAATAAAATATATGATATTA-AA-AATATATC
1 TAAAAATAAAATATATAAGATTATAATAATA-A-A
* * *
9859873 TAAGAGATGAAATTATATAAAAATTAATAATAAAAAATAAA
1 TAA-AAAT-AAAATATAT-AAGATT-ATAAT----AATAAA
*
9859914 TATATAAAAAGTAAATATATAAGATTATAATAATAAA
1 TA-A-AAATA--AAATATATAAGATTATAATAATAAA
9859951 TAAAAATAAAATATAT
1 TAAAAATAAAATATAT
9859967 GACATTAAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
31 4 0.04
32 3 0.03
33 32 0.33
34 3 0.03
35 12 0.12
36 5 0.05
37 9 0.09
38 2 0.02
41 8 0.08
42 9 0.09
43 11 0.11
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (33 bp):
TAAAAATAAAATATATAAGATTATAATAATAAA
Found at i:9859934 original size:15 final size:14
Alignment explanation
Indices: 9859774--9859935 Score: 92
Period size: 14 Copynumber: 11.5 Consensus size: 14
9859764 GAGATGATAT
*
9859774 TATATAAAAATTAA
1 TATATAAAAATAAA
9859788 TA-ATAAAAAATAAA
1 TATAT-AAAAATAAA
9859802 TATATTAAAAATAAA
1 TATA-TAAAAATAAA
* *
9859817 -ATATATAAGAT-TA
1 TATATA-AAAATAAA
9859830 TA-ATAATAAATAAA
1 TATATAA-AAATAAA
*
9859844 -A-AT-AAAATATA
1 TATATAAAAATAAA
9859855 TGATATTAAAAAT--A
1 T-ATA-TAAAAATAAA
* *
9859869 TATCTAAGAGATGAAA
1 TATATAA-AAAT-AAA
*
9859885 TTATATAAAAATTAA
1 -TATATAAAAATAAA
9859900 TA-ATAAAAAATAAA
1 TATAT-AAAAATAAA
9859914 TATATAAAAAGTAAA
1 TATATAAAAA-TAAA
9859929 TATATAA
1 TATATAA
9859936 GATTATAATA
Statistics
Matches: 116, Mismatches: 12, Indels: 39
0.69 0.07 0.23
Matches are distributed among these distances:
11 6 0.05
12 5 0.04
13 22 0.19
14 41 0.35
15 26 0.22
16 10 0.09
17 6 0.05
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (14 bp):
TATATAAAAATAAA
Found at i:9883336 original size:37 final size:37
Alignment explanation
Indices: 9883274--9883344 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
9883264 AGATAATAGC
* *
9883274 ATTTTCAACTACAGTGCATTTCAGCTTCTTGCTAGGA
1 ATTTTCAACTACAATGCATTCCAGCTTCTTGCTAGGA
*
9883311 ATTTTCAACTACAATTCATTCCAGCTTCTTGCTA
1 ATTTTCAACTACAATGCATTCCAGCTTCTTGCTA
9883345 TGGTTACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (37 bp):
ATTTTCAACTACAATGCATTCCAGCTTCTTGCTAGGA
Found at i:9886319 original size:2 final size:2
Alignment explanation
Indices: 9886312--9886344 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9886302 ATTAACTTTG
*
9886312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9886345 GTATCAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9894364 original size:1 final size:1
Alignment explanation
Indices: 9894358--9894383 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9894348 GATTGTTAGG
9894358 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9894384 ATTGATAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9917429 original size:23 final size:22
Alignment explanation
Indices: 9917387--9917437 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
9917377 TCTGATTAAT
*
9917387 ATTACATAAATATAAAAATTTA
1 ATTAAATAAATATAAAAATTTA
9917409 ATTAAATATAATA-AAAGAATTTA
1 ATTAAATA-AATATAAA-AATTTA
*
9917432 TTTAAA
1 ATTAAA
9917438 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTAAATAAATATAAAAATTTA
Found at i:9923753 original size:68 final size:68
Alignment explanation
Indices: 9923654--9923799 Score: 161
Period size: 68 Copynumber: 2.1 Consensus size: 68
9923644 AAAATTCATG
* * * *
9923654 TTTATATATTAAAGATTCATCCTGATATCTTATTGACGTAAAATTTATAACATTCTACTTCATCT
1 TTTATATATTAAAGATTCATCCTGATATCTTACTAACATAAAATTTATAACATTCTACCTCATCT
9923719 ATA
66 ATA
* * * * *
9923722 TTTATATATATATAAGA-TCA-CCTTATTTCTTACTAACATGAGATTTATGACATTCTACCTCAT
1 TTTATATAT-TA-AAGATTCATCCTGATATCTTACTAACATAAAATTTATAACATTCTACCTCAT
* *
9923785 TTATG
64 CTATA
9923790 TTTATATATT
1 TTTATATATT
9923800 TAAAACTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
67 1 0.02
68 55 0.85
69 5 0.08
70 4 0.06
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (68 bp):
TTTATATATTAAAGATTCATCCTGATATCTTACTAACATAAAATTTATAACATTCTACCTCATCT
ATA
Found at i:9937376 original size:20 final size:21
Alignment explanation
Indices: 9937341--9937381 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9937331 AAAAATCACC
*
9937341 AAATAACAATATATTAAAATT
1 AAATAACAAAATATTAAAATT
*
9937362 AAATAA-AAAATATTACAATT
1 AAATAACAAAATATTAAAATT
9937382 CAACAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAACAAAATATTAAAATT
Found at i:9942395 original size:17 final size:17
Alignment explanation
Indices: 9942367--9942400 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9942357 TCTGCATCAG
9942367 GAAATCATTTGCATTCCT
1 GAAATCATTTGC-TTCCT
9942385 GAAATCA-TTGCTTCCT
1 GAAATCATTTGCTTCCT
9942401 ACAGCTTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (17 bp):
GAAATCATTTGCTTCCT
Found at i:9943893 original size:3 final size:3
Alignment explanation
Indices: 9943885--9943911 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9943875 AAGTAAAACC
9943885 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
9943912 ATATTACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9944263 original size:13 final size:13
Alignment explanation
Indices: 9944245--9944269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9944235 TCTTACCACC
9944245 TTTTTATTTTTTA
1 TTTTTATTTTTTA
9944258 TTTTTATTTTTT
1 TTTTTATTTTTT
9944270 GTTGGGCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:9946402 original size:21 final size:20
Alignment explanation
Indices: 9946378--9946418 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9946368 CTCTCTCAAA
9946378 TTTTAAAATTTAATAAATTTT
1 TTTTAAAATTTAAT-AATTTT
* *
9946399 TTTTCAAATTTTATAATTTT
1 TTTTAAAATTTAATAATTTT
9946419 ACTTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTTAATAATTTT
Found at i:9946956 original size:26 final size:24
Alignment explanation
Indices: 9946902--9946958 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
9946892 AATATTTTAA
* *
9946902 CAAAATATATGTTATTTTTAAATT
1 CAAAATATACGTTATTTCTAAATT
9946926 CAAAATATACGTTATTTGACTAAATT
1 CAAAATATACGTTATTT--CTAAATT
*
9946952 TAAAATA
1 CAAAATA
9946959 AGATATAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 16 0.57
26 12 0.43
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (24 bp):
CAAAATATACGTTATTTCTAAATT
Found at i:9975595 original size:21 final size:22
Alignment explanation
Indices: 9975571--9975614 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9975561 GACTAAAAGG
*
9975571 AAAATAGA-TATAATATTTTAA
1 AAAATAGATTAAAATATTTTAA
**
9975592 AAAATTTATTAAAATATTTTAA
1 AAAATAGATTAAAATATTTTAA
9975614 A
1 A
9975615 TTTTTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATAGATTAAAATATTTTAA
Found at i:9981392 original size:2 final size:2
Alignment explanation
Indices: 9981387--9981421 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9981377 GTGTGTGTGT
9981387 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9981422 GGACCAGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9982372 original size:2 final size:2
Alignment explanation
Indices: 9982367--9982392 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9982357 AGAAGCCTTC
9982367 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
9982393 ACAAGCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10003843 original size:16 final size:18
Alignment explanation
Indices: 10003806--10003850 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
10003796 TTTGTCCTGC
10003806 TCTTGCTTTTTCCTTCTCT
1 TCTT-CTTTTTCCTTCTCT
10003825 TCTTCTTTTTCCTT-T-T
1 TCTTCTTTTTCCTTCTCT
*
10003841 TCTTGTTTTT
1 TCTTCTTTTT
10003851 GTTTTTGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
17 1 0.04
18 10 0.40
19 4 0.16
ACGTcount: A:0.00, C:0.24, G:0.04, T:0.71
Consensus pattern (18 bp):
TCTTCTTTTTCCTTCTCT
Found at i:10016624 original size:2 final size:2
Alignment explanation
Indices: 10016617--10016645 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10016607 GGATAGTAAT
10016617 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10016646 TAAATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10022969 original size:16 final size:18
Alignment explanation
Indices: 10022933--10022968 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10022923 AATAATCATA
*
10022933 TTATGTATATATATAATT
1 TTATGCATATATATAATT
10022951 TTATGCATATA-ATAATT
1 TTATGCATATATATAATT
10022968 T
1 T
10022969 AAAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (18 bp):
TTATGCATATATATAATT
Found at i:10037806 original size:23 final size:23
Alignment explanation
Indices: 10037762--10037806 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10037752 AAATAAATTG
**
10037762 AAATTATAAATATTTATTTTTAA
1 AAATTATAAATATTTAAATTTAA
10037785 AAATTAATAAAT-TTTAAATTTA
1 AAATT-ATAAATATTTAAATTTA
10037807 TTAATTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTATAAATATTTAAATTTAA
Found at i:10037976 original size:24 final size:25
Alignment explanation
Indices: 10037936--10037984 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
10037926 TACTTTATTA
10037936 ATTTATATGTATTTAATTAAATAATT
1 ATTTATA-GTATTTAATTAAATAATT
10037962 ATTTATA-TATTTAATTAAATAAT
1 ATTTATAGTATTTAATTAAATAAT
10037985 AATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 16 0.70
26 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTTATAGTATTTAATTAAATAATT
Found at i:10037992 original size:24 final size:24
Alignment explanation
Indices: 10037939--10037992 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10037929 TTTATTAATT
* *
10037939 TATATGTATTTAATTAAATAATTA
1 TATATATATTTAATTAAATAATAA
*
10037963 TTTATATATTTAATTAAATAATAA
1 TATATATATTTAATTAAATAATAA
10037987 TATATA
1 TATATA
10037993 AATACTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATATATATTTAATTAAATAATAA
Found at i:10039789 original size:25 final size:25
Alignment explanation
Indices: 10039721--10039782 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
10039711 TTATAATAAT
10039721 AGCCCACTTCCATGATGGGTTTTTA
1 AGCCCACTTCCATGATGGGTTTTTA
10039746 AGCCCACTTCCATGATGGGTTTTTA
1 AGCCCACTTCCATGATGGGTTTTTA
10039771 AGCCCA-TTCCAT
1 AGCCCACTTCCAT
10039783 AATTGGGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.16
25 31 0.84
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
AGCCCACTTCCATGATGGGTTTTTA
Found at i:10048083 original size:19 final size:19
Alignment explanation
Indices: 10048047--10048083 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10048037 ACCTTCAGCA
**
10048047 CAACTTTTTTTATTTTAAC
1 CAACTTTTTTTAAATTAAC
10048066 CAACTTTTTTTAAATTAA
1 CAACTTTTTTTAAATTAA
10048084 TTATATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (19 bp):
CAACTTTTTTTAAATTAAC
Found at i:10059265 original size:18 final size:18
Alignment explanation
Indices: 10059242--10059280 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10059232 TTTCATTGAT
10059242 ATTGCAAACAATTTGGTC
1 ATTGCAAACAATTTGGTC
10059260 ATTGCAAACAATTTGGTC
1 ATTGCAAACAATTTGGTC
10059278 ATT
1 ATT
10059281 AATTTCCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (18 bp):
ATTGCAAACAATTTGGTC
Found at i:10065196 original size:9 final size:9
Alignment explanation
Indices: 10065182--10065217 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
10065172 AAGATGCATC
10065182 CCTCTTCCT
1 CCTCTTCCT
10065191 CCTCTT-CT
1 CCTCTTCCT
10065199 -CT-TTCCT
1 CCTCTTCCT
10065206 CCTCTTCCT
1 CCTCTTCCT
10065215 CCT
1 CCT
10065218 ACTTTCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.08
7 4 0.17
8 4 0.17
9 14 0.58
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (9 bp):
CCTCTTCCT
Found at i:10083529 original size:16 final size:17
Alignment explanation
Indices: 10083505--10083537 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10083495 TGCATTAAGA
10083505 TATAATATA-GTTTTTT
1 TATAATATAGGTTTTTT
*
10083521 TATAGTATAGGTTTTTT
1 TATAATATAGGTTTTTT
10083538 CTTAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (17 bp):
TATAATATAGGTTTTTT
Found at i:10092574 original size:101 final size:101
Alignment explanation
Indices: 10092457--10092654 Score: 231
Period size: 101 Copynumber: 2.0 Consensus size: 101
10092447 CACTTTTCAT
* * * * *
10092457 CAATTAATTATATATTTGAAA-TTTTATT-TATATCTTTGATAGTAAAA-TCATAAAAATTCTGT
1 CAATTAACTACATATTT-AAACTTTTATTCT-TATCTTCGATAATAAAACT-ATAAAAATACTGT
** * *
10092519 TTATGAAAAATAAGCTGTTAAATATTGTTTTGATACTTA
63 TTACAAAAAATAAACAGTTAAATATTGTTTTGATACTTA
* * * *
10092558 CAATTAACTACATATTTAAACTTTTCTTCTTATCTTCGTTAATGAAACTATTAAAATACTGTTTA
1 CAATTAACTACATATTTAAACTTTTATTCTTATCTTCGATAATAAAACTATAAAAATACTGTTTA
10092623 CAAAAAATAAACAGTTAAATATTGTTTTGATA
66 CAAAAAATAAACAGTTAAATATTGTTTTGATA
10092655 ATTGCAAGTT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
100 3 0.04
101 76 0.94
102 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (101 bp):
CAATTAACTACATATTTAAACTTTTATTCTTATCTTCGATAATAAAACTATAAAAATACTGTTTA
CAAAAAATAAACAGTTAAATATTGTTTTGATACTTA
Found at i:10117088 original size:18 final size:18
Alignment explanation
Indices: 10117065--10117117 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
10117055 AGAATTCAAT
* *
10117065 GTTCATGAAGATGGTGAG
1 GTTCATGAAAAGGGTGAG
*
10117083 GTTCATGAAAAGGGTGCG
1 GTTCATGAAAAGGGTGAG
*
10117101 GTTCATGAAAACGGTGA
1 GTTCATGAAAAGGGTGA
10117118 TGAAGAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.36, T:0.25
Consensus pattern (18 bp):
GTTCATGAAAAGGGTGAG
Found at i:10117510 original size:27 final size:27
Alignment explanation
Indices: 10117469--10117543 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
10117459 TGAAGATGGC
*
10117469 ATTCTATCTTCGGTAACAGTGATCGGT
1 ATTCTATCTTAGGTAACAGTGATCGGT
*
10117496 ATTCTATCTTAGGTAACAGTGATTGGT
1 ATTCTATCTTAGGTAACAGTGATCGGT
10117523 ATTCTATCTTAGGTAACAGTG
1 ATTCTATCTTAGGTAACAGTG
10117544 TTCTCTCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTCTATCTTAGGTAACAGTGATCGGT
Found at i:10118497 original size:70 final size:69
Alignment explanation
Indices: 10118374--10118515 Score: 239
Period size: 70 Copynumber: 2.0 Consensus size: 69
10118364 ATTCTATTCC
* * *
10118374 TGGTTTAAGCTTGAATAAAGAATAGAAAGTGATAGTGTATGTTTTCTTTTGTAATAAAAAATTAT
1 TGGTTTAAGCTTGAATAAAGAATAGAAACTGATAGTATATGTTTTCTTTTGTAACAAAAAATTAT
10118439 CTCT
66 CTCT
*
10118443 TGGTTTAAGTTTGAATAAAGAATAGCAAACTGATAGTATATGTTTTCTTTTGTAACAAAAAATTA
1 TGGTTTAAGCTTGAATAAAGAATAG-AAACTGATAGTATATGTTTTCTTTTGTAACAAAAAATTA
10118508 TCTCT
65 TCTCT
10118513 TGG
1 TGG
10118516 ATTATAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
69 24 0.35
70 44 0.65
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (69 bp):
TGGTTTAAGCTTGAATAAAGAATAGAAACTGATAGTATATGTTTTCTTTTGTAACAAAAAATTAT
CTCT
Found at i:10118679 original size:28 final size:28
Alignment explanation
Indices: 10118639--10118699 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
10118629 ACCATTGGTT
* * *
10118639 ATTTGGCTAGTTAGCTAGTTAGATTACC
1 ATTTAGCTAGTTAACTAGTTAAATTACC
10118667 ATTTAGCTAGTTAACTAGTTAAATTACC
1 ATTTAGCTAGTTAACTAGTTAAATTACC
10118695 ATTTA
1 ATTTA
10118700 TATTGCAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (28 bp):
ATTTAGCTAGTTAACTAGTTAAATTACC
Found at i:10118747 original size:60 final size:59
Alignment explanation
Indices: 10118681--10118916 Score: 176
Period size: 60 Copynumber: 4.1 Consensus size: 59
10118671 AGCTAGTTAA
* * *
10118681 CTAGTTAAATTACCATTTATATTGCAATATCATTAGCTAATTAAAATATAATATTATTGG
1 CTAGTTAGATTACCATTTAGATTACAATATCATTAGCTAATT-AAATATAATATTATTGG
* * * *
10118741 CTAGTTAGATTAGTC-GTTAGATTACTATAT--TTAGCTAGTT--A-AT--TA--A----
1 CTAGTTAGATTA-CCATTTAGATTACAATATCATTAGCTAATTAAATATAATATTATTGG
* * * * *
10118787 CTAGTTAGATTACCATTTGGATTGCAATATCACTAGCTAATTAGGATATAATATTATTTG
1 CTAGTTAGATTACCATTTAGATTACAATATCATTAGCTAATTA-AATATAATATTATTGG
* * *
10118847 CTAGTTAGATTACAATTTAGATTACAATATTATTAGCTAATTAGGATACATAATATTATTGG
1 CTAGTTAGATTACCATTTAGATTACAATATCATTAGCTAATTA--A-ATATAATATTATTGG
*
10118909 CTTGTTAG
1 CTAGTTAG
10118917 CTAATTAGAT
Statistics
Matches: 135, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
45 1 0.01
46 23 0.17
48 8 0.06
50 1 0.01
51 1 0.01
52 4 0.03
54 4 0.03
55 1 0.01
56 1 0.01
58 9 0.07
60 60 0.44
61 2 0.01
62 20 0.15
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.42
Consensus pattern (59 bp):
CTAGTTAGATTACCATTTAGATTACAATATCATTAGCTAATTAAATATAATATTATTGG
Found at i:10118867 original size:106 final size:106
Alignment explanation
Indices: 10118677--10118877 Score: 294
Period size: 106 Copynumber: 1.9 Consensus size: 106
10118667 ATTTAGCTAG
* *
10118677 TTAACTAGTTAAATTACCATTTATATTGCAATATCATTAGCTAATTAAAATATAATATTATTGGC
1 TTAACTAGTTAAATTACCATTTAGATTGCAATATCACTAGCTAATTAAAATATAATATTATTGGC
*** *
10118742 TAGTTAGATTAGTCGTTAGATTACTATATTTAGCTAGTTAA
66 TAGTTAGATTACAAGTTAGATTACAATATTTAGCTAGTTAA
* * ** *
10118783 TTAACTAGTTAGATTACCATTTGGATTGCAATATCACTAGCTAATTAGGATATAATATTATTTGC
1 TTAACTAGTTAAATTACCATTTAGATTGCAATATCACTAGCTAATTAAAATATAATATTATTGGC
*
10118848 TAGTTAGATTACAATTTAGATTACAATATT
66 TAGTTAGATTACAAGTTAGATTACAATATT
10118878 ATTAGCTAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
106 83 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (106 bp):
TTAACTAGTTAAATTACCATTTAGATTGCAATATCACTAGCTAATTAAAATATAATATTATTGGC
TAGTTAGATTACAAGTTAGATTACAATATTTAGCTAGTTAA
Found at i:10149170 original size:23 final size:22
Alignment explanation
Indices: 10149144--10149226 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 22
10149134 CATAAAATTT
10149144 ATATTTTAATTATATTTAATTAA
1 ATATTTT-ATTATATTTAATTAA
10149167 ATA-TTTATT-T-TTTAATTAA
1 ATATTTTATTATATTTAATTAA
*
10149186 ATAATTTT-TTATAATTAATTAA
1 AT-ATTTTATTATATTTAATTAA
10149208 A-ATATTTATT-TATTATAAT
1 ATAT-TTTATTATATT-TAAT
10149227 ATATTATGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
19 11 0.22
20 6 0.12
21 13 0.25
22 18 0.35
23 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTATTATATTTAATTAA
Found at i:10149182 original size:19 final size:20
Alignment explanation
Indices: 10149156--10149226 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 20
10149146 ATTTTAATTA
10149156 TATTTAATTAAATATTTATT
1 TATTTAATTAAATATTTATT
10149176 T-TTTAATTAAATAATTT-TT
1 TATTTAATTAAAT-ATTTATT
10149195 TATAATTAATTAAAATATTTATT
1 TAT--TTAATT-AAATATTTATT
10149218 TATTATAAT
1 TATT-TAAT
10149227 ATATTATGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
19 14 0.32
20 6 0.14
21 1 0.02
22 14 0.32
23 9 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTAATTAAATATTTATT
Found at i:10149190 original size:27 final size:28
Alignment explanation
Indices: 10149136--10149191 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
10149126 ATTTATTTCA
*
10149136 TAAAATTTATATTTTAATTATATTTAAT
1 TAAAATTTATATTTTAATTATATATAAT
*
10149164 TAAATATTTATTTTTTAATTA-A-ATAAT
1 TAAA-ATTTATATTTTAATTATATATAAT
10149191 T
1 T
10149192 TTTTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 5 0.20
29 15 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAAAATTTATATTTTAATTATATATAAT
Found at i:10165477 original size:2 final size:2
Alignment explanation
Indices: 10165470--10165506 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10165460 GTTTGTGGTT
10165470 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10165507 GTCTTCCACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10186022 original size:21 final size:20
Alignment explanation
Indices: 10185987--10186030 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
10185977 GCATTTAGAA
*
10185987 TTTTATTTTATTTTATTTAG
1 TTTTATTTTATTTTAATTAG
10186007 TTTTATTTTAATTTTAATTAG
1 TTTTATTTT-ATTTTAATTAG
10186028 TTT
1 TTT
10186031 AGGATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (20 bp):
TTTTATTTTATTTTAATTAG
Found at i:10192853 original size:21 final size:21
Alignment explanation
Indices: 10192815--10192870 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
10192805 ATATATTATG
*
10192815 TTATTAATATTAATTAATTAA
1 TTATTAATATTAAATAATTAA
10192836 TTATTAAT-TATAAATAATT-A
1 TTATTAATAT-TAAATAATTAA
*
10192856 -T-TTAATATAAAATAA
1 TTATTAATATTAAATAA
10192871 AAATAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 11 0.35
19 2 0.06
20 2 0.06
21 16 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATTAATATTAAATAATTAA
Found at i:10192855 original size:17 final size:17
Alignment explanation
Indices: 10192824--10192866 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10192814 GTTATTAATA
*
10192824 TTAAT-TAATTAATTA-
1 TTAATATAAATAATTAT
10192839 TTAATTATAAATAATTAT
1 TTAA-TATAAATAATTAT
10192857 TTAATATAAA
1 TTAATATAAA
10192867 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 1 0.04
17 15 0.62
18 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAAATAATTAT
Found at i:10206702 original size:24 final size:22
Alignment explanation
Indices: 10206660--10206709 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
10206650 TAGTATATTT
10206660 TAAATTTTAAAATTTTTTATAATA
1 TAAATTTTAAAA-TTTTT-TAATA
*
10206684 TAAATATTTAATA-TTTTTAATA
1 TAAAT-TTTAAAATTTTTTAATA
10206706 TAAA
1 TAAA
10206710 AATAAGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 5 0.21
25 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTTTAAAATTTTTTAATA
Found at i:10206712 original size:24 final size:25
Alignment explanation
Indices: 10206661--10206713 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10206651 AGTATATTTT
* *
10206661 AAAT-TTTAAAATTTTTTATAATAT
1 AAATATTTAAAATTTTTAATAATAA
*
10206685 AAATATTTAATATTTTTAAT-ATAA
1 AAATATTTAAAATTTTTAATAATAA
10206709 AAATA
1 AAATA
10206714 AGTACATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAATATTTAAAATTTTTAATAATAA
Found at i:10208494 original size:69 final size:69
Alignment explanation
Indices: 10208408--10208712 Score: 284
Period size: 69 Copynumber: 4.4 Consensus size: 69
10208398 TTTGTTACCC
* * * * * * *
10208408 ATAAACAT-ATGTGTCTTATTCGAAA-TGGGAAATTATTGTTGAAAATAATGTATGATTTTTGCA
1 ATAAACGTAATGTATCTTATT-GAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTT-CA
10208471 TTAACG
64 TTAACG
* * * *
10208477 ATAGAA-GTAA-GTATCTTATTGAAAGTGTGAAATTATTATCGAAAACAATTTATAATATTTTTA
1 ATA-AACGTAATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGAT-TTTTCA
**
10208540 TTAATA
64 TTAACG
* * * *
10208546 ATAAACG-AATGTATCTAATTGGAAGTGTAAAATTAATATCGAAAATAATTTGTGATTTTTTCAT
1 ATAAACGTAATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGA-TTTTTCAT
*
10208610 TAATG
65 TAACG
* **
10208615 ATAAACGT-ATGTATCTTATTGAAAGTGTGAAATTAATGTAAAAAATAATTTATGATTTTTTCCA
1 ATAAACGTAATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGA-TTTTT-CA
10208679 TTAACG
64 TTAACG
*
10208685 ATAAA--TATATGTATCTTATTGGAAGTGT
1 ATAAACGTA-ATGTATCTTATTGAAAGTGT
10208713 TTATGATTTT
Statistics
Matches: 196, Mismatches: 29, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
68 9 0.05
69 148 0.76
70 39 0.20
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (69 bp):
ATAAACGTAATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTTCATT
AACG
Found at i:10208665 original size:138 final size:138
Alignment explanation
Indices: 10208448--10208712 Score: 338
Period size: 138 Copynumber: 1.9 Consensus size: 138
10208438 AATTATTGTT
*
10208448 GAAAATAATGTATGATTTTTGCATTAACGATAGAAGTAAGTATCTTATTGAAAGTGTGAAATTAT
1 GAAAATAATGTATGATTTTTGCATTAACGATAGAAGTAAGTATCTTATTGAAAGTGTGAAATTAA
** *
10208513 TATCGAAAACAATTTATAATATTTTT-ATTAATAATAAACGA-ATGTATCTAATTGGAAGTGTAA
66 TATAAAAAACAATTTATAAT-TTTTTCATTAACAATAAA-GATATGTATCTAATTGGAAGTGTAA
10208576 AATTAATATC
129 AATTAATATC
* * * * *
10208586 GAAAATAATTTGTGATTTTTTCATTAATGATA-AACGTATGTATCTTATTGAAAGTGTGAAATTA
1 GAAAATAATGTATGATTTTTGCATTAACGATAGAA-GTAAGTATCTTATTGAAAGTGTGAAATTA
* * * * * *
10208650 ATGTAAAAAATAATTTATGATTTTTTCCATTAACGATAAATATATGTATCTTATTGGAAGTGT
65 ATATAAAAAACAATTTATAATTTTTT-CATTAACAATAAAGATATGTATCTAATTGGAAGTGT
10208713 TTATGATTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
137 7 0.06
138 72 0.67
139 29 0.27
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (138 bp):
GAAAATAATGTATGATTTTTGCATTAACGATAGAAGTAAGTATCTTATTGAAAGTGTGAAATTAA
TATAAAAAACAATTTATAATTTTTTCATTAACAATAAAGATATGTATCTAATTGGAAGTGTAAAA
TTAATATC
Found at i:10208720 original size:49 final size:48
Alignment explanation
Indices: 10208663--10208760 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
10208653 TAAAAAATAA
*
10208663 TTTATGATTTTTTCCATTAACGATAAATATATGTATCTTATTGGAAGTG
1 TTTATGATTTTTT-CATTAACGATAAAGATATGTATCTTATTGGAAGTG
** * * * *
10208712 TTTATGATTTTTTTGTTAATGATGAAGGTTTGTATCTTATTGGAAGTG
1 TTTATGATTTTTTCATTAACGATAAAGATATGTATCTTATTGGAAGTG
10208760 T
1 T
10208761 GAAATTAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 29 0.69
49 13 0.31
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (48 bp):
TTTATGATTTTTTCATTAACGATAAAGATATGTATCTTATTGGAAGTG
Found at i:10216189 original size:35 final size:35
Alignment explanation
Indices: 10216142--10216209 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
10216132 GTAAGTATAC
*
10216142 TCTATGGCGAGTCTCATAATTGAGGATGAACCTAG
1 TCTATGGAGAGTCTCATAATTGAGGATGAACCTAG
*
10216177 TCTATGGAGAGTCTCATAATTGATGATGAACCT
1 TCTATGGAGAGTCTCATAATTGAGGATGAACCT
10216210 TAGTGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (35 bp):
TCTATGGAGAGTCTCATAATTGAGGATGAACCTAG
Found at i:10222739 original size:16 final size:16
Alignment explanation
Indices: 10222718--10222751 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10222708 TTTTAATAAA
*
10222718 AATTAATAGTAAATTT
1 AATTAATAATAAATTT
*
10222734 AATTAATAATATATTT
1 AATTAATAATAAATTT
10222750 AA
1 AA
10222752 AATATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AATTAATAATAAATTT
Found at i:10240274 original size:29 final size:29
Alignment explanation
Indices: 10240220--10240275 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
10240210 AATTAATTTA
*
10240220 AAATAAAAATATAAAAATTTAATTAAACT
1 AAATAAAAATATAAAAAGTTAATTAAACT
* *
10240249 AAATAAAAGA-ATATAAAGTTATTTAAA
1 AAATAAAA-ATATAAAAAGTTAATTAAA
10240276 TTTTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.96
30 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (29 bp):
AAATAAAAATATAAAAAGTTAATTAAACT
Found at i:10240630 original size:33 final size:33
Alignment explanation
Indices: 10240584--10240648 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
10240574 GTTGATACGA
*
10240584 TATATTAAAATATCATAATTGATTATAATATGG
1 TATATTAAAATATCATAATTGATAATAATATGG
* * *
10240617 TATATTGACATATCATAATTGATAATGATATG
1 TATATTAAAATATCATAATTGATAATAATATG
10240649 ATATGCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.42
Consensus pattern (33 bp):
TATATTAAAATATCATAATTGATAATAATATGG
Found at i:10263922 original size:36 final size:36
Alignment explanation
Indices: 10263854--10263932 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
10263844 TACTACTTTA
*
10263854 ACCCTAATCCTAATACATCTCCACCACTCTATAATT
1 ACCCTAATCCTAATACATCTCCACAACTCTATAATT
*
10263890 ACCCTAATCCTAATGCAT-TCCCACTAAC-CTATAATT
1 ACCCTAATCCTAATACATCT-CCAC-AACTCTATAATT
*
10263926 ATCCTAA
1 ACCCTAA
10263933 CCCGTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.92
37 2 0.05
ACGTcount: A:0.34, C:0.34, G:0.01, T:0.30
Consensus pattern (36 bp):
ACCCTAATCCTAATACATCTCCACAACTCTATAATT
Found at i:10264756 original size:21 final size:21
Alignment explanation
Indices: 10264730--10264770 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10264720 TGTTGAAGAA
10264730 AGCCAAAATAGAA-AAATTCAC
1 AGCCAAAAT-GAAGAAATTCAC
*
10264751 AGCCAACATGAAGAAATTCA
1 AGCCAAAATGAAGAAATTCA
10264771 AAATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.15
Consensus pattern (21 bp):
AGCCAAAATGAAGAAATTCAC
Found at i:10267876 original size:89 final size:89
Alignment explanation
Indices: 10267681--10267877 Score: 270
Period size: 89 Copynumber: 2.2 Consensus size: 89
10267671 CAATAGTGTA
* *
10267681 TATATATATATTATACTTAATAATTTTATAAATTATAATTTTTGTAATGTTAACAAAAAATAAAA
1 TATATATATATTATAATTAATAATTTTATAAATTATAATTTTTATAATGTTAACAAAAAATAAAA
* *
10267746 AGTACATATATTTATATTAAAAGC
66 AATAAATATATTTATATTAAAAGC
** * * * * *
10267770 GGTATATGTATTATAATTAATAATTTTATAAGTTATCATTTTTATAATGTTAATATAAAATAAAA
1 TATATATATATTATAATTAATAATTTTATAAATTATAATTTTTATAATGTTAACAAAAAATAAAA
10267835 AATAAATATATTTATATTAAAAG-
66 AATAAATATATTTATATTAAAAGC
*
10267858 TATATATATAATAGTAATTA
1 TATATATATATTA-TAATTA
10267878 TATTCTTTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 9 0.10
89 83 0.90
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (89 bp):
TATATATATATTATAATTAATAATTTTATAAATTATAATTTTTATAATGTTAACAAAAAATAAAA
AATAAATATATTTATATTAAAAGC
Found at i:10271257 original size:220 final size:222
Alignment explanation
Indices: 10270985--10271405 Score: 600
Period size: 220 Copynumber: 1.9 Consensus size: 222
10270975 AGTTTATATA
* * * *
10270985 TATATATATATATGAAATGAAGGACACAATTTATATGTTATAATGTTTTATATTAAAGTTTATAT
1 TATATAGATATATAAAATGAAGGACACAACTTATATGTTATAATATTTTATATTAAAGTTTATAT
* * * *
10271050 AAATAATAATTAATTATACA-CAATATGTTATAAACACTAAAATGATAACTAA-AAGAGTTATTA
66 AAATAATAACTAATTATA-AGCAATATCTTATAAAAACTAAAATAATAACTAATAA-AGTTATTA
*
10271113 AATGTAATAATATAAATAAAATCTATTAT-AGATTATAGTAATACTTATGTATAAATTAAATAT-
129 AATGTAATAATATAAATAAAATCTATTATAAG-TTATAATAATACTTATGTATAAATTAAATATA
10271176 A-TGTATATGTATAATAAATTACTTTATTT
193 AGTGTATATGTATAATAAATTACTTTATTT
* * *
10271205 TATATAGATATATAAAATTAATGACACAACTTATATGTTATAATATTTTATATTAAAGTTTGTAT
1 TATATAGATATATAAAATGAAGGACACAACTTATATGTTATAATATTTTATATTAAAGTTTATAT
* *
10271270 AAATAATAACTAATTATAAGCAATATCTTATAAAAACTAAAGTAATAACTAATAAAGTTATTAAG
66 AAATAATAACTAATTATAAGCAATATCTTATAAAAACTAAAATAATAACTAATAAAGTTATTAAA
* * * * * *
10271335 TGTTATCATATAAATAAAGTTTGTTATAAGTTATAATAATGCTTATGTATAAATTAAATATAAGT
131 TGTAATAATATAAATAAAATCTATTATAAGTTATAATAATACTTATGTATAAATTAAATATAAGT
10271400 GTATAT
196 GTATAT
10271406 AATATATTTT
Statistics
Matches: 176, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
219 1 0.01
220 163 0.93
221 5 0.03
222 7 0.04
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (222 bp):
TATATAGATATATAAAATGAAGGACACAACTTATATGTTATAATATTTTATATTAAAGTTTATAT
AAATAATAACTAATTATAAGCAATATCTTATAAAAACTAAAATAATAACTAATAAAGTTATTAAA
TGTAATAATATAAATAAAATCTATTATAAGTTATAATAATACTTATGTATAAATTAAATATAAGT
GTATATGTATAATAAATTACTTTATTT
Found at i:10274733 original size:24 final size:25
Alignment explanation
Indices: 10274705--10274774 Score: 52
Period size: 30 Copynumber: 2.5 Consensus size: 25
10274695 AAATAAAATA
10274705 AAATATAAAAAATTAAAATTTATATAATA
1 AAATATAAAAAATTAAAA--TA-A-AATA
*
10274734 TAAGTA-AAACAAATTAAAATAAAATA
1 -AAATATAAA-AAATTAAAATAAAATA
10274760 TATAATATAAAAAAT
1 -A-AATATAAAAAAT
10274775 ATATTAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 6 0.17
27 8 0.23
28 5 0.14
29 3 0.09
30 13 0.37
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (25 bp):
AAATATAAAAAATTAAAATAAAATA
Found at i:10274797 original size:55 final size:55
Alignment explanation
Indices: 10274689--10274797 Score: 125
Period size: 55 Copynumber: 2.0 Consensus size: 55
10274679 TAAGAATCAA
* * * *
10274689 AAATTAAAATAAAATAAAATATAAAAAATTAAAATTTATATAATATAAGTAAAAC
1 AAATTAAAATAAAATAAAATATAAAAAATTAAAATTTAAAAAATAAAAATAAAAC
*
10274744 AAATTAAAATAAAATATATAATATAAAAAA-T-ATA-TTAAAGAAATAAAAATAAAA
1 AAATTAAAATAAAATA-A-AATATAAAAAATTAAAATTTAAA-AAATAAAAATAAAA
10274798 TATATAAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
54 4 0.09
55 29 0.63
56 2 0.04
57 11 0.24
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.28
Consensus pattern (55 bp):
AAATTAAAATAAAATAAAATATAAAAAATTAAAATTTAAAAAATAAAAATAAAAC
Found at i:10274800 original size:33 final size:33
Alignment explanation
Indices: 10274750--10274834 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
10274740 AAACAAATTA
* *
10274750 AAATAAAATATATAATATAAAAAA-TATATTAAAG
1 AAATAAAA-ATAAAATATAAAAAATTATAAT-AAG
* * *
10274784 AAATAAAAATAAAATATATAAGATTATAATAAT
1 AAATAAAAATAAAATATAAAAAATTATAATAAG
10274817 AAATAAAAATAAAATATA
1 AAATAAAAATAAAATATA
10274835 TGACATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 32 0.71
34 13 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (33 bp):
AAATAAAAATAAAATATAAAAAATTATAATAAG
Found at i:10274849 original size:49 final size:49
Alignment explanation
Indices: 10274794--10274965 Score: 139
Period size: 49 Copynumber: 3.2 Consensus size: 49
10274784 AAATAAAAAT
10274794 AAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTA
1 AAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTA
* * **
10274843 AAAATATATTTAAAAGATGATATTATTTAAAAATTAATAATAAAAAATATAAATATATTA-AAAA
1 AAAATATA--T---A-A-G--ATTA--TAATAA-T-A-AAT-AAAAATA-AAATATATGACATTA
*
10274907 TAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGACATTA
1 -AAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTA
10274957 AAAATATAT
1 AAAATATAT
10274966 TTAAGAGATG
Statistics
Matches: 96, Mismatches: 9, Indels: 36
0.68 0.06 0.26
Matches are distributed among these distances:
49 26 0.27
50 8 0.08
51 4 0.04
52 1 0.01
53 1 0.01
54 6 0.06
55 1 0.01
56 5 0.05
58 5 0.05
59 1 0.01
60 6 0.06
61 1 0.01
62 1 0.01
63 4 0.04
64 9 0.09
65 17 0.18
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (49 bp):
AAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTA
Found at i:10274902 original size:24 final size:24
Alignment explanation
Indices: 10274875--10274933 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
10274865 TTATTTAAAA
10274875 ATTAATAATAAAAAATATAA-ATAT
1 ATTAATAATAAAAAATATAAGAT-T
* *
10274899 ATTAAAAATAAAATATATAAGATT
1 ATTAATAATAAAAAATATAAGATT
10274923 A-TAATAATAAA
1 ATTAATAATAAA
10274934 TGAAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.29
24 20 0.65
25 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
ATTAATAATAAAAAATATAAGATT
Found at i:10274905 original size:16 final size:16
Alignment explanation
Indices: 10274787--10274916 Score: 65
Period size: 16 Copynumber: 8.0 Consensus size: 16
10274777 ATTAAAGAAA
10274787 TAAAAATAAAATATA-
1 TAAAAATAAAATATAT
* *
10274802 TAAGATTATAATAATA-AA
1 TAA-A-AATAA-AATATAT
10274820 TAAAAATAAAATATA-
1 TAAAAATAAAATATAT
* * *
10274835 TGACATTAAAAATATATT
1 TAAAAAT-AAAATATA-T
* *
10274853 TAAAAGATGATAT-TATT
1 TAAAA-ATAAAATATA-T
*
10274870 TAAAAAT-TAATA-AT
1 TAAAAATAAAATATAT
*
10274884 AAAAAATATAAATATAT
1 TAAAAATA-AAATATAT
10274901 TAAAAATAAAATATAT
1 TAAAAATAAAATATAT
10274917 AAGATTATAA
Statistics
Matches: 87, Mismatches: 15, Indels: 25
0.69 0.12 0.20
Matches are distributed among these distances:
14 7 0.08
15 14 0.16
16 28 0.32
17 24 0.28
18 13 0.15
19 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAAAATAAAATATAT
Found at i:10274921 original size:114 final size:114
Alignment explanation
Indices: 10274787--10275018 Score: 437
Period size: 114 Copynumber: 2.0 Consensus size: 114
10274777 ATTAAAGAAA
10274787 TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
1 TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
*
10274852 TTAAAAGATGATATTATTTAAAAATTAATAATAAAAAATATAAATATAT
66 TTAAAAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATAT
*
10274901 TAAAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGACATTAAAAATATAT
1 TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
*
10274966 TTAAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATAT
66 TTAAAAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATAT
10275015 TAAA
1 TAAA
10275019 CTTGTATTTT
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (114 bp):
TAAAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
TTAAAAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATAT
Found at i:10275188 original size:15 final size:16
Alignment explanation
Indices: 10275168--10275200 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10275158 TTTTTCCTGC
10275168 AATCACATTAC-TTGT
1 AATCACATTACATTGT
10275183 AATCACATTACATTGT
1 AATCACATTACATTGT
10275199 AA
1 AA
10275201 AGTACCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (16 bp):
AATCACATTACATTGT
Found at i:10276154 original size:24 final size:24
Alignment explanation
Indices: 10276122--10276168 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10276112 AATAAAATAT
* *
10276122 ATAATATAAGAATCAAA-AATTAAA
1 ATAAAATAA-AATAAAATAATTAAA
10276146 ATAAAATAAAATAAAATAATTAA
1 ATAAAATAAAATAAAATAATTAA
10276169 CATTTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
ATAAAATAAAATAAAATAATTAAA
Found at i:10276226 original size:49 final size:51
Alignment explanation
Indices: 10276112--10276226 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 51
10276102 TTATAATAAA
*
10276112 AATAAAATATATAATATAAGAATCAAAAATTAAAATAAAATAAAATAAAAT
1 AATAAAATATATAATATAAGAATAAAAAATTAAAATAAAATAAAATAAAAT
* * *
10276163 AATTAACATTTATATAATAT-AG-ATAAAACAAATTAAAATAAAAT-ATATAATAT
1 AA-TAA-A-ATATATAATATAAGAAT-AAA-AAATTAAAATAAAATAAAATAAAAT
10276216 AA-AAAATATAT
1 AATAAAATATAT
10276227 TAAAGAAATG
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
49 5 0.09
50 1 0.02
51 4 0.07
52 5 0.09
53 14 0.26
54 25 0.46
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (51 bp):
AATAAAATATATAATATAAGAATAAAAAATTAAAATAAAATAAAATAAAAT
Found at i:10276274 original size:73 final size:73
Alignment explanation
Indices: 10276192--10276411 Score: 191
Period size: 73 Copynumber: 3.0 Consensus size: 73
10276182 TAGATAAAAC
*
10276192 AAATTAAAATAAAATATATAATATAAAAAATATATTAAAGAAATGAAAATAAAATATATAAAATT
1 AAATAAAAATAAAATATATAATATAAAAAATATATTAAAGAAATGAAAATAAAATATATAAAATT
10276257 -ATAATAAT
66 AATAAT-AT
* * * * * **
10276265 AAATAAAAATAAAATATATGACATTAAAAATATATTTAAGATATG---ATATTATATA-AAAATT
1 AAATAAAAATAAAATATATAATATAAAAAATATATTAAAGAAATGAAAATAAAATATATAAAATT
10276326 AATAATAT
66 AATAATAT
* * * * * * *
10276334 AAATATAAATATATTAAAAATAAAATATAAAATAT-TATAATAATAAATAAAAATAAAATATATG
1 AAATA-AAA-ATA--AAATATATAATATAAAAAATATATTA-AAGAAATGAAAATAAAATATATA
* *
10276398 ACATTAAAAATAT
61 AAATTAATAATAT
10276411 A
1 A
10276412 TTTAAGATAT
Statistics
Matches: 113, Mismatches: 24, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
69 13 0.12
70 16 0.14
71 3 0.03
72 3 0.03
73 58 0.51
76 8 0.07
77 12 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (73 bp):
AAATAAAAATAAAATATATAATATAAAAAATATATTAAAGAAATGAAAATAAAATATATAAAATT
AATAATAT
Found at i:10276283 original size:33 final size:34
Alignment explanation
Indices: 10276198--10276283 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 34
10276188 AAACAAATTA
* *
10276198 AAATAAAATATATAATATA-AAAAATATATTAAAG
1 AAATAAAA-ATAAAATATATAAAAATATAATAAAG
* * *
10276232 AAATGAAAATAAAATATATAAAATTATAAT-AAT
1 AAATAAAAATAAAATATATAAAAATATAATAAAG
10276265 AAATAAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
10276284 GACATTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 29 0.64
34 16 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (34 bp):
AAATAAAAATAAAATATATAAAAATATAATAAAG
Found at i:10276295 original size:27 final size:26
Alignment explanation
Indices: 10276249--10276409 Score: 107
Period size: 27 Copynumber: 5.9 Consensus size: 26
10276239 AATAAAATAT
10276249 ATAAAAT-TATA-A-TAATAAATAAAA
1 ATAAAATATATACATTAA-AAATAAAA
* *
10276273 ATAAAATATATGACATTAAAAATATAT
1 ATAAAATATAT-ACATTAAAAATAAAA
* * *
10276300 TTAAGATATGATATTATATAAAAATTAATAA
1 ATAAAATAT-ATA-CAT-TAAAAA-TAA-AA
* *
10276331 TATAAATATAAATATATTAAAAATAAAA
1 -ATAAA-ATATATACATTAAAAATAAAA
10276359 TATAAAATATTATA-A-TAATAAATAAAA
1 -ATAAAATA-TATACATTAA-AAATAAAA
10276386 ATAAAATATATGACATTAAAAATA
1 ATAAAATATAT-ACATTAAAAATA
10276410 TATTTAAGAT
Statistics
Matches: 110, Mismatches: 11, Indels: 29
0.73 0.07 0.19
Matches are distributed among these distances:
24 7 0.06
25 6 0.05
26 13 0.12
27 33 0.30
28 21 0.19
29 9 0.08
30 8 0.07
31 4 0.04
32 6 0.05
33 3 0.03
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAAAATATATACATTAAAAATAAAA
Found at i:10276339 original size:21 final size:22
Alignment explanation
Indices: 10276315--10276388 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
10276305 ATATGATATT
10276315 ATATAAAA-ATTAATAATATAA
1 ATATAAAATATTAATAATATAA
*
10276336 ATATAAATATATTAAAAATA-AA
1 ATATAAA-ATATTAATAATATAA
10276358 ATATAAAATATT-ATAATAATAA
1 ATATAAAATATTAATAAT-ATAA
10276380 ATA-AAAATA
1 ATATAAAATA
10276389 AAATATATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.09
21 19 0.40
22 15 0.32
23 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATAAAATATTAATAATATAA
Found at i:10276340 original size:6 final size:6
Alignment explanation
Indices: 10276329--10276395 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
10276319 AAAAATTAAT
* *
10276329 AATATA AATATA AATAT- ATTAAA AATA-A AATATAA AATATTA TAATAATA
1 AATATA AATATA AATATA AATATA AATATA AATAT-A AATA-TA -AAT-ATA
*
10276379 AATAAA AATA-A AATATA
1 AATATA AATATA AATATA
10276396 TGACATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
5 13 0.26
6 21 0.42
7 9 0.18
8 6 0.12
9 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:10276381 original size:113 final size:114
Alignment explanation
Indices: 10276237--10276464 Score: 424
Period size: 113 Copynumber: 2.0 Consensus size: 114
10276227 TAAAGAAATG
10276237 AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
1 AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
10276302 AAGATATGATATTATATAAAAATTAATAAT-ATAAATATAAATATATTA
66 AAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
10276350 AAAATAAAATATA-AAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
1 AAAATAAAATATATAAA-ATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
10276414 TAAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
65 TAAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
10276464 A
1 A
10276465 GCTTGTATTT
Statistics
Matches: 112, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
112 3 0.03
113 91 0.81
114 18 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (114 bp):
AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
AAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
Found at i:10276474 original size:60 final size:56
Alignment explanation
Indices: 10276297--10276464 Score: 162
Period size: 57 Copynumber: 3.0 Consensus size: 56
10276287 ATTAAAAATA
* *
10276297 TATTTAAGATATGATATTATATAAAAATTAATAAT-ATAAATATAAATATATTAAA
1 TATTTAAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTAAT
* ** * ** * * * **
10276352 AATAAAATATAAAATATTATAATAATAAA-TAAAAATAAAATATATGACAT-TAAAAAT
1 TATTTAAGATATGATATTAT-ATAA-AAATTAATAATAAAAAATAT-AAATATATTAAT
10276409 ATATTTAAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTAA
1 -TATTTAAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTAA
10276465 GCTTGTATTT
Statistics
Matches: 82, Mismatches: 24, Indels: 12
0.69 0.20 0.10
Matches are distributed among these distances:
55 14 0.17
56 16 0.20
57 35 0.43
58 17 0.21
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (56 bp):
TATTTAAGATATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTAAT
Found at i:10278848 original size:13 final size:15
Alignment explanation
Indices: 10278811--10278848 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10278801 CAGCAGACAG
*
10278811 CAATAATTACAATCA
1 CAATAATAACAATCA
10278826 CAATAATAACAATCA
1 CAATAATAACAATCA
10278841 -AA-AATAAC
1 CAATAATAAC
10278849 CTGTGATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 2 0.09
15 14 0.64
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (15 bp):
CAATAATAACAATCA
Found at i:10280846 original size:23 final size:23
Alignment explanation
Indices: 10280818--10280885 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
10280808 TTTAAAAAAA
10280818 TATTTTTTATTAGACATGTAAGT
1 TATTTTTTATTAGACATGTAAGT
* * * **
10280841 TA-TTTTTA--ATATATTTCCGT
1 TATTTTTTATTAGACATGTAAGT
10280861 TATTTTTTATTAGACATGTAAGT
1 TATTTTTTATTAGACATGTAAGT
10280884 TA
1 TA
10280886 AAAAAATATT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
20 9 0.28
21 6 0.19
22 6 0.19
23 11 0.34
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.54
Consensus pattern (23 bp):
TATTTTTTATTAGACATGTAAGT
Found at i:10282052 original size:2 final size:2
Alignment explanation
Indices: 10282045--10282072 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10282035 GAGAGTATGA
10282045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10282073 TAAATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10283424 original size:28 final size:28
Alignment explanation
Indices: 10283382--10283442 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
10283372 ATTGAAACTT
*
10283382 TATTTATGTAATTTAATTATTTAT-TTA
1 TATTTATGTAATTTAATTATTTATAATA
*
10283409 TATTTAGTGTAATTTATTTATTTATAATA
1 TATTTA-TGTAATTTAATTATTTATAATA
10283438 TATTT
1 TATTT
10283443 TTATTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.20
28 17 0.57
29 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTTATGTAATTTAATTATTTATAATA
Found at i:10286554 original size:15 final size:15
Alignment explanation
Indices: 10286536--10286575 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10286526 CCTCCGATGG
10286536 CTTCTCAGCTGGCTT
1 CTTCTCAGCTGGCTT
* *
10286551 CTTCTCGGCCGGCTT
1 CTTCTCAGCTGGCTT
10286566 CTTCTCAGCT
1 CTTCTCAGCT
10286576 TTTGGCGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.20, T:0.38
Consensus pattern (15 bp):
CTTCTCAGCTGGCTT
Found at i:10292909 original size:27 final size:27
Alignment explanation
Indices: 10292859--10292911 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
10292849 TTCAACCCCA
*
10292859 ACCAAAACACAAGAACGTGCATGTGTT
1 ACCAAAACACAAGAACGGGCATGTGTT
* *
10292886 ACCAAAACACAAGAATGGGTATGTGT
1 ACCAAAACACAAGAACGGGCATGTGT
10292912 CATGGAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
ACCAAAACACAAGAACGGGCATGTGTT
Found at i:10294761 original size:92 final size:92
Alignment explanation
Indices: 10294603--10294786 Score: 289
Period size: 92 Copynumber: 2.0 Consensus size: 92
10294593 ATTGTTTCAA
* *
10294603 CAATGAATTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACTGGCCTAAATGCAACATT
1 CAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACCGGCCTAAATGCAACATT
10294668 CCAACCTTA-AGAATATTAACTAACTGG
66 CCAACCTTACA-AATATTAACTAACTGG
* * *
10294695 CAATGAACTGTAAACTTGAAATCACTTGAAAATTCTTCACATTTAACCGGCCTAAATGCGATATT
1 CAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACCGGCCTAAATGCAACATT
* *
10294760 CCAATCTTACAAGTATTAACTAACTGG
66 CCAACCTTACAAATATTAACTAACTGG
10294787 GGCCACTCTG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 83 0.99
93 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (92 bp):
CAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACCGGCCTAAATGCAACATT
CCAACCTTACAAATATTAACTAACTGG
Found at i:10296359 original size:2 final size:2
Alignment explanation
Indices: 10296352--10296390 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10296342 AACTTGAATA
10296352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10296391 CACACACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10299175 original size:16 final size:16
Alignment explanation
Indices: 10299156--10299189 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10299146 TTTAAAATAA
10299156 AAAAAGAATAAAAA-AT
1 AAAAAG-ATAAAAACAT
10299172 AAAAAGATAAAAACAT
1 AAAAAGATAAAAACAT
10299188 AA
1 AA
10299190 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAGATAAAAACAT
Found at i:10299317 original size:26 final size:26
Alignment explanation
Indices: 10299288--10299346 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
10299278 TAAATATTAG
10299288 TATTTTATTAATAATTTAATCATGAA
1 TATTTTATTAATAATTTAATCATGAA
* *
10299314 TATTTTATTTATAATTTAATCATTAA
1 TATTTTATTAATAATTTAATCATGAA
10299340 TATTTTA
1 TATTTTA
10299347 AAATGTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (26 bp):
TATTTTATTAATAATTTAATCATGAA
Found at i:10299443 original size:127 final size:122
Alignment explanation
Indices: 10299298--10299669 Score: 495
Period size: 119 Copynumber: 3.0 Consensus size: 122
10299288 TATTTTATTA
* *
10299298 ATAATTTAATCATGAATATTTTATTTATAATTTAATCATTAATATTTTAAAATGTTAATATTTTA
1 ATAATTTAAT-ATTAATATTTTATTTATAATTTAATCATTAATATTTTAAAATATTAATATTTTA
* *
10299363 TTTAATTTAAATATTATTGTGATTAATTGTTATTTTATATTATTTTAAAATATTAATAATTG
65 TTTAATTTAAATATTATTGTGATCAA---TTATTTTATTTTATTTT-AAATATTAATAATTG
* * * **
10299425 ATAATTTAACTATTAATATTTTACTTATAACTTAATCATTTATATCCTAAAATATTAATATTTTA
1 ATAATTTAA-TATTAATATTTTATTTATAATTTAATCATTAATATTTTAAAATATTAATATTTTA
* *
10299490 TTTAATTT-AA-ACTA---TGATCAATTATTTTATTTTATATTTAAATATTAATAATTA
65 TTTAATTTAAATATTATTGTGATCAATTATTTTATTTTAT-TTTAAATATTAATAATTG
* *
10299544 ATATTTTTAATAGTAATATTTTATTTATAATTTAGAT-ATTAATATTTTAAAATATTAATATTTT
1 ATA-ATTTAATATTAATATTTTATTTATAATTTA-ATCATTAATATTTTAAAATATTAATATTTT
10299608 ATTTAATTTAAATATTATTGTGATCAATTATTTTATTTTATTTTTAAATATTAATAATTG
64 ATTTAATTTAAATATTATTGTGATCAATTATTTTATTTTA-TTTTAAATATTAATAATTG
10299668 AT
1 AT
10299670 TTTTTATTTA
Statistics
Matches: 215, Mismatches: 20, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
119 84 0.39
120 12 0.06
121 3 0.01
122 6 0.03
124 39 0.18
125 4 0.02
126 2 0.01
127 64 0.30
128 1 0.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (122 bp):
ATAATTTAATATTAATATTTTATTTATAATTTAATCATTAATATTTTAAAATATTAATATTTTAT
TTAATTTAAATATTATTGTGATCAATTATTTTATTTTATTTTAAATATTAATAATTG
Found at i:10299574 original size:20 final size:20
Alignment explanation
Indices: 10299524--10299612 Score: 74
Period size: 22 Copynumber: 4.3 Consensus size: 20
10299514 TTTTATTTTA
*
10299524 TATTTA-AATATTAATAATTAA
1 TATTTATAATATTAAT-ATT-T
* *
10299545 TATTTTTAATAGTAATATTT
1 TATTTATAATATTAATATTT
*
10299565 TATTTATAAT-TTAGATATTAA
1 TATTTATAATATTA-ATATT-T
*
10299586 TATTTTAAAATATTAATATTT
1 TA-TTTATAATATTAATATTT
10299607 TATTTA
1 TATTTA
10299613 ATTTAAATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.04
20 18 0.33
21 12 0.22
22 20 0.36
23 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTTATAATATTAATATTT
Found at i:10299585 original size:41 final size:41
Alignment explanation
Indices: 10299524--10299624 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
10299514 TTTTATTTTA
*
10299524 TATTTA-AATATTAATAATTAATATTTT-TAATAGTAATATTT
1 TATTTATAAT-TTAAT-ATTAATATTTTAAAATAGTAATATTT
*
10299565 TATTTATAATTTAGATATTAATATTTTAAAATATTAATATTT
1 TATTTATAATTTA-ATATTAATATTTTAAAATAGTAATATTT
10299607 TA-TT-TAATTTAAATATTA
1 TATTTATAATTT-AATATTA
10299625 TTGTGATCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
40 12 0.22
41 23 0.43
42 19 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (41 bp):
TATTTATAATTTAATATTAATATTTTAAAATAGTAATATTT
Found at i:10299592 original size:15 final size:14
Alignment explanation
Indices: 10299517--10299608 Score: 68
Period size: 16 Copynumber: 6.5 Consensus size: 14
10299507 TCAATTATTT
10299517 TATTTT-ATATTTAA
1 TATTTTAATA-TTAA
*
10299531 -ATATTAATAATTAA
1 TATTTTAAT-ATTAA
*
10299545 TATTTTTAATAGTAA
1 TA-TTTTAATATTAA
10299560 TATTTT-AT-TT-A
1 TATTTTAATATTAA
*
10299571 TAATTTAGATATTAA
1 TATTTTA-ATATTAA
10299586 TATTTTAAAATATTAA
1 TATTTT--AATATTAA
10299602 TATTTTA
1 TATTTTA
10299609 TTTAATTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
11 6 0.10
12 1 0.02
13 8 0.13
14 13 0.21
15 14 0.23
16 19 0.31
17 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTTTAATATTAA
Found at i:10299602 original size:48 final size:48
Alignment explanation
Indices: 10299512--10299603 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
10299502 TATGATCAAT
* *
10299512 TATTTTATTTTATATTTAAATATTAATAATTAATATTTTTAATAGTAA
1 TATTTTATTTTATATTTAAATATTAATAATTAATAATATTAATAGTAA
* *
10299560 TATTTTA-TTTATAATTTAGATATTAATATTTTAA-AATATTAATA
1 TATTTTATTTTAT-ATTTAAATATTAATA-ATTAATAATATTAATA
10299604 TTTTATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 5 0.13
48 29 0.76
49 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (48 bp):
TATTTTATTTTATATTTAAATATTAATAATTAATAATATTAATAGTAA
Found at i:10299702 original size:27 final size:28
Alignment explanation
Indices: 10299644--10299702 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
10299634 ATTATTTTAT
* * **
10299644 TTTATTTTTAAATATTAATAATTGATTT
1 TTTATTTTAAAATATTAATAATAGATAA
10299672 TTTA-TTTAAAATATTAATAATAGATAA
1 TTTATTTTAAAATATTAATAATAGATAA
10299699 TTTA
1 TTTA
10299703 AATATTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTATTTTAAAATATTAATAATAGATAA
Found at i:10299716 original size:151 final size:157
Alignment explanation
Indices: 10299518--10299889 Score: 483
Period size: 160 Copynumber: 2.4 Consensus size: 157
10299508 CAATTATTTT
* * * *
10299518 ATTTTATATTT-AAATATTAATAATTA-ATATTTTTAATAGTAATATTTTATTTATAATTTAGAT
1 ATTTTTTATTTAAAATATTAATAA-TAGATAATTTAAATATTAATATTTTATTTATAATTTA-AT
*
10299581 -ATTAATA-TTTTAAAATATTAATATTTTATTTAATTTAAATATTA-T-TG-TGA-TCAA-TTAT
64 CATTAATATTTTTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATAATTCAATTTAT
10299639 TTTATTTTATTTTTAAATATTAATAATTG
129 TTTATTTTATTTTTAAATATTAATAATTG
*
10299668 ATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTTATTTTTAATTTAATCA
1 ATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTTATTTATAATTTAATCA
* * *
10299733 TTAATATTTTTAAAATATTGATATTTTATTTTATTTAAATATTATTATGATTAATTTTAATTTTA
66 TTAATATTTTTAAAATATTAATATTTTATTTAATTTAAATATTATTATGA-TAA-TTCAA-TTTA
10299798 TTTTATTTTATTTTTAAATATTAATAATTG
128 TTTTATTTTATTTTTAAATATTAATAATTG
* ** * * * * *
10299828 GTAATTTATTTAATATATTAATAATTGATTATTTAATTATTAATATTTTATATATAATTTAA
1 ATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTTATTTATAATTTAA
10299890 GTGATATTAT
Statistics
Matches: 192, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
150 14 0.07
151 49 0.26
152 35 0.18
153 1 0.01
154 2 0.01
156 2 0.01
158 3 0.02
160 86 0.45
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.57
Consensus pattern (157 bp):
ATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTTATTTATAATTTAATCA
TTAATATTTTTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATAATTCAATTTATTT
TATTTTATTTTTAAATATTAATAATTG
Found at i:10299727 original size:26 final size:26
Alignment explanation
Indices: 10299636--10299742 Score: 82
Period size: 26 Copynumber: 4.2 Consensus size: 26
10299626 TGTGATCAAT
*
10299636 TATTTTA-TTTTATTTTTAAATATTAA
1 TATTTTATTTTTA-ATTTAAATATTAA
* * *
10299662 TAATTGATTTTTTATTTAAAATATTAA
1 TATTTTATTTTTAATTT-AAATATTAA
***
10299689 TA----ATAGATAATTTAAATATTAA
1 TATTTTATTTTTAATTTAAATATTAA
10299711 TATTTTATTTTTAATTT-AATCATTAA
1 TATTTTATTTTTAATTTAAAT-ATTAA
10299737 TATTTT
1 TATTTT
10299743 TAAAATATTG
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
22 11 0.17
23 7 0.11
25 3 0.05
26 27 0.43
27 15 0.24
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (26 bp):
TATTTTATTTTTAATTTAAATATTAA
Found at i:10299814 original size:85 final size:89
Alignment explanation
Indices: 10299646--10299823 Score: 194
Period size: 85 Copynumber: 2.0 Consensus size: 89
10299636 TATTTTATTT
10299646 TATTTTTAAATATTAATAATTGATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATTAA
1 TATTTTTAAATATTAATAATT-ATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATT-A
10299711 TATTTTATTTTTAATTT-AATCATTAA
64 TATTTTATTTTTAATTTAAAT-ATTAA
* * *
10299737 TATTTTTAAAATATTGAT-ATT-TTATTTTATTT-AAATATT-ATTAT-GATTAATTTTAAT-TT
1 TATTTTT-AAATATTAATAATTATT-TTTTATTTAAAATATTAATAATAGA-TAATTTAAATATT
*
10299796 -TATTTTA-TTTTATTTTTAAATATTAA
63 ATATTTTATTTTTA-ATTTAAATATTAA
10299822 TA
1 TA
10299824 ATTGGTAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
84 5 0.06
85 17 0.22
86 3 0.04
87 4 0.05
88 13 0.17
89 9 0.12
90 8 0.10
91 10 0.13
92 9 0.12
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (89 bp):
TATTTTTAAATATTAATAATTATTTTTTATTTAAAATATTAATAATAGATAATTTAAATATTATA
TTTTATTTTTAATTTAAATATTAA
Found at i:10299850 original size:27 final size:23
Alignment explanation
Indices: 10299810--10299872 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 23
10299800 TTATTTTATT
10299810 TTTAA-ATATTAATAATTGGTAATTTA
1 TTTAATATATTAATAATT-G--A-TTA
10299836 TTTAATATATTAATAATTGATTA
1 TTTAATATATTAATAATTGATTA
10299859 TTTAAT-TATTAATA
1 TTTAATATATTAATA
10299873 TTTTATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.22
23 9 0.25
24 1 0.03
26 6 0.17
27 12 0.33
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
TTTAATATATTAATAATTGATTA
Found at i:10299909 original size:111 final size:111
Alignment explanation
Indices: 10299794--10300001 Score: 271
Period size: 111 Copynumber: 1.9 Consensus size: 111
10299784 TAATTTTAAT
** *
10299794 TTTATTTT-ATTT-TATTTTT-AAATATTAATAATTGGTAATTTATTTAATATATTAATAATTGA
1 TTTATTTTAATTTATATTTTTAAAATAGGAATAATTGATAATTTA-TT--T-TATTAATAATTGA
* *
10299856 TTATTTAATTA-TTAATATTTTATATATAATTTAAGTGATATTATGCTTA
62 TAATTTAAATATTTAATATTTTATATATAATTTAAGTGATATTATGCTTA
* *
10299905 TTTATTTTAAATTTATTTTTTTAAAATAGGAATAATTTATAATTTATTTTATTAATAATTGATAA
1 TTTATTTT-AATTTATATTTTTAAAATAGGAATAATTGATAATTTATTTTATTAATAATTGATAA
*
10299970 TTTAAATATTTAATATTTTATTTATAATTTAA
65 TTTAAATATTTAATATTTTATATATAATTTAA
10300002 TTTTTAATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
111 30 0.36
112 23 0.27
113 4 0.05
114 8 0.10
115 19 0.23
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (111 bp):
TTTATTTTAATTTATATTTTTAAAATAGGAATAATTGATAATTTATTTTATTAATAATTGATAAT
TTAAATATTTAATATTTTATATATAATTTAAGTGATATTATGCTTA
Found at i:10299972 original size:30 final size:30
Alignment explanation
Indices: 10299910--10299976 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
10299900 GCTTATTTAT
*
10299910 TTTAAATTTATTTTTTTAAAATAGGAATAA
1 TTTAAATTTATTTTATTAAAATAGGAATAA
*
10299940 TTTATAATTTATTTTATTAATAAT-TG-ATAA
1 TTTA-AATTTATTTTATTAA-AATAGGAATAA
10299970 TTTAAAT
1 TTTAAAT
10299977 ATTTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 12 0.36
31 15 0.45
32 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTAAATTTATTTTATTAAAATAGGAATAA
Found at i:10300001 original size:19 final size:19
Alignment explanation
Indices: 10299977--10300047 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 19
10299967 TAATTTAAAT
10299977 ATTTAATATTTTATTTATA
1 ATTTAATATTTTATTTATA
*
10299996 ATTTAAT-TTTTAATATTTTA
1 ATTTAATATTTT-AT-TTATA
*
10300016 GACCATTAATATTTTATTTATA
1 -A--TTTAATATTTTATTTATA
10300038 ATTTAATATT
1 ATTTAATATT
10300048 GATATTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 4 0.10
19 17 0.40
20 4 0.10
21 2 0.05
22 4 0.10
23 7 0.17
24 4 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTTAATATTTTATTTATA
Found at i:10300008 original size:34 final size:32
Alignment explanation
Indices: 10299949--10300013 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 32
10299939 ATTTATAATT
10299949 TATTTTATTAATAATTGATAATTTAAATATTTAA
1 TATTTTATTAATAATT-ATAATTT-AATATTTAA
*
10299983 TATTTTATTTATAATT-TAATTTTTAATATTT
1 TATTTTATTAATAATTATAA--TTTAATATTT
10300014 TAGACCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 3 0.11
33 7 0.25
34 18 0.64
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (32 bp):
TATTTTATTAATAATTATAATTTAATATTTAA
Found at i:10304451 original size:35 final size:35
Alignment explanation
Indices: 10304402--10304471 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
10304392 GGAAGGGGTG
*
10304402 GACAATTAGCTATAGACAATGTCATGTACGTTTTT
1 GACAATAAGCTATAGACAATGTCATGTACGTTTTT
*
10304437 GACAATAAGTTATAGACAATGTCATGTACGTTTTT
1 GACAATAAGCTATAGACAATGTCATGTACGTTTTT
10304472 AAACAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (35 bp):
GACAATAAGCTATAGACAATGTCATGTACGTTTTT
Found at i:10306428 original size:43 final size:45
Alignment explanation
Indices: 10306340--10306432 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 45
10306330 ACACAAAAAC
* *
10306340 AAGACAACACAATACAAGAACCGGTCAAACCGTATGATTTTCATAGAA
1 AAGACAACACAATACAAGAACCGGTCAAA-C--ATGACTTCCATAGAA
10306388 AAGACAATC-CAATACAAGAACCGGTC-AA-ATGACTTCCATAGAA
1 AAGACAA-CACAATACAAGAACCGGTCAAACATGACTTCCATAGAA
10306431 AA
1 AA
10306433 AAAAAGGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
43 15 0.36
47 2 0.05
48 24 0.57
49 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (45 bp):
AAGACAACACAATACAAGAACCGGTCAAACATGACTTCCATAGAA
Found at i:10310030 original size:17 final size:16
Alignment explanation
Indices: 10309999--10310038 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
10309989 AAAAGATATG
10309999 TTTTTAAAATTAAAT-
1 TTTTTAAAATTAAATA
10310014 TTTTTAAAATTTTAAATA
1 TTTTTAAAA--TTAAATA
10310032 TTTTTAA
1 TTTTTAA
10310039 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
17 6 0.27
18 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAAAATTAAATA
Found at i:10310666 original size:22 final size:22
Alignment explanation
Indices: 10310620--10310670 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
10310610 GCGTCTCTTG
*
10310620 TTTTAGGCATTATGTGATTCGT
1 TTTTAGGCATTATGTAATTCGT
10310642 TTTTAGGCATTGAT-TAATT-GAT
1 TTTTAGGCATT-ATGTAATTCG-T
10310664 TTTTAGG
1 TTTTAGG
10310671 TAATGTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.51
Consensus pattern (22 bp):
TTTTAGGCATTATGTAATTCGT
Found at i:10310779 original size:22 final size:22
Alignment explanation
Indices: 10310748--10310808 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
10310738 CTAGTCATGC
* * *
10310748 AATACTTAAAAATTATTTATAT
1 AATACCTAAAAATTAGTTACAT
10310770 AATACCTAAAAATTAGTTACAT
1 AATACCTAAAAATTAGTTACAT
* * *
10310792 AATGCCTAGAACTTAGT
1 AATACCTAAAAATTAGT
10310809 AATGTAATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (22 bp):
AATACCTAAAAATTAGTTACAT
Found at i:10311426 original size:27 final size:27
Alignment explanation
Indices: 10311394--10311540 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
10311384 GTTACACGTC
* *
10311394 TTGAAAAAACAATTGTTATATGTTATG
1 TTGAAAAAAAAATTGTTATACGTTATG
* *
10311421 TTGAAAAAAAAATTATTACACG-T-T-
1 TTGAAAAAAAAATTGTTATACGTTATG
* *
10311445 TTGAAAATAAAATTGTTATACGTTATA
1 TTGAAAAAAAAATTGTTATACGTTATG
* **
10311472 TTGAAAAAATATTATTGTTA-AAATTATG
1 TTGAAAAAA-A-AATTGTTATACGTTATG
* * *
10311500 TTGACAAAACAATTATTATACGTTATG
1 TTGAAAAAAAAATTGTTATACGTTATG
10311527 TTGAAAAAAAAATT
1 TTGAAAAAAAAATT
10311541 ATTAAAAAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
24 19 0.20
25 2 0.02
26 8 0.09
27 44 0.47
28 14 0.15
29 7 0.07
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (27 bp):
TTGAAAAAAAAATTGTTATACGTTATG
Found at i:10311440 original size:51 final size:51
Alignment explanation
Indices: 10311385--10311544 Score: 169
Period size: 51 Copynumber: 3.1 Consensus size: 51
10311375 CAAAATTTTG
*
10311385 TTACACGTCTTGAAAAAACAATTGTTATATGTTATGTTGAAAAAAAAATTA
1 TTACACGTCTTGAAAAAACAATTGTTATACGTTATGTTGAAAAAAAAATTA
* * * *
10311436 TTACACGTTTTGAAAATAA-AATTGTTATACGTTATATTGAAAAAATATTATTG
1 TTACACGTCTTGAAAA-AACAATTGTTATACGTTATGTTGAAAAAA-A-AATTA
* ** * * *
10311489 TTAAAATTATGTTGACAAAACAATTATTATACGTTATGTTGAAAAAAAAATTA
1 TT-ACA-CGTCTTGAAAAAACAATTGTTATACGTTATGTTGAAAAAAAAATTA
10311542 TTA
1 TTA
10311545 AAAAAATATT
Statistics
Matches: 89, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
51 39 0.44
52 4 0.04
53 10 0.11
54 5 0.06
55 31 0.35
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (51 bp):
TTACACGTCTTGAAAAAACAATTGTTATACGTTATGTTGAAAAAAAAATTA
Found at i:10311468 original size:24 final size:23
Alignment explanation
Indices: 10311382--10311468 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 23
10311372 GTTCAAAATT
*
10311382 TTGTTACACGTCTTGAAAAAACAA
1 TTGTTACACGTTTTGAAAAAA-AA
* *
10311406 TTGTTATATGTTATGTTGAAAAAAAAA
1 TTGTTACACG-T-T-TTG-AAAAAAAA
*
10311433 TTATTACACGTTTTGAAAATAAAA
1 TTGTTACACGTTTTGAAAA-AAAA
*
10311457 TTGTTATACGTT
1 TTGTTACACGTT
10311469 ATATTGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
23 4 0.08
24 25 0.50
25 2 0.04
26 1 0.02
27 12 0.24
28 6 0.12
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (23 bp):
TTGTTACACGTTTTGAAAAAAAA
Found at i:10312522 original size:25 final size:25
Alignment explanation
Indices: 10312494--10312545 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
10312484 CTTCTTTAAC
10312494 TATTGTTTTTT-TTATAAT-TTTATTT
1 TATT-TTTTTTATTATAATATTT-TTT
*
10312519 TATTTTTTTTATTTTAATATTTTTT
1 TATTTTTTTTATTATAATATTTTTT
10312544 TA
1 TA
10312546 ATATAACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
25 15 0.62
26 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TATTTTTTTTATTATAATATTTTTT
Found at i:10312528 original size:14 final size:16
Alignment explanation
Indices: 10312511--10312545 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
10312501 TTTTTTATAA
10312511 TTTTATTTT-AT-TTT
1 TTTTATTTTAATATTT
10312525 TTTTATTTTAATATTT
1 TTTTATTTTAATATTT
10312541 TTTTA
1 TTTTA
10312546 ATATAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 2 0.11
16 8 0.42
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTAATATTT
Found at i:10312570 original size:26 final size:27
Alignment explanation
Indices: 10312540--10312705 Score: 133
Period size: 26 Copynumber: 6.1 Consensus size: 27
10312530 TTTTAATATT
10312540 TTTTTAATATAACATGTAATAATTATA
1 TTTTTAATATAACATGTAATAATTATA
* * * *
10312567 TTTTTTAATATAATATATGATAATT-TC
1 -TTTTTAATATAACATGTAATAATTATA
* * * * *
10312594 TTTTTACAACATAATATTTAACAATTAAA
1 TTTTT--AATATAACATGTAATAATTATA
* *
10312623 TTTTTAATATGATC-TGTAATAATCA-A
1 TTTTTAATAT-AACATGTAATAATTATA
10312649 TTTTTAATATAACATGTAATAATTA-A
1 TTTTTAATATAACATGTAATAATTATA
* * * *
10312675 TTTATAATATGATATGTAACAATTATA
1 TTTTTAATATAACATGTAATAATTATA
10312702 TTTT
1 TTTT
10312706 ACACATAATT
Statistics
Matches: 109, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
25 2 0.02
26 48 0.44
27 17 0.16
28 37 0.34
29 5 0.05
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (27 bp):
TTTTTAATATAACATGTAATAATTATA
Found at i:10312575 original size:28 final size:27
Alignment explanation
Indices: 10312539--10312705 Score: 124
Period size: 28 Copynumber: 6.1 Consensus size: 27
10312529 ATTTTAATAT
10312539 TTTTTTAATATAACATGTAATAATTATA
1 TTTTTTAATATAACATGTAATAATTA-A
* * * **
10312567 TTTTTTAATATAATATATGATAATTTC
1 TTTTTTAATATAACATGTAATAATTAA
* * * * *
10312594 TTTTTACAACATAATATTTAACAATTAA
1 TTTTT-TAATATAACATGTAATAATTAA
* * *
10312622 ATTTTTAATATGATC-TGTAATAATCAA
1 TTTTTTAATAT-AACATGTAATAATTAA
10312649 -TTTTTAATATAACATGTAATAATTAA
1 TTTTTTAATATAACATGTAATAATTAA
* * * *
10312675 -TTTATAATATGATATGTAACAATTATA
1 TTTTTTAATATAACATGTAATAATTA-A
10312702 TTTT
1 TTTT
10312706 ACACATAATT
Statistics
Matches: 108, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
25 2 0.02
26 42 0.39
27 19 0.18
28 45 0.42
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTTTTAATATAACATGTAATAATTAA
Found at i:10315555 original size:15 final size:15
Alignment explanation
Indices: 10315531--10315572 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
10315521 CCGTCGTCTT
*
10315531 CTTCTCCTCTGCCGG
1 CTTCTTCTCTGCCGG
10315546 CTTCTTCTCTGCCGG
1 CTTCTTCTCTGCCGG
10315561 CTTCTTCTCTGC
1 CTTCTTCTCTGC
10315573 TTTTGGTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.00, C:0.43, G:0.17, T:0.40
Consensus pattern (15 bp):
CTTCTTCTCTGCCGG
Found at i:10326924 original size:29 final size:28
Alignment explanation
Indices: 10326892--10326948 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
10326882 TTTGATATAA
10326892 AATAAAAATATAAAAATTTAATTAAATTT
1 AATAAAAA-ATAAAAATTTAATTAAATTT
* *
10326921 AATAAAAACTAAAAATTTATTTAAATTT
1 AATAAAAAATAAAAATTTAATTAAATTT
10326949 TGAAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AATAAAAAATAAAAATTTAATTAAATTT
Found at i:10329572 original size:22 final size:22
Alignment explanation
Indices: 10329544--10329589 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
10329534 CTATGGAACC
10329544 CATTTATATTATCCATCAAGGA
1 CATTTATATTATCCATCAAGGA
10329566 CATTTATATTATCCATCAAGGA
1 CATTTATATTATCCATCAAGGA
10329588 CA
1 CA
10329590 AGTTTTGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (22 bp):
CATTTATATTATCCATCAAGGA
Found at i:10342990 original size:13 final size:14
Alignment explanation
Indices: 10342972--10343028 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 14
10342962 AAAAGTAAAA
10342972 ATATTATATA-ATT
1 ATATTATATATATT
10342985 ATATTATA-ATATT
1 ATATTATATATATT
*
10342998 ATATTA-ATATATC
1 ATATTATATATATT
* *
10343011 ATGTTTTCATATATT
1 ATATTAT-ATATATT
10343026 ATA
1 ATA
10343029 ATTTATTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.06
13 25 0.71
15 8 0.23
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (14 bp):
ATATTATATATATT
Found at i:10343567 original size:24 final size:23
Alignment explanation
Indices: 10343535--10343608 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
10343525 ATACGTTGTT
*
10343535 ATTTCAAAATAAA-AGTTTTATAAA
1 ATTTTAAAATAAATA-TTTT-TAAA
10343559 ATTTTAAAATAAATATTTTTAAA
1 ATTTTAAAATAAATATTTTTAAA
* **
10343582 ATTAT-AAATATTTATTTTTTAAA
1 ATTTTAAAATAAATA-TTTTTAAA
10343605 ATTT
1 ATTT
10343609 AGATTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.16
23 19 0.44
24 16 0.37
25 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
ATTTTAAAATAAATATTTTTAAA
Found at i:10343993 original size:12 final size:12
Alignment explanation
Indices: 10343976--10344000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10343966 GAACTGTCGG
10343976 TAATTCCATCAA
1 TAATTCCATCAA
10343988 TAATTCCATCAA
1 TAATTCCATCAA
10344000 T
1 T
10344001 GCACCTGGTA
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATTCCATCAA
Found at i:10344400 original size:2 final size:2
Alignment explanation
Indices: 10344393--10344428 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10344383 AATATACTGT
10344393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10344429 GCTTGTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10351635 original size:21 final size:20
Alignment explanation
Indices: 10351594--10351637 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10351584 ATAAAAATTG
**
10351594 ATTATTAATTAATTACTAGA
1 ATTATTAATTAATTAAAAGA
10351614 ATTATTAATCTAATTAAAAGA
1 ATTATTAAT-TAATTAAAAGA
10351635 ATT
1 ATT
10351638 TAGTCACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTATTAATTAATTAAAAGA
Found at i:10353909 original size:2 final size:2
Alignment explanation
Indices: 10353866--10353900 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10353856 TTTTGTGCTA
*
10353866 AT AT -T AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10353901 GTGTATATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10354005 original size:22 final size:22
Alignment explanation
Indices: 10353980--10354024 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10353970 TATTAGGTTC
10353980 ATTA-ATAAATAATATAATTACT
1 ATTATATAAATAA-ATAATTACT
*
10354002 ATTATATAAATTAATAATTACT
1 ATTATATAAATAAATAATTACT
10354024 A
1 A
10354025 AACAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTATATAAATAAATAATTACT
Done.