Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4603428
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 19
Found at i:1637 original size:21 final size:21
Alignment explanation
Indices: 1613--1654 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1603 TATGAGAAAT
*
1613 TGTTTTAAAATAT-AAAAATGA
1 TGTTTCAAAAT-TGAAAAATGA
1634 TGTTTCAAAATTGAAAAATGA
1 TGTTTCAAAATTGAAAAATGA
1655 AATAAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTTTCAAAATTGAAAAATGA
Found at i:5466 original size:19 final size:21
Alignment explanation
Indices: 5421--5477 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
5411 ACCCTCATGA
5421 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TT-AAG
5444 GGGAACCGATTCCCCC-T-AG
1 GGGAACCGATTCCCCCTTAAG
* *
5463 GGGAATCGATACCCC
1 GGGAACCGATTCCCC
5478 TCTGGGGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 15 0.47
21 1 0.03
23 16 0.50
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTTAAG
Found at i:6815 original size:13 final size:13
Alignment explanation
Indices: 6797--6821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6787 AATGAATTTT
6797 AAGATTTTCTAAA
1 AAGATTTTCTAAA
6810 AAGATTTTCTAA
1 AAGATTTTCTAA
6822 GTATATTCGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:8113 original size:6 final size:6
Alignment explanation
Indices: 7989--8093 Score: 165
Period size: 6 Copynumber: 17.5 Consensus size: 6
7979 TGCACATATA
* *
7989 GATGGC GATGAT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
* *
8037 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT AATGAT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
*
8085 GATGTT GAT
1 GATGGT GAT
8094 ATTAATGTTG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 92 1.00
ACGTcount: A:0.20, C:0.01, G:0.46, T:0.33
Consensus pattern (6 bp):
GATGGT
Found at i:9554 original size:15 final size:15
Alignment explanation
Indices: 9536--9603 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
9526 CTGATATTGA
9536 AATTTATGTTATTTT
1 AATTTATGTTATTTT
**
9551 AATTCT-TAG-TATTAC
1 AATT-TAT-GTTATTTT
* *
9566 ATTTTATGTTATGTT
1 AATTTATGTTATTTT
*
9581 ATTTTATGTTATTTT
1 AATTTATGTTATTTT
9596 AA-TTATGT
1 AATTTATGT
9604 AAAGAGGATT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
14 8 0.20
15 31 0.76
16 2 0.05
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (15 bp):
AATTTATGTTATTTT
Found at i:11644 original size:7 final size:7
Alignment explanation
Indices: 11632--11696 Score: 82
Period size: 7 Copynumber: 9.3 Consensus size: 7
11622 AAATTAAATG
11632 AATAATA
1 AATAATA
11639 AATAATA
1 AATAATA
11646 AATAAT-
1 AATAATA
11652 AATAAT-
1 AATAATA
11658 AATAATAA
1 AATAAT-A
11666 TAATAATA
1 -AATAATA
11674 AATAATA
1 AATAATA
11681 AATAA-A
1 AATAATA
11687 TAATAATA
1 -AATAATA
11695 AA
1 AA
11697 AACAATATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
6 13 0.25
7 32 0.60
8 2 0.04
9 6 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:11645 original size:3 final size:3
Alignment explanation
Indices: 11632--11695 Score: 83
Period size: 3 Copynumber: 19.7 Consensus size: 3
11622 AAATTAAATG
11632 AAT AAT AAAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
11680 AAAT AAAT AAT AAT AA
1 -AAT -AAT AAT AAT AA
11696 AAACAATATT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
3 41 0.72
4 16 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11785 original size:37 final size:37
Alignment explanation
Indices: 11718--12019 Score: 253
Period size: 37 Copynumber: 8.3 Consensus size: 37
11708 TTAATATATA
*
11718 TATATATTATATTTATTTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTTCAAAAAC
*
11756 TATATATTATATATATTCTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
* *
11793 TATATATTATATATATGTTTTTAAAATGTTTTCAATAAC
1 TATATATTATATATA--TTTTCAAAATGTTTTCAAAAAC
11832 --TATA-TAT-TATA---T----ATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
* *
11858 TATATGTTATATATATGTTTTTAAAATGTTTTCAAAAAC
1 TATATATTATATATA--TTTTCAAAATGTTTTCAAAAAC
*
11897 TATATA-T-TATATATTTTCAAACATAATTTTC-AAAAC
1 TATATATTATATATATTTTCAAA-AT-GTTTTCAAAAAC
* *
11933 TATAATATATATATATATATTCAAAAATCATTTTC-AAAAC
1 TAT-ATAT-TATATATATTTTC-AAAAT-GTTTTCAAAAAC
* *
11973 CATATA--ATATATATTTTCAAAAATAATTTTC-AAAAC
1 TATATATTATATATATTTTC-AAAAT-GTTTTCAAAAAC
*
12009 TATATAATATA
1 TATATATTATA
12020 CTTTCAAAAA
Statistics
Matches: 224, Mismatches: 16, Indels: 48
0.78 0.06 0.17
Matches are distributed among these distances:
26 13 0.06
28 3 0.01
29 3 0.01
30 5 0.02
35 12 0.05
36 46 0.21
37 54 0.24
38 18 0.08
39 42 0.19
40 25 0.11
41 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
Found at i:11812 original size:65 final size:64
Alignment explanation
Indices: 11742--11907 Score: 165
Period size: 65 Copynumber: 2.5 Consensus size: 64
11732 ATTTTTCAAA
* * *
11742 ATGTTTTCAAAAAC-TATATATTA-TATATATTCTCAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTTAAAAACTTATA-ATAACTATATATTAT--AAATGTTTTCAAAAACTATATATTATAT
11805 AT
63 AT
** * * *
11807 ATGTTTTTAAAATGTTTTCAATAACTATATATTATATATGTTTTCAAAAACTATATGTTATATAT
1 ATGTTTTTAAAAACTTAT-AATAACTATATATTATAAATGTTTTCAAAAACTATATATTATATAT
** * *
11872 ATGTTTTTAAAATGTTTTCAAAAACTATATATTATA
1 ATGTTTTTAAAAACTTAT-AATAACTATATATTATA
11908 TATTTTCAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
65 74 0.83
66 5 0.06
67 10 0.11
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (64 bp):
ATGTTTTTAAAAACTTATAATAACTATATATTATAAATGTTTTCAAAAACTATATATTATATAT
Found at i:11843 original size:76 final size:73
Alignment explanation
Indices: 11718--12019 Score: 281
Period size: 76 Copynumber: 4.2 Consensus size: 73
11708 TTAATATATA
* * *
11718 TATATATTATATTTATTTTTCAAAATGTTTTCAAAAACTATATATTATATATATTCTCAAAAT-G
1 TATATATTATATATATTTTTTAAAATGTTTTCAAAAACTATATA-TATATATATT-TCAAAATAA
11782 TTTTCAAAAAC
64 TTTTC-AAAAC
* *
11793 TATATATTATATATATGTTTTTAAAATGTTTTCAATAAC--TATATAT-TATA--T----AT-GT
1 TATATATTATATATAT-TTTTTAAAATGTTTTCAAAAACTATATATATATATATTTCAAAATAAT
11848 TTTCAAAAAC
65 TTTC-AAAAC
*
11858 TATATGTTATATATATGTTTTTAAAATGTTTTCAAAAACTATATAT-TATATATTTTCAAACATA
1 TATATATTATATATAT-TTTTTAAAATGTTTTCAAAAACTATATATATATATA-TTTCAAA-ATA
11922 ATTTTCAAAAC
63 ATTTTCAAAAC
* ** * *
11933 TATAATATATATATATATATTCAAAAATCATTTTC-AAAACCATATA-ATATATATTTTCAAAAA
1 TAT-ATAT-TATATATATTTTTTAAAAT-GTTTTCAAAAACTATATATATATATA-TTTC-AAAA
11996 TAATTTTCAAAAC
61 TAATTTTCAAAAC
*
12009 TATATAATATA
1 TATATATTATA
12020 CTTTCAAAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 37
0.80 0.05 0.15
Matches are distributed among these distances:
65 51 0.26
66 1 0.01
67 9 0.05
69 1 0.01
70 1 0.01
72 4 0.02
73 3 0.02
74 8 0.04
75 28 0.14
76 73 0.37
77 17 0.09
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (73 bp):
TATATATTATATATATTTTTTAAAATGTTTTCAAAAACTATATATATATATATTTCAAAATAATT
TTCAAAAC
Found at i:11848 original size:26 final size:26
Alignment explanation
Indices: 11818--11871 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
11808 TGTTTTTAAA
*
11818 ATGTTTTCAATAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATAT
*
11844 ATGTTTTCAAAAACTATATGTTATAT
1 ATGTTTTCAAAAACTATATATTATAT
11870 AT
1 AT
11872 ATGTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (26 bp):
ATGTTTTCAAAAACTATATATTATAT
Found at i:11908 original size:65 final size:65
Alignment explanation
Indices: 11779--11917 Score: 246
Period size: 65 Copynumber: 2.2 Consensus size: 65
11769 TATTCTCAAA
*
11779 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAATAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
*
11844 ATGTTTTCAAAAACTATATGTTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
11909 A--TTTTCAAA
1 ATGTTTTCAAA
11918 CATAATTTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 8 0.11
65 64 0.89
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.48
Consensus pattern (65 bp):
ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
Found at i:11944 original size:36 final size:35
Alignment explanation
Indices: 11865--12029 Score: 174
Period size: 36 Copynumber: 4.6 Consensus size: 35
11855 AACTATATGT
* * *
11865 TATATATATGTTTT-TAAAAT-GTTTTCAAAAACTA
1 TATATATATATTTTCAAAAATAATTTTC-AAAACTA
*
11899 TATATTATATATTTTCAAACATAATTTTCAAAACTATAA
1 TATA-TATATATTTTCAAAAATAATTTTCAAAAC--T-A
* *
11938 TATATATATATATATTCAAAAATCATTTTCAAAACCA
1 TATATATATAT-T-TTCAAAAATAATTTTCAAAACTA
11975 TATAATATATATTTTCAAAAATAATTTTCAAAACTA
1 TAT-ATATATATTTTCAAAAATAATTTTCAAAACTA
*
12011 TATA-ATATACTTTCAAAAA
1 TATATATATATTTTCAAAAA
12030 CTGAAAAAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
34 18 0.16
35 10 0.09
36 33 0.29
37 10 0.09
38 16 0.14
39 6 0.05
40 19 0.17
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (35 bp):
TATATATATATTTTCAAAAATAATTTTCAAAACTA
Found at i:12579 original size:85 final size:84
Alignment explanation
Indices: 12456--12946 Score: 521
Period size: 85 Copynumber: 5.8 Consensus size: 84
12446 ATGTGTCGCC
* *
12456 GAGCTGAATGGAATC-AGACTCGATAGTTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
1 GAGCTGAATGTAATCGA-ACTCGA-AG-GTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* * *
12520 GCTATAAATTTGACATGCCCTT
63 GCTGTAAATTTGATATGTCCTT
* * * * * * *
12542 CAGCAGAATGGAATCGAACTCGAAGGTATTTGTTGACATATAACCCTTCTCGCCGTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGT-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
12607 TGTAAATTTGATATGTCCTT
65 TGTAAATTTGATATGTCCTT
* *
12627 GAGCTGCATGTAATCGAACTCGAAGGTCTTTG-T------TAGCCCTTCTCGCCTTGAGCTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGT-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
12685 TGTAAATTTGATATGTCCTT
65 TGTAAATTTGATATGTCCTT
* * * * * *
12705 GAGCTAAATGTAATCGAACTCGAAGGTTATGGTTGACATATAACCCTTCTCGCCTTGAGTTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTT-TTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
12770 TGTAAATTTGATATATCCTT
65 TGTAAATTTGATATGTCCTT
* * *
12790 GAGCTGAATATAATCGAACTCGAAGGTTTTGGCTGGCAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTTTT-GTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
***
12855 TACGAATTTGATATGTCCTT
65 TGTAAATTTGATATGTCCTT
* * * * * * *
12875 AAGCTGAATATAATCGACCTCAAAGGTTTCTTGGCTAACAGATAGCCCTTCTCGCCTTGTGCTAT
1 GAGCTGAATGTAATCGAACTCGAAGG-TT-TT-GTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
*
12940 GTTGTAA
63 GCTGTAA
12947 TAGGCTGGGA
Statistics
Matches: 344, Mismatches: 48, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.00
78 68 0.20
79 1 0.00
84 3 0.01
85 214 0.62
86 21 0.06
87 36 0.10
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (84 bp):
GAGCTGAATGTAATCGAACTCGAAGGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
GTAAATTTGATATGTCCTT
Found at i:12767 original size:163 final size:166
Alignment explanation
Indices: 12497--12930 Score: 538
Period size: 163 Copynumber: 2.6 Consensus size: 166
12487 TGTTGACAGA
* * * *
12497 TAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGACATGCCCTTCAGC-AGAATGGAATCGAAC
1 TAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATGTCCTTAAGCTA-AATGTAATCGAAC
* *
12561 TCGAAGG-TATTTGTTGACATATAACCCTTCTCGCCGTGAGTTATGCTGTAAATTTGATATGTCC
65 TCGAAGGTTATTGGTTGACATATAACCCTTCTCGCCGTGAGTTATGCTGTAAATTTGATATATCC
* *
12625 TTGAGCTGCATGTAATCGAACTCGAAGGTCTTT-G-T-
130 TTGAGCTGAATATAATCGAACTCGAAGGT-TTTGGCTG
* * *
12660 TAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGTCCTTGAGCTAAATGTAATCGAACT
1 TAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATGTCCTTAAGCTAAATGTAATCGAACT
* *
12725 CGAAGGTTA-TGGTTGACATATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGATATATCCT
66 CGAAGGTTATTGGTTGACATATAACCCTTCTCGCCGTGAGTTATGCTGTAAATTTGATATATCCT
12789 TGAGCTGAATATAATCGAACTCGAAGGTTTTGGCTGGCAG
131 TGAGCTGAATATAATCGAACTCGAAGGTTTTGGCT----G
** * * *
12829 ATAGCCCTTCTCGCCTTGAGCTATGCTACGAATTTGATATGTCCTTAAGCTGAATATAATCGACC
1 -TAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATGTCCTTAAGCTAAATGTAATCGAAC
* * * * * *
12894 TCAAAGGTTTCTTGGCTAACAGATAGCCCTTCTCGCC
65 TCGAAGG-TTATTGGTTGACATATAACCCTTCTCGCC
12931 TTGTGCTATG
Statistics
Matches: 233, Mismatches: 26, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
162 3 0.01
163 141 0.61
164 4 0.02
170 62 0.27
171 2 0.01
172 21 0.09
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (166 bp):
TAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATGTCCTTAAGCTAAATGTAATCGAACT
CGAAGGTTATTGGTTGACATATAACCCTTCTCGCCGTGAGTTATGCTGTAAATTTGATATATCCT
TGAGCTGAATATAATCGAACTCGAAGGTTTTGGCTG
Found at i:14529 original size:95 final size:95
Alignment explanation
Indices: 14354--14533 Score: 272
Period size: 95 Copynumber: 1.9 Consensus size: 95
14344 GGACAGCTCA
**
14354 ATATTATAATCAACTTTATCAGGCCAGCTGAATCTTATCCATAAAGCCGAGGTGTTTAACCAATT
1 ATATTATAATCAACTTTATCAGGCCAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATT
*
14419 GCTCTAGAGGAACAACTCAAGTTTTATTAT
66 ACTCTAGAGGAACAACTCAAGTTTTATTAT
* * * *
14449 ATATTATAATTACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATT
1 ATATTATAATCAACTTTATCAGGCCAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATT
*
14514 ACTTTAGAAGG-ACAACTCAA
66 ACTCTAG-AGGAACAACTCAA
14534 ACTTTATTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 73 0.96
96 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (95 bp):
ATATTATAATCAACTTTATCAGGCCAGCTGAATCTTATCCATAAAGCCGAGGCATTTAACCAATT
ACTCTAGAGGAACAACTCAAGTTTTATTAT
Found at i:18457 original size:17 final size:17
Alignment explanation
Indices: 18435--18480 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18425 AATTAATGTT
* *
18435 AAATAAATAAAAGGAAA
1 AAATAAAAAAAAGAAAA
*
18452 AAATAAAAAAAATAAAA
1 AAATAAAAAAAAGAAAA
18469 AAATAACAAAAA
1 AAATAA-AAAAA
18481 CATTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (17 bp):
AAATAAAAAAAAGAAAA
Found at i:19698 original size:3 final size:3
Alignment explanation
Indices: 19690--19741 Score: 79
Period size: 3 Copynumber: 17.0 Consensus size: 3
19680 ATGAATAAGA
19690 AAT AAT AAT AAT AAT AAT AAT AAAT AAT -AT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AAT
19736 AAT AAT
1 AAT AAT
19742 TTTTAATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19900 original size:37 final size:35
Alignment explanation
Indices: 19846--20177 Score: 252
Period size: 37 Copynumber: 9.5 Consensus size: 35
19836 CTATATGTTA
*
19846 TATATATGTTTTTAAAATGTTTTCAAAAACAATATAT
1 TATATATATTTTTAAAATGTTTTCAAAAAC--TATAT
*
19883 TATATATATTTTCAAAATGTTTTCAAAAACTGTATAT
1 TATATATATTTTTAAAATGTTTTCAAAAAC--TATAT
19920 TATATATATGTTTTTAAAATGTTTTCAAAAACTATA-
1 TATATATA--TTTTTAAAATGTTTTCAAAAACTATAT
*
19956 TAT-TATA----T-ATATGTTTTCAAAAACTATATAT
1 TATATATATTTTTAAAATGTTTTCAAAAAC--TATAT
19987 TATATATATGTTTTTAAAATGTTTTCAAAAACTATA-
1 TATATATA--TTTTTAAAATGTTTTCAAAAACTATAT
20023 TAT-TATA----T---ATGTTTTCAAAAACTATATAT
1 TATATATATTTTTAAAATGTTTTCAAAAAC--TATAT
20052 TATATATATGTTTTTAAAATGTTTTCAAAAACTATA-
1 TATATATA--TTTTTAAAATGTTTTCAAAAACTATAT
* * *
20088 TATTATATATTTTTAAAAATAATTTTC-AATACTATAA
1 TA-TATATATTTTT-AAAAT-GTTTTCAAAAACTATAT
** * *
20125 TATATATATATTCAAAAATCATTTTC-AAAACCATAT
1 TATATATAT-TTTTAAAAT-GTTTTCAAAAACTATAT
* *
20161 TACATATATTTTCAAAA
1 TATATATATTTTTAAAA
20178 ATAATTTTCA
Statistics
Matches: 246, Mismatches: 18, Indels: 64
0.75 0.05 0.20
Matches are distributed among these distances:
26 14 0.06
28 19 0.08
29 5 0.02
30 8 0.03
31 3 0.01
32 4 0.02
35 19 0.08
36 55 0.22
37 68 0.28
38 1 0.00
39 50 0.20
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (35 bp):
TATATATATTTTTAAAATGTTTTCAAAAACTATAT
Found at i:19926 original size:39 final size:39
Alignment explanation
Indices: 19835--20097 Score: 299
Period size: 39 Copynumber: 7.4 Consensus size: 39
19825 AAAACTATAT
*
19835 ACTATATGTTATATATATGTTTTTAAAATGTTTTCAAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
* *
19874 ACAATATATTATATATA--TTTTCAAAATGTTTTCAAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
*
19911 ACTGTATATTATATATATGTTTTTAAAATGTTTTCAAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
19950 ACTATATA-T-TATATA------T---ATGTTTTCAAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
19978 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
*
20017 ACTATATA-T-TATATATG-TTTT--CA-------AAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
20044 -CTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
1 ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
20082 ACTATATATTATATAT
1 ACTATATATTATATAT
20098 TTTTAAAAAT
Statistics
Matches: 189, Mismatches: 9, Indels: 52
0.76 0.04 0.21
Matches are distributed among these distances:
26 7 0.04
27 5 0.03
28 28 0.15
29 5 0.03
30 6 0.03
31 2 0.01
34 1 0.01
36 5 0.03
37 48 0.25
38 6 0.03
39 76 0.40
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (39 bp):
ACTATATATTATATATATGTTTTTAAAATGTTTTCAAAA
Found at i:19971 original size:67 final size:67
Alignment explanation
Indices: 19899--20097 Score: 375
Period size: 65 Copynumber: 3.0 Consensus size: 67
19889 TATTTTCAAA
*
19899 ATGTTTTCAAAAACTGTATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
19964 AT
66 AT
19966 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATA-T-TAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
20029 AT
66 AT
20031 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
20096 AT
66 AT
20098 TTTTAAAAAT
Statistics
Matches: 129, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
65 64 0.50
66 2 0.02
67 63 0.49
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (67 bp):
ATGTTTTCAAAAACTATATATTATATATATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
AT
Found at i:19990 original size:26 final size:28
Alignment explanation
Indices: 19938--20070 Score: 140
Period size: 28 Copynumber: 4.4 Consensus size: 28
19928 TGTTTTTAAA
19938 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
19966 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
* * * *
19994 ATGTTTTTAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAA-----AC-TATA-TAT-TA-TATAT
20031 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
*
20059 ATGTTTTTAAAA
1 ATGTTTTCAAAA
20071 TGTTTTCAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
28 55 0.63
29 2 0.02
30 3 0.03
31 2 0.02
32 1 0.01
33 1 0.01
34 2 0.02
35 3 0.03
36 2 0.02
37 16 0.18
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (28 bp):
ATGTTTTCAAAAACTATATATTATATAT
Found at i:20055 original size:24 final size:26
Alignment explanation
Indices: 20005--20058 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
19995 TGTTTTTAAA
20005 ATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATAT
20031 ATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATAT
20057 AT
1 AT
20059 ATGTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (26 bp):
ATGTTTTCAAAAACTATATATTATAT
Found at i:20122 original size:36 final size:37
Alignment explanation
Indices: 20034--20212 Score: 183
Period size: 36 Copynumber: 4.9 Consensus size: 37
20024 ATTATATATG
** *
20034 TTTTCAAAAACTATATATTATATATATGTTTTTAAAAT-G
1 TTTTC-AAAACTATATA-TATATATAT-TTTCAAAAATAA
*
20073 TTTTCAAAAACTATATAT-TATATATTTTTAAAAATAA
1 TTTTC-AAAACTATATATATATATATTTTCAAAAATAA
* * *
20110 TTTTCAATACTATA-ATATATATATATTCAAAAATCA
1 TTTTCAAAACTATATATATATATATTTTCAAAAATAA
* *
20146 TTTTCAAAACCATAT-TACATATATTTTCAAAAATAA
1 TTTTCAAAACTATATATATATATATTTTCAAAAATAA
*
20182 TTTTCAAAA-T-TATATA-ATATACTTTCAAAAA
1 TTTTCAAAACTATATATATATATATTTTCAAAAA
20213 CCGAAAAAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
34 17 0.14
35 4 0.03
36 72 0.59
37 12 0.10
38 1 0.01
39 17 0.14
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (37 bp):
TTTTCAAAACTATATATATATATATTTTCAAAAATAA
Found at i:21901 original size:16 final size:16
Alignment explanation
Indices: 21880--21912 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21870 CAGCCGTTTT
21880 TTCACTAACATTATTA
1 TTCACTAACATTATTA
*
21896 TTCACTAACGTTATTA
1 TTCACTAACATTATTA
21912 T
1 T
21913 AAATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (16 bp):
TTCACTAACATTATTA
Found at i:33532 original size:23 final size:23
Alignment explanation
Indices: 33503--33551 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
33493 CATGATACGA
*
33503 TTTTATCGGTCTTTATAACACGT
1 TTTTATCGGCCTTTATAACACGT
* *
33526 TTTTATCTGCCTTTATGACACGT
1 TTTTATCGGCCTTTATAACACGT
33549 TTT
1 TTT
33552 CTTGGTCGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (23 bp):
TTTTATCGGCCTTTATAACACGT
Found at i:35715 original size:20 final size:20
Alignment explanation
Indices: 35692--35742 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
35682 CACGGAATGT
35692 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
35712 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
35732 AAGATTACCAG
1 AAGATTACCAG
35743 GGAATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:41992 original size:21 final size:21
Alignment explanation
Indices: 41966--42012 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
41956 TAAGCATAGG
41966 TATTGGACTACCTTTAAAAGT
1 TATTGGACTACCTTTAAAAGT
41987 TATTGGACTACCTTTAAAAGT
1 TATTGGACTACCTTTAAAAGT
42008 TATTG
1 TATTG
42013 AACGCAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
TATTGGACTACCTTTAAAAGT
Found at i:42926 original size:12 final size:12
Alignment explanation
Indices: 42911--42980 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
42901 GATACATTAC
42911 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
42923 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
42935 CTGGATTATGTT
1 CTGAATTCTGTT
*
42947 CT-AATATATGTT
1 CTGAAT-TCTGTT
42959 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
42971 TTGATTTCTG
1 CTGAATTCTG
42981 ATATCTTCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.89
13 3 0.07
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:42930 original size:48 final size:48
Alignment explanation
Indices: 42874--42978 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
42864 AAATATTTTA
* *
42874 TCTGATTTCCGA-CTTGAATTCTGTTCTGATACAT-TACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTATGTTCTAATACATGT-CCTGAATTCTGT
* * * *
42922 TCTGATTTCTGATCTGGATTATGTTCTAATATATGTTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTATGTTCTAATACATGTCCTGAATTCTGT
*
42970 TTTGATTTC
1 TCTGATTTC
42979 TGATATCTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 46 0.96
49 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTATGTTCTAATACATGTCCTGAATTCTGT
Found at i:42946 original size:24 final size:24
Alignment explanation
Indices: 42911--42982 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
42901 GATACATTAC
*
42911 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTATGTTCTGATTTCTGAT
* * * * *
42935 CTGGATTATGTTCTAATATATGTT
1 CTGAATTATGTTCTGATTTCTGAT
* *
42959 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTATGTTCTGATTTCTGAT
42983 ATCTTCGTTT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.51
Consensus pattern (24 bp):
CTGAATTATGTTCTGATTTCTGAT
Found at i:45232 original size:17 final size:17
Alignment explanation
Indices: 45210--45252 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
45200 GCCCATGTAC
45210 ATATGTGAGAACTATAG
1 ATATGTGAGAACTATAG
45227 ATATGTGAGAACTATAG
1 ATATGTGAGAACTATAG
45244 ATATGTGAG
1 ATATGTGAG
45253 TTTATGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.30
Consensus pattern (17 bp):
ATATGTGAGAACTATAG
Found at i:45324 original size:23 final size:23
Alignment explanation
Indices: 45298--45358 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
45288 CTCATATAAA
*
45298 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
45321 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
45344 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
45359 TATAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:45547 original size:103 final size:103
Alignment explanation
Indices: 45375--45577 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
45365 AATTGTCCAT
* * *
45375 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTCTCTCACCA
45440 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
45478 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTCTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTCTCTCACCA
45543 GACTTCACACATGTTCCAAAGAATACATATATGTC
66 GACTTCACACATGTTCCAAAGAATACATATATGTC
45578 ATGACACATA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTCTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:48644 original size:24 final size:24
Alignment explanation
Indices: 48612--48689 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
48602 ACCGAAGTGC
*
48612 CGTAAAATTTGTCCCGAAAGACCG
1 CGTAGAATTTGTCCCGAAAGACCG
* *
48636 CGTAGAATTTGTCTCGAATA-ACCA
1 CGTAGAATTTGTCCCGAA-AGACCG
*
48660 CATAGAA-TTGTCCC-AAAGGACCG
1 CGTAGAATTTGTCCCGAAA-GACCG
*
48683 TGTAGAA
1 CGTAGAA
48690 CACTCGACTC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.02
22 2 0.05
23 14 0.33
24 25 0.58
25 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (24 bp):
CGTAGAATTTGTCCCGAAAGACCG
Found at i:51445 original size:21 final size:20
Alignment explanation
Indices: 51420--51458 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
51410 ATTAGATAAA
51420 AAATATTAAATAAAAATATAT
1 AAATATTAAA-AAAAATATAT
*
51441 AAATATTAAAAATAATAT
1 AAATATTAAAAAAAATAT
51459 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATTAAAAAAAATATAT
Found at i:54109 original size:64 final size:64
Alignment explanation
Indices: 53987--54109 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 64
53977 TTATTAAGAC
* * ** * ** *
53987 TTGATACTCTTGTGTGGTATTTTATTTTGAACATCTTGTGTTGATTTGATTGTGTTGTTGAGAT
1 TTGATACTCTTGTGTGGTATTTTAATATGAACATCTTGTGAAGATTCGATCCTATTGTTGAGAT
*
54051 TTGATACTCTTGTGTGGTATTTTTAATATGAACATCTTGTGAAGA-TCGGTCCTATTGTT
1 TTGATACTCTTGTGTGGTA-TTTTAATATGAACATCTTGTGAAGATTCGATCCTATTGTT
54110 TTTCTGCTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 28 0.57
65 21 0.43
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (64 bp):
TTGATACTCTTGTGTGGTATTTTAATATGAACATCTTGTGAAGATTCGATCCTATTGTTGAGAT
Found at i:54265 original size:15 final size:16
Alignment explanation
Indices: 54234--54273 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
54224 CAATCCGAAA
54234 TTTCAGATATTCAAAT
1 TTTCAGATATTCAAAT
* *
54250 TTTCAGATATCCAATT
1 TTTCAGATATTCAAAT
*
54266 TTTTAGAT
1 TTTCAGAT
54274 CGGATACGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (16 bp):
TTTCAGATATTCAAAT
Found at i:57238 original size:17 final size:17
Alignment explanation
Indices: 57211--57266 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
57201 GATGAAATTC
*
57211 AAAATTAAAAATAAATA
1 AAAATAAAAAATAAATA
*
57228 AAAATATAAAAATAAAGA
1 AAAATA-AAAAATAAATA
*
57246 TAAAAT-AAGAATAAGATA
1 -AAAATAAAAAATAA-ATA
57264 AAA
1 AAA
57267 TAGGGAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 15 0.47
18 12 0.38
19 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAATAAAAAATAAATA
Found at i:58169 original size:25 final size:24
Alignment explanation
Indices: 58112--58170 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
58102 AATAAATCCT
* * **
58112 AAATAAAATACTTAAAACTATTTA
1 AAATAAAATACCTAAAACAAGATA
*
58136 AAATGAAATACCTAAAACAAAGATA
1 AAATAAAATACCTAAAAC-AAGATA
58161 AAATAAAATA
1 AAATAAAATA
58171 AAATATTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.24
Consensus pattern (24 bp):
AAATAAAATACCTAAAACAAGATA
Found at i:59377 original size:20 final size:20
Alignment explanation
Indices: 59352--59391 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
59342 GGTGCCTTAT
59352 CGCATTAAAACATTACGTTC
1 CGCATTAAAACATTACGTTC
59372 CGCATTAAAACATTACGTTC
1 CGCATTAAAACATTACGTTC
59392 AACATATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
CGCATTAAAACATTACGTTC
Found at i:60993 original size:271 final size:269
Alignment explanation
Indices: 60490--61028 Score: 979
Period size: 271 Copynumber: 2.0 Consensus size: 269
60480 ATAAGCATAA
*
60490 AACAATAACTAGAAATTAAATTAAATGAAATAAAACATGCGAAAAATAAAATTGAGTGGGTTGCC
1 AACAAAAACTAGAAATTAAATTAAATGAAATAAAACATGCGAAAAATAAAATTGAGTGGGTTGCC
*
60555 TCCCACAAGCGCTTTTATTTAACGTCGTTAGCTCGACAACCTGATTTTTTTAGACTGCGGGTTCC
66 TCCCACAAGCGCTTTTATTTAACGTCGTTAGCTCGACAACCTGATTTTTTTAGACCGCGGGTTCC
60620 TCTAAATTGATTTCTTCGATTAGACCAACCAGAGCATTTTCATAATACAACTTCAATATTTGACC
131 TCTAAATTGATTTCTTCGATTAGACCAACCAGAGCATTTTCATAATACAACTTCAATATTTGACC
* *
60685 ATTAACTTTAAATCGAACTCTTGAGTTATTTTCAACTTCAACAACACCGTGAGGGAATACTTGAG
196 ATTAACTTTAAATCGAACTCCTGAGTTATTTTCAACTTCAACAACACCGTAAGGGAATACTTGAG
60750 ACACTATAG
261 ACACTATAG
60759 AACAAAAACTAGAAATTAAATTAAATGAAATAAAACATGCGAAAAATAAAATTGAGTGGGTTGCC
1 AACAAAAACTAGAAATTAAATTAAATGAAATAAAACATGCGAAAAATAAAATTGAGTGGGTTGCC
*
60824 TCCCACAAGCGCTTTTATTTAACGTCGTTAGCTCGACAACTTGATTTTTTTTCAGACCGCGGGTT
66 TCCCACAAGCGCTTTTATTTAACGTCGTTAGCTCGACAACCTGA-TTTTTTT-AGACCGCGGGTT
* *
60889 CCTCTAAATTGATTTCTTCGATTAGACCAACCGGAGCATTTTCATAATACTACTTCAATATTTGA
129 CCTCTAAATTGATTTCTTCGATTAGACCAACCAGAGCATTTTCATAATACAACTTCAATATTTGA
*
60954 CCATTAACTTTAAATCGAACTCCTGAGTTATTTTCAACTTCAACATCACCGTAAGGGAATACTTG
194 CCATTAACTTTAAATCGAACTCCTGAGTTATTTTCAACTTCAACAACACCGTAAGGGAATACTTG
*
61019 AGTCACTATA
259 AGACACTATA
61029 AATGGTCTGA
Statistics
Matches: 259, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
269 107 0.41
270 7 0.03
271 145 0.56
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (269 bp):
AACAAAAACTAGAAATTAAATTAAATGAAATAAAACATGCGAAAAATAAAATTGAGTGGGTTGCC
TCCCACAAGCGCTTTTATTTAACGTCGTTAGCTCGACAACCTGATTTTTTTAGACCGCGGGTTCC
TCTAAATTGATTTCTTCGATTAGACCAACCAGAGCATTTTCATAATACAACTTCAATATTTGACC
ATTAACTTTAAATCGAACTCCTGAGTTATTTTCAACTTCAACAACACCGTAAGGGAATACTTGAG
ACACTATAG
Found at i:71104 original size:21 final size:21
Alignment explanation
Indices: 71078--71118 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
71068 AAACCATTCA
71078 GGGGGGAATCGGTTCCCTCTT
1 GGGGGGAATCGGTTCCCTCTT
71099 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTTCCCTCT
71119 GAGCAATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.24, G:0.39, T:0.27
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCTT
Found at i:71646 original size:23 final size:23
Alignment explanation
Indices: 71636--71703 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
71626 GAAGGATCGT
71636 GTAGAAATGTCCCGAAGGACCAC
1 GTAGAAATGTCCCGAAGGACCAC
*
71659 GTAGAATTGTCCCGAAGGACCAC
1 GTAGAAATGTCCCGAAGGACCAC
* * * *
71682 ATCGAATTGTCCCTAAGGACCA
1 GTAGAAATGTCCCGAAGGACCA
71704 AATATATGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (23 bp):
GTAGAAATGTCCCGAAGGACCAC
Found at i:71789 original size:21 final size:21
Alignment explanation
Indices: 71642--71791 Score: 140
Period size: 21 Copynumber: 7.0 Consensus size: 21
71632 TCGTGTAGAA
* *
71642 ATGTCCCGAAGGACCACGTAGA
1 ATGTCCCGAAGGACCACATA-T
71664 ATTGTCCCGAAGGACCACATCGA-
1 A-TGTCCCGAAGGACCACAT--AT
* *
71687 ATTGTCCCTAAGGACCAAATAT
1 A-TGTCCCGAAGGACCACATAT
* * *
71709 ATGTTCCAAAGGACCAAATAT
1 ATGTCCCGAAGGACCACATAT
*
71730 ATGTCCCGAAGGACCTCATAT
1 ATGTCCCGAAGGACCACATAT
** * *
71751 ATGTTACAAAGGATCACATAT
1 ATGTCCCGAAGGACCACATAT
71772 ATGTCCCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
71792 GAACCCTCGA
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
21 68 0.64
22 2 0.02
23 35 0.33
25 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:72582 original size:35 final size:35
Alignment explanation
Indices: 72520--72589 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
72510 CATTTTAAAA
* *
72520 ATGGTACCGATACTTCCATATTAGTATCGATACCC
1 ATGGTACCGATACTACCATATCAGTATCGATACCC
*
72555 ATGGTACCGATACTACCACT-TCGGTATCGATACCC
1 ATGGTACCGATACTACCA-TATCAGTATCGATACCC
72590 CATGAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (35 bp):
ATGGTACCGATACTACCATATCAGTATCGATACCC
Found at i:78727 original size:24 final size:23
Alignment explanation
Indices: 78682--78732 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
78672 TAGCATATTT
* *
78682 AAAAACAAAACTTAAAATAAAAC
1 AAAAACAAAAATTAAAAGAAAAC
* *
78705 AAAAACAAAAAATTGAAAGAAAAT
1 AAAAAC-AAAAATTAAAAGAAAAC
78729 AAAA
1 AAAA
78733 GAGAGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAAACAAAAATTAAAAGAAAAC
Found at i:79375 original size:26 final size:26
Alignment explanation
Indices: 79345--79404 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
79335 CATTTCAGCT
* * *
79345 AATCTTAGTTGGTTTCAACGTTGGAC
1 AATCTCAGTCGGTTTCAACATTGGAC
79371 AATCTCAGTCGGTTTCAACATTGGAC
1 AATCTCAGTCGGTTTCAACATTGGAC
79397 AATCTCAG
1 AATCTCAG
79405 ATAAAATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (26 bp):
AATCTCAGTCGGTTTCAACATTGGAC
Found at i:79414 original size:12 final size:12
Alignment explanation
Indices: 79397--79421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79387 AACATTGGAC
79397 AATCTCAGATAA
1 AATCTCAGATAA
79409 AATCTCAGATAA
1 AATCTCAGATAA
79421 A
1 A
79422 CTCAACTGAT
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AATCTCAGATAA
Found at i:83824 original size:12 final size:12
Alignment explanation
Indices: 83807--83831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83797 CAGTTTCCTC
83807 AAAATAATAATA
1 AAAATAATAATA
83819 AAAATAATAATA
1 AAAATAATAATA
83831 A
1 A
83832 TAACGTGGGA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:85063 original size:35 final size:35
Alignment explanation
Indices: 85019--85117 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 35
85009 TTAATGTCAT
*
85019 TTATAATAAGTCATGT-AACTTGATGAATAGACTTA
1 TTATAATAAGTCACGTCAA-TTGATGAATAGACTTA
* *
85054 TTATGATAAGTCACGTCAATTGATTAATAGACTTA
1 TTATAATAAGTCACGTCAATTGATGAATAGACTTA
* * *
85089 TTATAATAAATCACGTCATTTGGTGAATA
1 TTATAATAAGTCACGTCAATTGATGAATA
85118 AACAACTATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 53 0.96
36 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (35 bp):
TTATAATAAGTCACGTCAATTGATGAATAGACTTA
Found at i:90729 original size:65 final size:65
Alignment explanation
Indices: 90600--90756 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 65
90590 CACACCCATT
* * * * **
90600 TCGAATGCATTTTGTGTACCGATGCACAAGTCATGCATCGATGCACTCTTGAATATTTTCAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAAGCCATACAACGATGCAATCCGGAATATTTTCAAACA
** * *
90665 TCGAATGCATTTTGTGTACCGATGCAC-AGACCATACAACGATGCAATCCGGGCTCTTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAAG-CCATACAACGATGCAATCCGGAATATTTTCAAAC
90729 A
65 A
* * * *
90730 TTGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
90757 CCCTAGTGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 2 0.03
65 75 0.97
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAAGCCATACAACGATGCAATCCGGAATATTTTCAAACA
Found at i:96738 original size:65 final size:65
Alignment explanation
Indices: 96609--96765 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 65
96599 CACACCCATT
* * * * **
96609 TCGAATGCATTTTGTGTACCGATGCACAAGTCATGCATCGATGCACTCTTGAATATTTTCAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAAGCCATACAACGATGCAATCCGGAATATTTTCAAACA
** * *
96674 TCGAATGCATTTTGTGTACCGATGCACATA-CCATACAACGATGCAATCCGGGCTCTTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATACAACGATGCAATCCGGAATATTTTCAAAC
96738 A
65 A
* * * *
96739 TTGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
96766 CCCTAGTGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
65 76 0.99
66 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAAGCCATACAACGATGCAATCCGGAATATTTTCAAACA
Found at i:99366 original size:64 final size:65
Alignment explanation
Indices: 99234--99369 Score: 204
Period size: 65 Copynumber: 2.1 Consensus size: 65
99224 ACACTAATTA
* * *
99234 CATTCGATGTTTCAAACAAGCCAGGAGTGCATCGATGTATGGCATGTGCATCGGTGCATAAAATG
1 CATTCGATGTTTCAAAAAAGCCAGGAATGCATCGATGCATGGCATGTGCATCGGTGCATAAAATG
* *
99299 CATTCGATGTTTCAATAAAATCCA-GAATGCATCGATGCATGG-TTGTGCATCGGTGCATAAAAT
1 CATTCGATGTTTCAA-AAAAGCCAGGAATGCATCGATGCATGGCATGTGCATCGGTGCATAAAAT
99362 G
65 G
99363 CATTCGA
1 CATTCGA
99370 AATAGGGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 28 0.43
65 31 0.48
66 6 0.09
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (65 bp):
CATTCGATGTTTCAAAAAAGCCAGGAATGCATCGATGCATGGCATGTGCATCGGTGCATAAAATG
Found at i:100467 original size:18 final size:19
Alignment explanation
Indices: 100421--100469 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
100411 TTGGACTTTC
*
100421 AGTGCATCGGTGCATTAAA
1 AGTGCATCGATGCATTAAA
100440 AGTGCATCGATGCA-TAAA
1 AGTGCATCGATGCATTAAA
100458 A-TGCATTCGATG
1 AGTGCA-TCGATG
100470 TTTTGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 4 0.14
18 11 0.39
19 13 0.46
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (19 bp):
AGTGCATCGATGCATTAAA
Found at i:100570 original size:45 final size:46
Alignment explanation
Indices: 100482--100572 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
100472 TTGAAAAAGC
* *
100482 CTGAGTGCATCGATGCATGGTCTTGTGCATCAATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCAATGCATAAAATGCA
*
100528 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCAATGCATAAAATGCA
100573 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCAATGCATAAAATGCA
Found at i:100617 original size:20 final size:20
Alignment explanation
Indices: 100592--100629 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
100582 TGAAAAATTA
100592 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
100612 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
100630 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:108241 original size:20 final size:20
Alignment explanation
Indices: 108216--108253 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
108206 TTGAAAATTA
108216 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
108236 ATTGGTGCATCGATGCAT
1 ATTGGTGCATCGATGCAT
108254 CACTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:110302 original size:16 final size:17
Alignment explanation
Indices: 110281--110312 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
110271 AACATCAATT
110281 AAAATAATAAT-TTTTG
1 AAAATAATAATATTTTG
110297 AAAATAATAATATTTT
1 AAAATAATAATATTTT
110313 TATTTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAAATAATAATATTTTG
Found at i:110740 original size:23 final size:23
Alignment explanation
Indices: 110709--110774 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 23
110699 AAACCCGACG
110709 AGTGTATCGATGCACATTCAAGT
1 AGTGTATCGATGCACATTCAAGT
* * *
110732 AGTGCATCGGTGCACCTTC-A-T
1 AGTGTATCGATGCACATTCAAGT
*
110753 GGTGTATCGATGCACATTCAAG
1 AGTGTATCGATGCACATTCAAG
110775 GGATGCATCG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 16 0.47
22 2 0.06
23 16 0.47
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
AGTGTATCGATGCACATTCAAGT
Found at i:110773 original size:44 final size:43
Alignment explanation
Indices: 110709--110809 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 43
110699 AAACCCGACG
110709 AGTGTATCGATGCACATTCAAGTAG-TGCATCGGTGCACCT-TCAT
1 AGTGTATCGATGCACATTCAAG-AGATGCATCGGTGCA-CTGT-AT
* * *
110753 GGTGTATCGATGCACATTCAAGGGATGCATCGTTGCACTGTAT
1 AGTGTATCGATGCACATTCAAGAGATGCATCGGTGCACTGTAT
110796 AGTGTATCGATGCA
1 AGTGTATCGATGCA
110810 TTATGCACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
43 18 0.35
44 33 0.65
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
AGTGTATCGATGCACATTCAAGAGATGCATCGGTGCACTGTAT
Found at i:110789 original size:23 final size:22
Alignment explanation
Indices: 110714--110790 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
110704 CGACGAGTGT
*
110714 ATCGATGCACATTCAAGTAGTGC
1 ATCGATGCACATTCAAGGA-TGC
* * * *
110737 ATCGGTGCACCTTCATGG-TGT
1 ATCGATGCACATTCAAGGATGC
110758 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAA-GGATGC
*
110781 ATCGTTGCAC
1 ATCGATGCAC
110791 TGTATAGTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 15 0.36
22 2 0.05
23 25 0.60
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGATGC
Found at i:115709 original size:13 final size:13
Alignment explanation
Indices: 115691--115717 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
115681 CTTGCTTGAA
115691 TGAAGTACCTCAT
1 TGAAGTACCTCAT
115704 TGAAGTACCTCAT
1 TGAAGTACCTCAT
115717 T
1 T
115718 CTATTCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TGAAGTACCTCAT
Found at i:120735 original size:24 final size:24
Alignment explanation
Indices: 120679--120728 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
120669 TTGTTTACTT
* * *
120679 TAATTTAATATATAATATTATTAA
1 TAATTAAATATATAATAATATAAA
120703 TAATTAAATATATAATAATAGTAAA
1 TAATTAAATATATAATAATA-TAAA
120728 T
1 T
120729 CATAAATCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATTAAATATATAATAATATAAA
Found at i:121366 original size:21 final size:21
Alignment explanation
Indices: 121315--121367 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
121305 ATTATGACTA
121315 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
121336 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
121357 TCGCAATGCGA
1 TCGCAATGCGA
121368 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:121421 original size:41 final size:42
Alignment explanation
Indices: 121394--121526 Score: 125
Period size: 41 Copynumber: 3.3 Consensus size: 42
121384 GCGAATTTGG
*
121394 AAAATCTCAATACGATACTGACTATCGCAACGCG-ATAATAC
1 AAAATCGCAATACGATACTGACTATCGCAACGCGAATAATAC
* * *
121435 AAAATCGCAATGCGATACTGACTTTCGCAACGCG-ATACTTAC
1 AAAATCGCAATACGATACTGACTATCGCAACGCGAATA-ATAC
** * *
121477 --TTTCGCAACTA-GATACTGACTTTCGCAACGAG-ATAATAC
1 AAAATCGCAA-TACGATACTGACTATCGCAACGCGAATAATAC
*
121516 ATAATCGCAAT
1 AAAATCGCAAT
121527 GCAATTTTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
39 3 0.04
40 30 0.39
41 41 0.53
42 3 0.04
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (42 bp):
AAAATCGCAATACGATACTGACTATCGCAACGCGAATAATAC
Found at i:121464 original size:20 final size:20
Alignment explanation
Indices: 121439--121504 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
121429 TAATACAAAA
121439 TCGCAATGCGATACTGACTT
1 TCGCAATGCGATACTGACTT
* *
121459 TCGCAACGCGATACTTACTT
1 TCGCAATGCGATACTGACTT
*
121479 TCGCAACT-AGATACTGACTT
1 TCGCAA-TGCGATACTGACTT
121499 TCGCAA
1 TCGCAA
121505 CGAGATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATACTGACTT
Found at i:121505 original size:20 final size:20
Alignment explanation
Indices: 121448--121511 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
121438 ATCGCAATGC
*
121448 GATACTGACTTTCGCAACGC
1 GATACTGACTTTCGCAACGA
* *
121468 GATACTTACTTTCGCAACTA
1 GATACTGACTTTCGCAACGA
121488 GATACTGACTTTCGCAACGA
1 GATACTGACTTTCGCAACGA
121508 GATA
1 GATA
121512 ATACATAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (20 bp):
GATACTGACTTTCGCAACGA
Found at i:122045 original size:20 final size:20
Alignment explanation
Indices: 122010--122047 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
122000 TCAAATTTGC
*
122010 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTAATTTTCGT
*
122030 GTTGCGATTTTAATTTTC
1 GTTGCGATTGTAATTTTC
122048 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.53
Consensus pattern (20 bp):
GTTGCGATTGTAATTTTCGT
Found at i:122238 original size:25 final size:24
Alignment explanation
Indices: 122184--122238 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
122174 TGTTTATTAT
* *
122184 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
122208 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
122234 TGTTT
1 TGTTT
122239 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:123388 original size:18 final size:18
Alignment explanation
Indices: 123367--123414 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
123357 TCCACTTCGG
123367 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
123385 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
123403 GAGCCATCACCT
1 GAGCCATCACCT
123415 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:123991 original size:20 final size:20
Alignment explanation
Indices: 123937--123983 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
123927 TAGTTTACTT
123937 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* *
123957 TCGCAACACGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
123977 TCGCAAC
1 TCGCAAC
123984 GACAAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:124128 original size:33 final size:33
Alignment explanation
Indices: 124051--124130 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
124041 GCGATTTGTG
* * *
124051 TTTCGCGTTGCAATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
*
124084 TTTCGCATTGCGATCTTGTCGTTGCGATTTTTA
1 TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
*
124117 TTTTGCATTGCGAT
1 TTTCGCATTGCGAT
124131 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
Found at i:124149 original size:20 final size:20
Alignment explanation
Indices: 124124--124189 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
124114 TTATTTTGCA
*
124124 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
124144 TTGCGATAGTCATTTCTGCG
1 TTGCGATAGTCATTTCCGCG
* *
124164 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCATTTCCGCG
124184 TTGCGA
1 TTGCGA
124190 AAGTATGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:124200 original size:20 final size:19
Alignment explanation
Indices: 124162--124214 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
124152 GTCATTTCTG
*
124162 CGTTGCGATAGTCATTTTCA
1 CGTTGCGAAAGT-ATTTTCA
*
124182 CGTTGCGAAAGTATGTTTCG
1 CGTTGCGAAAGTAT-TTTCA
* *
124202 TGTTACGAAAGTA
1 CGTTGCGAAAGTA
124215 AACTATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (19 bp):
CGTTGCGAAAGTATTTTCA
Found at i:124609 original size:21 final size:20
Alignment explanation
Indices: 124557--124612 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
124547 GACTCACCTG
*
124557 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGGCCCCT
* **
124577 CCAATCATTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGGCCCCT
124598 ATCATCCCTCAAGAG
1 -TCATCCCTCAAGAG
124613 TCTCCCCCCA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGGCCCCT
Found at i:124628 original size:42 final size:42
Alignment explanation
Indices: 124557--124645 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
124547 GACTCACCTG
* *
124557 TCATCCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCACTA
* *
124599 TCATCCCTCAAGAGTCTCCC-CCCACCATTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTC-CCCTCCAACCATTCAAGAGGCCACTA
124641 TCATC
1 TCATC
124646 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCACTA
Found at i:124654 original size:42 final size:42
Alignment explanation
Indices: 124557--124675 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 42
124547 GACTCACCTG
* *
124557 TCATCCCTCAAGA-GTC-CCCTCCAATCATTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGGTCTCCC-CC-ACCATTCAAGAGGCCACTA
*
124599 TCATCCCTCAAGA-GTCTCCCCCCACCATTCAAGAGGCCACTG
1 TCATCCCTCAAGAGGTCT-CCCCCACCATTCAAGAGGCCACTA
** * * *
124641 TCATCGTTGAAGAGGTCTCTCCCACCATTCTAGAG
1 TCATCCCTCAAGAGGTCTCCCCCACCATTCAAGAG
124676 ACCGATTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 57 0.86
43 6 0.09
44 3 0.05
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGGTCTCCCCCACCATTCAAGAGGCCACTA
Found at i:126268 original size:14 final size:14
Alignment explanation
Indices: 126249--126275 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
126239 AATGCGAAAT
126249 GAAAATCGCAATGA
1 GAAAATCGCAATGA
126263 GAAAATCGCAATG
1 GAAAATCGCAATG
126276 CGATTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (14 bp):
GAAAATCGCAATGA
Found at i:126322 original size:20 final size:20
Alignment explanation
Indices: 126297--126352 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
126287 TCGCGTTGTG
*
126297 ATTTTCTCGTTGCGATAGCC
1 ATTTTCACGTTGCGATAGCC
126317 ATTTTCACGTTGCGATAGCC
1 ATTTTCACGTTGCGATAGCC
*
126337 ATTTTCGCGTTGCGAT
1 ATTTTCACGTTGCGAT
126353 TTCGCCGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTTTCACGTTGCGATAGCC
Found at i:126735 original size:20 final size:20
Alignment explanation
Indices: 126710--126752 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
126700 ATTCTGTATT
*
126710 ATCTCGTTGCGATAGTCAAA
1 ATCTCGTTGCGAAAGTCAAA
*
126730 ATCTCGTTGCGAAAGTCAGA
1 ATCTCGTTGCGAAAGTCAAA
126750 ATC
1 ATC
126753 GCGATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (20 bp):
ATCTCGTTGCGAAAGTCAAA
Found at i:127504 original size:24 final size:24
Alignment explanation
Indices: 127477--127530 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
127467 GTATTCGAAA
*
127477 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
127501 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
127525 TTTGAT
1 TTTGAT
127531 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:127722 original size:12 final size:12
Alignment explanation
Indices: 127705--127729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127695 ATATAATCCT
127705 GAAGAAGAAAAA
1 GAAGAAGAAAAA
127717 GAAGAAGAAAAA
1 GAAGAAGAAAAA
127729 G
1 G
127730 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:130059 original size:20 final size:19
Alignment explanation
Indices: 130030--130084 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
130020 CAATCATCTT
*
130030 AATGTATATCGCAACGCGGA
1 AATGAATATCGCAACGC-GA
* *
130050 AATGACTATCGCAATGCGA
1 AATGAATATCGCAACGCGA
*
130069 AATGAAAATCGCAACG
1 AATGAATATCGCAACG
130085 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGAATATCGCAACGCGA
Found at i:130072 original size:19 final size:18
Alignment explanation
Indices: 130030--130106 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 18
130020 CAATCATCTT
*
130030 AATGTATATCGCAACGCGGA
1 AATG-ATATCGCAATGC-GA
130050 AATGACTATCGCAATGCGA
1 AATGA-TATCGCAATGCGA
*
130069 AATGAAAATCGCAA--CGA
1 AATG-ATATCGCAATGCGA
*
130086 GA-GA-ATCGCAATGCGA
1 AATGATATCGCAATGCGA
130102 AATGA
1 AATGA
130107 AAATCACAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
14 7 0.15
15 1 0.02
16 5 0.10
17 6 0.12
19 14 0.29
20 15 0.31
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (18 bp):
AATGATATCGCAATGCGA
Found at i:130099 original size:33 final size:33
Alignment explanation
Indices: 130057--130150 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
130047 GGAAATGACT
130057 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
130090 ATCGCAATGCGAAATGAAAATCACAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
130123 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
130151 CGATTTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:130146 original size:19 final size:19
Alignment explanation
Indices: 130037--130153 Score: 65
Period size: 19 Copynumber: 6.6 Consensus size: 19
130027 CTTAATGTAT
* **
130037 ATCGCAACGCGGAAATGACT
1 ATCGCAAAGC-GAAATGAAA
*
130057 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
130076 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
*
130090 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
* **
130109 ATCAC-AA-CG--A-GGGA
1 ATCGCAAAGCGAAATGAAA
130123 ATCGCAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
130142 ATCGCAACGCGA
1 ATCGCAAAGCGA
130154 TTTTAGTTTC
Statistics
Matches: 72, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 14 0.19
15 5 0.07
16 4 0.06
17 4 0.06
18 4 0.06
19 32 0.44
20 9 0.12
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:130165 original size:19 final size:19
Alignment explanation
Indices: 130150--130214 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
130140 AAATCGCAAC
130150 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
130169 GCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
130188 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
130207 GCGATTTT
1 GCGATTTT
130215 GTCGTTGCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.12, C:0.15, G:0.26, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:130222 original size:14 final size:14
Alignment explanation
Indices: 130198--130276 Score: 68
Period size: 14 Copynumber: 5.3 Consensus size: 14
130188 GCGATTTTAG
*
130198 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
130212 TTTGTCGTTGCGAT
1 TTTCTCGTTGCGAT
*
130226 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
*
130240 TTTCATTTCGCATTGCCAT
1 TTTC---TCG--TTGCGAT
*
130259 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
130273 TTTC
1 TTTC
130277 ATTTCGCATT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
14 36 0.71
16 3 0.06
17 3 0.06
19 9 0.18
ACGTcount: A:0.09, C:0.24, G:0.20, T:0.47
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:130226 original size:33 final size:36
Alignment explanation
Indices: 130150--130226 Score: 106
Period size: 38 Copynumber: 2.2 Consensus size: 36
130140 AAATCGCAAC
*
130150 GCGATTTTAGTTTCGCGTTGCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTTGCGATTATA-TGTC-CGTT
130188 GCGATTTTAGTTTCGCGTTGCGATT-T-TGT-CGTT
1 GCGATTTTAGTTTCGCGTTGCGATTATATGTCCGTT
130221 GCGATT
1 GCGATT
130227 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
33 10 0.26
35 2 0.05
37 1 0.03
38 25 0.66
ACGTcount: A:0.12, C:0.16, G:0.27, T:0.45
Consensus pattern (36 bp):
GCGATTTTAGTTTCGCGTTGCGATTATATGTCCGTT
Found at i:130266 original size:33 final size:33
Alignment explanation
Indices: 130219--130288 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
130209 GATTTTGTCG
*
130219 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCCATTCTCTCGTTGCGATTTTCATTTCGCA
130252 TTGCCATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCCATTCTCTCGTTGCGATTTTCATTTCGCA
130285 TTGC
1 TTGC
130289 GATAGTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (33 bp):
TTGCCATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:130267 original size:47 final size:47
Alignment explanation
Indices: 130184--130273 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
130174 TATAGTTTCG
* * * *
130184 CGTTGCGATTTTAGTTTCGCGTTGCGATTTTGTCGTTGCGATTCTCT
1 CGTTGCGATTTTAGTTTCGCATTGCCATTCTCTCGTTGCGATTCTCT
130231 CGTTGCGATTTTCA-TTTCGCATTGCCATTCTCTCGTTGCGATT
1 CGTTGCGATTTT-AGTTTCGCATTGCCATTCTCTCGTTGCGATT
130274 TTCATTTCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
47 37 0.97
48 1 0.03
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (47 bp):
CGTTGCGATTTTAGTTTCGCATTGCCATTCTCTCGTTGCGATTCTCT
Found at i:130290 original size:19 final size:19
Alignment explanation
Indices: 130233--130291 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
130223 GATTCTCTCG
130233 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
130252 TTGCCA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
130266 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
130285 TTGCGAT
1 TTGCGAT
130292 AGTCATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
16 7 0.23
17 7 0.23
19 12 0.39
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:130417 original size:14 final size:14
Alignment explanation
Indices: 130398--130434 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
130388 CATCAATTAA
130398 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
130412 ACAAATCATCTTTT
1 ACAAATCAACTTTT
130426 ACAAATCAA
1 ACAAATCAA
130435 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:131852 original size:21 final size:21
Alignment explanation
Indices: 131786--131852 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
131776 GTGAATTGGG
*
131786 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
131806 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
131828 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
131849 CTCT
1 CTCT
131853 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:131871 original size:42 final size:41
Alignment explanation
Indices: 131786--131908 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
131776 GTGAATTGGG
* * * * *
131786 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
131828 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
131870 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
131909 CGAGTTGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:134115 original size:20 final size:20
Alignment explanation
Indices: 134090--134185 Score: 109
Period size: 20 Copynumber: 5.2 Consensus size: 20
134080 TTTTGGTTGA
134090 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
134110 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
134129 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
134148 -A-G--AATCGCAACGTGA-
1 AATGAAAATCGCAACGAGAG
134163 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
134183 AAT
1 AAT
134186 CACAACGTGA
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 9 0.14
16 4 0.06
17 2 0.03
18 1 0.02
19 14 0.22
20 35 0.54
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:134155 original size:14 final size:14
Alignment explanation
Indices: 134136--134192 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
134126 CGGAAATGAA
134136 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
134150 AATCGCAACGTGAAATGAA
1 AATCGCAAC--G--A-GAG
134169 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
134183 AATCACAACG
1 AATCGCAACG
134193 TGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:134170 original size:33 final size:33
Alignment explanation
Indices: 134087--134211 Score: 160
Period size: 33 Copynumber: 3.6 Consensus size: 33
134077 GTCTTTTGGT
134087 TGAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACG
1 TGAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACG
*
134126 CGGAAATGAAAATCGCAACGAGAGAATCGCAACG
1 -TGAAATGAAAATCGCAACGAGAGAATCGCAACG
*
134160 TGAAATGAAAATCGCAACGAGAGAATCACAACG
1 TGAAATGAAAATCGCAACGAGAGAATCGCAACG
*
134193 TGAAATGAAAATCACAACG
1 TGAAATGAAAATCGCAACG
134212 CGATTTTGGT
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
33 49 0.60
34 10 0.12
36 1 0.01
37 1 0.01
38 3 0.04
40 17 0.21
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (33 bp):
TGAAATGAAAATCGCAACGAGAGAATCGCAACG
Found at i:134851 original size:20 final size:20
Alignment explanation
Indices: 134824--135040 Score: 118
Period size: 20 Copynumber: 10.7 Consensus size: 20
134814 CGATAGTCAG
134824 ATTCGCATTGCGATTTACAT
1 ATTCGCATTGCGATTTACAT
* * *
134844 ATTTGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACAT
*
134864 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACAT
* * *
134885 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACAT
* * *
134905 ATTCGCATTGCGAATTATGAA
1 ATTCGCATTGCGATTTA-CAT
* ** * *
134926 AATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACAT
* **
134945 AAATCGCATTGCGATTT-TGT
1 -ATTCGCATTGCGATTTACAT
* *
134965 ATTATCGCGTTGCGATAGT-CAGT
1 A-T-TCGCATTGCGAT-TTACA-T
* * *
134988 A-TCACATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACAT
*
135008 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACAT
135028 ATTCGCATTGCGA
1 ATTCGCATTGCGA
135041 ATTGGGAAAA
Statistics
Matches: 147, Mismatches: 39, Indels: 22
0.71 0.19 0.11
Matches are distributed among these distances:
19 1 0.01
20 91 0.62
21 52 0.35
22 1 0.01
23 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACAT
Found at i:134872 original size:41 final size:40
Alignment explanation
Indices: 134824--135040 Score: 127
Period size: 41 Copynumber: 5.3 Consensus size: 40
134814 CGATAGTCAG
* * *
134824 ATTCGCATTGCGATTTACATATTTGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACATAATCGCATTGCGATTTACCT
* * *
134864 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACATAATCGCATTGCGATTTACCT
* * * ** * *
134905 ATTCGCATTGCGAATTATGAAAATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTA-CATAATCGCATTGCGATTTACCT
* ** * * * *
134945 AAATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGT-CAGT
1 -ATTCGCATTGCGA-TTTACATAATCGCATTGCGAT-TTAC-CT
* * *
134988 A-TCACATTGCGATTTTCCA-AATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGA-TTTACATAA-TCGCATTGCGATTTACCT
135028 ATTCGCATTGCGA
1 ATTCGCATTGCGA
135041 ATTGGGAAAA
Statistics
Matches: 135, Mismatches: 32, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
40 25 0.19
41 103 0.76
42 4 0.03
43 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACATAATCGCATTGCGATTTACCT
Found at i:134932 original size:61 final size:60
Alignment explanation
Indices: 134826--135061 Score: 172
Period size: 61 Copynumber: 3.9 Consensus size: 60
134816 ATAGTCAGAT
* * * * * * *
134826 TCGCATTGCGATTTACATATTTGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTAT-CAAAATCGCAATGCGATTTACTAAA
* * * *
134887 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCAAAATCGCAATGCGATTTAC-TAAA
* * ** * * * *
134948 TCGCATTGCGATTT-TGTATTATCGCGTTGCGA-TAGTCAGTATCACATTGCGATTTTCCAAA
1 TCGCATTGCGATTTACGTA-T-TCGCATTGCGATTA-TCAAAATCGCAATGCGATTTACTAAA
* ***
135009 TTCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAAAATCGCAATGCGA
1 -TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCAAAATCGCAATGCGA
135062 ATTGGGAAAA
Statistics
Matches: 132, Mismatches: 33, Indels: 19
0.72 0.18 0.10
Matches are distributed among these distances:
60 8 0.06
61 79 0.60
62 42 0.32
63 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (60 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCAAAATCGCAATGCGATTTACTAAA
Found at i:135060 original size:21 final size:21
Alignment explanation
Indices: 135030--135124 Score: 138
Period size: 21 Copynumber: 4.5 Consensus size: 21
135020 ATTTACTTAT
*
135030 TCGCATTGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
135051 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
135072 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
* *
135093 TCGCAATGTGAAATT-AGAAAA
1 TCGCAATGCG-AATTGGGAAAA
*
135114 TCGCATTGCGA
1 TCGCAATGCGA
135125 TAGTAATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.01
21 63 0.93
22 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:145669 original size:24 final size:23
Alignment explanation
Indices: 145628--145692 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
145618 ATTAATAAAC
* * *
145628 ATAATTAAAATAATAAAATA-ACA
1 ATAAATAAAAAAATAAAA-ACAAA
145651 AT-AATAAAAAAAGTAAAAACAAA
1 ATAAATAAAAAAA-TAAAAACAAA
145674 ATAGAATAAAAAAATAAAA
1 ATA-AATAAAAAAATAAAA
145693 TAAAGGACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 9 0.26
23 11 0.31
24 5 0.14
25 10 0.29
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (23 bp):
ATAAATAAAAAAATAAAAACAAA
Found at i:145687 original size:13 final size:12
Alignment explanation
Indices: 145612--145696 Score: 50
Period size: 13 Copynumber: 7.0 Consensus size: 12
145602 ATGAAATATC
*
145612 AAAATAATTAATA
1 AAAATAAATAA-A
* *
145625 AACATAATTAAA
1 AAAATAAATAAA
* *
145637 ATAATAAA-ATA
1 AAAATAAATAAA
*
145648 ACAAT-AATAAA
1 AAAATAAATAAA
*
145659 AAAAGTAAA-AAC
1 AAAA-TAAATAAA
145671 AAAATAGAATAAA
1 AAAATA-AATAAA
145684 AAAATAAAATAAA
1 AAAAT-AAATAAA
145697 GGACCTAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
10 2 0.04
11 13 0.23
12 15 0.27
13 25 0.45
14 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:146571 original size:14 final size:15
Alignment explanation
Indices: 146552--146580 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
146542 TTCGAAACTA
146552 TTTTC-TTTTATTTT
1 TTTTCTTTTTATTTT
146566 TTTTCTTTTTATTTT
1 TTTTCTTTTTATTTT
146581 GGTTGTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTCTTTTTATTTT
Found at i:156178 original size:12 final size:12
Alignment explanation
Indices: 156161--156185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
156151 AATTGAACTC
156161 TTTCTTGCAATA
1 TTTCTTGCAATA
156173 TTTCTTGCAATA
1 TTTCTTGCAATA
156185 T
1 T
156186 GCTTCAAAAG
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:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTCTTGCAATA
Found at i:157572 original size:22 final size:22
Alignment explanation
Indices: 157544--157591 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
157534 TCATACTTTG
157544 ACCATCCTTATACTCCAATTTC
1 ACCATCCTTATACTCCAATTTC
157566 ACCATCCTTATACTCCAATTTC
1 ACCATCCTTATACTCCAATTTC
157588 ACCA
1 ACCA
157592 ACCGTCGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (22 bp):
ACCATCCTTATACTCCAATTTC
Found at i:158380 original size:17 final size:18
Alignment explanation
Indices: 158355--158388 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
158345 TTAATTATCT
158355 AGAATGCTCCACACTCTA
1 AGAATGCTCCACACTCTA
*
158373 AGAA-GCTCTACACTCT
1 AGAATGCTCCACACTCT
158389 TCCACTCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (18 bp):
AGAATGCTCCACACTCTA
Found at i:158452 original size:20 final size:21
Alignment explanation
Indices: 158406--158452 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
158396 CCTTCCATAT
158406 TCTTCCATAAGGTTCCACACA
1 TCTTCCATAAGGTTCCACACA
158427 TC-TCCAT-AGGATTCCACAC-
1 TCTTCCATAAGG-TTCCACACA
158446 TCTTCCA
1 TCTTCCA
158453 CAAGCTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 17 0.71
21 2 0.08
ACGTcount: A:0.26, C:0.36, G:0.09, T:0.30
Consensus pattern (21 bp):
TCTTCCATAAGGTTCCACACA
Found at i:158513 original size:40 final size:40
Alignment explanation
Indices: 158468--158545 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 40
158458 TTCTATAGAG
158468 TTCTACACTTCT-C-TAAAGTTCTCTAGAATGTTCTAGAAAA
1 TTCTACACTTCTCCATAAAG--CTCTAGAATGTTCTAGAAAA
*
158508 TTCTACACTTCTCCATAAAGCTCTAGAATTTTCTAGAA
1 TTCTACACTTCTCCATAAAGCTCTAGAATGTTCTAGAA
158546 CCTCTCCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 29 0.83
41 1 0.03
42 5 0.14
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (40 bp):
TTCTACACTTCTCCATAAAGCTCTAGAATGTTCTAGAAAA
Found at i:163806 original size:35 final size:35
Alignment explanation
Indices: 163744--163923 Score: 195
Period size: 35 Copynumber: 5.1 Consensus size: 35
163734 TTTTTTTTAA
*
163744 AAAATAGTTTTGAAAACGTATAATATAT-GTTTTTT
1 AAAACAGTTTTGAAAACGTATAATATATAG-TTTTT
* * *
163779 AAAACGGTTTTGAAAACATATAGTATATAGTTTTTT
1 AAAACAGTTTTGAAAACGTATAATATATAG-TTTTT
* * *
163815 AAAATAATTTTGAAAATGTAT-A-ATATAGTTTTT
1 AAAACAGTTTTGAAAACGTATAATATATAGTTTTT
* *
163848 AAAATATTTTTGAAAACGTATAATATATAGTTTTT
1 AAAACAGTTTTGAAAACGTATAATATATAGTTTTT
* * *
163883 AAAACGGTTTTGAAAACCTATATATAATATAATTTTT
1 AAAACAGTTTTGAAAACGTATA-AT-ATATAGTTTTT
163920 AAAA
1 AAAA
163924 ATGGTTTTTG
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
33 24 0.20
34 7 0.06
35 53 0.43
36 25 0.20
37 14 0.11
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (35 bp):
AAAACAGTTTTGAAAACGTATAATATATAGTTTTT
Found at i:163876 original size:69 final size:70
Alignment explanation
Indices: 163744--163923 Score: 202
Period size: 69 Copynumber: 2.6 Consensus size: 70
163734 TTTTTTTTAA
* * *
163744 AAAATAGTTTTGAAAACGTATAATATATGTTTTTTAAAACGGTTTTGAAAACATATAGTATATAG
1 AAAATAATTTTGAAAACGTATAATATATGTTTTTTAAAACAGTTTTGAAAACATATAATATATAG
163809 TTTTTT
66 -TTTTT
* * * *
163815 AAAATAATTTTGAAAATGTATAATATA-G-TTTTTAAAATATTTTTGAAAACGTATAATATATAG
1 AAAATAATTTTGAAAACGTATAATATATGTTTTTTAAAACAGTTTTGAAAACATATAATATATAG
163878 TTTTT
66 TTTTT
*** * **
163883 AAAACGGTTTTGAAAACCTATATATAATATAATTTTTAAAA
1 AAAATAATTTTGAAAACGTATA-AT-ATATGTTTTTTAAAA
163924 ATGGTTTTTG
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
68 22 0.24
69 32 0.35
70 4 0.04
71 25 0.27
72 9 0.10
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (70 bp):
AAAATAATTTTGAAAACGTATAATATATGTTTTTTAAAACAGTTTTGAAAACATATAATATATAG
TTTTT
Found at i:163937 original size:13 final size:13
Alignment explanation
Indices: 163915--163951 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
163905 TATAATATAA
*
163915 TTTTTAAAAATGG
1 TTTTTGAAAATGG
*
163928 TTTTTGAAAACGG
1 TTTTTGAAAATGG
163941 TTTTTGAAAAT
1 TTTTTGAAAAT
163952 ATATTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (13 bp):
TTTTTGAAAATGG
Found at i:163996 original size:29 final size:30
Alignment explanation
Indices: 163940--164004 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
163930 TTTGAAAACG
*
163940 GTTTTTGAAAATATATTACTATATTATATA
1 GTTTTTGAAAATATAATACTATATTATATA
* *
163970 GTTTTTGGAAATATAATA-TATGTTATATA
1 GTTTTTGAAAATATAATACTATATTATATA
163999 GTTTTT
1 GTTTTT
164005 ATTATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (30 bp):
GTTTTTGAAAATATAATACTATATTATATA
Found at i:164025 original size:10 final size:10
Alignment explanation
Indices: 164003--164054 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
163993 TATATAGTTT
164003 TTATTATTT-
1 TTATTATTTA
164012 TTATTATTTA
1 TTATTATTTA
164022 TTATTA-TT-
1 TTATTATTTA
164030 TTAGGTTATATTA
1 TTA--TTAT-TTA
164043 TTATTATTTA
1 TTATTATTTA
164053 TT
1 TT
164055 TATGAGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 11 0.30
10 14 0.38
11 4 0.11
12 2 0.05
13 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (10 bp):
TTATTATTTA
Found at i:165249 original size:17 final size:18
Alignment explanation
Indices: 165229--165267 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
165219 ATTTTTTTCA
**
165229 TTCATTTTTTATT-TTAT
1 TTCATTTTACATTATTAT
165246 TTCATTTTACATTATTAT
1 TTCATTTTACATTATTAT
165264 TTCA
1 TTCA
165268 CACTAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCATTTTACATTATTAT
Found at i:165368 original size:24 final size:24
Alignment explanation
Indices: 165340--165415 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
165330 TTTCATTTTA
165340 TTTTATTCTCTTATAAAAATTAAT
1 TTTTATTCTCTTATAAAAATTAAT
* *** * *
165364 TTTTATT-TATT-TTTCATTTTA-
1 TTTTATTCTCTTATAAAAATTAAT
165385 TTTTATTCTCTTATAAAAATTAAT
1 TTTTATTCTCTTATAAAAATTAAT
165409 TTTTATT
1 TTTTATT
165416 TATTTTTAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
21 7 0.19
22 8 0.22
23 8 0.22
24 14 0.38
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTATTCTCTTATAAAAATTAAT
Found at i:165386 original size:45 final size:45
Alignment explanation
Indices: 165330--165422 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
165320 TTCTTTTCAA
165330 TTTCATTTTATTTTATTCTCTTATAAAAATTAATTTTTATTTATT
1 TTTCATTTTATTTTATTCTCTTATAAAAATTAATTTTTATTTATT
165375 TTTCATTTTATTTTATTCTCTTATAAAAATTAATTTTTATTTATT
1 TTTCATTTTATTTTATTCTCTTATAAAAATTAATTTTTATTTATT
165420 TTT
1 TTT
165423 AAAATCCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (45 bp):
TTTCATTTTATTTTATTCTCTTATAAAAATTAATTTTTATTTATT
Found at i:166005 original size:13 final size:13
Alignment explanation
Indices: 165989--166018 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
165979 CAGGCTCTAT
165989 ACCCAAGCTCCAA
1 ACCCAAGCTCCAA
166002 ACCCAAGCTCCAA
1 ACCCAAGCTCCAA
166015 ACCC
1 ACCC
166019 TTTCGTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.50, G:0.07, T:0.07
Consensus pattern (13 bp):
ACCCAAGCTCCAA
Done.