Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 53 of 127
Found at i:10504399 original size:20 final size:20
Alignment explanation
Indices: 10504374--10504416 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10504364 AAAAAATTCC
* *
10504374 AAAATTTTAAAATATTCTAA
1 AAAATTATAAAAAATTCTAA
*
10504394 AAAATTATAAAAAATTTTAA
1 AAAATTATAAAAAATTCTAA
10504414 AAA
1 AAA
10504417 TTAAAATTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTATAAAAAATTCTAA
Found at i:10504406 original size:11 final size:10
Alignment explanation
Indices: 10504374--10504416 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
10504364 AAAAAATTCC
*
10504374 AAAATTTTAA
1 AAAATTATAA
* *
10504384 AATATTCTAA
1 AAAATTATAA
10504394 AAAATTATAA
1 AAAATTATAA
*
10504404 AAAATTTTAA
1 AAAATTATAA
10504414 AAA
1 AAA
10504417 TTAAAATTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:10504523 original size:21 final size:20
Alignment explanation
Indices: 10504497--10504564 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
10504487 CTAATAAATG
10504497 AAAATTTTTCATAATTTTTAA
1 AAAATTTTTCAT-ATTTTTAA
* *
10504518 AAAATTTTACAT-TTTTT-G
1 AAAATTTTTCATATTTTTAA
*
10504536 AAAATTTTT-AGACTTTTTCAA
1 AAAATTTTTCATA-TTTTT-AA
10504557 AAAATTTT
1 AAAATTTT
10504565 AGATTTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 1 0.03
18 8 0.21
19 10 0.26
21 19 0.50
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (20 bp):
AAAATTTTTCATATTTTTAA
Found at i:10504540 original size:39 final size:39
Alignment explanation
Indices: 10504495--10504572 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
10504485 TTCTAATAAA
*
10504495 TGAAAATTTTTCATAATTTTT-AAAAAATTTTACATTTTT
1 TGAAAATTTTT-AGAATTTTTCAAAAAATTTTACATTTTT
* *
10504534 TGAAAATTTTTAGACTTTTTCAAAAAATTTTAGATTTTT
1 TGAAAATTTTTAGAATTTTTCAAAAAATTTTACATTTTT
10504573 GTATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 7 0.20
39 28 0.80
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (39 bp):
TGAAAATTTTTAGAATTTTTCAAAAAATTTTACATTTTT
Found at i:10504552 original size:20 final size:19
Alignment explanation
Indices: 10504511--10504572 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
10504501 TTTTTCATAA
*
10504511 TTTTTAAAAAATTTTACAT
1 TTTTTAAAAAATTTTAGAT
* *
10504530 TTTTTGAAAATTTTTAGACT
1 TTTTTAAAAAATTTTAGA-T
*
10504550 TTTTCAAAAAATTTTAGAT
1 TTTTTAAAAAATTTTAGAT
10504569 TTTT
1 TTTT
10504573 GTATTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTTAAAAAATTTTAGAT
Found at i:10504624 original size:21 final size:21
Alignment explanation
Indices: 10504583--10504626 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10504573 GTATTTAAAA
*
10504583 TTTTTGAGTTTTGAGAAAATT
1 TTTTTGAGATTTGAGAAAATT
*
10504604 TTTTTGA-ATTTGAAGACAATT
1 TTTTTGAGATTTG-AGAAAATT
10504625 TT
1 TT
10504627 ATTCCTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (21 bp):
TTTTTGAGATTTGAGAAAATT
Found at i:10504781 original size:19 final size:20
Alignment explanation
Indices: 10504753--10504811 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
10504743 TTTTTTATTT
*
10504753 TTTAATAATTTTTAAAAATA
1 TTTAAAAATTTTTAAAAATA
* * *
10504773 TTT-AGAATTTTTAAAACTT
1 TTTAAAAATTTTTAAAAATA
10504792 TTTAAAAATTTTTTAAAAAT
1 TTTAAAAA-TTTTTAAAAAT
10504812 TTATTGAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.50
20 6 0.19
21 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAAAAATTTTTAAAAATA
Found at i:10504810 original size:11 final size:10
Alignment explanation
Indices: 10504751--10504813 Score: 74
Period size: 10 Copynumber: 6.3 Consensus size: 10
10504741 GTTTTTTTAT
*
10504751 TTTTTAATAA
1 TTTTTAAAAA
10504761 TTTTTAAAAA
1 TTTTTAAAAA
* *
10504771 TATTT-AGAA
1 TTTTTAAAAA
*
10504780 TTTTTAAAAC
1 TTTTTAAAAA
10504790 TTTTTAAAAA
1 TTTTTAAAAA
10504800 TTTTTTAAAAA
1 -TTTTTAAAAA
10504811 TTT
1 TTT
10504814 ATTGAATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 7 0.16
10 27 0.61
11 10 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:10504823 original size:19 final size:18
Alignment explanation
Indices: 10504759--10504823 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
10504749 ATTTTTTAAT
*
10504759 AATTTTTAAAAATATTTAG
1 AATTTTTAAAAAT-TTTTG
* *
10504778 AATTTTTAAAACTTTTTAAA
1 AATTTTTAAAAATTTTT--G
10504798 AATTTTTTAAAAATTTATTG
1 AA-TTTTTAAAAATTT-TTG
10504818 AATTTT
1 AATTTT
10504824 ATTGAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
18 3 0.08
19 16 0.43
20 4 0.11
21 12 0.32
22 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (18 bp):
AATTTTTAAAAATTTTTG
Found at i:10507714 original size:21 final size:22
Alignment explanation
Indices: 10507689--10507729 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
10507679 ATAAAAAAGT
10507689 TATAATTACTTTTTT-AATTTA
1 TATAATTACTTTTTTCAATTTA
10507710 TATAATTACTTTTTTCAATT
1 TATAATTACTTTTTTCAATT
10507730 CAAGAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
TATAATTACTTTTTTCAATTTA
Found at i:10507987 original size:23 final size:22
Alignment explanation
Indices: 10507960--10508028 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
10507950 CAAAAACTTG
10507960 TTTTTAAACATAAAAATATCATC
1 TTTTTAAA-ATAAAAATATCATC
* * *
10507983 TTTTTCAAGTAAAAAT-T-ATG
1 TTTTTAAAATAAAAATATCATC
10508003 TTTTTAAATATAAAAATATCATC
1 TTTTTAAA-ATAAAAATATCATC
10508026 TTT
1 TTT
10508029 ATCAAATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.24
21 8 0.22
22 8 0.22
23 12 0.32
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (22 bp):
TTTTTAAAATAAAAATATCATC
Found at i:10507997 original size:42 final size:43
Alignment explanation
Indices: 10507918--10508033 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
10507908 AAAGACTGTA
* * * *
10507918 TTTTTTAACATCATAATATCAT-TTTTGTTAAGCAAAAACT-TG
1 TTTTTAAACATAAAAATATCATCTTTT-TCAAGCAAAAACTATG
* *
10507960 TTTTTAAACATAAAAATATCATCTTTTTCAAGTAAAAATTATG
1 TTTTTAAACATAAAAATATCATCTTTTTCAAGCAAAAACTATG
* *
10508003 TTTTTAAATATAAAAATATCATCTTTATCAA
1 TTTTTAAACATAAAAATATCATCTTTTTCAA
10508034 ATCAACATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.44
Consensus pattern (43 bp):
TTTTTAAACATAAAAATATCATCTTTTTCAAGCAAAAACTATG
Found at i:10508029 original size:21 final size:21
Alignment explanation
Indices: 10507962--10508029 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 21
10507952 AAAACTTGTT
*
10507962 TTTAAACATAAAAATATCATC
1 TTTAAATATAAAAATATCATC
* * * *
10507983 TTTTTCAAGTA-AAAATTAT-GTT
1 --TTT-AAATATAAAAATATCATC
10508005 TTTAAATATAAAAATATCATC
1 TTTAAATATAAAAATATCATC
10508026 TTTA
1 TTTA
10508030 TCAAATCAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 5 0.15
22 1 0.03
23 10 0.30
24 3 0.09
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (21 bp):
TTTAAATATAAAAATATCATC
Found at i:10508126 original size:173 final size:175
Alignment explanation
Indices: 10507830--10508150 Score: 450
Period size: 173 Copynumber: 1.8 Consensus size: 175
10507820 AAATACTACA
* * * * * *
10507830 TTTTTAAACATAAAAATGCCATCTTTGTCAAGTTAACATAAAATTTGACAAAGTTTAATTTAAAT
1 TTTTTAAACATAAAAATACCATCTTTATCAAATCAACATAAAATTTGACAAAATTCAATTTAAAT
* * * * *
10507895 ATGATAAATTGACAAAGACTGTATTTTTTAACATCATAATATCATTTTTGTTAAGCAAAAACT-T
66 ATGACAAATTGACAAAGACTGTAGTTTTTAACATCAAAACATCATTTTTGTCAAGCAAAAACTAT
10507959 GTTTTTAAACATA-AAAATATCATCTTTTTCAAGTAAAAATTATG
131 GTTTTTAAACATATAAAATATCATCTTTTTCAAGTAAAAATTATG
* *
10508003 TTTTTAAATATAAAAATATCATCTTTATCAAATCAACATAAAATTTGACAAAATTCAATTTTAAA
1 TTTTTAAACATAAAAATACCATCTTTATCAAATCAACATAAAATTTGACAAAATTCAA-TTTAAA
* * * *
10508068 TATGACAAATTGATAAAGCCTGT-GTTTTTAATATCAAAACATCATTTTTGTCAAGCAAAAATTA
65 TATGACAAATTGACAAAGACTGTAGTTTTTAACATCAAAACATCATTTTTGTCAAGCAAAAACTA
*
10508132 TGTTTTTTAACATATAAAA
130 TGTTTTTAAACATATAAAA
10508151 GTAATATTTG
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
173 84 0.66
174 39 0.31
175 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (175 bp):
TTTTTAAACATAAAAATACCATCTTTATCAAATCAACATAAAATTTGACAAAATTCAATTTAAAT
ATGACAAATTGACAAAGACTGTAGTTTTTAACATCAAAACATCATTTTTGTCAAGCAAAAACTAT
GTTTTTAAACATATAAAATATCATCTTTTTCAAGTAAAAATTATG
Found at i:10508227 original size:131 final size:132
Alignment explanation
Indices: 10507960--10508391 Score: 390
Period size: 131 Copynumber: 3.3 Consensus size: 132
10507950 CAAAAACTTG
* * * * *
10507960 TTTTTAAACATAAAAATATCATCTTTT-TCAAGTAAAAATTATG-TTTTTAA-ATATAAAAATAT
1 TTTTTTAATATAAAAACATCAT-TTTTGTCAAGCAAAAATTATGTTTTTTAACATATAAAAGTA-
* * * * * * *
10508022 CATCTTTATCAAATCAACATAAAATTTGACAAAATTCAATTTTAAATATGACAAATTGATAAAGC
64 -ATCTTTATCAAATTAACATAAAATTTGATAAAATTCAATTTTAAATATTATAAAATGACAAAGA
10508087 CTG--
128 CTGCA
*
10508090 TGTTTTTAATATCAAAACATCATTTTTGTCAAGCAAAAATTATGTTTTTTAACATATAAAAGTAA
1 T-TTTTTAATATAAAAACATCATTTTTGTCAAGCAAAAATTATGTTTTTTAACATATAAAAGTAA
* * * * * * *
10508155 TATTTGTCAAATTAACATAAAATTTAATAAAGTTCAATTTTAAATCTTATAAACTGACAAATACT
65 TCTTTATCAAATTAACATAAAATTTGATAAAATTCAATTTTAAATATTATAAAATGACAAAGACT
*
10508220 ACA
130 GCA
* * * * * * ** * * * *
10508223 TTTTTTAACATTAAAACATTATCTTTGTTAAGTAAAAGCTGTGTTTCTTAACCTA-AAAATGTCA
1 TTTTTTAATATAAAAACATCATTTTTGTCAAGCAAAAATTATGTTTTTTAACATATAAAA-GTAA
* * ** * * *
10508287 TCTTTATCAAGTTATCATAAAATTTGATAATTTTAAAATTTTAAATTTTATAAAATGACAAAGAA
65 TCTTTATCAAATTAACATAAAATTTGATAAAATT-CAATTTTAAATATTATAAAATGACAAAGAC
10508352 TGCA
129 TGCA
* *
10508356 TTTTTTAATATAAAAACGTCATATTTGTCAAGCAAA
1 TTTTTTAATATAAAAACATCATTTTTGTCAAGCAAA
10508392 GACTATTTTT
Statistics
Matches: 242, Mismatches: 52, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
130 5 0.02
131 89 0.37
132 80 0.33
133 68 0.28
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (132 bp):
TTTTTTAATATAAAAACATCATTTTTGTCAAGCAAAAATTATGTTTTTTAACATATAAAAGTAAT
CTTTATCAAATTAACATAAAATTTGATAAAATTCAATTTTAAATATTATAAAATGACAAAGACTG
CA
Found at i:10508383 original size:133 final size:132
Alignment explanation
Indices: 10508092--10508406 Score: 330
Period size: 132 Copynumber: 2.4 Consensus size: 132
10508082 AAAGCCTGTG
* * * *
10508092 TTTTTAATATCAAAACATCATTTTTGTCAAGCAAAAATTATGTTTTTTAACATATAAAAGTAATA
1 TTTTTAATATAAAAACATCATATTTGTCAAGCAAAAACTATGTTTCTTAACATATAAAAGTAATA
* * * * *
10508157 TTTGTCAAATTAACATAAAATTTAATAAAGTTCAATTTTAAATCTTATAAACTGACAAATACTAC
66 TTTATCAAATTAACATAAAATTTAATAAAGTTAAATTTTAAATCTTATAAAATGACAAAGAATAC
10508222 AT
131 AT
* * * * * * * * * *
10508224 TTTTTAACATTAAAACATTATCTTTGTTAAGTAAAAGCTGTGTTTCTTAACCTA-AAAATGTCAT
1 TTTTTAATATAAAAACATCATATTTGTCAAGCAAAAACTATGTTTCTTAACATATAAAA-GTAAT
* * * * ** *
10508288 CTTTATCAAGTTATCATAAAATTTGATAATTTTAAAATTTTAAATTTTATAAAATGACAAAGAAT
65 ATTTATCAAATTAACATAAAATTTAATAAAGTT-AAATTTTAAATCTTATAAAATGACAAAGAAT
*
10508353 GCAT
129 ACAT
* *
10508357 TTTTTAATATAAAAACGTCATATTTGTCAAGCAAAGACTAT-TTT-TTAACA
1 TTTTTAATATAAAAACATCATATTTGTCAAGCAAAAACTATGTTTCTTAACA
10508407 CCAAAATGTC
Statistics
Matches: 145, Mismatches: 36, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
131 9 0.06
132 76 0.52
133 60 0.41
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (132 bp):
TTTTTAATATAAAAACATCATATTTGTCAAGCAAAAACTATGTTTCTTAACATATAAAAGTAATA
TTTATCAAATTAACATAAAATTTAATAAAGTTAAATTTTAAATCTTATAAAATGACAAAGAATAC
AT
Found at i:10508638 original size:30 final size:30
Alignment explanation
Indices: 10508597--10508660 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
10508587 AGATAAAGAG
*
10508597 TTTGGAATTGTATAATAATTATA-GCTTGAA
1 TTTGGAATTGTATAAAAATTATATG-TTGAA
*
10508627 TTTGGACTTGTATAAAAATTATATGTTGAA
1 TTTGGAATTGTATAAAAATTATATGTTGAA
10508657 TTTG
1 TTTG
10508661 CATCAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (30 bp):
TTTGGAATTGTATAAAAATTATATGTTGAA
Found at i:10508932 original size:31 final size:31
Alignment explanation
Indices: 10508894--10508961 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
10508884 ATAATTAACT
10508894 TTATTTGGTGTACTTAAAATATCGTTATCTA
1 TTATTTGGTGTACTTAAAATATCGTTATCTA
*
10508925 TTATTTGGTGTCCTTAAAATATCGTTATCTA
1 TTATTTGGTGTACTTAAAATATCGTTATCTA
10508956 TTATTT
1 TTATTT
10508962 TCTTTATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (31 bp):
TTATTTGGTGTACTTAAAATATCGTTATCTA
Found at i:10509649 original size:64 final size:64
Alignment explanation
Indices: 10509494--10509652 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
10509484 TTCATGCTTG
* * * * * * *
10509494 TTAAACATAATATTTTGATGATTTATCAAAAATTACGTTTATAATGACCAAAACATCGTATTTG
1 TTAAATATAATATTTTGATGATTTGTCAAAAATTACATTTATAATAACCAAAACATCGCACTTA
* * * * * * *
10509558 TTAAATATAACATTTTGATGATGTGTCAAAGATTACATTTATAATAATCAAATCGTCGCCCTTA
1 TTAAATATAATATTTTGATGATTTGTCAAAAATTACATTTATAATAACCAAAACATCGCACTTA
10509622 TTAAATATAATATTTTGATTG-TTTGTCAAAA
1 TTAAATATAATATTTTGA-TGATTTGTCAAAA
10509653 CTGCATTTAC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
64 75 0.97
65 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (64 bp):
TTAAATATAATATTTTGATGATTTGTCAAAAATTACATTTATAATAACCAAAACATCGCACTTA
Found at i:10510908 original size:17 final size:17
Alignment explanation
Indices: 10510888--10510924 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10510878 TTTCTTAACC
* *
10510888 TTTTTATTTTTTTTATT
1 TTTTTATTGTTATTATT
10510905 TTTTTATTGTTATTATT
1 TTTTTATTGTTATTATT
10510922 TTT
1 TTT
10510925 AAGGGAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTATTGTTATTATT
Found at i:10511949 original size:18 final size:16
Alignment explanation
Indices: 10511923--10511969 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
10511913 CATGAGCTTT
*
10511923 TTTTTTTTTTTTTTAG
1 TTTTATTTTTTTTTAG
10511939 AATTTTATTTTTTTTTAG
1 --TTTTATTTTTTTTTAG
10511957 TTTTAATTTTTTT
1 TTTT-ATTTTTTT
10511970 AGGATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 15 0.56
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTTTTAG
Found at i:10511979 original size:18 final size:17
Alignment explanation
Indices: 10511930--10511984 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
10511920 TTTTTTTTTT
* *
10511930 TTTTTTTAGAATTTTATT
1 TTTTTTTAGGATTTTA-A
10511948 TTTTTTTA-G-TTTTAA
1 TTTTTTTAGGATTTTAA
*
10511963 TTTTTTTAGGATATTTAC
1 TTTTTTTAGGAT-TTTAA
10511981 TTTT
1 TTTT
10511985 ATTTGGTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.26
16 6 0.19
17 1 0.03
18 16 0.52
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (17 bp):
TTTTTTTAGGATTTTAA
Found at i:10513709 original size:16 final size:16
Alignment explanation
Indices: 10513690--10513777 Score: 52
Period size: 16 Copynumber: 5.4 Consensus size: 16
10513680 TTTTAAATTA
10513690 TATGAATTTAATTATT
1 TATGAATTTAATTATT
* *
10513706 TATGAATCTAACTATT
1 TATGAATTTAATTATT
* *
10513722 CAT-AATGTTAAATATT
1 TATGAAT-TTAATTATT
* * * *
10513738 CATGAATTCATTGTATC
1 TATGAATTTAAT-TATT
** *
10513755 TATGAATACAATTAAT
1 TATGAATTTAATTATT
10513771 TATGAAT
1 TATGAAT
10513778 GAATATATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
15 3 0.05
16 37 0.67
17 15 0.27
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (16 bp):
TATGAATTTAATTATT
Found at i:10514258 original size:58 final size:59
Alignment explanation
Indices: 10514183--10514321 Score: 169
Period size: 58 Copynumber: 2.4 Consensus size: 59
10514173 CTTTATTAAT
* *
10514183 TAAATAAT-AAATTACTATAATACCTTTCTTTTCTTAAATGA-CAAAGATACCTCTCTTA
1 TAAATAATCAAATTACTATAATACCTTTCATGTCTTAAATGATCAAA-ATACCTCTCTTA
* * * *
10514241 TAAAT-ATCAAATCACTATAATGCCTTTCATGTCTTAAATGATGAAAATATCTCTCTTA
1 TAAATAATCAAATTACTATAATACCTTTCATGTCTTAAATGATCAAAATACCTCTCTTA
* *
10514299 TAAATGA-CAAATTACTATGATAC
1 TAAATAATCAAATTACTATAATAC
10514322 ATGTACATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.03
58 63 0.91
59 4 0.06
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (59 bp):
TAAATAATCAAATTACTATAATACCTTTCATGTCTTAAATGATCAAAATACCTCTCTTA
Found at i:10517462 original size:13 final size:13
Alignment explanation
Indices: 10517441--10517471 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10517431 ACATAATTGT
*
10517441 TTTTTAATATGCA
1 TTTTGAATATGCA
10517454 TTTTGAATATGCA
1 TTTTGAATATGCA
10517467 TTTTG
1 TTTTG
10517472 GTTACTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (13 bp):
TTTTGAATATGCA
Found at i:10518180 original size:25 final size:24
Alignment explanation
Indices: 10518136--10518182 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
10518126 ATGTATTTAA
10518136 AAATAAAAAAATTAACATAATAAT
1 AAATAAAAAAATTAACATAATAAT
*
10518160 AAATATAAAGAATTATA-ATAATA
1 AAATA-AAAAAATTA-ACATAATA
10518183 TTTTAATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 14 0.70
26 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATAAAAAAATTAACATAATAAT
Found at i:10518340 original size:16 final size:17
Alignment explanation
Indices: 10518311--10518372 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 17
10518301 TTTTTTTGAC
*
10518311 ATTAAAAATTATAAAA-
1 ATTAAAATTTATAAAAT
* *
10518327 ATTTAATTTTATAAAAT
1 ATTAAAATTTATAAAAT
10518344 ATTAAAATTTATATTAAAT
1 ATTAAAATTTATA--AAAT
10518363 ATTCAAAATT
1 ATT-AAAATT
10518373 AATTTTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 13 0.35
17 11 0.30
19 7 0.19
20 6 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAAATTTATAAAAT
Found at i:10518364 original size:19 final size:19
Alignment explanation
Indices: 10518331--10518372 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10518321 ATAAAAATTT
10518331 AATTTTATAAAATATT-AA
1 AATTTTATAAAATATTCAA
*
10518349 AATTTATATTAAATATTCAA
1 AATTT-TATAAAATATTCAA
10518369 AATT
1 AATT
10518373 AATTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTATAAAATATTCAA
Found at i:10518700 original size:14 final size:15
Alignment explanation
Indices: 10518676--10518704 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10518666 AATTTATGAG
10518676 TTTATTAAATTTTTA
1 TTTATTAAATTTTTA
10518691 TTTA-TAAATTTTTA
1 TTTATTAAATTTTTA
10518705 AATATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTAAATTTTTA
Found at i:10519877 original size:14 final size:15
Alignment explanation
Indices: 10519838--10519882 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
10519828 TTTATAATTT
*
10519838 AAATTCAATACTTATC
1 AAATTCAATACTTA-A
*
10519854 AAATTTAATA-TTAA
1 AAATTCAATACTTAA
10519868 AAATTCAATACTTAA
1 AAATTCAATACTTAA
10519883 TTTTTCAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTCAATACTTAA
Found at i:10520492 original size:17 final size:17
Alignment explanation
Indices: 10520470--10520507 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
10520460 CGTCCTTTCA
10520470 TTTCAAACAGGTTTCTC
1 TTTCAAACAGGTTTCTC
*
10520487 TTTCAAGCAGGTTTCTC
1 TTTCAAACAGGTTTCTC
10520504 TTTC
1 TTTC
10520508 TCCTTATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (17 bp):
TTTCAAACAGGTTTCTC
Found at i:10526462 original size:91 final size:91
Alignment explanation
Indices: 10526275--10526462 Score: 254
Period size: 92 Copynumber: 2.1 Consensus size: 91
10526265 GCGCCACAGA
* * * *
10526275 TTATTATTCTTCTTAGATTTGCCTACGGGCTTGACTGCTTTGCTGCATTTCAACATGAAACACCA
1 TTATTATTCTGCATAGATTTGCCTACGGGATTGACTGCTTTACTGCATTTCAACATGAAACACCA
10526340 GCATCAGGGAATTAAGTCATCCTATG
66 GCATCAGGGAATTAAGTCATCCTATG
* * **
10526366 TTATTATTCTGCATAGATTGTGCCTACTGGATTGATTGCTTTACTGCATTTCAACATG-AA-TTC
1 TTATTATTCTGCATAGATT-TGCCTACGGGATTGACTGCTTTACTGCATTTCAACATGAAACACC
* *
10526429 GGCATCAGGGAATTTAGTCAATCCTATG
65 AGCATCAGGGAATTAAGTC-ATCCTATG
10526457 TTATTA
1 TTATTA
10526463 ATTTGGCTGT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
90 18 0.21
91 33 0.39
92 34 0.40
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (91 bp):
TTATTATTCTGCATAGATTTGCCTACGGGATTGACTGCTTTACTGCATTTCAACATGAAACACCA
GCATCAGGGAATTAAGTCATCCTATG
Found at i:10530058 original size:31 final size:31
Alignment explanation
Indices: 10530020--10530087 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
10530010 TGGTTCGGTA
10530020 AAATCCGTAGCATTCTTAATCCAACTATCCT
1 AAATCCGTAGCATTCTTAATCCAACTATCCT
10530051 AAATCCGTAGCATTCTTAATCCAACTATCCT
1 AAATCCGTAGCATTCTTAATCCAACTATCCT
10530082 AAATCC
1 AAATCC
10530088 AGACATTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (31 bp):
AAATCCGTAGCATTCTTAATCCAACTATCCT
Found at i:10530088 original size:15 final size:15
Alignment explanation
Indices: 10530037--10530088 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
10530027 TAGCATTCTT
10530037 AATCCAACTATCCTA
1 AATCCAACTATCCTA
* * *
10530052 AATCCGTAGC-ATTCTT
1 AATCC--AACTATCCTA
10530068 AATCCAACTATCCTA
1 AATCCAACTATCCTA
10530083 AATCCA
1 AATCCA
10530089 GACATTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.07
15 15 0.54
16 9 0.32
17 2 0.07
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (15 bp):
AATCCAACTATCCTA
Found at i:10531355 original size:20 final size:22
Alignment explanation
Indices: 10531305--10531352 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
10531295 TTCAAAATTA
10531305 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
10531327 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
*
10531348 GTAAA
1 ATAAA
10531353 TATAATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:10531646 original size:13 final size:14
Alignment explanation
Indices: 10531626--10531658 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10531616 AATTGTACTC
10531626 AAAATAA-TATTTT
1 AAAATAATTATTTT
*
10531639 ACAATAATTATTTT
1 AAAATAATTATTTT
10531653 AAAATA
1 AAAATA
10531659 TATCAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATAATTATTTT
Found at i:10533214 original size:15 final size:16
Alignment explanation
Indices: 10533194--10533225 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10533184 AATATTTATC
10533194 AAATA-TAAAAAATAA
1 AAATATTAAAAAATAA
10533209 AAATATTAAAAAATAA
1 AAATATTAAAAAATAA
10533225 A
1 A
10533226 CACGTGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATATTAAAAAATAA
Found at i:10533556 original size:23 final size:23
Alignment explanation
Indices: 10533530--10533581 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10533520 TCAAAACTTT
*
10533530 TTTTTAAATGAAAATAATTATTA
1 TTTTTAAATAAAAATAATTATTA
* *
10533553 TTTTGATATAAAAATAATTATTA
1 TTTTTAAATAAAAATAATTATTA
10533576 TATTTT
1 T-TTTT
10533582 CCTAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTTAAATAAAAATAATTATTA
Found at i:10535847 original size:15 final size:15
Alignment explanation
Indices: 10535819--10535859 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10535809 TTTTAATTTT
*
10535819 AAAT-TATATATAAA
1 AAATATATATTTAAA
10535833 AAATATATATTTAAA
1 AAATATATATTTAAA
10535848 AAA-AT-TATTTAA
1 AAATATATATTTAA
10535860 TTATCCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATATATTTAAA
Found at i:10538125 original size:20 final size:20
Alignment explanation
Indices: 10538096--10538138 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
10538086 AATAGTAATG
*
10538096 GGGTGTGAAGAGAAGAAGTT
1 GGGTGCGAAGAGAAGAAGTT
10538116 GGGTGCGAAGAGAAGAAGTT
1 GGGTGCGAAGAGAAGAAGTT
10538136 GGG
1 GGG
10538139 GTGCAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.49, T:0.16
Consensus pattern (20 bp):
GGGTGCGAAGAGAAGAAGTT
Found at i:10538771 original size:9 final size:8
Alignment explanation
Indices: 10538739--10538772 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
10538729 AAATTAAGAT
10538739 AAATTTAA
1 AAATTTAA
10538747 AAA--TAA
1 AAATTTAA
10538753 AAATTTAA
1 AAATTTAA
10538761 AAATTTAA
1 AAATTTAA
10538769 AAAT
1 AAAT
10538773 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAATTTAA
Found at i:10545226 original size:29 final size:31
Alignment explanation
Indices: 10545167--10545229 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 31
10545157 AAATGGAGTG
10545167 TTAAGAAAAATCCATTCAATTTCCTATAAGA
1 TTAAGAAAAATCCATTCAATTTCCTATAAGA
*
10545198 TTAAGAAAAATCCA-T-AATTTCCTTTAAGA
1 TTAAGAAAAATCCATTCAATTTCCTATAAGA
10545227 TTA
1 TTA
10545230 TAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.52
30 1 0.03
31 14 0.45
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (31 bp):
TTAAGAAAAATCCATTCAATTTCCTATAAGA
Found at i:10549087 original size:239 final size:242
Alignment explanation
Indices: 10548655--10549126 Score: 788
Period size: 239 Copynumber: 1.9 Consensus size: 242
10548645 ATATTGGGTC
*
10548655 GTCATTGCTGCAAAATCATCCCTTGTGAGAATATTGAGTCAGATGGATGCCATTGTATATGATGA
1 GTCACTGCTGCAAAATCATCCCTTGTGAGAATATTGAGTCAGATGGATGCCATTGTATATGATGA
*
10548720 AAAGGAGAAACAAGGAACGGAACACTATGATTAGAGTTCTTCTTTTTTTCCCAGAAAGGGGGGGC
66 AAAGGAGAAAC-A--AACGGAACACTATGATTAGAG-T-TTCTTTTTTTCCCAGAAAAGGGGGGC
* *
10548785 AGGGTATTGGACTCCTCACAGATTTTTCTGACACTAGTTTGCAACACTGCTACAAAATGAAGAGA
126 AGGGTATTGGACTCCTCACAAATTTTTCTGACACTAGTCTGCAACACTGCTACAAAATGAAGAGA
*
10548850 AACACATAACAAGTGTATATTAAATTTGGACCAGCAGAATGATCAAACTGGT
191 AACACATAACAAGTGTACATTAAATTTGGACCAGCAGAATGATCAAACTGGT
10548902 GTCACTGCTGCAAAATCATCCCTTGTGAGAATATTGAGTCAGATGGATGCCATTGTATATGATGA
1 GTCACTGCTGCAAAATCATCCCTTGTGAGAATATTGAGTCAGATGGATGCCATTGTATATGATGA
* * *
10548967 AAAGGAGAAAC-AA-GGAACACTATGATTGGAG-TTCTTTTTTTCCCAGAAAATGGGGGCGGGGT
66 AAAGGAGAAACAAACGGAACACTATGATTAGAGTTTCTTTTTTTCCCAGAAAAGGGGGGCAGGGT
*
10549029 ATTGGACTCCTCACAAATTTTTCTTACACTAGTCTGCAACACTGCTACAAAATGAAGAGAAACAC
131 ATTGGACTCCTCACAAATTTTTCTGACACTAGTCTGCAACACTGCTACAAAATGAAGAGAAACAC
*
10549094 ATAACAAGTGTACATTAAGTTTGGACCAGCAGA
196 ATAACAAGTGTACATTAAATTTGGACCAGCAGA
10549127 GTGTTCAAGC
Statistics
Matches: 215, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
239 121 0.56
242 17 0.08
243 2 0.01
247 75 0.35
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (242 bp):
GTCACTGCTGCAAAATCATCCCTTGTGAGAATATTGAGTCAGATGGATGCCATTGTATATGATGA
AAAGGAGAAACAAACGGAACACTATGATTAGAGTTTCTTTTTTTCCCAGAAAAGGGGGGCAGGGT
ATTGGACTCCTCACAAATTTTTCTGACACTAGTCTGCAACACTGCTACAAAATGAAGAGAAACAC
ATAACAAGTGTACATTAAATTTGGACCAGCAGAATGATCAAACTGGT
Found at i:10562937 original size:33 final size:33
Alignment explanation
Indices: 10562900--10562971 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
10562890 TAATTTTATT
10562900 ATTATT-ATTATTATTATTA-ATTTTTTAATAAAA
1 ATTATTAATTATTA-TATTATA-TTTTTAATAAAA
* *
10562933 ATTATTAATTATTATATTATATTTTTAATTAAG
1 ATTATTAATTATTATATTATATTTTTAATAAAA
10562966 ATTATT
1 ATTATT
10562972 TTCAATCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
ATTATTAATTATTATATTATATTTTTAATAAAA
Found at i:10563100 original size:15 final size:15
Alignment explanation
Indices: 10563061--10563102 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
10563051 TGATGAATCA
*
10563061 AAATAATTCAAA-TT
1 AAATAATTTAAATTT
* *
10563075 CAATTATTTAAATTT
1 AAATAATTTAAATTT
10563090 AAATAATTTAAAT
1 AAATAATTTAAAT
10563103 ATCAAATTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATAATTTAAATTT
Found at i:10567587 original size:29 final size:30
Alignment explanation
Indices: 10567554--10567621 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
10567544 TTATTATAAT
*
10567554 CAATTGAACTATAAAAT-ATATATTTTA-TC
1 CAATTGAACTATAAAATAAT-TATTTTAGCC
* * *
10567583 CAATTAAACTTTCAAATAATTATTTTAGCC
1 CAATTGAACTATAAAATAATTATTTTAGCC
10567613 CAATTGAAC
1 CAATTGAAC
10567622 CTTTGATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (30 bp):
CAATTGAACTATAAAATAATTATTTTAGCC
Found at i:10578552 original size:47 final size:47
Alignment explanation
Indices: 10578498--10578591 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
10578488 GCAGTATACA
* *
10578498 CCAACTCCTCAAAGAGAAGT-AAATCCTTGTTTTCAGGGCCCGGATGC
1 CCAACTCCTCAAAGAGAACTCAAA-CCTTGTTTCCAGGGCCCGGATGC
* * *
10578545 CCAACTCCTCTAAGAGAACTCAAACCTTGTTTCCATGGCCTGGATGC
1 CCAACTCCTCAAAGAGAACTCAAACCTTGTTTCCAGGGCCCGGATGC
10578592 ATTACAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 38 0.93
48 3 0.07
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (47 bp):
CCAACTCCTCAAAGAGAACTCAAACCTTGTTTCCAGGGCCCGGATGC
Found at i:10581395 original size:3 final size:3
Alignment explanation
Indices: 10581383--10581421 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
10581373 GAGAGAATAG
10581383 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
10581422 AGGGGTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10582644 original size:18 final size:18
Alignment explanation
Indices: 10582617--10582651 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10582607 CTGGGTTCTC
10582617 ATCATATTCATCATCATT
1 ATCATATTCATCATCATT
* *
10582635 ATCATCTTCATCCTCAT
1 ATCATATTCATCATCAT
10582652 CAATGTCCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
ATCATATTCATCATCATT
Found at i:10584739 original size:30 final size:30
Alignment explanation
Indices: 10584698--10584754 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10584688 AATTTTATTT
* * *
10584698 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
10584728 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
10584755 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:10584752 original size:20 final size:22
Alignment explanation
Indices: 10584727--10584778 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
10584717 GATATTTTTA
10584727 AATA-TTTATA-TTTAAAAAAT
1 AATAGTTTATATTTTAAAAAAT
*
10584747 AATATTTTATATTTTAAAAAAT
1 AATAGTTTATATTTTAAAAAAT
10584769 AATAGTTTAT
1 AATAGTTTAT
10584779 TAATTTCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 19 0.66
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAGTTTATATTTTAAAAAAT
Found at i:10588010 original size:24 final size:25
Alignment explanation
Indices: 10587952--10588010 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 25
10587942 TTGAGATTAA
*
10587952 ATATTTTTTATTTTAAAATATAAATT
1 ATATTTTTTATTTT-AAATAAAAATT
10587978 ATTTAATTTTTTATTTT-AATAAAAATT
1 A--T-ATTTTTTATTTTAAATAAAAATT
10588005 ATATTT
1 ATATTT
10588011 ATCTAGCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 10 0.34
28 1 0.03
29 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATATTTTTTATTTTAAATAAAAATT
Found at i:10588301 original size:61 final size:60
Alignment explanation
Indices: 10588230--10588468 Score: 207
Period size: 61 Copynumber: 3.9 Consensus size: 60
10588220 ATTACGTATG
*
10588230 AAGGGCATTATAATAATTTTAATCAATTATGGTAAAATGGATATTTTCATAATTATGGTAT
1 AAGGGCATTATAATAATTTTAATCAATTATGGTAAAA-GGATATTTTCATAATTATGATAT
* * * * ** * * * *
10588291 AAGGGTATTATAATAATTTTGATTAATAATGGTAGGACGAGTACTTTCATAATTATTATAG
1 AAGGGCATTATAATAATTTTAATCAATTATGGTAAAAGGA-TATTTTCATAATTATGATAT
* * * *
10588352 AAGGACATTATAATAATTTTAA-CTAATTATGATAAAAGGATATTTAT-GTAATTATGATAAA
1 AAGGGCATTATAATAATTTTAATC-AATTATGGTAAAAGGATATTT-TCATAATTATGAT-AT
* * * *
10588413 AAGTGCATTATAATAATTTTGA-CTAATTATGAG-AAAAGTGATATTTCCGTAATTAT
1 AAGGGCATTATAATAATTTTAATC-AATTATG-GTAAAAG-GATATTTTCATAATTAT
10588469 AGTAGAAAAG
Statistics
Matches: 142, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
60 15 0.11
61 112 0.79
62 15 0.11
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (60 bp):
AAGGGCATTATAATAATTTTAATCAATTATGGTAAAAGGATATTTTCATAATTATGATAT
Found at i:10588306 original size:25 final size:26
Alignment explanation
Indices: 10588249--10588308 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
10588239 ATAATAATTT
*
10588249 TAATCAATTATGGTAAAATGGATATTT
1 TAAT-AATTATGGTAAAATGGATATTA
* * *
10588276 TCATAATTATGGTATAA-GGGTATTA
1 TAATAATTATGGTAAAATGGATATTA
10588301 TAATAATT
1 TAATAATT
10588309 TTGATTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 13 0.46
26 12 0.43
27 3 0.11
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (26 bp):
TAATAATTATGGTAAAATGGATATTA
Found at i:10588495 original size:61 final size:60
Alignment explanation
Indices: 10588357--10588495 Score: 156
Period size: 61 Copynumber: 2.3 Consensus size: 60
10588347 TATAGAAGGA
* * * *
10588357 CATTATAATAATTTTAACTAATTATGATAAAAGGATATTTATGTAATTATGATAAAAAGT
1 CATTATAATAAATTTGACTAATTATGAGAAAAGGATATTTACGTAATTATGATAAAAAGT
* *
10588417 GCATTATAATAATTTTGACTAATTATGAGAAAAGTGATATTTCCGTAATTAT-AGTAGAAAAGT
1 -CATTATAATAAATTTGACTAATTATGAGAAAAG-GATATTTACGTAATTATGA-TA-AAAAGT
* *
10588480 -ATTGTAGTAAATTTGA
1 CATTATAATAAATTTGA
10588496 ATATGTGTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
61 45 0.66
62 17 0.25
63 6 0.09
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (60 bp):
CATTATAATAAATTTGACTAATTATGAGAAAAGGATATTTACGTAATTATGATAAAAAGT
Found at i:10588681 original size:16 final size:16
Alignment explanation
Indices: 10588660--10588710 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
10588650 GGTATTTTAG
10588660 TAATTTAATATGTAAT
1 TAATTTAATATGTAAT
*
10588676 TAATTTTATAT-TATAT
1 TAATTTAATATGTA-AT
*
10588692 TAAATTTTCATATGTAAT
1 T-AA-TTTAATATGTAAT
10588710 T
1 T
10588711 TAATAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 2 0.07
16 13 0.45
17 2 0.07
18 10 0.34
19 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (16 bp):
TAATTTAATATGTAAT
Found at i:10601185 original size:26 final size:26
Alignment explanation
Indices: 10601128--10601178 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
10601118 TATTAGTTTT
10601128 TGGAAACTATCTGTCAGAAAAAAAAA
1 TGGAAACTATCTGTCAGAAAAAAAAA
10601154 TGGAAACTATCTGTCAGAAAAAAAA
1 TGGAAACTATCTGTCAGAAAAAAAA
10601179 TGTGAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.20
Consensus pattern (26 bp):
TGGAAACTATCTGTCAGAAAAAAAAA
Found at i:10603742 original size:43 final size:43
Alignment explanation
Indices: 10603706--10603924 Score: 214
Period size: 43 Copynumber: 5.0 Consensus size: 43
10603696 AGACTTCATT
10603706 AGAAAATGTAAGCATTCTCACGAATGATATAG-AAGACCTTATA
1 AGAAAATGTAAGCATTCTCACGAATGATAT-GTAAGACCTTATA
* * * * *
10603749 A-AAAGAGGTGAGCATTCTCAC-AATGATATGCAACACCTTGTAA
1 AGAAA-ATGTAAGCATTCTCACGAATGATATGTAAGACCTTAT-A
* *
10603792 AAAAAATG-AA-CATTCTCACGAATGATATGTAAAACCTTATA
1 AGAAAATGTAAGCATTCTCACGAATGATATGTAAGACCTTATA
* * * *
10603833 AGAAAATGTGCGCAAACATTCTCACTAATGATATGTAAAACCTTGTA
1 AGAAAATGT----AAGCATTCTCACGAATGATATGTAAGACCTTATA
* * *
10603880 AGAAAATGTAGGCATTCTCACGAATGATATGGAAGACCTCATA
1 AGAAAATGTAAGCATTCTCACGAATGATATGTAAGACCTTATA
10603923 AG
1 AG
10603925 GAGACGCGAG
Statistics
Matches: 146, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
41 18 0.12
42 37 0.25
43 48 0.33
44 3 0.02
46 2 0.01
47 38 0.26
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (43 bp):
AGAAAATGTAAGCATTCTCACGAATGATATGTAAGACCTTATA
Found at i:10603787 original size:42 final size:41
Alignment explanation
Indices: 10603716--10603910 Score: 160
Period size: 42 Copynumber: 4.5 Consensus size: 41
10603706 AGAAAATGTA
* **
10603716 AGCATTCTCACGAATGATATAGAAGACCTTATAAAAAGAGGTG
1 AGCATTCTCACGAATGATAT-GAAAACCTTATAAAAA-AAATG
* *
10603759 AGCATTCTCAC-AATGATATGCAACACCTTGTAAAAAAAATG
1 AGCATTCTCACGAATGATATG-AAAACCTTATAAAAAAAATG
* **
10603800 AACATTCTCACGAATGATATGTAAAACCTTATAAGAAAATGTGCG
1 AGCATTCTCACGAATGATATG-AAAACCTTATAA-AAAAAAT--G
* * * *
10603845 CAAACATTCTCACTAATGATATGTAAAACCTTGT-AAGAAAATG
1 --AGCATTCTCACGAATGATATG-AAAACCTTATAAAAAAAATG
10603888 TAGGCATTCTCACGAATGATATG
1 -A-GCATTCTCACGAATGATATG
10603911 GAAGACCTCA
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 14 0.11
42 41 0.33
43 35 0.28
45 5 0.04
46 1 0.01
47 30 0.24
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (41 bp):
AGCATTCTCACGAATGATATGAAAACCTTATAAAAAAAATG
Found at i:10603940 original size:43 final size:43
Alignment explanation
Indices: 10603893--10603985 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
10603883 AAATGTAGGC
* * * * *
10603893 ATTCTCACGAATGATATGGAAGACCTCATAAGGAGACGCGAGT
1 ATTCTCACAAAGGATATAGAAGACCTCATAAGAAGACGCGAAT
* * *
10603936 ATTCTCACAAAGGATATAGAAGACCTCGTAAGAAGAGGTGAAT
1 ATTCTCACAAAGGATATAGAAGACCTCATAAGAAGACGCGAAT
10603979 ATTCTCA
1 ATTCTCA
10603986 TAGATAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (43 bp):
ATTCTCACAAAGGATATAGAAGACCTCATAAGAAGACGCGAAT
Found at i:10604953 original size:90 final size:90
Alignment explanation
Indices: 10604781--10605033 Score: 226
Period size: 90 Copynumber: 2.8 Consensus size: 90
10604771 TTCTAAAAAC
*
10604781 TTATTCTGAGATCACCTATTCCAACCAACTATTTGCTAGAGTTATAACTTTTTAAAAGAATAGCT
1 TTATTCTGAGATCACCTATTCCAACAAACTATTTGCTAGAGTTATAACTTTTTAAAAGAATAGCT
*
10604846 AAGCAACATTACCTATTCTAGCCAT
66 AAGCAACATCACCTATTCTAGCCAT
* * * * *
10604871 TTATTCTTAGATTACCTATTCCAACAAACTATTTG-TAAGAGTTGTAAC-TTTTCAAAGCAATAT
1 TTATTCTGAGATCACCTATTCCAACAAACTATTTGCT-AGAGTTATAACTTTTTAAAAG-AATAG
* ** * *** *
10604934 CTAA-CTAATATCATTTATTCCAATAAC
64 CTAAGC-AACATCACCTATTCTAGCCAT
* * * * * * * * *
10604961 TTATT-TAGCGATCACCTATTTCAACTAATTATTTGCAAGAGGTAAAACTTTTCAAATGAATAGC
1 TTATTCT-GAGATCACCTATTCCAACAAACTATTTGCTAGAGTTATAACTTTTTAAAAGAATAGC
10605025 TAAGCAACA
65 TAAGCAACA
10605034 CACTAATAGG
Statistics
Matches: 126, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
89 11 0.09
90 108 0.86
91 7 0.06
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (90 bp):
TTATTCTGAGATCACCTATTCCAACAAACTATTTGCTAGAGTTATAACTTTTTAAAAGAATAGCT
AAGCAACATCACCTATTCTAGCCAT
Found at i:10607467 original size:16 final size:16
Alignment explanation
Indices: 10607446--10607477 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10607436 CACTGAAATC
10607446 ACTTCAAGCTTTTGCT
1 ACTTCAAGCTTTTGCT
10607462 ACTTCAAGCTTTTGCT
1 ACTTCAAGCTTTTGCT
10607478 CTTAATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
ACTTCAAGCTTTTGCT
Found at i:10607696 original size:2 final size:2
Alignment explanation
Indices: 10607691--10607721 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10607681 CATGTGTGTG
*
10607691 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10607722 GTAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10607722 original size:8 final size:8
Alignment explanation
Indices: 10607689--10607724 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
10607679 TGCATGTGTG
10607689 TGTATATA
1 TGTATATA
*
10607697 TATATATA
1 TGTATATA
*
10607705 TATATATA
1 TGTATATA
10607713 TGTATATA
1 TGTATATA
10607721 TGTA
1 TGTA
10607725 AAAATAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (8 bp):
TGTATATA
Found at i:10610790 original size:22 final size:22
Alignment explanation
Indices: 10610750--10610791 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10610740 AAAACCAATC
*
10610750 TAAATAAAGCAAAAGATAAAAA
1 TAAATAAAGCAAAAAATAAAAA
10610772 TAAATAAAG-AAAATAATAAA
1 TAAATAAAGCAAAA-AATAAA
10610792 GAAAAGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (22 bp):
TAAATAAAGCAAAAAATAAAAA
Found at i:10610791 original size:12 final size:13
Alignment explanation
Indices: 10610768--10610796 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10610758 GCAAAAGATA
10610768 AAAATAAATAAAG
1 AAAATAAATAAAG
10610781 AAAAT-AATAAAG
1 AAAATAAATAAAG
10610793 AAAA
1 AAAA
10610797 GATACCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAATAAATAAAG
Found at i:10616411 original size:3 final size:3
Alignment explanation
Indices: 10616403--10616444 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
10616393 TTTCATGTTT
*
10616403 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10616445 GAGATTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10617630 original size:27 final size:27
Alignment explanation
Indices: 10617600--10617654 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10617590 ACCAAATAAG
10617600 ACTAATTACTAAATTTGTGAAGACACT
1 ACTAATTACTAAATTTGTGAAGACACT
10617627 ACTAATTACTAAATTTGTGAAGACACT
1 ACTAATTACTAAATTTGTGAAGACACT
10617654 A
1 A
10617655 AACACTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (27 bp):
ACTAATTACTAAATTTGTGAAGACACT
Found at i:10617661 original size:24 final size:26
Alignment explanation
Indices: 10617607--10617664 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
10617597 AAGACTAATT
*
10617607 ACTAAATTTGTGAAGACACTACTAATT
1 ACTAAATTTGTGAAGACACTAC-AATC
10617634 ACTAAATTTGTGAAGACACTA-AA-C
1 ACTAAATTTGTGAAGACACTACAATC
10617658 ACTAAAT
1 ACTAAAT
10617665 AATAGTCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.23
25 2 0.07
27 21 0.70
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (26 bp):
ACTAAATTTGTGAAGACACTACAATC
Found at i:10617857 original size:10 final size:10
Alignment explanation
Indices: 10617826--10617859 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
10617816 ATACTTCATA
10617826 ATATAAATAT
1 ATATAAATAT
*
10617836 AAATAAATAT
1 ATATAAATAT
10617846 ATATAAATAT
1 ATATAAATAT
10617856 ATAT
1 ATAT
10617860 TTAAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATAAATAT
Found at i:10618001 original size:12 final size:12
Alignment explanation
Indices: 10617984--10618008 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10617974 TTCAAAATAA
10617984 ATAAATATGAAT
1 ATAAATATGAAT
10617996 ATAAATATGAAT
1 ATAAATATGAAT
10618008 A
1 A
10618009 GACAATAATC
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAAATATGAAT
Found at i:10620085 original size:13 final size:13
Alignment explanation
Indices: 10620067--10620091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10620057 ATTTTTTGTT
10620067 TTTTAATATATTA
1 TTTTAATATATTA
10620080 TTTTAATATATT
1 TTTTAATATATT
10620092 TAAATAAATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:10630289 original size:3 final size:3
Alignment explanation
Indices: 10630281--10630334 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
10630271 AATGCTGCAG
10630281 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10630329 ATT ATT
1 ATT ATT
10630335 CATACCTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10634340 original size:25 final size:26
Alignment explanation
Indices: 10634311--10634365 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
10634301 AATTTTGGCC
* * * *
10634311 AATTATGGTAAGAGAA-CATTTTTAT
1 AATTATGATAAAAGAAGCATTATAAT
10634336 AATTATGATAAAAGAAGCATTATAAT
1 AATTATGATAAAAGAAGCATTATAAT
10634362 AATT
1 AATT
10634366 TTGACCTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (26 bp):
AATTATGATAAAAGAAGCATTATAAT
Found at i:10638625 original size:20 final size:21
Alignment explanation
Indices: 10638602--10638649 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
10638592 TGTTTTCTAC
*
10638602 TGTATTTTTTA-TATTTTTTT
1 TGTATTTTGTATTATTTTTTT
10638622 TGTATTTTGTATTATTTTTTT
1 TGTATTTTGTATTATTTTTTT
*
10638643 GGTATTT
1 TGTATTT
10638650 ATTTTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (21 bp):
TGTATTTTGTATTATTTTTTT
Found at i:10638690 original size:35 final size:33
Alignment explanation
Indices: 10638616--10638691 Score: 80
Period size: 35 Copynumber: 2.2 Consensus size: 33
10638606 TTTTTTATAT
* * ** *
10638616 TTTTTTTGTATTTTGTATTATTTTTTTGGTATT
1 TTTTTTTGTATTTCGTATTATTTATTTAATATG
10638649 TATTTTTTGTATTTCGTATTTATTTATTTAATAATG
1 T-TTTTTTGTATTTCGTA-TTATTTATTTAAT-ATG
10638685 TTTTTTT
1 TTTTTTT
10638692 TTTATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 1 0.03
34 15 0.43
35 16 0.46
36 3 0.09
ACGTcount: A:0.17, C:0.01, G:0.09, T:0.72
Consensus pattern (33 bp):
TTTTTTTGTATTTCGTATTATTTATTTAATATG
Found at i:10638927 original size:23 final size:22
Alignment explanation
Indices: 10638896--10638974 Score: 106
Period size: 22 Copynumber: 3.5 Consensus size: 22
10638886 ATGTTCGAAA
10638896 GTCTT-AGAAATCATGCCCGTAG
1 GTCTTAAG-AATCATGCCCGTAG
10638918 GTCTTAAGAATCATGCCCGTAG
1 GTCTTAAGAATCATGCCCGTAG
** *
10638940 GTCTTAAGAATCATGTTCGAAG
1 GTCTTAAGAATCATGCCCGTAG
10638962 GTCTTACAGAATC
1 GTCTTA-AGAATC
10638975 GATTGGGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
22 44 0.85
23 8 0.15
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (22 bp):
GTCTTAAGAATCATGCCCGTAG
Found at i:10639090 original size:88 final size:88
Alignment explanation
Indices: 10638960--10639231 Score: 332
Period size: 88 Copynumber: 3.1 Consensus size: 88
10638950 TCATGTTCGA
* **
10638960 AGGTCTTACAGAATCGATTGGGATAACATCGTAAGTTAAAAGATAAAGAATCGATCGAGATAACA
1 AGGTCTTACAGAATCGATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCGATCGAGATAACA
* **
10639025 CCGTAAATTGAAATTATACCCGG
66 CCGCAAATCAAAATTATACCCGG
* * *
10639048 AGGTCTTACAGAATCGATTGAGATGACATCGCAAGTCGAAAGATAAAGAATCGATCGAAATAACA
1 AGGTCTTACAGAATCGATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCGATCGAGATAACA
* * * *
10639113 TCGCGAATCAAAATTATTCCTGG
66 CCGCAAATCAAAATTATACCCGG
* *
10639136 AGGTCCTACAGAATCGACTGGGATAACA-CTGCAAGTCGAAAGAT-AAGAAATCGATCGAGATAA
1 AGGTCTTACAGAATCGATTGGGATAACATC-GCAAGTCGAAAGATAAAG-AATCGATCGAGATAA
* * * * *
10639199 TATCGCGAATCAAAATTATGCCCAG
64 CACCGCAAATCAAAATTATACCCGG
10639224 AGGTCTTA
1 AGGTCTTA
10639232 GAAATCATGT
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
87 4 0.03
88 155 0.97
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (88 bp):
AGGTCTTACAGAATCGATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCGATCGAGATAACA
CCGCAAATCAAAATTATACCCGG
Found at i:10639324 original size:109 final size:110
Alignment explanation
Indices: 10639132--10639340 Score: 296
Period size: 109 Copynumber: 1.9 Consensus size: 110
10639122 AAAATTATTC
* *
10639132 CTGGAGGTCCTACAGAATCGACTGGGATAACACTGCAAGTCGAAAGATAAGAAATCGATCGAGAT
1 CTGGAGGTCCTACAAAATCGACTGGGATAACACTGCAAGTCGAAAGATAAGAAATCAATCGAGAT
* *
10639197 AATATCGCGAATCAAAATTATGCCCAGAGGTCTTAGAAATCATGT
66 AACATCGCGAATCAAAATTATGCCCAGAGATCTTAGAAATCATGT
* * * * *
10639242 CTGGAGGTCTTACAAAATTGACTGGGATAACA-T-CACAGTCGAAAGATAAGGAATTAATCGGGA
1 CTGGAGGTCCTACAAAATCGACTGGGATAACACTGCA-AGTCGAAAGATAAGAAATCAATCGAGA
* *
10639305 TAACATCGTGAATCAAAATTATGCCCGGAGATCTTA
65 TAACATCGCGAATCAAAATTATGCCCAGAGATCTTA
10639341 CAGAATCGAT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 2 0.02
109 56 0.64
110 29 0.33
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (110 bp):
CTGGAGGTCCTACAAAATCGACTGGGATAACACTGCAAGTCGAAAGATAAGAAATCAATCGAGAT
AACATCGCGAATCAAAATTATGCCCAGAGATCTTAGAAATCATGT
Found at i:10639416 original size:197 final size:198
Alignment explanation
Indices: 10639043--10639525 Score: 578
Period size: 197 Copynumber: 2.4 Consensus size: 198
10639033 TGAAATTATA
* * * * * **
10639043 CCCGGAGGTCTTACAGAATCGATTGAGATGACATCGCAAGTCGAAAGATAAAGAATCGATCGAAA
1 CCCGGAGGTCTTACAAAATTGATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCAATCGGGA
* * * * *
10639108 TAACATCGCGAATCAAAATTATTCCTGGAGGTCCTACAGAATCGACTGGGATAACACTGCAAGTC
66 TAACATCGCGAATCAAAATTATGCCCGGAGATCCTACAGAATCGACTGAGATAACACCGCAAGTC
* * * *
10639173 GAAAGATAAGAAATCGATCGAGATAATATCGCGAATCAAAATTATGCCCAGAGGTCTTAGAAATC
131 AAAAGATAAGAAATCGATCGAGATAACATCGCGAATAAAAATTATGCCCAGAGGTCTTAAAAATC
10639238 ATG
196 ATG
* * * * * *
10639241 TCTGGAGGTCTTACAAAATTGACTGGGATAACATCAC-AGTCGAAAGATAAGGAATTAATCGGGA
1 CCCGGAGGTCTTACAAAATTGATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCAATCGGGA
* * * * **
10639305 TAACATCGTGAATCAAAATTATGCCCGGAGATCTTACAGAATCGATTGAGATAATACCGTGAGTC
66 TAACATCGCGAATCAAAATTATGCCCGGAGATCCTACAGAATCGACTGAGATAACACCGCAAGTC
* * * *
10639370 AAAAGATAA-AGAATTGATCGGGATAACA-CTGCGAATAAAAATTATGCTCGGAGGTCTTAAAAA
131 AAAAGATAAGA-AATCGATCGAGATAACATC-GCGAATAAAAATTATGCCCAGAGGTCTTAAAAA
10639433 TCATG
194 TCATG
* * *
10639438 CCCGGAGGTCTTAC-AGATTCGATTGGGATAACATCGCAAGTTGAAAGATAAAAAATCAATCGGG
1 CCCGGAGGTCTTACAAAATT-GATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCAATCGGG
* *
10639502 ATAACACCACGAATCAAAATTATG
65 ATAACATCGCGAATCAAAATTATG
10639526 GGGGGAGGTC
Statistics
Matches: 237, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
196 6 0.03
197 159 0.67
198 72 0.30
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (198 bp):
CCCGGAGGTCTTACAAAATTGATTGGGATAACATCGCAAGTCGAAAGATAAAGAATCAATCGGGA
TAACATCGCGAATCAAAATTATGCCCGGAGATCCTACAGAATCGACTGAGATAACACCGCAAGTC
AAAAGATAAGAAATCGATCGAGATAACATCGCGAATAAAAATTATGCCCAGAGGTCTTAAAAATC
ATG
Found at i:10639433 original size:22 final size:22
Alignment explanation
Indices: 10639405--10639450 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10639395 ACACTGCGAA
* *
10639405 TAAAAATTATGCTCGGAGGTCT
1 TAAAAATCATGCCCGGAGGTCT
10639427 TAAAAATCATGCCCGGAGGTCT
1 TAAAAATCATGCCCGGAGGTCT
10639449 TA
1 TA
10639451 CAGATTCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (22 bp):
TAAAAATCATGCCCGGAGGTCT
Found at i:10639515 original size:110 final size:110
Alignment explanation
Indices: 10639319--10639636 Score: 366
Period size: 110 Copynumber: 2.9 Consensus size: 110
10639309 ATCGTGAATC
* * *
10639319 AAAATTATGCCCGGAGATCTTACAGAATCGATTGAGATAATACCGTGAGTCAAAAGATAAAGAAT
1 AAAATCATGCCCGGAGGTCTTACAGAATCGATTGAGATAATACCGTAAGTCAAAAGATAAAGAAT
** ** * *
10639384 TGATCGGGATAACACTGCGAATAAAAATTATGCTCGGAGGTCTTA
66 CAATCGGGATAACACCACGAATCAAAATTATGCGCGGAGGTCTTA
* * * * * ** *
10639429 AAAATCATGCCCGGAGGTCTTACAGATTCGATTGGGATAACATCGCAAGTTGAAAGATAAAAAAT
1 AAAATCATGCCCGGAGGTCTTACAGAATCGATTGAGATAATACCGTAAGTCAAAAGATAAAGAAT
* *
10639494 CAATCGGGATAACACCACGAATCAAAATTATGGGGGGAGGTCTTA
66 CAATCGGGATAACACCACGAATCAAAATTATGCGCGGAGGTCTTA
* *** * * *
10639539 AGAATCATGCCTTAAGGTCTTACAGAATCGACTGTGATAATACCGTAAGTCAAAAGATAAGGAAT
1 AAAATCATGCCCGGAGGTCTTACAGAATCGATTGAGATAATACCGTAAGTCAAAAGATAAAGAAT
* * * *
10639604 CTATCGGGATAATATCACGAATCGAAATTATGC
66 CAATCGGGATAACACCACGAATCAAAATTATGC
10639637 CTGAAGGTCT
Statistics
Matches: 170, Mismatches: 38, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
110 170 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (110 bp):
AAAATCATGCCCGGAGGTCTTACAGAATCGATTGAGATAATACCGTAAGTCAAAAGATAAAGAAT
CAATCGGGATAACACCACGAATCAAAATTATGCGCGGAGGTCTTA
Found at i:10639666 original size:88 final size:88
Alignment explanation
Indices: 10639545--10639723 Score: 243
Period size: 88 Copynumber: 2.0 Consensus size: 88
10639535 CTTAAGAATC
* * * ** * *
10639545 ATGCCTTAAGGTCTTACAGAATCGACTGTGATAATACCGTAAGTCAAAAGATAAGGAATCTATCG
1 ATGCCTGAAGGTCTTACAGAATCCACTGTGATAACACCACAAGTCAAAAGATAAGAAATCGATCG
* *
10639610 GGATAATATCACGAATCGAAATT
66 GGATAACACCACGAATCGAAATT
**
10639633 ATGCCTGAAGGTCTTACAGAATCCACTAG-GATAACACCACAAGTTGAAAGATAAGAAATCGATC
1 ATGCCTGAAGGTCTTACAGAATCCACT-GTGATAACACCACAAGTCAAAAGATAAGAAATCGATC
10639697 GGGATAACACCACGAATCGAAATT
65 GGGATAACACCACGAATCGAAATT
10639721 ATG
1 ATG
10639724 AGGGGAGGTC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 78 0.99
89 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (88 bp):
ATGCCTGAAGGTCTTACAGAATCCACTGTGATAACACCACAAGTCAAAAGATAAGAAATCGATCG
GGATAACACCACGAATCGAAATT
Found at i:10639752 original size:22 final size:22
Alignment explanation
Indices: 10639727--10639780 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
10639717 AATTATGAGG
* * *
10639727 GGAGGTCTTAAAAATTATGTCT
1 GGAGGTCTTAAAAATAATGCCC
* *
10639749 GGAGGTGTTAGAAATAATGCCC
1 GGAGGTCTTAAAAATAATGCCC
10639771 GGAGGTCTTA
1 GGAGGTCTTA
10639781 CAGAATCGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (22 bp):
GGAGGTCTTAAAAATAATGCCC
Found at i:10639864 original size:132 final size:132
Alignment explanation
Indices: 10639627--10640005 Score: 519
Period size: 132 Copynumber: 2.9 Consensus size: 132
10639617 ATCACGAATC
* * * * * **
10639627 GAAATTATGCCTGAAGGTCTTACAGAATCCACT-AGGATAACACCACAAGTTGAAAGATAAGAAA
1 GAAATAATGCCCGGAGGTCTTACAGAATCGACTGA-GATAACACCATAAGTCAAAAGATAAGAAA
* * *
10639691 TCGATCGGGATAACACCACGAATCGAAATTATGAGGGGAGGTCTTAAAAATTATGTCTGGAGGTG
65 TCGATCGGGATAACACCACGAATCGAAATTATGAGGGGAGGTCTTAAAAATTATGCCTGAAGGTC
10639756 TTA
130 TTA
*
10639759 GAAATAATGCCCGGAGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAGATAAGAAAT
1 GAAATAATGCCCGGAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAAGAAAT
* *
10639824 CGATCGGGATAACACCGCGAATTGAAATTATGAGGGGAGGTCTTAAAAATTATGCCTGAAGGTCT
66 CGATCGGGATAACACCACGAATCGAAATTATGAGGGGAGGTCTTAAAAATTATGCCTGAAGGTCT
10639889 TA
131 TA
* * *
10639891 AAAATCATGCTCGGAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAA-AGAA
1 GAAATAATGCCCGGAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAAGA-AA
* * * * ***
10639955 TCGATTGGGATAATACTACGAATCAAAATTATGCTCGGAGGTCTTAAAAAT
65 TCGATCGGGATAACACCACGAATCGAAATTATGAGGGGAGGTCTTAAAAAT
10640006 CATATCCGGA
Statistics
Matches: 219, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.00
132 217 0.99
133 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (132 bp):
GAAATAATGCCCGGAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAAGAAAT
CGATCGGGATAACACCACGAATCGAAATTATGAGGGGAGGTCTTAAAAATTATGCCTGAAGGTCT
TA
Found at i:10639876 original size:22 final size:22
Alignment explanation
Indices: 10639848--10639912 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
10639838 CCGCGAATTG
* *
10639848 AAATTATGAGGGGAGGTCTTAA
1 AAATTATGACGGAAGGTCTTAA
* *
10639870 AAATTATGCCTGAAGGTCTTAA
1 AAATTATGACGGAAGGTCTTAA
* *
10639892 AAATCATGCTCGG-AGGTCTTA
1 AAATTATG-ACGGAAGGTCTTA
10639913 CAGAATCGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (22 bp):
AAATTATGACGGAAGGTCTTAA
Found at i:10640066 original size:110 final size:109
Alignment explanation
Indices: 10639869--10640134 Score: 302
Period size: 110 Copynumber: 2.4 Consensus size: 109
10639859 GGAGGTCTTA
* * *
10639869 AAAATTATGC-CTGAAGGTCTTAAAAATCATGCTCGGAGGTCTTACAGAATCGACTGAGATAACA
1 AAAATTATGCTC-GGAGGTCTTAAAAATCAT-CCCGGAGGTCTTATAGAATCGACTGAGATAACA
* * * * *
10639933 CCATAAGTCAAAAGATAAAGAATCGATTGGGATAATACTACGAATC
64 CCACAAGTCAAAAGATAAAGAATCAATTGAGATAACACCACGAATC
* *
10639979 AAAATTATGCTCGGAGGTCTTAAAAATCATATCCGGAGGTTTTATAGAATCGACT-AGGATAACA
1 AAAATTATGCTCGGAGGTCTTAAAAATCAT-CCCGGAGGTCTTATAGAATCGACTGA-GATAACA
* * * * * *
10640043 TCGCAAGTCGAAAGATAAGGAATCAATTGAGATGACACCGCGAATC
64 CCACAAGTCAAAAGATAAAGAATCAATTGAGATAACACCACGAATC
* * *
10640089 GAAATTATGCTCGGAGGTTTTAAAAATTATGCCCGGAGGTCTTATA
1 AAAATTATGCTCGGAGGTCTTAAAAATCAT-CCCGGAGGTCTTATA
10640135 AATTTTAAAA
Statistics
Matches: 131, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
109 1 0.01
110 129 0.98
111 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (109 bp):
AAAATTATGCTCGGAGGTCTTAAAAATCATCCCGGAGGTCTTATAGAATCGACTGAGATAACACC
ACAAGTCAAAAGATAAAGAATCAATTGAGATAACACCACGAATC
Found at i:10640115 original size:22 final size:22
Alignment explanation
Indices: 10640090--10640138 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10640080 CCGCGAATCG
* *
10640090 AAATTATGCTCGGAGGTTTTAA
1 AAATTATGCCCGGAGGTCTTAA
*
10640112 AAATTATGCCCGGAGGTCTTAT
1 AAATTATGCCCGGAGGTCTTAA
10640134 AAATT
1 AAATT
10640139 TTAAAATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (22 bp):
AAATTATGCCCGGAGGTCTTAA
Found at i:10640526 original size:41 final size:41
Alignment explanation
Indices: 10640443--10640530 Score: 126
Period size: 41 Copynumber: 2.1 Consensus size: 41
10640433 AGGTTCCCTC
* *
10640443 TAAACAGAGGCTTTGAAATCTTGATTGAAATTGGTTTCTCT
1 TAAATAGAGGCTTTGAAATCTTGATTGAAATCGGTTTCTCT
10640484 TAAATAGAGGCTTTGAAATCTTGATTGAGAA-CGG-TTCATCT
1 TAAATAGAGGCTTTGAAATCTTGATTGA-AATCGGTTTC-TCT
10640525 TAAATA
1 TAAATA
10640531 TAGACTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 3 0.07
41 38 0.88
42 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (41 bp):
TAAATAGAGGCTTTGAAATCTTGATTGAAATCGGTTTCTCT
Found at i:10642264 original size:20 final size:19
Alignment explanation
Indices: 10642239--10642297 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
10642229 ATTGAATATG
10642239 TCTCTTTTGTTTGTTTTTTT
1 TCTCTTTT-TTTGTTTTTTT
10642259 TCTCTTTTTCTT-TTTTTTT
1 TCTCTTTTT-TTGTTTTTTT
*
10642278 TCTTTTTTTTTGGTTTTTTT
1 TCTCTTTTTTT-GTTTTTTT
10642298 ATGCCCTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 2 0.06
19 16 0.46
20 17 0.49
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (19 bp):
TCTCTTTTTTTGTTTTTTT
Found at i:10642274 original size:17 final size:16
Alignment explanation
Indices: 10642252--10642288 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
10642242 CTTTTGTTTG
10642252 TTTTTTTTCTCTTTTT
1 TTTTTTTTCTCTTTTT
*
10642268 CTTTTTTTTTTCTTTTT
1 -TTTTTTTTCTCTTTTT
10642285 TTTT
1 TTTT
10642289 GGTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTTTCTCTTTTT
Found at i:10642288 original size:11 final size:11
Alignment explanation
Indices: 10642263--10642288 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10642253 TTTTTTTCTC
10642263 TTTTTCTTTTT
1 TTTTTCTTTTT
10642274 TTTTTCTTTTT
1 TTTTTCTTTTT
10642285 TTTT
1 TTTT
10642289 GGTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:10642294 original size:17 final size:19
Alignment explanation
Indices: 10642255--10642295 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
10642245 TTGTTTGTTT
10642255 TTTTTCTCTTTTTCTTT--
1 TTTTTCTCTTTTTCTTTGG
* *
10642272 TTTTTTTCTTTTTTTTTGG
1 TTTTTCTCTTTTTCTTTGG
10642291 TTTTT
1 TTTTT
10642296 TTATGCCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
19 5 0.25
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (19 bp):
TTTTTCTCTTTTTCTTTGG
Found at i:10642875 original size:12 final size:11
Alignment explanation
Indices: 10642855--10642886 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
10642845 AAAATAAAAC
10642855 TTCTTTTTTTT
1 TTCTTTTTTTT
10642866 TTCTTTTTTTT
1 TTCTTTTTTTT
10642877 TTCTTTTTTT
1 TTCTTTTTTT
10642887 GAAATCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:10646697 original size:26 final size:26
Alignment explanation
Indices: 10646656--10646733 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
10646646 CTAATACAGC
10646656 ATACTTGTATGGAATGCATGAACCTA
1 ATACTTGTATGGAATGCATGAACCTA
**
10646682 ATACTTGTATCAAATGCATGAACCTA
1 ATACTTGTATGGAATGCATGAACCTA
*
10646708 ATACTTGTATGGAATGCATAAACCTA
1 ATACTTGTATGGAATGCATGAACCTA
10646734 TCAAGTGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (26 bp):
ATACTTGTATGGAATGCATGAACCTA
Found at i:10648850 original size:17 final size:16
Alignment explanation
Indices: 10648826--10648869 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
10648816 ATTTCAGATT
*
10648826 TTTTGGGGGCTTT-GAA
1 TTTTAGGGG-TTTCGAA
10648842 TTTTAGGGGTTTCGAA
1 TTTTAGGGGTTTCGAA
*
10648858 TTTTAAGGGTTT
1 TTTTAGGGGTTT
10648870 TAGAAACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.16, C:0.05, G:0.32, T:0.48
Consensus pattern (16 bp):
TTTTAGGGGTTTCGAA
Found at i:10650334 original size:22 final size:21
Alignment explanation
Indices: 10650304--10650345 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
10650294 CCATCTTCGA
10650304 TTTTTTTTTTGTTTTCTATTG
1 TTTTTTTTTTGTTTTCTATTG
* *
10650325 TTTTTCTTTTTTTTTTGTATT
1 TTTTT-TTTTTGTTTTCTATT
10650346 TTATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTGTTTTCTATTG
Found at i:10650347 original size:29 final size:27
Alignment explanation
Indices: 10650304--10650358 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
10650294 CCATCTTCGA
* *
10650304 TTTTTTTTTTGTTTTCTATTGTTTTTC
1 TTTTTTTTTTGTTTTATATTATTTTTC
10650331 TTTTTTTTTTGTATTTTATATTATTTTT
1 TTTTTTTTTTG--TTTTATATTATTTTT
10650359 TTGGTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
29 13 0.54
ACGTcount: A:0.09, C:0.04, G:0.05, T:0.82
Consensus pattern (27 bp):
TTTTTTTTTTGTTTTATATTATTTTTC
Found at i:10650372 original size:14 final size:13
Alignment explanation
Indices: 10650356--10650380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10650346 TTATATTATT
10650356 TTTTTGGTATTTA
1 TTTTTGGTATTTA
10650369 TTTTTGGTATTT
1 TTTTTGGTATTT
10650381 CATATTTTTT
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:0.16, T:0.72
Consensus pattern (13 bp):
TTTTTGGTATTTA
Found at i:10650621 original size:15 final size:14
Alignment explanation
Indices: 10650591--10650638 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10650581 GATGGGTACT
**
10650591 AAAAAATCAAAGAA
1 AAAAAATCAATTAA
10650605 AAAAAATCAATTTAA
1 AAAAAATCAA-TTAA
* *
10650620 AAAAAGTTAATTAA
1 AAAAAATCAATTAA
10650634 AAAAA
1 AAAAA
10650639 GGAAAATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (14 bp):
AAAAAATCAATTAA
Found at i:10652778 original size:13 final size:12
Alignment explanation
Indices: 10652745--10652781 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10652735 TTGAATTATA
10652745 AATAATATTTTT
1 AATAATATTTTT
10652757 AATAATATTTTT
1 AATAATATTTTT
*
10652769 -AT-ATATTATT
1 AATAATATTTTT
10652779 AAT
1 AAT
10652782 TTATACGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 7 0.30
11 4 0.17
12 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:10654514 original size:18 final size:17
Alignment explanation
Indices: 10654489--10654535 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
10654479 TTTAAAAATC
10654489 ATAAAATAATATTTTAA
1 ATAAAATAATATTTTAA
* *
10654506 ATAAAAATAAATTTTTTTA
1 AT-AAAAT-AATATTTTAA
10654525 ATAAAATAATA
1 ATAAAATAATA
10654536 ATCGAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATAATATTTTAA
Found at i:10655421 original size:16 final size:18
Alignment explanation
Indices: 10655400--10655434 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10655390 TTATTTTATA
10655400 AAAAATT-A-AAAAATAT
1 AAAAATTAATAAAAATAT
10655416 AAAAATTAATAAAAATAT
1 AAAAATTAATAAAAATAT
10655434 A
1 A
10655435 TTTTAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTAATAAAAATAT
Found at i:10656263 original size:18 final size:19
Alignment explanation
Indices: 10656235--10656276 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
10656225 ATCATAGTAG
*
10656235 AAAATATTATTTTCTACAA
1 AAAATATTATTTTCTAAAA
10656254 AAAATA-TATTTTCTAAAA
1 AAAATATTATTTTCTAAAA
10656272 AAAAT
1 AAAAT
10656277 TAAAGATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATATTATTTTCTAAAA
Found at i:10656526 original size:20 final size:19
Alignment explanation
Indices: 10656459--10656523 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
10656449 AAATAAATTT
*
10656459 TTTAAAAAATT-AAAATTAA
1 TTTAAAAAATTCAAAA-TCA
* *
10656478 GTT-AAAAATTCAAAATCC
1 TTTAAAAAATTCAAAATCA
* *
10656496 TTTAAAAAATTCCATATCA
1 TTTAAAAAATTCAAAATCA
10656515 TTTAAAAAA
1 TTTAAAAAA
10656524 ATTAAATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 10 0.27
19 27 0.73
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (19 bp):
TTTAAAAAATTCAAAATCA
Found at i:10656568 original size:64 final size:65
Alignment explanation
Indices: 10656498--10656622 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 65
10656488 CAAAATCCTT
* * * * **
10656498 TAAAAAATTCCATATCATTTAAAAAAATTAAAT-AAAAATTTGTTTATTGTTTTAAAAAATTAAA
1 TAAAAAACTCCATACCATTTAAAAAAATTAAATAAAAAATTTCTATATCATTTTAAAAAATTAAA
* * * *
10656562 TAAAAAACTCCTTACCATTTTAAAATATTAAGTAAAAAATTTCTATATCATTTTAAAAAAT
1 TAAAAAACTCCATACCATTTAAAAAAATTAAATAAAAAATTTCTATATCATTTTAAAAAAT
10656623 ATATATTTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
64 27 0.54
65 23 0.46
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.38
Consensus pattern (65 bp):
TAAAAAACTCCATACCATTTAAAAAAATTAAATAAAAAATTTCTATATCATTTTAAAAAATTAAA
Found at i:10656614 original size:33 final size:33
Alignment explanation
Indices: 10656498--10656622 Score: 130
Period size: 32 Copynumber: 3.9 Consensus size: 33
10656488 CAAAATCCTT
* *
10656498 TAAAAAA-TTCCATATCATTTAAAAAAATTAAA
1 TAAAAAATTTCTATATCATTTTAAAAAATTAAA
* * **
10656530 T-AAAAATTTGTTTATTGTTTTAAAAAATTAAA
1 TAAAAAATTTCTATATCATTTTAAAAAATTAAA
* * * * *
10656562 TAAAAAACTCCT-TACCATTTTAAAATATTAAG
1 TAAAAAATTTCTATATCATTTTAAAAAATTAAA
10656594 TAAAAAATTTCTATATCATTTTAAAAAAT
1 TAAAAAATTTCTATATCATTTTAAAAAAT
10656623 ATATATTTAT
Statistics
Matches: 72, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
31 5 0.07
32 46 0.64
33 21 0.29
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.38
Consensus pattern (33 bp):
TAAAAAATTTCTATATCATTTTAAAAAATTAAA
Found at i:10659475 original size:2 final size:2
Alignment explanation
Indices: 10659468--10659498 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10659458 GTTTAAAAAG
*
10659468 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10659499 GTTATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10660584 original size:14 final size:15
Alignment explanation
Indices: 10660559--10660588 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10660549 TGGATTTATA
10660559 AAGAAGTAAGGAAAG
1 AAGAAGTAAGGAAAG
10660574 AAGAA-TAAGGAAAG
1 AAGAAGTAAGGAAAG
10660588 A
1 A
10660589 CAAAAGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.00, G:0.30, T:0.07
Consensus pattern (15 bp):
AAGAAGTAAGGAAAG
Found at i:10662918 original size:18 final size:18
Alignment explanation
Indices: 10662891--10662927 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10662881 CATTGCAGGA
10662891 TTTCTCCTGAAACCCCAT
1 TTTCTCCTGAAACCCCAT
* *
10662909 TTTCTTCTGAAACCTCAT
1 TTTCTCCTGAAACCCCAT
10662927 T
1 T
10662928 AATCTAACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTCTCCTGAAACCCCAT
Found at i:10663553 original size:37 final size:37
Alignment explanation
Indices: 10663482--10663554 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
10663472 ATATATTTAA
*
10663482 AAAAAATCAATAAATTAAAATAAGAAACAGAAGACAC
1 AAAAAATCAATAAATTAAAATAAGAAACAAAAGACAC
* * * * *
10663519 AAAAAATGATTAAATTAATATAATAAAGAAAAGACA
1 AAAAAATCAATAAATTAAAATAAGAAACAAAAGACA
10663555 GATAATATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.67, C:0.07, G:0.08, T:0.18
Consensus pattern (37 bp):
AAAAAATCAATAAATTAAAATAAGAAACAAAAGACAC
Found at i:10679523 original size:2 final size:2
Alignment explanation
Indices: 10679516--10679540 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10679506 ACTTTTAAAA
10679516 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10679541 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10679545 original size:2 final size:2
Alignment explanation
Indices: 10679540--10679571 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
10679530 TCTCTCTCTC
10679540 TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10679572 ATCATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10680012 original size:3 final size:3
Alignment explanation
Indices: 10680004--10680051 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
10679994 TTTTTAATTC
10680004 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10680052 TTTTAGTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10681107 original size:23 final size:21
Alignment explanation
Indices: 10681061--10681112 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
10681051 CATATTTTAA
* *
10681061 ATAATTA-TATTTGATTAAAT
1 ATAATTATTATATGATAAAAT
10681081 ATAATTATTATATGATAAATAT
1 ATAATTATTATATGATAAA-AT
10681103 CATAATTATT
1 -ATAATTATT
10681113 GGAATGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 2 0.07
23 9 0.33
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (21 bp):
ATAATTATTATATGATAAAAT
Found at i:10681110 original size:20 final size:22
Alignment explanation
Indices: 10681060--10681111 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
10681050 TCATATTTTA
10681060 AATAATTATATTTGATTAAATAT
1 AATAATTATA-TTGATTAAATAT
*
10681083 AATTATTATA-TGA-TAAATAT
1 AATAATTATATTGATTAAATAT
*
10681103 CATAATTAT
1 AATAATTAT
10681112 TGGAATGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
23 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
AATAATTATATTGATTAAATAT
Found at i:10681609 original size:26 final size:26
Alignment explanation
Indices: 10681567--10681617 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
10681557 CTTTTCGAAT
*
10681567 TCAAACCCATTTATAAAACGGTGGAG
1 TCAAACCCACTTATAAAACGGTGGAG
* *
10681593 TCAAACCCACTTCTAAATCGGTGGA
1 TCAAACCCACTTATAAAACGGTGGA
10681618 AGCCTTGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (26 bp):
TCAAACCCACTTATAAAACGGTGGAG
Found at i:10683403 original size:2 final size:2
Alignment explanation
Indices: 10683398--10683424 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10683388 ATATGTTGTA
10683398 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 A
10683425 ATAACATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10688016 original size:19 final size:19
Alignment explanation
Indices: 10687988--10688032 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
10687978 CCATGAGAAC
*
10687988 TTTTT-TTTTTGC-CTTTT
1 TTTTTCTTTTTTCTCTTTT
10688005 TTTTTCTTTTTTCTCTTTT
1 TTTTTCTTTTTTCTCTTTT
10688024 TTTTGTCTT
1 TTTT-TCTT
10688033 ATCGATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 9 0.38
20 4 0.17
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTTTCTCTTTT
Found at i:10690329 original size:15 final size:15
Alignment explanation
Indices: 10690309--10690339 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10690299 ATTTTATCAC
10690309 TTTATTATTCTTTTT
1 TTTATTATTCTTTTT
*
10690324 TTTATTATTGTTTTT
1 TTTATTATTCTTTTT
10690339 T
1 T
10690340 AAAGATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTATTATTCTTTTT
Done.