Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 143 of 203
Found at i:45580851 original size:24 final size:25
Alignment explanation
Indices: 45580810--45580857 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
45580800 GTCTTTTCTT
45580810 TAAAAGTATATAAATATTATAAAAA
1 TAAAAGTATATAAATATTATAAAAA
* *
45580835 TAAAAGTTTA-AAATATTTTAAAA
1 TAAAAGTATATAAATATTATAAAA
45580858 TTCATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAAGTATATAAATATTATAAAAA
Found at i:45581492 original size:16 final size:16
Alignment explanation
Indices: 45581471--45581503 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45581461 TCTCTTTTAC
45581471 AATTAA-ATAATAAATT
1 AATTAATAT-ATAAATT
45581487 AATTAATATATAAATT
1 AATTAATATATAAATT
45581503 A
1 A
45581504 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAATATATAAATT
Found at i:45581622 original size:7 final size:7
Alignment explanation
Indices: 45581612--45581665 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
45581602 CCCCAGCATT
45581612 TAAACCA
1 TAAACCA
*
45581619 TAAACCC
1 TAAACCA
45581626 TAAACCA
1 TAAACCA
* *
45581633 TAATCCC
1 TAAACCA
45581640 TAAACTCA
1 TAAAC-CA
*
45581648 TAATCCA
1 TAAACCA
*
45581655 TAAACCT
1 TAAACCA
45581662 TAAA
1 TAAA
45581666 ATGGTAACAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:45581629 original size:14 final size:14
Alignment explanation
Indices: 45581612--45581723 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 14
45581602 CCCCAGCATT
45581612 TAAACCATAAACCC
1 TAAACCATAAACCC
*
45581626 TAAACCATAATCCC
1 TAAACCATAAACCC
* *
45581640 TAAACTCATAATCCA
1 TAAAC-CATAAACCC
*
45581655 TAAACCTTAAAATGGTAACACC
1 TAAACC-----AT--AAAC-CC
*
45581677 TAAA-CATTAAACTC
1 TAAACCA-TAAACCC
*
45581691 TAAACCATATACCC
1 TAAACCATAAACCC
*
45581705 TAAACCAAAAACCC
1 TAAACCATAAACCC
45581719 TAAAC
1 TAAAC
45581724 TATAGTGATA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
14 46 0.61
15 18 0.24
16 1 0.01
17 1 0.01
19 2 0.03
21 3 0.04
22 5 0.07
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:45581651 original size:15 final size:14
Alignment explanation
Indices: 45581612--45581660 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
45581602 CCCCAGCATT
*
45581612 TAAACCATAAACCC
1 TAAACCATAATCCC
45581626 TAAACCATAATCCC
1 TAAACCATAATCCC
*
45581640 TAAACTCATAATCCA
1 TAAAC-CATAATCCC
45581655 TAAACC
1 TAAACC
45581661 TTAAAATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:45581948 original size:41 final size:41
Alignment explanation
Indices: 45581891--45582212 Score: 491
Period size: 41 Copynumber: 7.9 Consensus size: 41
45581881 TAAATCCCTA
* *
45581891 AGCATTAGCGGCGCTTTATCAAAAACGCCACTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
45581932 AGCATTAGCGGCGCTTTCTCAAAAAAGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
45581973 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* **
45582014 AGCATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAGACTAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* **
45582055 AGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAA
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * *
45582096 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCCT
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
** * *
45582137 AGTTTTAGCGGCGCTTTATCAAAAACGCCGCTAAAGACCTG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
45582178 AGCATTAGCGGCACTTTCTCAAAAACGCCGCTAAA
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
45582213 TCTCCGAAAG
Statistics
Matches: 254, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 254 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
Found at i:45582385 original size:40 final size:40
Alignment explanation
Indices: 45582270--45582385 Score: 128
Period size: 40 Copynumber: 3.0 Consensus size: 40
45582260 GCACTTTCTG
* *
45582270 AAAAA-CGCCACTAATGCT-TATATTTAGCGGCGTTTTCC
1 AAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGTTTTCC
** * ** *
45582308 ATGAAGCGCTACTAATGCTCAATCTTTAGTAGTGTTTTCC
1 AAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGTTTTCC
* *
45582348 AAAAAGTGCCGCTAATGCTCAATCTTTAGCGGCGTTTT
1 AAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGTTTT
45582386 TTATCCAAAC
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
38 3 0.05
39 12 0.20
40 45 0.75
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (40 bp):
AAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGTTTTCC
Found at i:45582409 original size:12 final size:12
Alignment explanation
Indices: 45582392--45582417 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45582382 TTTTTTATCC
45582392 AAACGCCGCTAA
1 AAACGCCGCTAA
45582404 AAACGCCGCTAA
1 AAACGCCGCTAA
45582416 AA
1 AA
45582418 GCCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:45591625 original size:22 final size:22
Alignment explanation
Indices: 45591585--45591627 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45591575 AGTTTTAGAT
* *
45591585 TTAGTTTTCTCTAGGTTTTCTC
1 TTAGTTTTCTATACGTTTTCTC
*
45591607 TTAGTTTTCTATACTTTTTCT
1 TTAGTTTTCTATACGTTTTCT
45591628 AGGGGATCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.09, T:0.63
Consensus pattern (22 bp):
TTAGTTTTCTATACGTTTTCTC
Found at i:45593981 original size:22 final size:22
Alignment explanation
Indices: 45593938--45593989 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
45593928 ATGTATACCT
*
45593938 TTTTAGAATTTTATAATTATATA
1 TTTTA-AATTTTATAATAATATA
45593961 TTTTAAATTTTTATAA-AATATA
1 TTTTAAA-TTTTATAATAATATA
45593983 TTTTAAA
1 TTTTAAA
45593990 AGAAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAATTTTATAATAATATA
Found at i:45594021 original size:10 final size:11
Alignment explanation
Indices: 45593995--45594020 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45593985 TTAAAAGAAA
45593995 TTTTTATAATT
1 TTTTTATAATT
45594006 TTTTTATAATT
1 TTTTTATAATT
45594017 TTTT
1 TTTT
45594021 ACATTTTTGT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:45594035 original size:21 final size:20
Alignment explanation
Indices: 45593993--45594036 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
45593983 TTTTAAAAGA
*
45593993 AATTTTTATAATTTTTTTAT
1 AATTTTTATAATTTTTTAAT
45594013 AATTTTT-TACATTTTTGTAAT
1 AATTTTTATA-ATTTTT-TAAT
45594034 AAT
1 AAT
45594037 ATTATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
AATTTTTATAATTTTTTAAT
Found at i:45594047 original size:21 final size:19
Alignment explanation
Indices: 45593997--45594047 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
45593987 AAAAGAAATT
*
45593997 TTTA-TAATTTTTTTATAA
1 TTTATTAATTTTTTAATAA
*
45594015 TTTTTTACATTTTTGTAATAA
1 TTTATTA-ATTTTT-TAATAA
45594036 TATTATTAATTT
1 T-TTATTAATTT
45594048 AAACTACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 6 0.23
21 10 0.38
22 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATTAATTTTTTAATAA
Found at i:45594130 original size:17 final size:18
Alignment explanation
Indices: 45594100--45594148 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
45594090 TTTTATTAAT
45594100 TTTTTTATAAATTATATG
1 TTTTTTATAAATTATATG
* *
45594118 TTTTTT-TAGATTATATA
1 TTTTTTATAAATTATATG
*
45594135 TATTTTTCTAAATT
1 T-TTTTTATAAATT
45594149 TTTGTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 11 0.42
19 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTTTATAAATTATATG
Found at i:45598374 original size:26 final size:28
Alignment explanation
Indices: 45598344--45598395 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
45598334 TTTCTATTTG
45598344 AAATTTT-AATAAAATA-TATATTTACT
1 AAATTTTAAATAAAATACTATATTTACT
45598370 AAATTTTAAATAAAATACTATATTTA
1 AAATTTTAAATAAAATACTATATTTA
45598396 AAATATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 7 0.29
27 9 0.38
28 8 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATTTTAAATAAAATACTATATTTACT
Found at i:45598399 original size:26 final size:24
Alignment explanation
Indices: 45598338--45598399 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 24
45598328 CGATTATTTC
*
45598338 TATTTGAAATTTTAATAAAATATA
1 TATTTAAAATTTTAATAAAATATA
45598362 TATTTACTAAATTTTAAATAAAATACTA
1 TATTTA--AAATTTT-AATAAAATA-TA
45598390 TATTTAAAAT
1 TATTTAAAAT
45598400 ATGAAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.15
26 11 0.33
27 9 0.27
28 8 0.24
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (24 bp):
TATTTAAAATTTTAATAAAATATA
Found at i:45602789 original size:23 final size:23
Alignment explanation
Indices: 45602757--45602801 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
45602747 CCGATTTGCT
* *
45602757 CCCTCCGTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTGTTCTG
*
45602780 CCCTCTGTTTATTTTCTGTTCT
1 CCCTCCGTTTATTTTCTGTTCT
45602802 TTTCTTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.31, G:0.09, T:0.58
Consensus pattern (23 bp):
CCCTCCGTTTATTTTCTGTTCTG
Found at i:45602833 original size:38 final size:37
Alignment explanation
Indices: 45602786--45602920 Score: 119
Period size: 38 Copynumber: 3.8 Consensus size: 37
45602776 TCTGCCCTCT
* * *
45602786 GTTTATTTTCTGTTCTTTTCTTCCAATTTGCTCCCTTC
1 GTTTCTTTTCTTTTCTTTTCTT-CGATTTGCTCCCTTC
45602824 GTTTCTTTTCTTTTC---T-TT---TTTG--CCC-TC
1 GTTTCTTTTCTTTTCTTTTCTTCGATTTGCTCCCTTC
*
45602851 TGTTTCTTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTT
1 -GTTTCTTTTCTTTTCTTTTCT-TCGATTTGCTCCCTTC
*
45602890 GTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
1 GTTTCTTTTCTTTTCTTTTCT-TCGATTTGC
45602921 CAGTTTCTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
27 2 0.02
28 18 0.22
30 4 0.05
31 1 0.01
32 1 0.01
33 1 0.01
34 2 0.02
35 1 0.01
36 4 0.05
38 46 0.57
39 1 0.01
ACGTcount: A:0.04, C:0.24, G:0.10, T:0.62
Consensus pattern (37 bp):
GTTTCTTTTCTTTTCTTTTCTTCGATTTGCTCCCTTC
Found at i:45602870 original size:66 final size:66
Alignment explanation
Indices: 45602764--45602913 Score: 239
Period size: 66 Copynumber: 2.3 Consensus size: 66
45602754 GCTCCCTCCG
45602764 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGT-CAATTTGCTCCCTTCGTTT
45602828 CT
65 CT
* * * * *
45602830 TTTCTTTTCTTTTTTGCCCTCTGTTTCTTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
45602895 T
66 T
45602896 TTTCTTTTCTTTTCTGCC
1 TTTCTTTTCTTTTCTGCC
45602914 GATTTGCCAG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 76 0.99
67 1 0.01
ACGTcount: A:0.03, C:0.26, G:0.08, T:0.63
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
T
Found at i:45603348 original size:37 final size:38
Alignment explanation
Indices: 45603257--45603375 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 38
45603247 GAAACAATTT
* *
45603257 TTGGATTAGGCTTAAGAATTGATGATTGTTTTTTGTTGA
1 TTGG-TTAGGCTTAAGAATTGATGACTGTTGTTTGTTGA
* * *
45603296 TAAGGTGCCTTGGCTTAAGAATTGATGACTGTTGTCTGTTG-
1 T-TGGT---TAGGCTTAAGAATTGATGACTGTTGTTTGTTGA
*
45603337 TTGGTTAGGCTTAAGAAATGCAT-ACTGTTGTTTGTTGA
1 TTGGTTAGGCTTAAGAATTG-ATGACTGTTGTTTGTTGA
45603375 T
1 T
45603376 AGTGTTGTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
37 26 0.40
38 3 0.05
39 2 0.03
40 5 0.08
41 1 0.02
42 28 0.43
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.44
Consensus pattern (38 bp):
TTGGTTAGGCTTAAGAATTGATGACTGTTGTTTGTTGA
Found at i:45604849 original size:21 final size:21
Alignment explanation
Indices: 45604825--45604872 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
45604815 CATCTTAAAG
45604825 GCTGCAGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
45604846 GCTGCGGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
45604867 ACTGCA
1 GCTGCA
45604873 AAGAAGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GCTGCAGAACAGTTTGTCATC
Found at i:45607294 original size:61 final size:60
Alignment explanation
Indices: 45607224--45607401 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
45607214 TTGTTAAATT
*
45607224 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
45607285 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
45607345 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
45607402 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:45607354 original size:26 final size:25
Alignment explanation
Indices: 45607316--45607374 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
45607306 ATTAAATTAT
*
45607316 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
45607342 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
45607368 ATATTAT
1 ATATTAT
45607375 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:45607373 original size:15 final size:15
Alignment explanation
Indices: 45607329--45607384 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
45607319 TTTTTGTTAA
*
45607329 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
45607344 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
45607355 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
45607370 ATTATATATTATAAT
1 ATTATATTTTATAAT
45607385 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:45607400 original size:24 final size:22
Alignment explanation
Indices: 45607355--45607422 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
45607345 ATTATTTTAA
45607355 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
45607377 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
45607396 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
45607418 ATTAT
1 ATTAT
45607423 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.28
22 13 0.36
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:45607419 original size:17 final size:17
Alignment explanation
Indices: 45607301--45607441 Score: 63
Period size: 17 Copynumber: 8.6 Consensus size: 17
45607291 AATACTAAGA
*
45607301 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
45607318 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
45607334 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
45607348 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
45607367 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
45607383 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
45607401 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
45607418 ATTATTAA-AAA--ATAT
1 ATT-TTAATAAATTATAT
45607433 A-TTTAATAA
1 ATTTTAATAA
45607442 TAATTATGTT
Statistics
Matches: 97, Mismatches: 11, Indels: 35
0.68 0.08 0.24
Matches are distributed among these distances:
13 6 0.06
14 9 0.09
15 13 0.13
16 12 0.12
17 26 0.27
18 25 0.26
19 2 0.02
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:45607690 original size:16 final size:16
Alignment explanation
Indices: 45607669--45607736 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
45607659 GATTTGCTAT
45607669 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
45607685 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
45607701 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45607717 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45607733 TACA
1 TACA
45607737 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45618464 original size:13 final size:13
Alignment explanation
Indices: 45618429--45618466 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
45618419 GAGATATTTG
45618429 TAATTTGAAAACT
1 TAATTTGAAAACT
45618442 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
45618456 TAATTTGAAAA
1 TAATTTGAAAA
45618467 TTTGGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:45618767 original size:35 final size:33
Alignment explanation
Indices: 45618724--45618897 Score: 208
Period size: 32 Copynumber: 5.2 Consensus size: 33
45618714 TCACTTGTCT
*
45618724 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCA-GCATTA
* *
45618758 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTTTCCTGTTCAGCATTA
*
45618791 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCA-GCATTA
* * *
45618825 TTTTGTTGCAGGGAATCTTTACTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCAGCATTA
* *
45618858 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCA-GCATTA
45618892 TTTCTT
1 TTTCTT
45618898 TTTGGACCTG
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
32 47 0.39
33 10 0.08
34 15 0.13
35 47 0.39
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCAGCATTA
Found at i:45618832 original size:67 final size:67
Alignment explanation
Indices: 45618724--45618894 Score: 288
Period size: 67 Copynumber: 2.6 Consensus size: 67
45618714 TCACTTGTCT
* * * *
45618724 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTACTGTTCACAT
45618789 CA
66 CA
45618791 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTACTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTACTGTTCACAT
45618856 CA
66 CA
* *
45618858 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
45618895 CTTTTTGGAC
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 98 1.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTACTGTTCACAT
CA
Found at i:45621725 original size:21 final size:22
Alignment explanation
Indices: 45621695--45621739 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
45621685 GAGCAAATTG
45621695 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
45621717 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
45621738 TT
1 TT
45621740 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:45626421 original size:35 final size:34
Alignment explanation
Indices: 45626382--45626650 Score: 334
Period size: 35 Copynumber: 8.0 Consensus size: 34
45626372 TTGTCTTTTC
* *
45626382 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT-TG
* * *
45626417 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
45626449 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
*
45626484 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * *
45626519 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
*
45626551 TTGCAGGGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* *
45626586 TTGCAGGGAATCTCTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
45626618 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
45626651 CTTTTTGGAC
Statistics
Matches: 207, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
32 74 0.36
33 13 0.06
34 13 0.06
35 107 0.52
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
Found at i:45626558 original size:102 final size:102
Alignment explanation
Indices: 45626377--45626640 Score: 426
Period size: 102 Copynumber: 2.6 Consensus size: 102
45626367 TTCACTTGTC
* * * * *
45626377 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
45626442 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
45626479 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
45626544 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
45626581 TTTTGTTGCAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
45626641 TGTATTATTT
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
99 25 0.16
100 6 0.04
102 122 0.80
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:45626648 original size:67 final size:68
Alignment explanation
Indices: 45626377--45626650 Score: 342
Period size: 67 Copynumber: 4.0 Consensus size: 68
45626367 TTCACTTGTC
* * * * *
45626377 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACG
*
45626440 CATCA
64 CATTA
* * *
45626445 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
45626509 CATTA
64 CATTA
* * *
45626514 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
45626578 TTA
66 TTA
* * *
45626581 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
45626645 TTA
66 TTA
45626648 TTT
1 TTT
45626651 CTTTTTGGAC
Statistics
Matches: 189, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
67 154 0.81
68 6 0.03
69 4 0.02
70 25 0.13
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
TTA
Found at i:45629481 original size:21 final size:22
Alignment explanation
Indices: 45629451--45629495 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
45629441 GAGCAAATTG
45629451 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
45629473 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
45629494 TT
1 TT
45629496 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:45636928 original size:44 final size:42
Alignment explanation
Indices: 45636874--45636970 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 42
45636864 AATTTGACAT
* * *
45636874 CGTGGAAGACCACGTCTGGGACATTGGCCTCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGAACATTGGCCTCGTATAT--GA-TTA
* *
45636918 CGTGTAAGACCATGTCTGGAACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCACGTCTGGAACATTGGCCTCGTATATGATTA
45636960 CGTGTAAGACC
1 CGTGTAAGACC
45636971 CTGTTTGGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 14 0.30
43 2 0.04
44 28 0.60
45 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGAACATTGGCCTCGTATATGATTA
Found at i:45637835 original size:22 final size:22
Alignment explanation
Indices: 45637809--45638017 Score: 260
Period size: 22 Copynumber: 9.5 Consensus size: 22
45637799 GTAAAATTTA
* *
45637809 TTGATTAAAT-TCTGTCCAAATA
1 TTGATTAAATGT-TGTCCAATTG
* *
45637831 TTGATTGAATGTTGTCTAATTG
1 TTGATTAAATGTTGTCCAATTG
*
45637853 TTGATTAAATGTTGTCCAAATG
1 TTGATTAAATGTTGTCCAATTG
*
45637875 TTGATTTAATGTTGTCCAATTG
1 TTGATTAAATGTTGTCCAATTG
* *
45637897 TTGATTAAATGTTGTTCAAATG
1 TTGATTAAATGTTGTCCAATTG
* *
45637919 TTGAATT-AATGCTGTCGAATTG
1 TTG-ATTAAATGTTGTCCAATTG
*
45637941 TTGATTAAATGCTGTCCAATTG
1 TTGATTAAATGTTGTCCAATTG
* *
45637963 TTGATTAAATGCTGTCCAAATG
1 TTGATTAAATGTTGTCCAATTG
*
45637985 TTGATTTAATGTTGTCCAATTG
1 TTGATTAAATGTTGTCCAATTG
45638007 TTGATTAAATG
1 TTGATTAAATG
45638018 ATGTTGATTG
Statistics
Matches: 162, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
21 3 0.02
22 155 0.96
23 4 0.02
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (22 bp):
TTGATTAAATGTTGTCCAATTG
Found at i:45637858 original size:44 final size:44
Alignment explanation
Indices: 45637809--45638089 Score: 285
Period size: 44 Copynumber: 6.6 Consensus size: 44
45637799 GTAAAATTTA
* * * *
45637809 TTGATTAAAT-TCTGTCCAAATATTGATTGAATGTTGTCTAATTG
1 TTGATTAAATGT-TGTCCAAATGTTGATTAAATGCTGTCCAATTG
* *
45637853 TTGATTAAATGTTGTCCAAATGTTGATTTAATGTTGTCCAATTG
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGCTGTCCAATTG
* *
45637897 TTGATTAAATGTTGTTCAAATGTTGAATT-AATGCTGTCGAATTG
1 TTGATTAAATGTTGTCCAAATGTTG-ATTAAATGCTGTCCAATTG
* * *
45637941 TTGATTAAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATG
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGCTGTCCAATTG
* *
45637985 TTGATTTAATGTTGTCCAATTGTTGATTAAA---TG----A-TG
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGCTGTCCAATTG
* * * * *
45638021 TTGATTGATTGTTGTCCAATTGTTGATTAAATGTTGTCCAAATG
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGCTGTCCAATTG
* **
45638065 TTAATTAAATGTTGTCTGAATGTTG
1 TTGATTAAATGTTGTCCAAATGTTG
45638090 GATAATTGCT
Statistics
Matches: 205, Mismatches: 21, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
36 31 0.15
37 1 0.00
39 2 0.01
41 2 0.01
43 4 0.02
44 161 0.79
45 4 0.02
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (44 bp):
TTGATTAAATGTTGTCCAAATGTTGATTAAATGCTGTCCAATTG
Found at i:45637891 original size:66 final size:66
Alignment explanation
Indices: 45637809--45638089 Score: 285
Period size: 66 Copynumber: 4.4 Consensus size: 66
45637799 GTAAAATTTA
* * * *
45637809 TTGATTAAAT-TCTGTCCAAATATTGATTGAATGTTGTCTAATTGTTGATTAAATGTTGTCCAAA
1 TTGATTAAATGT-TGTCCAAATGTTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAA
45637873 TG
65 TG
* * * * * *
45637875 TTGATTTAATGTTGTCCAATTGTTGATTAAATGTTGTTCAAATGTTGAATT-AATGCTGTCGAAT
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTG-ATTAAATGTTGTCCAAA
45637939 TG
65 TG
* * * * *
45637941 TTGATTAAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGTTGTCCAATT
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAAT
45638006 G
66 G
* * *
45638007 TTGATTAAA---TG-----ATGTTGATTGATTGTTGTCCAATTGTTGATTAAATGTTGTCCAAAT
1 TTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAAT
45638064 G
66 G
* **
45638065 TTAATTAAATGTTGTCTGAATGTTG
1 TTGATTAAATGTTGTCCAAATGTTG
45638090 GATAATTGCT
Statistics
Matches: 180, Mismatches: 24, Indels: 22
0.80 0.11 0.10
Matches are distributed among these distances:
58 48 0.27
61 2 0.01
63 2 0.01
65 3 0.02
66 121 0.67
67 4 0.02
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (66 bp):
TTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAAT
G
Found at i:45638034 original size:36 final size:36
Alignment explanation
Indices: 45637982--45638053 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
45637972 TGCTGTCCAA
*
45637982 ATGTTGATTTAATGTTGTCCAATTGTTGATTAAATG
1 ATGTTGATTGAATGTTGTCCAATTGTTGATTAAATG
*
45638018 ATGTTGATTGATTGTTGTCCAATTGTTGATTAAATG
1 ATGTTGATTGAATGTTGTCCAATTGTTGATTAAATG
45638054 TTGTCCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (36 bp):
ATGTTGATTGAATGTTGTCCAATTGTTGATTAAATG
Found at i:45638037 original size:58 final size:58
Alignment explanation
Indices: 45637961--45638075 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
45637951 GCTGTCCAAT
* * *
45637961 TGTTGATTAAATGCTGTCCAAATGTTGATTTAATGTTGTCCAATTGTTGATTAAATGA
1 TGTTGATTAAATGCTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTAATTAAATGA
* * * *
45638019 TGTTGATTGATTGTTGTCCAATTGTTGATTAAATGTTGTCCAAATGTTAATTAAATG
1 TGTTGATTAAATGCTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTAATTAAATG
45638076 TTGTCTGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (58 bp):
TGTTGATTAAATGCTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTAATTAAATGA
Found at i:45638047 original size:22 final size:22
Alignment explanation
Indices: 45638018--45638089 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
45638008 TGATTAAATG
* *
45638018 ATGTTGATTGATTGTTGTCCAA
1 ATGTTGATTAAATGTTGTCCAA
*
45638040 TTGTTGATTAAATGTTGTCCAA
1 ATGTTGATTAAATGTTGTCCAA
* **
45638062 ATGTTAATTAAATGTTGTCTGA
1 ATGTTGATTAAATGTTGTCCAA
45638084 ATGTTG
1 ATGTTG
45638090 GATAATTGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (22 bp):
ATGTTGATTAAATGTTGTCCAA
Found at i:45644185 original size:42 final size:43
Alignment explanation
Indices: 45644127--45644236 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
45644117 GATTCGAGAT
* * *
45644127 TTACATGTAAGACCATGTCTGGGACATTGGCGTC-GTATATGA
1 TTACATGTAAAACCATGTCTGGGACAGTGGCATCAGTATATGA
* * * *
45644169 TTGCATGTAAAACCATGTCTGGGACAGTGGTATCATTATTTGA
1 TTACATGTAAAACCATGTCTGGGACAGTGGCATCAGTATATGA
45644212 TTACATG-AAAGACCATGTCTGGGAC
1 TTACATGTAAA-ACCATGTCTGGGAC
45644237 GTTGACATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 32 0.55
43 26 0.45
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACATGTAAAACCATGTCTGGGACAGTGGCATCAGTATATGA
Found at i:45645059 original size:22 final size:22
Alignment explanation
Indices: 45645025--45645359 Score: 343
Period size: 22 Copynumber: 15.2 Consensus size: 22
45645015 AAGTAAAAAT
*
45645025 TGTTGATTAAATGCTGTCTAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
45645047 TATTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
45645069 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
45645091 TGTTGATTTAATG-TCGTCGAAT
1 TGTTGATTAAATGCT-GTCCAAA
*
45645113 TGTTGATTAAATGCTATCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
45645135 TATTGATTGAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
* * *
45645157 TGTTAATTAAATGCTGTTCAGA
1 TGTTGATTAAATGCTGTCCAAA
* *
45645179 TGTTGAATT-AATACTGTCCAAT
1 TGTTG-ATTAAATGCTGTCCAAA
* *
45645201 TGTTGATTAAATGTTGTTCAAA
1 TGTTGATTAAATGCTGTCCAAA
* *
45645223 TGTTGAATT-AATGCTGTCGAAT
1 TGTTG-ATTAAATGCTGTCCAAA
*
45645245 TGTTGATTAAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
45645267 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
45645289 TGTTGATTTAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
45645311 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* **
45645333 TGTTAATTAAATGCTGTCTGAA
1 TGTTGATTAAATGCTGTCCAAA
45645355 TGTTG
1 TGTTG
45645360 GATAATTGCT
Statistics
Matches: 257, Mismatches: 50, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
21 7 0.03
22 243 0.95
23 7 0.03
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (22 bp):
TGTTGATTAAATGCTGTCCAAA
Found at i:45645073 original size:44 final size:43
Alignment explanation
Indices: 45645022--45645359 Score: 379
Period size: 44 Copynumber: 7.7 Consensus size: 43
45645012 TTGAAGTAAA
* *
45645022 AATTGTTGATTAAATGCTGTCTAAATATTGATTGAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATT-AATGTTGTCC
* * *
45645066 AATTGTTGATTAAATGTTGTCCAAATGTTGATTTAATGTCGTCG
1 AATTGTTGATTAAATGCTGTCCAAATGTTGA-TTAATGTTGTCC
* * *
45645110 AATTGTTGATTAAATGCTATCCAAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATT-AATGTTGTCC
* * * **
45645154 AATTGTTAATTAAATGCTGTTCAGATGTTGAATTAATACTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTG-ATTAATGTTGTCC
* * * *
45645198 AATTGTTGATTAAATGTTGTTCAAATGTTGAATTAATGCTGTCG
1 AATTGTTGATTAAATGCTGTCCAAATGTTG-ATTAATGTTGTCC
*
45645242 AATTGTTGATTAAATGCTGTCCAATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATT-AATGTTGTCC
* * * *
45645286 AAATGTTGATTTAATGTTGTCCAATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATT-AATGTTGTCC
* * **
45645330 AAATGTTAATTAAATGCTGTCTGAATGTTG
1 AATTGTTGATTAAATGCTGTCCAAATGTTG
45645360 GATAATTGCT
Statistics
Matches: 254, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
43 5 0.02
44 244 0.96
45 5 0.02
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (43 bp):
AATTGTTGATTAAATGCTGTCCAAATGTTGATTAATGTTGTCC
Found at i:45651547 original size:19 final size:21
Alignment explanation
Indices: 45651523--45651570 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
45651513 TAAATTTTAG
45651523 AATTTTTGTAAA-TATTTT-T
1 AATTTTTGTAAATTATTTTGT
**
45651542 AA-TTTTAAAAATTATTTTGT
1 AATTTTTGTAAATTATTTTGT
45651562 AATTTTTGT
1 AATTTTTGT
45651571 TAAAAGAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
20 3 0.14
21 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
AATTTTTGTAAATTATTTTGT
Found at i:45654040 original size:30 final size:28
Alignment explanation
Indices: 45653997--45654053 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
45653987 AGACAAAATA
*
45653997 ATATATATATATG-TAATTATACTTTTAG
1 ATATATATATATGTTAAATATA-TTTTAG
45654025 ATATATATCATTATGTTAAATATATTTTA
1 ATATATAT-A-TATGTTAAATATATTTTA
45654054 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 9 0.36
31 7 0.28
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (28 bp):
ATATATATATATGTTAAATATATTTTAG
Found at i:45655741 original size:22 final size:23
Alignment explanation
Indices: 45655704--45655747 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
45655694 CTCCTTTTAT
45655704 AATTTATAATATAAAT-ATATAC
1 AATTTATAATATAAATGATATAC
45655726 AATTTATAA-ATAAAATGATATA
1 AATTTATAATAT-AAATGATATA
45655748 GATCTATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 13 0.65
23 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTTATAATATAAATGATATAC
Found at i:45656170 original size:10 final size:9
Alignment explanation
Indices: 45656149--45656203 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
45656139 TAAAAATTAG
45656149 AATTTT-AA
1 AATTTTAAA
45656157 AATTTTCAAA
1 AATTTT-AAA
*
45656167 AATTATAAA
1 AATTTTAAA
*
45656176 AA-TTTAGA
1 AATTTTAAA
*
45656184 ATTTTTAAA
1 AATTTTAAA
*
45656193 AATTATAAA
1 AATTTTAAA
45656202 AA
1 AA
45656204 AAATTAGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
8 11 0.30
9 19 0.51
10 7 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (9 bp):
AATTTTAAA
Found at i:45656213 original size:28 final size:28
Alignment explanation
Indices: 45656157--45656230 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
45656147 AGAATTTTAA
* *
45656157 AATTTTCAAAAATTAT--AAAAATTTAG
1 AATTTTTAAAAATTATAAAAAAAATTAG
45656183 AATTTTTAAAAATTATAAAAAAAATTAG
1 AATTTTTAAAAATTATAAAAAAAATTAG
45656211 AATTTTTAAAAATTATAAAA
1 AATTTTTAAAAATTATAAAA
45656231 TGCCAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.34
28 29 0.66
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (28 bp):
AATTTTTAAAAATTATAAAAAAAATTAG
Found at i:45656322 original size:19 final size:20
Alignment explanation
Indices: 45656242--45656324 Score: 73
Period size: 19 Copynumber: 4.2 Consensus size: 20
45656232 GCCAAAAATC
* **
45656242 AAAATAT-TAAAATTTATTA
1 AAAATATATAAAATTGAAAA
45656261 AAAATAGTATAAAATTGAAAA
1 AAAATA-TATAAAATTGAAAA
* * *
45656282 TAGAATATAAAAAATT-ACAA
1 -AAAATATATAAAATTGAAAA
45656302 AAAAT-TATAAAATTGAAAA
1 AAAATATATAAAATTGAAAA
45656321 AAAA
1 AAAA
45656325 AAGTAAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 8 0.16
19 17 0.33
20 4 0.08
21 17 0.33
22 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAATATATAAAATTGAAAA
Found at i:45656332 original size:39 final size:38
Alignment explanation
Indices: 45656268--45656352 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
45656258 TTAAAAATAG
* *
45656268 TATAAAATTGAAAATAGAATATAAAAAATTACAAAAAAT
1 TATAAAATTGAAAATAAAAAATAAAAAA-TACAAAAAAT
* *
45656307 TATAAAATTGAAAA-AAAAAAGTAAAAAATATATAAAAT
1 TATAAAATTGAAAATAAAAAA-TAAAAAATACAAAAAAT
45656345 TATGAAAA
1 TAT-AAAA
45656353 AAATAGTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 15 0.38
39 25 0.62
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (38 bp):
TATAAAATTGAAAATAAAAAATAAAAAATACAAAAAAT
Found at i:45656334 original size:30 final size:33
Alignment explanation
Indices: 45656290--45656355 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
45656280 AATAGAATAT
*
45656290 AAAAAATTACAAAAAAT-TATAAAA-T-TGAAAA
1 AAAAAAGT-CAAAAAATATATAAAATTATGAAAA
45656321 AAAAAAGT-AAAAAATATATAAAATTATGAAAA
1 AAAAAAGTCAAAAAATATATAAAATTATGAAAA
45656353 AAA
1 AAA
45656356 TAGTTTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 8 0.26
32 9 0.29
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (33 bp):
AAAAAAGTCAAAAAATATATAAAATTATGAAAA
Found at i:45656545 original size:9 final size:9
Alignment explanation
Indices: 45656528--45656564 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45656518 TGAGTTTTCG
45656528 AATTCGAAT
1 AATTCGAAT
*
45656537 AACTCGAAT
1 AATTCGAAT
45656546 AATTCGAAT
1 AATTCGAAT
45656555 AATTCGAAT
1 AATTCGAAT
45656564 A
1 A
45656565 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45656782 original size:30 final size:31
Alignment explanation
Indices: 45656748--45656807 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
45656738 AAACCTTTTA
*
45656748 TTTTCCCCCAAAATTTTTACTCTC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
* *
45656778 TTTTCCCCTAAAACTTTTATTCTCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCA
45656808 TCCTACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
Found at i:45662935 original size:49 final size:49
Alignment explanation
Indices: 45662857--45662953 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
45662847 TTATGCTATG
* *
45662857 CATTTCTAAACTTGGTCTTCCACTATCTACACTCTTACCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTACCACTATTTATA
* * *
45662906 CATTGCTAAACTTAGTCTTCCACTGTCTACAGTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTACCACTATTTAT
45662954 CCCTTCTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.41
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTATCTACACTCTTACCACTATTTATA
Found at i:45664259 original size:16 final size:16
Alignment explanation
Indices: 45664238--45664302 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
45664228 ATCTCATAGT
45664238 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
*
45664254 CATTTC-AATATTTTC
1 CATTTCTCATATTTTC
45664269 TCA--TCTCATA--TT-
1 -CATTTCTCATATTTTC
* *
45664281 CATTTCTCATCTTTTT
1 CATTTCTCATATTTTC
45664297 CATTTC
1 CATTTC
45664303 AATATCAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
14 2 0.05
15 13 0.33
16 14 0.36
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:45664279 original size:15 final size:14
Alignment explanation
Indices: 45664242--45664280 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
45664232 CATAGTCATT
45664242 TCTCATATTTTCCA
1 TCTCATATTTTCCA
*
45664256 TTTCAATATTTTCTCA
1 TCTC-ATATTTTC-CA
45664272 TCTCATATT
1 TCTCATATT
45664281 CATTTCTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCATATTTTCCA
Found at i:45664284 original size:43 final size:43
Alignment explanation
Indices: 45664222--45664307 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
45664212 TCATATCTCA
45664222 TTTCTCATCTCATAGTCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAGTCATTTCTCATATTTTCCATTTCAATAT
* * *
45664265 TTTCTCATCTCATATTCATTTCTCATCTTTTTCATTTCAATAT
1 TTTCTCATCTCATAGTCATTTCTCATATTTTCCATTTCAATAT
45664308 CAATCGCATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.23, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAGTCATTTCTCATATTTTCCATTTCAATAT
Found at i:45665438 original size:3 final size:3
Alignment explanation
Indices: 45665430--45665463 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
45665420 TTTAATGCAC
*
45665430 TAT TAT TAT TAT TGT TAT TAT TAT TAT TACT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
45665464 ATTCATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:45666095 original size:9 final size:9
Alignment explanation
Indices: 45666081--45666143 Score: 65
Period size: 9 Copynumber: 6.8 Consensus size: 9
45666071 ACAAAAGATG
45666081 ATAAAAATT
1 ATAAAAATT
45666090 ATAAAAAATT
1 AT-AAAAATT
*
45666100 ATAAAAATC
1 ATAAAAATT
*
45666109 GTAAAAATAT
1 ATAAAAAT-T
45666119 ATAAAAA-T
1 ATAAAAATT
*
45666127 ATAAAAAAT
1 ATAAAAATT
45666136 ATAGAAAA
1 ATA-AAAA
45666144 AAATTATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
8 8 0.17
9 19 0.41
10 19 0.41
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (9 bp):
ATAAAAATT
Found at i:45666103 original size:19 final size:20
Alignment explanation
Indices: 45666081--45666144 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 20
45666071 ACAAAAGATG
45666081 ATAAAAATTATAAAAAAT-T
1 ATAAAAATTATAAAAAATAT
**
45666100 ATAAAAATCGT-AAAAATAT
1 ATAAAAATTATAAAAAATAT
45666119 ATAAAAA-TATAAAAAATAT
1 ATAAAAATTATAAAAAATAT
*
45666138 AGAAAAA
1 ATAAAAA
45666145 AATTATATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 7 0.18
19 31 0.82
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (20 bp):
ATAAAAATTATAAAAAATAT
Found at i:45666490 original size:28 final size:29
Alignment explanation
Indices: 45666428--45666491 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
45666418 ATTTTTATGG
45666428 TTTTTATAATTTTTGATAAATATTAAATA
1 TTTTTATAATTTTTGATAAATATTAAATA
* *
45666457 TCTTTAT-ATTTTT-ATTAAA-ATTTAATAA
1 TTTTTATAATTTTTGA-TAAATATTAAAT-A
45666485 TTTTTAT
1 TTTTTAT
45666492 TGATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 7 0.23
28 17 0.57
29 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTATAATTTTTGATAAATATTAAATA
Found at i:45666691 original size:87 final size:86
Alignment explanation
Indices: 45666594--45666777 Score: 194
Period size: 87 Copynumber: 2.1 Consensus size: 86
45666584 TAAAGGTCAA
* ** * *
45666594 AGGGTCTTTTTGATACATTTTGACGGTTAAAGTACC-CAATTGAGTACAAAAATAAA-AGGGGCT
1 AGGGT-TTTTTGATACATTTTAAAAGTTAAAGTACCTC-ATCGAGTACAAAAA-AAATAGAGGCT
* *
45666657 TAATTGTTTTTTTGAAAAAA-TTTG
63 TAATTGCTCTTTT-AAAAAAGTTTG
* * * **
45666681 AGGGCTTTTTTTATATATTTTAAAAGTTCAAGTACCTCATCGAGTGGAAAAAAAATAGAGGCTTA
1 AGGG-TTTTTTGATACATTTTAAAAGTTAAAGTACCTCATCGAGTACAAAAAAAATAGAGGCTTA
45666746 ATTGCTCTTTTAAAAAAGTTTG
65 ATTGCTCTTTTAAAAAAGTTTG
45666768 AGGGTTTTTT
1 AGGGTTTTTT
45666778 ACACCCTTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
86 15 0.19
87 64 0.79
88 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (86 bp):
AGGGTTTTTTGATACATTTTAAAAGTTAAAGTACCTCATCGAGTACAAAAAAAATAGAGGCTTAA
TTGCTCTTTTAAAAAAGTTTG
Found at i:45667189 original size:19 final size:19
Alignment explanation
Indices: 45667165--45667202 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45667155 ATCCAAGATG
45667165 TTTTACAGTACATTTCTAC
1 TTTTACAGTACATTTCTAC
45667184 TTTTACAGTACATTTCTAC
1 TTTTACAGTACATTTCTAC
45667203 GTAGATCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (19 bp):
TTTTACAGTACATTTCTAC
Found at i:45669165 original size:9 final size:9
Alignment explanation
Indices: 45669153--45669218 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
45669143 ATTTTAGAAA
45669153 TTTTTTAA-
1 TTTTTTAAT
45669161 TTTTTTAACT
1 TTTTTTAA-T
*
45669171 TTCTTTATAT
1 TTTTTTA-AT
45669181 GTTTTTTAGAT
1 -TTTTTTA-AT
45669192 TTTTTTGAAT
1 TTTTTT-AAT
*
45669202 TTTTATAAT
1 TTTTTTAAT
45669211 TTTTTTAA
1 TTTTTTAA
45669219 AATATAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 8 0.17
9 10 0.21
10 20 0.42
11 10 0.21
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:45670185 original size:20 final size:20
Alignment explanation
Indices: 45670162--45670203 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45670152 ATTTTCAATA
*
45670162 TTTCAAT-TTTGTTTTGTGTT
1 TTTCAATATTT-TTTTGTATT
45670182 TTTCAATATTTTTTTGTATT
1 TTTCAATATTTTTTTGTATT
45670202 TT
1 TT
45670204 AAAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.14, C:0.05, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTCAATATTTTTTTGTATT
Found at i:45670231 original size:23 final size:21
Alignment explanation
Indices: 45670186--45670233 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 21
45670176 TGTGTTTTTC
45670186 AATATTTTTTTGTATTTTAAA
1 AATATTTTTTTGTATTTTAAA
*
45670207 AATATTTTTAATTGATATTTAAAA
1 AATATTTTT--TTG-TATTTTAAA
45670231 AAT
1 AAT
45670234 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
23 3 0.13
24 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
AATATTTTTTTGTATTTTAAA
Found at i:45672688 original size:15 final size:15
Alignment explanation
Indices: 45672677--45672711 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45672667 ATGATAATGG
*
45672677 TAATATTAATAATAA
1 TAATATGAATAATAA
45672692 TAATATGAATAATAAA
1 TAATATGAATAAT-AA
45672708 TAAT
1 TAAT
45672712 CTAGAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
TAATATGAATAATAA
Found at i:45674441 original size:44 final size:44
Alignment explanation
Indices: 45674393--45674518 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 44
45674383 GGTTCATCGT
*
45674393 TTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAATAGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAGGATTAATAGC
* ** * * ** *
45674437 TTTAATATGCTCTGCTGCAACTT-TAGGTAGATAGGTTTTGTGGC
1 TTTAATCTGCTCCACTGCAACTTCAAGG-AGATAGGATTAATAGC
* * *
45674481 TTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAGGATT
45674519 GGGTTATTTT
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
43 3 0.05
44 58 0.92
45 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAAGGAGATAGGATTAATAGC
Found at i:45674703 original size:137 final size:137
Alignment explanation
Indices: 45674534--45674878 Score: 419
Period size: 137 Copynumber: 2.5 Consensus size: 137
45674524 ATTTTTTACT
* *
45674534 TGCTCCACTGCAACTTCAGGGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTTAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAAGTTTGATATGATCTGCTCCACTGCAACTTCAGAGAGA
** * * * * * *
45674599 TAGGATCCGTAATTTATAGCTTTAATCTGTT-TCATTGCAACTTTAGGGAAATAAGATTCGCTAT
66 TAAAATCCGCAATTTATAGCTTCAACCTGTTCT-ACTGCAACTTCAGGGAAATAAAATTCGCTAT
45674663 -TTTCAGTC
130 CTTT-AGTC
* *
45674671 TGCTCCACTACAACTTCAGGGAGA-AAAGGTTTGCTATGATCTGCTCCACTGCAACTTCAGAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAA-GTTTGATATGATCTGCTCCACTGCAACTTCAGAGAG
* *
45674735 ATAAAATCTGCAATTTATAGCTTCAACCTGTTCTACTGCAACTTCAGGGAAATAAAATTTGCTAT
65 ATAAAATCCGCAATTTATAGCTTCAACCTGTTCTACTGCAACTTCAGGGAAATAAAATTCGCTAT
45674800 CTTTAGTC
130 CTTTAGTC
* * * * * *
45674808 TGCTCCATTGCAACTTTAGGGAGATAAGAG-TTGTATCTTCAACCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAA-AGTTTG-AT-AT-GATCTGCTCCACTGCAACTTCAGA
45674872 GAGATAA
62 GAGATAA
45674879 GGTTTGCTAT
Statistics
Matches: 178, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
136 3 0.02
137 137 0.77
138 8 0.04
139 2 0.01
140 28 0.16
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (137 bp):
TGCTCCACTGCAACTTCAGGGAGATAAAGTTTGATATGATCTGCTCCACTGCAACTTCAGAGAGA
TAAAATCCGCAATTTATAGCTTCAACCTGTTCTACTGCAACTTCAGGGAAATAAAATTCGCTATC
TTTAGTC
Found at i:45674864 original size:44 final size:45
Alignment explanation
Indices: 45674634--45674920 Score: 173
Period size: 45 Copynumber: 6.3 Consensus size: 45
45674624 TCTGTTTCAT
* * * **
45674634 TGCAACTTTAGGGAAATAAGA-TTCGCTATTTTCAGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGAGTT-GCTATCTTCAACCTGCTCCAC
* * * *
45674679 TACAACTTCAGGGAGAAAAG-GTTTGCTA---T-GATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGAG-TTGCTATCTTCAACCTGCTCCAC
* * * *
45674720 TGCAACTTCAGAGAGATAA-AATCTGCAATTTATAGCTTCAACCTGTTCTAC
1 TGCAACTTCAGGGAGATAAGAGT-TGC----TAT--CTTCAACCTGCTCCAC
* * * * ** *
45674771 TGCAACTTCAGGGAAATAAAATTTGCTATCTTTAGTCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGAGTTGCTATCTTCAACCTGCTCCAC
*
45674816 TGCAACTTTAGGGAGATAAGAGTTG-TATCTTCAACCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGAGTTGCTATCTTCAACCTGCTCCAC
45674860 TGCAACTTCAGGGAGATAAG-GTTTGCTATGATCTTCAATCCAT-C-CCAC
1 TGCAACTTCAGGGAGATAAGAG-TTGC--T-ATCTTCAA-CC-TGCTCCAC
45674908 TGCAACTTCAGGG
1 TGCAACTTCAGGG
45674921 GTATAGGATT
Statistics
Matches: 188, Mismatches: 32, Indels: 41
0.72 0.12 0.16
Matches are distributed among these distances:
40 1 0.01
41 29 0.15
42 1 0.01
43 1 0.01
44 37 0.20
45 53 0.28
46 2 0.01
47 4 0.02
48 25 0.13
49 3 0.02
50 2 0.01
51 28 0.15
52 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGAGTTGCTATCTTCAACCTGCTCCAC
Found at i:45674896 original size:137 final size:136
Alignment explanation
Indices: 45674534--45674920 Score: 327
Period size: 137 Copynumber: 2.8 Consensus size: 136
45674524 ATTTTTTACT
* * * * * *
45674534 TGCTCCACTGCAACTTCAGGGAGATAAA-GTTTGATATGATCTGCTCTACTGCAACTTTAGAGAG
1 TGCTCCACTACAACTTCAGGGAGA-AAAGGTTTGCTATAACCTGCTCCACTGCAACTTCAGAGAG
** * * * * ** ** * * *
45674598 ATAGGATCCGTAATTTATAGCTTTAATCTGTTTCATTGCAACTTTAGGGAAATAAGATTCGCTAT
65 ATAAAATCTGCAATTGATA-CTTCAATCCATCCCACTGCAACTTCAGGGAAATAAAATTCGCTAT
45674663 TTTCAGTC
129 TTTCAGTC
* *
45674671 TGCTCCACTACAACTTCAGGGAGAAAAGGTTTGCTATGATCTGCTCCACTGCAACTTCAGAGAGA
1 TGCTCCACTACAACTTCAGGGAGAAAAGGTTTGCTATAACCTGCTCCACTGCAACTTCAGAGAGA
* * * * *
45674736 TAAAATCTGCAATTTATAGCTTCAA-CCTGTTCTACTGCAACTTCAGGGAAATAAAATTTGCTAT
66 TAAAATCTGCAATTGATA-CTTCAATCC-ATCCCACTGCAACTTCAGGGAAATAAAATTCGCTAT
45674800 CTTT-AGTC
129 -TTTCAGTC
* * * * * *
45674808 TGCTCCATTGCAACTTTAGGGAGATAAGAGTTGTATCT-TCAACCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTACAACTTCAGGGAGAAAAG-GTT-T-GCTAT-AACCTGCTCCACTGCAACTTCAGA
** * *
45674872 GAGATAAGGTTTGCTA-TGAT-CTTCAATCCATCCCACTGCAACTTCAGGG
62 GAGATAAAATCTGCAATTGATACTTCAATCCATCCCACTGCAACTTCAGGG
45674921 GTATAGGATT
Statistics
Matches: 210, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
136 4 0.02
137 158 0.75
138 8 0.04
139 5 0.02
140 35 0.17
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (136 bp):
TGCTCCACTACAACTTCAGGGAGAAAAGGTTTGCTATAACCTGCTCCACTGCAACTTCAGAGAGA
TAAAATCTGCAATTGATACTTCAATCCATCCCACTGCAACTTCAGGGAAATAAAATTCGCTATTT
TCAGTC
Found at i:45675789 original size:13 final size:12
Alignment explanation
Indices: 45675767--45675796 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
45675757 CACCTTGGCC
45675767 TTTTTTTTTTCT
1 TTTTTTTTTTCT
45675779 TTTTTTCTTTTCT
1 TTTTTT-TTTTCT
45675792 TTTTT
1 TTTTT
45675797 CTTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:45675794 original size:20 final size:20
Alignment explanation
Indices: 45675766--45675805 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
45675756 TCACCTTGGC
45675766 CTTTTTTTTTTCTT-TTTTT
1 CTTTTTTTTTTCTTCTTTTT
45675785 CTTTTCTTTTTTCTTCTTTTT
1 CTTTT-TTTTTTCTTCTTTTT
45675806 TATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
CTTTTTTTTTTCTTCTTTTT
Found at i:45675806 original size:12 final size:12
Alignment explanation
Indices: 45675766--45675806 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
45675756 TCACCTTGGC
45675766 CTTTTTTTT-TT
1 CTTTTTTTTCTT
45675777 C-TTTTTTTCTT
1 CTTTTTTTTCTT
45675788 -TTCTTTTTTCTT
1 CTT-TTTTTTCTT
45675800 CTTTTTT
1 CTTTTTT
45675807 ATGAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.27
11 4 0.15
12 13 0.50
13 2 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:45679388 original size:42 final size:42
Alignment explanation
Indices: 45679340--45679439 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
45679330 GCTTTCGGTA
* *
45679340 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATCCAACATCATCATTTTAATT
* *
45679382 TCGCACACTTAGTGCCTATTATCCAACATCATTATTTTAATT
1 TCGCACACTTAGTGCCCATTATCCAACATCATCATTTTAATT
*
45679424 TTGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
45679440 GTTCATATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATCCAACATCATCATTTTAATT
Found at i:45684100 original size:18 final size:18
Alignment explanation
Indices: 45684079--45684116 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45684069 TAGAGTTTGA
*
45684079 AAATATATAAAAAGATAT
1 AAATAGATAAAAAGATAT
*
45684097 AAATAGATAAAACGATAT
1 AAATAGATAAAAAGATAT
45684115 AA
1 AA
45684117 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAGATAAAAAGATAT
Found at i:45684124 original size:18 final size:18
Alignment explanation
Indices: 45684079--45684125 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
45684069 TAGAGTTTGA
*
45684079 AAATATATAAAAAGATAT
1 AAATAAATAAAAAGATAT
* *
45684097 AAATAGATAAAACGATAT
1 AAATAAATAAAAAGATAT
45684115 -AATAAAATAAA
1 AAAT-AAATAAA
45684126 TGCATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAAGATAT
Found at i:45688591 original size:44 final size:43
Alignment explanation
Indices: 45688488--45688617 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 43
45688478 GACGAGGTTT
* *
45688488 TGGTTTTTG-TTTGCTCCACTAT-AACTTCAGGGAGATAGGAT-
1 TGGTTTCTGATTTGCTCCACT-TCAACTTCAGGGAGATAAGATC
* *
45688529 TGGTTTCTTATGTCTGCTCCACTTCAACTTCAGAGAGATAAGATC
1 TGGTTTCTGAT-T-TGCTCCACTTCAACTTCAGGGAGATAAGATC
* **
45688574 TGTGCTTTC-GATTTGCTCCACTACTGCTT-AGGGAGATAAGATC
1 TG-G-TTTCTGATTTGCTCCACTTCAACTTCAGGGAGATAAGATC
45688617 T
1 T
45688618 ACAATTTTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
41 7 0.10
42 1 0.01
43 16 0.22
44 39 0.53
45 3 0.04
46 3 0.04
47 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TGGTTTCTGATTTGCTCCACTTCAACTTCAGGGAGATAAGATC
Found at i:45688698 original size:43 final size:43
Alignment explanation
Indices: 45688651--45688787 Score: 105
Period size: 43 Copynumber: 3.2 Consensus size: 43
45688641 TTGCTCAGGG
45688651 AGATAAGGTTGGTGCTTTCGATCTGCTCCACTTCTGTTTAGGT
1 AGATAAGGTTGGTGCTTTCGATCTGCTCCACTTCTGTTTAGGT
* **** * * * * * * *
45688694 AGATAAGATCTACAACCTTCGACCTACTCCGCTGT-TGCTCAAGT
1 AGATAAGGT-TGGTGCTTTCGATCTGCTCCACT-TCTGTTTAGGT
* * * *
45688738 AGCTAAGGCTGGTGCTTTCGATCTGCTCTACTACTGTTTAGGT
1 AGATAAGGTTGGTGCTTTCGATCTGCTCCACTTCTGTTTAGGT
45688781 AGATAAG
1 AGATAAG
45688788 ATCTACAACC
Statistics
Matches: 62, Mismatches: 29, Indels: 6
0.64 0.30 0.06
Matches are distributed among these distances:
43 34 0.55
44 27 0.44
45 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (43 bp):
AGATAAGGTTGGTGCTTTCGATCTGCTCCACTTCTGTTTAGGT
Found at i:45688802 original size:44 final size:44
Alignment explanation
Indices: 45688667--45688802 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 44
45688657 GGTTGGTGCT
*
45688667 TTCGATCTGCTCCACTTCTGTTTAGGTAGATAAGATCTACAACC
1 TTCGATCTGCTCCACTACTGTTTAGGTAGATAAGATCTACAACC
* * * ** * * * * * **** *
45688711 TTCGACCTACTCCGCTGTTGCTCAAGTAGCTAAG-GCTGGTGCT
1 TTCGATCTGCTCCACTACTGTTTAGGTAGATAAGATCTACAACC
*
45688754 TTCGATCTGCTCTACTACTGTTTAGGTAGATAAGATCTACAACC
1 TTCGATCTGCTCCACTACTGTTTAGGTAGATAAGATCTACAACC
45688798 TTCGA
1 TTCGA
45688803 CCTACTCTGC
Statistics
Matches: 60, Mismatches: 31, Indels: 2
0.65 0.33 0.02
Matches are distributed among these distances:
43 27 0.45
44 33 0.55
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (44 bp):
TTCGATCTGCTCCACTACTGTTTAGGTAGATAAGATCTACAACC
Found at i:45688914 original size:44 final size:44
Alignment explanation
Indices: 45688858--45689081 Score: 199
Period size: 44 Copynumber: 5.1 Consensus size: 44
45688848 TGCTCCACTA
45688858 TTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTG
1 TTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTG
* * * ** * * * * *
45688902 TTGCTCAAGGAGATAAG-GCT--GGTGCTGTCGATCTGCTCCACTA
1 TTGCTTAGGGAGATAAGATCTACAAT-CT-TTGACCTACTCCGCTG
*
45688945 TTGCTTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTG
1 TTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTG
* * * *
45688989 TTGCTTAGGGAGATAAG-GCT--AATGCTTTCGATCTACTCCACTA
1 TTGCTTAGGGAGATAAGATCTACAAT-CTTT-GACCTACTCCGCTG
* * *
45689032 CTGTTTAGGGAGATCAGATCTACAATCTTTGACCTACTCCGCTG
1 TTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTG
*
45689076 CTGCTT
1 TTGCTT
45689082 TCGATTTGCT
Statistics
Matches: 136, Mismatches: 34, Indels: 20
0.72 0.18 0.11
Matches are distributed among these distances:
41 4 0.03
42 6 0.04
43 54 0.40
44 62 0.46
45 6 0.04
46 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
TTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTG
Found at i:45688957 original size:43 final size:42
Alignment explanation
Indices: 45688823--45689045 Score: 135
Period size: 43 Copynumber: 5.1 Consensus size: 42
45688813 TGCTGCTCAA
*
45688823 GGAGCTAAGGCTGGTGCTTTTGATCTGCTCCACTATTGCTTAG
1 GGAGATAAGGCTGGTGC-TTTGATCTGCTCCACTATTGCTTAG
* ** * * * * * *
45688866 GGAGATAAGATCTACAAT-CTTTGACCTACTCCGCTGTTGCTCAA
1 GGAGATAAG-GCT--GGTGCTTTGATCTGCTCCACTATTGCTTAG
*
45688910 GGAGATAAGGCTGGTGCTGTCGATCTGCTCCACTATTGCTTAG
1 GGAGATAAGGCTGGTGCT-TTGATCTGCTCCACTATTGCTTAG
* ** * * * * *
45688953 GGAGATAAGATCTACAAT-CTTTAACCTACTCCGCTGTTGCTTAG
1 GGAGATAAG-GCT--GGTGCTTTGATCTGCTCCACTATTGCTTAG
** * * *
45688997 GGAGATAAGGCTAATGCTTTCGATCTACTCCACTACTGTTTAG
1 GGAGATAAGGCTGGTGCTTT-GATCTGCTCCACTATTGCTTAG
45689040 GGAGAT
1 GGAGAT
45689046 CAGATCTACA
Statistics
Matches: 134, Mismatches: 36, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
41 4 0.03
42 6 0.04
43 60 0.45
44 59 0.44
45 3 0.02
46 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (42 bp):
GGAGATAAGGCTGGTGCTTTGATCTGCTCCACTATTGCTTAG
Found at i:45689081 original size:87 final size:87
Alignment explanation
Indices: 45688575--45689080 Score: 699
Period size: 87 Copynumber: 5.8 Consensus size: 87
45688565 GATAAGATCT
* * *
45688575 GTGCTTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-TTTCGACCTATTCTGC
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTT-GACCTACTCCGC
* *
45688639 TGTTGCTCAGGGAGATAAGGTTG
65 TGTTGCTCAAGGAGATAAGGCTG
* * * * *
45688662 GTGCTTTCGATCTGCTCCACTTCTGTTTAGGTAGATAAGATCTACAACCTTCGACCTACTCCGCT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
* *
45688727 GTTGCTCAAGTAGCTAAGGCTG
66 GTTGCTCAAGGAGATAAGGCTG
* * * * * *
45688749 GTGCTTTCGATCTGCTCTACTACTGTTTAGGTAGATAAGATCTACAACCTTCGACCTACTCTGCT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
* *
45688814 GCTGCTCAAGGAGCTAAGGCTG
66 GTTGCTCAAGGAGATAAGGCTG
* *
45688836 GTGCTTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
45688901 GTTGCTCAAGGAGATAAGGCTG
66 GTTGCTCAAGGAGATAAGGCTG
* * *
45688923 GTGCTGTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
* * *
45688988 GTTGCTTAGGGAGATAAGGCTA
66 GTTGCTCAAGGAGATAAGGCTG
* * * *
45689010 ATGCTTTCGATCTACTCCACTACTGTTTAGGGAGATCAGATCTACAATCTTTGACCTACTCCGCT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
*
45689075 GCTGCT
66 GTTGCT
45689081 TTCGATTTGC
Statistics
Matches: 377, Mismatches: 41, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 375 0.99
88 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (87 bp):
GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCT
GTTGCTCAAGGAGATAAGGCTG
Found at i:45689122 original size:66 final size:66
Alignment explanation
Indices: 45689011--45689146 Score: 200
Period size: 66 Copynumber: 2.1 Consensus size: 66
45689001 ATAAGGCTAA
* * *
45689011 TGCTTTCGATCTACTCCACTACTGTTTAGGGAGATCAGATCTACAATCTTTGACCTACTCCGCTG
1 TGCTTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCGAACTACTCCGCTG
45689076 C
66 C
* * * **
45689077 TGCTTTCGATTTGCTCCACTACTGTTTAGGGAGATAAGATTTACAATCTTCGAACTACTTTGCTG
1 TGCTTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCGAACTACTCCGCTG
45689142 C
66 C
45689143 TGCT
1 TGCT
45689147 GAGGGAGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (66 bp):
TGCTTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCGAACTACTCCGCTG
C
Found at i:45689207 original size:153 final size:153
Alignment explanation
Indices: 45688919--45689210 Score: 424
Period size: 153 Copynumber: 1.9 Consensus size: 153
45688909 AGGAGATAAG
* * *
45688919 GCTGGTGCTGTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTTAACCTACTC
1 GCTGCTGCTGTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTGAACCTACTC
* * *
45688984 CGCTGTTGCTTAGGGAGATAAGGCTAATGCTTTCGATCTACTCCACTACTGTTTAGGGAGATCAG
66 CGCTGCTGCTGAGGGAGATAAGGCTAATGCTTTCGATCTACTCCACTACTGTTTAGGGAGATAAG
45689049 ATCTACAATCTTTGACCTACTCC
131 ATCTACAATCTTTGACCTACTCC
* * * *
45689072 GCTGCTGCTTTCGATTTGCTCCACTACTGTTTAGGGAGATAAGATTTACAATCTTCGAA-CTACT
1 GCTGCTGCTGTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT-GAACCTACT
** ** * *
45689136 TTGCTGCTGCTGAGGGAGATAAGGCTGGTGCTTTTGATCTGCTCCACTACTGTTTAGGGAGATAA
65 CCGCTGCTGCTGAGGGAGATAAGGCTAATGCTTTCGATCTACTCCACTACTGTTTAGGGAGATAA
45689201 GATCTACAAT
130 GATCTACAAT
45689211 AATTACTTCA
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
153 120 0.98
154 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (153 bp):
GCTGCTGCTGTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTGAACCTACTC
CGCTGCTGCTGAGGGAGATAAGGCTAATGCTTTCGATCTACTCCACTACTGTTTAGGGAGATAAG
ATCTACAATCTTTGACCTACTCC
Found at i:45697292 original size:19 final size:20
Alignment explanation
Indices: 45697255--45697294 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
45697245 ATGAAACTTG
45697255 ATGCATGTGATGTAATGCAA
1 ATGCATGTGATGTAATGCAA
45697275 ATGCATGAT-ATG-AATGCAA
1 ATGCATG-TGATGTAATGCAA
45697294 A
1 A
45697295 AAGAGGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 10 0.53
21 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (20 bp):
ATGCATGTGATGTAATGCAA
Found at i:45704949 original size:19 final size:18
Alignment explanation
Indices: 45704920--45704967 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
45704910 TATTGAAAAA
45704920 TAAATATTTAAA-TATTTT
1 TAAATATTTAAAGT-TTTT
45704938 TAAATAATTTAAAGTTTTT
1 TAAAT-ATTTAAAGTTTTT
*
45704957 TAAATTTTTAA
1 TAAATATTTAA
45704968 CAATTAAGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 10 0.37
19 16 0.59
20 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TAAATATTTAAAGTTTTT
Found at i:45705048 original size:20 final size:21
Alignment explanation
Indices: 45705015--45705053 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
45705005 TGCTACATTT
**
45705015 ATTAATTTTTTAG-ATTTAAA
1 ATTAATTTGATAGAATTTAAA
45705035 ATTAATTTGATAGAATTTA
1 ATTAATTTGATAGAATTTA
45705054 TAATCATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTAATTTGATAGAATTTAAA
Found at i:45706487 original size:22 final size:22
Alignment explanation
Indices: 45706457--45706501 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45706447 TTTCCCCATG
* *
45706457 TATTTATTAGGGTTTTAGGGTT
1 TATTAATTAGGGTTTTAAGGTT
45706479 TATTAATTAGGGTTTTAAGGTT
1 TATTAATTAGGGTTTTAAGGTT
45706501 T
1 T
45706502 TAGGTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.53
Consensus pattern (22 bp):
TATTAATTAGGGTTTTAAGGTT
Found at i:45706503 original size:30 final size:28
Alignment explanation
Indices: 45706467--45706532 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 28
45706457 TATTTATTAG
45706467 GGTTTTAGGGTTTATTAA-TTAGGGTTTTAA
1 GGTTTTA-GGTTT-TTAAGTTAGGG-TTTAA
*
45706497 GGTTTTAGGTTTTTAAGGTTAGGGTTTAT
1 GGTTTTAGGTTTTTAA-GTTAGGGTTTAA
45706526 GGTTTTA
1 GGTTTTA
45706533 ATTGATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
30 13 0.39
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (28 bp):
GGTTTTAGGTTTTTAAGTTAGGGTTTAA
Found at i:45706510 original size:16 final size:16
Alignment explanation
Indices: 45706485--45706532 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
45706475 GGTTTATTAA
45706485 TTAGGGTTTTAAGGTT
1 TTAGGGTTTTAAGGTT
*
45706501 TTAGGTTTTTAAGG--
1 TTAGGGTTTTAAGGTT
*
45706515 TTAGGG-TTTATGGTT
1 TTAGGGTTTTAAGGTT
45706530 TTA
1 TTA
45706533 ATTGATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 6 0.22
14 5 0.19
15 3 0.11
16 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (16 bp):
TTAGGGTTTTAAGGTT
Found at i:45709767 original size:14 final size:15
Alignment explanation
Indices: 45709745--45709821 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45709735 CAATCAAACA
45709745 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45709759 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45709774 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45709794 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
45709808 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
45709822 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45709786 original size:20 final size:20
Alignment explanation
Indices: 45709761--45709800 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45709751 AATATTTTCC
*
45709761 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45709781 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45709801 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45709806 original size:34 final size:35
Alignment explanation
Indices: 45709749--45709815 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45709739 CAAACACCAG
*
45709749 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45709784 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45709816 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45709822 original size:14 final size:14
Alignment explanation
Indices: 45709784--45709823 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45709774 ACAGAAAAGT
*
45709784 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
45709798 AAATCATTTTACGG
1 AAAACATTTTACAG
45709812 AAAACATTTTAC
1 AAAACATTTTAC
45709824 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:45713075 original size:5 final size:5
Alignment explanation
Indices: 45713065--45713103 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
45713055 TATCTTGTAA
45713065 AGATT AGATT AGATT AGATT AGATT AGATT AGATT AGAT
1 AGATT AGATT AGATT AGATT AGATT AGATT AGATT AGAT
45713104 ATGACATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
AGATT
Found at i:45720971 original size:26 final size:26
Alignment explanation
Indices: 45720952--45721004 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
45720942 ATATATTCGG
45720952 TAAGTTTAAGTTTACGATATACGAGC
1 TAAGTTTAAGTTTACGATATACGAGC
45720978 TAAGTTTAAGTTTACGATATACGAGC
1 TAAGTTTAAGTTTACGATATACGAGC
45721004 T
1 T
45721005 TACTAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (26 bp):
TAAGTTTAAGTTTACGATATACGAGC
Found at i:45721777 original size:43 final size:43
Alignment explanation
Indices: 45721730--45721839 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
45721720 CAGCTGTCTA
* **
45721730 ACCTTATTTTGAATTGCACATGGCCTGACGACATGACCGTGTG
1 ACCTTATTTTGAATTGCACACGGCCTGACGACACAACCGTGTG
** *
45721773 ACCTTATTTCAAATTGCACACGGCCTGACGACACAATCGTGTG
1 ACCTTATTTTGAATTGCACACGGCCTGACGACACAACCGTGTG
45721816 ACCTTATTTTTGAATT-CTACACGG
1 ACCTTA-TTTTGAATTGC-ACACGG
45721840 TTTGGCCACA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 44 0.77
44 13 0.23
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
ACCTTATTTTGAATTGCACACGGCCTGACGACACAACCGTGTG
Found at i:45722795 original size:63 final size:63
Alignment explanation
Indices: 45722696--45722817 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
45722686 TATATATATG
* * * *
45722696 TATATGGTTAAGTGGTGCATTTAGAAGGTTTTTCTCTTTGTATTGTATTTTGGTTACTTATTA
1 TATATGGTGAAGTGGTGAATTCAGAAGGTTTTTCTCTTTGTATTGCATTTTGGTTACTTATTA
*
45722759 TATATGGTGAAGTGGTGAATTCAGAGGGTTTTTCTCTTTGTATTGCATTTTGGTTACTT
1 TATATGGTGAAGTGGTGAATTCAGAAGGTTTTTCTCTTTGTATTGCATTTTGGTTACTT
45722818 CTTTTTTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (63 bp):
TATATGGTGAAGTGGTGAATTCAGAAGGTTTTTCTCTTTGTATTGCATTTTGGTTACTTATTA
Found at i:45728836 original size:35 final size:35
Alignment explanation
Indices: 45728797--45728882 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
45728787 GTAGGCTTAC
* ** *
45728797 CCGTGTTTACTATCCCGGCGGGCTTCATCTTTGTT
1 CCGTGTTTACTGTCCCGAAGGACTTCATCTTTGTT
* *
45728832 CCGTGTTTAATGTCCTGAAGGACTTCATCTTTGTT
1 CCGTGTTTACTGTCCCGAAGGACTTCATCTTTGTT
*
45728867 CTGTGTTTACTGTCCC
1 CCGTGTTTACTGTCCC
45728883 AACAGAATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.42
Consensus pattern (35 bp):
CCGTGTTTACTGTCCCGAAGGACTTCATCTTTGTT
Found at i:45728894 original size:35 final size:35
Alignment explanation
Indices: 45728820--45728894 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
45728810 CCCGGCGGGC
* * *
45728820 TTCATCTTTGTTCCGTGTTTAATGTCCTGAAGGAC
1 TTCATCTTTGTTCCGTGTTTAATGTCCTCAAAGAA
* *
45728855 TTCATCTTTGTTCTGTGTTTACTGTCC-CAACAGAA
1 TTCATCTTTGTTCCGTGTTTAATGTCCTCAA-AGAA
45728890 TTCAT
1 TTCAT
45728895 ATCTATGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (35 bp):
TTCATCTTTGTTCCGTGTTTAATGTCCTCAAAGAA
Found at i:45731459 original size:61 final size:61
Alignment explanation
Indices: 45731277--45731469 Score: 260
Period size: 61 Copynumber: 3.2 Consensus size: 61
45731267 CGGAGAGGGA
* * * *
45731277 GGCAAAACTCTAGATAGGAAAGCCATTGTGGCGAGTACTGAATGTTAAGGAACGCCTTTCT
1 GGCAAAACTCTGGACAGGAAAGCCATTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
* * * * *
45731338 GGAAAAACTCTGGACAGGAAAGCCGTTGTGGCGATTACTGAATGTTAAAGAATGCTTTTGT
1 GGCAAAACTCTGGACAGGAAAGCCATTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
** *
45731399 GGCAAAACTCTGGACAGGAAAGCTTTTGTGGCGAGTATTGAATGTTAAGGAATGCCTTTGT
1 GGCAAAACTCTGGACAGGAAAGCCATTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
* *
45731460 TGCATAACTC
1 GGCAAAACTC
45731470 AGGCAAGGTA
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 114 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (61 bp):
GGCAAAACTCTGGACAGGAAAGCCATTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
Found at i:45731490 original size:61 final size:60
Alignment explanation
Indices: 45731277--45731493 Score: 256
Period size: 61 Copynumber: 3.5 Consensus size: 60
45731267 CGGAGAGGGA
* * * *
45731277 GGCAAAACTCTAGATAGGAAAGCCATTGTGGCGAGTACTGAATGTTAAGGAACGCCTTTCT
1 GGCAAAACTCTGGACAGGAAAGCC-TTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
* * * *
45731338 GGAAAAACTCTGGACAGGAAAGCCGTTGTGGCGATTACTGAATGTTAAAGAATGCTTTTGT
1 GGCAAAACTCTGGACAGGAAAGCC-TTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
* *
45731399 GGCAAAACTCTGGACAGGAAAGCTTTTGTGGCGAGTATTGAATGTTAAGGAATGCCTTTGT
1 GGCAAAACTCTGGACAGGAAAGC-CTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
* * * *
45731460 TGCATAACTCAGG-CAAGGTAAGCCTATGTGGCGA
1 GGCAAAACTCTGGAC-AGGAAAGCCT-TGTGGCGA
45731494 ATCTTTTCAA
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
60 2 0.02
61 131 0.98
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (60 bp):
GGCAAAACTCTGGACAGGAAAGCCTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGT
Found at i:45736232 original size:18 final size:18
Alignment explanation
Indices: 45736203--45736238 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45736193 CATGTTTTGT
45736203 TTTACTTAATTTATCTTTA
1 TTTACTTAATTTA-CTTTA
45736222 TTTAC-TAATTTACTTTA
1 TTTACTTAATTTACTTTA
45736239 ATAACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTACTTAATTTACTTTA
Found at i:45740716 original size:51 final size:51
Alignment explanation
Indices: 45740578--45740726 Score: 205
Period size: 49 Copynumber: 2.9 Consensus size: 51
45740568 TCAACATGTA
* * * *
45740578 TGAAATGTAATATATATGTATTCGTTGATGATGTAGAAAACTATGTTGTTGGT
1 TGAAATGTGATATATA--TATTGGTTGATGATGTAGGAAACTATGTTGTGGGT
*
45740631 TGAAATGTG--ATATATATTGGTTGATGATAG-AGGAAACTATATTGTGGGT
1 TGAAATGTGATATATATATTGGTTGATGAT-GTAGGAAACTATGTTGTGGGT
45740680 TGAAATGTGATATATATATTGGTTGATGATGTAGGAAACTATGTTGT
1 TGAAATGTGATATATATATTGGTTGATGATGTAGGAAACTATGTTGT
45740727 TGATTGAATG
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
49 38 0.44
50 2 0.02
51 38 0.44
53 8 0.09
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.40
Consensus pattern (51 bp):
TGAAATGTGATATATATATTGGTTGATGATGTAGGAAACTATGTTGTGGGT
Found at i:45740734 original size:51 final size:51
Alignment explanation
Indices: 45740578--45740734 Score: 212
Period size: 51 Copynumber: 3.1 Consensus size: 51
45740568 TCAACATGTA
* * *
45740578 TGAAATGTAATATATATGTATTCGTTGATGATGTAGAAAACTATGTTGTTGGT
1 TGAAATGTGATATATA--TATTGGTTGATGATGTAGGAAACTATGTTGTTGGT
* *
45740631 TGAAATGTG--ATATATATTGGTTGATGATAG-AGGAAACTATATTGTGGGT
1 TGAAATGTGATATATATATTGGTTGATGAT-GTAGGAAACTATGTTGTTGGT
*
45740680 TGAAATGTGATATATATATTGGTTGATGATGTAGGAAACTATGTTGTTGAT
1 TGAAATGTGATATATATATTGGTTGATGATGTAGGAAACTATGTTGTTGGT
45740731 TGAA
1 TGAA
45740735 TGAATCTTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
49 38 0.41
50 2 0.02
51 44 0.48
53 8 0.09
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.39
Consensus pattern (51 bp):
TGAAATGTGATATATATATTGGTTGATGATGTAGGAAACTATGTTGTTGGT
Found at i:45757509 original size:25 final size:25
Alignment explanation
Indices: 45757488--45757548 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
45757478 GAACTTATCG
45757488 TTATTCAGCTCGGAGGAGCTTACTA
1 TTATTCAGCTCGGAGGAGCTTACTA
* *
45757513 TTATTTAGCTCGGAGGAGCTTACCA
1 TTATTCAGCTCGGAGGAGCTTACTA
*
45757538 TT-TACAGCTCG
1 TTATTCAGCTCG
45757549 TAAGAGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (25 bp):
TTATTCAGCTCGGAGGAGCTTACTA
Found at i:45774289 original size:375 final size:375
Alignment explanation
Indices: 45773592--45774291 Score: 1107
Period size: 375 Copynumber: 1.9 Consensus size: 375
45773582 AATACAATAT
* * * ** *
45773592 ATTACGCATATTCATTTATATCAAGTAAGCCAATAGACACATTCGGCCAACTTAAGTGAACACAT
1 ATTACGCATATTCATTTATAGCAAGCAAACCAATAGACACATTCAACCAACTTAAGTAAACACAT
*
45773657 AGTATAGAATAGGCATCGCACTTTTGGCAAACATCCCAACTTATCACATAACACATTCGGCCATA
66 AGTATAGAATAGGCATCGCACTTTTGGCAAACATCCCAACTTATCACATAACACATTCGACCATA
*
45773722 TAAAAGACAACTTACATTCATTCGACCATTTCATTTACACTTCCAACACAACCGGCAAGCAGTAC
131 TAAAAGACAACTTACATTCATTCGACCATTTCATTTACACTTCCAACACAACCGGAAAGCAGTAC
* * **
45773787 AATTAACACACACCACAATCGGTTAAGCTTCAAAAGATGCTCTTATACATTCGGCCCCTATTGAA
196 AATTAACACACACCACAATCGGTTAAGCTTCAAAAGATACTCTTAAACATTCAACCCCTATTGAA
* * *
45773852 ATAATTAAACACCCTCAGCAATAAGCTAACTAGTCAATTAGCTTTCAGTCATAAGAAAAATGAGG
261 ACAATTAAACACCCTCAGCAATAAGCTAACTAGTCAATTAGATTTCAATCATAAGAAAAATGAGG
45773917 ATGAGCATTCAGTGAAAATGTAATAGCAATACAGTAGCATACATTAGCAG
326 ATGAGCATTCAGTGAAAATGTAATAGCAATACAGTAGCATACATTAGCAG
* * *
45773967 ATTATGCATATTCGTTTATAGCAAGCAAACCAATAGACACATTCAATCAACTTAAGTAAACACAT
1 ATTACGCATATTCATTTATAGCAAGCAAACCAATAGACACATTCAACCAACTTAAGTAAACACAT
* * *
45774032 AGTATAGAATTGGCATGGCACTTTTGGCAAACATCCCAAGTTATCACATAACACATTCGACCATA
66 AGTATAGAATAGGCATCGCACTTTTGGCAAACATCCCAACTTATCACATAACACATTCGACCATA
* *
45774097 TAAAGGACAACTTACATTCATT-TACCCATTTCATTTACACTTCCAACACAACCGGAAAGCA-TC
131 TAAAAGACAACTTACATTCATTCGA-CCATTTCATTTACACTTCCAACACAACCGGAAAGCAGT-
*
45774160 ACAATTAACACACACCACAATTGGTTAAGCTTCAAAAGATACTCTTAAACATTCAACCCCTATTG
194 ACAATTAACACACACCACAATCGGTTAAGCTTCAAAAGATACTCTTAAACATTCAACCCCTATTG
* * * * *
45774225 AAACAATTAGACACCCTCAGCAATAAGCTAATTGGTCCATTAGATTTCAATCATAAGCAAAATGA
259 AAACAATTAAACACCCTCAGCAATAAGCTAACTAGTCAATTAGATTTCAATCATAAGAAAAATGA
45774290 GG
324 GG
45774292 CATTAACATT
Statistics
Matches: 294, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
374 2 0.01
375 292 0.99
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (375 bp):
ATTACGCATATTCATTTATAGCAAGCAAACCAATAGACACATTCAACCAACTTAAGTAAACACAT
AGTATAGAATAGGCATCGCACTTTTGGCAAACATCCCAACTTATCACATAACACATTCGACCATA
TAAAAGACAACTTACATTCATTCGACCATTTCATTTACACTTCCAACACAACCGGAAAGCAGTAC
AATTAACACACACCACAATCGGTTAAGCTTCAAAAGATACTCTTAAACATTCAACCCCTATTGAA
ACAATTAAACACCCTCAGCAATAAGCTAACTAGTCAATTAGATTTCAATCATAAGAAAAATGAGG
ATGAGCATTCAGTGAAAATGTAATAGCAATACAGTAGCATACATTAGCAG
Found at i:45779688 original size:2 final size:2
Alignment explanation
Indices: 45779681--45779712 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45779671 TTCACCAATT
45779681 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
45779713 ACTCAGAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:45782838 original size:14 final size:15
Alignment explanation
Indices: 45782819--45782851 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45782809 AGTTCGATTG
*
45782819 AATAAATTA-TTAAA
1 AATAAAATATTTAAA
45782833 AATAAAATATTTAAA
1 AATAAAATATTTAAA
45782848 AATA
1 AATA
45782852 GATAAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAAATATTTAAA
Found at i:45784624 original size:30 final size:30
Alignment explanation
Indices: 45784590--45784646 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
45784580 CCATAATCTG
45784590 TTACAAACGTAACAGAGCTACCATTTTTCA
1 TTACAAACGTAACAGAGCTACCATTTTTCA
* * *
45784620 TTACAGACTTAACGGAGCTACCATTTT
1 TTACAAACGTAACAGAGCTACCATTTT
45784647 CTATCCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (30 bp):
TTACAAACGTAACAGAGCTACCATTTTTCA
Found at i:45789340 original size:7 final size:7
Alignment explanation
Indices: 45789314--45789386 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
45789304 GGCAACCCAA
45789314 TTTTTAT
1 TTTTTAT
*
45789321 TTTTCTTT
1 TTTT-TAT
45789329 ATTTTTA-
1 -TTTTTAT
45789336 TTTTTA-
1 TTTTTAT
45789342 -TTTTAT
1 TTTTTAT
*
45789348 TATTTAT
1 TTTTTAT
*
45789355 TATTTAT
1 TTTTTAT
*
45789362 TATTTAT
1 TTTTTAT
45789369 TATTTTAT
1 T-TTTTAT
45789377 TTTATTAT
1 TTT-TTAT
45789385 TT
1 TT
45789387 ATTACTTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.09
6 6 0.11
7 26 0.46
8 15 0.27
9 4 0.07
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:45789365 original size:34 final size:32
Alignment explanation
Indices: 45789328--45789426 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 32
45789318 TATTTTTCTT
45789328 TATTTTTATTTTTATTTTATTATTTATTATTTAT
1 TATTTTTA-TTTTATTTTATTATTTATTA-TTAT
*
45789362 TATTTATTATTTTATTTTATTATTTATTACT-T
1 TATTT-TTATTTTATTTTATTATTTATTATTAT
* *
45789394 TA-TTTCACTTTATTTTATTATTTATTACTTAT
1 TATTTTTATTTTATTTTATTATTTATTA-TTAT
45789426 T
1 T
45789427 TTGTTTGGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
30 21 0.36
31 3 0.05
32 5 0.09
33 1 0.02
34 25 0.43
35 3 0.05
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (32 bp):
TATTTTTATTTTATTTTATTATTTATTATTAT
Found at i:45789382 original size:20 final size:20
Alignment explanation
Indices: 45789331--45789398 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
45789321 TTTTCTTTAT
45789331 TTTTA-TTT-TTATTTTATTA
1 TTTTATTTTATTA-TTTATTA
45789350 -TTTATTATTTATTATTTATTA
1 TTTTA-T-TTTATTATTTATTA
45789371 TTTTATTTTATTATTTATTA
1 TTTTATTTTATTATTTATTA
*
45789391 CTTTATTT
1 TTTTATTT
45789399 CACTTTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
18 4 0.09
20 21 0.49
21 11 0.26
22 7 0.16
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATTATTTATTA
Found at i:45789387 original size:7 final size:7
Alignment explanation
Indices: 45789327--45789426 Score: 95
Period size: 7 Copynumber: 14.3 Consensus size: 7
45789317 TTATTTTTCT
45789327 TTATTT-
1 TTATTTA
45789333 TTATTT-
1 TTATTTA
45789339 TTATTTTA
1 TTA-TTTA
45789347 TTATTTA
1 TTATTTA
45789354 TTATTTA
1 TTATTTA
45789361 TTATTTA
1 TTATTTA
45789368 TTA-TT-
1 TTATTTA
45789373 TTATTTTA
1 TTA-TTTA
45789381 TTATTTA
1 TTATTTA
45789388 TTACTTTA
1 TTA-TTTA
45789396 TTTCACTTTA
1 -TT-A-TTTA
45789406 -T-TTTA
1 TTATTTA
45789411 TTATTTA
1 TTATTTA
*
45789418 TTACTTA
1 TTATTTA
45789425 TT
1 TT
45789427 TTGTTTGGAT
Statistics
Matches: 83, Mismatches: 1, Indels: 19
0.81 0.01 0.18
Matches are distributed among these distances:
5 7 0.08
6 12 0.14
7 45 0.54
8 11 0.13
9 2 0.02
10 6 0.07
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:45789406 original size:30 final size:29
Alignment explanation
Indices: 45789350--45789427 Score: 117
Period size: 30 Copynumber: 2.8 Consensus size: 29
45789340 TATTTTATTA
*
45789350 TTTATTATTTATTA-TTTA-TTATTTTAT
1 TTTATTATTTATTACTTTATTTACTTTAT
45789377 TTTATTATTTATTACTTTATTTCACTTTAT
1 TTTATTATTTATTACTTTATTT-ACTTTAT
45789407 TTTATTATTTATTAC-TTATTT
1 TTTATTATTTATTACTTTATTT
45789428 TGTTTGGATA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 14 0.30
28 4 0.09
29 8 0.17
30 21 0.45
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTATTATTTATTACTTTATTTACTTTAT
Found at i:45790771 original size:110 final size:111
Alignment explanation
Indices: 45790578--45790779 Score: 343
Period size: 110 Copynumber: 1.8 Consensus size: 111
45790568 CAAAAAATTT
* * *
45790578 TTAGGAATGTGTTGGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGGCTAAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
45790643 AGGTTCAATATATTCTTAAG-AAAAAATATATATAAATATAATAAA
66 AGGTTCAATATATTCTTAAGCAAAAAATATATATAAATATAATAAA
* * *
45790688 TTAGGAGTATGTTGGGCTAAGTAACCGGGGTGAGGTGTTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGGCTAAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
45790753 AGGTTCAATATATTCTTAAGCAAAAAA
66 AGGTTCAATATATTCTTAAGCAAAAAA
45790780 AAAAAGATGT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 79 0.93
111 6 0.07
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (111 bp):
TTAGGAATATGTTGGGCTAAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGCAAAAAATATATATAAATATAATAAA
Found at i:45792505 original size:49 final size:50
Alignment explanation
Indices: 45792409--45792519 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 50
45792399 GCAAAGGAAC
* *
45792409 GGTGGGGAAGAGGGAGAAGGTTAGCAAAGAATCAAAGTAGGAGGAAGGAT
1 GGTGGGGAAGAGGGAGAAGGTGAGCAAAGAATCAAAGGAGGAGGAAGGAT
* * * *
45792459 GGTGGGGAAGAGGGGGAGAGG-GAG-AGAGAATCAAGGGAGGGGGAAGGAT
1 GGTGGGGAAGAGGGAGA-AGGTGAGCAAAGAATCAAAGGAGGAGGAAGGAT
45792508 GGTGGGGAAGAG
1 GGTGGGGAAGAG
45792520 AGAAAGGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
49 33 0.61
50 18 0.33
51 3 0.06
ACGTcount: A:0.35, C:0.03, G:0.53, T:0.09
Consensus pattern (50 bp):
GGTGGGGAAGAGGGAGAAGGTGAGCAAAGAATCAAAGGAGGAGGAAGGAT
Done.