Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 191 of 290
Found at i:61258724 original size:19 final size:19
Alignment explanation
Indices: 61258700--61258757 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
61258690 AATTATTTAT
61258700 TAAATT-TAATTAGAATATA
1 TAAATTATAATTA-AATATA
* *
61258719 TAAATTATATTTAAATATT
1 TAAATTATAATTAAATATA
*
61258738 TAAATATAACAATTAAATAT
1 TAAAT-T-ATAATTAAATAT
61258758 TTGTAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.50
20 6 0.19
21 10 0.31
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAATTATAATTAAATATA
Found at i:61258912 original size:13 final size:14
Alignment explanation
Indices: 61258894--61258922 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61258884 AACACATTTT
61258894 AAGTT-AAAAAATA
1 AAGTTAAAAAAATA
61258907 AAGTTAAAAAAATA
1 AAGTTAAAAAAATA
61258921 AA
1 AA
61258923 ATAATAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGTTAAAAAAATA
Found at i:61269494 original size:34 final size:34
Alignment explanation
Indices: 61269456--61269533 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
61269446 CCCCTTTTTT
*
61269456 AGTAACAGTATCAGTTTGGGCATGAGCCCATTTC
1 AGTAACAGTATCAGTCTGGGCATGAGCCCATTTC
* * * *
61269490 AGTAACAGAAGCAGTCTGGGCCTTAGCCCATTTC
1 AGTAACAGTATCAGTCTGGGCATGAGCCCATTTC
61269524 AGT-ACAGTAT
1 AGTAACAGTAT
61269534 GCAAACAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (34 bp):
AGTAACAGTATCAGTCTGGGCATGAGCCCATTTC
Found at i:61277265 original size:34 final size:34
Alignment explanation
Indices: 61277225--61277305 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
61277215 TTACCCCATT
61277225 TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
1 TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
* * * * * *
61277259 TTTCAGTAATAGAAGCAGTCTGGGCCTTAGCCTA
1 TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
61277293 TTTCAGT-ACAGTA
1 TTTCAGTAACAGTA
61277306 TGTAAACAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
Found at i:61278701 original size:3 final size:3
Alignment explanation
Indices: 61278693--61278722 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61278683 AGAGAAAAGG
61278693 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61278723 TGCTCAATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:61281719 original size:48 final size:48
Alignment explanation
Indices: 61281667--61281888 Score: 246
Period size: 48 Copynumber: 4.6 Consensus size: 48
61281657 AGATCCTGTA
* * * * *
61281667 TAAGACCATATTTGGGATATGGCATCGGTATTGATATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *
61281715 TAAGACCATGGTTGGGACATGGCATTGGCATCGATATGTGGTCCCGTG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
61281763 TAAGACCATGTTTGGGACATGGTATTGGCATCGTTATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *** * *
61281811 TAAGACCATGTCTGGGACATGGTATTGGCATCAATAAACGGTCCCATA
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *
61281859 TAAGACCATATCTAGGATATGGCATTGGCA
1 TAAGACCATGTTTGGGACATGGCATTGGCA
61281889 CCCTACTATG
Statistics
Matches: 149, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:61284195 original size:16 final size:16
Alignment explanation
Indices: 61284176--61284221 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
61284166 CTAAATTTTA
*
61284176 AAATCCCCAACTCGTC
1 AAATCCCCAAATCGTC
* *
61284192 AAATTCCCCAAATTGTG
1 AAA-TCCCCAAATCGTC
61284209 AAATCCCCAAATC
1 AAATCCCCAAATC
61284222 CATAACATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.37, C:0.35, G:0.07, T:0.22
Consensus pattern (16 bp):
AAATCCCCAAATCGTC
Found at i:61284384 original size:29 final size:29
Alignment explanation
Indices: 61284342--61284397 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
61284332 AATCCCTTAA
*
61284342 AAGTAAATTGTGAAATCCCTAATCTTTAG
1 AAGTAAATCGTGAAATCCCTAATCTTTAG
61284371 AAGTAAATCGTGAAATCCCTAATCTTT
1 AAGTAAATCGTGAAATCCCTAATCTTT
61284398 CTTCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (29 bp):
AAGTAAATCGTGAAATCCCTAATCTTTAG
Found at i:61285603 original size:48 final size:47
Alignment explanation
Indices: 61285544--61285674 Score: 176
Period size: 46 Copynumber: 2.8 Consensus size: 47
61285534 TCAACATTGG
*
61285544 TGTATTCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACTATCT
1 TGTA-TCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACCATCT
* * *
61285592 TGTGTTTCAAAACCAGAATG--CTAGGCTCAAAATGTGACTACCATCT
1 TGT-ATCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACCATCT
*
61285638 TGTATCCTAAAACCAAAATGTTGTAGGCTCAAAATGT
1 TGTATCC-AAAACCAGAATGTTGTAGGCTCAAAATGT
61285675 TGTAGACAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.03
46 38 0.54
48 31 0.44
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (47 bp):
TGTATCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACCATCT
Found at i:61289044 original size:16 final size:16
Alignment explanation
Indices: 61289023--61289054 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61289013 TTATGATAGT
*
61289023 GTGATGACTCTTGATC
1 GTGATGACTCCTGATC
61289039 GTGATGACTCCTGATC
1 GTGATGACTCCTGATC
61289055 ATTTTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (16 bp):
GTGATGACTCCTGATC
Found at i:61292204 original size:28 final size:28
Alignment explanation
Indices: 61292141--61292319 Score: 252
Period size: 28 Copynumber: 6.4 Consensus size: 28
61292131 ATATTAAGTC
*
61292141 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61292168 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
61292196 CGCACACTTAGTGCTACATAATCAACCT
1 CGCACACTTAGTGCTATATAATCAAACT
61292224 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
61292252 CGTACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
61292280 CTCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61292309 CGCACACTTAG
1 CGCACACTTAG
61292320 CGCCAATCTC
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 22 0.16
28 98 0.73
29 15 0.11
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61300268 original size:28 final size:28
Alignment explanation
Indices: 61300205--61300382 Score: 268
Period size: 28 Copynumber: 6.4 Consensus size: 28
61300195 ATATTAAGTC
*
61300205 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61300232 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
61300260 CGCACACTTAGTGCTACATAATCAACCT
1 CGCACACTTAGTGCTATATAATCAAACT
61300288 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61300316 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61300344 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61300373 CGCACACTTA
1 CGCACACTTA
61300383 CGCCAATCTC
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
27 22 0.16
28 101 0.73
29 15 0.11
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61303962 original size:25 final size:25
Alignment explanation
Indices: 61303915--61303963 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
61303905 TCCAAGCTAA
*
61303915 TCAGGAAACTCATAAGAGTTTTTAC
1 TCAGGAAACTCATAAGAGCTTTTAC
*
61303940 TCAGGAAGCTCAT-AGAGCCTTTTA
1 TCAGGAAACTCATAAGAG-CTTTTA
61303964 GATATCTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (25 bp):
TCAGGAAACTCATAAGAGCTTTTAC
Found at i:61305127 original size:19 final size:17
Alignment explanation
Indices: 61305095--61305129 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
61305085 ATAAGATGAT
61305095 ATTATCTATTTAATTTA
1 ATTATCTATTTAATTTA
61305112 ATTATCATATTTTAATTT
1 ATTATC-TA-TTTAATTT
61305130 TGTCACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATCTATTTAATTTA
Found at i:61310936 original size:12 final size:12
Alignment explanation
Indices: 61310919--61310943 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61310909 GCCGACTACT
61310919 GTTACTGTTACC
1 GTTACTGTTACC
61310931 GTTACTGTTACC
1 GTTACTGTTACC
61310943 G
1 G
61310944 GTTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:61310972 original size:45 final size:45
Alignment explanation
Indices: 61310921--61311030 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
61310911 CGACTACTGT
* * *
61310921 TACTGTTACCGTTACTGTTACCGGTTCGGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTTGAA
* *
61310966 TACTGTTACTGTTACGGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTTGAA
61311011 TACTGTTACTGTTACTGTTA
1 TACTGTTACTGTTACTGTTA
61311031 GTGTTCCAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTTGAA
Found at i:61311232 original size:18 final size:18
Alignment explanation
Indices: 61311211--61311400 Score: 158
Period size: 18 Copynumber: 10.6 Consensus size: 18
61311201 TAACTAATTA
61311211 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
61311229 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
61311247 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* *
61311265 TTACTGAATAATTGAATA
1 TTACTGAATAATTGACTG
* *
61311283 TTTCTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
61311301 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
61311319 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
61311337 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
61311356 TT-CTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
61311372 TTATTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
61311390 TTACTGGATAA
1 TTACTGAATAA
61311401 CCAATCAATT
Statistics
Matches: 140, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
16 4 0.03
17 17 0.12
18 107 0.76
19 12 0.09
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:61311480 original size:18 final size:18
Alignment explanation
Indices: 61311199--61311493 Score: 132
Period size: 18 Copynumber: 16.1 Consensus size: 18
61311189 AAAGGTATAA
* *
61311199 AATAACTAATTATTACTG
1 AATAACTGATTGTTACTG
* * *
61311217 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* * *
61311235 GATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* * *
61311253 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* * * *
61311271 AATAATTGAATATTTCTG
1 AATAACTGATTGTTACTG
* **
61311289 AATAATTGATCATTACTG
1 AATAACTGATTGTTACTG
*
61311307 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
*
61311325 AATGAA-TGACTGTTACTG
1 AAT-AACTGATTGTTACTG
*
61311343 AATAACTTAATTGTT-CTG
1 AATAAC-TGATTGTTACTG
* *
61311361 AATATCTGATT-TTATTG
1 AATAACTGATTGTTACTG
* *
61311378 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
61311396 GATAACCAATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
61311422 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
61311440 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
* *
61311458 TATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
61311476 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
61311493 A
1 A
61311494 GTGTTAATGA
Statistics
Matches: 211, Mismatches: 51, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
16 2 0.01
17 23 0.11
18 156 0.74
19 11 0.05
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.39
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:61317842 original size:12 final size:12
Alignment explanation
Indices: 61317825--61317849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61317815 TGCCGACTAT
61317825 GTTACTGTTACC
1 GTTACTGTTACC
61317837 GTTACTGTTACC
1 GTTACTGTTACC
61317849 G
1 G
61317850 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:61317878 original size:45 final size:45
Alignment explanation
Indices: 61317827--61317937 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
61317817 CCGACTATGT
* **
61317827 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
* * *
61317872 TACTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
61317917 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
61317938 TGTTCCGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:61317928 original size:6 final size:6
Alignment explanation
Indices: 61317917--61317941 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61317907 GTGTGTTGAA
61317917 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
61317942 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:61319586 original size:28 final size:28
Alignment explanation
Indices: 61319523--61319645 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
61319513 ATATTAAGTC
*
61319523 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61319550 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
61319578 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61319606 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61319635 CGCACACTTAG
1 CGCACACTTAG
61319646 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.26
28 48 0.56
29 15 0.18
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61319593 original size:55 final size:57
Alignment explanation
Indices: 61319522--61319645 Score: 180
Period size: 55 Copynumber: 2.2 Consensus size: 57
61319512 TATATTAAGT
* * *
61319522 CCGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATACAATTCAAAC
* * *
61319577 TCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATACAATTCAAAC
61319634 CCGCACACTTAG
1 CCGCACACTTAG
61319646 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.38
56 21 0.35
57 16 0.27
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (57 bp):
CCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATACAATTCAAAC
Found at i:61320114 original size:12 final size:12
Alignment explanation
Indices: 61320097--61320122 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61320087 TGGGCATACT
61320097 TATGTATATATA
1 TATGTATATATA
61320109 TATGTATATATA
1 TATGTATATATA
61320121 TA
1 TA
61320123 CTTCGGAATG
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:61321657 original size:18 final size:18
Alignment explanation
Indices: 61321634--61321819 Score: 98
Period size: 18 Copynumber: 10.4 Consensus size: 18
61321624 AATTACTGAT
61321634 TATTACTGAATAATTGAC
1 TATTACTGAATAATTGAC
* *
61321652 TATTACCGGATAATTGAC
1 TATTACTGAATAATTGAC
* * *
61321670 TGTTACTGGAT-GTTAGAC
1 TATTACTGAATAATT-GAC
* * *
61321688 TGTTACTGAAT-ACTGAA
1 TATTACTGAATAATTGAC
61321705 TATTACTGAATAATTGA-
1 TATTACTGAATAATTGAC
* *
61321722 TCATTACTGAATAACTGAT
1 T-ATTACTGAATAATTGAC
* *
61321741 TGTCACTGAATGAA-TGAC
1 TATTACTGAAT-AATTGAC
* * *
61321759 TGA-TACCGAATAACTTAAT
1 T-ATTACTGAATAA-TTGAC
*
61321778 TGTTACTGAAT-ATCTGA-
1 TATTACTGAATAAT-TGAC
* *
61321795 TTTTATTGAATAATTGAC
1 TATTACTGAATAATTGAC
*
61321813 TGTTACT
1 TATTACT
61321820 AGATAACCGA
Statistics
Matches: 129, Mismatches: 27, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
17 30 0.23
18 86 0.67
19 13 0.10
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
TATTACTGAATAATTGAC
Found at i:61321760 original size:71 final size:71
Alignment explanation
Indices: 61321627--61321789 Score: 168
Period size: 71 Copynumber: 2.3 Consensus size: 71
61321617 GGTATAAAAT
* * * * * * *
61321627 TACTGATTATTACTGAATAATTGACTATTACCGGATAATTGACTGTTACTGGATGTTAGACTGTT
1 TACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATGATAGACTGAT
*
61321692 ACTGAA
66 ACCGAA
* *
61321698 TACTGAATATTACTGAATAATTGA-TCATTACTGAATAACTGATTGTCACTGAATGA-ATGACTG
1 TACTGAATATTACTGAATAATTGACT-ATTACCGAATAACTGACTGTCACTGAATGATA-GACTG
61321761 ATACCGAA
64 ATACCGAA
* *
61321769 TAACTTAATTGTTACTGAATA
1 T-ACTGAA-TATTACTGAATA
61321790 TCTGATTTTA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
70 2 0.03
71 58 0.76
72 5 0.07
73 11 0.14
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (71 bp):
TACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATGATAGACTGAT
ACCGAA
Found at i:61321813 original size:54 final size:55
Alignment explanation
Indices: 61321725--61321905 Score: 156
Period size: 54 Copynumber: 3.2 Consensus size: 55
61321715 TAATTGATCA
* * * *
61321725 TTACTGAATAACTGATTGTCACTGAATGAA-TGACTGATACCGAATAACTTAATTG
1 TTACTGAATAACTGATTATTATTGAAT-AATTGACTGTTACCGAATAACTTAATTG
* *
61321780 TTACTGAATATCTGATT-TTATTGAATAATTGACTGTTA-CTAGATAACCGATTAATTG
1 TTACTGAATAACTGATTATTATTGAATAATTGACTGTTACCGA-ATAA-C--TTAATTG
* * *
61321837 ATCGATACTGAATAACT-AGTTATTATTGAATAATTGATTGTTACCGAATAAC-TGACTG
1 -T---TACTGAATAACTGA-TTATTATTGAATAATTGACTGTTACCGAATAACTTAATTG
61321895 TTACTGAATAA
1 TTACTGAATAA
61321906 ATAATTGTTC
Statistics
Matches: 104, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
53 4 0.04
54 29 0.28
55 17 0.16
57 8 0.08
58 5 0.05
60 1 0.01
61 14 0.13
62 24 0.23
63 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (55 bp):
TTACTGAATAACTGATTATTATTGAATAATTGACTGTTACCGAATAACTTAATTG
Found at i:61321903 original size:36 final size:36
Alignment explanation
Indices: 61321636--61321918 Score: 139
Period size: 36 Copynumber: 7.7 Consensus size: 36
61321626 TTACTGATTA
* * * * *
61321636 TTACTGAATAATTGACTATTACCGGATAATTGACTG
1 TTACTGAATAATTGATTGTTACTGAATAACTGACTG
* * * * *
61321672 TTACTGGAT-GTTAGACTGTTACTGAAT-ACTGAATA
1 TTACTGAATAATT-GATTGTTACTGAATAACTGACTG
** *
61321707 TTACTGAATAATTGATCATTACTGAATAACTGATTG
1 TTACTGAATAATTGATTGTTACTGAATAACTGACTG
* * * * * *
61321743 TCACTGAATGAA-TGACTGATACCGAATAACTTAATTG
1 TTACTGAAT-AATTGATTGTTACTGAATAAC-TGACTG
* *
61321780 TTACTGAAT-ATCTGATT-TTATTGAATAATTGACTG
1 TTACTGAATAAT-TGATTGTTACTGAATAACTGACTG
* * * *
61321815 TTACTAGATAACCGATTAATTGATCGATACTGAATAACT-AGTTA
1 TTACT-G---A---A-TAATTGATTGTTACTGAATAACTGA-CTG
* *
61321859 TTATTGAATAATTGATTGTTACCGAATAACTGACTG
1 TTACTGAATAATTGATTGTTACTGAATAACTGACTG
* *
61321895 TTACTGAATAAATAATTGTT-CTGA
1 TTACTGAATAATTGATTGTTACTGA
61321919 GTGTTAATGA
Statistics
Matches: 182, Mismatches: 46, Indels: 39
0.68 0.17 0.15
Matches are distributed among these distances:
35 39 0.21
36 95 0.52
37 21 0.12
39 1 0.01
40 1 0.01
42 1 0.01
43 7 0.04
44 17 0.09
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
TTACTGAATAATTGATTGTTACTGAATAACTGACTG
Found at i:61321914 original size:18 final size:18
Alignment explanation
Indices: 61321688--61321918 Score: 78
Period size: 18 Copynumber: 12.5 Consensus size: 18
61321678 GATGTTAGAC
61321688 TGTTACTGAAT-ACTGAA-
1 TGTTACTGAATAACT-AAT
* * *
61321705 TATTACTGAATAATTGAT
1 TGTTACTGAATAACTAAT
** *
61321723 CATTACTGAATAACTGAT
1 TGTTACTGAATAACTAAT
* * *
61321741 TGTCACTGAATGAA-TGAC
1 TGTTACTGAAT-AACTAAT
* *
61321759 TGATACCGAATAACTTAAT
1 TGTTACTGAATAAC-TAAT
* *
61321778 TGTTACTGAATATCTGAT
1 TGTTACTGAATAACTAAT
* * * *
61321796 T-TTATTGAATAATTGAC
1 TGTTACTGAATAACTAAT
61321813 TGTTACT-AGATAACCGATTAAT
1 TGTTACTGA-ATAA-C---TAAT
*
61321835 TGATCGATACTGAATAACTAGT
1 TG-T---TACTGAATAACTAAT
* * * *
61321857 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTAAT
* * *
61321875 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTAAT
*
61321893 TGTTACTGAATAAATAAT
1 TGTTACTGAATAACTAAT
61321911 TGTT-CTGA
1 TGTTACTGA
61321919 GTGTTAATGA
Statistics
Matches: 157, Mismatches: 41, Indels: 32
0.68 0.18 0.14
Matches are distributed among these distances:
17 31 0.20
18 91 0.58
19 15 0.10
21 1 0.01
22 8 0.05
23 1 0.01
25 1 0.01
26 8 0.05
27 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTTACTGAATAACTAAT
Found at i:61323556 original size:20 final size:21
Alignment explanation
Indices: 61323526--61323570 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
61323516 TGATATGCCA
61323526 TGATGAATGATAGAATTTGCT
1 TGATGAATGATAGAATTTGCT
61323547 TGAT-AATGATAGAATTTGCT
1 TGATGAATGATAGAATTTGCT
61323567 TGAT
1 TGAT
61323571 TTGAATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (21 bp):
TGATGAATGATAGAATTTGCT
Found at i:61330472 original size:23 final size:23
Alignment explanation
Indices: 61330397--61330479 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 23
61330387 GCTTTATCAT
*
61330397 ATAACTGGAGGCCT-AGCCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
*
61330422 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
61330446 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
61330469 ATAACTGGGGC
1 ATAACTGGGGC
61330480 TTAATAACTG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 15 0.28
24 23 0.43
25 15 0.28
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:61330485 original size:14 final size:14
Alignment explanation
Indices: 61330466--61330493 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61330456 CATAAGCCCT
61330466 TTAATAACTGGGGC
1 TTAATAACTGGGGC
61330480 TTAATAACTGGGGC
1 TTAATAACTGGGGC
61330494 ATAAGCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
TTAATAACTGGGGC
Found at i:61330493 original size:37 final size:37
Alignment explanation
Indices: 61330443--61330516 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
61330433 AAAAGCCCTT
61330443 TTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
1 TTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
61330480 TTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
1 TTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
61330517 ATAAGCCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (37 bp):
TTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
Found at i:61330506 original size:23 final size:23
Alignment explanation
Indices: 61330480--61330550 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
61330470 TAACTGGGGC
61330480 TTAATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
61330503 TTAATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
61330526 TTAATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
61330549 TT
1 TT
61330551 TTCACTTCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTAATAACTGGGGCATAAGCCCT
Found at i:61330523 original size:60 final size:61
Alignment explanation
Indices: 61330421--61330539 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 61
61330411 AGCCTCTTTG
61330421 AATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCTT
1 AATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCTT
*
61330482 AATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
1 AATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGC
61330540 ATAAGCCCTT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 38 0.67
61 19 0.33
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (61 bp):
AATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCTT
Found at i:61330627 original size:20 final size:20
Alignment explanation
Indices: 61330602--61330640 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
61330592 TATGATTACA
61330602 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
61330622 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
61330641 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:61330646 original size:20 final size:20
Alignment explanation
Indices: 61330603--61330647 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
61330593 ATGATTACAT
**
61330603 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
61330623 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
61330643 CATGT
1 CATGT
61330648 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:61330712 original size:25 final size:25
Alignment explanation
Indices: 61330684--61330731 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61330674 ATACATAAAC
* *
61330684 CCTAGGGGTATAATGGTAATTTTTA
1 CCTAGGGGCAAAATGGTAATTTTTA
*
61330709 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTAATTTT
61330732 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTAATTTTTA
Found at i:61333304 original size:40 final size:40
Alignment explanation
Indices: 61333249--61333328 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
61333239 CATTTCCCAT
61333249 GAATTTTTGGTAAGGTAAATTTAGCATGAATTTTAAAGTA
1 GAATTTTTGGTAAGGTAAATTTAGCATGAATTTTAAAGTA
61333289 GAATTTTTGGTAAGGTAAATTTAGCATGAATTTTAAAGTA
1 GAATTTTTGGTAAGGTAAATTTAGCATGAATTTTAAAGTA
61333329 TGTTTCAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.40
Consensus pattern (40 bp):
GAATTTTTGGTAAGGTAAATTTAGCATGAATTTTAAAGTA
Found at i:61335089 original size:27 final size:27
Alignment explanation
Indices: 61335059--61335112 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61335049 TCATACAACC
* *
61335059 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
61335086 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
61335113 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:61348455 original size:36 final size:36
Alignment explanation
Indices: 61348399--61348467 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
61348389 GGAGTGCATA
* *
61348399 AGTTAGAATAGATTCGAAAGGCTGCTGAACTGAGTC
1 AGTTAGAATAGATTCAAAAGGCTACTGAACTGAGTC
*
61348435 AGTTAGAATAGA-TCAAAAAGGCTATTGAACTGA
1 AGTTAGAATAGATTC-AAAAGGCTACTGAACTGA
61348468 ATAGAGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (36 bp):
AGTTAGAATAGATTCAAAAGGCTACTGAACTGAGTC
Found at i:61351649 original size:20 final size:20
Alignment explanation
Indices: 61351624--61351663 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
61351614 GTGTTAGTTT
61351624 TTCAAAATTCACTAGTTTAG
1 TTCAAAATTCACTAGTTTAG
61351644 TTCAAAATTCACTAGTTTAG
1 TTCAAAATTCACTAGTTTAG
61351664 GGTTTACCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TTCAAAATTCACTAGTTTAG
Found at i:61366063 original size:15 final size:15
Alignment explanation
Indices: 61366043--61366098 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
61366033 CGTATCTTGG
61366043 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
61366058 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
61366073 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
61366088 TTTCTTTATTC
1 TTTCTTTATTC
61366099 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:61381359 original size:34 final size:33
Alignment explanation
Indices: 61381315--61381454 Score: 88
Period size: 34 Copynumber: 4.3 Consensus size: 33
61381305 ATATTGATAT
*
61381315 GGGCTAAGGCCCAGTTAACTCTGATTACTGAATA
1 GGGCTTAGGCCCAGTTAACTCTGA-TACTGAATA
61381349 GGGCTTAGGCCCAG-TATACTCTGGA-ACTGTAA-A
1 GGGCTTAGGCCCAGTTA-ACTCT-GATACTG-AATA
61381382 GGGC-TATGGCCCAGATTAA---T-AT--TG-ATA
1 GGGCTTA-GGCCCAG-TTAACTCTGATACTGAATA
**
61381409 TGGG-TTAAGGCCCAGTTAACTCTGATTTTTGAATA
1 -GGGCTT-AGGCCCAGTTAACTCTGA-TACTGAATA
61381444 GGGCTTAGGCC
1 GGGCTTAGGCC
61381455 GAGTAAAGCT
Statistics
Matches: 85, Mismatches: 1, Indels: 40
0.67 0.01 0.32
Matches are distributed among these distances:
26 1 0.01
27 5 0.06
28 13 0.15
29 2 0.02
30 1 0.01
31 2 0.02
32 3 0.04
33 18 0.21
34 31 0.36
35 9 0.11
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (33 bp):
GGGCTTAGGCCCAGTTAACTCTGATACTGAATA
Found at i:61381364 original size:95 final size:95
Alignment explanation
Indices: 61381246--61381459 Score: 299
Period size: 95 Copynumber: 2.3 Consensus size: 95
61381236 CCCAGATTGA
* * *
61381246 TACTG-ATATGGGC-TAGGCCCAGTATACT-TTGATATTGCAAGGGGCTATGACCCAAATTAATA
1 TACTGAATA-GGGCTTAGGCCCAGTATACTCTGGA-ACTGCAAAGGGCTATGACCCAAATTAATA
61381308 TTGATATGGGCTAAGGCCCAGTTAACTCTGAT
64 TTGATATGGGCTAAGGCCCAGTTAACTCTGAT
* * *
61381340 TACTGAATAGGGCTTAGGCCCAGTATACTCTGGAACTGTAAAGGGCTATGGCCCAGATTAATATT
1 TACTGAATAGGGCTTAGGCCCAGTATACTCTGGAACTGCAAAGGGCTATGACCCAAATTAATATT
*
61381405 GATATGGGTTAAGGCCCAGTTAACTCTGAT
66 GATATGGGCTAAGGCCCAGTTAACTCTGAT
** *
61381435 TTTTGAATAGGGCTTAGGCCGAGTA
1 TACTGAATAGGGCTTAGGCCCAGTA
61381460 AAGCTTGAAC
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
94 9 0.08
95 95 0.89
96 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (95 bp):
TACTGAATAGGGCTTAGGCCCAGTATACTCTGGAACTGCAAAGGGCTATGACCCAAATTAATATT
GATATGGGCTAAGGCCCAGTTAACTCTGAT
Found at i:61384376 original size:19 final size:19
Alignment explanation
Indices: 61384339--61384377 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
61384329 AAAGCCGAAT
**
61384339 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
61384358 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
61384377 T
1 T
61384378 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:61384977 original size:16 final size:15
Alignment explanation
Indices: 61384952--61384982 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
61384942 ACTAAATCGC
61384952 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAAGCT
61384967 AAAATGCCGAAAAGCT
1 AAAA-GCCGAAAAGCT
61384983 GGCATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (15 bp):
AAAAGCCGAAAAGCT
Found at i:61385790 original size:28 final size:28
Alignment explanation
Indices: 61385689--61385794 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 28
61385679 ACTTGTAATA
* *
61385689 GGGCTACGGCCCAGATTAATACTGATAC
1 GGGCTAAGGCCCAGATTAATATTGATAC
* *
61385717 GGGCT-AGGCCCAGTATACTCTGATATTG-TAAG
1 GGGCTAAGGCCCAG---A-T-TAATATTGAT-AC
* * *
61385749 GGGCTATGGTCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAGATTAATATTGATAC
61385777 GGGCTAAGGCCCAG-TTAA
1 GGGCTAAGGCCCAGATTAA
61385795 CTCTGATTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
27 11 0.18
28 25 0.42
29 2 0.03
30 2 0.03
31 2 0.03
32 12 0.20
33 6 0.10
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATATTGATAC
Found at i:61385815 original size:34 final size:32
Alignment explanation
Indices: 61385777--61385916 Score: 80
Period size: 34 Copynumber: 4.3 Consensus size: 32
61385767 ATATTGATAT
61385777 GGGCTAAGGCCCAGTTAACTCTGATTTCTGAATA
1 GGGCTAAGGCCCAGTTAACTCTGA--TCTGAATA
* * * *
61385811 GGGCTTAGGCCC-GGTATACTCTGGAACTGTAA-G
1 GGGCTAAGGCCCAGTTA-ACTCT-GATCTG-AATA
*
61385844 GGGCTATGGCCCAGATTAA---T-AT-TG-ATA
1 GGGCTAAGGCCCAG-TTAACTCTGATCTGAATA
*
61385871 TGGGCTAAGGCCTAGTTAACTCTGATTTCTGAATA
1 -GGGCTAAGGCCCAGTTAACTCTGA--TCTGAATA
*
61385906 GGGCTTAGGCC
1 GGGCTAAGGCC
61385917 AAGTAAAGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 30
0.65 0.10 0.25
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 14 0.18
29 1 0.01
30 1 0.01
31 2 0.03
33 17 0.22
34 32 0.41
35 7 0.09
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (32 bp):
GGGCTAAGGCCCAGTTAACTCTGATCTGAATA
Found at i:61385845 original size:95 final size:95
Alignment explanation
Indices: 61385717--61385921 Score: 342
Period size: 95 Copynumber: 2.2 Consensus size: 95
61385707 ATACTGATAC
* *
61385717 GGGC-TAGGCCCAGTATACTCTGATATTGTAAGGGGCTATGGTCCAGATTAATATTGATATGGGC
1 GGGCTTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGATATGGGC
61385781 TAAGGCCCAGTTAACTCTGATTTCTGAATA
66 TAAGGCCCAGTTAACTCTGATTTCTGAATA
*
61385811 GGGCTTAGGCCCGGTATACTCTGGA-ACTGTAAGGGGCTATGGCCCAGATTAATATTGATATGGG
1 GGGCTTAGGCCCAGTATACTCT-GATACTGTAAGGGGCTATGGCCCAGATTAATATTGATATGGG
*
61385875 CTAAGGCCTAGTTAACTCTGATTTCTGAATA
65 CTAAGGCCCAGTTAACTCTGATTTCTGAATA
*
61385906 GGGCTTAGGCCAAGTA
1 GGGCTTAGGCCCAGTA
61385922 AAGCTTGAAC
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
94 4 0.04
95 97 0.94
96 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (95 bp):
GGGCTTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGATATGGGC
TAAGGCCCAGTTAACTCTGATTTCTGAATA
Found at i:61388468 original size:30 final size:30
Alignment explanation
Indices: 61388432--61388491 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
61388422 TCATCAGGTT
61388432 TGAGGAATTTCGTGTCTTTATGAATGTAGG
1 TGAGGAATTTCGTGTCTTTATGAATGTAGG
61388462 TGAGGAATTTCGTGTCTTTATGAATGTAGG
1 TGAGGAATTTCGTGTCTTTATGAATGTAGG
61388492 ACATCTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (30 bp):
TGAGGAATTTCGTGTCTTTATGAATGTAGG
Found at i:61388850 original size:17 final size:17
Alignment explanation
Indices: 61388828--61388862 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61388818 GAAATTAAAT
61388828 GCTTAATATTAGCTTTA
1 GCTTAATATTAGCTTTA
61388845 GCTTAATATTAGCTTTA
1 GCTTAATATTAGCTTTA
61388862 G
1 G
61388863 GATTGTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (17 bp):
GCTTAATATTAGCTTTA
Found at i:61390434 original size:28 final size:28
Alignment explanation
Indices: 61390366--61390575 Score: 332
Period size: 28 Copynumber: 7.5 Consensus size: 28
61390356 CATGAGATTG
* * * * *
61390366 GCACTAAGTGTACGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61390395 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61390423 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61390451 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61390479 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
61390507 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61390535 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61390562 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61390576 GACTTAATAT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
27 23 0.13
28 131 0.77
29 17 0.10
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61394322 original size:28 final size:28
Alignment explanation
Indices: 61394254--61394407 Score: 213
Period size: 28 Copynumber: 5.5 Consensus size: 28
61394244 CATGAGATTG
* * * * *
61394254 GCACTAAGTGTACGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61394283 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61394311 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
61394339 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61394367 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61394394 GCACTGAA-TGTGCG
1 GCACT-AAGTGTGCG
61394408 GACTTAATAT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.18
28 77 0.67
29 17 0.15
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61397057 original size:30 final size:30
Alignment explanation
Indices: 61397023--61397079 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
61397013 TTCACGAGCC
* *
61397023 TAGGGGCAAAAGTGTAATTTTTACAAAATT
1 TAGGGGCAAAAATGTAAATTTTACAAAATT
* *
61397053 TAGGGGTAAAAATGTAAATTTTCCAAA
1 TAGGGGCAAAAATGTAAATTTTACAAA
61397080 TTTTGATTTT
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:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATTTTACAAAATT
Found at i:61404381 original size:28 final size:28
Alignment explanation
Indices: 61404349--61404404 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
61404339 AGGTTAGTTA
61404349 AAACAAAACAAAATTCCTAATTTTTGTC
1 AAACAAAACAAAATTCCTAATTTTTGTC
61404377 AAACAAAACAAAATTCCTAATTTTTGTC
1 AAACAAAACAAAATTCCTAATTTTTGTC
61404405 TATCTTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (28 bp):
AAACAAAACAAAATTCCTAATTTTTGTC
Found at i:61420195 original size:67 final size:65
Alignment explanation
Indices: 61420008--61420187 Score: 197
Period size: 67 Copynumber: 2.8 Consensus size: 65
61419998 ATATAGTTCG
* * * * *
61420008 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CA-GTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTCACATATATCCCGT
61420070 A
65 A
* * * *
61420071 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCT-ACATATATCCC
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTCACATATATCCC
61420135 GTA
63 GTA
* *
61420138 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCT
61420188 ACAACATAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 24 0.25
66 24 0.25
67 29 0.30
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTCACATATATCCCGTA
Found at i:61424865 original size:85 final size:85
Alignment explanation
Indices: 61424707--61424865 Score: 180
Period size: 85 Copynumber: 1.9 Consensus size: 85
61424697 TATTGAGATA
* * * *
61424707 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGATATTTACGCATAAGACCATGTCTAGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGATATTTACACATAAGACCACGTCTAGGA
*
61424772 CATTGGCATCATATCTGATT
66 CATCGGCATCATATCTGATT
** **
61424792 TCGTGTAAGACCCTGTCTGGGACTGAGGCATCGATATTGA-A-TTACATGTAAGACCACGT-TAG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGATATTTACACATAAGACCACGTCTA-
*
61424854 GGACGTCGGCAT
63 GGACATCGGCAT
61424866 TGTACTTGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
84 2 0.03
85 53 0.87
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGATATTTACACATAAGACCACGTCTAGGA
CATCGGCATCATATCTGATT
Found at i:61428816 original size:27 final size:26
Alignment explanation
Indices: 61428786--61428842 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
61428776 TAGGGTAGAT
* *
61428786 TTACTGAAATGCCATTGGTTTAAAAAA
1 TTACTG-AATACCACTGGTTTAAAAAA
* *
61428813 TTACTGAATACCCCTGGTTTATAAAA
1 TTACTGAATACCACTGGTTTAAAAAA
61428839 TTAC
1 TTAC
61428843 CAAAATACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (26 bp):
TTACTGAATACCACTGGTTTAAAAAA
Found at i:61428849 original size:27 final size:27
Alignment explanation
Indices: 61428819--61429123 Score: 190
Period size: 27 Copynumber: 11.3 Consensus size: 27
61428809 AAAATTACTG
* *
61428819 AATACCCCTGGTTTATAAAATTACCAA
1 AATACCCCTGATTTGTAAAATTACCAA
* * *
61428846 AATACCCCTAATTTGTGAAATTACCGA
1 AATACCCCTGATTTGTAAAATTACCAA
**
61428873 AATA-CCCTCGACCTGTAAAATTACCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * **
61428900 AATACCCTTGACTTGTAAAATTACTGA
1 AATACCCCTGATTTGTAAAATTACCAA
* * *
61428927 AATA-ACCTCGATTTATAAAATTACCTA
1 AATACCCCT-GATTTGTAAAATTACCAA
* * **
61428954 GATACCCCTGATTTGGAAAATTACTGA
1 AATACCCCTGATTTGTAAAATTACCAA
* *
61428981 AATACCCTTGATTTGGAAAATTA-CAGA
1 AATACCCCTGATTTGTAAAATTACCA-A
**
61429008 AATACCCCTGATTTACAAAATTA-CAGA
1 AATACCCCTGATTTGTAAAATTACCA-A
* **
61429035 AATACCCTTGACTTTCAAAAATTA-CAGA
1 AATACCCCTGA-TTTGTAAAATTACCA-A
* * * **
61429063 AATA-CCATTATTTTGCAAAATTACTGA
1 AATACCCCTGA-TTTGTAAAATTACCAA
* * * *
61429090 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCCCTGATTTGTAAAATTACCAA
*
61429117 AACACCC
1 AATACCC
61429124 TAGTAGGGTG
Statistics
Matches: 218, Mismatches: 52, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
26 6 0.03
27 185 0.85
28 27 0.12
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AATACCCCTGATTTGTAAAATTACCAA
Found at i:61428892 original size:54 final size:54
Alignment explanation
Indices: 61428809--61429123 Score: 280
Period size: 54 Copynumber: 5.8 Consensus size: 54
61428799 ATTGGTTTAA
* * *
61428809 AAAATTACTG-AATACCC-CTGGTTTATAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTGAAATACCCTC-GATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * ** * *
61428862 GAAATTACCGAAATACCCTCGACCTGTAAAATTACCAAAATACCCTTGACTTGT
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * *
61428916 AAAATTACTGAAATAACCTCGATTTATAAAATTACCTAGATACCCCTGATTTGG
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * **
61428970 AAAATTACTGAAATACCCTTGATTTGGAAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCA-AAATACCCCTGATTTGT
* * ** * * *
61429024 AAAATTACAGAAATACCCTTGACTTTCAAAAATTA-CAGAAATA-CCATTATTTTGC
1 AAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCA-AAATACCCCTGA-TTTGT
* * * * *
61429079 AAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCC
61429124 TAGTAGGGTG
Statistics
Matches: 214, Mismatches: 41, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
53 9 0.04
54 158 0.74
55 47 0.22
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:61428930 original size:81 final size:80
Alignment explanation
Indices: 61428819--61429096 Score: 240
Period size: 81 Copynumber: 3.4 Consensus size: 80
61428809 AAAATTACTG
* * * ** * * *
61428819 AATACCCCTGGTTTATAAAATTACCAAAATACCCCTAATTTGTGAAATTACCGAAATACCCTCGA
1 AATACCCTTGATTTGTAAAATTACTGAAATACCCCTGATTTATAAAATTACCGAAATACCCTCGA
61428884 CCTGTAAAATTACCAA
66 -CTGTAAAATTACCAA
* * * *
61428900 AATACCCTTGACTTGTAAAATTACTGAAATA-ACCTCGATTTATAAAATTACCTAGATACCC-CT
1 AATACCCTTGATTTGTAAAATTACTGAAATACCCCT-GATTTATAAAATTACCGAAATACCCTC-
* * **
61428963 GATTTGGAAAATTACTGA
64 GA-CTGTAAAATTACCAA
* * * * *
61428981 AATACCCTTGATTTGGAAAATTACAGAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGA
1 AATACCCTTGATTTGTAAAATTACTGAAATACCCCTGATTTATAAAATTACCGAAATACCCTCGA
*
61429046 CTTTCAAAAATTA-CAGA
66 CTGT--AAAATTACCA-A
* *
61429063 AATACCATT-ATTTTGCAAAATTACTGAAATACCC
1 AATACCCTTGA-TTTGTAAAATTACTGAAATACCC
61429097 TTGGTTTGTA
Statistics
Matches: 155, Mismatches: 34, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
80 5 0.03
81 110 0.71
82 40 0.26
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AATACCCTTGATTTGTAAAATTACTGAAATACCCCTGATTTATAAAATTACCGAAATACCCTCGA
CTGTAAAATTACCAA
Found at i:61429428 original size:41 final size:41
Alignment explanation
Indices: 61429364--61429484 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
61429354 AGAGGAAGAA
* * *
61429364 ATTGAGAATCGCATGGTTACTTGACGACCATGGATCCACAG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACAG
* * *
61429405 ATTGAGGATCGCATGGCTGCTTGACGACCGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACAG
* *
61429446 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
61429485 CAGTGGCTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACAG
Found at i:61433925 original size:45 final size:45
Alignment explanation
Indices: 61433661--61433922 Score: 308
Period size: 45 Copynumber: 5.9 Consensus size: 45
61433651 TTTCATCAAA
* * **
61433661 TCACCGGCATT-TAGCCTGCTAGGTTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGG-CTCAAAGGCCCGAATAGT-ATC
* * * * *
61433704 TCACTGGCATT-TCGCCTGCTAGGCTC-GAGGCCC-AATA-TCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
*
61433746 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAGTAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
*
61433791 TCACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
61433836 TCACCGGCATTATAGCCTGCTAGGGTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
61433881 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
61433923 GTCGTACGAT
Statistics
Matches: 191, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
40 3 0.02
41 7 0.04
42 11 0.06
43 35 0.18
44 7 0.04
45 127 0.66
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:61439664 original size:25 final size:25
Alignment explanation
Indices: 61439636--61439714 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
61439626 CTAATGGCCG
61439636 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
61439661 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
61439683 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
61439708 ATGTGAT
1 ATGTGAT
61439715 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:61439686 original size:47 final size:47
Alignment explanation
Indices: 61439620--61440092 Score: 781
Period size: 47 Copynumber: 10.1 Consensus size: 47
61439610 GAAATGATAG
61439620 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61439667 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61439714 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
61439763 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61439810 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61439857 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61439903 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
61439949 -CAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
61439995 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
61440042 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61440089 TAAG
1 TAAG
61440093 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
45 24 0.06
46 78 0.20
47 250 0.63
49 47 0.12
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61442247 original size:41 final size:42
Alignment explanation
Indices: 61442116--61442293 Score: 317
Period size: 42 Copynumber: 4.3 Consensus size: 42
61442106 TTGGTTTTCA
61442116 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
61442158 GGCACTAAGTGTGC-GGCAATAAGTGTTCACGGTTGTGAGATT
1 -GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
61442200 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
61442242 G-ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
61442283 GGCACT-AGTGT
1 -GCACTAAGTGT
61442294 TAAGTGTGGT
Statistics
Matches: 132, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
41 53 0.40
42 63 0.48
43 16 0.12
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.29
Consensus pattern (42 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
Found at i:61442349 original size:29 final size:29
Alignment explanation
Indices: 61442307--61442378 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
61442297 GTGTGGTTGT
* *
61442307 GCACTAAGTGTGCGGGCTTGAAA-TGCATG
1 GCACTAAGTGTGCGAG-TTGAAAGTACATG
*
61442336 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTGAAAGTACATG
61442365 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61442379 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAGTACATG
Found at i:61442809 original size:39 final size:40
Alignment explanation
Indices: 61442686--61442942 Score: 242
Period size: 39 Copynumber: 6.5 Consensus size: 40
61442676 TCGAATGATG
* *
61442686 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * * *
61442726 TCC-GACTAAGAT-CTGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
61442765 TTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
61442805 T-CGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
**
61442844 TCCGGGCTAAGT-TTGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * * *
61442883 TCCGTGCTAA-ACCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
61442922 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
61442943 TAATCATGAT
Statistics
Matches: 176, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
39 121 0.69
40 43 0.24
41 12 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:61446550 original size:49 final size:49
Alignment explanation
Indices: 61446481--61446916 Score: 694
Period size: 49 Copynumber: 9.1 Consensus size: 49
61446471 GAAATGATAG
61446481 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61446530 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61446577 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61446626 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61446673 TAAGGCCTAATGGCCGATGTGAATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGTATATATATGTGA
* *
61446721 TAGGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61446770 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
61446817 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
61446866 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61446913 TAAG
1 TAAG
61446917 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 17, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
47 146 0.40
48 47 0.13
49 170 0.47
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:61446645 original size:96 final size:96
Alignment explanation
Indices: 61446481--61446916 Score: 688
Period size: 96 Copynumber: 4.6 Consensus size: 96
61446471 GAAATGATAG
61446481 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
61446546 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
61446577 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
61446642 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
61446673 TAAGGCCTAATGGCCGATGTGAATGAATGTGAAAGTG--TATATATGTGATAGGGCCTAATGGCC
1 TAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
*
61446736 GATGTGATGAATGTGGAAGTGTATATATATGTGA
65 GATGTGATGAATGTGAAAGTG--TATATATGTGA
61446770 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
61446833 ATGTGATGAATGTGGAAGTGTATATATAT-A
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
61446863 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 T-A-A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
61446917 TCCCGAAGGG
Statistics
Matches: 323, Mismatches: 9, Indels: 16
0.93 0.03 0.05
Matches are distributed among these distances:
93 2 0.01
94 9 0.03
95 46 0.14
96 216 0.67
97 48 0.15
98 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61446913 original size:240 final size:240
Alignment explanation
Indices: 61446484--61446916 Score: 767
Period size: 240 Copynumber: 1.8 Consensus size: 240
61446474 ATGATAGTAA
61446484 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
61446549 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * *
61446614 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
131 ATATATATATGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGC
61446679 CTAATGGCCGATGTGAATGAATGTGAAAGTGTATATATGTGATAG
196 CTAATGGCCGATGTGAATGAATGTGAAAGTGTATATATGTGATAG
*
61446724 GGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
*
61446789 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGT
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * *
61446854 ATATATATATGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 ATATATATATGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
61446917 TCCCGAAGGG
Statistics
Matches: 182, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
240 182 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (240 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATATGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGC
CTAATGGCCGATGTGAATGAATGTGAAAGTGTATATATGTGATAG
Found at i:61448942 original size:28 final size:24
Alignment explanation
Indices: 61448917--61448967 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
61448907 CTATATAAAG
61448917 TTGATAATAATTAATATATATTATAA
1 TTGAT-ATAATT-ATATATATTATAA
*
61448943 TTGATATAATTATATAT-TAATAA
1 TTGATATAATTATATATATTATAA
61448966 TT
1 TT
61448968 ATCAGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 6 0.25
25 6 0.25
26 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTGATATAATTATATATATTATAA
Found at i:61448944 original size:16 final size:15
Alignment explanation
Indices: 61448923--61448964 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
61448913 AAAGTTGATA
61448923 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
61448939 ATAATTGATATAATT
1 ATAATTAATATAATT
61448954 ATATATTAATA
1 ATA-ATTAATA
61448965 ATTATCAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:61454546 original size:25 final size:25
Alignment explanation
Indices: 61454507--61454590 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
61454497 GCTATTATTC
*
61454507 CGATAATACGATTGGCACAAAGCCAT
1 CGATAACA-GATTGGCACAAAGCCAT
*
61454533 CGATAACAGATTGGCACATAGCCAT
1 CGATAACAGATTGGCACAAAGCCAT
* * *
61454558 C-AGTATCATATCGGCACAAAGCCAT
1 CGA-TAACAGATTGGCACAAAGCCAT
*
61454583 CAATAACA
1 CGATAACA
61454591 TATCGACACG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
24 1 0.02
25 40 0.82
26 8 0.16
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (25 bp):
CGATAACAGATTGGCACAAAGCCAT
Found at i:61454592 original size:25 final size:25
Alignment explanation
Indices: 61454522--61454657 Score: 155
Period size: 25 Copynumber: 5.4 Consensus size: 25
61454512 ATACGATTGG
* * * *
61454522 CACAAAGCCATCGATAACAGATTGG
1 CACAAAGCCATCAATAACATATCGA
* * * *
61454547 CACATAGCCATCAGTATCATATCGG
1 CACAAAGCCATCAATAACATATCGA
61454572 CACAAAGCCATCAATAACATATCGA
1 CACAAAGCCATCAATAACATATCGA
* * *
61454597 CACGAAGCCTTCAATAGCATATCGA
1 CACAAAGCCATCAATAACATATCGA
* *
61454622 CACAAAGCCTTCAATAGCATATCGA
1 CACAAAGCCATCAATAACATATCGA
61454647 CACAAAGCCAT
1 CACAAAGCCAT
61454658 AATCAGAATA
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 96 1.00
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (25 bp):
CACAAAGCCATCAATAACATATCGA
Found at i:61454922 original size:26 final size:26
Alignment explanation
Indices: 61454893--61455003 Score: 80
Period size: 26 Copynumber: 4.3 Consensus size: 26
61454883 TTTACCTAAT
*
61454893 AGGGGTAAAAC-GTCATTTTACCCTAC
1 AGGGGTAAAACAGT-AATTTACCCTAC
***
61454919 AGGGGTATTTCAGTAATTTACCCTAC
1 AGGGGTAAAACAGTAATTTACCCTAC
*** *
61454945 AGGGGTATTTCGGTAATTTACCCTAC
1 AGGGGTAAAACAGTAATTTACCCTAC
* *** *
61454971 AAGGGTATTTCGGTAATTTACCCTAC
1 AGGGGTAAAACAGTAATTTACCCTAC
*
61454997 AAGGGTA
1 AGGGGTA
61455004 TTTCGATAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (26 bp):
AGGGGTAAAACAGTAATTTACCCTAC
Found at i:61454949 original size:52 final size:52
Alignment explanation
Indices: 61454893--61455003 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 52
61454883 TTTACCTAAT
* *
61454893 AGGGGTAAAAC-GTCATTTTACCCTACAGGGGTATTTCAGTAATTTACCCTAC
1 AGGGGTAAAACGGT-AATTTACCCTACAAGGGTATTTCAGTAATTTACCCTAC
*** *
61454945 AGGGGTATTTCGGTAATTTACCCTACAAGGGTATTTCGGTAATTTACCCTAC
1 AGGGGTAAAACGGTAATTTACCCTACAAGGGTATTTCAGTAATTTACCCTAC
*
61454997 AAGGGTA
1 AGGGGTA
61455004 TTTCGATAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 49 0.96
53 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (52 bp):
AGGGGTAAAACGGTAATTTACCCTACAAGGGTATTTCAGTAATTTACCCTAC
Found at i:61455004 original size:26 final size:26
Alignment explanation
Indices: 61454909--61455015 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
61454899 AAAACGTCAT
* *
61454909 TTTACCCTACAGGGGTATTTCAGTAA
1 TTTACCCTACAAGGGTATTTCGGTAA
*
61454935 TTTACCCTACAGGGGTATTTCGGTAA
1 TTTACCCTACAAGGGTATTTCGGTAA
61454961 TTTACCCTACAAGGGTATTTCGGTAA
1 TTTACCCTACAAGGGTATTTCGGTAA
*
61454987 TTTACCCTACAAGGGTATTTCGATAA
1 TTTACCCTACAAGGGTATTTCGGTAA
61455013 TTT
1 TTT
61455016 TACAAACTAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTACCCTACAAGGGTATTTCGGTAA
Found at i:61455027 original size:26 final size:26
Alignment explanation
Indices: 61454921--61455033 Score: 95
Period size: 26 Copynumber: 4.3 Consensus size: 26
61454911 TACCCTACAG
** *
61454921 GGGTATTTC-AGTAATTTACCCTACAG
1 GGGTATTTCGA-TAATTTACCAAACAA
* **
61454947 GGGTATTTCGGTAATTTACCCTACAA
1 GGGTATTTCGATAATTTACCAAACAA
* **
61454973 GGGTATTTCGGTAATTTACCCTACAA
1 GGGTATTTCGATAATTTACCAAACAA
*
61454999 GGGTATTTCGATAATTTTA-CAAACTAG
1 GGGTATTTCGATAA-TTTACCAAAC-AA
61455026 GGGTATTT
1 GGGTATTT
61455034 TTGTAATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 65 0.83
27 13 0.17
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (26 bp):
GGGTATTTCGATAATTTACCAAACAA
Found at i:61455041 original size:53 final size:52
Alignment explanation
Indices: 61454917--61455042 Score: 155
Period size: 52 Copynumber: 2.4 Consensus size: 52
61454907 ATTTTACCCT
* * **
61454917 ACAGGGGTATTTCAGTAATTTACCCTACAGGGGTATTTCGGTAATTTACCCT
1 ACAGGGGTATTTCAGTAATTTACCCTACAAGGGTATTTCGATAATTTACCAA
* *
61454969 ACAAGGGTATTTCGGTAATTTACCCTACAAGGGTATTTCGATAATTTTA-CAA
1 ACAGGGGTATTTCAGTAATTTACCCTACAAGGGTATTTCGATAA-TTTACCAA
**
61455021 ACTAGGGGTATTTTTGTAATTT
1 AC-AGGGGTATTTCAGTAATTT
61455043 TACTAATCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 43 0.68
53 20 0.32
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (52 bp):
ACAGGGGTATTTCAGTAATTTACCCTACAAGGGTATTTCGATAATTTACCAA
Found at i:61457998 original size:39 final size:40
Alignment explanation
Indices: 61457902--61458082 Score: 183
Period size: 40 Copynumber: 4.5 Consensus size: 40
61457892 ATGATGTCCT
* * *
61457902 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATTCCG
* *
61457942 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* * *
61457982 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* * *
61458021 GGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
61458061 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
61458083 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 37 0.32
40 72 0.62
41 8 0.07
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:61458104 original size:79 final size:79
Alignment explanation
Indices: 61457951--61458115 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
61457941 GGACTAAGAT
* ** *
61457951 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
* *
61458016 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * * *
61458030 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
61458093 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
61458109 CCGAAGG
1 CCGAAGG
61458116 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCTCGGTTAAATC
Found at i:61461243 original size:25 final size:25
Alignment explanation
Indices: 61461214--61461404 Score: 166
Period size: 25 Copynumber: 7.6 Consensus size: 25
61461204 CGATAATATG
** *
61461214 ATCGGCACAAAGCCATTGATAACAA
1 ATCGGCACAAAGCCATCAATAACAT
* * *
61461239 ATCGGTACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* * *
61461264 ATCGGTACAAAGCCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* * * **
61461289 ATCGACACATATCCATCAATATTAT
1 ATCGGCACAAAGCCATCAATAACAT
*
61461314 ATCAGCACAAAGCCATCAATAACAT
1 ATCGGCACAAAGCCATCAATAACAT
* * * * * * *
61461339 ACCAGCGCGAAGCCTTTAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
* *
61461364 ATCGGCACAAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
61461389 ATCGGCACAAAGCCAT
1 ATCGGCACAAAGCCAT
61461405 AATCAGAATA
Statistics
Matches: 130, Mismatches: 36, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 130 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.20
Consensus pattern (25 bp):
ATCGGCACAAAGCCATCAATAACAT
Found at i:61461402 original size:50 final size:50
Alignment explanation
Indices: 61461214--61461404 Score: 184
Period size: 50 Copynumber: 3.8 Consensus size: 50
61461204 CGATAATATG
** * * *
61461214 ATCGGCACAAAGCCATTGATAACAAATCGGTACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATATCAT
* * * * * * *
61461264 ATCGGTACAAAGCCATCGATAACAGATCGACACATATCCATCAATATTAT
1 ATCGGCACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATATCAT
* * * * * * * *
61461314 ATCAGCACAAAGCCATCAATAACATACCAGCGCGAAGCCTTTAATAGCAT
1 ATCGGCACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATATCAT
* *
61461364 ATCGGCACAAAGCCTTCAATAGCATATCGGCACAAAGCCAT
1 ATCGGCACAAAGCCATCAATAACATATCGGCACAAAGCCAT
61461405 AATCAGAATA
Statistics
Matches: 111, Mismatches: 30, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 111 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.20
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCAATAACATATCGGCACAAAGCCATCAATATCAT
Found at i:61461697 original size:51 final size:52
Alignment explanation
Indices: 61461640--61461749 Score: 125
Period size: 51 Copynumber: 2.1 Consensus size: 52
61461630 TTTACCTAAT
* * *
61461640 AGGGGTAAAACG-TCAGTTTACCCTATAGGGGTA-TTCAGTAATTTACCCTAC
1 AGGGGTAAAACGAT-AATTTACCCTATAGCGGTATTTCAGTAACTTACCCTAC
****
61461691 AGGGGTATTTTGATAATTTACCCTATAGCGGTATTTCAGTAACTTACCCTAC
1 AGGGGTAAAACGATAATTTACCCTATAGCGGTATTTCAGTAACTTACCCTAC
*
61461743 AAGGGTA
1 AGGGGTA
61461750 TTTTTGTAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.51
52 24 0.49
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (52 bp):
AGGGGTAAAACGATAATTTACCCTATAGCGGTATTTCAGTAACTTACCCTAC
Found at i:61461714 original size:26 final size:25
Alignment explanation
Indices: 61461656--61461761 Score: 113
Period size: 26 Copynumber: 4.1 Consensus size: 25
61461646 AAAACGTCAG
* **
61461656 TTTACCCTATAGGGGTATTCAGTAA
1 TTTACCCTACAGGGGTATTTTGTAA
61461681 TTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTACAGGGGTATTTTG-TAA
* * *
61461707 TTTACCCTATAGCGGTATTTCAGTAA
1 TTTACCCTACAGGGGTATTT-TGTAA
* *
61461733 CTTACCCTACAAGGGTATTTTTGTAA
1 TTTACCCTACAGGGGTA-TTTTGTAA
61461759 TTT
1 TTT
61461762 TACAAATCGA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
25 19 0.29
26 43 0.65
27 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (25 bp):
TTTACCCTACAGGGGTATTTTGTAA
Found at i:61461749 original size:52 final size:51
Alignment explanation
Indices: 61461656--61461761 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 51
61461646 AAAACGTCAG
* * *
61461656 TTTACCCTATAGGGGTATTCAGTAATTTACCCTACAGGGGTA-TTTTGATAA
1 TTTACCCTATAGCGGTATTCAGTAACTTACCCTACAAGGGTATTTTTG-TAA
61461707 TTTACCCTATAGCGGTATTTCAGTAACTTACCCTACAAGGGTATTTTTGTAA
1 TTTACCCTATAGCGGTA-TTCAGTAACTTACCCTACAAGGGTATTTTTGTAA
61461759 TTT
1 TTT
61461762 TACAAATCGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 16 0.32
52 29 0.58
53 5 0.10
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (51 bp):
TTTACCCTATAGCGGTATTCAGTAACTTACCCTACAAGGGTATTTTTGTAA
Found at i:61461778 original size:53 final size:52
Alignment explanation
Indices: 61461664--61461780 Score: 123
Period size: 52 Copynumber: 2.2 Consensus size: 52
61461654 AGTTTACCCT
* * * **
61461664 ATAGGGGTA-TTCAGTAATTTACCCTACAGGGGTATTTTGATAATTTACCCT
1 ATAGAGGTATTTCAGTAACTTACCCTACAAGGGTATTTTGATAATTTACCAA
*
61461715 ATAGCGGTATTTCAGTAACTTACCCTACAAGGGTATTTTTG-TAATTTTA-CAA
1 ATAGAGGTATTTCAGTAACTTACCCTACAAGGGTA-TTTTGATAA-TTTACCAA
*
61461767 ATCGAAGGTATTTC
1 ATAG-AGGTATTTC
61461781 GATAATTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
51 8 0.15
52 30 0.55
53 17 0.31
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (52 bp):
ATAGAGGTATTTCAGTAACTTACCCTACAAGGGTATTTTGATAATTTACCAA
Found at i:61462493 original size:23 final size:23
Alignment explanation
Indices: 61462467--61462514 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
61462457 AGTTCTCATG
* *
61462467 TTAGCTTCTCGATGTGGGATTAC
1 TTAGCTTCCCGATATGGGATTAC
61462490 TTAGCTTCCCGATATGGGATTAC
1 TTAGCTTCCCGATATGGGATTAC
61462513 TT
1 TT
61462515 TCAACCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (23 bp):
TTAGCTTCCCGATATGGGATTAC
Found at i:61474017 original size:27 final size:28
Alignment explanation
Indices: 61473986--61474043 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
61473976 TTTTTATACA
61473986 TTTCATGTTGTTA-GAAAGCTTCATTCT
1 TTTCATGTTGTTAGGAAAGCTTCATTCT
61474013 TTTCATGTTGTTAGGAAAGCTTCATTCT
1 TTTCATGTTGTTAGGAAAGCTTCATTCT
61474041 TTT
1 TTT
61474044 ACACATGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (28 bp):
TTTCATGTTGTTAGGAAAGCTTCATTCT
Found at i:61477471 original size:13 final size:13
Alignment explanation
Indices: 61477450--61477489 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
61477440 AAAGTAATCA
61477450 CACACGGGCGTGT
1 CACACGGGCGTGT
*
61477463 CACATGGGCGTGT
1 CACACGGGCGTGT
61477476 CACACGGGCGTGT
1 CACACGGGCGTGT
61477489 C
1 C
61477490 CCTGCCGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:61484038 original size:15 final size:17
Alignment explanation
Indices: 61484008--61484039 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
61483998 TTGATACCTG
61484008 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
61484025 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
61484040 AATTATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:61489197 original size:11 final size:11
Alignment explanation
Indices: 61489181--61489207 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61489171 ATGGTAAACT
61489181 AATTATAATTA
1 AATTATAATTA
61489192 AATTATAATTA
1 AATTATAATTA
61489203 AATTA
1 AATTA
61489208 AAGGCATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTATAATTA
Found at i:61490008 original size:30 final size:29
Alignment explanation
Indices: 61489974--61490031 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
61489964 ATTCGGAAGC
61489974 TTTGGCACTAAGTGTG-TGATTTAAACTAGT
1 TTTGGCACTAAGTGTGCT-ATTT-AACTAGT
61490004 TTTGGCACTAAGTGTGCTATTTAACTAG
1 TTTGGCACTAAGTGTGCTATTTAACTAG
61490032 ATTCGGCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 6 0.22
30 20 0.74
31 1 0.04
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCTATTTAACTAGT
Found at i:61500696 original size:16 final size:16
Alignment explanation
Indices: 61500677--61500707 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61500667 CTTCTTCACT
61500677 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
61500693 TACTTACTTACTTAA
1 TACTCACTTACTTAA
61500708 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:61500713 original size:20 final size:20
Alignment explanation
Indices: 61500674--61500713 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61500664 AAACTTCTTC
* *
61500674 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
61500694 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
61500714 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:61511920 original size:53 final size:54
Alignment explanation
Indices: 61511830--61512045 Score: 231
Period size: 55 Copynumber: 4.0 Consensus size: 54
61511820 TACGTGGTAT
* * *
61511830 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * * *
61511884 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTT
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * * * *
61511937 CATTATAGTAACTTATCAATGCCATGTCTTGAAATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* *
61511992 CCTTA-GAAACCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
61512046 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 26, Indels: 11
0.78 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 14 0.11
55 67 0.52
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:61513708 original size:55 final size:54
Alignment explanation
Indices: 61513621--61513877 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
61513611 ATTAGGGTTT
*
61513621 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAGGTCTCTAAGGC
* * ** * * *
61513676 AAGGAAATCATGTAAGACCATTTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT-CTCTAAGGC
* * *
61513731 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GT-TCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTC-TAAGGC
* * * *
61513784 AAGGATACCATGTAAGACCATGTCAAGACATGACAATGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGGC
** * * *
61513833 AAGGATACCACATAAGACCATGACAAGTCATGGCAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT
61513878 ACCCGCGTAT
Statistics
Matches: 167, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
49 37 0.22
50 2 0.01
52 7 0.04
53 39 0.23
54 12 0.07
55 66 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGGC
Found at i:61513827 original size:108 final size:110
Alignment explanation
Indices: 61513628--61513828 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
61513618 TTTAAGGATA
*
61513628 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
* * *
61513693 CCATTTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* *
61513738 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GT-TCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAG
*
61513800 ACCATGTCAAGACATGACAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
61513829 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 7 0.08
110 27 0.33
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:61514088 original size:16 final size:16
Alignment explanation
Indices: 61514067--61514097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61514057 ATAAATTTGA
61514067 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
61514083 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
61514098 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:61516631 original size:11 final size:11
Alignment explanation
Indices: 61516615--61516641 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61516605 AAGGTAAACT
61516615 AATTATAATTA
1 AATTATAATTA
61516626 AATTATAATTA
1 AATTATAATTA
61516637 AATTA
1 AATTA
61516642 AAGGCATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTATAATTA
Found at i:61517438 original size:30 final size:29
Alignment explanation
Indices: 61517404--61517464 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
61517394 ATGATTCGGA
61517404 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
61517434 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
61517463 AG
1 AG
61517465 ATTTAGCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:61527219 original size:22 final size:23
Alignment explanation
Indices: 61527194--61527249 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
61527184 CTTATGATAC
61527194 ATGTTTTGAATGGCTCATATGG-
1 ATGTTTTGAATGGCTCATATGGT
61527216 ATGTTTTGAATGGCTCATATGGT
1 ATGTTTTGAATGGCTCATATGGT
61527239 ATGTTTTGAAT
1 ATGTTTTGAAT
61527250 TATTAAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGTTTTGAATGGCTCATATGGT
Found at i:61530511 original size:13 final size:13
Alignment explanation
Indices: 61530493--61530535 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
61530483 AGTATTAGTC
61530493 TTATTTTTATTAT
1 TTATTTTTATTAT
61530506 TTA-TTTTAGTTAT
1 TTATTTTTA-TTAT
61530519 TTATTTTTATT-T
1 TTATTTTTATTAT
61530531 TTATT
1 TTATT
61530536 GGGAATCACG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.39
13 12 0.43
14 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:61530529 original size:6 final size:6
Alignment explanation
Indices: 61530493--61530535 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
61530483 AGTATTAGTC
61530493 TTATTT TTATTAT TTA-TT TTAGTTAT TTATTT TTATTT TTATT
1 TTATTT TTATT-T TTATTT TTA-TT-T TTATTT TTATTT TTATT
61530536 GGGAATCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.12
6 18 0.55
7 7 0.21
8 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:61532509 original size:32 final size:32
Alignment explanation
Indices: 61532473--61532567 Score: 127
Period size: 32 Copynumber: 3.0 Consensus size: 32
61532463 CAATTGAATC
*
61532473 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
*
61532505 TCCGTACATACCTGTACCATATTATACCAATT
1 TCCGTACATACCTGTACCATATTGTACCAATT
* * * * *
61532537 TTCGTAGATACCTGTATCATCTCGTACCAAT
1 TCCGTACATACCTGTACCATATTGTACCAAT
61532568 CTCATACTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTGTACCAATT
Found at i:61532681 original size:28 final size:28
Alignment explanation
Indices: 61532649--61532744 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
61532639 TACCTTTCAT
* *
61532649 ACTAAGTGTCGTTCTGGATGTTTCGCAC
1 ACTAAGTGCCATTCTGGATGTTTCGCAC
* * * **
61532677 ACTAAGTGCCATCCTCGTTACTTCGCAC
1 ACTAAGTGCCATTCTGGATGTTTCGCAC
* *
61532705 ACTAACTGCCATTCTGGATGTATCGCAC
1 ACTAAGTGCCATTCTGGATGTTTCGCAC
61532733 ACTAAGTGCCAT
1 ACTAAGTGCCAT
61532745 CCCCGATACT
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (28 bp):
ACTAAGTGCCATTCTGGATGTTTCGCAC
Found at i:61532746 original size:56 final size:56
Alignment explanation
Indices: 61532660--61532771 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
61532650 CTAAGTGTCG
* * * *
61532660 TTCTGGATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAACTGCCA
1 TTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAACTGCCA
* *
61532716 TTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACATTAAGTGCCA
1 TTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAACTGCCA
61532772 CATATCATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (56 bp):
TTCTGGATGTATCGCACACTAAGTGCCATCCCCGATACTTAGCACACTAACTGCCA
Found at i:61532760 original size:28 final size:28
Alignment explanation
Indices: 61532670--61532771 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
61532660 TTCTGGATGT
*
61532670 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* * * *
61532698 TTCGCACACTAACTGCCATTCTGGAT-G
1 TTCGCACACTAAGTGCCATCCTCGATAC
*
61532725 TATCGCACACTAAGTGCCATCCCCGATAC
1 T-TCGCACACTAAGTGCCATCCTCGATAC
* *
61532754 TTAGCACATTAAGTGCCA
1 TTCGCACACTAAGTGCCA
61532772 CATATCATTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 58 0.97
29 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:61538852 original size:32 final size:32
Alignment explanation
Indices: 61538758--61538837 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
61538748 CAATTGAATC
* *
61538758 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACCTGTACCATATTATACCAATT
61538790 TCCGTACATACCTGTACCATATTATACCAATT
1 TCCGTACATACCTGTACCATATTATACCAATT
* *
61538822 TTCGTAGATACCTGTA
1 TCCGTACATACCTGTA
61538838 TCATCTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (32 bp):
TCCGTACATACCTGTACCATATTATACCAATT
Found at i:61538974 original size:28 final size:28
Alignment explanation
Indices: 61538934--61539001 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
61538924 TACCTTGCAT
* *
61538934 ACTAAGTGTCATTCTGGATGTTTCGCAC
1 ACTAAGTGCCATTCTGGATGTATCGCAC
*
61538962 ACTAACTGCCATTCTGGATGTATCGCAC
1 ACTAAGTGCCATTCTGGATGTATCGCAC
61538990 ACTAAGTGCCAT
1 ACTAAGTGCCAT
61539002 CCCCGATACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
ACTAAGTGCCATTCTGGATGTATCGCAC
Found at i:61542383 original size:37 final size:37
Alignment explanation
Indices: 61542332--61542444 Score: 117
Period size: 37 Copynumber: 3.0 Consensus size: 37
61542322 CAAATGCCTT
* *
61542332 CGGGACATAGCCCGGTTATAGTAACTCGCACAAATGC
1 CGGGACTTAACCCGGTTATAGTAACTCGCACAAATGC
61542369 CGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCC
1 CGGGACTTAACCCGG-TTATAGTAACTCGCACAAATG-C
* *
61542407 TTCGGG-CTT-ACCCGG-AATTAGTATCTCGCACAAATGC
1 --CGGGACTTAACCCGGTTA-TAGTAACTCGCACAAATGC
61542444 C
1 C
61542445 TTCGGATCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
35 1 0.02
37 32 0.48
38 26 0.39
39 3 0.05
40 4 0.06
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (37 bp):
CGGGACTTAACCCGGTTATAGTAACTCGCACAAATGC
Found at i:61542429 original size:38 final size:39
Alignment explanation
Indices: 61542322--61542502 Score: 171
Period size: 38 Copynumber: 4.6 Consensus size: 39
61542312 GCTACTCGTT
*
61542322 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGATT-TAGTAACTCGCA
61542362 CAAATG-C--CGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAACTCGCA
* *
61542399 CAAATGCCTTCGGG-CTTACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
* * * *
61542437 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTA-CCCGGATTTAG-TAAC-TCGCA
61542478 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTA-CCCGGA
61542503 CATCATTCAA
Statistics
Matches: 120, Mismatches: 10, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
37 32 0.27
38 34 0.28
39 9 0.08
40 34 0.28
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
Found at i:61550366 original size:25 final size:25
Alignment explanation
Indices: 61550331--61550392 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
61550321 TTCAATGGAT
* *
61550331 AATTATGAAAATCTA-AAATTTTAAA
1 AATTAT-AAAAACTATAAATATTAAA
*
61550356 AATTATTAAAACTATAAATATTAAA
1 AATTATAAAAACTATAAATATTAAA
61550381 AATATATAAAAA
1 AAT-TATAAAAA
61550393 AAGTGATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 6 0.19
25 18 0.58
26 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTATAAAAACTATAAATATTAAA
Found at i:61554955 original size:28 final size:27
Alignment explanation
Indices: 61554895--61555016 Score: 149
Period size: 28 Copynumber: 4.4 Consensus size: 27
61554885 GAGATTGGCG
* *
61554895 CTAAGTGTGCGGGTTTAAATTAATAGCAA
1 CTAAGTGTGCGAGTTT-GATTAATAGC-A
*
61554924 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTA-ATAGCA
61554952 CTAAGTGTGCGAGTTTGATTAATATGCA
1 CTAAGTGTGCGAGTTTGATTAATA-GCA
61554980 CTAAGTGTGC-AG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTA-ATAGCA
*
61555006 CTGAGTGTGCG
1 CTAAGTGTGCG
61555017 GACTTAATAT
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
26 19 0.23
27 7 0.08
28 39 0.46
29 19 0.23
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (27 bp):
CTAAGTGTGCGAGTTTGATTAATAGCA
Found at i:61555013 original size:54 final size:57
Alignment explanation
Indices: 61554895--61555016 Score: 171
Period size: 54 Copynumber: 2.2 Consensus size: 57
61554885 GAGATTGGCG
* *
61554895 CTAAGTGTGCGGGTTTAAATTAATAGCAACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTAATAGCAACTAAGTGTGCGAGTTTGATTATATAGCA
*
61554952 CTAAGTGTGCGAGTTT-GATTAATATGC-ACTAAGTGTGC-AG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTAATA-GCAACTAAGTGTGCGAGTTTGATTATATAGCA
*
61555006 CTGAGTGTGCG
1 CTAAGTGTGCG
61555017 GACTTAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
54 23 0.38
55 2 0.03
56 18 0.30
57 17 0.28
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTAATAGCAACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:61562970 original size:27 final size:28
Alignment explanation
Indices: 61562861--61562983 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
61562851 GAGATTGGCG
* * * *
61562861 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
61562890 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
61562918 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
61562946 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
61562973 CTGAGTGTGCG
1 CTAAGTGTGCG
61562984 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:61562973 original size:55 final size:57
Alignment explanation
Indices: 61562861--61562983 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 57
61562851 GAGATTGGCG
* * * *
61562861 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
61562918 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
61562973 CTGAGTGTGCG
1 CTAAGTGTGCG
61562984 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.39
56 21 0.36
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:61562994 original size:27 final size:27
Alignment explanation
Indices: 61562886--61562996 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
61562876 TAAATTGTAC
** * *
61562886 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
61562914 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
61562942 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
61562969 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
61562996 A
1 A
61562997 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Done.