Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 63 of 150
Found at i:18796866 original size:40 final size:40
Alignment explanation
Indices: 18796821--18796986 Score: 199
Period size: 40 Copynumber: 4.2 Consensus size: 40
18796811 TCTGTTTGGT
* * *
18796821 GTGTTTC-AGTTAGATTAGCTCTTATAAGCTTCTGTCTGGC
1 GTGTTTCGA-TTAGATTAACTCTTATGAGCTTCTGTCTAGC
* *
18796861 ATGTTTCGATTAGATTAACTCTTGTGAGCTTCTGTCTAGC
1 GTGTTTCGATTAGATTAACTCTTATGAGCTTCTGTCTAGC
* * *
18796901 GTGTTTCGATTAGATTAACTCTTGTGAGCTTTTTTCTAGC
1 GTGTTTCGATTAGATTAACTCTTATGAGCTTCTGTCTAGC
* * * * *
18796941 GTGTTTCGGTTGGATTAGCTCTTATGAGCTTCTGTCTGGT
1 GTGTTTCGATTAGATTAACTCTTATGAGCTTCTGTCTAGC
18796981 GTGTTT
1 GTGTTT
18796987 GGTTGATTTG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
40 108 0.99
41 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (40 bp):
GTGTTTCGATTAGATTAACTCTTATGAGCTTCTGTCTAGC
Found at i:18799296 original size:35 final size:34
Alignment explanation
Indices: 18799250--18799322 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
18799240 AATGATGTTA
* ** *
18799250 AATTGAATGTATTTATTATGTATATAGCCGAATTG
1 AATTGAATGTATGTA-TAACTACATAGCCGAATTG
* *
18799285 AATTGTATGTATGTATAACTACATTGCCGAATTG
1 AATTGAATGTATGTATAACTACATAGCCGAATTG
18799319 AATT
1 AATT
18799323 TGGCATGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (34 bp):
AATTGAATGTATGTATAACTACATAGCCGAATTG
Found at i:18799551 original size:42 final size:43
Alignment explanation
Indices: 18799451--18799602 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
18799441 TTTCGTGTAG
* * * *
18799451 GACCACGTCTGGGACGTTGGCATCGATTTGAGATTTACGTGTAA
1 GACCATGTCTGGGACATTGGCATCGATAT-AGATTTACGTATAA
*
18799495 GACCATGTCTGGGACATTGGCATCG-TATATGATTT-TGTATAA
1 GACCATGTCTGGGACATTGGCATCGATATA-GATTTACGTATAA
* * * * *
18799537 GACCTTGTCTGGGACAGTGGCATCGATAGTTGA-TTACATGTAA
1 GACCATGTCTGGGACATTGGCATCGATA-TAGATTTACGTATAA
** *
18799580 GACCACATCTGGGACGTTGGCAT
1 GACCATGTCTGGGACATTGGCAT
18799603 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 31 0.35
43 33 0.38
44 24 0.27
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
GACCATGTCTGGGACATTGGCATCGATATAGATTTACGTATAA
Found at i:18802792 original size:40 final size:40
Alignment explanation
Indices: 18802748--18802829 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
18802738 CCATGTAAGA
*
18802748 CCATGTTTGGGACATGGCGTTGGCACCGAGATAAGAGGTC
1 CCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTC
*
18802788 CCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTC
18802828 CC
1 CC
18802830 CCGTAAGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (40 bp):
CCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTC
Found at i:18802886 original size:50 final size:49
Alignment explanation
Indices: 18802788--18802954 Score: 156
Period size: 50 Copynumber: 3.4 Consensus size: 49
18802778 ATAAGAGGTC
* * * ** **
18802788 CCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGA
1 CCATGTCTGGGACATGGCATTGGCACCAACATGA-AAATCCCATGTAAGA
* *
18802838 CCATGTCTGGGACATGGCATGGGCACCAATATGAAAATTCCCATGTAAGA
1 CCATGTCTGGGACATGGCATTGGCACCAACATGAAAA-TCCCATGTAAGA
** * ** *
18802888 CCATAACTGGGATATGGCATTGGCA-GTACAGGAAACATCCCATGTAAGA
1 CCATGTCTGGGACATGGCATTGGCACCAACATGAAA-ATCCCATGTAAGA
*
18802937 CCATGTCTGGAACATGGC
1 CCATGTCTGGGACATGGC
18802955 TTTAGCATGT
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 33 0.35
50 62 0.65
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (49 bp):
CCATGTCTGGGACATGGCATTGGCACCAACATGAAAATCCCATGTAAGA
Found at i:18802954 original size:49 final size:50
Alignment explanation
Indices: 18802832--18802954 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 50
18802822 GAGGTCCCCC
* *
18802832 GTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAAAATTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCAACAGGAAAATTCCCAT
** * * **
18802882 GTAAGACCATAACTGGGATATGGCATTGGCA-GTACAGGAAACA-TCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCAACAGGAAA-ATTCCCAT
*
18802931 GTAAGACCATGTCTGGAACATGGC
1 GTAAGACCATGTCTGGGACATGGC
18802955 TTTAGCATGT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 32 0.53
50 28 0.47
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCAACAGGAAAATTCCCAT
Found at i:18808744 original size:36 final size:35
Alignment explanation
Indices: 18808668--18808738 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
18808658 TAATATTATA
*
18808668 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
1 AATGTATTTTAATCTATTATATAA-TATTTTCTTGT
* *
18808704 AATGTTTTTTTATCTATTATATAA-ATTTTCTTGT
1 AATGTATTTTAATCTATTATATAATATTTTCTTGT
18808738 A
1 A
18808739 GAATGTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 10 0.31
36 22 0.69
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (35 bp):
AATGTATTTTAATCTATTATATAATATTTTCTTGT
Found at i:18811313 original size:17 final size:17
Alignment explanation
Indices: 18811291--18811354 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
18811281 AATAGAGAAT
18811291 ATTATGTAGTAATTTTA
1 ATTATGTAGTAATTTTA
*
18811308 ATTATGT-GTTAATTTCAA
1 ATTATGTAG-TAATTT-TA
**
18811326 GACTTATGTAGTGTTTTTA
1 -A-TTATGTAGTAATTTTA
18811345 ATTATGTAGT
1 ATTATGTAGT
18811355 GATTAAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.03
17 22 0.58
18 2 0.05
19 2 0.05
20 10 0.26
21 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.52
Consensus pattern (17 bp):
ATTATGTAGTAATTTTA
Found at i:18813073 original size:102 final size:102
Alignment explanation
Indices: 18812892--18813101 Score: 375
Period size: 102 Copynumber: 2.1 Consensus size: 102
18812882 CTACAATAGT
*
18812892 TAAAAATGAAATTAGTGCTTGTAATTGTAATAGTTAAAGGCAAAATATGAAAAGTCTCACATAGG
1 TAAACATGAAATTAGTGCTTGTAATTGTAATAGTTAAAGGCAAAATATGAAAAGTCTCACATAGG
*
18812957 CAGTTTAATAGTCACAAAAGTGCCTATAAATATCCTC
66 CAGTTGAATAGTCACAAAAGTGCCTATAAATATCCTC
* * *
18812994 TAAACATGAAATTAGTGCTTGTAATTGTACTAGTTAAAGGCCAACTATGAAAAGTCTCACATAGG
1 TAAACATGAAATTAGTGCTTGTAATTGTAATAGTTAAAGGCAAAATATGAAAAGTCTCACATAGG
18813059 CAGTTGAATAGTCACAAAAGTGCCTATAAATATCCTC
66 CAGTTGAATAGTCACAAAAGTGCCTATAAATATCCTC
18813096 TAAACA
1 TAAACA
18813102 AAACTTTGAT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (102 bp):
TAAACATGAAATTAGTGCTTGTAATTGTAATAGTTAAAGGCAAAATATGAAAAGTCTCACATAGG
CAGTTGAATAGTCACAAAAGTGCCTATAAATATCCTC
Found at i:18821915 original size:22 final size:22
Alignment explanation
Indices: 18821890--18821931 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18821880 AAAGTGACCC
*
18821890 AAAATAAGAATTCATTAGTGGG
1 AAAAGAAGAATTCATTAGTGGG
**
18821912 AAAAGAAGTGTTCATTAGTG
1 AAAAGAAGAATTCATTAGTG
18821932 TACCTGTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.29
Consensus pattern (22 bp):
AAAAGAAGAATTCATTAGTGGG
Found at i:18821997 original size:6 final size:6
Alignment explanation
Indices: 18821986--18822021 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
18821976 GTAAAAAAAA
18821986 TTATAT TTATAT TTATAT TTATAT ATATATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT -T-TATAT TTAT
18822022 GATTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.75
7 2 0.07
8 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTATAT
Found at i:18822334 original size:7 final size:7
Alignment explanation
Indices: 18822322--18822347 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18822312 AGTTTTCCAG
18822322 TCCCCAC
1 TCCCCAC
18822329 TCCCCAC
1 TCCCCAC
18822336 TCCCCAC
1 TCCCCAC
18822343 TCCCC
1 TCCCC
18822348 CTTTATGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.73, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCCAC
Found at i:18826030 original size:20 final size:20
Alignment explanation
Indices: 18826005--18826044 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18825995 TAGGATCAAA
18826005 TTGGGGAGTGGATATTATGG
1 TTGGGGAGTGGATATTATGG
18826025 TTGGGGAGTGGATATTATGG
1 TTGGGGAGTGGATATTATGG
18826045 AAGATGAAAA
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:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (20 bp):
TTGGGGAGTGGATATTATGG
Found at i:18834456 original size:4 final size:4
Alignment explanation
Indices: 18834447--18834485 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
18834437 ACTTTCTTCT
* **
18834447 TTAC TTAC TTTC TTAC TTGT TTAC TTAC TTAC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
18834486 AATAACTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.56
Consensus pattern (4 bp):
TTAC
Found at i:18834463 original size:8 final size:8
Alignment explanation
Indices: 18834435--18834485 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
18834425 ATCATGATCT
18834435 TTACTTTC
1 TTACTTTC
18834443 TT-CTTTAC
1 TTACTTT-C
18834451 TTACTTTC
1 TTACTTTC
18834459 TTACTTGT-
1 TTACTT-TC
*
18834467 TTACTTAC
1 TTACTTTC
*
18834475 TTACTTAC
1 TTACTTTC
18834483 TTA
1 TTA
18834486 AATAACTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 4 0.11
8 29 0.76
9 5 0.13
ACGTcount: A:0.18, C:0.22, G:0.02, T:0.59
Consensus pattern (8 bp):
TTACTTTC
Found at i:18834471 original size:20 final size:20
Alignment explanation
Indices: 18834435--18834484 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
18834425 ATCATGATCT
* *
18834435 TTACTTTCTTCTTTACTTAC
1 TTACTTACTTGTTTACTTAC
*
18834455 TTTCTTACTTGTTTACTTAC
1 TTACTTACTTGTTTACTTAC
18834475 TTACTTACTT
1 TTACTTACTT
18834485 AAATAACTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (20 bp):
TTACTTACTTGTTTACTTAC
Found at i:18844312 original size:45 final size:45
Alignment explanation
Indices: 18844220--18844314 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
18844210 ATACTTTCAT
* * * * **
18844220 ATGATGCCATACCGTCTTTTAGCTATGGTCTTACTCATTTTTCTC
1 ATGATGCCATACCATCTTTCAGCTATGGCCTTACTCATCTTAATC
* *
18844265 ATGATGCCATAGCATCTTTCAGCTATGGCCTTACTTATCTTAATC
1 ATGATGCCATACCATCTTTCAGCTATGGCCTTACTCATCTTAATC
18844310 ATGAT
1 ATGAT
18844315 CTCAAAATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (45 bp):
ATGATGCCATACCATCTTTCAGCTATGGCCTTACTCATCTTAATC
Found at i:18850541 original size:25 final size:26
Alignment explanation
Indices: 18850513--18850563 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18850503 CGTCCGTACC
* *
18850513 ATAGT-CCACAAATAATAATAATAAA
1 ATAGTCCCAAAAATAACAATAATAAA
*
18850538 ATAGTCCCAAAAATACCAATAATAAA
1 ATAGTCCCAAAAATAACAATAATAAA
18850564 GTTTAGCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.59, C:0.16, G:0.04, T:0.22
Consensus pattern (26 bp):
ATAGTCCCAAAAATAACAATAATAAA
Found at i:18851016 original size:23 final size:24
Alignment explanation
Indices: 18850984--18851028 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
18850974 CACTTGTTAG
18850984 CGTTGAGGACAAGACAC-CAATAT
1 CGTTGAGGACAAGACACTCAATAT
* *
18851007 CGTTGTGGACAAGCCACTCAAT
1 CGTTGAGGACAAGACACTCAAT
18851029 TTTGCAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (24 bp):
CGTTGAGGACAAGACACTCAATAT
Found at i:18852073 original size:22 final size:18
Alignment explanation
Indices: 18852045--18852090 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 18
18852035 CATTACTAAC
18852045 AAATGGATGAAAAGAATGAGA
1 AAATGGA-GAAAA-AAT-AGA
18852066 GAAATGGAGAAAAAATAGA
1 -AAATGGAGAAAAAATAGA
18852085 AAATGG
1 AAATGG
18852091 TGGTGGTGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 3 0.12
20 3 0.12
21 5 0.21
22 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (18 bp):
AAATGGAGAAAAAATAGA
Found at i:18855287 original size:11 final size:11
Alignment explanation
Indices: 18855239--18855287 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
18855229 TTGACGTGAT
18855239 AATATTTAAACA
1 AATATTTAAA-A
18855251 AAT-TTTAGAAA
1 AATATTTA-AAA
18855262 AATA--TAAAA
1 AATATTTAAAA
18855271 AA-ATTTAAAA
1 AATATTTAAAA
18855281 AATATTT
1 AATATTT
18855288 TTTATTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
8 1 0.03
9 5 0.16
10 9 0.28
11 12 0.38
12 5 0.16
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
AATATTTAAAA
Found at i:18857016 original size:30 final size:33
Alignment explanation
Indices: 18856982--18857041 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
18856972 TTTAAATGTA
*
18856982 TTGAATCA-AATCAAAA-TTT-TGTATATACAT
1 TTGAACCACAATCAAAATTTTATGTATATACAT
*
18857012 TTGAACCACATTCAAAATTTTATGTATATA
1 TTGAACCACAATCAAAATTTTATGTATATA
18857042 TTACACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 7 0.28
32 3 0.12
33 8 0.32
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (33 bp):
TTGAACCACAATCAAAATTTTATGTATATACAT
Found at i:18861259 original size:18 final size:19
Alignment explanation
Indices: 18861220--18861259 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18861210 TTTATATTTT
* *
18861220 TAAAAAATATTAATTACCA
1 TAAAAAATATCAATTACAA
18861239 TAAAAAATATCAA-TACAA
1 TAAAAAATATCAATTACAA
18861257 TAA
1 TAA
18861260 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAATATCAATTACAA
Found at i:18864196 original size:22 final size:20
Alignment explanation
Indices: 18864155--18864199 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
18864145 GCAAATCAAC
*
18864155 AAAATAAGAACAAGCCAGAG
1 AAAATAAGAACAAGACAGAG
*
18864175 AAAATAAGAACGCAAGAGAGAG
1 AAAATAAGAA--CAAGACAGAG
18864197 AAA
1 AAA
18864200 TTTGAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.11, G:0.22, T:0.04
Consensus pattern (20 bp):
AAAATAAGAACAAGACAGAG
Found at i:18864377 original size:22 final size:22
Alignment explanation
Indices: 18864369--18864456 Score: 155
Period size: 22 Copynumber: 4.1 Consensus size: 22
18864359 ATATTACAAA
18864369 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
18864391 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
18864413 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
18864435 ATCATA---TCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
18864454 ATC
1 ATC
18864457 CTTGAAGATT
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.24
22 50 0.76
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (22 bp):
ATCATATCTTCTAAGATTGCAT
Found at i:18865350 original size:100 final size:100
Alignment explanation
Indices: 18865209--18865462 Score: 420
Period size: 100 Copynumber: 2.5 Consensus size: 100
18865199 AGCTTTAATC
*
18865209 TGTTCCACTACACCG-TCAGGGAAGTAAGATTCGCTATTGTGGCTTCAATCTATTTAACTGCAAT
1 TGTTCCACTACACCGCT-AGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAACTGCAAT
* * *
18865273 GTTGGGGAAACAAGATTCGCCGTCGTAACTTCAATT
65 GTTGGAGAAACAAGATTCACCATCGTAACTTCAATT
*
18865309 TGTTCCACTACACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTAATTAACTGCAATG
1 TGTTCCACTACACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAACTGCAATG
*
18865374 TTGGAGAAACAAGATTCACCATCGTAGCTTCAATT
66 TTGGAGAAACAAGATTCACCATCGTAACTTCAATT
* *
18865409 TGTTCCACTACACCTCCAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTATT
1 TGTTCCACTACACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTATT
18865463 CCACTGTAAT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
100 143 0.99
101 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (100 bp):
TGTTCCACTACACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAACTGCAATG
TTGGAGAAACAAGATTCACCATCGTAACTTCAATT
Found at i:18865438 original size:50 final size:50
Alignment explanation
Indices: 18865211--18865467 Score: 162
Period size: 50 Copynumber: 5.1 Consensus size: 50
18865201 CTTTAATCTG
* * * *
18865211 TTCCACTACACCGTC-AGGGAAGTAAGATTCGCTATTGTGGCTTCAATCTA
1 TTCCACTACACC-TCTAGGGAAGTAAGATTCGCCATCGTAGCTTCAATTTA
** * * * * ** * * *
18865261 TTTAACTGCA-ATGTTGGGGAAACAAGATTCGCCGTCGTAACTTCAATTTG
1 TTCCACTACACCT-CTAGGGAAGTAAGATTCGCCATCGTAGCTTCAATTTA
* * * *
18865311 TTCCACTACACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTAA
1 TTCCACTACACCTCTAGGGAAGTAAGATTCGCCATCGTAGCTTCAAT-TTA
* * * * * ** * *
18865362 TT-AACTGCA-ATGTTGGAGAAACAAGATTCACCATCGTAGCTTCAATTTG
1 TTCCACTACACCTCTAGG-GAAGTAAGATTCGCCATCGTAGCTTCAATTTA
* * * *
18865411 TTCCACTACACCTCCAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTA
1 TTCCACTACACCTCTAGGGAAGTAAGATTCGCCATCGTAGCTTCAATTTA
18865461 TTCCACT
1 TTCCACT
18865468 GTAATGCCAA
Statistics
Matches: 144, Mismatches: 56, Indels: 14
0.67 0.26 0.07
Matches are distributed among these distances:
48 1 0.01
49 6 0.04
50 131 0.91
51 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
TTCCACTACACCTCTAGGGAAGTAAGATTCGCCATCGTAGCTTCAATTTA
Found at i:18865757 original size:128 final size:130
Alignment explanation
Indices: 18865544--18865794 Score: 425
Period size: 128 Copynumber: 1.9 Consensus size: 130
18865534 GGGATTACTA
* *
18865544 GCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTAC
1 GCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
*
18865609 TGGTTAGGGAGATAAGATCTGTAA-TTT-CCTACTCCACTGCTGCTCAGGGAGATAAAGCTAGTG
66 TGCTTAGGGAGATAAGATCTGTAATTTTACCTACTCCACTGCTGCTCAGGGAGATAAAGCTAGTG
* *
18865672 GCTTAAATCTACTTCCCTACTACCTTGGGAGGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
1 GCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
18865737 TGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
66 TGCTTAGGGAGATAAGATCTGTAATTTT--ACCTACTCCACTGCTGCTCAGGGAGATA
18865795 GGATTCACAA
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
128 84 0.74
129 3 0.03
132 27 0.24
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (130 bp):
GCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTGTAATTTTACCTACTCCACTGCTGCTCAGGGAGATAAAGCTAGTG
Found at i:18865811 original size:44 final size:44
Alignment explanation
Indices: 18865728--18865869 Score: 155
Period size: 44 Copynumber: 3.2 Consensus size: 44
18865718 CTTCGATCTG
* * * ** *
18865728 CTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAGGATTC-ACAATCTTCAACCTA
18865772 CTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTA
*
18865816 TTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATCTTCAACCTA
1 CTCCACTGCTG-CTCAGGGAGATAGGA-TTCACAATCTTCAACCTA
* *
18865860 TTCCGCTGCT
1 CTCCACTGCT
18865870 TTCCAGGGAG
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 82 0.94
45 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTA
Found at i:18865876 original size:44 final size:44
Alignment explanation
Indices: 18865763--18865880 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
18865753 ATCTGTAATT
* *
18865763 TTCAACCTACTCCACTGC-TGCTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTTAC-CAGGGAGATAGGATTCACAATC
*
18865807 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTTACCAGGGAGATAGGA-TTCACAATC
* *
18865851 TTCAACCTATTCCGCTGCTTTCCAGGGAGA
1 TTCAACCTATTCCACTGCTTACCAGGGAGA
18865881 CAGTACTACT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 63 0.95
45 3 0.05
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTTACCAGGGAGATAGGATTCACAATC
Found at i:18872524 original size:114 final size:115
Alignment explanation
Indices: 18872119--18872649 Score: 276
Period size: 115 Copynumber: 4.6 Consensus size: 115
18872109 TAATATAAAA
* * * * ** ** *
18872119 CGCCGGTAAAGTATAATATTAGCGGC-GTGTTGTGGTAAGCGCCGCAAAACCTCTTAACCAAAAC
1 CGCCGCTAAAGTATATTATTAGCGGCACT-TTTTCATAAGCGCCGCAAAAGATATTAACCAAAAC
* * *
18872183 GCAGAG-TTT-GGTCTTGAGGTATACTAGAATTAGTGGCG--CA-GAGCGAAC
65 GCAGAGTTTTAAG-CATGAGGTATACTAGAATTAGTGGCGTTCACGAG-AAAC
* * * * ** * *
18872231 ACGCCACTAATGTATACTATTAGCGGCGCTTTTGT-ATAAGCGCCGCAAAATTTGA-CAACAAAA
1 -CGCCGCTAAAGTATATTATTAGCGGCACTTTT-TCATAAGCGCCGCAAAAGAT-ATTAACCAAA
* * * * * *
18872294 ACGCA-ATGTTTT-TGTC-TCGATGTATAC-AGTTACTAGTGGCGCATAT-A-AATAAA-
63 ACGCAGA-GTTTTAAG-CAT-GAGGTATACTAG-AATTAGTGGCG--T-TCACGAGAAAC
* * * * * * * *
18872347 CGCCGCTAAA-TCATAGTATTAGCGGCGCTTCTGCACAAGCGCCGCAAAATATACTCACCAAAAC
1 CGCCGCTAAAGT-ATATTATTAGCGGCACTTTTTCATAAGCGCCGCAAAAGATATTAACCAAAAC
* * * *** *
18872411 GCTGAGTTTTTA-CATGAGGTATATTAGAATTAGTGGCGCTTTTTG-GAGAC
65 GCAGAGTTTTAAGCATGAGGTATACTAGAATTAGTGGCG-TTCACGAGAAAC
* * *
18872461 CGCCGCTAAAGTATATTATTAGCGGCTCTTTTTTATAAGCGCCGCAAAAGATATTAACAAAAACG
1 CGCCGCTAAAGTATATTATTAGCGGCACTTTTTCATAAGCGCCGCAAAAGATATTAACCAAAACG
* * ** * *
18872526 CAGCG-TTTAAGTCTTGTTGTATACTGGAATTAGTGGCGTTCACGAGAAAT
66 CAGAGTTTTAAG-CATGAGGTATACTAGAATTAGTGGCGTTCACGAGAAAC
* * *
18872576 CGCCGCTAAAGCAT-TGTATTAGCGGCACTTTTTGATAAGCGCCGGAAAATG-TATTAACCAAAA
1 CGCCGCTAAAGTATAT-TATTAGCGGCACTTTTTCATAAGCGCCGCAAAA-GATATTAACCAAAA
18872639 CGCAGAGTTTT
64 CGCAGAGTTTT
18872650 GGTCTTAACC
Statistics
Matches: 320, Mismatches: 69, Indels: 55
0.72 0.16 0.12
Matches are distributed among these distances:
112 2 0.01
113 61 0.19
114 104 0.32
115 144 0.45
116 5 0.02
117 2 0.01
118 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (115 bp):
CGCCGCTAAAGTATATTATTAGCGGCACTTTTTCATAAGCGCCGCAAAAGATATTAACCAAAACG
CAGAGTTTTAAGCATGAGGTATACTAGAATTAGTGGCGTTCACGAGAAAC
Found at i:18875414 original size:13 final size:13
Alignment explanation
Indices: 18875396--18875432 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
18875386 TTGAATGTTT
18875396 ATTAAAATATGTA
1 ATTAAAATATGTA
*
18875409 ATTAAAATATCTA
1 ATTAAAATATGTA
18875422 ATTAAAA-ATGT
1 ATTAAAATATGT
18875433 TTCCATGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (13 bp):
ATTAAAATATGTA
Found at i:18876071 original size:18 final size:18
Alignment explanation
Indices: 18876022--18876075 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
18876012 TTTAGGTATC
18876022 AGAAATTAAATAACATT-T
1 AGAAATTAAATAAC-TTAT
* * *
18876040 GGTTAATTACATAACTTAT
1 AG-AAATTAAATAACTTAT
18876059 AGAAATTAAATAACTTA
1 AGAAATTAAATAACTTA
18876076 CATAACTTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (18 bp):
AGAAATTAAATAACTTAT
Found at i:18876082 original size:9 final size:9
Alignment explanation
Indices: 18876046--18876351 Score: 155
Period size: 9 Copynumber: 33.9 Consensus size: 9
18876036 ATTTGGTTAA
18876046 TTACATAAC
1 TTACATAAC
* * *
18876055 TTATAGAAA
1 TTACATAAC
*
18876064 TTAAATAAC
1 TTACATAAC
18876073 TTACATAAC
1 TTACATAAC
*
18876082 TTACATAAA
1 TTACATAAC
18876091 TTA-AGTAATTC
1 TTACA-TAA--C
**
18876102 TT-GGTAAC
1 TTACATAAC
*
18876110 TTACATAAA
1 TTACATAAC
* *
18876119 TTAAATATC
1 TTACATAAC
*
18876128 TTGCATAAC
1 TTACATAAC
*
18876137 TTACATAAA
1 TTACATAAC
18876146 TTA-AGTTAA-
1 TTACA--TAAC
*
18876155 TTAAATAAC
1 TTACATAAC
*
18876164 TTACATAAA
1 TTACATAAC
*
18876173 TTA-AGTAAA
1 TTACA-TAAC
* *
18876182 TTAAATAAA
1 TTACATAAC
*
18876191 TTACATAAA
1 TTACATAAC
*
18876200 TTA-AGTAAA
1 TTACA-TAAC
* *
18876209 TTAAATAAA
1 TTACATAAC
*
18876218 TTACATAAA
1 TTACATAAC
*
18876227 TTA-AGTAAA
1 TTACA-TAAC
*
18876236 TTAAATAAC
1 TTACATAAC
18876245 TTACATAAC
1 TTACATAAC
*
18876254 TTACATAAA
1 TTACATAAC
*
18876263 TTA-AGTAAT
1 TTACA-TAAC
18876272 TTACATAAC
1 TTACATAAC
18876281 TTACATAAC
1 TTACATAAC
* *
18876290 TTAAATATC
1 TTACATAAC
18876299 TTGA-ATAAC
1 TT-ACATAAC
*
18876308 TTACATAAA
1 TTACATAAC
*
18876317 TTA-AGTAAA
1 TTACA-TAAC
* *
18876326 TTAAATATC
1 TTACATAAC
18876335 TTACATAAC
1 TTACATAAC
18876344 TTACATAA
1 TTACATAA
18876352 ATTAAGTAAA
Statistics
Matches: 238, Mismatches: 38, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
8 14 0.06
9 209 0.88
10 13 0.05
11 2 0.01
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:18876084 original size:27 final size:27
Alignment explanation
Indices: 18876046--18876339 Score: 193
Period size: 27 Copynumber: 10.5 Consensus size: 27
18876036 ATTTGGTTAA
*
18876046 TTACATAACTTATAGAAATTAAATAAC
1 TTACATAACTTACAGAAATTAAATAAC
* *
18876073 TTACATAACTTACATAAATTAAGTAATTC
1 TTACATAACTTACAGAAATTAAATAA--C
** * *
18876102 TT-GGTAACTTACATAAATTAAATATC
1 TTACATAACTTACAGAAATTAAATAAC
* *
18876128 TTGCATAACTTACATAAATTAAGTTAATTAAATAAC
1 TTACATAACTTAC--------AG-AAATTAAATAAC
* *
18876164 TTACATAAATTA-AGTAAATTAAATAAA
1 TTACATAACTTACAG-AAATTAAATAAC
* *
18876191 TTACATAAATTA-AGTAAATTAAATAAA
1 TTACATAACTTACAG-AAATTAAATAAC
*
18876218 TTACATAAATTA-AGTAAATTAAATAAC
1 TTACATAACTTACAG-AAATTAAATAAC
* * *
18876245 TTACATAACTTACATAAATTAAGTAAT
1 TTACATAACTTACAGAAATTAAATAAC
* * *
18876272 TTACATAACTTACATAACTTAAATATC
1 TTACATAACTTACAGAAATTAAATAAC
* * *
18876299 TTGA-ATAACTTACATAAATTAAGTAAA
1 TT-ACATAACTTACAGAAATTAAATAAC
* *
18876326 TTAAATATCTTACA
1 TTACATAACTTACA
18876340 TAACTTACAT
Statistics
Matches: 222, Mismatches: 30, Indels: 30
0.79 0.11 0.11
Matches are distributed among these distances:
26 4 0.02
27 173 0.78
28 21 0.09
29 3 0.01
35 1 0.00
36 20 0.09
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (27 bp):
TTACATAACTTACAGAAATTAAATAAC
Found at i:18876352 original size:36 final size:35
Alignment explanation
Indices: 18876105--18876361 Score: 189
Period size: 36 Copynumber: 7.1 Consensus size: 35
18876095 GTAATTCTTG
* * * * *
18876105 GTAACTTACATAAATTAAATATCTTGCATAACTTACA
1 GTAAATTAAATAAATT-AATAACTTACATAAATTA-A
* *
18876142 -TAAATTAAGTTAATTAAATAACTTACATAAATTAA
1 GTAAATTAAATAAATT-AATAACTTACATAAATTAA
*
18876177 GTAAATTAAATAAATTACATAAATTA-AGTAAATTAA
1 GTAAATTAAATAAATTA-ATAACTTACA-TAAATTAA
* * * * *
18876213 ATAAATTACATAAATTAAGTAAATTAAATAACTTACA
1 GTAAATTAAATAAATTAA-TAACTTACATAAATTA-A
* * * *
18876250 -TAACTTACATAAATTAAGTAATTTACATAACTTACA
1 GTAAATTAAATAAATTAA-TAACTTACATAAATTA-A
* **
18876286 -TAACTTAAATATCTTGAATAACTTACATAAATTAA
1 GTAAATTAAATAAATT-AATAACTTACATAAATTAA
**
18876321 GTAAATTAAATATCTTACATAACTTACATAAATTAA
1 GTAAATTAAATAAATTA-ATAACTTACATAAATTAA
18876357 GTAAA
1 GTAAA
18876362 GAAGGCATTG
Statistics
Matches: 189, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
35 6 0.03
36 179 0.95
37 4 0.02
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (35 bp):
GTAAATTAAATAAATTAATAACTTACATAAATTAA
Found at i:18877897 original size:42 final size:42
Alignment explanation
Indices: 18877842--18878134 Score: 414
Period size: 42 Copynumber: 7.0 Consensus size: 42
18877832 GTTTGTGAAA
* **
18877842 TAAGCACCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TTC
*
18877885 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
18877926 TAGGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
18877967 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCATTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTTTC
* *
18878010 AAAGCGCCGCTAAAGAACATGATCTTTAGAGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
18878052 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
18878094 TAAGCGCTGCTAAAGAACATGATCTTTAGCGACGTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
18878135 ATGAAAGCGC
Statistics
Matches: 229, Mismatches: 16, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
41 34 0.15
42 163 0.71
43 32 0.14
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:18878259 original size:21 final size:22
Alignment explanation
Indices: 18878224--18878265 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18878214 TAGTGGCGTT
* *
18878224 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
18878246 AAAAAACGCC-CTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
18878266 GTTCTGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.29, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:18879006 original size:3 final size:3
Alignment explanation
Indices: 18879000--18879066 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
18878990 CAACAACAAC
18879000 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18879048 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
18879067 GAAAGATAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18879283 original size:23 final size:22
Alignment explanation
Indices: 18879243--18879286 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
18879233 AAATTATAAA
*
18879243 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
18879265 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
18879287 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:18880025 original size:21 final size:23
Alignment explanation
Indices: 18880002--18880065 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 23
18879992 GTATATCTAC
*
18880002 AAATTAAAT-CTCTAAGATTACA
1 AAATCAAATCCTCTAAGATTACA
* *
18880024 AAATCATATCCTCTAAGATTGC-
1 AAATCAAATCCTCTAAGATTACA
* * *
18880046 ATATCATATCTTCTAAGATT
1 AAATCAAATCCTCTAAGATT
18880066 GCATATCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 25 0.69
23 11 0.31
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (23 bp):
AAATCAAATCCTCTAAGATTACA
Found at i:18880054 original size:22 final size:22
Alignment explanation
Indices: 18880011--18880091 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
18880001 CAAATTAAAT
* *
18880011 CTCTAAGATTACAAAATCATATC
1 CTCTAAGATTGC-ATATCATATC
18880034 CTCTAAGATTGCATATCATATC
1 CTCTAAGATTGCATATCATATC
*
18880056 TTCTAAGATTGCATATCATA--
1 CTCTAAGATTGCATATCATATC
18880076 -TCTAAGATTGCATATC
1 CTCTAAGATTGCATATC
18880092 CTTGAAGATT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 16 0.29
22 28 0.51
23 11 0.20
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
CTCTAAGATTGCATATCATATC
Found at i:18886255 original size:26 final size:28
Alignment explanation
Indices: 18886176--18886256 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
18886166 TCAGGCCAAT
*
18886176 TAAATTGGCGGCACCAAAGGTGCCAAA-
1 TAAATTGGCGGCACCAATGGTGCCAAAG
*
18886203 TAAATTGGTGGCACCAATGGTGCCAAAG
1 TAAATTGGCGGCACCAATGGTGCCAAAG
*
18886231 T-CATTGGCGGCACC-ATGGTGCCAAAG
1 TAAATTGGCGGCACCAATGGTGCCAAAG
18886257 GAAAAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.24
27 36 0.73
28 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (28 bp):
TAAATTGGCGGCACCAATGGTGCCAAAG
Found at i:18886360 original size:18 final size:19
Alignment explanation
Indices: 18886321--18886357 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18886311 TATTCCTCTT
* *
18886321 TAACTCTTTTTTTATTTAA
1 TAACTCTATTTTAATTTAA
18886340 TAACTCTATTTTAATTTA
1 TAACTCTATTTTAATTTA
18886358 TAAAATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (19 bp):
TAACTCTATTTTAATTTAA
Found at i:18886586 original size:37 final size:37
Alignment explanation
Indices: 18886544--18886614 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
18886534 AGTATTACTT
18886544 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
18886581 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
18886615 AAAAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:18886619 original size:19 final size:19
Alignment explanation
Indices: 18886550--18886618 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
18886540 ACTTAATAGT
18886550 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
18886569 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
18886587 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
18886606 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
18886619 AAAAGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:18886743 original size:27 final size:28
Alignment explanation
Indices: 18886694--18886771 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
18886684 TTTTTTTTTC
18886694 CTTTGGCACCA-TGGTGCCGCCAA-AGA
1 CTTTGGCACCATTGGTGCCGCCAATAGA
* **
18886720 CTTTGGCACCATTGGTGCCACCAATTTA
1 CTTTGGCACCATTGGTGCCGCCAATAGA
*
18886748 -TTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
18886772 TTAATTGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.24
27 33 0.73
28 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.28
Consensus pattern (28 bp):
CTTTGGCACCATTGGTGCCGCCAATAGA
Found at i:18886772 original size:27 final size:26
Alignment explanation
Indices: 18886695--18886780 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
18886685 TTTTTTTTCC
* **
18886695 TTTGGCACCATGGTGCCGCCAA-AGA
1 TTTGGCACCTTGGTGCCGCCAATTTA
*
18886720 CTTTGGCACCATTGGTGCCACCAATTTA
1 -TTTGGCACC-TTGGTGCCGCCAATTTA
18886748 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-TTGGTGCCGCCAATTTA
*
18886775 ATTGGC
1 TTTGGC
18886781 CTGATCAGGC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.18
27 41 0.80
28 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCTTGGTGCCGCCAATTTA
Found at i:18888330 original size:13 final size:14
Alignment explanation
Indices: 18888309--18888357 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
18888299 CAATTTTCAA
18888309 TTTTCAATTTT-TT
1 TTTTCAATTTTATT
*
18888322 TTTTGAATTTTATT
1 TTTTCAATTTTATT
*
18888336 TTGTTCGATTTTATT
1 TT-TTCAATTTTATT
18888351 TTGTTCA
1 TT-TTCA
18888358 TTATGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 10 0.33
14 4 0.13
15 16 0.53
ACGTcount: A:0.16, C:0.06, G:0.08, T:0.69
Consensus pattern (14 bp):
TTTTCAATTTTATT
Found at i:18888337 original size:15 final size:15
Alignment explanation
Indices: 18888328--18888356 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18888318 TTTTTTTTGA
18888328 ATTTTATTTTGTTCG
1 ATTTTATTTTGTTCG
18888343 ATTTTATTTTGTTC
1 ATTTTATTTTGTTC
18888357 ATTATGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.10, T:0.69
Consensus pattern (15 bp):
ATTTTATTTTGTTCG
Found at i:18888485 original size:24 final size:25
Alignment explanation
Indices: 18888458--18888505 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18888448 ATTATTTAAT
18888458 TTTAAA-TAGTTAA-TTATTATGTTG
1 TTTAAATTA-TTAACTTATTATGTTG
*
18888482 TTTAAATTATTAACTTTTTATGTT
1 TTTAAATTATTAACTTATTATGTT
18888506 TATATACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTAAATTATTAACTTATTATGTTG
Found at i:18889805 original size:24 final size:23
Alignment explanation
Indices: 18889753--18889805 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
18889743 TTTTTATTCC
18889753 TTTTTTAAAAATTAGATTAAAAA
1 TTTTTTAAAAATTAGATTAAAAA
* * *
18889776 TATTTTAAAAATTACTATTCAAAA
1 TTTTTTAAAAATTA-GATTAAAAA
18889800 TTTTTT
1 TTTTTT
18889806 TCCAAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTTTTAAAAATTAGATTAAAAA
Found at i:18895562 original size:240 final size:239
Alignment explanation
Indices: 18895128--18895612 Score: 808
Period size: 240 Copynumber: 2.0 Consensus size: 239
18895118 GTGACCCTAT
*
18895128 TGTGAAAAAAGGGGTACACCCAAATAAGTACCAAGATTACTCACTTATTGAAAACCAATAGTATG
1 TGTG-AAAAAGGGGTACACCCAAATAAGTACCAAGATTACTCACTTATTGAAAACCAAGAGTATG
* * *
18895193 ATTTAAACTATCACTTAGATCGTCCTCCACGCCTTTTGAGAAATACATAATTTTTTTTCGGTTGC
65 ATTGAAACTATCACTTAGATCCTCCTCCACGCCTTTTGAGAAATACATAATTGTTTTTCGGTTGC
*
18895258 TGACCCAATGCCCTAAGACATTATAGAAGTTATCCAAAATTTCCTTAAGGACCAAACTATGTTTC
130 TGACCCAATGCCCTAAGACATTATAGAAGTTATCCAAAATTTCCTTAAGGACCAAACCATGTTTC
* * *
18895323 AAATCTGCCTTAGCAAAAAGAACCAAATCATTTGCAAAAAAACAAG
195 AAATCTGCCTTAGCAAAAAGAACCAAATCATCTAC-AAAAAACAAA
* *
18895369 TGTGAAAAAGGGGTACACCCAAATAAGTACCAAGATTACTCACTTTTTGAAAACTAAGAGTATGA
1 TGTGAAAAAGGGGTACACCCAAATAAGTACCAAGATTACTCACTTATTGAAAACCAAGAGTATGA
** *
18895434 TTGAAACTATTGCTTAGATCCTCCTCCACGCCTTTTGAGAAATACATAATTGTTTTTCGGTTGTT
66 TTGAAACTATCACTTAGATCCTCCTCCACGCCTTTTGAGAAATACATAATTGTTTTTCGGTTGCT
* * *
18895499 GACCCGATGCCTTAAGATATTATAGAAGTTATCCAAAATTTCCTTAAGGACCAAACCATGTTTCA
131 GACCCAATGCCCTAAGACATTATAGAAGTTATCCAAAATTTCCTTAAGGACCAAACCATGTTTCA
18895564 AATCTGCCTTAGCAAAAAGAACCAAATCATCTACAAAAAACAAA
196 AATCTGCCTTAGCAAAAAGAACCAAATCATCTACAAAAAACAAA
18895608 TGTGA
1 TGTGA
18895613 TAATGGATAT
Statistics
Matches: 228, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
239 14 0.06
240 210 0.92
241 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (239 bp):
TGTGAAAAAGGGGTACACCCAAATAAGTACCAAGATTACTCACTTATTGAAAACCAAGAGTATGA
TTGAAACTATCACTTAGATCCTCCTCCACGCCTTTTGAGAAATACATAATTGTTTTTCGGTTGCT
GACCCAATGCCCTAAGACATTATAGAAGTTATCCAAAATTTCCTTAAGGACCAAACCATGTTTCA
AATCTGCCTTAGCAAAAAGAACCAAATCATCTACAAAAAACAAA
Found at i:18904928 original size:13 final size:12
Alignment explanation
Indices: 18904896--18904939 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 12
18904886 GAATTAAAAG
18904896 AAATTAGAATATAA
1 AAATTA-AATA-AA
18904910 AAATTAAATAAA
1 AAATTAAATAAA
18904922 AATATTAAAATAAA
1 AA-ATT-AAATAAA
18904936 AAAT
1 AAAT
18904940 GGCTAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.14
13 9 0.32
14 15 0.54
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AAATTAAATAAA
Found at i:18907991 original size:35 final size:35
Alignment explanation
Indices: 18907926--18908651 Score: 513
Period size: 35 Copynumber: 19.7 Consensus size: 35
18907916 AGACCTAGTC
* * **
18907926 AAGGCCAACCTTTGAAAACGGTTGGTATAGACCCGTCT
1 AAGG-CAACC-TT-AAAAAGGTTGGGATAGACTTGTCT
* * **
18907964 AAGGCAGCCTTAAAGAGGTTGGGATAGACCAGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCT
** * **
18907999 AAGATAACCTTTTAAAAAAAGTTAAGATAGACTTTGTCT
1 AAGGCAACC--TT-AAAAAGGTTGGGATAGAC-TTGTCT
*
18908038 AAGGCAACCTTTAAAAAAAGTTGGGATAGACCTTGTCT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGA-CTTGTCT
* * *
18908076 AGGGTAACCTTTAAAAAACAGTTGGGATAGACCTTGTCT
1 AAGGCAACC-TT-AAAAA-GGTTGGGATAGA-CTTGTCT
* * * *
18908115 AAGGAAACCTTTAAAAAAGATTGGGATAGAATCGTCT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGACTTGTCT
*
18908152 AAGGCAACCTTAAAAAGGTTTGGATAGACATTGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGAC-TTGTCT
* * * * * *
18908188 GAGACAACTTTTAAAAAAGGTTGAGATGGACTAGTCT
1 AAGGCAAC-CTT-AAAAAGGTTGGGATAGACTTGTCT
18908225 AAGGCAACCTTTTAACAAA-GTTGGGATAGACCTTGTCT
1 AAGGCAACC--TTAA-AAAGGTTGGGATAGA-CTTGTCT
* ** *
18908263 AAGGCAACCTTTAAAAAAGGTTAGGATAGACCAGTTT
1 AAGGCAACC-TT-AAAAAGGTTGGGATAGACTTGTCT
** *
18908300 AAGGCAACCTTTTAAAAAAAAATTAGGATAGACCTTGTCT
1 AAGGCAACC--TT--AAAAAGGTTGGGATAGA-CTTGTCT
* *
18908340 AAGGAAACCTTCAAAAAAGGTTAGGATAGACTTGTCT
1 AAGGCAACCTT--AAAAAGGTTGGGATAGACTTGTCT
* *
18908377 AAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCT
* *
18908412 AAGGTAACCTTAAAAAGGTAGGGATAGACCTTTGTCT
1 AAGGCAACCTTAAAAAGGTTGGGATAGA-C-TTGTCT
* * ** *
18908449 AAGGCAACTTTTAAAAAGGTTGGGATTGACTCATTT
1 AAGGCAAC-CTTAAAAAGGTTGGGATAGACTTGTCT
* * * *
18908485 AAGACAACCTTAAAAATGTTGGGATAGACTCGTTT
1 AAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCT
* ** * *
18908520 AAAGCAACCTTAAAAATATTGGGATAGACCTTTTCC
1 AAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCT
* * * **
18908556 AAGGTAA-CTTAAAAAAAGTTGGGATAAACTCATCT
1 AAGGCAACCTT-AAAAAGGTTGGGATAGACTTGTCT
* *
18908591 AAGGCAACCTTAAAAAGGTTAGGG-TAAACTCGTCT
1 AAGGCAACCTTAAAAAGGTT-GGGATAGACTTGTCT
* *
18908626 AAGGCAAACTTAAAAAGGTTAGGATA
1 AAGGCAACCTTAAAAAGGTTGGGATA
18908652 AATCTTTGTC
Statistics
Matches: 565, Mismatches: 97, Indels: 55
0.79 0.14 0.08
Matches are distributed among these distances:
34 2 0.00
35 188 0.33
36 54 0.10
37 91 0.16
38 154 0.27
39 64 0.11
40 12 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (35 bp):
AAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCT
Found at i:18908030 original size:38 final size:37
Alignment explanation
Indices: 18907916--18908606 Score: 478
Period size: 38 Copynumber: 18.7 Consensus size: 37
18907906 GGGTTGGAAA
* ** *
18907916 AGACCTAGTC-AAGGCCAACCTTTGAAAACGGTTGGTAT
1 AGACCT-GTCTAAGG-CAACCTTTAAAAAAAGTTGGGAT
* * * *
18907954 AGACCCGTCTAAGGCAGCC-TT-AAAGAGGTTGGGAT
1 AGACCTGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* ** **
18907989 AGACCAGTCTAAGATAACCTTTTAAAAAAAGTTAAGAT
1 AGACCTGTCTAAGGCAACC-TTTAAAAAAAGTTGGGAT
*
18908027 AGACTTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
1 AGAC-CTGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* *
18908065 AGACCTTGTCTAGGGTAACCTTTAAAAAACAGTTGGGAT
1 AGACC-TGTCTAAGGCAACCTTTAAAAAA-AGTTGGGAT
*
18908104 AGACCTTGTCTAAGGAAACCTTT-AAAAAAGATTGGGAT
1 AGACC-TGTCTAAGGCAACCTTTAAAAAAAG-TTGGGAT
* * *
18908142 AGA-ATCGTCTAAGGCAACC-TT-AAAAAGGTTTGGAT
1 AGACCT-GTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * * * * *
18908177 AGACATTGTCTGAGACAACTTTTAAAAAAGGTTGAGAT
1 AGAC-CTGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * *
18908215 GGA-CTAGTCTAAGGCAACCTTTTAACAAAGTTGGGAT
1 AGACCT-GTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* *
18908252 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGAT
1 AGACC-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * * *
18908290 AGACCAGTTTAAGGCAACCTTTTAAAAAAAAATTAGGAT
1 AGACCTGTCTAAGGCAACC-TTT-AAAAAAAGTTGGGAT
* * * *
18908329 AGACCTTGTCTAAGGAAACCTTCAAAAAAGGTTAGGAT
1 AGACC-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * *
18908367 AGACTTGTCTAAAGCAACC-TT-AAAAAGGTTGGGAT
1 AGACCTGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * *
18908402 AGA-CTCGTCTAAGGTAACC-TT-AAAAAGGTAGGGAT
1 AGACCT-GTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* *
18908437 AGACCTTTGTCTAAGGCAA-CTTTTAAAAAGGTTGGGAT
1 AGACC--TGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * *
18908475 TGACTCAT-T-TAAGACAACC-TT-AAAAATGTTGGGAT
1 AGAC-C-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * *
18908510 AGA-CTCGTTTAAAGCAACC-TTAAAAATA-TTGGGAT
1 AGACCT-GTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* * *
18908545 AGACCTTTTCCAAGGTAA-C-TTAAAAAAAGTTGGGAT
1 AGACC-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
* *
18908581 A-AACTCATCTAAGGCAACC-TTAAAAA
1 AGACCT-GTCTAAGGCAACCTTTAAAAA
18908607 GGTTAGGGTA
Statistics
Matches: 529, Mismatches: 88, Indels: 74
0.77 0.13 0.11
Matches are distributed among these distances:
32 1 0.00
33 1 0.00
34 3 0.01
35 134 0.25
36 61 0.12
37 91 0.17
38 164 0.31
39 63 0.12
40 11 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (37 bp):
AGACCTGTCTAAGGCAACCTTTAAAAAAAGTTGGGAT
Found at i:18908087 original size:77 final size:77
Alignment explanation
Indices: 18907907--18908601 Score: 560
Period size: 73 Copynumber: 9.4 Consensus size: 77
18907897 CTTATTGAAG
* * * ** * *
18907907 GGTTGGAAAAGACCTAGTC-AAGGCCAACC-TTTGAAAACGGTTGGTATAGACC-CGTCTAAGGC
1 GGTTGGGATAGACCTAGTCTAAGG-CAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGC
* *
18907969 AGCC-TT-AAAGA
65 AACCTTTAAAAAA
** ** *
18907980 GGTTGGGATAGACC-AGTCTAAGATAACCTTTTAAAAAAAGTTAAGATAGACTTTGTCTAAGGCA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCA
18908044 ACCTTTAAAAAA
66 ACCTTTAAAAAA
* * * * *
18908056 AGTTGGGATAGACCTTGTCTAGGGTAACC-TTTAAAAAACAGTTGGGATAGACCTTGTCTAAGGA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAA-AGTTGGGATAGACCTTGTCTAAGGC
18908120 AACCTTTAAAAAA
65 AACCTTTAAAAAA
* * * * * * * *
18908133 GATTGGGATAGA-ATCGTCTAAGGCAACC--TT-AAAAAGGTTTGGATAGACATTGTCTGAGACA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCA
*
18908194 ACTTTTAAAAAA
66 ACCTTTAAAAAA
* * *
18908206 GGTTGAGATGGA-CTAGTCTAAGGCAACCTTTT-AACAAAGTTGGGATAGACCTTGTCTAAGGCA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCA
18908269 ACCTTTAAAAAA
66 ACCTTTAAAAAA
* * * * *
18908281 GGTTAGGATAGACC-AGTTTAAGGCAACCTTTTAAAAAAAAATTAGGATAGACCTTGTCTAAGGA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTT-AAAAAAAGTTGGGATAGACCTTGTCTAAGGC
*
18908345 AACCTTCAAAAAA
65 AACCTTTAAAAAA
* * * * * *
18908358 GGTTAGGATAGA-CTTGTCTAAAGCAACC--TT-AAAAAGGTTGGGATAGA-CTCGTCTAAGGTA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCA
18908418 ACC-TT-AAAAA
66 ACCTTTAAAAAA
* * * * * *
18908428 GGTAGGGATAGACCTTTGTCTAAGGCAA-CTTTT-AAAAAGGTTGGGATTGACTCAT-T-TAAGA
1 GGTTGGGATAGACC-TAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGAC-CTTGTCTAAGG
18908489 CAACC-TT-AAAAA
64 CAACCTTTAAAAAA
* * * * * * * *
18908501 TGTTGGGATAGA-CTCGTTTAAAGCAACC--TTAAAAATA-TTGGGATAGACCTTTTCCAAGGTA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCA
18908562 A-C-TTAAAAAA
66 ACCTTTAAAAAA
* *
18908572 AGTTGGGATA-AACTCA-TCTAAGGCAACCTT
1 GGTTGGGATAGACCT-AGTCTAAGGCAACCTT
18908602 AAAAAGGTTA
Statistics
Matches: 505, Mismatches: 89, Indels: 56
0.78 0.14 0.09
Matches are distributed among these distances:
69 2 0.00
70 32 0.06
71 48 0.10
72 36 0.07
73 142 0.28
74 18 0.04
75 71 0.14
76 40 0.08
77 116 0.23
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (77 bp):
GGTTGGGATAGACCTAGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACCTTGTCTAAGGCA
ACCTTTAAAAAA
Found at i:18908292 original size:225 final size:219
Alignment explanation
Indices: 18907926--18908651 Score: 729
Period size: 225 Copynumber: 3.3 Consensus size: 219
18907916 AGACCTAGTC
* * * * * *
18907926 AAGGCCAACCTTTGAAAACGGTTGGTATAGACCCGTCTAAGGCAGCCTTAAAGAGGTTGGGATAG
1 AAGG-CAACC-TT-AAAAAGGTTGGGATAGACTCGTCTAAGACAACCTTAAAAAGGTTGGGATAG
* ** ** *
18907991 ACCAGTCTAAGATAACCTTTTAAAAAAAGTTAAGATAGACTTTGTCTAAGGCAACCTTTAAAAAA
63 ACTAGTCTAAGGCAACCTTTT--AAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAA
* * * * *
18908056 AGTTGGGATAGACCTTGTCTAGGGTAACCTTTAAAAAACAGTTGGGATAGACCTTGTCTAAGGAA
126 AGTTGGGATAGACCTAGTTTAAGGCAACCTTTAAAAAA-AATTGGGATAGACCTTGTCTAAGGAA
*
18908121 ACCTTTAAAAAAGATTGGGATAGAATCGTCT
190 ACCTTAAAAAAAG-TTGGGATAGAATCGTCT
* * * * * *
18908152 AAGGCAACCTTAAAAAGGTTTGGATAGACATTGTCTGAGACAACTTTTAAAAAAGGTTGAGATGG
1 AAGGCAACCTTAAAAAGGTTGGGATAGAC-TCGTCTAAGACAAC-CTT-AAAAAGGTTGGGATAG
*
18908217 ACTAGTCTAAGGCAACCTTTTAACAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAG
63 ACTAGTCTAAGGCAACCTTTTAA-AAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAA
* *
18908282 GTTAGGATAGACC-AGTTTAAGGCAACCTTTTAAAAAAAAATTAGGATAGACCTTGTCTAAGGAA
127 GTTGGGATAGACCTAGTTTAAGGCAACC-TTT-AAAAAAAATTGGGATAGACCTTGTCTAAGGAA
* * * *
18908346 ACCTTCAAAAAAGGTTAGGATAGACTTGTCT
190 ACCTT-AAAAAAAGTTGGGATAGAATCGTCT
* ** *
18908377 AAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGGTAACCTTAAAAAGGTAGGGATAGACC
1 AAGGCAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGACAACCTTAAAAAGGTTGGGATAGA-C
* * * * *
18908442 TTTGTCTAAGGCAA-CTTTTAAAAAGGTTGGGATTGACTCAT-T-TAAGACAACC-TT-AAAAAT
65 -TAGTCTAAGGCAACCTTTTAAAAA-GTTGGGATAGAC-CTTGTCTAAGGCAACCTTTAAAAAAA
* * * * * *
18908502 GTTGGGATAGA-CTCGTTTAAAGCAACC-TT-AAAAATATTGGGATAGACCTTTTCCAAGGTAA-
127 GTTGGGATAGACCTAGTTTAAGGCAACCTTTAAAAAAAATTGGGATAGACCTTGTCTAAGGAAAC
*
18908563 CTTAAAAAAAGTTGGGATA-AACTCATCT
192 CTTAAAAAAAGTTGGGATAGAA-TCGTCT
* * * *
18908591 AAGGCAACCTTAAAAAGGTTAGGG-TAAACTCGTCTAAGGCAAACTTAAAAAGGTTAGGATA
1 AAGGCAACCTTAAAAAGGTT-GGGATAGACTCGTCTAAGACAACCTTAAAAAGGTTGGGATA
18908652 AATCTTTGTC
Statistics
Matches: 421, Mismatches: 65, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
213 1 0.00
214 69 0.16
215 6 0.01
216 27 0.06
218 2 0.00
219 1 0.00
220 27 0.06
221 2 0.00
222 26 0.06
223 37 0.09
224 47 0.11
225 129 0.31
226 47 0.11
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (219 bp):
AAGGCAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGACAACCTTAAAAAGGTTGGGATAGACT
AGTCTAAGGCAACCTTTTAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTG
GGATAGACCTAGTTTAAGGCAACCTTTAAAAAAAATTGGGATAGACCTTGTCTAAGGAAACCTTA
AAAAAAGTTGGGATAGAATCGTCT
Found at i:18912994 original size:22 final size:22
Alignment explanation
Indices: 18912944--18912994 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
18912934 TACGTTTTCC
* *
18912944 ATATTTTATAATTTATATATGT
1 ATATTTTATAATTTATAAATAT
* * *
18912966 TTTTTTTATAATTTGTAAATAT
1 ATATTTTATAATTTATAAATAT
18912988 ATATTTT
1 ATATTTT
18912995 TATCCTCTAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (22 bp):
ATATTTTATAATTTATAAATAT
Found at i:18920080 original size:24 final size:25
Alignment explanation
Indices: 18920053--18920100 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
18920043 ATTATATATA
* *
18920053 TATACGTACATATA-CTAAAAATAC
1 TATACATACATATATATAAAAATAC
*
18920077 TATATATACATATATATAAAAATA
1 TATACATACATATATATAAAAATA
18920101 TGAAGTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (25 bp):
TATACATACATATATATAAAAATAC
Found at i:18928148 original size:20 final size:21
Alignment explanation
Indices: 18928113--18928156 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
18928103 AAATAGTACT
*
18928113 ATTTTTATTTTGGTCACTCTA
1 ATTTTTATTTTGGTCAATCTA
18928134 ATTTTTATTTT-GTCAATCTA
1 ATTTTTATTTTGGTCAATCTA
18928154 ATT
1 ATT
18928157 GTGATAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTTTATTTTGGTCAATCTA
Found at i:18940517 original size:2 final size:2
Alignment explanation
Indices: 18940512--18940546 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18940502 CATATGTGTG
*
18940512 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18940547 GTCAACATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18976615 original size:161 final size:159
Alignment explanation
Indices: 18976335--18976639 Score: 414
Period size: 161 Copynumber: 1.9 Consensus size: 159
18976325 CATACCATCC
* * * * * * * *
18976335 TTTTTTGGCTTCTAGTTCTTGTACTCGTACTAGACTGTGGAAAAAAAATCACAACCTCAAATTAT
1 TTTTTTGGATTCTAGTTCTTGTACTCGTACCAGAATGAGCAAAAAAAATAACAACCCCAAATTAG
* *
18976400 ATTTAAGTATTTCGAAACTTGACAGTAAAAAAGTGTTTACAATATACCTATGATCCAGTTGTGTT
66 ATATAAATATTTCGAAACTTGACAGTAAAAAAGTGTTTACAATATACCTATGATCCAGTTGTGTT
* *
18976465 AGGTTGAATGCATGGTCTTCTATTGTTCT
131 AGCTTGAAAGCATGGTCTTCTATTGTTCT
*
18976494 TTTTTTGGATTCTAGTTCTTGTACTCGTGCCAGAATGAGACAATAAAAAATAACAACCCCAAATT
1 TTTTTTGGATTCTAGTTCTTGTACTCGTACCAGAATGAG-CAA-AAAAAATAACAACCCCAAATT
* * ** *
18976559 AGATATAAATATTTTGGAACTTGACAGTGAAAAAA-TGTTTATGATATACGTATGATCCAGTTGT
64 AGATATAAATATTTCGAAACTTGACAGT-AAAAAAGTGTTTACAATATACCTATGATCCAGTTGT
18976623 GTTAGCTTGAAAGCATG
128 GTTAGCTTGAAAGCATG
18976640 ATTTTCTGTT
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
159 34 0.27
160 2 0.02
161 83 0.66
162 6 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (159 bp):
TTTTTTGGATTCTAGTTCTTGTACTCGTACCAGAATGAGCAAAAAAAATAACAACCCCAAATTAG
ATATAAATATTTCGAAACTTGACAGTAAAAAAGTGTTTACAATATACCTATGATCCAGTTGTGTT
AGCTTGAAAGCATGGTCTTCTATTGTTCT
Found at i:18977597 original size:31 final size:31
Alignment explanation
Indices: 18977559--18977623 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
18977549 ATAAGTAAAA
* *
18977559 CATCAGTAATAAATTCGTGCAAAATAAATAG
1 CATCAGTAAAAAATTCGTGAAAAATAAATAG
*
18977590 CATCAGTAAAAAATTGGTGAAAAATAAATAG
1 CATCAGTAAAAAATTCGTGAAAAATAAATAG
18977621 CAT
1 CAT
18977624 TATTTACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (31 bp):
CATCAGTAAAAAATTCGTGAAAAATAAATAG
Found at i:18979185 original size:15 final size:17
Alignment explanation
Indices: 18979148--18979189 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
18979138 TATTTAAATA
*
18979148 TTCAACACCCTCACCACC
1 TTCACCACCCTCA-CACC
18979166 TTCACCACCCTCA-ACC
1 TTCACCACCCTCACACC
18979182 -TCACCACC
1 TTCACCACC
18979190 TTACCATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 3 0.13
18 12 0.52
ACGTcount: A:0.26, C:0.57, G:0.00, T:0.17
Consensus pattern (17 bp):
TTCACCACCCTCACACC
Found at i:18979253 original size:88 final size:90
Alignment explanation
Indices: 18979053--18979272 Score: 239
Period size: 88 Copynumber: 2.5 Consensus size: 90
18979043 CATCCCGATT
* * ** *
18979053 TAAAC-TTCAGCACCCTTACCATTTTCACCACCCTCAACCTCATCACCCTCACCACCTTTACTAC
1 TAAACATTCAACACCCTCACCACCTTCACCACCCTCAACCTCACCACCCTCACCACCTTTACTAC
** * * * **
18979117 TAGTAACCTCAGCACCCTTCCTATT
66 TAACAACCTCAACACCCTCCCCACC
* * * *
18979142 TAAATATTCAACACCCTCACCACCTTCACCACCCTCAACCTCACCA-CCTTACCATCTTTACTGC
1 TAAACATTCAACACCCTCACCACCTTCACCACCCTCAACCTCACCACCCTCACCACCTTTACTAC
18979206 TAACAA-CTCAACACCCTCCCCACC
66 TAACAACCTCAACACCCTCCCCACC
* * **
18979230 TAAACATTCACCACCCTCCCCACCTTCACCACCAGCAACCTCA
1 TAAACATTCAACACCCTCACCACCTTCACCACCCTCAACCTCA
18979273 ACACTGTCTC
Statistics
Matches: 109, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
88 51 0.47
89 23 0.21
90 35 0.32
ACGTcount: A:0.28, C:0.46, G:0.02, T:0.23
Consensus pattern (90 bp):
TAAACATTCAACACCCTCACCACCTTCACCACCCTCAACCTCACCACCCTCACCACCTTTACTAC
TAACAACCTCAACACCCTCCCCACC
Found at i:18980261 original size:29 final size:28
Alignment explanation
Indices: 18980221--18980298 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
18980211 AAAACAATAA
*
18980221 AAAAAT-CCCAAAATCGAAAACCCTAAAC
1 AAAAATCCCCAAAATC-AAAACCATAAAC
* * * *
18980249 TAAAATCCCCAAAATAAAAAAATCATAAAG
1 AAAAATCCCCAAAAT--CAAAACCATAAAC
18980279 AAAAATCCCCAAAATCAAAA
1 AAAAATCCCCAAAATCAAAA
18980299 TAACCTAACC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
28 9 0.22
29 8 0.20
30 23 0.57
ACGTcount: A:0.62, C:0.23, G:0.03, T:0.13
Consensus pattern (28 bp):
AAAAATCCCCAAAATCAAAACCATAAAC
Found at i:18980991 original size:18 final size:18
Alignment explanation
Indices: 18980963--18981016 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
18980953 CAACACCTGC
18980963 AAAAG-AAGAAAATGAAA
1 AAAAGAAAGAAAATGAAA
*
18980980 AAAAGAAAGAAAAAG-AA
1 AAAAGAAAGAAAATGAAA
*
18980997 AAGAGAAAAGAAAATTGAAA
1 AAAAG-AAAGAAAA-TGAAA
18981017 GAGATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 11 0.37
18 16 0.53
19 1 0.03
20 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAGAAAGAAAATGAAA
Found at i:18983946 original size:11 final size:11
Alignment explanation
Indices: 18983930--18983960 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
18983920 CATCGCGTAG
18983930 TCGCGCAAAGT
1 TCGCGCAAAGT
18983941 TCGCGCAAAGT
1 TCGCGCAAAGT
18983952 TCGCGCAAA
1 TCGCGCAAA
18983961 ATTCTCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (11 bp):
TCGCGCAAAGT
Found at i:18998653 original size:28 final size:28
Alignment explanation
Indices: 18998621--18998680 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18998611 AAGCCGACCA
* *
18998621 TATGAATTTCCTCACACAAGCATTAGGT
1 TATGAAATGCCTCACACAAGCATTAGGT
* * *
18998649 TATGAAATGGCTCACACAAGCCTTCGGT
1 TATGAAATGCCTCACACAAGCATTAGGT
18998677 TATG
1 TATG
18998681 GTGATTGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (28 bp):
TATGAAATGCCTCACACAAGCATTAGGT
Found at i:18999610 original size:20 final size:21
Alignment explanation
Indices: 18999571--18999620 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
18999561 GCTTATATAC
* *
18999571 TTTATTTAACTTATACTTAAA
1 TTTAATTAACTTAAACTTAAA
18999592 TTTAATTAA-TTAAACTTAAA
1 TTTAATTAACTTAAACTTAAA
*
18999612 CTTAATTAA
1 TTTAATTAA
18999621 AAAAGTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAATTAACTTAAACTTAAA
Found at i:19003044 original size:17 final size:17
Alignment explanation
Indices: 19003022--19003056 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19003012 GAACGCGAAG
19003022 ATAAACACAATAGATTA
1 ATAAACACAATAGATTA
19003039 ATAAACACAATAGATTA
1 ATAAACACAATAGATTA
19003056 A
1 A
19003057 CCTACTCACT
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:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
ATAAACACAATAGATTA
Found at i:19006301 original size:11 final size:11
Alignment explanation
Indices: 19006258--19006311 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
19006248 ATTGACAGCG
*
19006258 AAACAACACTA
1 AAACAACACCA
* *
19006269 AAATACCACCCA
1 AAACAACA-CCA
19006281 AAATCAACACCA
1 AAA-CAACACCA
19006293 AAACAACACCAA
1 AAACAACACC-A
19006305 AAACAAC
1 AAACAAC
19006312 CTGCAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 13 0.37
12 19 0.54
13 3 0.09
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (11 bp):
AAACAACACCA
Found at i:19006302 original size:24 final size:23
Alignment explanation
Indices: 19006258--19006311 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
19006248 ATTGACAGCG
* * *
19006258 AAACAACACTAAAATACCACCCAA
1 AAACAACACCAAAACAACA-CCAA
*
19006282 AATCAACACCAAAACAACACCAA
1 AAACAACACCAAAACAACACCAA
19006305 AAACAAC
1 AAACAAC
19006312 CTGCAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (23 bp):
AAACAACACCAAAACAACACCAA
Found at i:19009143 original size:18 final size:19
Alignment explanation
Indices: 19009102--19009143 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
19009092 ATAAGTTAAT
*
19009102 CATCATGTATTTTCCATCA
1 CATCATGAATTTTCCATCA
*
19009121 -TTCATGAATTTT-CATCA
1 CATCATGAATTTTCCATCA
19009138 CATCAT
1 CATCAT
19009144 ACCAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.43
Consensus pattern (19 bp):
CATCATGAATTTTCCATCA
Found at i:19011695 original size:62 final size:62
Alignment explanation
Indices: 19011598--19011721 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
19011588 TAGGAGAGAG
19011598 GTCTAATATGGTGAGTGTTAAAAGTTACGGTTACTTATTGTACAAATGCTAAGATAGTAGAT
1 GTCTAATATGGTGAGTGTTAAAAGTTACGGTTACTTATTGTACAAATGCTAAGATAGTAGAT
19011660 GTCTAATATGGTGAGTGTTAAAAGTTACGGTTACTTATTGTACAAATGCTAAGATAGTAGAT
1 GTCTAATATGGTGAGTGTTAAAAGTTACGGTTACTTATTGTACAAATGCTAAGATAGTAGAT
19011722 TATCTCTCTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (62 bp):
GTCTAATATGGTGAGTGTTAAAAGTTACGGTTACTTATTGTACAAATGCTAAGATAGTAGAT
Found at i:19013253 original size:6 final size:6
Alignment explanation
Indices: 19013242--19013270 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19013232 TATATTGAGA
19013242 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
19013271 ATATTAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:19015435 original size:14 final size:17
Alignment explanation
Indices: 19015402--19015442 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
19015392 TCCTACTTTT
19015402 TTTATTATAATATTTAA
1 TTTATTATAATATTTAA
*
19015419 TTTA-TATAA-ATTTAT
1 TTTATTATAATATTTAA
19015434 TTTCATTAT
1 TTT-ATTAT
19015443 TCTTATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATTATAATATTTAA
Found at i:19016158 original size:16 final size:15
Alignment explanation
Indices: 19016137--19016187 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
19016127 CCAGTTTACT
19016137 ATGTATGTTTTTTTTA
1 ATGTAT-TTTTTTTTA
19016153 ATGTATTATTTTTTTAAA
1 ATGTATT-TTTTTTT--A
*
19016171 ATGTATTATTTTTTA
1 ATGTATTTTTTTTTA
19016186 AT
1 AT
19016188 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 6 0.19
18 8 0.26
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (15 bp):
ATGTATTTTTTTTTA
Found at i:19016166 original size:15 final size:16
Alignment explanation
Indices: 19016145--19016184 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
19016135 CTATGTATGT
19016145 TTTTTTTAATGTATTA
1 TTTTTTTAATGTATTA
19016161 TTTTTTTAAAATGTATTA
1 TTTTTTT--AATGTATTA
19016179 TTTTTT
1 TTTTTT
19016185 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
18 15 0.68
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTTTTTAATGTATTA
Found at i:19025357 original size:21 final size:21
Alignment explanation
Indices: 19025331--19025372 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19025321 TTTTTTTATT
*
19025331 TGAATCTAATAAA-AAAACATA
1 TGAATC-AAAAAATAAAACATA
19025352 TGAATCAAAAAATAAAACATA
1 TGAATCAAAAAATAAAACATA
19025373 AACATACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (21 bp):
TGAATCAAAAAATAAAACATA
Found at i:19025397 original size:16 final size:16
Alignment explanation
Indices: 19025376--19025408 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19025366 AAACATAAAC
*
19025376 ATACCTTACCAAAATA
1 ATACCTTACAAAAATA
19025392 ATACCTTACAAAAATA
1 ATACCTTACAAAAATA
19025408 A
1 A
19025409 ATAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
ATACCTTACAAAAATA
Found at i:19025727 original size:32 final size:30
Alignment explanation
Indices: 19025669--19025733 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
19025659 ATGTTTTCCC
* *
19025669 TTTTTTCTTTCCTTCTCTTCTATTCTCTTT
1 TTTTTTCTTTCCTTCTCATCTATTCTCTAT
* *
19025699 TTTTTTCCTTCTCCTTTTCATCTCTTCTCTAT
1 TTTTTT-CTT-TCCTTCTCATCTATTCTCTAT
19025731 TTT
1 TTT
19025734 GCTCCTCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.21
31 3 0.10
32 20 0.69
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTTTTCTTTCCTTCTCATCTATTCTCTAT
Found at i:19037769 original size:15 final size:15
Alignment explanation
Indices: 19037749--19037782 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19037739 TTTGTTCGGT
19037749 TCTATTCTACTCTAC
1 TCTATTCTACTCTAC
* *
19037764 TCTATTTTACTCTGC
1 TCTATTCTACTCTAC
19037779 TCTA
1 TCTA
19037783 CTTGATTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.03, T:0.50
Consensus pattern (15 bp):
TCTATTCTACTCTAC
Found at i:19039072 original size:21 final size:21
Alignment explanation
Indices: 19039023--19039063 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19039013 TTATCATAGT
*
19039023 TATCATATTATAGATCATACA
1 TATCATATTACAGATCATACA
19039044 TATCATATTACAGATCATAC
1 TATCATATTACAGATCATAC
19039064 TGACTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TATCATATTACAGATCATACA
Found at i:19053143 original size:18 final size:16
Alignment explanation
Indices: 19053101--19053144 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
19053091 ATATTAAATG
*
19053101 TAAAAATATAATTTTT
1 TAAAAATAAAATTTTT
*
19053117 TAAAAA-AAAGTTATTT
1 TAAAAATAAAATT-TTT
19053133 TAAAAATAAAAT
1 TAAAAATAAAAT
19053145 GTGAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 15 0.65
17 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TAAAAATAAAATTTTT
Found at i:19053550 original size:30 final size:29
Alignment explanation
Indices: 19053516--19053573 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
19053506 AGAGGTGGGA
*
19053516 TGGGAAAGGAATAAAAGTTTTAGGGGAAAG
1 TGGGAAA-GAATAAAAATTTTAGGGGAAAG
* * *
19053546 TGGGAGAGAGTAAAAATTTTGGGGGAAA
1 TGGGAAAGAATAAAAATTTTAGGGGAAA
19053574 ATAAAAGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (29 bp):
TGGGAAAGAATAAAAATTTTAGGGGAAAG
Found at i:19053800 original size:9 final size:9
Alignment explanation
Indices: 19053786--19053822 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19053776 TATAGTTTGA
19053786 TATTCGAAT
1 TATTCGAAT
19053795 TATTCGAAT
1 TATTCGAAT
*
19053804 TATTCGAGT
1 TATTCGAAT
19053813 TATTCGAAT
1 TATTCGAAT
19053822 T
1 T
19053823 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19055898 original size:11 final size:11
Alignment explanation
Indices: 19055882--19055906 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19055872 AACAAAATTA
19055882 AAATTAAAACC
1 AAATTAAAACC
19055893 AAATTAAAACC
1 AAATTAAAACC
19055904 AAA
1 AAA
19055907 AGAAAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTAAAACC
Found at i:19065960 original size:62 final size:63
Alignment explanation
Indices: 19065849--19065992 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 63
19065839 TAAGTGAGCT
* * *
19065849 TAATTAAAAATTTCAAAAAACATTAAAAGGTAAAATGAGAAATTTCAAAAAAATT-GAGGAGTC
1 TAATTAAAATTTTCTAAAAACATTAAAAGGTAAAATGAGAAATTTCAAAAAAATTGGAGG-GCC
* * **
19065912 TAATTAAAATTTTCTAAAAAC-TTTAAAGG-AGAAATGA-AATTTTCCAAAAATTTTGGAGGGCC
1 TAATTAAAATTTTCTAAAAACATTAAAAGGTA-AAATGAGAAATTT-CAAAAAAATTGGAGGGCC
*
19065974 TAATTAAAATTTACTAAAA
1 TAATTAAAATTTTCTAAAA
19065993 CTTCAAGGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
61 6 0.09
62 41 0.59
63 23 0.33
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (63 bp):
TAATTAAAATTTTCTAAAAACATTAAAAGGTAAAATGAGAAATTTCAAAAAAATTGGAGGGCC
Found at i:19066001 original size:60 final size:62
Alignment explanation
Indices: 19065911--19066026 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 62
19065901 ATTGAGGAGT
* * *
19065911 CTAATTAAAATTTTCTAAAAACTTTAAAGGAGAAATGA-AATTTTCCAAAAATTTTGGAGGGC
1 CTAATTAAAATTTACTAAAAACTTTAAAGGAAAAATCATAA-TTTCCAAAAATTTTGGAGGGC
* *
19065973 CTAATTAAAATTTACT-AAAAC-TTCAAGGAAAAATCATAATTTCCCAAAATTTTG
1 CTAATTAAAATTTACTAAAAACTTTAAAGGAAAAATCATAATTTCCAAAAATTTTG
19066027 ATAGGCCCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 26 0.54
61 7 0.15
62 15 0.31
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (62 bp):
CTAATTAAAATTTACTAAAAACTTTAAAGGAAAAATCATAATTTCCAAAAATTTTGGAGGGC
Found at i:19073091 original size:23 final size:23
Alignment explanation
Indices: 19073065--19073108 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19073055 CCCAATTCTT
* *
19073065 CTTTCCCTCTTTTTTTTTTTTTA
1 CTTTCCCTCTCTTTTTGTTTTTA
*
19073088 CTTTCTCTCTCTTTTTGTTTT
1 CTTTCCCTCTCTTTTTGTTTT
19073109 GGGTTTCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (23 bp):
CTTTCCCTCTCTTTTTGTTTTTA
Found at i:19075974 original size:24 final size:23
Alignment explanation
Indices: 19075937--19075983 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19075927 AATTTAACTA
19075937 AAAAAAGAGAAAAAA-ATTAAATT
1 AAAAAAGAGAAAAAACA-TAAATT
*
19075960 AAAAAAGATGTAAAAACATAAATT
1 AAAAAAGA-GAAAAAACATAAATT
19075984 TATAATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (23 bp):
AAAAAAGAGAAAAAACATAAATT
Found at i:19085120 original size:59 final size:59
Alignment explanation
Indices: 19084987--19085112 Score: 144
Period size: 59 Copynumber: 2.1 Consensus size: 59
19084977 CTACAGAATT
* ** * * * * * *
19084987 AAAATTATGAAACAAAATCAAAATCAATTTTGTTAAACGGCAAGATTAAATCCCTAAAC
1 AAAATTATGTAATTAAATCAAAATAAAGTTTATTAAACGACAAGAATAAATCCCGAAAC
**
19085046 AAAATTATGTAATTAAATCAAAATAAAGTTTATTAAACGACGTGAATAAATCCCGAAAC
1 AAAATTATGTAATTAAATCAAAATAAAGTTTATTAAACGACAAGAATAAATCCCGAAAC
*
19085105 AGAATTAT
1 AAAATTAT
19085113 TTGATTAAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.27
Consensus pattern (59 bp):
AAAATTATGTAATTAAATCAAAATAAAGTTTATTAAACGACAAGAATAAATCCCGAAAC
Found at i:19085267 original size:88 final size:86
Alignment explanation
Indices: 19085078--19085356 Score: 318
Period size: 88 Copynumber: 3.3 Consensus size: 86
19085068 ATAAAGTTTA
* * * * *
19085078 TTAAACGACGTGAATAAATCCCGAAACAGA-ATTATTTGA--TTAA-GTCTTCGTTTGGAAAC-A
1 TTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAACTTTAATTTC-TCGTTTGGAAACAA
* * *
19085138 AAT-CAATATCGAATAAAATCTTG
65 AATAAAAAAT-GAATAAAATC-CG
* * *
19085161 TTAAATGGCGGGAATAAATCCCAAAACAGATTTTATTTAACTTTAATTTCTCGTTTTGGCAACAA
1 TTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAACTTTAATTTCTCG-TTTGGAAACAA
19085226 AATAAAAAATGTAATAAAATCCG
65 AATAAAAAATG-AATAAAATCCG
* * * *
19085249 TTGAACGACGGGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAATAAA
1 TTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAACAAA
*
19085314 ATAAAAAATGAATAAAATCTG
66 ATAAAAAATGAATAAAATCCG
*
19085335 TTAAACGGCGGGAATAAATCCC
1 TTAAACGACGGGAATAAATCCC
19085357 GAAATAAAGT
Statistics
Matches: 166, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
83 26 0.16
84 7 0.04
86 36 0.22
87 30 0.18
88 54 0.33
89 13 0.08
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (86 bp):
TTAAACGACGGGAATAAATCCCAAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAACAAA
ATAAAAAATGAATAAAATCCG
Found at i:19085364 original size:35 final size:35
Alignment explanation
Indices: 19085324--19085395 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
19085314 ATAAAAAATG
19085324 AATAAAATCTGTTAAAC-GGCGGGAATAAATCCCGA
1 AATAAAATCTGTTAAACGGGC-GGAATAAATCCCGA
* * *
19085359 AATAAAGTTTGTTAAACGGGCGGAATAAATCCTGA
1 AATAAAATCTGTTAAACGGGCGGAATAAATCCCGA
19085394 AA
1 AA
19085396 CATAACTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (35 bp):
AATAAAATCTGTTAAACGGGCGGAATAAATCCCGA
Found at i:19085547 original size:87 final size:86
Alignment explanation
Indices: 19085419--19085653 Score: 267
Period size: 87 Copynumber: 2.7 Consensus size: 86
19085409 TGAAGTCATC
* * * **
19085419 ATTTGGAAAC-AAATCAATATCGAATAAAATCTAGTTAAACGGCAAGAATAAATCCCAAAACAGA
1 ATTTGGAAACAAAATCAAAAT-GAATAAAATC-CGTTGAACGGCGGGAATAAATCCCAAAACAGA
19085483 TTTTATTTAATTTTAATTTCTCG
64 TTTTATTTAATTTTAATTTCTCG
* * * * *
19085506 ATTTGGCAACAAAATCAAAATGTAATAAAATCCGTTGAACGGCGGGAATAAGTCTCGAAATAGAT
1 ATTTGGAAACAAAATCAAAATG-AATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAACAGAT
19085571 TTTATTTAATTTTAATTTCTCG
65 TTTATTTAATTTTAATTTCTCG
* ** * *
19085593 -TTTGGAAATAAAGTAAAAAAAAGGAATAAAATCCGTTGAACAGCGGGAATAAATCCCAAAA
1 ATTTGGAAA-CAA--AATCAAAATGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAA
19085654 TAAAGTATGT
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
86 7 0.06
87 59 0.48
88 51 0.41
89 7 0.06
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (86 bp):
ATTTGGAAACAAAATCAAAATGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAACAGATT
TTATTTAATTTTAATTTCTCG
Found at i:19085655 original size:88 final size:87
Alignment explanation
Indices: 19085464--19085655 Score: 260
Period size: 88 Copynumber: 2.2 Consensus size: 87
19085454 TAAACGGCAA
* * ** * *
19085464 GAATAAATCCCAAAACAGATTTTATTTAATTTTAATTTCTCGATTTGGCAACAAAATCAAAATGT
1 GAATAAATCCCAAAATAGATTTTATTTAATTTTAATTTCTCGATTTGGAAACAAAAAAAAAAAGG
*
19085529 AATAAAATCCGTTGAACGGCGG
66 AATAAAATCCGTTGAACAGCGG
* * * *
19085551 GAATAAGTCTCGAAATAGATTTTATTTAATTTTAATTTCTCG-TTTGGAAATAAAGTAAAAAAAA
1 GAATAAATCCCAAAATAGATTTTATTTAATTTTAATTTCTCGATTTGGAAACAAA--AAAAAAAA
19085615 GGAATAAAATCCGTTGAACAGCGG
64 GGAATAAAATCCGTTGAACAGCGG
19085639 GAATAAATCCCAAAATA
1 GAATAAATCCCAAAATA
19085656 AAGTATGTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 10 0.11
87 38 0.43
88 41 0.46
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (87 bp):
GAATAAATCCCAAAATAGATTTTATTTAATTTTAATTTCTCGATTTGGAAACAAAAAAAAAAAGG
AATAAAATCCGTTGAACAGCGG
Found at i:19085743 original size:293 final size:291
Alignment explanation
Indices: 19085064--19085788 Score: 1110
Period size: 293 Copynumber: 2.5 Consensus size: 291
19085054 GTAATTAAAT
* *
19085064 CAAAATAAAGTTTATTAAACGACGTGAATAAATCCCGAAACAGAATTATTTGATTAAGTCTTCGT
1 CAAAATAAAGTTTGTTAAACG-CGGGAATAAATCCCGAAACAGAATTATTTGATTAAGTCTTCGT
19085129 TTGGAAACAAATCAATATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCAAAACAGATTT
65 TTGGAAACAAATCAATATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCAAAACAGATTT
* *
19085194 TATTTAACTTTAATTTCTCGTTTTGGCAACAAAATAAAAAATGTAATAAAATCCGTTGAACGACG
130 TATTTAATTTTAATTTCTCGATTTGGCAACAAAATAAAAAATGTAATAAAATCCGTTGAACGACG
* *
19085259 GGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAATAAAATAAAAAATG
195 GGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAATAAAAAAAAAAAGG
* *
19085324 AATAAAATCTGTTAAACGGCGGGAATAAATCC
260 AATAAAATCCGTTAAACAGCGGGAATAAATCC
* * * * * * * *
19085356 CGAAATAAAGTTTGTTAAACGGGCGGAATAAATCCTGAAACATAACTATTTGATGAAGTCATCAT
1 CAAAATAAAGTTTGTTAAACGCG-GGAATAAATCCCGAAACAGAATTATTTGATTAAGTCTTCGT
* * **
19085421 TTGGAAACAAATCAATATCGAATAAAATCTAGTTAAACGGCAAGAATAAATCCCAAAACAGATTT
65 TTGGAAACAAATCAATATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCAAAACAGATTT
* *
19085486 TATTTAATTTTAATTTCTCGATTTGGCAACAAAAT-CAAAATGTAATAAAATCCGTTGAACGGCG
130 TATTTAATTTTAATTTCTCGATTTGGCAACAAAATAAAAAATGTAATAAAATCCGTTGAACGACG
* * *
19085550 GGAATAAGTCTCGAAATAGATTTTATTTAATTTTAATTTCTCGTTTGGAAATAAAGTAAAAAAAA
195 GGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAATAAA--AAAAAAAA
*
19085615 GGAATAAAATCCGTTGAACAGCGGGAATAAATCC
258 GGAATAAAATCCGTTAAACAGCGGGAATAAATCC
* *
19085649 CAAAATAAAGTATGTTAAACAGCGGGAATAAATCCCGAAATAGAATTATTTGATTAAGTCTTCGT
1 CAAAATAAAGTTTGTTAAAC-GCGGGAATAAATCCCGAAACAGAATTATTTGATTAAGTCTTCGT
* * * *
19085714 TTGTAAACAAACCAATATCGAATAAAATCTTGTTAAATAGCGGGAATAAATCCCAAAATAGATTT
65 TTGGAAACAAATCAATATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCAAAACAGATTT
19085779 TATTTAATTT
130 TATTTAATTT
19085789 GAAAACAAAA
Statistics
Matches: 385, Mismatches: 44, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
291 80 0.21
292 147 0.38
293 156 0.41
294 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (291 bp):
CAAAATAAAGTTTGTTAAACGCGGGAATAAATCCCGAAACAGAATTATTTGATTAAGTCTTCGTT
TGGAAACAAATCAATATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCAAAACAGATTTT
ATTTAATTTTAATTTCTCGATTTGGCAACAAAATAAAAAATGTAATAAAATCCGTTGAACGACGG
GAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCTCGTTTGGAAATAAAAAAAAAAAGGA
ATAAAATCCGTTAAACAGCGGGAATAAATCC
Found at i:19086113 original size:88 final size:86
Alignment explanation
Indices: 19085823--19086124 Score: 330
Period size: 86 Copynumber: 3.5 Consensus size: 86
19085813 AATATTGTTA
* * * *
19085823 AACGGCGAGAATAAAGC-CTGAAATAGA-TTTATTTAATTTTAATTTCTCGTTTTGGAAACAAAA
1 AACGGCGGGAATAAATCTC-GAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGAAATAAAA
19085886 TC-AAATGTAATAAAATTCGTTG
65 TCAAAATG-AATAAAATTCGTTG
* *
19085908 AACGGCGGGAATAAATC-CAGAAACATATTTTATTTAACTTTAATTTCTCG-TTTGGAAATAAAA
1 AACGGCGGGAATAAATCTC-GAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGAAATAAAA
*
19085971 TAAAAAATGAATAAAATTCGTTG
65 T-CAAAATGAATAAAATTCGTTG
* * * *
19085994 AACGGCGGGAATAAAT-TCCGAGACAGTTTTTATTTTAATTTTAA-TACTTGTTTTGGAAATAAA
1 AACGGCGGGAATAAATCT-CGAAACAGATTTTA-TTTAATTTTAATTTCTCGTTTTGGAAATAAA
*
19086057 ATCAAAATTAGAATAAAATCCGTTG
64 ATCAAAA-T-GAATAAAATTCGTTG
* * * * *
19086082 AATGGCGGGAATAGATCTCGAAATAGATTTTATTGACTTTTAA
1 AACGGCGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAA
19086125 AATATATATT
Statistics
Matches: 184, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
85 35 0.19
86 69 0.38
87 40 0.22
88 39 0.21
89 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (86 bp):
AACGGCGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGAAATAAAAT
CAAAATGAATAAAATTCGTTG
Found at i:19086270 original size:18 final size:19
Alignment explanation
Indices: 19086247--19086294 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
19086237 TTAGTGAACA
19086247 AAATATATAAATAT-AAAT
1 AAATATATAAATATAAAAT
* *
19086265 AAATATTTATATATAAAAT
1 AAATATATAAATATAAAAT
19086284 AAA-ATATAAAT
1 AAATATATAAAT
19086295 GAAATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATAAATATAAAAT
Found at i:19087679 original size:2 final size:2
Alignment explanation
Indices: 19087672--19087707 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
19087662 TATTTAAGTA
19087672 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
19087708 TAATGTCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19089618 original size:13 final size:13
Alignment explanation
Indices: 19089600--19089627 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19089590 CTGAATTAGT
19089600 TTTACTAACCACC
1 TTTACTAACCACC
19089613 TTTACTAACCACC
1 TTTACTAACCACC
19089626 TT
1 TT
19089628 ATCATGGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.36
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:19094438 original size:14 final size:14
Alignment explanation
Indices: 19094419--19094447 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19094409 TTTTGCGTTA
19094419 TATATGTGTGAAAT
1 TATATGTGTGAAAT
19094433 TATATGTGTGAAAT
1 TATATGTGTGAAAT
19094447 T
1 T
19094448 TTTGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TATATGTGTGAAAT
Found at i:19095593 original size:41 final size:41
Alignment explanation
Indices: 19095548--19095659 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
19095538 ACTTTATATT
*
19095548 AATGTATCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGA
1 AATGTATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGA
* * * *
19095589 AATGTATCAGGCTTTAAGCCTAACAAGCTTCATGCCGGTGT
1 AATGTATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGA
***
19095630 ACCCTATCAGGCTTTATGCCTAGCAGGCTT
1 AATGTATCAGGCTTTATGCCTAGCAGGCTT
19095660 GGTGCCAGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
AATGTATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGA
Found at i:19099079 original size:2 final size:2
Alignment explanation
Indices: 19099074--19099098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19099064 ATAAGTTATG
19099074 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19099099 TAATTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19099419 original size:7 final size:6
Alignment explanation
Indices: 19099384--19099418 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
19099374 TGGGTTTTAA
19099384 GGTTAG GGTTAG GGTTAG GGTTAG GGTTTAG GGTT
1 GGTTAG GGTTAG GGTTAG GGTTAG GG-TTAG GGTT
19099419 TTTAGGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (6 bp):
GGTTAG
Found at i:19099838 original size:125 final size:125
Alignment explanation
Indices: 19099613--19099900 Score: 497
Period size: 125 Copynumber: 2.3 Consensus size: 125
19099603 ATTTATTAAG
** * *
19099613 GAAATCGCTCCCACGTGGACATGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
19099678 GTTTCTGAGCAAATAATATAAAAAACGTTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAATATAAAAAACGTTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
19099738 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
* *
19099803 GTTTCTGAGCAAATAGTATAAAAAACGCTTT-AAGCAGGATGCTTTATTAGAAGAATTTTT
66 GTTTCTGAGCAAATAATATAAAAAACG-TTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
*
19099863 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
19099901 CATGTTTGGG
Statistics
Matches: 155, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
125 152 0.98
126 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
GTTTCTGAGCAAATAATATAAAAAACGTTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:19103060 original size:49 final size:49
Alignment explanation
Indices: 19102942--19103062 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
19102932 TAAGAATATT
* *
19102942 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
19102991 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
19103040 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
19103063 TAATATAAAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:19103515 original size:18 final size:18
Alignment explanation
Indices: 19103488--19103525 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19103478 GGAAAAGTAA
* *
19103488 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
19103506 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
19103524 AC
1 AC
19103526 GCACCTGGCA
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:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:19105355 original size:11 final size:11
Alignment explanation
Indices: 19105339--19105384 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
19105329 TCTTTCAAAT
19105339 AGGAATTTGAG
1 AGGAATTTGAG
19105350 AGGAATTTGAG
1 AGGAATTTGAG
19105361 A-GAATATT-AG
1 AGGAAT-TTGAG
*
19105371 AGAGAAATTGAG
1 AG-GAATTTGAG
19105383 AG
1 AG
19105385 AAAGGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:19105383 original size:10 final size:10
Alignment explanation
Indices: 19105345--19105387 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
19105335 AAATAGGAAT
*
19105345 TTGAGAGGAAT
1 TTGAGA-GAAA
19105356 TTGAGAGAATA
1 TTGAGAGAA-A
19105367 TTAGAGAGAAA
1 TT-GAGAGAAA
19105378 TTGAGAGAAA
1 TTGAGAGAAA
19105388 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:19107858 original size:211 final size:204
Alignment explanation
Indices: 19107619--19108121 Score: 557
Period size: 211 Copynumber: 2.4 Consensus size: 204
19107609 TTTGTTTTTT
* * * * *
19107619 AATTATTTTATAGTTATTTTGTTAGTAATTTCTAATTAGGTTATAAATTGTTTGTGTTTAGTTTA
1 AATTATTTGAAAGTTATTTTGCTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTA
* *
19107684 GTG-TT-TTGTGATTTTCTATTAATGTAAAAATTTTTATTTTTTAAATTATTTTAAAGTCAATTT
66 ATGTTTATTGTGATTTTCTATGAATGT--AAA-----ATTTTTT-AATTATTTTAAAGT-AATTT
* * * * * *
19107747 TTTTAGTAATTTATGGTTAGGTTATTAATTGTTTGTGTTTAGTTTAATGTTTATTGTGATTTTTT
122 TGTTAGTAATTTATGATTAGGTCATAAATTGTTTGTGTTTAGTTTAATGTTTATTGTGACTTGTT
19107812 ATAAATGTGCATTTTTAA
187 ATAAATGTGCATTTTTAA
* *
19107830 AATTATTTGAAAGTTATTTTGCTAGTAATTTATGATTAGGTCATAAATTTTTTGTGTTTAGTTTA
1 AATTATTTGAAAGTTATTTTGCTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTA
* *
19107895 ATGTTTATTGTGATTTTTTATGAATGTAAAATTTTTTAATTATTTTAAAGTTATTTTGTTAGTAA
66 ATGTTTATTGTGATTTTCTATGAATGTAAAATTTTTTAATTATTTTAAAGTAATTTTGTTAGTAA
* *
19107960 TTTATTATTAGGTCATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGACTTGTTATAAATGTA
131 TTTATGATTAGGTCATAAATTGTTTGTGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATG--
*
19108025 AATTTTTTGCGTTCTTT-A
194 -------TGCATT-TTTAA
* * * * *
19108043 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTAGTTTA
1 AATTATTTGAAAGTTATTTTGCTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTA
* *
19108106 ATGTGTATTATGATTT
66 ATGTTTATTGTGATTT
19108122 GTTATAATGT
Statistics
Matches: 254, Mismatches: 26, Indels: 24
0.84 0.09 0.08
Matches are distributed among these distances:
204 68 0.27
205 14 0.06
206 7 0.03
211 88 0.35
212 4 0.02
213 70 0.28
214 3 0.01
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (204 bp):
AATTATTTGAAAGTTATTTTGCTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTA
ATGTTTATTGTGATTTTCTATGAATGTAAAATTTTTTAATTATTTTAAAGTAATTTTGTTAGTAA
TTTATGATTAGGTCATAAATTGTTTGTGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATGTG
CATTTTTAA
Found at i:19107884 original size:102 final size:101
Alignment explanation
Indices: 19107613--19108128 Score: 536
Period size: 102 Copynumber: 4.9 Consensus size: 101
19107603 AATTTTTTTG
* * * *
19107613 TTTTTTAATTATTTTATAGTTATTTTGTTAGTAATTTCTAATTAGGTTATAAATTGTTTGTGTTT
1 TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTT
* * **
19107678 AGTTTAGTG-TT-TTGTGATTTTCTATTAATGTAAAAATTTTTA
66 AGTTTAATGTTTATTGTGA-TTT-T-TT-A--T--AAATGTGCA
* * * *
19107720 TTTTTTAAATTATTTTAAAGTCAATTTTTTTAGTAATTTATGGTTAGGTTATTAATTGTTTGTGT
1 -TTTTTAAATTATTTTAAAGT-TATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGT
19107785 TTAGTTTAATGTTTATTGTGATTTTTTATAAATGTGCA
64 TTAGTTTAATGTTTATTGTGATTTTTTATAAATGTGCA
* * * *
19107823 TTTTTAAAATTATTTGAAAGTTATTTTGCTAGTAATTTATGATTAGGTCATAAATTTTTTGTGTT
1 TTTTT-AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTT
* **
19107888 TAGTTTAATGTTTATTGTGATTTTTTATGAATGTAAAA
65 TAGTTTAATGTTTATTGTGATTTTTTATAAATGT-GCA
* * *
19107926 TTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATTATTAGGTCATAAATTGTTTGTGTTT
1 TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTT
* * * *
19107991 AGTTTAGTGTTTATTGTGACTTGTTATAAATGTAAATTTTTTGCG
66 AGTTTAATGTTTATTGTGA-TT-TT-T---TATAAA---TGTGCA
*
19108036 TTCTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTT
1 TT-TTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTT
* * *
19108099 TAGTTTAATGTGTATTATGATTTGTTATAA
65 TAGTTTAATGTTTATTGTGATTTTTTATAA
19108129 TGTATTTTTT
Statistics
Matches: 349, Mismatches: 44, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
102 148 0.42
103 32 0.09
104 2 0.01
105 2 0.01
106 1 0.00
107 2 0.01
108 26 0.07
109 69 0.20
110 9 0.03
111 58 0.17
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (101 bp):
TTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTT
AGTTTAATGTTTATTGTGATTTTTTATAAATGTGCA
Found at i:19107952 original size:313 final size:311
Alignment explanation
Indices: 19107555--19108128 Score: 798
Period size: 313 Copynumber: 1.8 Consensus size: 311
19107545 ATTAATTATT
* **
19107555 ATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATATAATTTTTTTGTTTTTTA
1 ATAAATTGTTTGTGTTTAGTTTAATGTTTTGTGATTTTTTATGAATATAA-----TAATTTTTTA
* * *
19107620 ATTATTTTATAGTTATTTTGTTAGTAATTTCTAATTAGGTTATAAATTGTTTGTGTTTAGTTTAG
61 ATTATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTAG
* * *
19107685 TG-TT-TTGTGA-TTTTCTATTAATGTAAAAATTTTT-ATTTTTTAAATTATTTTAAAGTCAATT
126 TGTTTATTGTGACTTGT-TATAAATGT-AAAATTTTTCATTCTTTAAATTATTTTAAAGT-AATT
* * * * * * *
19107746 TTTTTAGTAATTTATGGTTAGGTTATTAATTGTTTGTGTTTAGTTTAATGTTTATTGTGATTTTT
188 TTGTTAGTAATTTATGATTAGGTTATAAATT-ATT-TGTTTAGTTTAATGTGTATTATGATTTGT
19107811 TATAAATGTGCATTTTTAAAATTATTTGAAAGTTATTTTGCTAGTAATTTATGATTAGGTC
251 TATAAATGTGCATTTTTAAAATTATTTGAAAGTTATTTTGCTAGTAATTTATGATTAGGTC
* *
19107872 ATAAATTTTTTGTGTTTAGTTTAATGTTTATTGTGATTTTTTATGAATGTAA-AATTTTTTAATT
1 ATAAATTGTTTGTGTTTAGTTTAATG-TT-TTGTGATTTTTTATGAATATAATAATTTTTTAATT
*
19107936 ATTTTAAAGTTATTTTGTTAGTAATTTATTATTAGGTCATAAATTGTTTGTGTTTAGTTTAGTGT
64 ATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTAGTGT
* * *
19108001 TTATTGTGACTTGTTATAAATGTAAATTTTTTGCGTTCTTTAAATTATTTTAAAGTTATTTTGTT
129 TTATTGTGACTTGTTATAAATGTAAAATTTTT-CATTCTTTAAATTATTTTAAAGTAATTTTGTT
19108066 AGTAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTATGATTTGTTATAA
193 AGTAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTATGATTTGTTATAA
19108129 TGTATTTTTT
Statistics
Matches: 228, Mismatches: 22, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
313 101 0.44
314 12 0.05
315 45 0.20
316 23 0.10
317 24 0.11
318 2 0.01
319 21 0.09
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (311 bp):
ATAAATTGTTTGTGTTTAGTTTAATGTTTTGTGATTTTTTATGAATATAATAATTTTTTAATTAT
TTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTCATAAATTGTTTGTGTTTAGTTTAGTGTTT
ATTGTGACTTGTTATAAATGTAAAATTTTTCATTCTTTAAATTATTTTAAAGTAATTTTGTTAGT
AATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTATGATTTGTTATAAATGTG
CATTTTTAAAATTATTTGAAAGTTATTTTGCTAGTAATTTATGATTAGGTC
Found at i:19108055 original size:111 final size:108
Alignment explanation
Indices: 19107932--19108141 Score: 312
Period size: 111 Copynumber: 1.9 Consensus size: 108
19107922 AAAATTTTTT
* *
19107932 AATTATTTTAAAGTTATTTTGTTAGTAATTTATTATTAGGTCATAAATTGTTTGTGTTTAGTTTA
1 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTCATAAATT-ATT-TGTTTAGTTTA
* * *
19107997 GTGTTTATTGTGACTTGTTATAAATGTAAATTTTTTGCGTTCTTTA
64 ATGTGTATTATGACTTGTTAT-AATGTAAATTTTTTGCGTTCTTTA
*
19108043 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAAT
1 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTCATAAATTATTTGTTTAGTTTAAT
* **
19108108 GTGTATTATGATTTGTTATAATGTATTTTTTTTG
66 GTGTATTATGACTTGTTATAATGTAAATTTTTTG
19108142 ATTTATTTGA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 13 0.14
109 28 0.31
110 2 0.02
111 47 0.52
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (108 bp):
AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTCATAAATTATTTGTTTAGTTTAAT
GTGTATTATGACTTGTTATAATGTAAATTTTTTGCGTTCTTTA
Found at i:19113906 original size:17 final size:17
Alignment explanation
Indices: 19113886--19113946 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
19113876 ATTTCAAGAC
19113886 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
19113903 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
19113922 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
19113940 TTATGTA
1 TTATGTA
19113947 GTGATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:19113922 original size:37 final size:37
Alignment explanation
Indices: 19113881--19113955 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
19113871 TGTTAATTTC
19113881 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
19113918 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
19113955 A
1 A
19113956 TTCAGTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:19122466 original size:14 final size:15
Alignment explanation
Indices: 19122427--19122469 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
19122417 TTTTAACATA
*
19122427 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19122442 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19122456 A-TATAATTTAATAT
1 ATTATAATTAAATAT
19122470 CAATATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 5 0.20
15 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19130114 original size:18 final size:18
Alignment explanation
Indices: 19130087--19130135 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19130077 TGTATTAGAT
19130087 TATAAATATATTAATTAA
1 TATAAATATATTAATTAA
* *
19130105 TATAATTATATTTATTAA
1 TATAAATATATTAATTAA
*
19130123 AATATAATA-ATTA
1 TATA-AATATATTA
19130136 TATGTAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAAATATATTAATTAA
Done.