Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 52 of 196
Found at i:14567088 original size:44 final size:43
Alignment explanation
Indices: 14566949--14567088 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
14566939 TATGAATTTG
* *
14566949 TATAATTTAAAATAATTATTATTACATATAATTTAATAATATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
* * * * ** *
14566992 TA-ATTTCATAAAATTATTGATAAT-AAT-TTTTCTTATATGAATTTA
1 TATAATT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
14567037 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
14567081 TATAATTT
1 TATAATTT
14567089 CATAAAATTC
Statistics
Matches: 71, Mismatches: 17, Indels: 17
0.68 0.16 0.16
Matches are distributed among these distances:
42 5 0.07
43 10 0.14
44 38 0.54
45 13 0.18
46 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:14570609 original size:17 final size:17
Alignment explanation
Indices: 14570587--14570627 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
14570577 CCAAATAAGT
14570587 AATAAA-TAATAAAATAA
1 AATAAAGTAAT-AAATAA
14570604 AATAAAGTAATAAATAA
1 AATAAAGTAATAAATAA
*
14570621 AGTAAAG
1 AATAAAG
14570628 AAAGAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (17 bp):
AATAAAGTAATAAATAA
Found at i:14578080 original size:21 final size:21
Alignment explanation
Indices: 14578054--14578096 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14578044 TGGGTGAATT
14578054 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
14578075 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
14578096 A
1 A
14578097 ACTTTTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:14585614 original size:21 final size:21
Alignment explanation
Indices: 14585585--14585628 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14585575 TGGGTGAATT
*
14585585 AGCTTTTACGAGCGTCTATTC
1 AGCTCTTACGAGCGTCTATTC
* *
14585606 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCGTCTATTC
14585627 AG
1 AG
14585629 GTTTTGAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (21 bp):
AGCTCTTACGAGCGTCTATTC
Found at i:14589910 original size:26 final size:26
Alignment explanation
Indices: 14589881--14589941 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
14589871 AATTTAGTTA
*
14589881 GTGGAATGAG-ATGGTGTTATGTATAG
1 GTGGAATG-GTATGGTGCTATGTATAG
*
14589907 GTGG-ATGGTTTTGGTGCTATGTATAG
1 GTGGAATGG-TATGGTGCTATGTATAG
14589933 GTGG-ATGGT
1 GTGGAATGGT
14589942 TTAGTTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 1 0.03
25 4 0.13
26 26 0.84
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.38
Consensus pattern (26 bp):
GTGGAATGGTATGGTGCTATGTATAG
Found at i:14589942 original size:26 final size:26
Alignment explanation
Indices: 14589892--14589943 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14589882 TGGAATGAGA
*
14589892 TGGTGTTATGTATAGGTGGATGGTTT
1 TGGTGCTATGTATAGGTGGATGGTTT
14589918 TGGTGCTATGTATAGGTGGATGGTTT
1 TGGTGCTATGTATAGGTGGATGGTTT
14589944 AGTTAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.44
Consensus pattern (26 bp):
TGGTGCTATGTATAGGTGGATGGTTT
Found at i:14590843 original size:39 final size:38
Alignment explanation
Indices: 14590799--14591044 Score: 262
Period size: 39 Copynumber: 6.3 Consensus size: 38
14590789 TGGAATACCG
*
14590799 AATATACTGAATTATTGCTCAATTGAGCAAGACTTACTA
1 AATATACTGAATTATTGCTCAATCGAGCAA-ACTTACTA
* * *
14590838 AATATATTGAATTATTGCTCAATCAAGCAAGACTTACTG
1 AATATACTGAATTATTGCTCAATCGAGCAA-ACTTACTA
* * *
14590877 AATATACTGAATTGTTGCTCAATCGAGGAAAACTTACTG
1 AATATACTGAATTATTGCTCAATCGA-GCAAACTTACTA
* *
14590916 AATATAATGAATTGTTGCTCAATCGAGCAAAGCTTACTA
1 AATATACTGAATTATTGCTCAATCGAGCAAA-CTTACTA
* * * **
14590955 AATATACTGCAA-TGTTGCTCAAACAAGCAAACTTACCG
1 AATATACTG-AATTATTGCTCAATCGAGCAAACTTACTA
* *
14590993 AATATACTGAA-TACTGCTCAATCGAGCAAAACCTACTGAA
1 AATATACTGAATTATTGCTCAATCGAGC-AAACTTACT--A
14591033 AATATACTGAAT
1 AATATACTGAAT
14591045 ACTATTCCAG
Statistics
Matches: 177, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
37 14 0.08
38 25 0.14
39 122 0.69
40 16 0.09
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (38 bp):
AATATACTGAATTATTGCTCAATCGAGCAAACTTACTA
Found at i:14591037 original size:117 final size:117
Alignment explanation
Indices: 14590798--14591044 Score: 331
Period size: 117 Copynumber: 2.1 Consensus size: 117
14590788 ATGGAATACC
* * *
14590798 GAATATACTGAATTATTGCTCAATTGAGCAAGACTTACTAAATATATTGAATTATTGCTCAATCA
1 GAATATACTGAATTATTGCTCAATCGAGCAAGACTTACTAAATATACTGAATTATTGCTCAAACA
* ** * *
14590863 AGCAAGACTTACTGAATATACTGAATTGTTGCTCAATCGAGGAAAACTTACT
66 AGCAAGACTTACCGAATATACTGAATTACTGCTCAATCGAGCAAAACCTACT
* * *
14590915 GAATATAATGAATTGTTGCTCAATCGAGCAA-AGCTTACTAAATATACTGCAA-TGTTGCTCAAA
1 GAATATACTGAATTATTGCTCAATCGAGCAAGA-CTTACTAAATATACTG-AATTATTGCTCAAA
14590978 CAAGCAA-ACTTACCGAATATACTGAA-TACTGCTCAATCGAGCAAAACCTACT
64 CAAGCAAGACTTACCGAATATACTGAATTACTGCTCAATCGAGCAAAACCTACT
14591030 GAAAATATACTGAAT
1 G--AATATACTGAAT
14591045 ACTATTCCAG
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
115 23 0.20
116 19 0.17
117 70 0.61
118 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (117 bp):
GAATATACTGAATTATTGCTCAATCGAGCAAGACTTACTAAATATACTGAATTATTGCTCAAACA
AGCAAGACTTACCGAATATACTGAATTACTGCTCAATCGAGCAAAACCTACT
Found at i:14592112 original size:17 final size:17
Alignment explanation
Indices: 14592071--14592112 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
14592061 GTGTTACTTG
* *
14592071 TAATTATGGAATTTAAT
1 TAATTATTGAATGTAAT
14592088 TAATTATTGAATGTAAT
1 TAATTATTGAATGTAAT
*
14592105 TCATTATT
1 TAATTATT
14592113 AATTGTTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (17 bp):
TAATTATTGAATGTAAT
Found at i:14599905 original size:16 final size:18
Alignment explanation
Indices: 14599874--14599906 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14599864 ATGTGCATGA
14599874 ATAATTTATGATATGATT
1 ATAATTTATGATATGATT
14599892 ATAATTT-TGA-ATGAT
1 ATAATTTATGATATGAT
14599907 ACAAGGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (18 bp):
ATAATTTATGATATGATT
Found at i:14602793 original size:25 final size:24
Alignment explanation
Indices: 14602760--14602806 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
14602750 GAGTGACCCA
*
14602760 TTATTGGC-TGACATGAGCTTCCAG
1 TTATTGGCTTGA-AAGAGCTTCCAG
14602784 TTATATGGCTTGAAAGAGCTTCC
1 TTAT-TGGCTTGAAAGAGCTTCC
14602807 CGATTATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 13 0.65
26 3 0.15
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (24 bp):
TTATTGGCTTGAAAGAGCTTCCAG
Found at i:14602901 original size:16 final size:16
Alignment explanation
Indices: 14602880--14602916 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
14602870 GTATATACAT
*
14602880 GAAACAATATTAGTTC
1 GAAACAATATCAGTTC
14602896 GAAACAATATCAGTTC
1 GAAACAATATCAGTTC
14602912 GAAAC
1 GAAAC
14602917 GAACTATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (16 bp):
GAAACAATATCAGTTC
Found at i:14612392 original size:50 final size:50
Alignment explanation
Indices: 14612315--14612556 Score: 258
Period size: 50 Copynumber: 4.9 Consensus size: 50
14612305 CATTTGGGTA
* * *
14612315 AAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGTACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
14612365 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
14612415 GAGAGGTCCTC-TGTAAGACCATGTTTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
14612465 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGAT
** * * *
14612515 AA-ACATCTCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
14612557 TGTTTTTATC
Statistics
Matches: 163, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
49 34 0.21
50 125 0.77
51 3 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:14615258 original size:24 final size:23
Alignment explanation
Indices: 14615231--14615339 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 23
14615221 CAGCTCGCAA
* *
14615231 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGATATT-GCTCTCAT
* *
14615255 GAGCATCTCGATATTGACTCTCTT
1 GAGCATCCCGATATTG-CTCTCAT
*
14615279 GAGC-TACCCGATATATGGCTCTCAC
1 GAGCAT-CCCGATAT-T-GCTCTCAT
* * *
14615304 GAGCCTCCCGTTAATTGCTCTTAT
1 GAGCATCCCGAT-ATTGCTCTCAT
14615328 GAGCATCCCGAT
1 GAGCATCCCGAT
14615340 TTGGTTGTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.03
24 45 0.67
25 16 0.24
26 4 0.06
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
GAGCATCCCGATATTGCTCTCAT
Found at i:14624360 original size:23 final size:23
Alignment explanation
Indices: 14624321--14624388 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
14624311 AAGGTCATTC
*
14624321 CGAGCTGATAAACGGTAAGCTCTAT
1 CGAGCTG--AAACGGTAAGCTCCAT
*
14624346 CGAGCTGAAACGGTAAGCTCCGT
1 CGAGCTGAAACGGTAAGCTCCAT
*
14624369 AGAGCTGAAACGGTAAGCTC
1 CGAGCTGAAACGGTAAGCTC
14624389 ATACAAGCTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 33 0.82
25 7 0.17
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (23 bp):
CGAGCTGAAACGGTAAGCTCCAT
Found at i:14624397 original size:23 final size:22
Alignment explanation
Indices: 14624321--14624398 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 22
14624311 AAGGTCATTC
14624321 CGAGCTGATAAACGGTAAGCTCTA
1 CGAGCTG--AAACGGTAAGCTCTA
14624345 TCGAGCTGAAACGGTAAGCTCCGTA
1 -CGAGCTGAAACGGTAAGCT-C-TA
14624370 -GAGCTGAAACGGTAAGCTCATA
1 CGAGCTGAAACGGTAAGCTC-TA
*
14624392 CAAGCTG
1 CGAGCTG
14624399 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.06
23 35 0.73
24 1 0.02
25 9 0.19
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (22 bp):
CGAGCTGAAACGGTAAGCTCTA
Found at i:14629392 original size:40 final size:40
Alignment explanation
Indices: 14629337--14629542 Score: 178
Period size: 40 Copynumber: 5.3 Consensus size: 40
14629327 AAAATTCTAC
*
14629337 TTTGCGGCGTTTTTCTCCTAGCGCGGCTAATGCTCGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
* * *
14629377 TTTGCTGCGTTTTTCTTCTAGCGCCGCTAATGCTTGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
**
14629417 TTTGCGGCAATTTTCTCCTA-----GC---TG-TCGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
* * * * *
14629448 TTTGTGGCATTTTTCTCCGAGCGCCGCTAATGTTTGACCT
1 TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
* * * * * * *
14629488 TTTGTGGCGTATTTCTCATAGACGTCGCTAGTGCTTGATCT
1 TTTGCGGCGTTTTTCTCCTAG-CGCCGCTAATGCTCGACCT
14629529 TTTGCGGCGTTTTT
1 TTTGCGGCGTTTTT
14629543 AAGAAAAACG
Statistics
Matches: 133, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
31 23 0.17
32 2 0.02
35 2 0.02
36 2 0.02
39 2 0.02
40 75 0.56
41 27 0.20
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (40 bp):
TTTGCGGCGTTTTTCTCCTAGCGCCGCTAATGCTCGACCT
Found at i:14629531 original size:41 final size:40
Alignment explanation
Indices: 14629443--14629590 Score: 102
Period size: 44 Copynumber: 3.6 Consensus size: 40
14629433 CCTAGCTGTC
* * * *
14629443 GACCTTTTGTGGCATTTTTCTCCGAGCGCCGCTAATGTTT
1 GACCTTTTGTGGCGTATTTCTCAGAGCGCCGCTAATGCTT
* * *
14629483 GACCTTTTGTGGCGTATTTCTCATAGACGTCGCTAGTGCTT
1 GACCTTTTGTGGCGTATTTCTCAGAG-CGCCGCTAATGCTT
* * *
14629524 GATCTTTTGCGGCGT-TTT-TAAGAAAAACGCCGCCGCTAATGCTT
1 GACCTTTTGTGGCGTATTTCTCAG----A-G-CGCCGCTAATGCTT
* * *
14629568 GACTTTTTGCGGCGTTTTTCTCA
1 GACCTTTTGTGGCGTATTTCTCA
14629591 TAAACGCCGC
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
39 2 0.02
40 25 0.30
41 24 0.29
43 1 0.01
44 26 0.31
45 3 0.04
46 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (40 bp):
GACCTTTTGTGGCGTATTTCTCAGAGCGCCGCTAATGCTT
Found at i:14629596 original size:44 final size:44
Alignment explanation
Indices: 14629469--14629600 Score: 128
Period size: 44 Copynumber: 3.1 Consensus size: 44
14629459 TTTCTCCGAG
* * * * *
14629469 CGCCGCTAATGTTTGACCTTTTGTGGCGTATTTCTCAT--A-GA
1 CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
* * *** *
14629510 CGTCGCTAGTGCTTGA-TCTTTTGCGGCGTTTTTAAGAAAAACGC
1 CGCCGCTAATGCTTGACT-TTTTGCGGCGTTTTTCTCATAAACGC
14629554 CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
1 CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
14629598 CGC
1 CGC
14629601 TATTAATTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
41 27 0.39
43 1 0.01
44 40 0.58
45 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (44 bp):
CGCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAACGC
Found at i:14630660 original size:19 final size:19
Alignment explanation
Indices: 14630636--14630673 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14630626 GTGATTTCAA
*
14630636 CTTTTATTTCTCTGTTTCT
1 CTTTTATTTCTCAGTTTCT
*
14630655 CTTTTATTTTTCAGTTTCT
1 CTTTTATTTCTCAGTTTCT
14630674 TTAGTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTTTATTTCTCAGTTTCT
Found at i:14631453 original size:3 final size:3
Alignment explanation
Indices: 14631447--14631508 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
14631437 TAATGTTACC
* * *
14631447 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT AAT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
14631495 ATT ATT ATC ATT AT
1 ATT ATT ATT ATT AT
14631509 GTTTCCATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:14632122 original size:21 final size:18
Alignment explanation
Indices: 14632089--14632128 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
14632079 CGTTTTTTGT
14632089 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
14632108 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
14632128 T
1 T
14632129 GCATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:14632363 original size:109 final size:109
Alignment explanation
Indices: 14632163--14632698 Score: 840
Period size: 109 Copynumber: 4.9 Consensus size: 109
14632153 AAGAAATTTT
* * * * * * *
14632163 TTCT-AAATGAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGTTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
14632227 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
*
14632271 TTCCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* *
14632336 CGATTTTCCTCGTTCAACCAAATAGCTAAATATCTTTCTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
14632380 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
14632445 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
* *
14632489 TTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
14632554 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
* * * *
14632598 TTTTAAAACAAGACAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
14632663 CGATTTTTCTCGTTTAACCAAATTGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
14632699 CTTGAATTTT
Statistics
Matches: 401, Mismatches: 26, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
108 3 0.01
109 398 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (109 bp):
TTCTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAA
Found at i:14635391 original size:25 final size:27
Alignment explanation
Indices: 14635339--14635387 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
14635329 ATAAAATACA
*
14635339 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
14635366 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
14635388 TATTTCAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:14636105 original size:8 final size:8
Alignment explanation
Indices: 14636061--14636088 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14636051 AAAAAAAATC
14636061 AAAATAAA
1 AAAATAAA
14636069 AAAATAAA
1 AAAATAAA
14636077 AAAATAAA
1 AAAATAAA
14636085 AAAA
1 AAAA
14636089 AGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:14638470 original size:50 final size:50
Alignment explanation
Indices: 14638392--14638679 Score: 243
Period size: 50 Copynumber: 5.8 Consensus size: 50
14638382 AGCGGTGCAG
* * * *
14638392 TAAAAAGATTAAAGCCACAACGGTAAATCTTGCTTCTCTGACATTGTGGT
1 TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTCTGACATTGCGGT
* * ** * * * * *
14638442 TAAAAAGATTAAAGCTACATCAGCAAATCTTACCTCTCAGGCAGTGCAGT
1 TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTCTGACATTGCGGT
** * * * *
14638492 GGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACATTGCAGT
1 TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTCTGACATTGCGGT
* * ** * * **** *
14638542 TAAAAAGATTAAAGCTACAGCAGTGAATCTTATCTCCCAGGTGGTGCAGT
1 TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTCTGACATTGCGGT
* * * *
14638592 AAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGAT
1 TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTCTGACATTGCGGT
* * *
14638642 TAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCTC
1 TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTC
14638680 AAGCGGTGCA
Statistics
Matches: 180, Mismatches: 58, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 180 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (50 bp):
TAAAAAGATTAAAGCCACAACAGTGAATCTTGCCTCTCTGACATTGCGGT
Found at i:14638513 original size:100 final size:100
Alignment explanation
Indices: 14638383--14638756 Score: 475
Period size: 100 Copynumber: 3.8 Consensus size: 100
14638373 TACTTCCCAA
* * * * **
14638383 GCGGTGCAGT-AAAAAGATTAAAGCCACAACGGTAAATCTTGCTTCTCTGACATTGTGGTTAAAA
1 GCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* *
14638447 AGATTAAAGCTACATCAGCAAATCTTACCTCTCAG
66 AGATTAAAGCTACAACAGCGAATCTTACCTCTCAG
* * **
14638482 GCAGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACATTGCAGTTAAAA
1 GCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * *
14638547 AGATTAAAGCTACAGCAGTGAATCTTATCTCCCAG
66 AGATTAAAGCTACAACAGCGAATCTTACCTCTCAG
* **
14638582 GTGGTGCAGTAAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC-GATTAAA
1 GCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAG-TTAAA
*
14638646 AAGATTAAAGCTACAACAGCGAATCTTACCTCTCAA
65 AAGATTAAAGCTACAACAGCGAATCTTACCTCTCAG
* * * * * *
14638682 GCGGTGCAGTGGAACAGATTAAAACCATATCGGTGAATCTTGCTTCCCCT-ACATTACAGTTAAA
1 GCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGACATTGCAGTTAAA
14638746 AAGATTAAAGC
65 AAGATTAAAGC
14638757 CATATCGGTG
Statistics
Matches: 237, Mismatches: 34, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
99 10 0.04
100 222 0.94
101 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (100 bp):
GCGGTGCAGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
AGATTAAAGCTACAACAGCGAATCTTACCTCTCAG
Found at i:14638744 original size:200 final size:199
Alignment explanation
Indices: 14638385--14638756 Score: 566
Period size: 200 Copynumber: 1.9 Consensus size: 199
14638375 CTTCCCAAGC
* * * *
14638385 GGTGCAGTAAAAAGATTAAAGCCACAACGGTAAATCTTGCTTCTCTGACATTGTGGTTAAAAAGA
1 GGTGCAGTAAAAAGATTAAAGCCACAACGGTAAATCTTGCCTCCCTGACATTGCGATTAAAAAGA
* * * *
14638450 TTAAAGCTACATCAGCAAATCTTACCTCTCAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGG
66 TTAAAGCTACAACAGCAAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAACCACAACGG
** *
14638515 TGAATCTTGCCTCTTTGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTATCTCCC
131 TGAATCTTGCCTCCCTGACATTACAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTATCTCCC
14638580 AGGT
196 AGGT
*
14638584 GGTGCAGTAAAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGATTAAAAAG
1 GGTGCAGT-AAAAAGATTAAAGCCACAACGGTAAATCTTGCCTCCCTGACATTGCGATTAAAAAG
* * * *
14638649 ATTAAAGCTACAACAGCGAATCTTACCTCTCAAGCGGTGCAGTGGAACAGATTAAAACCATATCG
65 ATTAAAGCTACAACAGCAAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAACCACAACG
*
14638714 GTGAATCTTGCTTCCCCT-ACATTACAGTTAAAAAGATTAAAGC
130 GTGAATCTTGCCT-CCCTGACATTACAGTTAAAAAGATTAAAGC
14638757 CATATCGGTG
Statistics
Matches: 154, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
199 8 0.05
200 144 0.94
201 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (199 bp):
GGTGCAGTAAAAAGATTAAAGCCACAACGGTAAATCTTGCCTCCCTGACATTGCGATTAAAAAGA
TTAAAGCTACAACAGCAAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAACCACAACGG
TGAATCTTGCCTCCCTGACATTACAGTTAAAAAGATTAAAGCTACAGCAGTGAATCTTATCTCCC
AGGT
Found at i:14638870 original size:125 final size:125
Alignment explanation
Indices: 14638648--14638883 Score: 375
Period size: 125 Copynumber: 1.9 Consensus size: 125
14638638 CGATTAAAAA
* *
14638648 GATTAAAGCTACAACAGCGAATCTTACCTCTCAAGCGGTGCAGTGGAACAGATTAAAACCATATC
1 GATTAAAGCTACAACAGCGAATCTTACCTCTCAAGCGATGCAGTGGAACAGATTAAAACCAAATC
*
14638713 GGTGAATCTTGCTTCCCCTACATTACAGTTAAAAAGATTAAAGCCATATCGGTGAATCTT
66 GGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCCATATCGGTGAATCTT
* *
14638773 GATTAAAGCTACAACAGTGAATCTTA-CTCCTCAAGCGATGCAGTGGAACAGATTAAAGCCAAAT
1 GATTAAAGCTACAACAGCGAATCTTACCT-CTCAAGCGATGCAGTGGAACAGATTAAAACCAAAT
* * * *
14638837 TGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCA
65 CGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCCA
14638884 CAATGGCGAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 2 0.02
125 99 0.98
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (125 bp):
GATTAAAGCTACAACAGCGAATCTTACCTCTCAAGCGATGCAGTGGAACAGATTAAAACCAAATC
GGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCCATATCGGTGAATCTT
Found at i:14639047 original size:44 final size:43
Alignment explanation
Indices: 14638918--14639906 Score: 362
Period size: 44 Copynumber: 22.9 Consensus size: 43
14638908 AGTTTCGAGT
* * * ** *
14638918 TACAAATCCTATCTCTCTGATA-TTACAGTGGAGTGGATCGAAG
1 TACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAG
* * *
14638961 AACCAAAGTCTTATC-CCCTTGAAGATGCAGTGG-GACAAATTGAAGG
1 TA-CAAA-TCTTATCTCCC-TGAAGTTGCAGTGGAG-CAGATTGAA-G
* *
14639007 TACAAATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * ** * *
14639050 CAGATAATCCTATTTCCCTGAAGTTATAGAGGAGCGGATTGAAG
1 TACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * ** *
14639094 TAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-TCACA-
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
** * * *
14639137 T-CAGGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTG-AG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * *
14639178 TAATCAAGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAG
1 T-A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * *
14639223 ATGACAAATCTTATCTCCCTGAGGTTGCAGAGGAGCAAATTGAAG
1 -T-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * *
14639268 -CCGATAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
1 TAC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * * * *
14639313 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCA-AATCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* *
14639355 TAC-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAG
* * * * *
14639397 -AAATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * * *
14639442 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG-GTCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* * ***
14639484 T-CCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * *
14639526 -AAATCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * *
14639571 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* * * * * *
14639613 T-CCAGTCTTATCTCCCTGAAATTGCAATGAAGCAGA-CGAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAG
* * * * * * *
14639655 -AAATCAATCCTATCTCTCTGAAGTTGCAGAGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
** * * * *
14639700 CCCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AG
* * **
14639742 T-CCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-AACGAAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAG
* * * * * * * *
14639784 -AAATCAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
1 TACA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAG
* * * * * * *
14639829 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCA-
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * ** *
14639871 TTC-AGTCTTATCTCCCAAAATTTGCAGTGGAGCAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
14639907 CGAAAAAAAT
Statistics
Matches: 690, Mismatches: 197, Indels: 120
0.69 0.20 0.12
Matches are distributed among these distances:
40 2 0.00
41 169 0.24
42 14 0.02
43 18 0.03
44 397 0.58
45 78 0.11
46 12 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
Found at i:14639390 original size:218 final size:217
Alignment explanation
Indices: 14638966--14639428 Score: 576
Period size: 218 Copynumber: 2.1 Consensus size: 217
14638956 CGAAGAACCA
* * * * *
14638966 AAGTCTTATCCCCTTGAAGATGCAGTGGGACAAATTGAAGGTACAAATCTTATCTCCCTGATGTT
1 AAGTCTTATCCCCCTGAAGTTGCAGTGGGACAAATCGAAGATACAAATCTTATCTCCCTGAGGTT
* * * * * *
14639031 ACAGTGGAGCAGATTGAAGCAGATAATCCTATTTCCCTGAAGTTATAGAGGAGCGGATTGAAGTA
66 ACAGAGGAGCAAATTGAAGCAGATAATCATATCTCCCTGAAGTTACAGAGGAGCGGATTGAAGAA
** * ***
14639096 GTAAATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCACATCAGGTCTTATCTCCCTGAAGTTG
131 CCAAATCTTATCTCTCTGAAGTTACAGTAGAGCAAATCACATCAGGTCTTATCTCCCTGAAGTTG
* *
14639161 TAGTAGAGCAGACTG-AGTAATC
196 CAGTAGAGCAGAC-GAAGAAATC
* * *
14639183 AAGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGACAAATCTTATCTCCCTGAGGT
1 AAGTCTTATCCCCCTGAAGTTGCAGTGGGACAAATCGAAGAT-ACAAATCTTATCTCCCTGAGGT
* * * *
14639248 TGCAGAGGAGCAAATTGAAGCCGATAATCATATCTCCCTGAAGTTGCAGTGGAGCGGATT-AA-A
65 TACAGAGGAGCAAATTGAAGCAGATAATCATATCTCCCTGAAGTTACAGAGGAGCGGATTGAAGA
14639311 ACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAAATCACATACA-GTCTTATCTCCCTGAA
130 ACCA-A-ATCTTATCTCTCTGAAGTTACAGTAGAGCAAATCACAT-CAGGTCTTATCTCCCTGAA
*
14639375 GTTGCAGTGGAGCAGACGAAAGAAATC
192 GTTGCAGTAGAGCAGACG-AAGAAATC
* *
14639402 AA-TCTTATCTCCCTAAAGTTGCAGTGG
1 AAGTCTTATCCCCCTGAAGTTGCAGTGG
14639429 AGCGGATTAA
Statistics
Matches: 210, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
216 2 0.01
217 39 0.19
218 159 0.76
219 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AAGTCTTATCCCCCTGAAGTTGCAGTGGGACAAATCGAAGATACAAATCTTATCTCCCTGAGGTT
ACAGAGGAGCAAATTGAAGCAGATAATCATATCTCCCTGAAGTTACAGAGGAGCGGATTGAAGAA
CCAAATCTTATCTCTCTGAAGTTACAGTAGAGCAAATCACATCAGGTCTTATCTCCCTGAAGTTG
CAGTAGAGCAGACGAAGAAATC
Found at i:14640000 original size:129 final size:129
Alignment explanation
Indices: 14639273--14639984 Score: 1109
Period size: 129 Copynumber: 5.5 Consensus size: 129
14639263 TGAAGCCGAT
* *
14639273 AATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
14639338 CAGTAGAGCAAATCACATACAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* *
14639402 AATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
14639467 CAGTAGAGCAGGTCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
*
14639531 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * *
14639596 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAATTGCAATGAAGCAGACGAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * *
14639660 AATCCTATCTCTCTGAAGTTGCAGAGGAGCGGATTAAAACCCCAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
*
14639725 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACGAAAGAAATC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * *
14639789 AATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * * ** * * *
14639854 CAGTAGAGTAGATCGCATTCAGTCTTATCTCCCAAAATTTGCAGTGGAGCAGACGAAAAAAATT
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * ** ** * *
14639918 AATCCTATCTTCCTGAAGTTGCAGTGAAGCGGATTAAAATGATGGATCTTATCTATCTGGAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
14639983 CA
66 CA
14639985 ATATAGCATA
Statistics
Matches: 536, Mismatches: 47, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 536 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
Found at i:14641713 original size:3 final size:3
Alignment explanation
Indices: 14641705--14641760 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
14641695 AAATGTTACC
* * *
14641705 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT AAT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
14641753 ATC ATT AT
1 ATT ATT AT
14641761 GTTTCCATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:14642369 original size:21 final size:18
Alignment explanation
Indices: 14642336--14642375 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
14642326 CGTTTTTTGT
14642336 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
14642355 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
14642375 T
1 T
14642376 GCATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:14642724 original size:109 final size:109
Alignment explanation
Indices: 14642414--14642714 Score: 521
Period size: 109 Copynumber: 2.8 Consensus size: 109
14642404 AATTTTTTCT
* * * * *
14642414 AAATGAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
14642479 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
*
14642523 AAATAAGGTAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
14642588 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
* *
14642632 AAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
14642697 TTTCTCGTTTAACCAAAT
66 TTTCTCGTTCAACCAAAT
14642715 TGTCAAATAT
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 182 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
Found at i:14644812 original size:30 final size:31
Alignment explanation
Indices: 14644776--14644833 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
14644766 TGGAGAATTC
14644776 TTGCTCAACTA-GCTTCGTGGCTAGGAACAT
1 TTGCTCAACTAGGCTTCGTGGCTAGGAACAT
* * *
14644806 TTGCTCAATTAGGCTTTGTGGCTGGGAA
1 TTGCTCAACTAGGCTTCGTGGCTAGGAA
14644834 TGGGAGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (31 bp):
TTGCTCAACTAGGCTTCGTGGCTAGGAACAT
Found at i:14647325 original size:14 final size:14
Alignment explanation
Indices: 14647280--14647325 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14647270 GAGATGTGAA
14647280 ATGAGCCTGCTCAC
1 ATGAGCCTGCTCAC
* * *
14647294 ACGAG-CTG-TGAA
1 ATGAGCCTGCTCAC
14647306 ATGAGCCTGCTCAC
1 ATGAGCCTGCTCAC
14647320 ATGAGC
1 ATGAGC
14647326 TATGGGTCAG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 12 0.50
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (14 bp):
ATGAGCCTGCTCAC
Found at i:14647325 original size:26 final size:26
Alignment explanation
Indices: 14647261--14647326 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
14647251 TAACTGTATA
*
14647261 TGCTCACACGAGATGTGAAATGAGCC
1 TGCTCACACGAGCTGTGAAATGAGCC
14647287 TGCTCACACGAGCTGTGAAATGAGCC
1 TGCTCACACGAGCTGTGAAATGAGCC
*
14647313 TGCTCACATGAGCT
1 TGCTCACACGAGCT
14647327 ATGGGTCAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGAGCC
Found at i:14651250 original size:20 final size:21
Alignment explanation
Indices: 14651227--14651270 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14651217 TTAATTATAA
14651227 AAAATAATTTT-TA-AAAAAAT
1 AAAA-AATTTTATAGAAAAAAT
14651247 -AAAAATTTTATAGAAAAAAT
1 AAAAAATTTTATAGAAAAAAT
14651267 AAAA
1 AAAA
14651271 GAAAATCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.29
19 5 0.24
20 7 0.33
21 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAAATTTTATAGAAAAAAT
Found at i:14651252 original size:21 final size:20
Alignment explanation
Indices: 14651232--14651270 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14651222 TATAAAAAAT
14651232 AATTTT-TA-AAAAAATAAA
1 AATTTTATAGAAAAAATAAA
14651250 AATTTTATAGAAAAAATAAA
1 AATTTTATAGAAAAAATAAA
14651270 A
1 A
14651271 GAAAATCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AATTTTATAGAAAAAATAAA
Found at i:14652126 original size:22 final size:23
Alignment explanation
Indices: 14652096--14652145 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
14652086 AAAAGCTATC
14652096 TACAAAATCAAATC-TCTAAGAT
1 TACAAAATCAAATCTTCTAAGAT
* *
14652118 TACAGAATCATATCTTCTAAGAT
1 TACAAAATCAAATCTTCTAAGAT
14652141 TACAA
1 TACAA
14652146 GTATCTCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (23 bp):
TACAAAATCAAATCTTCTAAGAT
Found at i:14667336 original size:26 final size:26
Alignment explanation
Indices: 14667302--14667359 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
14667292 CAAAAAATAA
* *
14667302 AAGCCTTTGTGGCA-TATTTGAAATGG
1 AAGCCTTTGTGG-AGTATCTAAAATGG
*
14667328 AAGCTTTTGTGGAGTATCTAAAATGG
1 AAGCCTTTGTGGAGTATCTAAAATGG
14667354 AAGCCT
1 AAGCCT
14667360 CTATGGTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (26 bp):
AAGCCTTTGTGGAGTATCTAAAATGG
Found at i:14667546 original size:27 final size:27
Alignment explanation
Indices: 14667504--14667579 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
14667494 ATGGTATTCT
* *
14667504 TGGTGAACTCTAAAGGAATAATATGTA
1 TGGTGAACTCTGAAGGAATAATAAGTA
* *** *
14667531 TGGTGAACTTTGAAGGTGCAGTAAGTA
1 TGGTGAACTCTGAAGGAATAATAAGTA
*
14667558 CGGTGAACTCTGAAGGAATAAT
1 TGGTGAACTCTGAAGGAATAAT
14667580 GTATACGATG
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.28
Consensus pattern (27 bp):
TGGTGAACTCTGAAGGAATAATAAGTA
Found at i:14667586 original size:27 final size:27
Alignment explanation
Indices: 14667505--14667591 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 27
14667495 TGGTATTCTT
* * * *
14667505 GGTGAACTCTAAAGGAATAATATGTAT
1 GGTGAACTCTGAAGGAATAATGTATAC
* *
14667532 GGTGAACTTTGAAGG--TGCA-GTAAGTAC
1 GGTGAACTCTGAAGGAAT-AATGT-A-TAC
14667559 GGTGAACTCTGAAGGAATAATGTATAC
1 GGTGAACTCTGAAGGAATAATGTATAC
*
14667586 GATGAA
1 GGTGAA
14667592 ATCTAAAAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 37 0.82
28 2 0.04
29 3 0.07
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (27 bp):
GGTGAACTCTGAAGGAATAATGTATAC
Found at i:14674792 original size:25 final size:25
Alignment explanation
Indices: 14674764--14674812 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14674754 TGCAGTCTAT
*
14674764 CTATAGTAATCTC-AGTATATACTAC
1 CTATAGCAATCTCAAG-ATATACTAC
*
14674789 CTATAGCAATTTCAAGATATACTA
1 CTATAGCAATCTCAAGATATACTA
14674813 TCAAAAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (25 bp):
CTATAGCAATCTCAAGATATACTAC
Found at i:14676118 original size:17 final size:18
Alignment explanation
Indices: 14676071--14676120 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
14676061 TTAACCCATA
14676071 TGGGCCCACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
14676089 TGGGCCTACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
14676107 T-GGCCCATACGCCC
1 TGGGCCCACACGCCC
14676121 TAATTCAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.12, C:0.44, G:0.30, T:0.14
Consensus pattern (18 bp):
TGGGCCCACACGCCCGTG
Found at i:14678432 original size:21 final size:21
Alignment explanation
Indices: 14678406--14678445 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14678396 GGGACAGGTG
14678406 ACGTGGCCAGTTAACTAGCTA
1 ACGTGGCCAGTTAACTAGCTA
*
14678427 ACGTGGCTAGTTAACTAGC
1 ACGTGGCCAGTTAACTAGC
14678446 CATGTTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ACGTGGCCAGTTAACTAGCTA
Found at i:14692402 original size:9 final size:9
Alignment explanation
Indices: 14692388--14692519 Score: 70
Period size: 9 Copynumber: 13.9 Consensus size: 9
14692378 TTATATTTTC
14692388 TTATAAAAT
1 TTATAAAAT
14692397 TTATAAAA-
1 TTATAAAAT
* *
14692405 ATATTAAAAC
1 TTA-TAAAAT
*
14692415 TTATATAAAC
1 TTATA-AAAT
*
14692425 TTATAAAAA
1 TTATAAAAT
* *
14692434 ATAAAAAAT
1 TTATAAAAT
* *
14692443 CATAAAAAAT
1 -TTATAAAAT
*
14692453 TTATAAATT
1 TTATAAAAT
14692462 TTATAAAATT
1 TTATAAAA-T
14692472 TTATAATAAGT
1 TTATAA-AA-T
*
14692483 TCTAT-TAAT
1 T-TATAAAAT
14692492 TTATAAAAT
1 TTATAAAAT
*
14692501 ATATTTAAAAT
1 -T-TATAAAAT
14692512 TTATAAAA
1 TTATAAAA
14692520 AATTAGAAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.05
9 48 0.49
10 31 0.32
11 11 0.11
12 3 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (9 bp):
TTATAAAAT
Found at i:14692405 original size:10 final size:10
Alignment explanation
Indices: 14692388--14692520 Score: 59
Period size: 10 Copynumber: 13.9 Consensus size: 10
14692378 TTATATTTTC
14692388 TTAT-AAAAT
1 TTATAAAAAT
14692397 TTATAAAAA-
1 TTATAAAAAT
* *
14692406 -TATTAAAAC
1 TTATAAAAAT
* *
14692415 TTATATAAAC
1 TTATAAAAAT
14692425 TTATAAAAA-
1 TTATAAAAAT
*
14692434 --ATAAAAAA
1 TTATAAAAAT
*
14692442 TCATAAAAAAT
1 TTAT-AAAAAT
*
14692453 TTAT-AAATT
1 TTATAAAAAT
*
14692462 TTATAAAATT
1 TTATAAAAAT
* *
14692472 TTATAATAAG
1 TTATAAAAAT
* **
14692482 TTCTATTAAT
1 TTATAAAAAT
14692492 TTATAAAATAT
1 TTATAAAA-AT
14692503 ATT-T-AAAAT
1 -TTATAAAAAT
14692512 TTATAAAAA
1 TTATAAAAA
14692521 ATTAGAAATT
Statistics
Matches: 96, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.07
8 9 0.09
9 15 0.16
10 52 0.54
11 11 0.11
12 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (10 bp):
TTATAAAAAT
Found at i:14692428 original size:37 final size:38
Alignment explanation
Indices: 14692386--14692477 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 38
14692376 TCTTATATTT
* *
14692386 TCTTATAAAATTTATAAAAAT-ATTAAAACTTATATAAA
1 TCTTATAAAATTTATAAAAATCATAAAAAATT-TATAAA
**
14692424 -CTTATAAAAAATA-AAAAATCATAAAAAATTTATAAA
1 TCTTATAAAATTTATAAAAATCATAAAAAATTTATAAA
*
14692460 TTTTATAAAATTTTATAA
1 TCTTATAAAA-TTTATAA
14692478 TAAGTTCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
36 12 0.28
37 27 0.63
38 2 0.05
39 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (38 bp):
TCTTATAAAATTTATAAAAATCATAAAAAATTTATAAA
Found at i:14692456 original size:28 final size:28
Alignment explanation
Indices: 14692392--14692459 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
14692382 ATTTTCTTAT
* * *
14692392 AAAATTTATAAAAATATTAAAACTTATA
1 AAAATTTATAAAAATATAAAAAATCATA
* *
14692420 TAAACTTATAAAAA-ATAAAAAATCATAA
1 AAAATTTATAAAAATATAAAAAATCAT-A
14692448 AAAATTTATAAA
1 AAAATTTATAAA
14692460 TTTTATAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATTTATAAAAATATAAAAAATCATA
Found at i:14696396 original size:38 final size:39
Alignment explanation
Indices: 14696354--14696446 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 39
14696344 ATAGAAAAAC
* * *
14696354 ACAAAAG-AAAAAATTTTAACTAATAAACTGAAAATGAA
1 ACAAAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
14696392 AC-AAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
1 ACAAAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
*
14696430 ACAAAACAAATAAAAAT
1 ACAAAAGAAA-AAAAAT
14696447 ATAAAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 4 0.08
38 32 0.67
39 6 0.12
40 6 0.12
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.16
Consensus pattern (39 bp):
ACAAAAGAAAAAAAATTGAACTAATAAACTGAAAACGAA
Found at i:14699464 original size:37 final size:38
Alignment explanation
Indices: 14699369--14699466 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 38
14699359 ACACATCAGT
* * *
14699369 TTGGCACCCAGTACCTCATCGGGTAATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGCTAACTCGAAG--ATAAA
* * *
14699409 TTGACACCTAGTGTCTCATCGGCTAAACT-GAAG-TAAA
1 TTGGCACCCAGTGCCTCATCGGCT-AACTCGAAGATAAA
14699446 TTGGCACCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
14699467 AATTAATCCG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 22 0.46
40 23 0.48
41 3 0.06
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGCTAACTCGAAGATAAA
Found at i:14700359 original size:22 final size:22
Alignment explanation
Indices: 14700333--14700399 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
14700323 TTCTCCTTTG
14700333 TTTCTTTCTCTTTTTCTTTTTC
1 TTTCTTTCTCTTTTTCTTTTTC
*
14700355 TTTCTTTC-C-CTTTCTGTTTTC
1 TTTCTTTCTCTTTTTCT-TTTTC
*
14700376 GTTTCTATCT-TTGTTTCTTTTTC
1 -TTTCTTTCTCTT-TTTCTTTTTC
14700399 T
1 T
14700400 ATTTCTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
20 5 0.14
21 6 0.16
22 16 0.43
23 5 0.14
24 5 0.14
ACGTcount: A:0.01, C:0.22, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTCTTTCTCTTTTTCTTTTTC
Found at i:14705645 original size:14 final size:14
Alignment explanation
Indices: 14705626--14705652 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14705616 TTATTATTCT
14705626 CCTATTAAAAAATA
1 CCTATTAAAAAATA
14705640 CCTATTAAAAAAT
1 CCTATTAAAAAAT
14705653 TGATAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (14 bp):
CCTATTAAAAAATA
Found at i:14712861 original size:40 final size:40
Alignment explanation
Indices: 14712817--14712892 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
14712807 ATAAAAAATC
* *
14712817 GAGCATTAGCGGCGATTTAGCC-AAAGCGCCGCTAAAGGTA
1 GAGCATCAGCAGCGA-TTAGCCGAAAGCGCCGCTAAAGGTA
* *
14712857 GAGCATCAGCAGCGATTATCCGGAAGCGCCGCTAAA
1 GAGCATCAGCAGCGATTAGCCGAAAGCGCCGCTAAA
14712893 AATAGGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.30, C:0.25, G:0.29, T:0.16
Consensus pattern (40 bp):
GAGCATCAGCAGCGATTAGCCGAAAGCGCCGCTAAAGGTA
Found at i:14713190 original size:41 final size:41
Alignment explanation
Indices: 14712972--14713183 Score: 228
Period size: 41 Copynumber: 5.2 Consensus size: 41
14712962 TTTTTTAAAC
* * * *
14712972 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
* ** * ** * ***
14713013 CTTTAGCGGC-TCTTTCACAAAAACGCCGCTAATGCCCCAAT
1 CTTTAGCGGCGTTTTTGTC-TATGCGCCGCTAATGCTCGGGT
* * * * *
14713054 CTTTAGCGGCGATTTCGTCTAAGCTCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
*
14713095 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTGGGGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
14713136 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
14713177 CTTTAGC
1 CTTTAGC
14713184 AACGTTTCTA
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 4 0.03
41 136 0.95
42 3 0.02
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGT
Found at i:14713220 original size:82 final size:82
Alignment explanation
Indices: 14712972--14713251 Score: 206
Period size: 82 Copynumber: 3.4 Consensus size: 82
14712962 TTTTTTAAAC
* * ** * * *
14712972 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCCGATCTTTAGCGGC-TCTT-TCACAAAA
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGT-TTCTAAC-TAT
* * * ***
14713035 ACGCCGCTAATGCCCCAAT
64 GCGCCACTAATGCTCGGGT
* * * ** * **
14713054 CTTTAGCGGCGATTTCGTCTAAGCTCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGTTTCTAACTATGC
* *
14713119 GCCGCTAATGCTGGGGT
66 GCCACTAATGCTCGGGT
* *
14713136 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGGTCTTTAGCAACGTTTCTAACTGA-G
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGTTTCTAACT-ATG
* * **
14713200 TGCCACTAATTCTCTTGT
65 CGCCACTAATGCTCGGGT
* * * * *
14713218 CTTCAGCAGCGTTTGTATCTAAGCGTCGCTAATG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATG
14713252 TATTTACCTT
Statistics
Matches: 158, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
82 154 0.97
83 4 0.03
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.34
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGATCTTTAGCAACGTTTCTAACTATGC
GCCACTAATGCTCGGGT
Found at i:14715177 original size:37 final size:38
Alignment explanation
Indices: 14715109--14715182 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
14715099 AAATTTGATG
*
14715109 TTTAGGGGTTAGTGGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGTGGGATTTAGGGTTAAAGGGTTATGC
14715147 TTTAGGGGTTA-TGGGATTTAAGGG-TAAAGGGTTATG
1 TTTAGGGGTTAGTGGGATTT-AGGGTTAAAGGGTTATG
14715183 GGGTTATGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 19 0.56
38 15 0.44
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.38
Consensus pattern (38 bp):
TTTAGGGGTTAGTGGGATTTAGGGTTAAAGGGTTATGC
Found at i:14715547 original size:34 final size:36
Alignment explanation
Indices: 14715490--14715558 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
14715480 AATTTATTTA
*
14715490 TTTATCAATAAAATTAAATATTATAA-ATTTCAAAC
1 TTTATCAATAAAATTAAATATTATAATATTACAAAC
14715525 TTTATACAA-AAAA-TAAATATTATAATATTACAAA
1 TTTAT-CAATAAAATTAAATATTATAATATTACAAA
14715559 TTAAAAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 12 0.39
35 16 0.52
36 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (36 bp):
TTTATCAATAAAATTAAATATTATAATATTACAAAC
Found at i:14718354 original size:7 final size:7
Alignment explanation
Indices: 14718339--14718414 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
14718329 AATTATGTAA
14718339 AAAAT-T
1 AAAATAT
14718345 AAAATAT
1 AAAATAT
14718352 -AAATAT
1 AAAATAT
*
14718358 AAAATCT
1 AAAATAT
* *
14718365 CAAATTT
1 AAAATAT
*
14718372 ACGAATAGT
1 A-AAATA-T
14718381 AAAA-ATT
1 AAAATA-T
14718388 AAAATAT
1 AAAATAT
14718395 -AAATAT
1 AAAATAT
14718401 AAAATAT
1 AAAATAT
*
14718408 AAGATAT
1 AAAATAT
14718415 TACATAACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
6 17 0.31
7 30 0.55
8 6 0.11
9 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (7 bp):
AAAATAT
Found at i:14718515 original size:56 final size:56
Alignment explanation
Indices: 14718447--14718856 Score: 669
Period size: 56 Copynumber: 7.2 Consensus size: 56
14718437 ATACATAAAT
*
14718447 TACATAACATACATTGATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
14718503 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTT-ATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
*
14718558 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
*
14718614 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* *
14718670 TACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
* * *
14718726 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAA
1 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATAT---T--A
*
14718787 TTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTA
1 -TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
*
14718844 TACATAACTTACA
1 TACATAACATACA
14718857 ACTTACATAA
Statistics
Matches: 336, Mismatches: 11, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
55 55 0.16
56 226 0.67
57 1 0.00
59 2 0.01
61 1 0.00
62 51 0.15
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (56 bp):
TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
Found at i:14718633 original size:22 final size:22
Alignment explanation
Indices: 14718605--14718649 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
14718595 ACTTAGTTAT
*
14718605 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
14718627 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
14718649 T
1 T
14718650 AACTTAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:14718688 original size:22 final size:22
Alignment explanation
Indices: 14718660--14718705 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14718650 AACTTAGTTA
*
14718660 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
14718682 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
14718704 AT
1 AT
14718706 AACTTAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:14718745 original size:22 final size:22
Alignment explanation
Indices: 14718717--14718823 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 22
14718707 ACTTAGTTAT
*
14718717 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
14718739 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
* * *
14718761 -TAACT-TAATTA-GTTAATATACA
1 TTAA-TATTA-TACATAAAT-TACA
14718783 -TAA-A-T-TACATAACA-TACA
1 TTAATATTATACATAA-ATTACA
14718801 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
14718823 T
1 T
14718824 AACTTAGTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
18 6 0.09
19 5 0.07
20 2 0.03
21 11 0.16
22 43 0.64
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:14718865 original size:16 final size:16
Alignment explanation
Indices: 14718844--14718990 Score: 104
Period size: 16 Copynumber: 8.8 Consensus size: 16
14718834 TTTAATATTA
14718844 TACATAACTTACAACT
1 TACATAACTTACAACT
14718860 TACATAACTTACAACT
1 TACATAACTTACAACT
14718876 TACATAACTTACATA-T
1 TACATAACTTACA-ACT
** *
14718892 T-TTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
14718910 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
14718928 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
14718944 TACATAACTTACAACT
1 TACATAACTTACAACT
*
14718960 TACATAACTTATACGACT
1 TACATAAC-T-TACAACT
14718978 TACATAACTTACA
1 TACATAACTTACA
14718991 TAGCATACTT
Statistics
Matches: 104, Mismatches: 15, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.03
15 3 0.03
16 57 0.55
17 6 0.06
18 29 0.28
19 3 0.03
20 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:14718868 original size:9 final size:9
Alignment explanation
Indices: 14718844--14719060 Score: 108
Period size: 9 Copynumber: 25.3 Consensus size: 9
14718834 TTTAATATTA
14718844 TACATAACT
1 TACATAACT
14718853 TAC--AACT
1 TACATAACT
14718860 TACATAACT
1 TACATAACT
14718869 TAC--AACT
1 TACATAACT
14718876 TACATAACT
1 TACATAACT
**
14718885 TACATATTTT
1 TACATA-ACT
*
14718895 TA-ATTA-T
1 TACATAACT
* *
14718902 T-CGTAAAT
1 TACATAACT
14718910 TACATAACT
1 TACATAACT
* *
14718919 TACTTAATT
1 TACATAACT
*
14718928 TTCATAA--
1 TACATAACT
*
14718935 TAAATAACT
1 TACATAACT
14718944 TACATAACT
1 TACATAACT
14718953 TAC--AACT
1 TACATAACT
14718960 TACATAACT
1 TACATAACT
* **
14718969 TATACGACT
1 TACATAACT
14718978 TACATAACT
1 TACATAACT
14718987 TACATAGCATACTT
1 TACAT---A-AC-T
*
14719001 TTCATAA--
1 TACATAACT
*
14719008 TACACAACT
1 TACATAACT
*
14719017 TACATAATT
1 TACATAACT
*
14719026 TTCATAA--
1 TACATAACT
*
14719033 TAAATAACT
1 TACATAACT
14719042 TACATAA--
1 TACATAACT
14719049 TACATAACT
1 TACATAACT
14719058 TAC
1 TAC
14719061 GTAGCTTAAT
Statistics
Matches: 155, Mismatches: 30, Indels: 46
0.67 0.13 0.20
Matches are distributed among these distances:
7 47 0.30
8 2 0.01
9 93 0.60
10 4 0.03
11 1 0.01
12 1 0.01
13 2 0.01
14 5 0.03
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:14718872 original size:25 final size:25
Alignment explanation
Indices: 14718844--14718970 Score: 77
Period size: 25 Copynumber: 5.1 Consensus size: 25
14718834 TTTAATATTA
14718844 TACATAACTTACAACTTACATAACT
1 TACATAACTTACAACTTACATAACT
**
14718869 TAC--AACTTACATAACTTACATATTTT
1 TACATAACTTAC--AACTTACATA-ACT
* *
14718895 TA-ATTA-TT-CGTAAATTACATAACT
1 TACATAACTTAC--AACTTACATAACT
* * * * *
14718919 TACTTAATTTTCATA-ATAAATAACT
1 TACATAACTTACA-ACTTACATAACT
14718944 TACATAACTTACAACTTACATAACT
1 TACATAACTTACAACTTACATAACT
14718969 TA
1 TA
14718971 TACGACTTAC
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
23 7 0.09
24 4 0.05
25 55 0.72
26 8 0.11
27 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.39
Consensus pattern (25 bp):
TACATAACTTACAACTTACATAACT
Found at i:14718934 original size:118 final size:117
Alignment explanation
Indices: 14718413--14718939 Score: 665
Period size: 112 Copynumber: 4.5 Consensus size: 117
14718403 AATATAAGAT
* *
14718413 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACATACATTGATATTATACATAAAT
1 ATTACATAACTTA-ATTAGTTAATATACATAAATTACATAACTTACATTAATATTATACATAAAT
* * *
14718478 TACATAACTTAGTTAATTAATATTATACATAACATACATTAATATTATACATAA
65 TACATAACTTAGTTATTTAATATTATACATAACTTACATTAATACTATACA-AA
* *
14718532 ATTACATAACTTAGTTA-TTAATAT---T--A-TACATAACATACATTAATATTATACATAAATT
1 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTACATTAATATTATACATAAATT
*
14718590 ACATAACTTAGTTATTTAATATTATACATAACTTACATTAATATTATACATAA
66 ACATAACTTAGTTATTTAATATTATACATAACTTACATTAATACTATACA-AA
* *
14718643 ATTACATAACTTAGTTAATTAATAT---T--A-TACATAACTTACATTAATATTATACATAAATT
1 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTACATTAATATTATACATAAATT
*
14718702 ACATAACTTAGTTATTTAATATTATACATAACTTACATTAATATTATACATAA
66 ACATAACTTAGTTATTTAATATTATACATAACTTACATTAATACTATACA-AA
*
14718755 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACATACATTAATATTATACATAAATT
1 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTACATTAATATTATACATAAATT
14718820 ACATAACTTAGTTATTTAATATTATACATAACTTACAACTTACATAACT-TAC-AA
66 ACATAACTTAGTTATTTAATATTATACATAACTTAC-A-TTA-AT-ACTATACAAA
* ** * * *
14718874 CTTACATAACTTACATATTTTTAATTATTCGTAAATTACATAACTTAC-TTAATTTTCATA-ATA
1 ATTACATAACTTA-AT-TAGTTAA-TATACATAAATTACATAACTTACATTAATATT-ATACATA
14718937 AAT
62 AAT
14718940 AACTTACATA
Statistics
Matches: 377, Mismatches: 16, Indels: 28
0.90 0.04 0.07
Matches are distributed among these distances:
111 99 0.26
112 117 0.31
114 1 0.00
115 1 0.00
117 8 0.02
118 70 0.19
119 28 0.07
120 5 0.01
121 23 0.06
122 25 0.07
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (117 bp):
ATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTACATTAATATTATACATAAATT
ACATAACTTAGTTATTTAATATTATACATAACTTACATTAATACTATACAAA
Found at i:14718979 original size:34 final size:33
Alignment explanation
Indices: 14718844--14718990 Score: 115
Period size: 34 Copynumber: 4.4 Consensus size: 33
14718834 TTTAATATTA
* *
14718844 TACATAACTTACAACTTACATAACT-TACAACT
1 TACATAACTTACAACTTACATAATTATACGACT
** * *
14718876 TACATAACTTACATA-TT-TTTAATTATTCGTAAAT
1 TACATAACTTACA-ACTTACATAATTATACG--ACT
* * *
14718910 TACATAACTTACTTAATTTTCATAATAAATA--ACT
1 TACATAACTTAC--AACTTACATAAT-TATACGACT
14718944 TACATAACTTACAACTTACATAACTTATACGACT
1 TACATAACTTACAACTTACATAA-TTATACGACT
14718978 TACATAACTTACA
1 TACATAACTTACA
14718991 TAGCATACTT
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
31 4 0.04
32 29 0.33
33 2 0.02
34 44 0.49
35 1 0.01
36 3 0.03
37 4 0.04
38 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.37
Consensus pattern (33 bp):
TACATAACTTACAACTTACATAATTATACGACT
Found at i:14719022 original size:25 final size:25
Alignment explanation
Indices: 14718994--14719049 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
14718984 ACTTACATAG
* *
14718994 CATACTTTTCATAATACACAACTTA
1 CATAATTTTCATAATAAACAACTTA
*
14719019 CATAATTTTCATAATAAATAACTTA
1 CATAATTTTCATAATAAACAACTTA
14719044 CATAAT
1 CATAAT
14719050 ACATAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.38
Consensus pattern (25 bp):
CATAATTTTCATAATAAACAACTTA
Found at i:14719039 original size:16 final size:16
Alignment explanation
Indices: 14719028--14719060 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14719018 ACATAATTTT
14719028 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
14719044 CATAATACATAACTTA
1 CATAATAAATAACTTA
14719060 C
1 C
14719061 GTAGCTTAAT
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:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:14724593 original size:66 final size:65
Alignment explanation
Indices: 14724486--14724656 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
14724476 GAGCAAATTA
* * * *
14724486 CACAACTTAAAGCGGATGCAACATCGAGAGAAGCTAAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACAAAAG-TATGAACAACTCCA
14724550 G
65 G
* * *
14724551 CTACAACTAAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACAAAAGTATGAACAACTCCA
14724616 G
65 G
* * * *
14724617 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAAAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGG
14724657 CGGCAGCGAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.93
67 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAACAAAAGTATGAACAACTCCAG
Found at i:14725138 original size:43 final size:43
Alignment explanation
Indices: 14725072--14725319 Score: 211
Period size: 43 Copynumber: 5.8 Consensus size: 43
14725062 TGTTGGCCTT
* * **
14725072 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* * * *
14725115 TTTAGCGGCATTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* * * *
14725158 TTTAGCGGCGTTTGT-GATAAAGCGCCGCTACAGATTAGAGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* **
14725200 TATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGA-ATA-GGTC
1 T-TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATA-AGGGTC
* ** * * *
14725242 TTTAGTGGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* *
14725285 TATT-GCGGCGTTTG-AGATAAAAACGCCGCTAAAGA
1 T-TTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGA
14725320 CCCTTCTCCC
Statistics
Matches: 162, Mismatches: 35, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.01
42 63 0.39
43 95 0.59
44 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
Found at i:14725208 original size:85 final size:85
Alignment explanation
Indices: 14725072--14725319 Score: 288
Period size: 85 Copynumber: 2.9 Consensus size: 85
14725062 TGTTGGCCTT
* * *
14725072 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCATTTGTGGAAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATT-GCGGCGTTTGAGGAAAA
14725136 AGCGCCACTAAAG-ATCATGGTC
65 AGCGCCACTAAAGAAT-A-GGTC
* * * * * **
14725158 TTTAGCGGCGTTTGTGAT-AAAGCGCCGCTACAGATTAGAGTCTATTGCGGCGTTTGAGGGGAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTGAGGAAAAA
*
14725222 GCGCCGCTAAAGAATAGGTC
66 GCGCCACTAAAGAATAGGTC
* * *
14725242 TTTAGTGGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGA-GATAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTGAGGA-AAA
* *
14725306 AACGCCGCTAAAGA
65 AGCGCCACTAAAGA
14725320 CCCTTCTCCC
Statistics
Matches: 138, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
84 21 0.15
85 98 0.71
86 19 0.14
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (85 bp):
TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTGAGGAAAAA
GCGCCACTAAAGAATAGGTC
Found at i:14729222 original size:30 final size:30
Alignment explanation
Indices: 14729188--14729360 Score: 211
Period size: 30 Copynumber: 5.7 Consensus size: 30
14729178 GTATATGTTT
* *
14729188 TATACATTTCCGAATTGATTTGTACAAAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
14729218 TATACATTGCCGAATTGATTTGTATAAAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
* * *
14729248 TATACATTGTCGAATTTATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
* *
14729278 TATACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATAAAGA
* * * **
14729308 TATACATTACCGAATTTGGTTCGTATATGGA
1 TATACATTGCCGAA-TTGATTTGTATAAAGA
* *
14729339 TATATATTGCTGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
14729361 AGCATTGGAT
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
30 100 0.81
31 24 0.19
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATAAAGA
Found at i:14732031 original size:17 final size:17
Alignment explanation
Indices: 14732011--14732043 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14732001 ATTTAATATA
14732011 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
14732028 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
14732044 TGAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:14732361 original size:29 final size:26
Alignment explanation
Indices: 14732328--14732384 Score: 69
Period size: 29 Copynumber: 2.1 Consensus size: 26
14732318 TAGGAATAGG
*
14732328 AAATTCTATTAGGATAGCTTAGGTTAATT
1 AAATTCCATTAGGATA---TAGGTTAATT
*
14732357 AAATTCCATTAGGTTATAGGTTAATT
1 AAATTCCATTAGGATATAGGTTAATT
14732383 AA
1 AA
14732385 TTTAATTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 12 0.46
29 14 0.54
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (26 bp):
AAATTCCATTAGGATATAGGTTAATT
Found at i:14735015 original size:29 final size:29
Alignment explanation
Indices: 14734982--14735050 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
14734972 TAGGAATAGG
*
14734982 AAATTTTATTAGGATATCTTAGGTTAATT
1 AAATTTAATTAGGATATCTTAGGTTAATT
* * * *
14735011 AAATTTCATTAGGTTATTTTAGGTTCATT
1 AAATTTAATTAGGATATCTTAGGTTAATT
14735040 -AATTTAATTAG
1 AAATTTAATTAG
14735051 TTTAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (29 bp):
AAATTTAATTAGGATATCTTAGGTTAATT
Found at i:14737302 original size:19 final size:19
Alignment explanation
Indices: 14737267--14737305 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14737257 ATTTCACACA
*
14737267 TTAATTGAGTTATTATTAT
1 TTAATTGAATTATTATTAT
14737286 TTAATTGATATTA-TATTAT
1 TTAATTGA-ATTATTATTAT
14737305 T
1 T
14737306 ATATTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTAATTGAATTATTATTAT
Found at i:14737413 original size:19 final size:19
Alignment explanation
Indices: 14737391--14737446 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
14737381 AGTTGTAATA
14737391 TATTTATTTAATTATTTTT
1 TATTTATTTAATTATTTTT
* *
14737410 TATTT-TAGTAAATATATTTT
1 TATTTAT-TTAATTAT-TTTT
*
14737430 TATTATATTAAATTATT
1 TATT-TATTTAATTATT
14737447 AAATTAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 9 0.32
21 6 0.21
22 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTATTTAATTATTTTT
Found at i:14737428 original size:21 final size:20
Alignment explanation
Indices: 14737400--14737446 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14737390 ATATTTATTT
*
14737400 AATTATTTTTTATTTTAGTA
1 AATTATTTTTTATTATAGTA
*
14737420 AA-TATATTTTTATTATATTA
1 AATTAT-TTTTTATTATAGTA
14737440 AATTATT
1 AATTATT
14737447 AAATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTATTTTTTATTATAGTA
Found at i:14743009 original size:11 final size:11
Alignment explanation
Indices: 14742972--14743000 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14742962 CATTACCTAT
14742972 TTTTATAAATA
1 TTTTATAAATA
14742983 TTTTATAAATA
1 TTTTATAAATA
14742994 TTTTATA
1 TTTTATA
14743001 TATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATAAATA
Found at i:14753904 original size:9 final size:9
Alignment explanation
Indices: 14753884--14753932 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
14753874 AAATATGCAT
14753884 TTTAATTAAA
1 TTTAA-TAAA
14753894 TTTAATAAA
1 TTTAATAAA
*
14753903 TTTAA-AAT
1 TTTAATAAA
14753911 TTTAATAAA
1 TTTAATAAA
* *
14753920 TATAATTAA
1 TTTAATAAA
14753929 TTTA
1 TTTA
14753933 GGGTTACTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
8 7 0.21
9 21 0.64
10 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTTAATAAA
Found at i:14753919 original size:26 final size:27
Alignment explanation
Indices: 14753882--14753932 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
14753872 AAAAATATGC
*
14753882 ATTTTAATTAAATTTAATAAATTTAAA
1 ATTTTAATTAAATATAATAAATTTAAA
*
14753909 ATTTTAA-TAAATATAATTAATTTA
1 ATTTTAATTAAATATAATAAATTTA
14753933 GGGTTACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTTAATTAAATATAATAAATTTAAA
Found at i:14763136 original size:115 final size:111
Alignment explanation
Indices: 14762952--14763255 Score: 307
Period size: 115 Copynumber: 2.7 Consensus size: 111
14762942 AATAAATTAG
* * * * *
14762952 GGTTT-AAGGTACATTTTTAATTTTT--TAATTATTATTTATTTGTTTGATTTATAAACCTTATT
1 GGTTTAAAGGAACATTTTT--TTTTTCGTAACTATTATTTATTTGTTTGTTTTGT-AATCTTATT
* * * * *
14763014 ATTTGTCCTATTTTGA-GGTTTTGGAAAGGGAGGAGG-CAGCAGATTAA
63 AATTGTCCTATTTTGATGATTTTGGAAAGAGAGGAGGACAACAGACTAA
14763061 GGTTTAAAGGAACATTTGTAATGTTTTTCCGTAACTATTATTTATTTGTTTGTTTTGTAATCTTC
1 GGTTTAAAGGAACATTT-T--T-TTTTT-CGTAACTATTATTTATTTGTTTGTTTTGTAATCTT-
* *
14763126 ATTAAATGTCCCATTTT-ATGATTTTGGAAAGAGAGGAGGCAACAACAGACTAA
60 ATTAATTGTCCTATTTTGATGATTTTGGAAAGAGAGGAGG--ACAACAGACTAA
* * * *
14763179 GGTTTAAAGGTACATTTTTTTTTTTGTAATTATTATTTGTTTGTTTGTTTTGTAATCCTTATT-A
1 GGTTTAAAGGAACATTTTTTTTTTCGTAACTATTATTTATTTGTTTGTTTTGTAAT-CTTATTAA
14763243 TTGTCCTATTTTG
65 TTGTCCTATTTTG
14763256 TGGTGTTGTG
Statistics
Matches: 162, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
109 5 0.03
110 10 0.06
111 1 0.01
112 16 0.10
113 33 0.20
114 14 0.09
115 57 0.35
117 1 0.01
118 25 0.15
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.48
Consensus pattern (111 bp):
GGTTTAAAGGAACATTTTTTTTTTCGTAACTATTATTTATTTGTTTGTTTTGTAATCTTATTAAT
TGTCCTATTTTGATGATTTTGGAAAGAGAGGAGGACAACAGACTAA
Found at i:14763591 original size:16 final size:16
Alignment explanation
Indices: 14763551--14763597 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
14763541 TTTCTTCAAC
*
14763551 ATTATTATTTTTT-CA
1 ATTATTATTTTTTGTA
**
14763566 ATTACAATTTTTTGTA
1 ATTATTATTTTTTGTA
14763582 ATTATTATTTATTTGT
1 ATTATTATTT-TTTGT
14763598 TTGAATGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (16 bp):
ATTATTATTTTTTGTA
Found at i:14770987 original size:23 final size:23
Alignment explanation
Indices: 14770942--14770984 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14770932 GATATGAATT
* *
14770942 TATATAATATTTTATCATATTAA
1 TATAAAATATTATATCATATTAA
14770965 TATAAAATATTATAT-ATATT
1 TATAAAATATTATATCATATT
14770985 TAACAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATAAAATATTATATCATATTAA
Found at i:14773349 original size:14 final size:14
Alignment explanation
Indices: 14773329--14773361 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14773319 ATGAGTGAAT
14773329 GGAAGCCAT-TTTG
1 GGAAGCCATGTTTG
14773342 GTGAAGCCATGTTTG
1 G-GAAGCCATGTTTG
14773357 GGAAG
1 GGAAG
14773362 GTCTGATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (14 bp):
GGAAGCCATGTTTG
Found at i:14777347 original size:31 final size:31
Alignment explanation
Indices: 14777309--14777426 Score: 138
Period size: 31 Copynumber: 3.9 Consensus size: 31
14777299 ATCAACTTAA
*
14777309 GAAAAAGTGTCAAGTTTAGGTACTAAATTAG
1 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
*
14777340 GAAAAAGTGTCAAGTTTGGGTACCAAATTAG
1 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
*
14777371 ATGAAAAA-----AAGTTTAGATACCAAATTAG
1 --GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
* *
14777399 AAAAAAGTGTCAAGTTCAGGTACCAAAT
1 GAAAAAGTGTCAAGTTTAGGTACCAAAT
14777427 ATTATATTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.07
28 18 0.25
31 44 0.60
33 6 0.08
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (31 bp):
GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
Found at i:14777404 original size:90 final size:89
Alignment explanation
Indices: 14777234--14777426 Score: 223
Period size: 90 Copynumber: 2.1 Consensus size: 89
14777224 AAAAAAAAGA
* *
14777234 TTAGGTCCCAAATTAGGAAAAATAGTCAAGTTTAGGTACCAAATTGGATCCCAAAAAAAATAACT
1 TTAGGTACCAAATTAGGAAAAATAGTCAAGTTTAGGTACCAAATTAGAT-CCAAAAAAAATAACT
* *
14777299 ATCAACTTAAGAAAAAGTGTCAAGT
65 ACCAAATTAAGAAAAAGTGTCAAGT
* * * *
14777324 TTAGGTACTAAATTAGGAAAAAGT-GTCAAGTTTGGGTACCAAATTAGAT-GAAAAAAAGTTTAG
1 TTAGGTACCAAATTAGGAAAAA-TAGTCAAGTTTAGGTACCAAATTAGATCCAAAAAAA--ATA-
14777387 A-TACCAAATT-AGAAAAAAGTGTCAAGT
62 ACTACCAAATTAAG-AAAAAGTGTCAAGT
*
14777414 TCAGGTACCAAAT
1 TTAGGTACCAAAT
14777427 ATTATATTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
88 7 0.08
89 2 0.02
90 77 0.88
91 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (89 bp):
TTAGGTACCAAATTAGGAAAAATAGTCAAGTTTAGGTACCAAATTAGATCCAAAAAAAATAACTA
CCAAATTAAGAAAAAGTGTCAAGT
Found at i:14777440 original size:12 final size:12
Alignment explanation
Indices: 14777423--14777448 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14777413 TTCAGGTACC
14777423 AAATATTATATT
1 AAATATTATATT
14777435 AAATATTATATT
1 AAATATTATATT
14777447 AA
1 AA
14777449 GCTTAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATATTATATT
Found at i:14778430 original size:30 final size:29
Alignment explanation
Indices: 14778394--14778450 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
14778384 AGGAGAAAAA
14778394 GTTGTGTTT-GGGATTTGAGAAAAAATTAGT
1 GTTGTGTTTAGGG-TTTGA-AAAAAATTAGT
14778424 GTTGTGTTTAGGGTTTGAAAAAAATTA
1 GTTGTGTTTAGGGTTTGAAAAAAATTA
14778451 ATTAATAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 9 0.35
30 14 0.54
31 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (29 bp):
GTTGTGTTTAGGGTTTGAAAAAAATTAGT
Found at i:14778789 original size:49 final size:49
Alignment explanation
Indices: 14778736--14778998 Score: 438
Period size: 49 Copynumber: 5.4 Consensus size: 49
14778726 ATGTTTTATT
*
14778736 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
*
14778785 TTTTTATGTAATTTATTTTTCATATGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
*
14778834 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAA
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
*
14778883 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAA
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
* * * *
14778932 TTTTTATGTAATTTA-TTATCATATGTGTTTTAAGTTTATTAGATTTATT
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTA-A
14778981 TTTTTATGTAATTTATTT
1 TTTTTATGTAATTTATTT
14778999 GGCATGTTAT
Statistics
Matches: 203, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
48 28 0.14
49 173 0.85
50 2 0.01
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (49 bp):
TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
Found at i:14778798 original size:16 final size:16
Alignment explanation
Indices: 14778779--14778946 Score: 78
Period size: 16 Copynumber: 10.3 Consensus size: 16
14778769 GGTTTATTAG
14778779 ATTTAATTTTTATGTA
1 ATTTAATTTTTATGTA
*
14778795 ATTTATTTTTCATATGT-
1 ATTTAATTTT--TATGTA
* * **
14778812 GTTTTAGGTTTAT-TA
1 ATTTAATTTTTATGTA
14778827 GATTTAATTTTTATGTA
1 -ATTTAATTTTTATGTA
*
14778844 ATTT-ATTTTTCATGTGT
1 ATTTAATTTTT-ATGT-A
* * **
14778861 GTTTTAGATTTAT-TA
1 ATTTAATTTTTATGTA
14778876 GATTTAATTTTTATGTA
1 -ATTTAATTTTTATGTA
*
14778893 ATTT-ATTTTTCATGTGT
1 ATTTAATTTTT-ATGT-A
* * **
14778910 GTTTTAGATTTAT-TA
1 ATTTAATTTTTATGTA
14778925 GATTTAATTTTTATGTA
1 -ATTTAATTTTTATGTA
14778942 ATTTA
1 ATTTA
14778947 TTATCATATG
Statistics
Matches: 109, Mismatches: 28, Indels: 30
0.65 0.17 0.18
Matches are distributed among these distances:
14 1 0.01
15 15 0.14
16 59 0.54
17 21 0.19
18 13 0.12
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (16 bp):
ATTTAATTTTTATGTA
Found at i:14778823 original size:147 final size:142
Alignment explanation
Indices: 14778669--14778971 Score: 304
Period size: 147 Copynumber: 2.1 Consensus size: 142
14778659 TTCTCATTCA
* *
14778669 TAAGTTTATTTTAATGTTTAT-TCAAGTAAAAAAACCTATTTATGTTATGTACAAAGAAT-GTTT
1 TAAGTTTATTTTAATGTTTATGT-AA-TAAAAAAACC-ATGTATGTT-T-TACAAAGAATAGATT
* *
14778732 TATTTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAATTTTTATGTAAT
61 TA-ATTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAAT
*
14778797 TTATTTTTCATATGTGTTT
125 TTA-TTATCATATGTGTTT
* * ** ***** * * *** *
14778816 TAGGTTTATTAGATTTAATTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTT
1 TAAGTTTA-T---TTTAATGTTTATGTAATAAAAAAACCATGTATGTTTTACAAAGAATAGATTT
*
14778881 AATTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTT
62 AATTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTT
14778946 ATTATCATATGTGTTT
127 ATTATCATATGTGTTT
14778962 TAAGTTTATT
1 TAAGTTTATT
14778972 AGATTTATTT
Statistics
Matches: 128, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
142 1 0.01
145 1 0.01
146 21 0.16
147 74 0.58
148 7 0.05
149 7 0.05
150 3 0.02
151 13 0.10
152 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (142 bp):
TAAGTTTATTTTAATGTTTATGTAATAAAAAAACCATGTATGTTTTACAAAGAATAGATTTAATT
TTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTATTA
TCATATGTGTTT
Found at i:14779034 original size:147 final size:148
Alignment explanation
Indices: 14778735--14779036 Score: 443
Period size: 147 Copynumber: 2.1 Consensus size: 148
14778725 AATGTTTTAT
*
14778735 TTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAATTTTTATGTAATTTA
1 TTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTA
* * ** *
14778800 TTTTTCATATGTGTTTTAGGTTTATTAGATTTAATTTTTATGTAATTTATTTTTCATGTGTGTTT
66 TTTATCATATGTGTTTTAAGTTTATTAGATTTAATTTTTATGTAATTTATTTGGCATGTGTATTT
*
14778865 TAGATTTATTAGATTTAA
131 TAGATTTATTAGATTAAA
*
14778883 -TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTA
1 TTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTA
*
14778947 -TTATCATATGTGTTTTAAGTTTATTAGATTTATTTTTTTATGTAATTTATTTGGCATGT-TATT
66 TTTATCATATGTGTTTTAAGTTTATTAGATTTA-ATTTTTATGTAATTTATTTGGCATGTGTATT
* *
14779010 TT-TATTATTTTA-ATATAAA
130 TTAGATT-TATTAGAT-TAAA
14779029 TTTTTTAT
1 TTTTTTAT
14779037 TTTTTATGTA
Statistics
Matches: 139, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
145 5 0.04
146 42 0.30
147 92 0.66
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.62
Consensus pattern (148 bp):
TTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTA
TTTATCATATGTGTTTTAAGTTTATTAGATTTAATTTTTATGTAATTTATTTGGCATGTGTATTT
TAGATTTATTAGATTAAA
Found at i:14779092 original size:26 final size:27
Alignment explanation
Indices: 14779056--14779108 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
14779046 AGGTAAAAGA
*
14779056 TGAGATCATTGAGATGAAATTTGTGAG
1 TGAGATCATTGAGATGAAATTTATGAG
*
14779083 TGAGA-CATTGAGTTGAAATTTATGAG
1 TGAGATCATTGAGATGAAATTTATGAG
14779109 ATAAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (27 bp):
TGAGATCATTGAGATGAAATTTATGAG
Found at i:14780634 original size:14 final size:14
Alignment explanation
Indices: 14780615--14780649 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
14780605 CATATTTTTT
14780615 TTCTAATGATACTA
1 TTCTAATGATACTA
14780629 TTCTAATGATACTA
1 TTCTAATGATACTA
14780643 TTCTAAT
1 TTCTAAT
14780650 ATGTAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:14781315 original size:24 final size:24
Alignment explanation
Indices: 14781263--14781327 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
14781253 TTGGGGCATA
14781263 CGAGCCAAAGCTTGAGCCCAAGCC
1 CGAGCCAAAGCTTGAGCCCAAGCC
* *
14781287 TGAGCCTAAGCTTGA-CCCTGAA-CC
1 CGAGCCAAAGCTTGAGCCC--AAGCC
* *
14781311 CGAGCCAGAGCCTGAGC
1 CGAGCCAAAGCTTGAGC
14781328 GGTCGCATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.12
Consensus pattern (24 bp):
CGAGCCAAAGCTTGAGCCCAAGCC
Found at i:14781496 original size:33 final size:33
Alignment explanation
Indices: 14781459--14781532 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
14781449 GTAGTATAAC
*
14781459 ACTCCTCCAGACCCGTATCCACCGCATTACTCT
1 ACTCCTCCAGACCCGTATCCACCGCAATACTCT
* * **
14781492 ACTCCTCCCGGCTTGTATCCACCGCAATACTCT
1 ACTCCTCCAGACCCGTATCCACCGCAATACTCT
14781525 ACTCCTCC
1 ACTCCTCC
14781533 CAGCTTAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.19, C:0.46, G:0.09, T:0.26
Consensus pattern (33 bp):
ACTCCTCCAGACCCGTATCCACCGCAATACTCT
Found at i:14781533 original size:33 final size:33
Alignment explanation
Indices: 14781473--14781538 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
14781463 CTCCAGACCC
* *
14781473 GTATCCACCGCATTACTCTACTCCTCCCGGCTT
1 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
14781506 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
1 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
14781539 AAGTTTATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (33 bp):
GTATCCACCGCAATACTCTACTCCTCCCAGCTT
Found at i:14781958 original size:48 final size:49
Alignment explanation
Indices: 14781792--14781998 Score: 269
Period size: 49 Copynumber: 4.3 Consensus size: 49
14781782 GTATTTATTT
* * **
14781792 AATTAGATTA-ATTGCAATATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGA-TACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
14781841 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
* * * *
14781890 AATTGGATGCATTACAACATTAAAACTTGGAACAGACTCTGTAAT-ATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
** * *
14781938 AATTAGATACATTACAACATTAAAACGAGGAAC-AACTTTGCAAT-TTA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
14781985 AATTAGATACATTA
1 AATTAGATACATTA
14781999 AATTACATAA
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 24 0.17
48 34 0.24
49 83 0.59
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (49 bp):
AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
Found at i:14785584 original size:101 final size:102
Alignment explanation
Indices: 14785464--14785648 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
14785454 AAAGTGATGG
* *
14785464 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTATAGT
14785527 ACTATGTGCAGGCTACTATGCGTACTGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACTGGATAGCTTCGA
* *
14785565 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTATAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTATAGTA
14785630 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
14785649 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTATAGTA
CTATGTGCAGGCTACTATGCGTACTGGATAGCTTCGA
Found at i:14785594 original size:51 final size:49
Alignment explanation
Indices: 14785461--14785646 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
14785451 GTGAAAGTGA
* **
14785461 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATA-G-T
* * * *
14785511 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAG-T
* *
14785561 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGT
*
14785611 GATGGTCACATGTATAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
14785647 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
50 42 0.37
51 71 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGT
Found at i:14785714 original size:44 final size:45
Alignment explanation
Indices: 14785652--14785736 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
14785642 TACTATGTGA
14785652 ACCGGTATCATTAATTAT-AA-GGTGGTTGCT-TCGTGCTGATCCC
1 ACCGGTATCATTAATTATAAAGGGTGGTTGCTGT-GTGCTGATCCC
*
14785695 ACCGGATATCATTGATTATAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTATAAAGGGTGGTTGCTGTGTGCTGA
14785737 ATCCACTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 5 0.14
44 12 0.32
45 2 0.05
46 17 0.46
47 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (45 bp):
ACCGGTATCATTAATTATAAAGGGTGGTTGCTGTGTGCTGATCCC
Found at i:14785909 original size:15 final size:16
Alignment explanation
Indices: 14785875--14785910 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14785865 TGATTGAAAG
*
14785875 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
14785891 TGAAAAAGTAAAATT-
1 TGAAAAAGTAAAATTA
14785906 TGAAA
1 TGAAA
14785911 CAGAATAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:14806642 original size:9 final size:9
Alignment explanation
Indices: 14806628--14806658 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14806618 GTTAAACGAA
14806628 TCGAGTTAT
1 TCGAGTTAT
*
14806637 TCGAGTTAA
1 TCGAGTTAT
14806646 TCGAGTTAT
1 TCGAGTTAT
14806655 TCGA
1 TCGA
14806659 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14806740 original size:9 final size:9
Alignment explanation
Indices: 14806711--14806747 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14806701 TGAGTTTTCA
14806711 AATTCGAAT
1 AATTCGAAT
*
14806720 AACTCGAAT
1 AATTCGAAT
14806729 AATTCGAAT
1 AATTCGAAT
*
14806738 AATTAGAAT
1 AATTCGAAT
14806747 A
1 A
14806748 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14812717 original size:16 final size:15
Alignment explanation
Indices: 14812681--14812722 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
14812671 AAGTGTTCTT
14812681 TAGATT-TGAAACTA
1 TAGATTGTGAAACTA
* *
14812695 TATATTGTGATAACTC
1 TAGATTGTGA-AACTA
14812711 TAGATTGTGAAA
1 TAGATTGTGAAA
14812723 ACAATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (15 bp):
TAGATTGTGAAACTA
Found at i:14820991 original size:13 final size:14
Alignment explanation
Indices: 14820963--14820994 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14820953 GGATTGTGTA
14820963 TATCT-ATTCTACT
1 TATCTGATTCTACT
14820976 TATCTGATTCTA-T
1 TATCTGATTCTACT
14820989 TATCTG
1 TATCTG
14820995 TATCTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (14 bp):
TATCTGATTCTACT
Found at i:14826324 original size:50 final size:49
Alignment explanation
Indices: 14826210--14826329 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 49
14826200 TGCCAAAACT
* * * *
14826210 ATGTCCCAGACATAGTCTTACATGGGATGTTTTCTATAATGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGAGATGTTCTCTATAATGCCAATGCC
* * * *
14826259 ATATCCCAGATATGGTCTTACATGAGA-GTTCTCATACTAGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGAGATGTTCTC-TA-TAATGCCAATGCC
*
14826309 ATGTCCCAGACATGGTTTTAC
1 ATGTCCCAGACATGGTCTTAC
14826330 GCGGGACCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 5 0.09
49 25 0.43
50 28 0.48
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACATGAGATGTTCTCTATAATGCCAATGCC
Found at i:14826431 original size:50 final size:50
Alignment explanation
Indices: 14826262--14826431 Score: 173
Period size: 50 Copynumber: 3.4 Consensus size: 50
14826252 CAATGTCATA
* * ** * *
14826262 TCCCAGATATGGTCTTACATGAGAGTTCTCATACT-AGTGCCCA-TGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGGTGCCAACT-CCATG
* ** *
14826312 TCCCAGACATGGTTTTACGCGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATG
* * ** *
14826362 TCCTAGATATGGAATTACATGGGACCTCTCATCTCGGTGCCAACTCCTTG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATG
14826412 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
14826432 AGGATCTCAT
Statistics
Matches: 96, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 2 0.02
50 94 0.98
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATG
Found at i:14830609 original size:50 final size:49
Alignment explanation
Indices: 14830482--14830611 Score: 176
Period size: 48 Copynumber: 2.7 Consensus size: 49
14830472 GAAGTTAGTA
* *
14830482 GCAGTTTACCTGCAAATCAGTGGTGGCTT-TCCACAAAGTGTTTTAGTG
1 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAGTG
* * * *
14830530 GTAGTATATCTGCATAT--GTGGTGGCTTGTCCACAATGTGTTATCAGTG
1 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TCAGTG
14830578 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
1 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
14830612 TAAATGGTGG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 10 0.14
47 12 0.17
48 32 0.46
50 15 0.22
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (49 bp):
GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAGTG
Found at i:14842360 original size:17 final size:18
Alignment explanation
Indices: 14842321--14842361 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
14842311 TTTTATAAAT
14842321 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
14842339 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
14842356 TGTGAA
1 TGTGAA
14842362 AGGAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:14842597 original size:23 final size:23
Alignment explanation
Indices: 14842571--14842623 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
14842561 AGTGTTATTG
14842571 ATCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
* *
14842594 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGACTACAT
14842617 ATCAGTG
1 ATCAGTG
14842624 TGGCACTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGACTACAT
Found at i:14851921 original size:22 final size:22
Alignment explanation
Indices: 14851868--14851915 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
14851858 TATTCCTTAG
*
14851868 AATTTTTTTTAAAAAATTTTAT
1 AATTTTTTTTAAAAAATATTAT
14851890 AATTTTTTTTAAAAAA-ATTA-
1 AATTTTTTTTAAAAAATATTAT
14851910 AATTTT
1 AATTTT
14851916 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 3 0.12
22 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTTTTTTTAAAAAATATTAT
Found at i:14851926 original size:22 final size:22
Alignment explanation
Indices: 14851870--14851927 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
14851860 TTCCTTAGAA
14851870 TTTTTTTTAAAAAATTTTATAA-
1 TTTTTTTTAAAAAA-TTTATAAT
*
14851892 TTTTTTTTAAAAAAATTA-AAT
1 TTTTTTTTAAAAAATTTATAAT
14851913 TTTAATTTTTAAAAA
1 TTT--TTTTTAAAAA
14851928 TTATTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 14 0.44
23 10 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTTTTAAAAAATTTATAAT
Found at i:14851939 original size:12 final size:12
Alignment explanation
Indices: 14851919--14851949 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14851909 AAATTTTAAT
*
14851919 TTTTAAAAATTA
1 TTTTGAAAATTA
14851931 TTTTGAAAATTA
1 TTTTGAAAATTA
14851943 TTTTGAA
1 TTTTGAA
14851950 TTTTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TTTTGAAAATTA
Found at i:14856096 original size:42 final size:42
Alignment explanation
Indices: 14856037--14856130 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
14856027 CCTGAGTCAA
*
14856037 TCGATCTAATGTCTTTTTTCAAATTGATATCTTGATCTATTT
1 TCGATCTAATGTCTTTTTTCAAATTGATATCTTGATCGATTT
*
14856079 TCGATCTAATGTCTTTTTTCAAATTGATATTTTGATCGATTT
1 TCGATCTAATGTCTTTTTTCAAATTGATATCTTGATCGATTT
14856121 TCGATCTAAT
1 TCGATCTAAT
14856131 TGGTTCAGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (42 bp):
TCGATCTAATGTCTTTTTTCAAATTGATATCTTGATCGATTT
Done.