Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 49 of 333
Found at i:14096941 original size:33 final size:33
Alignment explanation
Indices: 14096904--14096974 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
14096894 TGGTCCAACC
* *
14096904 ATGGTATTATG-TTCAAGATTCCATAACCCAGTT
1 ATGGTATTATGATT-AAAATTCCATAACCCAGCT
* * *
14096937 ATGGTCTTTTGATTAAAATTCCATAGCCCAGCT
1 ATGGTATTATGATTAAAATTCCATAACCCAGCT
14096970 ATGGT
1 ATGGT
14096975 CTTACATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (33 bp):
ATGGTATTATGATTAAAATTCCATAACCCAGCT
Found at i:14096943 original size:103 final size:101
Alignment explanation
Indices: 14096830--14097014 Score: 253
Period size: 103 Copynumber: 1.8 Consensus size: 101
14096820 GCCATAGCTT
** *
14096830 AGTTATGGTCTTACCATTAGGATGCCATAGCCCAGCTATGGTCTTACACATAAATATATTGTCAT
1 AGTTATGGTCTTACCATTAAAATGCCATAGCCCAGCTATGGTCTTACA-ATAAA-ATATTGCCAT
*
14096895 GGTCCAACCATGGTATTATGTTCAAGATTCCATAACCC
64 GGTCCAAACATGGTATTATGTTCAAGATTCCATAACCC
*** * * *
14096933 AGTTATGGTCTTTTGATTAAAATTCCATAGCCCAGCTATGGTCTTACATTTAAATATTGCCATGG
1 AGTTATGGTCTTACCATTAAAATGCCATAGCCCAGCTATGGTCTTACAATAAAATATTGCCATGG
*
14096998 TCCAAACATGGTCTTAT
66 TCCAAACATGGTATTAT
14097015 CCATCAATTC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 26 0.37
102 3 0.04
103 42 0.59
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (101 bp):
AGTTATGGTCTTACCATTAAAATGCCATAGCCCAGCTATGGTCTTACAATAAAATATTGCCATGG
TCCAAACATGGTATTATGTTCAAGATTCCATAACCC
Found at i:14096986 original size:33 final size:34
Alignment explanation
Indices: 14096921--14096995 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
14096911 TATGTTCAAG
* **
14096921 ATTCCATAACCCAGTTATGGTCTTTTGATTAAA-
1 ATTCCATAACCCAGCTATGGTCTTTACATTAAAT
*
14096954 ATTCCATAGCCCAGCTATGGTC-TTACATTTAAAT
1 ATTCCATAACCCAGCTATGGTCTTTACA-TTAAAT
14096988 ATTGCCAT
1 ATT-CCAT
14096996 GGTCCAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 3 0.09
33 25 0.71
34 3 0.09
35 4 0.11
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (34 bp):
ATTCCATAACCCAGCTATGGTCTTTACATTAAAT
Found at i:14099972 original size:12 final size:12
Alignment explanation
Indices: 14099957--14099985 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14099947 TGTCTTAGGC
14099957 CGTGTCCTTACT
1 CGTGTCCTTACT
14099969 CGTGTCCTTACT
1 CGTGTCCTTACT
14099981 CGTGT
1 CGTGT
14099986 AACTCTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.31, G:0.21, T:0.41
Consensus pattern (12 bp):
CGTGTCCTTACT
Found at i:14101035 original size:103 final size:101
Alignment explanation
Indices: 14100925--14101117 Score: 235
Period size: 103 Copynumber: 1.9 Consensus size: 101
14100915 ATTCGTAGTC
* **
14100925 CCATAACCCAGTTATGGTCTTACCAATAGGATGCCATAGCCCAGCTATGGTATCACACATAAATA
1 CCATAACCCAATTATGGTCTTACCAATAAAATGCCATAGCCCAGCTATGGTATCACACATAAATA
14100990 TACTGCCATGGTCC-AACTATGGTCTTACATTCAAGATG
66 T--TGCCATGGTCCAAAC-ATGGTCTTACATTCAAGATG
* ** * * * * ** *
14101028 CCATAACCCAATTATGGTTTTTTCATTAAAATTCCATAGCCCAGCTATGGTCTTACATTTAAATG
1 CCATAACCCAATTATGGTCTTACCAATAAAATGCCATAGCCCAGCTATGGTATCACACATAAATA
14101093 TTGCCATGGTCCAAACATGGTCTTA
66 TTGCCATGGTCCAAACATGGTCTTA
14101118 TCCATCAATT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
101 20 0.26
102 3 0.04
103 53 0.70
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (101 bp):
CCATAACCCAATTATGGTCTTACCAATAAAATGCCATAGCCCAGCTATGGTATCACACATAAATA
TTGCCATGGTCCAAACATGGTCTTACATTCAAGATG
Found at i:14101044 original size:33 final size:32
Alignment explanation
Indices: 14101002--14101092 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
14100992 CTGCCATGGT
*
14101002 CCAACTATGGTCTTACATTCAAGATGCCATAAC
1 CCAACTATGGTCTTACATT-AAAATGCCATAAC
* * * * *
14101035 CCAATTATGGTTTTTTCATTAAAATTCCATAGC
1 CCAACTATGG-TCTTACATTAAAATGCCATAAC
* *
14101068 CCAGCTATGGTCTTACATTTAAATG
1 CCAACTATGGTCTTACATTAAAATG
14101093 TTGCCATGGT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
32 11 0.24
33 27 0.60
34 7 0.16
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (32 bp):
CCAACTATGGTCTTACATTAAAATGCCATAAC
Found at i:14102739 original size:15 final size:15
Alignment explanation
Indices: 14102719--14102750 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14102709 CATTTCACTA
*
14102719 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
14102734 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
14102749 TT
1 TT
14102751 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:14111523 original size:17 final size:17
Alignment explanation
Indices: 14111464--14111523 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
14111454 TAATAAATTT
14111464 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
14111483 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
14111497 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
14111515 AAAATATAA
1 AAAATATAA
14111524 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:14112059 original size:17 final size:18
Alignment explanation
Indices: 14112006--14112112 Score: 146
Period size: 18 Copynumber: 5.9 Consensus size: 18
14111996 AATCATATCT
*
14112006 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
14112025 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
14112043 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
14112060 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
14112078 TCTAAGATTG-TATCATG
1 TCTAAGATTGCTATCATA
14112095 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
14112113 TGAAGATTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
17 31 0.39
18 32 0.41
19 16 0.20
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:14112064 original size:35 final size:35
Alignment explanation
Indices: 14112006--14112112 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
14111996 AATCATATCT
14112006 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
14112043 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
14112078 TCTAAGATTGTATCATGTCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
14112113 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 53 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:14113627 original size:46 final size:46
Alignment explanation
Indices: 14113574--14113690 Score: 198
Period size: 46 Copynumber: 2.5 Consensus size: 46
14113564 GTGTGCTAGC
**
14113574 GTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGT
* *
14113620 GTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGT
14113666 GTAAGACATGTCTGGGACATGCATC
1 GTAAGACATGTCTGGGACATGCATC
14113691 GTCATTGAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGT
Found at i:14113709 original size:46 final size:45
Alignment explanation
Indices: 14113568--14113739 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
14113558 TGATATGTGT
* **
14113568 GCTAGCGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTATGAGA
* *
14113614 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTATGAGA
*
14113660 GCTAGTGTAAGACATGTCTGGGACATGCATC-G-TCATTGA-GACGGGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATT-ATGA---GA
* *
14113706 GCTAGTGCAAGACATGTCAGGGACATGCATCAGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC
14113740 GTCGAGATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
43 6 0.05
44 1 0.01
45 1 0.01
46 101 0.92
47 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTATGAGA
Found at i:14113860 original size:49 final size:49
Alignment explanation
Indices: 14113574--14113972 Score: 189
Period size: 46 Copynumber: 8.5 Consensus size: 49
14113564 GTGTGCTAGC
* * * * *
14113574 GTAAGACATGTCTGGGACAT-GCATTGGCCAC-AT-TATGAGAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACCTCGATGTATGAAAGCCAGT
* * * *
14113620 GTAAGACATGTCTGGGACAT-GCATC-AGCCAC-AT-TATGATAGCTAGT
1 GTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATGTATGAAAGCCAGT
* * * * * ** *
14113666 GTAAGACATGTCTGGGACAT-GCATCGTCATTGA-G-ACGGGAGCTAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACCTCGATGTATGAAAGCCAGT
* * * * *
14113712 GCAAGACATGTCAGGGACAT-GCATC-AGCGTCGA-GATAT-ACAAGCTAGT
1 GTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATG-TATGA-AAGCCAGT
* * * ** *
14113760 GTAGGACCTTTCTGGGACATGGCATC-A--TC-TTGT-TGAGTGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACCTCGATGTATGAAAGCCAGT
* * *
14113804 GTAAGACCTGTCTGGGATATGGCTTCGACAC-CGATAG-ATGAGAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGAC-CTCGAT-GTATGAAAGCCAGT
* * * * *
14113853 GTAAGACCTGTCCGGGACACGACATCGGCCTCGATGTATGAAAGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACCTCGATGTATGAAAGCCAGT
* **
14113902 GTAAGACCTGTTTGGGACATGGCATCGA-CTCTGATG--TGCTAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACCTC-GATGTATGAAAGCCAGT
* *
14113949 ATAAGACCATGTCTGCGACATGGC
1 GTAAGACC-TGTCTGGGACATGGC
14113973 GTCGGCAATT
Statistics
Matches: 276, Mismatches: 55, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
44 27 0.10
45 3 0.01
46 107 0.39
47 17 0.06
48 42 0.15
49 80 0.29
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
GTAAGACCTGTCTGGGACATGGCATCGACCTCGATGTATGAAAGCCAGT
Found at i:14116585 original size:15 final size:15
Alignment explanation
Indices: 14116565--14116614 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
14116555 TGAATTTAAT
14116565 TTAATATTAAAGTGA
1 TTAATATTAAAGTGA
** *
14116580 TTAATATTGAATTTAA
1 TTAATATT-AAAGTGA
14116596 TTTAATATTAAAGTGA
1 -TTAATATTAAAGTGA
14116612 TTA
1 TTA
14116615 TCTTAATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 11 0.41
16 8 0.30
17 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (15 bp):
TTAATATTAAAGTGA
Found at i:14116638 original size:37 final size:32
Alignment explanation
Indices: 14116548--14116614 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
14116538 TTTTAATAGT
14116548 TTAATATTGAATTTAATTTAATATTAAAGTGA
1 TTAATATTGAATTTAATTTAATATTAAAGTGA
14116580 TTAATATTGAATTTAATTTAATATTAAAGTGA
1 TTAATATTGAATTTAATTTAATATTAAAGTGA
14116612 TTA
1 TTA
14116615 TCTTAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (32 bp):
TTAATATTGAATTTAATTTAATATTAAAGTGA
Found at i:14123270 original size:18 final size:18
Alignment explanation
Indices: 14123233--14123272 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14123223 CAATAGTTCT
*
14123233 CATACAATAAGCAGTGCA
1 CATACAATAAGCAATGCA
* *
14123251 CATATAATAAGCAATTCA
1 CATACAATAAGCAATGCA
14123269 CATA
1 CATA
14123273 AAATGGGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (18 bp):
CATACAATAAGCAATGCA
Found at i:14123379 original size:17 final size:17
Alignment explanation
Indices: 14123318--14123398 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 17
14123308 AAACATTTGC
*
14123318 TCATATGAAATAATAGT
1 TCATACGAAATAATAGT
* * * *
14123335 TCTTACCAAATGATAGC
1 TCATACGAAATAATAGT
* *
14123352 TCATGCAAAATAATAGT
1 TCATACGAAATAATAGT
* *
14123369 TCATATGAAAT-ATCAAT
1 TCATACGAAATAAT-AGT
*
14123386 TCATACCAAATAA
1 TCATACGAAATAA
14123399 CAATTCACGC
Statistics
Matches: 46, Mismatches: 16, Indels: 3
0.71 0.25 0.05
Matches are distributed among these distances:
16 2 0.04
17 43 0.93
18 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATACGAAATAATAGT
Found at i:14124108 original size:18 final size:18
Alignment explanation
Indices: 14124067--14124109 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
14124057 ATGGTTTGGA
* * *
14124067 AAATTAATACAGTTTTCT
1 AAATTAATACAGATTGCC
*
14124085 ATATTAATACAGATTGCC
1 AAATTAATACAGATTGCC
14124103 AAATTAA
1 AAATTAA
14124110 CAGGTTTGCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
AAATTAATACAGATTGCC
Found at i:14124546 original size:29 final size:30
Alignment explanation
Indices: 14124508--14124605 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 30
14124498 ATCTATAAAC
*
14124508 ATATAT-TATATAATAAAACCCATGCATAT
1 ATATATATATATAATAAAACCCATGAATAT
*
14124537 AATATATATATATTACA-AAAACCCATTAATAT
1 -ATATATATATA-TA-ATAAAACCCATGAATAT
* *
14124569 ATATACTATATATAAAATAAAGCCCATGTATAT
1 ATATA-TATATAT--AATAAAACCCATGAATAT
14124602 ATAT
1 ATAT
14124606 CATAACTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
30 6 0.11
31 10 0.18
32 22 0.39
33 18 0.32
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATATATATATAATAAAACCCATGAATAT
Found at i:14125852 original size:32 final size:31
Alignment explanation
Indices: 14125787--14125853 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
14125777 AACCTAAATT
* * * * *
14125787 ATTAATTCTAATTGTTTTAATATTTTATTTA
1 ATTAATTCTAATTATTTAAATATATAATCTA
14125818 ATTAATTCCTAATTATTTAAATATATAATCTA
1 ATTAATT-CTAATTATTTAAATATATAATCTA
14125850 ATTA
1 ATTA
14125854 CAATTTTCGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (31 bp):
ATTAATTCTAATTATTTAAATATATAATCTA
Found at i:14147888 original size:25 final size:25
Alignment explanation
Indices: 14147858--14147919 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
14147848 ATCACTGGGC
*
14147858 CAAAGCCCTTTT-GATAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTAGGG
*
14147882 CAAAAGCCCTTTTCGGTAAACTAGGG
1 C-AAAGCCCTTTTCGATAAACTAGGG
*
14147908 CATAGCCCTTTT
1 CAAAGCCCTTTT
14147920 TGTACTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.64
26 11 0.33
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
CAAAGCCCTTTTCGATAAACTAGGG
Found at i:14147995 original size:20 final size:20
Alignment explanation
Indices: 14147970--14148036 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
14147960 TTATGAATAC
14147970 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
14147990 ATCATGTGCATTTCGTACAT
1 ATCATGTGCATATCATACAT
14148010 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
14148030 ATCATGT
1 ATCATGT
14148037 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14148023 original size:11 final size:11
Alignment explanation
Indices: 14147970--14148025 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
14147960 TTATGAATAC
14147970 ATCATGTGCAT
1 ATCATGTGCAT
*
14147981 ATCA--TACAT
1 ATCATGTGCAT
14147990 ATCATGTGCAT
1 ATCATGTGCAT
* *
14148001 TTC--GTACAT
1 ATCATGTGCAT
14148010 ATCATGTGCAT
1 ATCATGTGCAT
14148021 ATCAT
1 ATCAT
14148026 ACATATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:14156036 original size:26 final size:25
Alignment explanation
Indices: 14155979--14156037 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
14155969 TCTTTTAATC
*
14155979 ACTGGGGC-AAAGCCCTTTTGATAA
1 ACTGGGGCAAAAACCCTTTTGATAA
* *
14156003 ACTCGGGCAAAAACCCTTTTCGGTAA
1 ACTGGGGCAAAAACCCTTTT-GATAA
14156029 ACTGGGGCA
1 ACTGGGGCA
14156038 TAGCCCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.24
25 10 0.34
26 12 0.41
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (25 bp):
ACTGGGGCAAAAACCCTTTTGATAA
Found at i:14156048 original size:26 final size:24
Alignment explanation
Indices: 14155979--14156047 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
14155969 TCTTTTAATC
14155979 ACTGGGGCAAAGCCCTTTTGATAA
1 ACTGGGGCAAAGCCCTTTTGATAA
* * *
14156003 ACTCGGGCAAAAACCCTTTTCGGTAA
1 ACTGGGGC-AAAGCCCTTTT-GATAA
*
14156029 ACTGGGGCATAGCCCTTTT
1 ACTGGGGCAAAGCCCTTTT
14156048 TGCACTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 7 0.19
25 19 0.51
26 11 0.30
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (24 bp):
ACTGGGGCAAAGCCCTTTTGATAA
Found at i:14156123 original size:20 final size:20
Alignment explanation
Indices: 14156098--14156172 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
14156088 TTATGAATAC
14156098 ATCATGTGCATATCAAACAT
1 ATCATGTGCATATCAAACAT
**
14156118 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCAAACAT
*
14156138 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCAAACAT
14156158 ATCATGT--ATATCAAA
1 ATCATGTGCATATCAAA
14156173 ATCCCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.14
20 44 0.86
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCAAACAT
Found at i:14156129 original size:11 final size:11
Alignment explanation
Indices: 14156098--14156153 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
14156088 TTATGAATAC
14156098 ATCATGTGCAT
1 ATCATGTGCAT
**
14156109 ATCA--AACAT
1 ATCATGTGCAT
14156118 ATCATGTGCAT
1 ATCATGTGCAT
*
14156129 ATC--GTACAT
1 ATCATGTGCAT
14156138 ATCATGTGCAT
1 ATCATGTGCAT
14156149 ATCAT
1 ATCAT
14156154 ACATATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:14159401 original size:39 final size:39
Alignment explanation
Indices: 14159347--14159642 Score: 441
Period size: 39 Copynumber: 7.5 Consensus size: 39
14159337 TAATGGAGAA
* *
14159347 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTTGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
14159386 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
14159425 TTATATCCGGGCTAAGTCTCGAAGGAATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
14159464 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
14159503 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
14159542 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
14159581 TTATATCTGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
14159620 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
14159643 CATGCTTTGT
Statistics
Matches: 238, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 217 0.91
40 21 0.09
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:14172190 original size:27 final size:27
Alignment explanation
Indices: 14172160--14172337 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
14172150 ATATTGAGCC
* *
14172160 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
14172187 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
14172214 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
14172242 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
14172269 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
14172296 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
14172323 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14172338 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14172272 original size:55 final size:54
Alignment explanation
Indices: 14172160--14172337 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
14172150 ATATTGAGCC
* * * * *
14172160 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
14172214 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
14172269 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
14172323 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14172338 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:14180174 original size:27 final size:27
Alignment explanation
Indices: 14180144--14180321 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
14180134 ATATTGAGCC
* *
14180144 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
14180171 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
14180198 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
14180226 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
14180253 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
14180280 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
14180307 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14180322 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14180256 original size:55 final size:54
Alignment explanation
Indices: 14180144--14180321 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
14180134 ATATTGAGCC
* * * * *
14180144 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
14180198 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
14180253 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
14180307 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14180322 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:14183730 original size:17 final size:18
Alignment explanation
Indices: 14183695--14183730 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
14183685 TATGTAGCCT
*
14183695 GCCCGTGTGGGCTCACAC
1 GCCCGTGTGGGCCCACAC
14183713 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
14183730 G
1 G
14183731 ATCCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.42, G:0.33, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:14189264 original size:18 final size:17
Alignment explanation
Indices: 14189239--14189284 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
14189229 CATACCCGGA
* *
14189239 ACCCGACCCCGACCCTG
1 ACCCGACCCAGACCCAG
14189256 ACCCTGACCCAGACCCAG
1 ACCC-GACCCAGACCCAG
14189274 ACCCGAACCCA
1 ACCCG-ACCCA
14189285 AATCCAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.26, C:0.54, G:0.15, T:0.04
Consensus pattern (17 bp):
ACCCGACCCAGACCCAG
Found at i:14190073 original size:19 final size:19
Alignment explanation
Indices: 14190051--14190111 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
14190041 AAGAATATTA
14190051 AAATATATATAAAAATTGT
1 AAATATATATAAAAATTGT
*
14190070 AAATA-ATTATTAAATATTGTT
1 AAATATA-TA-TAAAAATTG-T
* *
14190091 AAA-ATATTTTAAAATTGT
1 AAATATATATAAAAATTGT
14190109 AAA
1 AAA
14190112 AAAGTTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.15
19 14 0.41
20 10 0.29
21 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATATATATAAAAATTGT
Found at i:14190122 original size:20 final size:19
Alignment explanation
Indices: 14190062--14190122 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
14190052 AATATATATA
*
14190062 AAAATTGTAAATAATTATT
1 AAAATTGTAAAAAATTATT
*
14190081 AAATATTGTTAAAATATT-TT
1 AAA-ATTG-TAAAAAATTATT
14190101 AAAATTGTAAAAAAGTTATT
1 AAAATTGTAAAAAA-TTATT
14190121 AA
1 AA
14190123 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 6 0.17
19 9 0.26
20 13 0.37
21 7 0.20
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
AAAATTGTAAAAAATTATT
Found at i:14190142 original size:39 final size:39
Alignment explanation
Indices: 14190048--14190143 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 39
14190038 TAAAAGAATA
*
14190048 TTAAAATATATATAAAAATTGTAAATAATTATTAAATATTG
1 TTAAAATATAT-T-AAAATTGTAAAAAATTATTAAATATTG
* * *
14190089 TTAAAATATTTTAAAATTGTAAAAAAGTTATT-AATTTTT
1 TTAAAATATATTAAAATTGTAAAAAA-TTATTAAATATTG
14190128 TTAAAA-ATGATTAAAA
1 TTAAAATAT-ATTAAAA
14190144 ACTTAGAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
38 2 0.04
39 30 0.62
40 6 0.12
41 10 0.21
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (39 bp):
TTAAAATATATTAAAATTGTAAAAAATTATTAAATATTG
Found at i:14190263 original size:19 final size:19
Alignment explanation
Indices: 14190225--14190262 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14190215 TGGAATTTAA
14190225 TCAATAATTTCACAAATTT
1 TCAATAATTTCACAAATTT
* *
14190244 TCAATGATTTTAC-AATTT
1 TCAATAATTTCACAAATTT
14190262 T
1 T
14190263 TAATCGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (19 bp):
TCAATAATTTCACAAATTT
Found at i:14190549 original size:20 final size:21
Alignment explanation
Indices: 14190526--14190572 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
14190516 TTTTAAAATA
14190526 TTTTTGACAATATTTAGT-TT
1 TTTTTGACAATATTTAGTATT
*
14190546 TTTTT-ACAATATTTATTATT
1 TTTTTGACAATATTTAGTATT
14190566 TTTTTGA
1 TTTTTGA
14190573 TAATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.46
20 12 0.50
21 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTTGACAATATTTAGTATT
Found at i:14190567 original size:19 final size:20
Alignment explanation
Indices: 14190524--14190569 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
14190514 AATTTTAAAA
*
14190524 TATTTTTGACAATATTTAGT
1 TATTTTTTACAATATTTAGT
14190544 T-TTTTTTACAATATTTA-T
1 TATTTTTTACAATATTTAGT
14190562 TATTTTTT
1 TATTTTTT
14190570 TGATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 21 0.88
20 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTTTTTACAATATTTAGT
Found at i:14191025 original size:26 final size:26
Alignment explanation
Indices: 14190970--14191056 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 26
14190960 GATTTGAGAT
*
14190970 TTAATTATTATATTTTT-TAAT-TTAA
1 TTAATTTTTATATTTTTATAATATT-A
14190995 TTTAATTTTTATATTTTTATAATATTA
1 -TTAATTTTTATATTTTTATAATATTA
* *
14191022 TTAATTAGTTTAATAATTTTATAATATAA
1 TTAATT--TTT-ATATTTTTATAATATTA
14191051 TTAATT
1 TTAATT
14191057 AGTTGAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 22 0.42
27 5 0.09
28 5 0.09
29 21 0.40
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (26 bp):
TTAATTTTTATATTTTTATAATATTA
Found at i:14193811 original size:25 final size:25
Alignment explanation
Indices: 14193783--14193831 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
14193773 TGATATTTCG
14193783 GCAGAGAAGGCATTGTTGAGATTCA
1 GCAGAGAAGGCATTGTTGAGATTCA
14193808 GCAGAGAAGGCATTGTTGAGATTC
1 GCAGAGAAGGCATTGTTGAGATTC
14193832 GCAAACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.33, T:0.24
Consensus pattern (25 bp):
GCAGAGAAGGCATTGTTGAGATTCA
Found at i:14194816 original size:16 final size:16
Alignment explanation
Indices: 14194795--14194849 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
14194785 TGAATTACTG
14194795 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
14194811 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
14194827 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCA
14194843 ATTACAG
1 ATTACAG
14194850 TCAACCAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:14200016 original size:15 final size:16
Alignment explanation
Indices: 14199990--14200033 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
14199980 GAATAAAAAT
14199990 CAGGCTTTATGCCTAA
1 CAGGCTTTATGCCTAA
*
14200006 CAGGC-TTATGCCTAG
1 CAGGCTTTATGCCTAA
* *
14200021 TAGGTTTTATGCC
1 CAGGCTTTATGCC
14200034 GGTGATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (16 bp):
CAGGCTTTATGCCTAA
Found at i:14200192 original size:50 final size:50
Alignment explanation
Indices: 14200113--14200278 Score: 210
Period size: 50 Copynumber: 3.3 Consensus size: 50
14200103 GCTAAATGAC
* * *
14200113 CTTGTATATTCAGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTATATTTG-AT
*
14200164 -TTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* ** * *
14200213 CTTGCATATTCGATCTTATAGGTAAGCACATATGTGATATTGTATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
*
14200263 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
14200279 AATGAGTGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 3 0.03
50 95 0.97
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:14207215 original size:50 final size:50
Alignment explanation
Indices: 14207155--14207320 Score: 210
Period size: 50 Copynumber: 3.3 Consensus size: 50
14207145 GCTAAATGAC
* *
14207155 CTTGTATATTCGGCCATGA-AGGTATGCACAAATGTGATAATATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACAAATGTGATATTATATTTG-AT
* *
14207206 -TTGTATATTCGGCCATATAGGTAAGCACACATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACAAATGTGATATTATATTTGAT
* * * * *
14207255 CTTGCATATTCGACCTTATAGGTAAGCACATATGTGATATTGTATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACAAATGTGATATTATATTTGAT
*
14207305 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
14207321 AATGAGTGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.03
50 96 0.97
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACAAATGTGATATTATATTTGAT
Found at i:14208309 original size:23 final size:22
Alignment explanation
Indices: 14208279--14208323 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
14208269 AAATTAAATC
14208279 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTA-AAAATCATATCT
*
14208302 TCTAAGATTAAATATCATATCT
1 TCTAAGATTAAAAATCATATCT
14208324 AAGATTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAGATTAAAAATCATATCT
Found at i:14208355 original size:17 final size:18
Alignment explanation
Indices: 14208314--14208373 Score: 95
Period size: 17 Copynumber: 3.3 Consensus size: 18
14208304 TAAGATTAAA
14208314 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
14208332 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
14208349 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
14208367 ATATCAT
1 -TATCAT
14208374 TGAAGATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.42
18 16 0.42
19 6 0.16
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:14208781 original size:45 final size:45
Alignment explanation
Indices: 14208732--14208998 Score: 249
Period size: 45 Copynumber: 5.9 Consensus size: 45
14208722 GATATCTGCT
* *
14208732 ATCTTTGATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
*
14208777 ATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTG-C
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
* * * * * *
14208821 TTCTTCAATCTGCTTCCCATCTAATACAGAGATGCCAAATCTGTT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
* * *
14208866 ATC-TCTGATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGTC
1 ATCTTC-GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
* * * * * * *
14208911 ATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAAATCTGTC
*
14208955 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 -A--TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
14208999 ATCTTGGATC
Statistics
Matches: 178, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.03
44 46 0.26
45 95 0.53
46 1 0.01
47 19 0.11
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (45 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
Found at i:14208890 original size:89 final size:90
Alignment explanation
Indices: 14208725--14208998 Score: 288
Period size: 89 Copynumber: 3.0 Consensus size: 90
14208715 GAAAGGCGAT
* * *
14208725 ATCTGCTATCTTTGATCTGC-TCTCCGTCTAATACAGAGACGCCAAATCTGTCATCT-TCGATCT
1 ATCTGCT-TCTTCGATCTGCTTC-CCATCTAATACAGAGACGCCAAATCTGTTATCTCTCGATCT
* *
14208788 ACTCCCCGTCTAATACAGAGACGCCAA
64 GCTCCCCGTCTAATACAGAGATGCCAA
* * *
14208815 ATCTGCTTCTTCAATCTGCTTCCCATCTAATACAGAGATGCCAAATCTGTTATCTCT-GATTTGC
1 ATCTGCTTCTTCGATCTGCTTCCCATCTAATACAGAGACGCCAAATCTGTTATCTCTCGATCTGC
*
14208879 TCCCCGTCTAATACAAAGATGCCAA
66 TCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * * *
14208904 ATCTGTCATCTTGGATCTGCTT-CGATGTAA-ACACATGAAGGTCAGATCTGCTATGTCTTCGAT
1 ATCTG-CTTCTTCGATCTGCTTCCCATCTAATACAGA-G-ACGCCAAATCTGTTATCTC-TCGAT
14208967 CTGCTCCCCGTCTAATACAGAGATGCCAA
62 CTGCTCCCCGTCTAATACAGAGATGCCAA
14208996 ATC
1 ATC
14208999 ATCTTGGATC
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
88 4 0.03
89 80 0.52
90 37 0.24
91 1 0.01
92 33 0.21
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTGCTTCTTCGATCTGCTTCCCATCTAATACAGAGACGCCAAATCTGTTATCTCTCGATCTGC
TCCCCGTCTAATACAGAGATGCCAA
Found at i:14209067 original size:78 final size:79
Alignment explanation
Indices: 14208938--14209153 Score: 294
Period size: 78 Copynumber: 2.8 Consensus size: 79
14208928 ATGTAAACAC
* *
14208938 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTACTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
14209002 TTGGATCTGCTTCA
66 TTGGATCTGCTTCA
* * *
14209016 ATGAAGGTCCA-ATCTATTATGCCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTACTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
14209080 TTGGATCTGCTTCA
66 TTGGATCTGCTTCA
* * * * * * **
14209094 ATGAAGGT-CAGATTTGCTATGTCTTCAATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCCAGATCTACTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
14209154 TTGTTTCTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
77 2 0.02
78 116 0.97
79 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (79 bp):
ATGAAGGTCCAGATCTACTATGCCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
TTGGATCTGCTTCA
Found at i:14219255 original size:17 final size:18
Alignment explanation
Indices: 14219223--14219257 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14219213 GATATGATAC
*
14219223 TAAAATTATTAAAAAAAT
1 TAAAATTATAAAAAAAAT
14219241 TAAAA-TATAAAAAAAAT
1 TAAAATTATAAAAAAAAT
14219258 CCGAGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATTATAAAAAAAAT
Found at i:14219565 original size:19 final size:19
Alignment explanation
Indices: 14219541--14219614 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
14219531 AATCATATAT
14219541 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14219560 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
14219578 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
14219597 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
14219615 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
18 17 0.33
19 35 0.67
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14219588 original size:37 final size:38
Alignment explanation
Indices: 14219534--14219614 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
14219524 ATTACAAAAT
14219534 CATAT-AT-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
*
14219570 CA-ATCATATCTAATATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
14219607 CATATCAT
1 CATATCAT
14219615 TGAAGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 2 0.05
36 4 0.10
37 30 0.73
38 5 0.12
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:14223477 original size:26 final size:27
Alignment explanation
Indices: 14223439--14223508 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 27
14223429 TTTTAATAAT
*
14223439 TGGGGCAAAAGCCCTTTTT-GGTAAAC
1 TGGGGCATAAGCCCTTTTTCGGTAAAC
*
14223465 TGGGGCATGAG-CCTTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTTCGGTAAAC
*
14223491 TAGGGCATAAGCCCTTTT
1 TGGGGCATAAGCCCTTTT
14223509 GCACTTCCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 7 0.18
26 25 0.66
27 6 0.16
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (27 bp):
TGGGGCATAAGCCCTTTTTCGGTAAAC
Found at i:14223583 original size:20 final size:20
Alignment explanation
Indices: 14223558--14223624 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
14223548 TTATGAATAC
14223558 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
14223578 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
14223598 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
14223618 ATCATGT
1 ATCATGT
14223625 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14223589 original size:11 final size:11
Alignment explanation
Indices: 14223558--14223613 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
14223548 TTATGAATAC
14223558 ATCATGTGCAT
1 ATCATGTGCAT
*
14223569 ATCA--TACAT
1 ATCATGTGCAT
14223578 ATCATGTGCAT
1 ATCATGTGCAT
*
14223589 ATC--GTACAT
1 ATCATGTGCAT
14223598 ATCATGTGCAT
1 ATCATGTGCAT
14223609 ATCAT
1 ATCAT
14223614 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:14230846 original size:36 final size:36
Alignment explanation
Indices: 14230760--14230847 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
14230750 GCTCTTGACT
* * *
14230760 GAGATATC-AGGTCTTCTCAATCCTAAGCTCCTGAAT
1 GAGATATCGA-GTCTTCTCAATCCCAAGATCCTGAAC
* *
14230796 GCA-ATATTGGGTCTTCTCAATCCCAAGATCCTGAAC
1 G-AGATATCGAGTCTTCTCAATCCCAAGATCCTGAAC
14230832 GAGATATCGAGTCTTC
1 GAGATATCGAGTCTTC
14230848 CCAAGCTCCT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.02
36 40 0.95
37 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (36 bp):
GAGATATCGAGTCTTCTCAATCCCAAGATCCTGAAC
Found at i:14230883 original size:30 final size:30
Alignment explanation
Indices: 14230816--14230884 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
14230806 GTCTTCTCAA
*
14230816 TCCCAAGATCCTGAACGAGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
14230846 TCCCAAGCTCCTGAACGAGATATC-AGGTCT
1 TCCCAAGCTCCTGAACGAGATATCGA-GTCT
14230876 TCCCAAGCT
1 TCCCAAGCT
14230885 GCTAAACACC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (30 bp):
TCCCAAGCTCCTGAACGAGATATCGAGTCT
Found at i:14232518 original size:11 final size:11
Alignment explanation
Indices: 14232502--14232526 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14232492 CAAATTATAT
14232502 ATTGACTAAAA
1 ATTGACTAAAA
14232513 ATTGACTAAAA
1 ATTGACTAAAA
14232524 ATT
1 ATT
14232527 TATATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (11 bp):
ATTGACTAAAA
Found at i:14234303 original size:21 final size:22
Alignment explanation
Indices: 14234268--14234312 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
14234258 ATGAAATCAT
* *
14234268 AAATTATAAATTTCAAAACTAA
1 AAATTATAAAATTCAAAACCAA
14234290 AAATT-TAAAATTCAAAACCAA
1 AAATTATAAAATTCAAAACCAA
14234311 AA
1 AA
14234313 TCAAATTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATTATAAAATTCAAAACCAA
Found at i:14237376 original size:67 final size:64
Alignment explanation
Indices: 14237279--14237495 Score: 172
Period size: 68 Copynumber: 3.3 Consensus size: 64
14237269 CCACCCACGT
* * * * * *
14237279 GACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACACAT
1 GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTG---TACACATAGAACCACACAT
14237343 GC
63 GC
* * *
14237345 GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGTATCACCCATGC
1 GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGAACCACACATGC
** * * *
14237409 GACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACAT-GATGTGCAC-TCAGCACCAT
1 GACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATAG-TGTACACAT-AGAACCAC
*
14237471 ACATGT
59 ACATGC
14237477 GACCTAGCTACATACTATC
1 GACCTAGCTACATA-TATC
14237496 TGTATCATCC
Statistics
Matches: 125, Mismatches: 17, Indels: 19
0.78 0.11 0.12
Matches are distributed among these distances:
64 29 0.23
65 4 0.03
66 10 0.08
67 33 0.26
68 48 0.38
69 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (64 bp):
GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGAACCACACATGC
Found at i:14238190 original size:30 final size:30
Alignment explanation
Indices: 14238156--14238216 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14238146 TCCTTAACTC
14238156 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
14238186 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
14238216 A
1 A
14238217 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:14243265 original size:13 final size:13
Alignment explanation
Indices: 14243244--14243283 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
14243234 GCTCAACAGG
*
14243244 GACATGCCCATGT
1 GACACGCCCATGT
14243257 GACACGCCCATGT
1 GACACGCCCATGT
*
14243270 GACACGCCCGTGT
1 GACACGCCCATGT
14243283 G
1 G
14243284 TGATTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:14246093 original size:648 final size:648
Alignment explanation
Indices: 14244858--14246140 Score: 2548
Period size: 648 Copynumber: 2.0 Consensus size: 648
14244848 TTTAGTTTGT
14244858 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
1 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
14244923 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
66 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
14244988 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
131 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
14245053 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
196 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
14245118 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
261 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
14245183 CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
326 CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
14245248 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
391 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
14245313 CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
456 CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
14245378 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
521 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
14245443 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAATAGGTTCTCTTAA
586 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAATAGGTTCTCTTAA
14245506 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
1 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
14245571 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
66 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
14245636 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
131 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
14245701 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
196 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
14245766 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
261 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
*
14245831 CAAAAATAGCATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
326 CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
14245896 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
391 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
*
14245961 CTAGTAAGACAATCTGTCTTGGTGAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
456 CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
14246026 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
521 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
14246091 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAA
586 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAA
14246141 AAGAAGGAAA
Statistics
Matches: 633, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
648 633 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (648 bp):
AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAATAGGTTCTCTTAA
Found at i:14249124 original size:34 final size:35
Alignment explanation
Indices: 14249081--14249150 Score: 133
Period size: 34 Copynumber: 2.0 Consensus size: 35
14249071 TTGTGGGAAA
14249081 GAATGGCACATCAAACCTCA-TATTCTAGGATGAT
1 GAATGGCACATCAAACCTCACTATTCTAGGATGAT
14249115 GAATGGCACATCAAACCTCACTATTCTAGGATGAT
1 GAATGGCACATCAAACCTCACTATTCTAGGATGAT
14249150 G
1 G
14249151 CTAAATTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 20 0.57
35 15 0.43
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (35 bp):
GAATGGCACATCAAACCTCACTATTCTAGGATGAT
Found at i:14258297 original size:30 final size:30
Alignment explanation
Indices: 14258263--14258323 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14258253 TCCTTAACTC
14258263 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
14258293 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
14258323 A
1 A
14258324 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:14262979 original size:9 final size:9
Alignment explanation
Indices: 14262967--14262991 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14262957 AAAATTATAA
14262967 AATTTTATT
1 AATTTTATT
14262976 AATTTTATT
1 AATTTTATT
14262985 AATTTTA
1 AATTTTA
14262992 GTGGATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AATTTTATT
Found at i:14265432 original size:7 final size:8
Alignment explanation
Indices: 14265413--14265461 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
14265403 AATAAAATTG
14265413 AATTATAA
1 AATTATAA
14265421 AATTAT-A
1 AATTATAA
14265428 AATTATAA
1 AATTATAA
14265436 AATTATAA
1 AATTATAA
*
14265444 AA-CA-AA
1 AATTATAA
14265450 AA-TATAA
1 AATTATAA
14265457 AATTA
1 AATTA
14265462 AAAGAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 5 0.14
7 12 0.33
8 19 0.53
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTATAA
Found at i:14265433 original size:15 final size:15
Alignment explanation
Indices: 14265413--14265444 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14265403 AATAAAATTG
14265413 AATTATAAAATTATA
1 AATTATAAAATTATA
14265428 AATTATAAAATTATA
1 AATTATAAAATTATA
14265443 AA
1 AA
14265445 ACAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAAAATTATA
Found at i:14265546 original size:10 final size:10
Alignment explanation
Indices: 14265531--14265560 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14265521 AAATTAAATA
14265531 TTATTTTTAT
1 TTATTTTTAT
14265541 TTA-TTTTAT
1 TTATTTTTAT
14265550 TTATTTTTAT
1 TTATTTTTAT
14265560 T
1 T
14265561 CAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:14268335 original size:28 final size:28
Alignment explanation
Indices: 14268295--14268352 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
14268285 TTAACTAGAA
14268295 GATTATTTCTCAAACTTGACAGAAATAG
1 GATTATTTCTCAAACTTGACAGAAATAG
*
14268323 GATTATTTCTCAAACTTGACTGAAATAG
1 GATTATTTCTCAAACTTGACAGAAATAG
14268351 GA
1 GA
14268353 GTCACATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (28 bp):
GATTATTTCTCAAACTTGACAGAAATAG
Found at i:14281584 original size:128 final size:128
Alignment explanation
Indices: 14281350--14281599 Score: 437
Period size: 128 Copynumber: 2.0 Consensus size: 128
14281340 CTGCAATACC
* *
14281350 AGTCATTTTCCAACCTCAACACCAATCAAAATTAGGCATTGAGGGATATTTTGGTCACATAAATT
1 AGTCATTGTCCAACCTCAACACCAATCAAAATTAGACATTGAGGGATATTTTGGTCACATAAATT
* *
14281415 GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCGAGAGAAATACATACTTTTACATAGCAGT
66 GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACATAGCAGT
* *
14281478 AGTCATTGTCCAACCTCAATACCAATCAATATTAGACATTGAGGGATATTTTGGTCACATAAATT
1 AGTCATTGTCCAACCTCAACACCAATCAAAATTAGACATTGAGGGATATTTTGGTCACATAAATT
*
14281543 GGGTTGTAATAGGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACAT
66 GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACAT
14281600 TCTTCAACTT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (128 bp):
AGTCATTGTCCAACCTCAACACCAATCAAAATTAGACATTGAGGGATATTTTGGTCACATAAATT
GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACATAGCAGT
Found at i:14285999 original size:108 final size:109
Alignment explanation
Indices: 14285855--14286114 Score: 249
Period size: 113 Copynumber: 2.3 Consensus size: 109
14285845 CAGTAGAAGG
** *
14285855 TTATTTTGAAAGGTAA-TTTTTTTAATCATTATTTATTTGTTTAAGGCTT-TAGT-TTACTTATT
1 TTATTTT-AAAGGTAATTTTTTTTTGTAATTA-TTATTTGTTT-AGGCTTCT-GTGTTACTTATT
* * * ** ** *
14285917 A-GTGTTTTATTTTGTGGTTTTGGGTGGAGAGGATGCAACAACAAATT
62 ATGTGTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAACAAATT
* * *
14285964 TTATTTTAAAGGTAATTTTTTTTTGTAATTGTTATTCACTTGTTTGGGGTTCTGTGTTACTTATT
1 TTATTTTAAAGGTAATTTTTTTTTGTAA---TTATT-ATTTGTTTAGGCTTCTGTGTTACTTATT
* *
14286029 ATTTGTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAATAAATT
62 ATGTGTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAACAAATT
* *
14286077 TTGTTTTGAAGGTAATTTTTTATTTGTAATTATTATTT
1 TTATTTTAAAGGTAATTTTTT-TTTGTAATTATTATTT
14286115 AGGGTTTAGG
Statistics
Matches: 123, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
108 8 0.07
109 16 0.13
110 3 0.02
111 13 0.11
112 21 0.17
113 55 0.45
114 7 0.06
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (109 bp):
TTATTTTAAAGGTAATTTTTTTTTGTAATTATTATTTGTTTAGGCTTCTGTGTTACTTATTATGT
GTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAACAAATT
Found at i:14288593 original size:6 final size:6
Alignment explanation
Indices: 14288585--14288622 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
14288575 GCTCAAGCTT
*
14288585 GAGCCT GAGCCC GAGCCC GAGCCC GAGCCC GAGCCC GA
1 GAGCCC GAGCCC GAGCCC GAGCCC GAGCCC GAGCCC GA
14288623 AAGATCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.45, G:0.34, T:0.03
Consensus pattern (6 bp):
GAGCCC
Found at i:14301874 original size:12 final size:12
Alignment explanation
Indices: 14301857--14301886 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14301847 TGCAAATGGA
14301857 TCATTTCCATTT
1 TCATTTCCATTT
14301869 TCATTTCCATTT
1 TCATTTCCATTT
*
14301881 CCATTT
1 TCATTT
14301887 TTGGAAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:14303959 original size:19 final size:19
Alignment explanation
Indices: 14303935--14303972 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14303925 AAGATACAAG
14303935 CATATCAATCCCACATTAA
1 CATATCAATCCCACATTAA
14303954 CATATCAATCCCACATTAA
1 CATATCAATCCCACATTAA
14303973 GGCAATGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CATATCAATCCCACATTAA
Found at i:14305341 original size:15 final size:16
Alignment explanation
Indices: 14305297--14305347 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
14305287 GAAAGATTGG
* *
14305297 TTTTATTTTCAATTAA
1 TTTTATTTTCATTTGA
14305313 TTTTA-TTTCATTTGA
1 TTTTATTTTCATTTGA
14305328 TTTTATTTTC-TTTGA
1 TTTTATTTTCATTTGA
*
14305343 ATTTA
1 TTTTA
14305348 CATATTTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTATTTTCATTTGA
Found at i:14310386 original size:10 final size:10
Alignment explanation
Indices: 14310359--14310408 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
14310349 TTAAATTCTA
14310359 AAAGATAAAT
1 AAAGATAAAT
*
14310369 ACAA-ATAATT
1 A-AAGATAAAT
*
14310379 AAAGATAATT
1 AAAGATAAAT
14310389 AAAGATAAAT
1 AAAGATAAAT
*
14310399 AAAAATAAAT
1 AAAGATAAAT
14310409 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14310459 original size:14 final size:13
Alignment explanation
Indices: 14310423--14310460 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14310413 AAATTTAAAT
14310423 CTAAATAATTATC
1 CTAAATAATTATC
*
14310436 CTTAATAATTATC
1 CTAAATAATTATC
14310449 CTAATATAATTA
1 CTAA-ATAATTA
14310461 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:14311534 original size:125 final size:124
Alignment explanation
Indices: 14311312--14311562 Score: 439
Period size: 125 Copynumber: 2.0 Consensus size: 124
14311302 CACACAACCT
* * *
14311312 TTTGACGCTAAATAGGATGACAACCCAAGCACCCTACCATGGTTACTCAGCTAGTCACGTCTTAA
1 TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCACGATTACTCAGCTAGTCACGTCTTAA
*
14311377 GCTGTACTCATAACCACGGAAACATTATTATTTTTAAATGAAATTTTAATTTTGGAGGAC
66 GCTGTACTCATAACCACGGAAACATTATTATTTTTAAACG-AATTTTAATTTTGGAGGAC
*
14311437 TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCCCGATTACTCAGCTAGTCACGTCTTAA
1 TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCACGATTACTCAGCTAGTCACGTCTTAA
*
14311502 GCTGTACTCATAACCACGGAAACATTATTATTTTTTAACGAATTTTAATTTTGGAGGAC
66 GCTGTACTCATAACCACGGAAACATTATTATTTTTAAACGAATTTTAATTTTGGAGGAC
14311561 TT
1 TT
14311563 AGGAGCAACA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
124 21 0.17
125 99 0.82
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (124 bp):
TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCACGATTACTCAGCTAGTCACGTCTTAA
GCTGTACTCATAACCACGGAAACATTATTATTTTTAAACGAATTTTAATTTTGGAGGAC
Found at i:14313911 original size:75 final size:75
Alignment explanation
Indices: 14313803--14313945 Score: 223
Period size: 75 Copynumber: 1.9 Consensus size: 75
14313793 CTAGGGAATT
* *
14313803 CTAGGGTAAGAACGCACTATTCTAGGCTGGAATAGGGATATAACAAAGACTGTTTGGCTGTAGGT
1 CTAGGGTAAGAACGCACTATTCTAGGCTAGAATAGGGATAGAACAAAGACTGTTTGGCTGTAGGT
14313868 TTTAGATATG
66 TTTAGATATG
* * * **
14313878 CTAGGGTAGGAATGCACTATTCTTGGCTAGAATAGGGATAGATTAAAGACTGTTTGGCTGTAGGT
1 CTAGGGTAAGAACGCACTATTCTAGGCTAGAATAGGGATAGAACAAAGACTGTTTGGCTGTAGGT
14313943 TTT
66 TTT
14313946 TTTTCCTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.31
Consensus pattern (75 bp):
CTAGGGTAAGAACGCACTATTCTAGGCTAGAATAGGGATAGAACAAAGACTGTTTGGCTGTAGGT
TTTAGATATG
Found at i:14314031 original size:5 final size:5
Alignment explanation
Indices: 14314021--14314074 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
14314011 TCAACATCCA
* *
14314021 AAAAT AAAAT AATAA- ATAAT AAAAT AAAGT AAAAT AAAAT -AAAT AAAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
14314071 AAAA
1 AAAA
14314075 ATTAAGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 6 0.15
5 29 0.71
6 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:14314043 original size:15 final size:14
Alignment explanation
Indices: 14314020--14314074 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 14
14314010 ATCAACATCC
14314020 AAAAATAAAATAAT
1 AAAAATAAAATAAT
14314034 AAATAATAAAATAA-
1 AAA-AATAAAATAAT
14314048 AGTAAAATAAAATAAAT
1 A--AAAATAAAAT-AAT
14314065 AAAAATAAAA
1 AAAAATAAAA
14314075 ATTAAGTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.11
15 27 0.75
16 4 0.11
17 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:14320314 original size:20 final size:21
Alignment explanation
Indices: 14320291--14320336 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14320281 TTATTAATAG
14320291 ATATTTATT-ATTAAAAAAAT
1 ATATTTATTAATTAAAAAAAT
* *
14320311 ATATTTATTAATTAAATAATT
1 ATATTTATTAATTAAAAAAAT
14320332 ATATT
1 ATATT
14320337 ATAAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTTATTAATTAAAAAAAT
Found at i:14321787 original size:17 final size:17
Alignment explanation
Indices: 14321744--14321790 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
14321734 CTGAATAGTG
*
14321744 GACTATTACTGAATTACT
1 GACTATTACTG-ATGACT
*
14321762 GATTATTACTGATGACT
1 GACTATTACTGATGACT
*
14321779 GACTGTTACTGA
1 GACTATTACTGA
14321791 AATGGATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (17 bp):
GACTATTACTGATGACT
Found at i:14323689 original size:10 final size:10
Alignment explanation
Indices: 14323670--14323729 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
14323660 TTAAATTCTA
14323670 AAAGATAAAT
1 AAAGATAAAT
14323680 ACAA-ATAAAT
1 A-AAGATAAAT
*
14323690 AAAGATAATT
1 AAAGATAAAT
14323700 AAAGATAAAT
1 AAAGATAAAT
14323710 AAAGATAAAT
1 AAAGATAAAT
*
14323720 AAAAATAAAT
1 AAAGATAAAT
14323730 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14323780 original size:14 final size:13
Alignment explanation
Indices: 14323744--14323781 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14323734 AAATTTAAAT
14323744 CTAAATAATTATC
1 CTAAATAATTATC
*
14323757 CTTAATAATTATC
1 CTAAATAATTATC
14323770 CTAATATAATTA
1 CTAA-ATAATTA
14323782 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:14325479 original size:71 final size:70
Alignment explanation
Indices: 14325301--14325487 Score: 207
Period size: 71 Copynumber: 2.7 Consensus size: 70
14325291 AGTTGGGCAG
* * *
14325301 CATCTATAATGACCAAGGTGGATT-ACTTACAAA-TTGCAACATCAACATGGAGAATAATGAAGT
1 CATCTATGATGACCAAGGTGGATTCA-TTACAAATTTGCAACATCAACATGGAGAACAACGAAGT
14325364 AGGTAA
65 AGGTAA
** * ** * * **
14325370 CATCCGTGATGACCAAAGTGGACCCATTATAAATTTTGCAAAATCAACATGGCTAACAACGAAGT
1 CATCTATGATGACCAAGGTGGATTCATTACAAA-TTTGCAACATCAACATGGAGAACAACGAAGT
*
14325435 AGGTGA
65 AGGTAA
*
14325441 CATCTATGATGACCAAGGTGGATTCATCACAAACTTTGCAACATCAA
1 CATCTATGATGACCAAGGTGGATTCATTACAAA-TTTGCAACATCAA
14325488 ATTGATAAGA
Statistics
Matches: 93, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
69 24 0.26
70 1 0.01
71 68 0.73
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (70 bp):
CATCTATGATGACCAAGGTGGATTCATTACAAATTTGCAACATCAACATGGAGAACAACGAAGTA
GGTAA
Found at i:14325558 original size:41 final size:41
Alignment explanation
Indices: 14325513--14325701 Score: 120
Period size: 41 Copynumber: 4.6 Consensus size: 41
14325503 ACTAGTTTCG
* *
14325513 AACTTTGCAAAACCAACATGGAG-AGAGATAGATCACTTCCA
1 AACTTTGCAAAACCAACATGGAGAAGAGA-AGATCAATTCAA
* *
14325554 AACTTTG-AAATACCAACATGGCGAAGGGAAGATCAATTCAA
1 AACTTTGCAAA-ACCAACATGGAGAAGAGAAGATCAATTCAA
* * * * * **
14325595 AACTCTACAACACCAACAT-GAAAAGAGGAGGA-CTAATTCCG
1 AACTTTGCAAAACCAACATGGAGAAGA-GAAGATC-AATTCAA
* * * * *
14325636 AACTCTGTAATACCAACATGGAGAAG-GAAAAATGAACTTC-A
1 AACTTTGCAAAACCAACATGGAGAAGAG-AAGATCAA-TTCAA
* *
14325677 AACTCTGCAACACCAACATGGAGAA
1 AACTTTGCAAAACCAACATGGAGAA
14325702 AGATAGAAGT
Statistics
Matches: 116, Mismatches: 23, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
40 9 0.08
41 93 0.80
42 14 0.12
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (41 bp):
AACTTTGCAAAACCAACATGGAGAAGAGAAGATCAATTCAA
Found at i:14325610 original size:82 final size:82
Alignment explanation
Indices: 14325524--14325708 Score: 205
Period size: 82 Copynumber: 2.3 Consensus size: 82
14325514 ACTTTGCAAA
* * * * *
14325524 ACCAACATGGAGAGAGATAGA-TCACTTCCAAACTTTGAAATACCAACATGGCGAAGGGAAGATC
1 ACCAACATGGAGAGAGATAGACT-AATTCCAAACTCTGAAATACCAACATGGAGAAGGAAAAATC
14325588 AA-TTCAAAACTCTACAAC
65 AACTTC-AAACTCTACAAC
* * * * * *
14325606 ACCAACATGAAAAGAGGA-GGACTAATTCCGAACTCTGTAATACCAACATGGAGAAGGAAAAATG
1 ACCAACATGGAGAGA-GATAGACTAATTCCAAACTCTGAAATACCAACATGGAGAAGGAAAAATC
*
14325670 AACTTCAAACTCTGCAAC
65 AACTTCAAACTCTACAAC
*
14325688 ACCAACATGGAGAAAGATAGA
1 ACCAACATGGAGAGAGATAGA
14325709 AGTTGTAATG
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
81 2 0.02
82 75 0.90
83 6 0.07
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (82 bp):
ACCAACATGGAGAGAGATAGACTAATTCCAAACTCTGAAATACCAACATGGAGAAGGAAAAATCA
ACTTCAAACTCTACAAC
Found at i:14328172 original size:45 final size:44
Alignment explanation
Indices: 14328066--14328278 Score: 162
Period size: 45 Copynumber: 4.7 Consensus size: 44
14328056 AAACTATTAG
* * * *
14328066 GATGTCATAGCGTCTTTCAGCTATGGTCTTAGTCTTGTTTACTAT
1 GATGCCATAGCATCTTTCAGC-ATGGTCTTACTCTTGTTTACCAT
* * * * * *
14328111 GATACTATAACGTCTTTCAGTCATGGTCTTAGTCTTGTTTACCGT
1 GATGCCATAGCATCTTTCAG-CATGGTCTTACTCTTGTTTACCAT
* * * *
14328156 GATGCCATAGCATCTTTCAATCATAG-CTGTACTCATT-TATATCAT
1 GATGCCATAGCATCTTTC-AGCATGGTCT-TACTC-TTGTTTACCAT
* * * *
14328201 GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATCTTTATCAT
1 GATGCCATAGCATCTTTCAGC-ATGGTCTTACTCTTGTTTACCAT
*
14328246 GATAG-TATAGCATCTTTCAGCCATGGTCTTACT
1 GAT-GCCATAGCATCTTTCAG-CATGGTCTTACT
14328279 TTTTTTATTT
Statistics
Matches: 137, Mismatches: 22, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
44 5 0.04
45 124 0.91
46 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (44 bp):
GATGCCATAGCATCTTTCAGCATGGTCTTACTCTTGTTTACCAT
Found at i:14330735 original size:14 final size:14
Alignment explanation
Indices: 14330703--14330729 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14330693 ATTTAATTAA
14330703 TGAAATGAAAAATG
1 TGAAATGAAAAATG
14330717 TGAAATGAAAAAT
1 TGAAATGAAAAAT
14330730 TAGAAAAATA
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:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
TGAAATGAAAAATG
Found at i:14331095 original size:6 final size:6
Alignment explanation
Indices: 14331079--14331133 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
14331069 TTTTCCCTCA
*
14331079 TTCTCTT TTCTTT TTCTTCT TT-TTT CTCTTTT CTTCTTT TTCTTT TTCTTT
1 TTCT-TT TTCTTT TTCTT-T TTCTTT TTC-TTT -TTCTTT TTCTTT TTCTTT
14331130 TTCT
1 TTCT
14331134 AGGCCTGCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.05
6 25 0.60
7 13 0.31
8 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:14331100 original size:9 final size:9
Alignment explanation
Indices: 14331086--14331122 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
14331076 TCATTCTCTT
14331086 TTCTTTTTC
1 TTCTTTTTC
14331095 TTC-TTTT-
1 TTCTTTTTC
14331102 TTCTCTTTTC
1 TTCT-TTTTC
14331112 TTCTTTTTC
1 TTCTTTTTC
14331121 TT
1 TT
14331123 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.12
8 4 0.16
9 14 0.56
10 4 0.16
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:14331109 original size:23 final size:22
Alignment explanation
Indices: 14331080--14331133 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
14331070 TTTCCCTCAT
14331080 TCTCTTTTCTT-TTTCTTCTTTTT
1 TCTCTTTTCTTCTTT-TTC-TTTT
14331103 TCTCTTTTCTTCTTTTTCTTTT
1 TCTCTTTTCTTCTTTTTCTTTT
14331125 TCT-TTTTCT
1 TCTCTTTTCT
14331134 AGGCCTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 14 0.47
24 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TCTCTTTTCTTCTTTTTCTTTT
Found at i:14335754 original size:8 final size:9
Alignment explanation
Indices: 14335741--14335802 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
14335731 TTTTAGGGTT
14335741 AGAAAAA-A
1 AGAAAAAGA
14335749 AGAAAAAGA
1 AGAAAAAGA
*
14335758 AGAATAAGA
1 AGAAAAAGA
14335767 AGAGGAAAAGA
1 AGA--AAAAGA
*
14335778 AGAAGAAGA
1 AGAAAAAGA
* *
14335787 AGGAGAAGA
1 AGAAAAAGA
*
14335796 GGAAAAA
1 AGAAAAA
14335803 TGGAGATGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
8 7 0.16
9 29 0.66
11 8 0.18
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:14335760 original size:3 final size:3
Alignment explanation
Indices: 14335748--14335795 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
14335738 GTTAGAAAAA
* * * *
14335748 AAG AAA AAG AAG AAT AAG AAG AGG AA- AAG AAG AAG AAG AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14335795 A
1 A
14335796 GGAAAAATGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:14335775 original size:26 final size:26
Alignment explanation
Indices: 14335746--14335801 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
14335736 GGGTTAGAAA
*
14335746 AAAAGAAAAAGAAGAATAAGAAGAGG
1 AAAAGAAAAAGAAGAAGAAGAAGAGG
* *
14335772 AAAAGAAGAAGAAGAAGGAGAAGAGG
1 AAAAGAAAAAGAAGAAGAAGAAGAGG
14335798 AAAA
1 AAAA
14335802 ATGGAGATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (26 bp):
AAAAGAAAAAGAAGAAGAAGAAGAGG
Found at i:14339677 original size:21 final size:21
Alignment explanation
Indices: 14339628--14339678 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14339618 GGCAGCCTGT
14339628 TGAGTTGGGGTACTCTCTTGC
1 TGAGTTGGGGTACTCTCTTGC
* * * *
14339649 TAATTTGGGGTAGTCTGTTGC
1 TGAGTTGGGGTACTCTCTTGC
14339670 TGAGTTGGG
1 TGAGTTGGG
14339679 ACACCAACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.37, T:0.39
Consensus pattern (21 bp):
TGAGTTGGGGTACTCTCTTGC
Found at i:14342556 original size:89 final size:89
Alignment explanation
Indices: 14342404--14342583 Score: 306
Period size: 89 Copynumber: 2.0 Consensus size: 89
14342394 AGGTAAATGA
* *
14342404 CAAATTTTGATTTTTCCACATACAATATAGCAGCTTGGATACAAACAATGGCAGATATACACAAC
1 CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGATATACACAAC
14342469 AAACATCAGTTTGATAATGGCATT
66 AAACATCAGTTTGATAATGGCATT
* *
14342493 CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGGTATGCACAAC
1 CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGATATACACAAC
* *
14342558 AAATATCATTTTGATAATGGCATT
66 AAACATCAGTTTGATAATGGCATT
14342582 CA
1 CA
14342584 TAAAATGGTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (89 bp):
CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGATATACACAAC
AAACATCAGTTTGATAATGGCATT
Found at i:14342709 original size:48 final size:48
Alignment explanation
Indices: 14342537--14342693 Score: 242
Period size: 48 Copynumber: 3.3 Consensus size: 48
14342527 TTGGATACAA
* * * * *
14342537 ACAATGCCAGGTATGCACAACAAATATCATTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
* * *
14342585 AAAATGGTAGATATACACAACAAACATCGGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
14342633 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
14342681 ACAATGGCAGATA
1 ACAATGGCAGATA
14342694 CAAATTATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (48 bp):
ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
Found at i:14342805 original size:6 final size:6
Alignment explanation
Indices: 14342791--14342842 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
14342781 GAGTGTTTCA
* *
14342791 AAATTG AAATCG AAATCG AAATCG AAATCG AAATCA AAATC- AGAATCG
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG A-AATCG
14342839 AAAT
1 AAAT
14342843 AACCCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 40 0.95
7 1 0.02
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (6 bp):
AAATCG
Found at i:14343312 original size:21 final size:21
Alignment explanation
Indices: 14343288--14343327 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14343278 AACATGGCAA
14343288 GTTAACTTGCCACATCAGCTC
1 GTTAACTTGCCACATCAGCTC
* *
14343309 GTTAACTTGCGACGTCAGC
1 GTTAACTTGCCACATCAGC
14343328 AGTCCCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTC
Found at i:14349297 original size:17 final size:18
Alignment explanation
Indices: 14349275--14349313 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
14349265 TTCAATAATG
*
14349275 TTAAATTT-AATTTTTTT
1 TTAAATTTAAATTGTTTT
14349292 TTAAATTTGAAATTGTTTT
1 TTAAATTT-AAATTGTTTT
14349311 TTA
1 TTA
14349314 TTGTGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTAAATTTAAATTGTTTT
Found at i:14356418 original size:26 final size:27
Alignment explanation
Indices: 14356389--14356455 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
14356379 AAGTGAGTCA
*
14356389 TATCGGGAAGCTCACGAAGAGCCA-AT
1 TATCGGGAAGCTCACAAAGAGCCATAT
14356415 TATCGGGAAGCTCACAAAGAGCCATAT
1 TATCGGGAAGCTCACAAAGAGCCATAT
*
14356442 AATCGGGAAGCTCA
1 TATCGGGAAGCTCA
14356456 TAAGAGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 23 0.61
27 15 0.39
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (27 bp):
TATCGGGAAGCTCACAAAGAGCCATAT
Found at i:14356533 original size:23 final size:23
Alignment explanation
Indices: 14356507--14356577 Score: 54
Period size: 25 Copynumber: 3.0 Consensus size: 23
14356497 CTATCCAGAC
14356507 GCTCCGAAGAGCTATAACGGGAA
1 GCTCCGAAGAGCTATAACGGGAA
* *
14356530 GCT-CGCAAGAACCATTATACGGGAA
1 GCTCCG-AAGAGCTA-TA-ACGGGAA
* * *
14356555 GCTCAGGAGAGATAATAACGGGA
1 GCTCCGAAGAGCT-ATAACGGGA
14356578 CACTATTTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
22 2 0.06
23 9 0.25
24 8 0.22
25 15 0.42
26 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.14
Consensus pattern (23 bp):
GCTCCGAAGAGCTATAACGGGAA
Found at i:14357219 original size:25 final size:25
Alignment explanation
Indices: 14357178--14357227 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14357168 CCTTTACAAA
*
14357178 AGTTGTTTACCTTTCAAAAACCTTT
1 AGTTGTTTACCTATCAAAAACCTTT
* *
14357203 AGTTGTTTATCTATCAACAACCTTT
1 AGTTGTTTACCTATCAAAAACCTTT
14357228 CATTTTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (25 bp):
AGTTGTTTACCTATCAAAAACCTTT
Found at i:14368218 original size:26 final size:26
Alignment explanation
Indices: 14368187--14368294 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
14368177 TGAAATGCCC
*
14368187 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14368213 ATCATGGATCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14368239 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14368265 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14368291 ATCA
1 ATCA
14368295 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14369762 original size:284 final size:284
Alignment explanation
Indices: 14369247--14369803 Score: 1051
Period size: 284 Copynumber: 2.0 Consensus size: 284
14369237 CAGTAAAATC
*
14369247 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTTAGAACTTTCTTCAACTTCTCAAAAG
1 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
14369312 CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
66 CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
14369377 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
131 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
* *
14369442 TTTTGACACTGTCCTAGGCGGATTCCACTCCAAAATCACTTCAATTTTCCAAGGGTCCACCTTAA
196 TTTTGACACTGACCTAGGCGGATTCCACTCCAAAATCACATCAATTTTCCAAGGGTCCACCTTAA
14369507 TCCCTTCGGCAGAACTTTCTTCAA
261 TCCCTTCGGCAGAACTTTCTTCAA
14369531 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
1 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
* *
14369596 CCTCCTGCTGGGTCTCATTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGTT
66 CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
14369661 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
131 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
* *
14369726 TTTTGACACTGACCTAGGCGGATTCCACTGCAAAATCACATCAATTTTCCGAGGGTCCACCTTAA
196 TTTTGACACTGACCTAGGCGGATTCCACTCCAAAATCACATCAATTTTCCAAGGGTCCACCTTAA
14369791 TCCCTTCGGCAGA
261 TCCCTTCGGCAGA
14369804 GACCACATGT
Statistics
Matches: 266, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
284 266 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (284 bp):
CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
TTTTGACACTGACCTAGGCGGATTCCACTCCAAAATCACATCAATTTTCCAAGGGTCCACCTTAA
TCCCTTCGGCAGAACTTTCTTCAA
Found at i:14374318 original size:26 final size:26
Alignment explanation
Indices: 14374287--14374446 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
14374277 TGAAATGCCC
*
14374287 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14374313 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14374339 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14374365 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14374391 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14374417 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14374443 ATCA
1 ATCA
14374447 ATTTGTATCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14374364 original size:52 final size:52
Alignment explanation
Indices: 14374287--14374446 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
14374277 TGAAATGCCC
* * *
14374287 ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
14374339 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
14374391 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
14374443 ATCA
1 ATCA
14374447 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:14377704 original size:40 final size:40
Alignment explanation
Indices: 14377667--14377892 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
14377657 GCTACTCGTT
* *
14377667 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
14377707 CAAATGCCTTCGGGACTTAACACGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14377747 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
14377787 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
14377827 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
14377868 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14377893 CATCATTCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 150 0.90
41 14 0.08
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14385681 original size:40 final size:40
Alignment explanation
Indices: 14385644--14385869 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
14385634 GCTACTCATT
* * *
14385644 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
14385684 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14385724 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
14385764 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
14385804 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
14385845 CAAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14385870 CATCATTCAA
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.89
41 15 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14389566 original size:30 final size:30
Alignment explanation
Indices: 14389530--14389589 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14389520 ATTTAATACG
* *
14389530 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
*
14389560 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
14389590 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACACTTTTGCCCCTA
Found at i:14403633 original size:27 final size:26
Alignment explanation
Indices: 14403574--14403635 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
14403564 CGAGTCATAT
14403574 CAGGAAGCTCACAAAGAGCCAATTAA
1 CAGGAAGCTCACAAAGAGCCAATTAA
*
14403600 CAGGAAGTTCACAAAGAGCCATATT-A
1 CAGGAAGCTCACAAAGAGCCA-ATTAA
14403626 CAGGGAAGCT
1 CA-GGAAGCT
14403636 TATAAGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
CAGGAAGCTCACAAAGAGCCAATTAA
Found at i:14404571 original size:17 final size:17
Alignment explanation
Indices: 14404549--14404582 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14404539 ACCCAATTAA
14404549 GCTTGCTTGAATTTCTT
1 GCTTGCTTGAATTTCTT
14404566 GCTTGCTTGAATTTCTT
1 GCTTGCTTGAATTTCTT
14404583 TCTCTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
GCTTGCTTGAATTTCTT
Found at i:14409257 original size:30 final size:30
Alignment explanation
Indices: 14409221--14409277 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14409211 CACGGATTGG
**
14409221 CACATGGGTGTGTGGCCAGCCCATGTGGAT
1 CACATGGGCATGTGGCCAGCCCATGTGGAT
* *
14409251 CACATGGGCATGTGGCCATCCCGTGTG
1 CACATGGGCATGTGGCCAGCCCATGTG
14409278 AAAATGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGGCCAGCCCATGTGGAT
Found at i:14411116 original size:5 final size:5
Alignment explanation
Indices: 14411106--14411178 Score: 51
Period size: 5 Copynumber: 14.2 Consensus size: 5
14411096 AAAATAAGTT
* * * *
14411106 AAATA AAATA AAATA AAATA AAA-C AACTA AAACA AAATTA AAAAA GAAGATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA-TA AAATA -AA-ATA
*
14411158 AAA-A TAATAA AAATA AAATA A
1 AAATA AAAT-A AAATA AAATA A
14411179 TAATCTCAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
4 5 0.10
5 33 0.63
6 12 0.23
7 2 0.04
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:14411273 original size:15 final size:14
Alignment explanation
Indices: 14411258--14411316 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
14411248 ATAGCAAAAT
14411258 AAAAATAAAAATAA
1 AAAAATAAAAATAA
* *
14411272 TAATATAAAAAATTAA
1 AAAAAT-AAAAA-TAA
14411288 AAAAATTAAAACATAA
1 AAAAA-TAAAA-ATAA
*
14411304 AAAATTAAAAATA
1 AAAAATAAAAATA
14411317 TAAGTATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.19
15 10 0.28
16 17 0.47
17 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAAAATAA
Done.