Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold643.1
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: 856865
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.33
Warning! 20449 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:602302 original size:19 final size:19
Alignment explanation
Indices: 602278--602317 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
602268 AAAAGTTAGT
*
602278 TACTAATCAAGTTGAAAGC
1 TACTAATCAAGCTGAAAGC
602297 TACTAATCAAGCTGAAAGC
1 TACTAATCAAGCTGAAAGC
602316 TA
1 TA
602318 GTACCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (19 bp):
TACTAATCAAGCTGAAAGC
Found at i:621115 original size:13 final size:13
Alignment explanation
Indices: 621097--621129 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
621087 ATAATTATAA
621097 ATTTATTTTTATT
1 ATTTATTTTTATT
*
621110 ATTTATTTTTTTT
1 ATTTATTTTTATT
621123 A-TTATTT
1 ATTTATTT
621130 GGGTTCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTTATTTTTATT
Found at i:621123 original size:16 final size:17
Alignment explanation
Indices: 621097--621129 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
621087 ATAATTATAA
621097 ATTTATTTTTATTATTT
1 ATTTATTTTTATTATTT
621114 ATTT-TTTTTATTATTT
1 ATTTATTTTTATTATTT
621130 GGGTTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTATTTTTATTATTT
Found at i:621754 original size:23 final size:22
Alignment explanation
Indices: 621728--621791 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
621718 GGCAACCTTT
621728 ATATATTTCATGAAAATTCA-AAA
1 ATATATTT-AT-AAAATTCATAAA
*
621751 ATATTATTTATAAATTTCATAAA
1 ATA-TATTTATAAAATTCATAAA
* *
621774 ATATTTTTAAAAAATTCA
1 ATATATTTATAAAATTCA
621792 CTCAACAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 19 0.54
23 11 0.31
24 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATATTTATAAAATTCATAAA
Found at i:621782 original size:22 final size:22
Alignment explanation
Indices: 621740--621791 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
621730 ATATTTCATG
*
621740 AAAATTCAAAAATATTATTTAT
1 AAAATTCAAAAATATTATTTAA
*
621762 AAATTTCATAAAATATT-TTTAA
1 AAAATTCA-AAAATATTATTTAA
621784 AAAATTCA
1 AAAATTCA
621792 CTCAACAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTCAAAAATATTATTTAA
Found at i:623268 original size:3 final size:3
Alignment explanation
Indices: 623262--623288 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
623252 ATTAAAACAT
623262 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
623289 GGAGCTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:632836 original size:17 final size:17
Alignment explanation
Indices: 632814--633212 Score: 190
Period size: 18 Copynumber: 22.9 Consensus size: 17
632804 TTTAAAAAAA
*
632814 ACGAAAGTTTTTGAAAC
1 ACGAAAATTTTTGAAAC
*
632831 ACGAAAAATTTTTAAAAAC
1 ACG-AAAATTTTT-GAAAC
632850 ACGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
*
632867 ACGAGAA-TTTT-AAA-
1 ACGAAAATTTTTGAAAC
* *
632881 ACGTAAAAAATTTTAAAAC
1 ACG--AAAATTTTTGAAAC
*
632900 ACGAAAATTTGTGAAAC
1 ACGAAAATTTTTGAAAC
* * * * *
632917 GCTAGAGTTGTTGAAAAC
1 ACGAAAATTTTTG-AAAC
632935 ACGAAAATTTTTAGAACAC
1 ACGAAAATTTTT-GAA-AC
* * * *
632954 ACAAAAAGTTATTGGATC
1 ACGAAAA-TTTTTGAAAC
* *
632972 ACCAGAATTTTTGAAAAC
1 ACGAAAATTTTTG-AAAC
632990 ACGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
633007 ACCG-AAATTTTTGAAAAC
1 A-CGAAAATTTTTG-AAAC
** ** *
633025 ACGAGGATTTTCAAAAT
1 ACGAAAATTTTTGAAAC
** * *
633042 ACGAATTTTTTTAAAAAT
1 ACGAAAATTTTT-GAAAC
*
633060 ACGAAAATTTTTAAAAAC
1 ACGAAAATTTTT-GAAAC
633078 AC-AGAAATTTTTG-AAC
1 ACGA-AAATTTTTGAAAC
* *
633094 ACGGGAATTTTTTGAAAC
1 AC-GAAAATTTTTGAAAC
* *
633112 ATG---ATTTTTTAAAC
1 ACGAAAATTTTTGAAAC
**
633126 GTGAAAATTTTTGAAAC
1 ACGAAAATTTTTGAAAC
633143 ACTG-AAA-TTTTGAAAAC
1 AC-GAAAATTTTTG-AAAC
*
633160 ACGAAGATTTTTTGAAAC
1 ACGAA-AATTTTTGAAAC
** * *
633178 ACTGGGATTTTTTGAAAAT
1 AC-GAAAATTTTTG-AAAC
*
633197 ACGAAAAATTTTGAAA
1 ACGAAAATTTTTGAAA
633213 AATAGAATTT
Statistics
Matches: 292, Mismatches: 60, Indels: 60
0.71 0.15 0.15
Matches are distributed among these distances:
14 14 0.05
15 3 0.01
16 18 0.06
17 100 0.34
18 121 0.41
19 32 0.11
20 4 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
ACGAAAATTTTTGAAAC
Found at i:632856 original size:18 final size:17
Alignment explanation
Indices: 632809--633171 Score: 166
Period size: 17 Copynumber: 21.0 Consensus size: 17
632799 AGAACTTTAA
* *
632809 AAAAAACGAAAGTTTTT
1 AAAACACGAAAATTTTT
*
632826 GAAACACGAAAAATTTTT
1 AAAACACG-AAAATTTTT
632844 AAAAACACGAAAATTTTT
1 -AAAACACGAAAATTTTT
* *
632862 GAAACACGAGAA-TTTT
1 AAAACACGAAAATTTTT
*** *
632878 AAAACGTAAAAAATTTT
1 AAAACACGAAAATTTTT
*
632895 AAAACACGAAAATTTGT
1 AAAACACGAAAATTTTT
* * * * * *
632912 GAAACGCTAGAGTTGTTG
1 AAAACACGAAAATT-TTT
632930 AAAACACGAAAATTTTT
1 AAAACACGAAAATTTTT
* *
632947 AGAACACACAAAAAGTTATT
1 A-AA-ACACGAAAA-TTTTT
** * * *
632967 GGATCACCAGAATTTTT
1 AAAACACGAAAATTTTT
632984 GAAAACACGAAAATTTTT
1 -AAAACACGAAAATTTTT
*
633002 GAAACACCG-AAATTTTT
1 AAAACA-CGAAAATTTTT
** *
633019 GAAAACACGAGGATTTTC
1 -AAAACACGAAAATTTTT
* **
633037 AAAATACGAATTTTTTT
1 AAAACACGAAAATTTTT
*
633054 AAAAATACGAAAATTTTT
1 -AAAACACGAAAATTTTT
633072 AAAAACAC-AGAAATTTTT
1 -AAAACACGA-AAATTTTT
* * *
633090 -GAACACGGGAATTTTTT
1 AAAACAC-GAAAATTTTT
* *
633107 GAAACATG---ATTTTT
1 AAAACACGAAAATTTTT
* **
633121 TAAACGTGAAAATTTTT
1 AAAACACGAAAATTTTT
* *
633138 GAAACACTG-AAATTTTG
1 AAAACAC-GAAAATTTTT
*
633155 AAAACACGAAGATTTTT
1 AAAACACGAAAATTTTT
633172 TGAAACACTG
Statistics
Matches: 255, Mismatches: 70, Indels: 42
0.69 0.19 0.11
Matches are distributed among these distances:
14 11 0.04
16 17 0.07
17 113 0.44
18 94 0.37
19 16 0.06
20 4 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (17 bp):
AAAACACGAAAATTTTT
Found at i:632876 original size:35 final size:34
Alignment explanation
Indices: 632771--633212 Score: 206
Period size: 35 Copynumber: 12.8 Consensus size: 34
632761 GAGATTTTTT
*
632771 TTTTCTAAAACACGAGAA-TTTTGAAACA--AGAA
1 TTTT-TAAAACACGAAAATTTTTGAAACACGAGAA
** * * *
632803 CTTTAAAAAAAACGAAAGTTTTTGAAACACGAAAAA
1 -TTTTTAAAACACGAAAATTTTTGAAACACG-AGAA
632839 TTTTTAAAAACACGAAAATTTTTGAAACACGAGAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGAA
*** * * *
632874 -TTTTAAAACGTAAAAAATTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTTGAAACACGAGAA
* * * * * * * *
632907 TTTGTGAAACGCTAGAGTTGTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTTG-AAACACGAGAA
* * * * *
632942 TTTTTAGAACACACAAAAAGTTATTGGATCACCAGAA
1 TTTTTA-AA-ACACGAAAA-TTTTTGAAACACGAGAA
632979 TTTTTGAAAACACGAAAATTTTTGAAACACCGA-AA
1 TTTTT-AAAACACGAAAATTTTTGAAACA-CGAGAA
** ** * *
633014 TTTTTGAAAACACGAGGATTTTCAAAATACGA-ATT
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAGA-A
* *
633049 TTTTTAAAAATACGAAAATTTTTAAAAACAC-AGAAA
1 TTTTT-AAAACACGAAAATTTTT-GAAACACGAG-AA
* * * *
633085 TTTTT-GAACACGGGAATTTTTTGAAACA--TG-A
1 TTTTTAAAACAC-GAAAATTTTTGAAACACGAGAA
* **
633116 TTTTTTAAACGTGAAAATTTTTGAAACACTGA-AA
1 TTTTTAAAACACGAAAATTTTTGAAACAC-GAGAA
* * * *
633150 TTTTGAAAACACGAAGATTTTTTGAAACACTGGGAT
1 TTTTTAAAACACGAA-AATTTTTGAAACAC-GAGAA
* *
633186 TTTTTGAAAATACGAAAAATTTTGAAA
1 TTTTT-AAAACACGAAAATTTTTGAAA
633213 AATAGAATTT
Statistics
Matches: 306, Mismatches: 78, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
31 20 0.07
32 12 0.04
33 37 0.12
34 42 0.14
35 97 0.32
36 63 0.21
37 29 0.09
38 6 0.02
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTGAAACACGAGAA
Found at i:633242 original size:35 final size:36
Alignment explanation
Indices: 633185--633261 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 36
633175 AACACTGGGA
* ** *
633185 TTTTTTGAAAATACGAAAAATTTTGAAAAATAGAAT
1 TTTTTTGAAAACACGAAAAATTTAAAAAAACAGAAT
* * *
633221 TTTTTTGAAAACATG-ATAATTTAAAAAAACGGAAT
1 TTTTTTGAAAACACGAAAAATTTAAAAAAACAGAAT
633256 TTTTTT
1 TTTTTT
633262 TTCCTATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 21 0.62
36 13 0.38
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.40
Consensus pattern (36 bp):
TTTTTTGAAAACACGAAAAATTTAAAAAAACAGAAT
Found at i:633501 original size:17 final size:17
Alignment explanation
Indices: 633452--633862 Score: 181
Period size: 17 Copynumber: 23.5 Consensus size: 17
633442 ACGACTATAT
* *
633452 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
***
633469 -TTTTAAAACTTAAAAA
1 TTTTTAAAACACGAAAA
633485 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * * * *
633502 -TTTGAGAAACGCTAGAG
1 TTTTTA-AAACACGAAAA
*
633519 TTGTTGAAAACACGAAAA
1 TT-TTTAAAACACGAAAA
*
633537 TTTGTGAAAACACGAAAA
1 TTT-TTAAAACACGAAAA
*
633555 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
633572 TGTTTAGAACACACAAAAA
1 TTTTTA-AA-ACACGAAAA
* ** * *
633591 GTTATTGGATCACCG-GAA
1 -TTTTTAAAACA-CGAAAA
633609 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
633627 -TTTTGAAACACCG-AAT
1 TTTTTAAAACA-CGAAAA
*
633643 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
* **
633661 TTTTTAAAATACGAATT
1 TTTTTAAAACACGAAAA
*
633678 TTTTTAAAAATACGAAAA
1 TTTTT-AAAACACGAAAA
633696 TTTTTAAAAACAC-AGAAA
1 TTTTT-AAAACACGA-AAA
* * *
633714 TTTTT-GAACACGGGAAT
1 TTTTTAAAACAC-GAAAA
* **
633731 TTTTTAAAACATG-ATT
1 TTTTTAAAACACGAAAA
* **
633747 TTTTTTAAACGTGAAAA
1 TTTTTAAAACACGAAAA
* *
633764 TTTTTGAAACACTAAAA
1 TTTTTAAAACACGAAAA
* *
633781 TTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAA
*
633798 TTTTTAAAAGCACGAAGAT
1 TTTTTAAAA-CACGAA-AA
* ** *
633817 TTTTTGAAACACTGGGAT
1 TTTTTAAAACAC-GAAAA
633835 TTTTTGAAAACACGAAAAA
1 TTTTT-AAAACACG-AAAA
*
633854 TTTTGAAAA
1 TTTTTAAAA
633863 ATAGAATTTT
Statistics
Matches: 293, Mismatches: 75, Indels: 51
0.70 0.18 0.12
Matches are distributed among these distances:
16 40 0.14
17 112 0.38
18 104 0.35
19 34 0.12
20 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:633544 original size:18 final size:18
Alignment explanation
Indices: 633430--633862 Score: 226
Period size: 18 Copynumber: 24.6 Consensus size: 18
633420 TTGTTGCCTT
633430 ATTTTTGAAAACACGACTATA
1 ATTTTTGAAAACACGA--A-A
* *
633451 TTTTTTG-AAACACGAGA
1 ATTTTTGAAAACACGAAA
***
633468 A-TTTT-AAAACTTAAAA
1 ATTTTTGAAAACACGAAA
633484 ATTTTT-AAAACACGAAA
1 ATTTTTGAAAACACGAAA
* * *
633501 A--TTTGAGAAACGCTAGA
1 ATTTTTGA-AAACACGAAA
* *
633518 GTTGTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
*
633536 ATTTGTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
633554 ATTTTTG-AAACACGAAA
1 ATTTTTGAAAACACGAAA
* * *
633571 ATGTTTAGAACACACAAAA
1 AT-TTTTGAAAACACGAAA
* * * *
633590 AGTTATTG-GATCACCG-GA
1 A-TTTTTGAAAACA-CGAAA
633608 ATTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
633626 A-TTTTG-AAACACCG-AA
1 ATTTTTGAAAACA-CGAAA
* *
633642 TTTTTTGAAAACACGAGA
1 ATTTTTGAAAACACGAAA
* *
633660 ATTTTT-AAAATACGAAT
1 ATTTTTGAAAACACGAAA
* * *
633677 TTTTTTAAAAATACGAAA
1 ATTTTTGAAAACACGAAA
*
633695 ATTTTTAAAAACAC-AGAA
1 ATTTTTGAAAACACGA-AA
**
633713 ATTTTTG--AACACGGGA
1 ATTTTTGAAAACACGAAA
* *
633729 ATTTTTTAAAACATG--A
1 ATTTTTGAAAACACGAAA
* ** **
633745 TTTTTTTTAAACGTGAAA
1 ATTTTTGAAAACACGAAA
*
633763 ATTTTTG-AAACACTAAA
1 ATTTTTGAAAACACGAAA
*
633780 A-TTTTGAAAACACGAAG
1 ATTTTTGAAAACACGAAA
633797 ATTTTT-AAAAGCACGAAGA
1 ATTTTTGAAAA-CACGAA-A
* **
633816 TTTTTTG-AAACACTGGGA
1 ATTTTTGAAAACAC-GAAA
*
633834 TTTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
*
633852 AATTTTGAAAA
1 ATTTTTGAAAA
633863 ATAGAATTTT
Statistics
Matches: 313, Mismatches: 69, Indels: 63
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.01
16 49 0.16
17 89 0.28
18 125 0.40
19 32 0.10
20 9 0.03
21 6 0.02
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:633801 original size:34 final size:34
Alignment explanation
Indices: 633432--633862 Score: 210
Period size: 34 Copynumber: 12.3 Consensus size: 34
633422 GTTGCCTTAT
* *
633432 TTTTGAAAACACGACTATATTTTTTGAAACACGAGAA
1 TTTTGAAAACACGA--A-AATTTTTGAAACACGAAAA
*** *
633469 TTTT-AAAACTTAAAAATTTTTAAAACACGAAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* * * * *
633502 -TTTGAGAAACGCTAGAGTTGTTGAAAACACGAAAA
1 TTTTGA-AAACACGAAAATTTTTG-AAACACGAAAA
633537 TTTGTGAAAACACGAAAATTTTTGAAACACGAAAA
1 TTT-TGAAAACACGAAAATTTTTGAAACACGAAAA
* * * * * * *
633572 TGTTTAGAACACACAAAAAGTTATTGGATCACCGGAAT
1 T-TTT-GAAAACACGAAAA-TTTTTGAAACA-CGAAAA
**
633610 TTTTGAAAACACGAAAA-TTTTGAAACACCGAATT
1 TTTTGAAAACACGAAAATTTTTGAAACA-CGAAAA
* * * **
633644 TTTTGAAAACACGAGAATTTTTAAAATACGAATTT
1 TTTTGAAAACACGAAAATTTTTGAAACACGAA-AA
* * * *
633679 TTTTAAAAATACGAAAATTTTTAAAAACACAGAAAT
1 TTTTGAAAACACGAAAATTTTT-GAAACAC-GAAAA
* * * * **
633715 TTTTG--AACACGGGAATTTTTTAAAACATG-ATT
1 TTTTGAAAACAC-GAAAATTTTTGAAACACGAAAA
** ** *
633747 TTTTTTAAACGTGAAAATTTTTGAAACACTAAAA
1 TTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* * *
633781 TTTTGAAAACACGAAGATTTTTAAAAGCACGAAGATT
1 TTTTGAAAACACGAAAATTTTTGAAA-CACGAA-A-A
** *
633818 TTTTG-AAACACTGGGATTTTTTGAAAACACGAAAAA
1 TTTTGAAAACAC-GAAAATTTTTG-AAACACG-AAAA
633854 TTTTGAAAA
1 TTTTGAAAA
633863 ATAGAATTTT
Statistics
Matches: 300, Mismatches: 70, Indels: 48
0.72 0.17 0.11
Matches are distributed among these distances:
32 9 0.03
33 31 0.10
34 77 0.26
35 66 0.22
36 67 0.22
37 40 0.13
38 10 0.03
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:633875 original size:18 final size:20
Alignment explanation
Indices: 633854--633890 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
633844 ACACGAAAAA
633854 TTTTGAAAA-AT-AGAATTT
1 TTTTGAAAACATGAGAATTT
633872 TTTTGAAAACATGAGAATT
1 TTTTGAAAACATGAGAATT
633891 AAAAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTTGAAAACATGAGAATTT
Found at i:634043 original size:648 final size:629
Alignment explanation
Indices: 632895--634120 Score: 2001
Period size: 648 Copynumber: 1.9 Consensus size: 629
632885 AAAAAATTTT
* * * * *
632895 AAAACACGAAAATTTGTGAAACGCTAGAGTTGTTGAAAACACGAAAATTTTTAGAACACACAAAA
1 AAAACACGAAAATTTGTGAAACACGAAAATTGTTGAAAACACGAAAATGTTTAGAACACACAAAA
632960 AGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAAC
66 AGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAAC
*
633025 ACGAGGATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTTT
131 ACGAGAATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTTT
*
633090 GAACACGGGAATTTTTTGAAACATGATTTTTTAAACGTGAAAATTTTTGAAACACTGAAATTTTG
196 GAACACGGGAATTTTTTAAAACATGATTTTTTAAACGTGAAAATTTTTGAAACACTGAAATTTTG
*
633155 AAAACACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAATACGAAAAATTTTGAAAAATAGAA
261 AAAACACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACACGAAAAATTTTGAAAAATAGAA
* * *
633220 TTTTTTTGAAAACATGATAATTTAAAAAAACGGAATTTTTTTTTCCTATTTTGCTAAAACACGAA
326 TTTTTTTGAAAACATGAGAATTAAAAAAAACGGAA-TTGTTTTTCCTATTTTGCTAAAACACGAA
633285 TATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTCGATTTTTTATTAAGCACATAT
390 TATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTCGATTTTTTATTAAGCACATAT
*
633350 CGTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATGAAATCAACGAATTAGTGTCAAA
455 CGTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATGAAATCAACGAATTAGTATCAAA
* *
633415 TCAATTTGTTGCCTTATTTTTGAAAACACGACTATATTTTTTGAAACACGAGAATTTTAAAACTT
520 TCAATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTGAAACACGAGAATTTTAAAACTT
633480 AAAAATTTTTAAAACACGAAAATTTGAGAAACGCTAGAGTTGTTG
585 AAAAATTTTTAAAACACGAAAATTTGAGAAACGCTAGAGTTGTTG
*
633525 AAAACACGAAAATTTGTGAAAACACGAAAATTTTTG-AAACACGAAAATGTTTAGAACACACAAA
1 AAAACACGAAAATTTGTG-AAACACGAAAATTGTTGAAAACACGAAAATGTTTAGAACACACAAA
* *
633589 AAGTTATTGGATCACCGGAATTTTTGAAAACACGAAAA-TTTTGAAACACCGAATTTTTTGAAAA
65 AAGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAA
*
633653 CACGAGAATTTTTAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTT
130 CACGAGAATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTT
633718 TGAACACGGGAATTTTTTAAAACATGATTTTTTTTAAACGTGAAAATTTTTGAAACACTAAAATT
195 TGAACACGGGAATTTTTTAAAACATGA--TTTTTTAAACGTGAAAATTTTTGAAACAC-------
*
633783 TTGAAAACACGAAGATTTTTAAAAGCACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACAC
251 -T--------GAA-ATTTTGAAAA-CACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACAC
*
633848 GAAAAATTTTGAAAAATAGAATTTTTTTGAAAACATGAGAATTAAAAAAAAACTGAA-TGTTTTT
305 GAAAAATTTTGAAAAATAGAATTTTTTTGAAAACATGAGAATT-AAAAAAAACGGAATTGTTTTT
633912 CCTATTTTGCTAAAACACGAATATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTC
369 CCTATTTTGCTAAAACACGAATATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTC
* *
633977 GATTTTTTATTTAA-CACGTATCGTATTTGACACAAACCGGTGATATTCACTCAACATAGTAATG
434 GATTTTTTA-TTAAGCACATATCGTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATG
*
634041 AAATCAACGAATTAGTATCAAATCGATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTG
498 AAATCAACGAATTAGTATCAAATCAATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTG
634106 AAACACGAGAATTTT
563 AAACACGAGAATTTT
634121 TTTTGAAGAC
Statistics
Matches: 550, Mismatches: 23, Indels: 28
0.92 0.04 0.05
Matches are distributed among these distances:
629 114 0.21
630 82 0.15
631 41 0.07
639 1 0.00
647 3 0.01
648 213 0.39
649 85 0.15
650 11 0.02
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (629 bp):
AAAACACGAAAATTTGTGAAACACGAAAATTGTTGAAAACACGAAAATGTTTAGAACACACAAAA
AGTTATTGGATCACCAGAATTTTTGAAAACACGAAAATTTTTGAAACACCGAAATTTTTGAAAAC
ACGAGAATTTTCAAAATACGAATTTTTTTAAAAATACGAAAATTTTTAAAAACACAGAAATTTTT
GAACACGGGAATTTTTTAAAACATGATTTTTTAAACGTGAAAATTTTTGAAACACTGAAATTTTG
AAAACACGAAGATTTTTTGAAACACTGGGATTTTTTGAAAACACGAAAAATTTTGAAAAATAGAA
TTTTTTTGAAAACATGAGAATTAAAAAAAACGGAATTGTTTTTCCTATTTTGCTAAAACACGAAT
ATTTTTGAAACCACGGAAAGATTTTTTTTTACACAAACTTTTCGATTTTTTATTAAGCACATATC
GTATTTGACACAAACCGGTGATATTCACTCAACATAGCAATGAAATCAACGAATTAGTATCAAAT
CAATTCGTTGCCTTATTTTTAAAAACACGACTATATTTTTTGAAACACGAGAATTTTAAAACTTA
AAAATTTTTAAAACACGAAAATTTGAGAAACGCTAGAGTTGTTG
Found at i:634511 original size:8 final size:8
Alignment explanation
Indices: 634498--634548 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
634488 ATTGATCCCC
634498 TTTTTCTT
1 TTTTTCTT
634506 TTTTTCTTT
1 TTTTTC-TT
*
634515 TTTTTATCT
1 TTTTTCT-T
634524 TTTTTCTT
1 TTTTTCTT
*
634532 TCTTTCTT
1 TTTTTCTT
*
634540 CTTTTCTT
1 TTTTTCTT
634548 T
1 T
634549 CTCTTCTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 21 0.60
9 14 0.40
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:634524 original size:11 final size:10
Alignment explanation
Indices: 634504--634548 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 10
634494 CCCCTTTTTC
634504 TTTTTTTCTT
1 TTTTTTTCTT
634514 TTTTTTATCTT
1 TTTTTT-TCTT
634525 TTTTCTTTCTT
1 TTTT-TTTCTT
634536 TCTTCTTTTCTT
1 T-TT-TTTTCTT
634548 T
1 T
634549 CTCTTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.19
11 13 0.42
12 11 0.35
13 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:634536 original size:22 final size:21
Alignment explanation
Indices: 634504--634565 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 21
634494 CCCCTTTTTC
634504 TTTT-TTTCTTTTTTTTATCTT
1 TTTTCTTTCTTTTTTTT-TCTT
634525 TTTTCTTTCTTTCTTCTTTTCTT
1 TTTTCTTTCTTT-TT-TTTTCTT
634548 TCTCTTCTCTTCTTTTTT
1 T-T-TTCT-TTCTTTTTT
634566 GGGCCTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.11
22 7 0.20
23 7 0.20
24 5 0.14
25 6 0.17
26 6 0.17
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTTTCTT
Found at i:634542 original size:18 final size:18
Alignment explanation
Indices: 634505--634565 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
634495 CCCTTTTTCT
*
634505 TTTTTTCTTT-TTTTTATC
1 TTTTTTCTTTCTTTCT-TC
634523 TTTTTTCTTTCTTTCTTC
1 TTTTTTCTTTCTTTCTTC
*
634541 TTTTCTT-TCTCTTCTCTTC
1 TTTT-TTCTTTCTT-TCTTC
634560 TTTTTT
1 TTTTTT
634566 GGGCCTGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTCTTTCTTC
Found at i:634553 original size:11 final size:12
Alignment explanation
Indices: 634500--634550 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
634490 TGATCCCCTT
*
634500 TTTCTTTTTTTC
1 TTTCTTCTTTTC
634512 TTT-TT-TTTATC
1 TTTCTTCTTT-TC
*
634523 TTTTTTC-TTTC
1 TTTCTTCTTTTC
634534 TTTCTTCTTTTC
1 TTTCTTCTTTTC
634546 TTTCT
1 TTTCT
634551 CTTCTCTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.09
11 15 0.44
12 16 0.47
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTCTTTTC
Found at i:634558 original size:16 final size:16
Alignment explanation
Indices: 634509--634555 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
634499 TTTTCTTTTT
*
634509 TTCTTTT-TTT-TATC
1 TTCTTTTCTTTCTTTC
634523 TT-TTTTCTTTCTTTC
1 TTCTTTTCTTTCTTTC
634538 TTCTTTTCTTTCTCTTC
1 TTCTTTTCTTTCT-TTC
634555 T
1 T
634556 CTTCTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.14
14 5 0.18
15 5 0.18
16 10 0.36
17 4 0.14
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTCTTTCTTTC
Found at i:634775 original size:32 final size:32
Alignment explanation
Indices: 634731--634792 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
634721 TTTTCTTCCC
*
634731 CTTTCTTTTCCTTCTTTCTTTCTTT-TTTCAG
1 CTTTCTTTTCCTTCTTTCTTCCTTTCTTTCAG
*
634762 CTTTCTTTATCCTTTTTTCTTCCTTTCTTTC
1 CTTTCTTT-TCCTTCTTTCTTCCTTTCTTTC
634793 TTCCCCGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 8 0.30
32 15 0.56
33 4 0.15
ACGTcount: A:0.03, C:0.27, G:0.02, T:0.68
Consensus pattern (32 bp):
CTTTCTTTTCCTTCTTTCTTCCTTTCTTTCAG
Found at i:634921 original size:25 final size:24
Alignment explanation
Indices: 634890--634953 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 24
634880 TTCCCTTTCC
634890 CTCTTTTTCTTTTTTTATT-CTTTG
1 CTCTTTTTCTTTTTTTATTGC-TTG
*
634914 CTCTTTTTTCTTTTTTTTTTGCTTG
1 CTC-TTTTTCTTTTTTTATTGCTTG
634939 CTCTTTTTCTTTTTT
1 CTCTTTTTCTTTTTT
634954 CTTGCCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 15 0.41
25 21 0.57
26 1 0.03
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (24 bp):
CTCTTTTTCTTTTTTTATTGCTTG
Found at i:634945 original size:18 final size:20
Alignment explanation
Indices: 634922--634963 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
634912 TGCTCTTTTT
634922 TCTTTTT-TTTTTGCTTG-C
1 TCTTTTTCTTTTTGCTTGCC
*
634940 TCTTTTTCTTTTTTCTTGCC
1 TCTTTTTCTTTTTGCTTGCC
634960 TCTT
1 TCTT
634964 GGTTGTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.71
Consensus pattern (20 bp):
TCTTTTTCTTTTTGCTTGCC
Found at i:635455 original size:59 final size:60
Alignment explanation
Indices: 635309--635462 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 60
635299 GGTCGAAACA
* * * * * *
635309 TAATTTT-GATAAAGTTTAGGAG-TCAAATGTAATTTCGAGAAAGTTTCAGGGTTAAAATG
1 TAATTTTAGA-AAAGTTTAGGAGTTAAAATGTAATTTTGAGAAAATATAAGGGTCAAAATG
* *
635368 TAA-TTTAGAAAAGTTTAGGGGTTTAAATGTAATTTTGA-AAAATATAAGGGTCAAAATG
1 TAATTTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGAGAAAATATAAGGGTCAAAATG
*
635426 TAATTTTAGAAAAGTTTAGGAGTTAAAATGCAATTTT
1 TAATTTTAGAAAAGTTTAGGAGTTAAAATGTAATTTT
635463 TTTAAAAAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 33 0.40
59 49 0.60
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (60 bp):
TAATTTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGAGAAAATATAAGGGTCAAAATG
Found at i:635462 original size:30 final size:28
Alignment explanation
Indices: 635309--635462 Score: 157
Period size: 29 Copynumber: 5.2 Consensus size: 28
635299 GGTCGAAACA
*
635309 TAATTTTGATAAAGTTTAGGAG-TCAAATG
1 TAATTTTGA-AAAGTTTAGG-GTTAAAATG
*
635338 TAATTTCGAGAAAGTTTCAGGGTTAAAATG
1 TAATTTTGA-AAAGTTT-AGGGTTAAAATG
* *
635368 TAATTTAGAAAAGTTTAGGGGTTTAAATG
1 TAATTTTGAAAAGTTTA-GGGTTAAAATG
* * *
635397 TAATTTTGAAAAATATAAGGGTCAAAATG
1 TAATTTTGAAAAGT-TTAGGGTTAAAATG
635426 TAATTTTAGAAAAGTTTAGGAGTTAAAATG
1 TAATTTT-GAAAAGTTTAGG-GTTAAAATG
*
635456 CAATTTT
1 TAATTTT
635463 TTTAAAAAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.01
29 65 0.62
30 39 0.37
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (28 bp):
TAATTTTGAAAAGTTTAGGGTTAAAATG
Found at i:642316 original size:10 final size:11
Alignment explanation
Indices: 642290--642315 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
642280 AAAAAATAAA
642290 AAAAATATTTT
1 AAAAATATTTT
642301 AAAAATATTTT
1 AAAAATATTTT
642312 AAAA
1 AAAA
642316 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:644718 original size:23 final size:21
Alignment explanation
Indices: 644652--644761 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 21
644642 TATGATCAGT
*
644652 ATACGACACAT-AAGTGTCTG
1 ATACGACACATAAAGTGCCTG
* * * *
644672 AAACGACATACAAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
644693 ATACGACACATAAAGTGCCTAAG
1 ATACGACACATAAAGTGCCT--G
644716 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
644737 ATGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
644760 AT
1 AT
644762 CGGCAAAGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.11
21 26 0.34
23 42 0.55
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:644747 original size:46 final size:42
Alignment explanation
Indices: 644652--644760 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
644642 TATGATCAGT
* * *
644652 ATACGACACAT-AAGTGTCTGAAACGACATACAAGGTGCCTG
1 ATACGACACATAAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
644693 ATACGACACATAAAGTGCCTAAGATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCT--GAAACGACACACAAAGTGCCTG
644737 ATGTACGACACATAAAGTGCCTGA
1 A--TACGACACATAAAGTGCCTGA
644761 TCGGCAAAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 11 0.19
42 7 0.12
44 21 0.36
46 19 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:645698 original size:18 final size:18
Alignment explanation
Indices: 645656--645713 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
645646 TGTTTTCGTC
* *
645656 TCTTTCTCTGTTTCT-TT
1 TCTTTTTCTTTTTCTGTT
*
645673 TC-TGTTCTTCTTT-TGTT
1 TCTTTTTCTT-TTTCTGTT
*
645690 TCTTTTTCTTTTTCTTTT
1 TCTTTTTCTTTTTCTGTT
645708 TCTTTT
1 TCTTTT
645714 ACTTACTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.16
17 12 0.38
18 15 0.47
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (18 bp):
TCTTTTTCTTTTTCTGTT
Found at i:645699 original size:6 final size:6
Alignment explanation
Indices: 645688--645713 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
645678 TCTTCTTTTG
645688 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
645714 ACTTACTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:645708 original size:22 final size:22
Alignment explanation
Indices: 645664--645707 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
645654 TCTCTTTCTC
645664 TGTTTCTTTTCTGTTCTTCTTT
1 TGTTTCTTTTCTGTTCTTCTTT
645686 TGTTTCTTTTTCT-TT-TTCTTT
1 TGTTTC-TTTTCTGTTCTTCTTT
645707 T
1 T
645708 TCTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (22 bp):
TGTTTCTTTTCTGTTCTTCTTT
Found at i:645754 original size:3 final size:3
Alignment explanation
Indices: 645746--645786 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
645736 ATGCATTAGT
645746 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
645787 TATTTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:645805 original size:8 final size:8
Alignment explanation
Indices: 645746--645810 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 8
645736 ATGCATTAGT
645746 TAATAATAA
1 TAAT-ATAA
645755 TAATAATAA
1 TAAT-ATAA
645764 TAATAATAA
1 TAAT-ATAA
645773 TAATAATAA
1 TAAT-ATAA
645782 TAATAT-A
1 TAATATAA
**
645789 TTTTATAA
1 TAATATAA
*
645797 TTATATAA
1 TAATATAA
645805 TAATAT
1 TAATAT
645811 TTTATTCACA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
7 5 0.10
8 15 0.29
9 31 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATATAA
Found at i:645964 original size:28 final size:27
Alignment explanation
Indices: 645932--646000 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
645922 ATTTGTTTCC
*
645932 TATAA-TATATTAGTTTAATTTTAATTAA
1 TATAATTATAATAGTTTAA-TTTAA-TAA
*
645960 TATAATTTATAATATTTTAATTTAATAA
1 TATAA-TTATAATAGTTTAATTTAATAA
**
645988 TATTTTTATAATA
1 TATAATTATAATA
646001 TAAATCAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.23
28 11 0.31
29 5 0.14
30 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATAATAGTTTAATTTAATAA
Found at i:645980 original size:15 final size:16
Alignment explanation
Indices: 645962--645993 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
645952 TTAATTAATA
645962 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
645977 TAATTTAATAATATTT
1 TAATTTAATAATATTT
645993 T
1 T
645994 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:645992 original size:25 final size:25
Alignment explanation
Indices: 645949--646001 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
645939 TATTAGTTTA
645949 ATTTTAATTAATATAA-TTTATAAT
1 ATTTTAATTAATATAATTTTATAAT
*
645973 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAAT-ATAATTTTATAAT
646000 AT
1 AT
646002 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTAATTAATATAATTTTATAAT
Found at i:648149 original size:20 final size:20
Alignment explanation
Indices: 648109--648149 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
648099 AAGTTGAGTC
* **
648109 ATGTTATTTTATATTGGAAT
1 ATGTAATTTTATATTCAAAT
648129 ATGTAATTTTATATTCAAAT
1 ATGTAATTTTATATTCAAAT
648149 A
1 A
648150 ATTCTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (20 bp):
ATGTAATTTTATATTCAAAT
Found at i:648217 original size:33 final size:34
Alignment explanation
Indices: 648170--648251 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
648160 TCTATTCAGA
648170 TTAAATTAA-TTAATTAGGTT-GATTACTTTT-TAT
1 TTAAA-TAATTTAATTAGGTTGGATT-CTTTTATAT
* * *
648203 TTGAATAATTTAATTGGGTTGGATTGTTTTATAT
1 TTAAATAATTTAATTAGGTTGGATTCTTTTATAT
*
648237 TTAAATATTTTAATT
1 TTAAATAATTTAATT
648252 TTTGGGTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 18 0.44
34 20 0.49
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (34 bp):
TTAAATAATTTAATTAGGTTGGATTCTTTTATAT
Found at i:648624 original size:23 final size:23
Alignment explanation
Indices: 648597--648675 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
648587 TAGTCTAGTG
*
648597 ATGCCATGTAATAGCTTTTCAGT
1 ATGCCATGTAATAGCTTCTCAGT
*
648620 ATGCCACGTGGCAA-AGCTAGTCT-AGT
1 ATGCCA--T-GTAATAGCT--TCTCAGT
*
648646 GATGCCATGTAATAGCCTCTCAGT
1 -ATGCCATGTAATAGCTTCTCAGT
648670 ATGCCA
1 ATGCCA
648676 CGTGGCAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
23 15 0.34
24 6 0.14
25 9 0.20
26 6 0.14
27 8 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (23 bp):
ATGCCATGTAATAGCTTCTCAGT
Found at i:648659 original size:50 final size:50
Alignment explanation
Indices: 648584--648684 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
648574 TGACACTGCT
* *
648584 AGCTAGTCTAGTGATGCCATGTAATAGCTTTTCAGTATGCCACGTGGCAA
1 AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
648634 AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
1 AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
648684 A
1 A
648685 CATAAATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (50 bp):
AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
Found at i:656646 original size:42 final size:42
Alignment explanation
Indices: 656599--656680 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
656589 GTGTCCTAGC
* *
656599 CCATGTCTTAAACCGTGT-AACTCATTGACTTAATACACACGG
1 CCATGTCATAAACCGTGTGAA-TCACTGACTTAATACACACGG
* * *
656641 CCATGTCATAGACTGTGTGAATCACTGACTTGATACACAC
1 CCATGTCATAAACCGTGTGAATCACTGACTTAATACACAC
656681 AACTGTGTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CCATGTCATAAACCGTGTGAATCACTGACTTAATACACACGG
Found at i:658020 original size:28 final size:26
Alignment explanation
Indices: 657976--658034 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
657966 AAATTATTAA
* *
657976 ATATATAAAAAAATATGAAAATATGT
1 ATATACAAAAAAATATGAAAATAGGT
* *
658002 ATATACAAAAAAATGTATGTATATAGGT
1 ATATACAAAAAAA--TATGAAAATAGGT
658030 ATATA
1 ATATA
658035 TATATGTACG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.44
28 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (26 bp):
ATATACAAAAAAATATGAAAATAGGT
Found at i:660061 original size:44 final size:44
Alignment explanation
Indices: 660006--661154 Score: 1163
Period size: 44 Copynumber: 25.8 Consensus size: 44
659996 ACCAGTATGG
* * * * * *
660006 GAAGACGAGATCTGCTCTCTTTGATTTATTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
660050 GAAGACAAGATCTGCTTTTTTCAATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
660094 GAAGACAAGATCTGCTTTCTTCGATCTACTTTACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
660138 AAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCACTAGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA-CAT
660181 GGGAAGACAAGATC--CATTGTAC-TCGATCTACTTCACGCCAATACAT
1 --GAAGACAAGATCTGC-TT-T-CTTCGATCTACTTCACGCCAATACAT
660227 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
660271 GAAGACAAGATCTGCTTTCTTCGATTTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
660315 GAAGACAAAATCTGCTTTCTTCGATCTACTTCACACCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
660359 GAAGACAAGATCTGCTTTCTTCAATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
660403 AAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
660447 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
660491 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
660535 GAAGACAAGATCTGCTTTTTTCGATCTACTT--CGCCACCAGA-AT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA--ATACAT
* * *
660578 CGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACAT
1 --GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * *
660624 GAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTACAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACAT
* * * ***
660669 GAAGACAAGATCTG-TTATCTTCGATCTACTTCTCCACCAGTATGG
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTC-ACGCCAATACAT
* * * * *
660714 GAAGACAAGATCTACTATCTTTCGATCTACTTCATGCTAGTACAT
1 GAAGACAAGATCTGCTTTC-TTCGATCTACTTCACGCCAATACAT
* * * ***
660759 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * ***
660804 GAAGACGAGATCTTCTTTCTTCGATCTACTT-A-GCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA--A-TACAT
* * * * * ***
660849 GAAAACAAGATCTGCTATCTTCGATCTTCTCCTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGA---TCTACTTCA-CGCCAATACAT
* * * *
660897 GAAGACAAGATCTACTATCTTTCGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTTTC-TTCGATCTACTTCACGCCAATACAT
* ** * *
660942 GAAGACAAAATCTATTTTCTTCGATCTACTTCA--CCACTAGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA-CAT
* * * * * *
660985 GGAAAGACGAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAG
1 -G-AAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * * *
661032 GAAGACAAAATCTACTATCTTCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * **
661076 GAAGACAAGATCTGCTGTATTTGATCTACTTCGCTGCCAGTACGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACAT
** *
661121 GAAGACAAGATCTATTTTCGTCGATCTACTTCAC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC
661155 CATCAGTATG
Statistics
Matches: 940, Mismatches: 124, Indels: 81
0.82 0.11 0.07
Matches are distributed among these distances:
42 18 0.02
43 8 0.01
44 528 0.56
45 303 0.32
46 30 0.03
47 11 0.01
48 33 0.04
49 6 0.01
51 3 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:662496 original size:7 final size:7
Alignment explanation
Indices: 662484--662526 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
662474 TTTTCCGTTC
662484 TTCATTT
1 TTCATTT
662491 TTCA-TT
1 TTCATTT
*
662497 TTCACTT
1 TTCATTT
662504 TTCA-TT
1 TTCATTT
662510 TTCATTT
1 TTCATTT
662517 TATCATTT
1 T-TCATTT
662525 TT
1 TT
662527 TTACGACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.36
7 14 0.42
8 7 0.21
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
TTCATTT
Found at i:662500 original size:6 final size:6
Alignment explanation
Indices: 662484--662517 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
662474 TTTTCCGTTC
662484 TTCATTT TTCATT TTCACTT TTCATT TTCATT TT
1 TTCA-TT TTCATT TTCA-TT TTCATT TTCATT TT
662518 ATCATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCATT
Found at i:662505 original size:13 final size:13
Alignment explanation
Indices: 662466--662525 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
662456 TTAGCCTCTC
662466 CATTTT-ACTTTT
1 CATTTTCACTTTT
* *
662478 CCGTTCTTCATTTTT
1 -CATT-TTCACTTTT
662493 CATTTTCACTTTT
1 CATTTTCACTTTT
*
662506 CATTTTCATTTTAT
1 CATTTTCACTTT-T
662520 CATTTT
1 CATTTT
662526 TTTACGACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 22 0.56
14 12 0.31
15 5 0.13
ACGTcount: A:0.15, C:0.20, G:0.02, T:0.63
Consensus pattern (13 bp):
CATTTTCACTTTT
Found at i:664413 original size:33 final size:33
Alignment explanation
Indices: 664376--664440 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
664366 ATGTCCCTCC
*
664376 TCATTTAACAATTGAGCTATTTAGTCCTTTTAA
1 TCATTTAACAATTGAGCTAGTTAGTCCTTTTAA
664409 TCATTTAACAATTGAGCTAGTTAGTCCTTTTA
1 TCATTTAACAATTGAGCTAGTTAGTCCTTTTA
664441 GTAACTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (33 bp):
TCATTTAACAATTGAGCTAGTTAGTCCTTTTAA
Found at i:667836 original size:18 final size:18
Alignment explanation
Indices: 667813--667848 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
667803 CATTGTACAA
667813 AATTACGTCACCGAATGC
1 AATTACGTCACCGAATGC
*
667831 AATTACGTCATCGAATGC
1 AATTACGTCACCGAATGC
667849 CATCTTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (18 bp):
AATTACGTCACCGAATGC
Found at i:669204 original size:23 final size:22
Alignment explanation
Indices: 669169--669214 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
669159 TAACTTTATG
669169 AAAAGACTTGATG-AAAAGCTTA
1 AAAAGACTTGATGCAAAA-CTTA
669191 AAAAGAACTTGATGCAAAACTTA
1 AAAAG-ACTTGATGCAAAACTTA
669214 A
1 A
669215 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (22 bp):
AAAAGACTTGATGCAAAACTTA
Found at i:669271 original size:14 final size:13
Alignment explanation
Indices: 669237--669278 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
669227 CTTGGTAATT
669237 AAAAACTTGAT-A
1 AAAAACTTGATGA
669249 AAAGAACTTGATGA
1 AAA-AACTTGATGA
*
669263 AAAACACTTGAAGA
1 AAAA-ACTTGATGA
669277 AA
1 AA
669279 GAAAACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (13 bp):
AAAAACTTGATGA
Found at i:669975 original size:23 final size:22
Alignment explanation
Indices: 669939--670015 Score: 100
Period size: 23 Copynumber: 3.4 Consensus size: 22
669929 CAACAGAGAA
*
669939 AGGTGTTTATCTCGTATCACTGC
1 AGGTGTTTACCTCGTA-CACTGC
*
669962 AGTTGTTTACCTCGTACCACTGC
1 AGGTGTTTACCTCGTA-CACTGC
669985 AGGTGTTTACCTCGTACTACTGC
1 AGGTGTTTACCTCGTAC-ACTGC
*
670008 AGGGGTTT
1 AGGTGTTT
670016 TCTTTTTGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 1 0.02
23 47 0.98
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (22 bp):
AGGTGTTTACCTCGTACACTGC
Found at i:672904 original size:17 final size:17
Alignment explanation
Indices: 672882--672942 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
672872 ATTTTAATCC
672882 TTAGTTTAATTATTATT
1 TTAGTTTAATTATTATT
**
672899 TTAGTTT-ATTAGCAATT
1 TTAGTTTAATTA-TTATT
*
672916 AAATAGTTTAATTATTATT
1 --TTAGTTTAATTATTATT
672935 TTAGTTTA
1 TTAGTTTA
672943 TTAGCAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.12
17 17 0.50
19 9 0.26
20 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (17 bp):
TTAGTTTAATTATTATT
Found at i:672923 original size:36 final size:36
Alignment explanation
Indices: 672883--672954 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
672873 TTTTAATCCT
672883 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
1 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
672919 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
1 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
672955 AATATCTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (36 bp):
TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
Found at i:681601 original size:39 final size:42
Alignment explanation
Indices: 681546--681675 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 42
681536 TTGTTGGGAT
* * *
681546 GCGATTTGTTGCCACGT-AAGT-A-ATCGTGCTGACGTGGAC
1 GCGATTTGCTGACACGTCAAGTGACATCGCGCTGACGTGGAC
***
681585 GCGATTTGCTGACACGTCCCTTGACATCGCGCTGACGTGGAC
1 GCGATTTGCTGACACGTCAAGTGACATCGCGCTGACGTGGAC
***
681627 GCGATTTGCTGACACGTCCCTTGACATCGCGCTGACGTGGAC
1 GCGATTTGCTGACACGTCAAGTGACATCGCGCTGACGTGGAC
*
681669 GCAATTT
1 GCGATTT
681676 CGGGGAAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.19
40 1 0.01
41 1 0.01
42 64 0.79
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.26
Consensus pattern (42 bp):
GCGATTTGCTGACACGTCAAGTGACATCGCGCTGACGTGGAC
Found at i:681627 original size:42 final size:42
Alignment explanation
Indices: 681568--681675 Score: 198
Period size: 42 Copynumber: 2.6 Consensus size: 42
681558 CACGTAAGTA
*
681568 ATCGTGCTGACGTGGACGCGATTTGCTGACACGTCCCTTGAC
1 ATCGCGCTGACGTGGACGCGATTTGCTGACACGTCCCTTGAC
681610 ATCGCGCTGACGTGGACGCGATTTGCTGACACGTCCCTTGAC
1 ATCGCGCTGACGTGGACGCGATTTGCTGACACGTCCCTTGAC
*
681652 ATCGCGCTGACGTGGACGCAATTT
1 ATCGCGCTGACGTGGACGCGATTT
681676 CGGGGAAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.25
Consensus pattern (42 bp):
ATCGCGCTGACGTGGACGCGATTTGCTGACACGTCCCTTGAC
Found at i:683889 original size:13 final size:13
Alignment explanation
Indices: 683871--683895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
683861 AATGACTATT
683871 TGACTATTTGAAA
1 TGACTATTTGAAA
683884 TGACTATTTGAA
1 TGACTATTTGAA
683896 TGTATTTGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGACTATTTGAAA
Found at i:689550 original size:80 final size:81
Alignment explanation
Indices: 689413--689573 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 81
689403 ACAAATCTGT
689413 TCTAAAAAAACTTTTAGTAAAAGAAAATAAAAAAAAAAGGAAGAGGGGACTTACCGGGGAAGCGC
1 TCTAAAAAAACTTTTAGTAAAAGAAAATAAAAAAAAAAGGAAGAGGGGACTTACCGGGGAAGCGC
689478 CGTAATCGTGCCCGCG
66 CGTAATCGTGCCCGCG
*
689494 TCTAAAAAAACTTTTAGTAAAAGAAAAT-AAAAAAAAGGGAAGAGGGGACTTACCGGGGAAGCGC
1 TCTAAAAAAACTTTTAGTAAAAGAAAATAAAAAAAAAAGGAAGAGGGGACTTACCGGGGAAGCGC
689558 CGTAATCGTGCCCGCG
66 CGTAATCGTGCCCGCG
689574 AAGGGTTCTC
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 51 0.65
81 28 0.35
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (81 bp):
TCTAAAAAAACTTTTAGTAAAAGAAAATAAAAAAAAAAGGAAGAGGGGACTTACCGGGGAAGCGC
CGTAATCGTGCCCGCG
Found at i:690240 original size:12 final size:12
Alignment explanation
Indices: 690223--690253 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
690213 TATTTTAAGT
690223 TATATATATGTA
1 TATATATATGTA
690235 TATATATATGTA
1 TATATATATGTA
690247 TATATAT
1 TATATAT
690254 TATTTACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:691321 original size:108 final size:108
Alignment explanation
Indices: 691132--691347 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
691122 AGGTGCCGTG
* *
691132 TCCTAACTTACTGAATGTGACATCTTGTTACTTCGAGATAAGAAGGCATTTTTCCATTTTGATTT
1 TCCTAACTTACTGAATGTGACATCTTGTTACTTCGAAATAAGAAGACATTTTTCCATTTTGATTT
691197 ATCTAAGTAATTTTTTTTAAATAATGCAATATAAAGAAGGATC
66 ATCTAAGTAATTTTTTTTAAATAATGCAATATAAAGAAGGATC
691240 TCCTAACTTACTGAATGTGACATCTTGTTACTTCGAAATAAGAAGACATTTTTCCATTTTGATTT
1 TCCTAACTTACTGAATGTGACATCTTGTTACTTCGAAATAAGAAGACATTTTTCCATTTTGATTT
691305 ATCTAAGTAATTTTTTTTAAATAATGCAATATAAAGAAGGATC
66 ATCTAAGTAATTTTTTTTAAATAATGCAATATAAAGAAGGATC
691348 GTATTTTTAA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (108 bp):
TCCTAACTTACTGAATGTGACATCTTGTTACTTCGAAATAAGAAGACATTTTTCCATTTTGATTT
ATCTAAGTAATTTTTTTTAAATAATGCAATATAAAGAAGGATC
Found at i:692738 original size:19 final size:20
Alignment explanation
Indices: 692698--692741 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
692688 GTCTCTTTTG
* *
692698 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
692717 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
692736 GCATTA
1 GCATTA
692742 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:713173 original size:29 final size:30
Alignment explanation
Indices: 713114--713171 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
713104 TCCGAGCCTT
*
713114 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
713144 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
713172 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:713401 original size:13 final size:13
Alignment explanation
Indices: 713383--713414 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
713373 TTTCCAGCAA
713383 TTATGAATTTATT
1 TTATGAATTTATT
713396 TTATGAATTTATT
1 TTATGAATTTATT
*
713409 TGATGA
1 TTATGA
713415 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:713622 original size:50 final size:50
Alignment explanation
Indices: 713508--713706 Score: 272
Period size: 50 Copynumber: 3.9 Consensus size: 50
713498 CATTTGGGTA
* *
713508 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATC
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C
* *
713562 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
1 --GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
* *
713614 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
* *
713664 GAGACGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
713707 TGTTATGATC
Statistics
Matches: 133, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
50 87 0.65
52 1 0.01
53 3 0.02
55 2 0.02
56 40 0.30
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
Found at i:713708 original size:106 final size:103
Alignment explanation
Indices: 713508--713699 Score: 291
Period size: 106 Copynumber: 1.9 Consensus size: 103
713498 CATTTGGGTA
*
713508 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCC
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGACGTCC
*
713573 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
63 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
* * *
713614 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGACGTCCCAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGACGTCCCAT
713676 GTAAGACCATGTCTGGGACATGGC
66 GTAAGACCATGTCTGGGACATGGC
713700 TTTGGCATGT
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
100 36 0.44
101 2 0.02
105 2 0.02
106 41 0.51
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (103 bp):
GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGACGTCCCAT
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
Found at i:717244 original size:38 final size:38
Alignment explanation
Indices: 717202--717277 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
717192 TCAAATCTAC
* ** *
717202 TCATCTTTTAAATGATTTAAGGATTCTTTTTCTTTTAA
1 TCATCCTTTAAATGAGCTAAAGATTCTTTTTCTTTTAA
717240 TCATCCTTTAAATGAGCTAAAGATTCTTTTTCTTTTAA
1 TCATCCTTTAAATGAGCTAAAGATTCTTTTTCTTTTAA
717278 GATTCTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (38 bp):
TCATCCTTTAAATGAGCTAAAGATTCTTTTTCTTTTAA
Found at i:718569 original size:25 final size:23
Alignment explanation
Indices: 718539--718623 Score: 129
Period size: 23 Copynumber: 3.7 Consensus size: 23
718529 TGCCATTTTG
718539 TTAACTTTGGTTAAGTAAGATTT
1 TTAACTTTGGTTAAGTAAGATTT
718562 TGTAAACTTTGGTTAAGTAAGA--T
1 T-T-AACTTTGGTTAAGTAAGATTT
*
718585 TTAACTTTGGTTAAGTAAGATAT
1 TTAACTTTGGTTAAGTAAGATTT
718608 TTAACTTTGGTTAAGT
1 TTAACTTTGGTTAAGT
718624 TTGCCTCCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
21 18 0.31
22 1 0.02
23 20 0.34
24 1 0.02
25 18 0.31
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.45
Consensus pattern (23 bp):
TTAACTTTGGTTAAGTAAGATTT
Found at i:720735 original size:21 final size:21
Alignment explanation
Indices: 720691--720754 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
720681 ATTTTTCTTT
* * *
720691 AATTATTAAAAATGTTTA-AA
1 AATTATAAAAAAAGTTAATAA
720711 AATTATAAATAAAA-TTAATAA
1 AATTATAAA-AAAAGTTAATAA
*
720732 AATTTTAAAAAAAGTTTAATAA
1 AATTATAAAAAAAG-TTAATAA
720754 A
1 A
720755 GTTCTTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 15 0.42
21 13 0.36
22 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
AATTATAAAAAAAGTTAATAA
Found at i:728933 original size:43 final size:44
Alignment explanation
Indices: 728885--728982 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
728875 TGTAACTTCC
* ** *
728885 GGGAGATAGGA-TTACTGGCTTCAATCTTCTCCACTACTGCTTA
1 GGGAGATAAGAGTTACCAGCTTCAATCTTCTCAACTACTGCTTA
* * *
728928 GGGAGATAAGAGTTGCCATCTTCGATCTTCTCAACTACTGCTTA
1 GGGAGATAAGAGTTACCAGCTTCAATCTTCTCAACTACTGCTTA
728972 GGGAGATAAGA
1 GGGAGATAAGA
728983 TCTGTAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 10 0.21
44 37 0.79
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (44 bp):
GGGAGATAAGAGTTACCAGCTTCAATCTTCTCAACTACTGCTTA
Found at i:729063 original size:43 final size:43
Alignment explanation
Indices: 729016--729332 Score: 195
Period size: 43 Copynumber: 7.2 Consensus size: 43
729006 ACTGCAACCC
* *
729016 AGGGAGGCAAGGGTAGGGTCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGACAAGGCTAGGGTCTTCGATCTGCTCCACTACTGCTT
* * ** * * * *
729059 AGGGAGATAAGATCTATAATGTCTTTCAACCTACTCCACTGCTGCTT
1 AGGGAGACAAG-GC--TAGGGTC-TTCGATCTGCTCCACTACTGCTT
* *
729106 AAGGAGACAAGGCTGGGGTCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGACAAGGCTAGGGTCTTCGATCTGCTCCACTACTGCTT
* * * * * * * * * *
729149 AGGGAGATAAGATCTGTAATGTTTTTCAACCTACTCTACTGCTGCTT
1 AGGGAGACAAG-GC--T-AGGGTCTTCGATCTGCTCCACTACTGCTT
* *
729196 AGGGAGACAAGGCTGGGGTCTTCGATCTGCTCAACTACTGCTT
1 AGGGAGACAAGGCTAGGGTCTTCGATCTGCTCCACTACTGCTT
* * * ** * * * * * * *
729239 AGGAAGATAAGATCT-GTAATTTTCAACCTACTCCATTGCTGCTC
1 AGGGAGACAAG-GCTAG-GGTCTTCGATCTGCTCCACTACTGCTT
* *
729283 AGGGAGACAAGGCTGGGGTCTTCAATCTGCTCCACTACTGCTT
1 AGGGAGACAAGGCTAGGGTCTTCGATCTGCTCCACTACTGCTT
729326 AGGGAGA
1 AGGGAGA
729333 TAAGATCTGT
Statistics
Matches: 196, Mismatches: 67, Indels: 22
0.69 0.24 0.08
Matches are distributed among these distances:
43 95 0.48
44 35 0.18
46 8 0.04
47 58 0.30
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (43 bp):
AGGGAGACAAGGCTAGGGTCTTCGATCTGCTCCACTACTGCTT
Found at i:729131 original size:90 final size:88
Alignment explanation
Indices: 728946--729346 Score: 561
Period size: 90 Copynumber: 4.5 Consensus size: 88
728936 AGAGTTGCCA
* * * *** *
728946 TCTTCGATCTTCTCAACTACTGCTTAGGGAGATAAGATCTGTAATTATTCGGTCTGCTCCACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGC
** * * * *
729011 AACCCAGGGAGGCAAGGGTAGGG
66 TGCTCAGGGAGACAAGGCTGGGG
*
729034 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATGTCTTTCAACCTACTCCACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-T-TTTCAACCTACTCCACT
* *
729099 GCTGCTTAAGGAGACAAGGCTGGGG
64 GCTGCTCAGGGAGACAAGGCTGGGG
*
729124 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATGTTTTTCAACCTACTCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA--TTTTTCAACCTACTCCACT
*
729189 GCTGCTTAGGGAGACAAGGCTGGGG
64 GCTGCTCAGGGAGACAAGGCTGGGG
* * *
729214 TCTTCGATCTGCTCAACTACTGCTTAGGAAGATAAGATCTGTAA-TTTTCAACCTACTCCATTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGC
729278 TGCTCAGGGAGACAAGGCTGGGG
66 TGCTCAGGGAGACAAGGCTGGGG
*
729301 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
729347 CTTTGGTCTG
Statistics
Matches: 281, Mismatches: 27, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
87 81 0.29
88 43 0.15
89 1 0.00
90 154 0.55
91 1 0.00
92 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTGGGG
Found at i:729303 original size:177 final size:178
Alignment explanation
Indices: 728946--729346 Score: 565
Period size: 177 Copynumber: 2.3 Consensus size: 178
728936 AGAGTTGCCA
* * *** *
728946 TCTTCGATCTTCTCAACTACTGCTTAGGGAGATAAGATCTGTAA-TTATTCGGTCTGCTCCACTG
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTATTCAACCTACTCCACTG
* * * *
729010 CAACCCAGGGAGGCAAGGGTAGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
66 CAACCCAGGGAGACAAGGCTAGGGTCTTCGATCTGCTCAACTACTGCTTAGGAAGATAAGATCTA
*
729075 TAATGTCTTTCAACCTACTCCACTGCTGCTTAAGGAGACAAGGCTGGGG
131 TAA-GTCTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGG
* *
729124 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATGTTTTTCAACCTACTCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTATTCAACCTACTCCACT
** ** *
729189 GCTGCTTAGGGAGACAAGGCTGGGGTCTTCGATCTGCTCAACTACTGCTTAGGAAGATAAGATCT
65 GCAACCCAGGGAGACAAGGCTAGGGTCTTCGATCTGCTCAACTACTGCTTAGGAAGATAAGATCT
* * *
729254 GTAA-T-TTTCAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTGGGG
130 ATAAGTCTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGG
*
729301 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
729347 CTTTGGTCTG
Statistics
Matches: 199, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
176 1 0.01
177 83 0.42
178 43 0.22
180 72 0.36
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (178 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTATTCAACCTACTCCACTG
CAACCCAGGGAGACAAGGCTAGGGTCTTCGATCTGCTCAACTACTGCTTAGGAAGATAAGATCTA
TAAGTCTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGG
Found at i:729537 original size:44 final size:44
Alignment explanation
Indices: 729481--729656 Score: 147
Period size: 44 Copynumber: 4.0 Consensus size: 44
729471 TTTGGCTTCA
* *
729481 ATCTGCTACACTACTGCTTAGGGAGATAAGATCTGCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTG
* * * *
729525 ATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATGTTTTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA--TCTTT-G
* * * * * * ***
729572 ATATACTCCACTGCTGCTCAGGGAGACAAG-GCTGGGGTCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTG
* * * *
729615 ATCTGCTCCATTACTTCTTAAGGAGATAAGATCTGTAATCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
729657 CAACCTGCTC
Statistics
Matches: 98, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
43 22 0.22
44 45 0.46
46 7 0.07
47 24 0.24
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTG
Found at i:729753 original size:45 final size:44
Alignment explanation
Indices: 729704--729847 Score: 150
Period size: 45 Copynumber: 3.2 Consensus size: 44
729694 TGTCTTCGAT
*
729704 CTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCCATCTTCAAC
1 CTGCTTCACTGTCGATG-AGGAAGGCAAGATCTGCTATCTTCAAC
* * * * * *
729749 CTGCTCCACTG-CAACTGAGGGAGGCAAG-GCTAG-TATCTTCGAT
1 CTGCTTCACTGTCGA-TGAGGAAGGCAAGATCT-GCTATCTTCAAC
* *
729792 CTACTTCTCTGTCGATGTAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCACTGTCGATG-AGGAAGGCAAGATCTGCTATCTTCAAC
729837 CTGCTTCACTG
1 CTGCTTCACTG
729848 CAACCGAGGG
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
43 19 0.25
44 26 0.34
45 31 0.41
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (44 bp):
CTGCTTCACTGTCGATGAGGAAGGCAAGATCTGCTATCTTCAAC
Found at i:729761 original size:88 final size:88
Alignment explanation
Indices: 729642--729889 Score: 379
Period size: 88 Copynumber: 2.8 Consensus size: 88
729632 TTAAGGAGAT
* ** *
729642 AAGATCTGTAATCTTCAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTG
1 AAGATCTGCAATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTG
729707 CTTCACTGTCGATGCAGGAAGGC
66 CTTCACTGTCGATGCAGGAAGGC
* * * *
729730 AAGATCTGCCATCTTCAACCTGCTCCACTGCAACTGAGGGAGGCAAGGCTAGTATCTTCGATCTA
1 AAGATCTGCAATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTG
* *
729795 CTTCTCTGTCGATGTAGGAAGGC
66 CTTCACTGTCGATGCAGGAAGGC
* *
729818 AAGATCTGCTATCTTCAACCTGCTTCACTGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTG
1 AAGATCTGCAATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTG
*
729883 CTCCACT
66 CTTCACT
729890 ACTGCTTAGA
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 143 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (88 bp):
AAGATCTGCAATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTG
CTTCACTGTCGATGCAGGAAGGC
Found at i:729774 original size:44 final size:44
Alignment explanation
Indices: 729642--729864 Score: 147
Period size: 44 Copynumber: 5.1 Consensus size: 44
729632 TTAAGGAGAT
* **
729642 AAGATCTG-TAATCTTCAACCTGC-TCTGCTGCAACCCAGGGAGGC
1 AAGATCTGCT-ATCTTCAACCTGCTTC-ACTGCAACTGAGGGAGGC
* * * * * *
729686 AAG-GCTAG-TGTCTTCGATCTGCTTCACTGTCGA-TGCAGGAAGGC
1 AAGATCT-GCTATCTTCAACCTGCTTCACTG-CAACTG-AGGGAGGC
* *
729730 AAGATCTGCCATCTTCAACCTGCTCCACTGCAACTGAGGGAGGC
1 AAGATCTGCTATCTTCAACCTGCTTCACTGCAACTGAGGGAGGC
* * * * * * *
729774 AAG-GCTAG-TATCTTCGATCTACTTCTCTGTCGA-TGTAGGAAGGC
1 AAGATCT-GCTATCTTCAACCTGCTTCACTG-CAACTG-AGGGAGGC
*
729818 AAGATCTGCTATCTTCAACCTGCTTCACTGCAACCGAGGGAGGC
1 AAGATCTGCTATCTTCAACCTGCTTCACTGCAACTGAGGGAGGC
729862 AAG
1 AAG
729865 GCTAGTGTCT
Statistics
Matches: 132, Mismatches: 34, Indels: 26
0.69 0.18 0.14
Matches are distributed among these distances:
43 34 0.26
44 58 0.44
45 40 0.30
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (44 bp):
AAGATCTGCTATCTTCAACCTGCTTCACTGCAACTGAGGGAGGC
Found at i:729948 original size:44 final size:45
Alignment explanation
Indices: 729900--729993 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 45
729890 ACTGCTTAGA
** * *
729900 GAGATAAG-ATTTGTAATCTTCGACCTATTCCACTGCTATCCAAG
1 GAGATAAGAATTTACAATCTCCAACCTATTCCACTGCTATCCAAG
* * *
729944 GAGAT-AGAATTTACAATCTCCAACCTATTCCATTGCTGTCCAGG
1 GAGATAAGAATTTACAATCTCCAACCTATTCCACTGCTATCCAAG
729988 GAGATA
1 GAGATA
729994 GGACTGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (45 bp):
GAGATAAGAATTTACAATCTCCAACCTATTCCACTGCTATCCAAG
Found at i:732247 original size:22 final size:21
Alignment explanation
Indices: 732228--732268 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
732218 TCCTTTTTCT
*
732228 TTTTTCTTTTTCATTTTTTTC
1 TTTTTCATTTTCATTTTTTTC
*
732249 TTTTTCATTTTGATTTTTTT
1 TTTTTCATTTTCATTTTTTT
732269 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTCATTTTCATTTTTTTC
Found at i:732274 original size:21 final size:21
Alignment explanation
Indices: 732229--732274 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
732219 CCTTTTTCTT
* *
732229 TTTTCTTTTTCATTTTTTTCT
1 TTTTCATTTTCATTTTTTTCA
* *
732250 TTTTCATTTTGATTTTTTTGA
1 TTTTCATTTTCATTTTTTTCA
732271 TTTT
1 TTTT
732275 TTTTACTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTCATTTTCATTTTTTTCA
Found at i:732310 original size:15 final size:15
Alignment explanation
Indices: 732222--732311 Score: 73
Period size: 15 Copynumber: 6.1 Consensus size: 15
732212 GGCCTCTCCT
*
732222 TTTTC-TTTTTTCT-
1 TTTTCATTTTTTTTA
732235 TTTTCATTTTTTTCT-
1 TTTTCATTTTTTT-TA
*
732250 TTTTCATTTTGATTT-
1 TTTTCATTTT-TTTTA
*
732265 TTTTGATTTTTTTTA
1 TTTTCATTTTTTTTA
*
732280 CTTT-ACTTTTTTTTA
1 TTTTCA-TTTTTTTTA
*
732295 TTTTGATTTTTTTTA
1 TTTTCATTTTTTTTA
732310 TT
1 TT
732312 GAATCTGAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
13 5 0.08
14 10 0.15
15 47 0.72
16 3 0.05
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCATTTTTTTTA
Found at i:744313 original size:18 final size:18
Alignment explanation
Indices: 744290--744325 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
744280 AACTAATATT
744290 GAAGAAA-CAGAAAAGAAA
1 GAAGAAATC-GAAAAGAAA
744308 GAAGAAATCGAAAAGAAA
1 GAAGAAATCGAAAAGAAA
744326 AAATAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.69, C:0.06, G:0.22, T:0.03
Consensus pattern (18 bp):
GAAGAAATCGAAAAGAAA
Found at i:744333 original size:18 final size:18
Alignment explanation
Indices: 744299--744333 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
744289 TGAAGAAACA
*
744299 GAAAAGAAAGAAGAAATC
1 GAAAAGAAAAAAGAAATC
*
744317 GAAAAGAAAAAATAAAT
1 GAAAAGAAAAAAGAAAT
744334 TTCAAATCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.09
Consensus pattern (18 bp):
GAAAAGAAAAAAGAAATC
Found at i:749728 original size:23 final size:24
Alignment explanation
Indices: 749689--749737 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
749679 ACGTGAGGTG
*
749689 AGGGAATAGAGAAGAAAAG-GGAA
1 AGGGAAAAGAGAAGAAAAGAGGAA
749712 AGGGAAAAG-GAAGGAAAAGAGGAA
1 AGGGAAAAGAGAA-GAAAAGAGGAA
749736 AG
1 AG
749738 AAAATATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 3 0.13
23 14 0.61
24 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (24 bp):
AGGGAAAAGAGAAGAAAAGAGGAA
Found at i:755075 original size:12 final size:12
Alignment explanation
Indices: 755058--755099 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
755048 TTAACTTAAT
755058 CGAACATGTTCA
1 CGAACATGTTCA
**
755070 CGAACAT-TAAA
1 CGAACATGTTCA
755081 CGAACATGTTCA
1 CGAACATGTTCA
*
755093 TGAACAT
1 CGAACAT
755100 ATAATTGAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:755079 original size:23 final size:23
Alignment explanation
Indices: 755053--755115 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
755043 TTCTTTTAAC
755053 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* *
755076 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
*
755099 TATAATTGAACATGTTC
1 T-TAATCGAACATGTTC
755116 GTGAACAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 22 0.63
24 13 0.37
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:755148 original size:15 final size:15
Alignment explanation
Indices: 755128--755161 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
755118 GAACAATCTT
*
755128 AATAAATAATAAACA
1 AATAAACAATAAACA
*
755143 AATAAACAATAAATA
1 AATAAACAATAAACA
755158 AATA
1 AATA
755162 CATATACACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAAACAATAAACA
Found at i:755573 original size:75 final size:76
Alignment explanation
Indices: 755483--755625 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 76
755473 TAAATAAAAC
*
755483 AAAAACAAAAGTCATACATACAATTACCAAAATGCCATTGCCAAAAACTC-TTTTCCCACAAGTC
1 AAAAACAAAAGTCATACATACAATTACCAAAATGCCATTACCAAAAACTCTTTTTCCCACAAGTC
755547 ATTATGTCAAA
66 ATTATGTCAAA
* * *
755558 AAAAACAAAATTCATACATACAATTCCCAAAATGCCATTACCAAAAATTCTTTTTCCCACAAGTC
1 AAAAACAAAAGTCATACATACAATTACCAAAATGCCATTACCAAAAACTCTTTTTCCCACAAGTC
755623 ATT
66 ATT
755626 CTCAAAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 46 0.73
76 17 0.27
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (76 bp):
AAAAACAAAAGTCATACATACAATTACCAAAATGCCATTACCAAAAACTCTTTTTCCCACAAGTC
ATTATGTCAAA
Found at i:761131 original size:12 final size:13
Alignment explanation
Indices: 761114--761150 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
761104 GAACCGGACA
761114 CGAACCGAA-CTC
1 CGAACCGAAGCTC
761126 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
761138 CGAACCGTAGCTC
1 CGAACCGAAGCTC
761151 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:762182 original size:14 final size:16
Alignment explanation
Indices: 762163--762195 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
762153 ATGTAAAAAA
762163 TTAATATTT-T-TATT
1 TTAATATTTATATATT
762177 TTAATATTTATATATT
1 TTAATATTTATATATT
762193 TTA
1 TTA
762196 TAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAATATTTATATATT
Found at i:763876 original size:6 final size:6
Alignment explanation
Indices: 763865--763895 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
763855 AGGCTCTAAT
763865 GAAATG GAAATG GAAATG GAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG GAAATG G
763896 CTAGAGGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
GAAATG
Found at i:766498 original size:42 final size:42
Alignment explanation
Indices: 766451--766541 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
766441 GTGCCCCAGC
** * * *
766451 CCGTGTCTTAAACCATGTAACTCACTGACTTGATGCACACGA
1 CCGTGTCGCAAACCATGTAACTCACTAACTTGATACACACAA
*
766493 CCGTGTCGCAAACCATGTGACTCACTAACTTGATACACACAA
1 CCGTGTCGCAAACCATGTAACTCACTAACTTGATACACACAA
*
766535 TCGTGTC
1 CCGTGTC
766542 ACAGACCGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (42 bp):
CCGTGTCGCAAACCATGTAACTCACTAACTTGATACACACAA
Found at i:767678 original size:14 final size:15
Alignment explanation
Indices: 767659--767689 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
767649 CCCAAGACAA
767659 AAATAACC-TAGCCC
1 AAATAACCTTAGCCC
767673 AAATAACCTTAGCCC
1 AAATAACCTTAGCCC
767688 AA
1 AA
767690 CCAAACCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAACCTTAGCCC
Found at i:768162 original size:7 final size:7
Alignment explanation
Indices: 768150--768174 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
768140 TATGAGAAGT
768150 AAAAAGA
1 AAAAAGA
768157 AAAAAGA
1 AAAAAGA
768164 AAAAAGA
1 AAAAAGA
768171 AAAA
1 AAAA
768175 CCTCGAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:768711 original size:3 final size:3
Alignment explanation
Indices: 768705--768729 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
768695 ACTTTCAAAA
768705 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
768730 TTACCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:768806 original size:13 final size:13
Alignment explanation
Indices: 768784--768820 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
768774 TTAATTAAAA
768784 TTTC-ATTATTAT
1 TTTCTATTATTAT
768796 TTTCTATTATTAT
1 TTTCTATTATTAT
*
768809 TTT-TTTTATTAT
1 TTTCTATTATTAT
768821 ATCATTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCTATTATTAT
Found at i:776006 original size:13 final size:13
Alignment explanation
Indices: 775988--776012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
775978 ACCATTAATC
775988 AATAAATAAATAG
1 AATAAATAAATAG
776001 AATAAATAAATA
1 AATAAATAAATA
776013 AAAATTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AATAAATAAATAG
Found at i:777724 original size:44 final size:44
Alignment explanation
Indices: 777582--777739 Score: 144
Period size: 44 Copynumber: 3.6 Consensus size: 44
777572 AATCCACTCC
* * * * * * *
777582 ACTACAACTTTAGGGAGATAGGATTTGTTTATTTAGTCTTCTCC
1 ACTACAACTTCAGGGAGATAAGACTTGCTTACTTAGTCTGCTCT
* *
777626 ACTGCAACTTCAGGGAGATAAGA-TTCGCCCT-CTTCAGTCTGC-CT
1 ACTACAACTTCAGGGAGATAAGACTT-G-CTTACTT-AGTCTGCTCT
**
777670 CACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCT
1 -ACTACAACTTCAGGGA-GATAAGACTTGCTTACTTAGTCTGCTCT
777715 ACTACAACTTCAGGGAGATAAGACT
1 ACTACAACTTCAGGGAGATAAGACT
777740 GGATGCGATC
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
43 2 0.02
44 55 0.59
45 34 0.37
46 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATAAGACTTGCTTACTTAGTCTGCTCT
Found at i:777808 original size:44 final size:44
Alignment explanation
Indices: 777756--777867 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
777746 GATCTGCTCT
* *
777756 CTGCAACTTCAAAGAGATAAGATT-TGTGATTTTAATCCACTCCG
1 CTGCAACTTCAGAGAGATAAGATTAT-TGATTTTAATCCACTCCA
* * * *
777800 CTGCAACTTCAGGGAGATAGGATTATTGGTTTTAATCTACTCCA
1 CTGCAACTTCAGAGAGATAAGATTATTGATTTTAATCCACTCCA
*
777844 CTGCAACTTCAGAGGGATAAGATT
1 CTGCAACTTCAGAGAGATAAGATT
777868 CGCCATCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATTATTGATTTTAATCCACTCCA
Found at i:778378 original size:268 final size:267
Alignment explanation
Indices: 777874--778664 Score: 1102
Period size: 268 Copynumber: 3.0 Consensus size: 267
777864 GATTCGCCAT
*
777874 CTTCAGTTTTTTTAAATTGCAATGTTG-GGAAAACAAGATTCGCCATCGTAGCTTCAATCTGTTC
1 CTTCA-TTCTTTTAAATTGCAATGTTGAGGAAAACAAGATTCGCCATCGTAGCTTCAATCTGTTC
* * * * *
777938 CACTACACCGCTAGAGGAGTAAGATTCACCGTCGTGGTTTCAATCCGCTCTACTGTAATTCCAAA
65 CACTACACCGCCAG-GGAGAAAGATTCACCGTCGTGGTTTCAATCTGCTCTACTGTAATGCTAAA
* * * * *
778003 GAGATAGGATTCGCTGCCCCCAGCTTCAATCCGCTCTACTTCAGCTAATCTAAGCCTTAACGCTA
129 GAGATAGGATTCGCTGCCCACAGCTTTAATTCGCTCTACTTCAACTAATCCAAGCCTTAACGCTA
* * * **
778068 GGGATATAAGATTCGCTGTTGTGGCTTCAATCTGCTCCGCTACAATGCCAGGGAAGCAAGACTCG
194 GGGAGATAAGATTCGCTGTCGTGGCTTCAATCTACTCCGCTACAACACCAGGGAAGCAAGACTCG
*
778133 CCGTTGCGG
259 CCGTCGCGG
778142 CTTCATTCTTTTAAATTGCAATGTTGAGGAAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCC
1 CTTCATTCTTTTAAATTGCAATGTTGAGGAAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCC
* *
778207 ACTACACTGCCATGGGAGAAAGATTCACCGTCGTGGTTTCAATCTACTCTACTGTAATGCTAAAG
66 ACTACACCGCCA-GGGAGAAAGATTCACCGTCGTGGTTTCAATCTGCTCTACTGTAATGCTAAAG
* * * ** * **
778272 AGATAGGACTCACTACCCACAGCTTTAATTTTCTCCACTTCAACTAATCCATTCCTTAACGCTAG
130 AGATAGGATTCGCTGCCCACAGCTTTAATTCGCTCTACTTCAACTAATCCAAGCCTTAACGCTAG
* ** *
778337 GGAGATAAGATTCGCCGTCGTGGCTTCTGTCTACTCCGCTACAACACCAGGGAAGTAAGACTCGC
195 GGAGATAAGATTCGCTGTCGTGGCTTCAATCTACTCCGCTACAACACCAGGGAAGCAAGACTCGC
778402 CGTCGCGG
260 CGTCGCGG
* * * *
778410 CTTCAGTCTTTTAAATTGTAATGTTGAGG-AAACAAGATTCGCCATTGTAGCTTCAATCCGTTCC
1 CTTCATTCTTTTAAATTGCAATGTTGAGGAAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCC
** *
778474 ACTACACCGCCAAGGGAGAAAGATTCACTATCGTGGTTTTAATCTGCTC-ACTGTAATGCTAAAG
66 ACTACACCGCC-AGGGAGAAAGATTCACCGTCGTGGTTTCAATCTGCTCTACTGTAATGCTAAAG
* *
778538 AGATAGGATTCGCTGCCCACAGCTTTAATTCGCTATACTTCAACTAATCCAAGCCTTAACGTTAG
130 AGATAGGATTCGCTGCCCACAGCTTTAATTCGCTCTACTTCAACTAATCCAAGCCTTAACGCTAG
* * * ** * *
778603 GGAGATAAGATTCGTTGTCGTGGCTTCAATCTGCTTCATTACAACGCCAGGGAAGTAAGACT
195 GGAGATAAGATTCGCTGTCGTGGCTTCAATCTACTCCGCTACAACACCAGGGAAGCAAGACT
778665 TTATGATCTC
Statistics
Matches: 461, Mismatches: 59, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
266 123 0.27
267 95 0.21
268 242 0.52
269 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (267 bp):
CTTCATTCTTTTAAATTGCAATGTTGAGGAAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCC
ACTACACCGCCAGGGAGAAAGATTCACCGTCGTGGTTTCAATCTGCTCTACTGTAATGCTAAAGA
GATAGGATTCGCTGCCCACAGCTTTAATTCGCTCTACTTCAACTAATCCAAGCCTTAACGCTAGG
GAGATAAGATTCGCTGTCGTGGCTTCAATCTACTCCGCTACAACACCAGGGAAGCAAGACTCGCC
GTCGCGG
Found at i:779426 original size:25 final size:26
Alignment explanation
Indices: 779388--779436 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
779378 GTGTCTTGAA
779388 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
779413 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
779437 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:783883 original size:4 final size:4
Alignment explanation
Indices: 783874--783910 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
783864 ACCATTAATC
783874 AATA AATA AATA GAATA AATA AAT- AA-A AATA AATA AA
1 AATA AATA AATA -AATA AATA AATA AATA AATA AATA AA
783911 AATTATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 4 0.13
4 22 0.73
5 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:783892 original size:13 final size:14
Alignment explanation
Indices: 783874--783910 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
783864 ACCATTAATC
*
783874 AATAAATAAAT-AG
1 AATAAATAAATAAA
783887 AATAAATAAATAAA
1 AATAAATAAATAAA
783901 AATAAATAAA
1 AATAAATAAA
783911 AATTATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:784669 original size:16 final size:17
Alignment explanation
Indices: 784641--784674 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
784631 ATTTTCTTTG
784641 CATATAGATAAAAAAAA
1 CATATAGATAAAAAAAA
784658 CATATA-ATAAAAAAAA
1 CATATAGATAAAAAAAA
784674 C
1 C
784675 TGTAGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (17 bp):
CATATAGATAAAAAAAA
Found at i:784958 original size:26 final size:26
Alignment explanation
Indices: 784928--784977 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
784918 TGCTGTTCAT
* *
784928 GTGAAGGTCGGGGTTGCGGCGCGAAC
1 GTGAAGATCCGGGTTGCGGCGCGAAC
*
784954 GTGAAGATCCTGGTTGCGGCGCGA
1 GTGAAGATCCGGGTTGCGGCGCGA
784978 GGCTCACCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.18
Consensus pattern (26 bp):
GTGAAGATCCGGGTTGCGGCGCGAAC
Found at i:787036 original size:11 final size:11
Alignment explanation
Indices: 787009--787053 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
786999 AGATAAATAT
*
787009 TATTTAATTAA
1 TATTTTATTAA
787020 TATTTTATTAA
1 TATTTTATTAA
* *
787031 GATTTTTATTAT
1 TA-TTTTATTAA
787043 TATTTTATTAA
1 TATTTTATTAA
787054 ATGATTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:788761 original size:13 final size:13
Alignment explanation
Indices: 788745--788810 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
788735 TTTAAACCAA
788745 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
788758 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* * *
788771 ATTTTTCCACAGC
1 ACTTTTCAAAAGC
*
788784 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
788797 ACTCTTCAAAAGC
1 ACTTTTCAAAAGC
788810 A
1 A
788811 ATGAAGAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:789186 original size:7 final size:7
Alignment explanation
Indices: 789174--789231 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
789164 TGAACCTTTT
789174 TTTTCTC
1 TTTTCTC
789181 TTTTCTC
1 TTTTCTC
789188 TTTTCTCC
1 TTTTCT-C
789196 TTTT-TC
1 TTTTCTC
*
789202 CTTT-T-
1 TTTTCTC
789207 TTTTCTC
1 TTTTCTC
*
789214 TTTTTTC
1 TTTTCTC
**
789221 TCCTCTC
1 TTTTCTC
789228 TTTT
1 TTTT
789232 TTTTCTGGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 3 0.08
6 6 0.15
7 26 0.65
8 5 0.12
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCTC
Found at i:789233 original size:33 final size:33
Alignment explanation
Indices: 789168--789233 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
789158 ACAAATTGAA
**
789168 CCTTTTTTTTCTCTTTTCTCTTTTCTCCTTTTT
1 CCTTTTTTTTCTCTTTTCTCTCCTCTCCTTTTT
* *
789201 CCTTTTTTTTCTCTTTTTTCTCCTCTCTTTTTT
1 CCTTTTTTTTCTCTTTTCTCTCCTCTCCTTTTT
789234 TTCTGGCCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (33 bp):
CCTTTTTTTTCTCTTTTCTCTCCTCTCCTTTTT
Found at i:789498 original size:6 final size:6
Alignment explanation
Indices: 789475--789556 Score: 62
Period size: 6 Copynumber: 13.5 Consensus size: 6
789465 TAATTTTTTA
* *
789475 TTCTTT TTCCTT TT-TTT TTCTTT TTCTTTT TTCTTT TT-TTCT TTCTTC
1 TTCTTT TTCTTT TTCTTT TTCTTT TTC-TTT TTCTTT TTCTT-T TTCTTT
* * *
789523 TTCTTCT TCCTTC TTCTTT TT-TTT CTTTTTT TTC
1 TTCTT-T TTCTTT TTCTTT TTCTTT -TTCTTT TTC
789557 AAAAACCCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
5 9 0.15
6 36 0.60
7 15 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:789506 original size:13 final size:13
Alignment explanation
Indices: 789488--789556 Score: 74
Period size: 13 Copynumber: 5.5 Consensus size: 13
789478 TTTTTCCTTT
*
789488 TTTTTTCTTTTTC
1 TTTTTTCTTCTTC
789501 TTTTTTCTT-TT-
1 TTTTTTCTTCTTC
789512 TTTCTTTCTTCTTC
1 TTT-TTTCTTCTTC
* *
789526 TTCTTCCTTCTTC
1 TTTTTTCTTCTTC
789539 TTTTTT-TTCTT-
1 TTTTTTCTTCTTC
789550 TTTTTTC
1 TTTTTTC
789557 AAAAACCCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 9 0.19
12 13 0.27
13 24 0.50
14 2 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTCTTCTTC
Found at i:789514 original size:10 final size:10
Alignment explanation
Indices: 789468--789555 Score: 63
Period size: 10 Copynumber: 8.5 Consensus size: 10
789458 CGACTATTAA
* *
789468 TTTTTTATTC
1 TTTTTTCTTT
*
789478 TTTTTCCTTT
1 TTTTTTCTTT
789488 TTTTTTCTTT
1 TTTTTTCTTT
789498 TTCTTTT-TTCT
1 TT-TTTTCTT-T
789509 TTTTTTCTTT
1 TTTTTTCTTT
*
789519 CTTCTTCTTCTTC
1 -TT-TT-TTCTTT
* *
789532 CTTCTTC-TT
1 TTTTTTCTTT
789541 TTTTTTCTTT
1 TTTTTTCTTT
789551 TTTTT
1 TTTTT
789556 CAAAAACCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
9 6 0.10
10 35 0.57
11 12 0.20
12 3 0.05
13 5 0.08
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:789551 original size:7 final size:7
Alignment explanation
Indices: 789488--789553 Score: 55
Period size: 7 Copynumber: 8.9 Consensus size: 7
789478 TTTTTCCTTT
789488 TTTTTTC
1 TTTTTTC
789495 -TTTTTC
1 TTTTTTC
789501 TTTTTTC
1 TTTTTTC
789508 TTTTTTTC
1 -TTTTTTC
*
789516 TTTCTTC
1 TTTTTTC
789523 TTCTTCTTCC
1 TT-TT-TT-C
789533 TTCTTCTT-
1 TT-TT-TTC
789541 TTTTTTC
1 TTTTTTC
789548 TTTTTT
1 TTTTTT
789554 TTCAAAAACC
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
6 8 0.16
7 22 0.43
8 10 0.20
9 2 0.04
10 9 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:789988 original size:60 final size:59
Alignment explanation
Indices: 789880--790012 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 59
789870 CTTATGGGGC
* * * * * *
789880 CAAAACATAATTTCAAGAAAATTTAGGGGTTATAATGTAGTTTAAAAAA-TTTTAAGGGT
1 CAAAATATAATTTTAAGAAAATTTAGGGGTCAAAATGAAATTTAAAAAAGTTTT-AGGGT
* *
789939 CAAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATGAAATTTCAAAAAGTTTTAGGGT
1 C-AAAATATAATTTTAAGAAAATTTAGGGGTCAAAATGAAATTTAAAAAAGTTTTAGGGT
*
789999 CAAAATGTAATTTT
1 CAAAATATAATTTT
790013 TTTATTTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 13 0.21
60 46 0.73
61 4 0.06
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (59 bp):
CAAAATATAATTTTAAGAAAATTTAGGGGTCAAAATGAAATTTAAAAAAGTTTTAGGGT
Found at i:790010 original size:29 final size:29
Alignment explanation
Indices: 789887--790011 Score: 110
Period size: 30 Copynumber: 4.2 Consensus size: 29
789877 GGCCAAAACA
* * *
789887 TAATTTCAAGAAAATTTAGGGGTTATAATG
1 TAATTTCAA-AAATTTTAGGGGTCAAAATG
* * * *
789917 TAGTTTAAAAAATTTTAAGGGTCAAAAATA
1 TAATTTCAAAAATTTTAGGGGTC-AAAATG
*
789947 TAATTTTAGGAAAA-TTTAGGGGTCAAAATG
1 TAATTTCA--AAAATTTTAGGGGTCAAAATG
*
789977 AAATTTCAAAAAGTTTTA-GGGTCAAAATG
1 TAATTTCAAAAA-TTTTAGGGGTCAAAATG
790006 TAATTT
1 TAATTT
790012 TTTTATTTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
28 4 0.05
29 27 0.36
30 32 0.42
31 9 0.12
32 4 0.05
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (29 bp):
TAATTTCAAAAATTTTAGGGGTCAAAATG
Found at i:790772 original size:14 final size:15
Alignment explanation
Indices: 790747--790777 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
790737 AAAAAGTACG
790747 AATGAGGTTTTTTTT
1 AATGAGGTTTTTTTT
790762 AATGA-GTTTTTTTT
1 AATGAGGTTTTTTTT
790776 AA
1 AA
790778 GTATTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (15 bp):
AATGAGGTTTTTTTT
Found at i:793870 original size:47 final size:47
Alignment explanation
Indices: 793801--793896 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
793791 ACGAGAAAGG
*
793801 ATTAGCACCCTCGTAATGCCCAAAATTGGTACCTAGTTGATTAATTA
1 ATTAGCACCCTCGTAACGCCCAAAATTGGTACCTAGTTGATTAATTA
793848 ATTAGCACCCTCGTAACGCCCAAAATTGGTACCTAGTTGATTAATTA
1 ATTAGCACCCTCGTAACGCCCAAAATTGGTACCTAGTTGATTAATTA
793895 AT
1 AT
793897 GTCTTAACGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (47 bp):
ATTAGCACCCTCGTAACGCCCAAAATTGGTACCTAGTTGATTAATTA
Found at i:794292 original size:125 final size:126
Alignment explanation
Indices: 794160--794468 Score: 338
Period size: 126 Copynumber: 2.5 Consensus size: 126
794150 AGAAAAACTA
* * * * *
794160 AAACCCCGTAAGTTAAGGTATGGTTTCTCGAATTACCAAAACACGAAG-TGTTAT-C-TAACGAA
1 AAACCCCGTAAGTTAGGGTACGATTTCTCGAATTACCAAAACACAAAGATATT-TCCTTAACGAA
* * * * *
794222 ATTTATTTCATTTTTGAAAACTTTAAAAGGATACTTTGCTATTTAGGTTTAGCGAGAAAACCG
65 ATTCATTTCACTTTTGAAAAC-TTAAAAGGATACTTCGCTATCTAGGTTTAACGAGAAAACCG
* * * *
794285 AAACCCCGTAAGTTAGGGTACGATCTCTCGAATTACCAAAACGCAAAGATATTTCCTTATCGAGA
1 AAACCCCGTAAGTTAGGGTACGATTTCTCGAATTACCAAAACACAAAGATATTTCCTTAACGAAA
* * * * ** **
794350 TTCCTTTTACTTTTGAAATCTTAAAAGGATACTTCGTTATCTCTGTTTAACGAGAAAATTG
66 TTCATTTCACTTTTGAAAACTTAAAAGGATACTTCGCTATCTAGGTTTAACGAGAAAACCG
* * * *
794411 AAACCCCGTAAGTTAGGGTACAATTTCTCGAATTTCCAAAACGCAAA-ATATTGCCTTA
1 AAACCCCGTAAGTTAGGGTACGATTTCTCGAATTACCAAAACACAAAGATATTTCCTTA
794469 TTTTAAAATT
Statistics
Matches: 155, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
125 53 0.34
126 81 0.52
127 21 0.14
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (126 bp):
AAACCCCGTAAGTTAGGGTACGATTTCTCGAATTACCAAAACACAAAGATATTTCCTTAACGAAA
TTCATTTCACTTTTGAAAACTTAAAAGGATACTTCGCTATCTAGGTTTAACGAGAAAACCG
Found at i:794414 original size:126 final size:126
Alignment explanation
Indices: 794233--794469 Score: 341
Period size: 126 Copynumber: 1.9 Consensus size: 126
794223 TTTATTTCAT
* * *
794233 TTTTGAAAACTTTAAAAGGATACTTTGCTATTTAGGTTTAGCGAGAAAACCGAAACCCCGTAAGT
1 TTTTGAAAACTTTAAAAGGATACTTCGCTATCTAGGTTTAACGAGAAAACCGAAACCCCGTAAGT
* *
794298 TAGGGTACGATCTCTCGAATTACCAAAACGCAAAGATATTTCCTTATCGAGATTCCTTTTAC
66 TAGGGTACAATCTCTCGAATTACCAAAACGCAAA-ATATTGCCTTATCGAGATTCCTTTTAC
* * ** **
794360 TTTTGAAATC-TTAAAAGGATACTTCGTTATCTCTGTTTAACGAGAAAATTGAAACCCCGTAAGT
1 TTTTGAAAACTTTAAAAGGATACTTCGCTATCTAGGTTTAACGAGAAAACCGAAACCCCGTAAGT
* *
794424 TAGGGTACAATTTCTCGAATTTCCAAAACGCAAAATATTGCCTTAT
66 TAGGGTACAATCTCTCGAATTACCAAAACGCAAAATATTGCCTTAT
794470 TTTAAAATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
125 11 0.11
126 77 0.79
127 9 0.09
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (126 bp):
TTTTGAAAACTTTAAAAGGATACTTCGCTATCTAGGTTTAACGAGAAAACCGAAACCCCGTAAGT
TAGGGTACAATCTCTCGAATTACCAAAACGCAAAATATTGCCTTATCGAGATTCCTTTTAC
Found at i:795212 original size:259 final size:259
Alignment explanation
Indices: 794751--795251 Score: 745
Period size: 259 Copynumber: 1.9 Consensus size: 259
794741 CTATTCCAAG
* * *
794751 CCAGGGAGATAAGATTCACTGCCCTTAGCTTTAATCTACTCCGCTGCATCGCCAGGGAAACAAGA
1 CCAGGGAGATAAGATCCACTGCCCTTAGCTTTAATCTACTCCGCTACATCACCAGGGAAACAAGA
* *
794816 TTTGCTACCTTTATCTTTAATCTATTTCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAA
66 TTTGCTACCTTTAGCTTTAATATATTTCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAA
*
794881 CTTTAATCCGCTCCACTTCAGCTATTCCATTCCACTGCAACGCCAGGGAAACAAGATTCATTACC
131 CTTTAATCCGCTCCACTTCAGCTATTCCATTCCACTGCAACGCCAGGGAAACAAGATTCACTACC
*
794946 TTTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAGTAAGACTGGTTACTTTCAGCCTTAACA
196 GTTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAGTAAGACTGGTTACTTTCAGCCTTAACA
** * *
795010 CCAGGGAGATAAGATCCGTTGCCCTTAGCTTTAATCTGCTCCGCTACAAT-ACCAGGGAAACCAG
1 CCAGGGAGATAAGATCCACTGCCCTTAGCTTTAATCTACTCCGCTAC-ATCACCAGGGAAACAAG
* *
795074 ATTTGCTACCTTTAGCTTTAATATA-TTCTACTGTAATGCCAAAGAGATAGGATTCGCTGCCCTC
65 ATTTGCTACCTTTAGCTTTAATATATTTC-ACTGTAATGCCAAAGAGATAGGATTCACTGCCCAC
* * * * * * *
795138 AGCTTTAATCTGCTCTACTTTAGCTATTTCATTCCACTGCAACGCTAGGGAAACAAGATTCGCTA
129 AACTTTAATCCGCTCCACTTCAGCTATTCCATTCCACTGCAACGCCAGGGAAACAAGATTCACTA
* ** * *
795203 CCGTTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAGTGAGACTGGT
194 CCGTTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAGTAAGACTGGT
795252 GTCTTCAATC
Statistics
Matches: 215, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
258 3 0.01
259 210 0.98
260 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (259 bp):
CCAGGGAGATAAGATCCACTGCCCTTAGCTTTAATCTACTCCGCTACATCACCAGGGAAACAAGA
TTTGCTACCTTTAGCTTTAATATATTTCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAA
CTTTAATCCGCTCCACTTCAGCTATTCCATTCCACTGCAACGCCAGGGAAACAAGATTCACTACC
GTTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAGTAAGACTGGTTACTTTCAGCCTTAACA
Found at i:796562 original size:10 final size:9
Alignment explanation
Indices: 796545--796590 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
796535 TTGGCCTCTC
796545 TATTTTTTT
1 TATTTTTTT
796554 TATTTTTTT
1 TATTTTTTT
796563 TATTTTTGGTT
1 TATTTTT--TT
*
796574 TA--TTTAT
1 TATTTTTTT
796581 TATTTTTTT
1 TATTTTTTT
796590 T
1 T
796591 GGACTCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 3 0.10
9 24 0.77
11 4 0.13
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (9 bp):
TATTTTTTT
Done.