Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 6 of 25
Found at i:768745 original size:25 final size:23
Alignment explanation
Indices: 768708--768754 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
768698 TTTTTTTAAC
*
768708 TTTAATTTTTTTAAATCTAAAAT
1 TTTAATTTTTTTAAATATAAAAT
768731 TTTAATTTTTATTTAAATATAAAA
1 TTTAA-TTTT-TTTAAATATAAAA
768755 CAAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 4 0.19
25 12 0.57
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAATTTTTTTAAATATAAAAT
Found at i:775074 original size:49 final size:49
Alignment explanation
Indices: 775019--775116 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
775009 TTGATTCTTG
775019 CTTTTCCATATCTCATATGGTGTCTTATCAATTGACTTAGTTGGAATCT
1 CTTTTCCATATCTCATATGGTGTCTTATCAATTGACTTAGTTGGAATCT
775068 CTTTTCCATATCTCATATGGTGTCTTATCAATTGACTTAGTTGGAATCT
1 CTTTTCCATATCTCATATGGTGTCTTATCAATTGACTTAGTTGGAATCT
775117 TACTTAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.45
Consensus pattern (49 bp):
CTTTTCCATATCTCATATGGTGTCTTATCAATTGACTTAGTTGGAATCT
Found at i:778842 original size:20 final size:20
Alignment explanation
Indices: 778813--778854 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
778803 ACTAGCATAG
*
778813 TTCCTAGCAAGACAAGGTCT
1 TTCCTAGCAAGACAAGGCCT
*
778833 TTCCTGGCAAGACAAGGCCT
1 TTCCTAGCAAGACAAGGCCT
778853 TT
1 TT
778855 TGCCTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
TTCCTAGCAAGACAAGGCCT
Found at i:783134 original size:20 final size:19
Alignment explanation
Indices: 783108--783179 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
783098 AAGATATAAC
783108 GTATCGATACATTGAAGAAT
1 GTATCGATACATTGAA-AAT
* * *
783128 ATATCGATACATTCATACAT
1 GTATCGATACATTGA-AAAT
*
783148 GTATCGATATATTGAAAAAT
1 GTATCGATACATTG-AAAAT
783168 GTATCGATACAT
1 GTATCGATACAT
783180 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (19 bp):
GTATCGATACATTGAAAAT
Found at i:784791 original size:12 final size:13
Alignment explanation
Indices: 784767--784800 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
784757 GGACTTTTGC
784767 TTTC-AGCCACAT
1 TTTCTAGCCACAT
784779 TTTCTAGCC-CAT
1 TTTCTAGCCACAT
784791 TTTCTAGCCA
1 TTTCTAGCCA
784801 AATCTCAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.38
Consensus pattern (13 bp):
TTTCTAGCCACAT
Found at i:797619 original size:41 final size:41
Alignment explanation
Indices: 797542--797619 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
797532 TCTGCTTACC
* *
797542 ATTTAATTTTACTTATTTATCATTATTATTTACTTTATACA
1 ATTTAATTTTACTTATTTATAATTATAATTTACTTTATACA
*
797583 ATTTAATTTTTATTTATTT-TAATTCATAATTT-CTTTA
1 ATTTAA-TTTTACTTATTTATAATT-ATAATTTACTTTA
797620 CTTAATTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 15 0.47
42 17 0.53
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (41 bp):
ATTTAATTTTACTTATTTATAATTATAATTTACTTTATACA
Found at i:799602 original size:35 final size:35
Alignment explanation
Indices: 799563--799633 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
799553 AAAATCACAT
799563 ATTTTATTTATATATAAAAAATTAACTTTGATTTA
1 ATTTTATTTATATATAAAAAATTAACTTTGATTTA
* *
799598 ATTTTATTTATATATAAAAATTTAATTTTGATTTA
1 ATTTTATTTATATATAAAAAATTAACTTTGATTTA
799633 A
1 A
799634 AGCATACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (35 bp):
ATTTTATTTATATATAAAAAATTAACTTTGATTTA
Found at i:799837 original size:15 final size:16
Alignment explanation
Indices: 799817--799846 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
799807 AATTAAATGT
799817 TAAATCC-AAATCATA
1 TAAATCCAAAATCATA
799832 TAAATCCAAAATCAT
1 TAAATCCAAAATCAT
799847 CCAAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAATCCAAAATCATA
Found at i:800290 original size:13 final size:13
Alignment explanation
Indices: 800272--800297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
800262 CATCATTAAA
800272 AATAAAATAATTT
1 AATAAAATAATTT
800285 AATAAAATAATTT
1 AATAAAATAATTT
800298 TTTTAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATAAAATAATTT
Found at i:800671 original size:11 final size:11
Alignment explanation
Indices: 800641--800675 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
800631 AACTAAAAGA
800641 TTTAAAATAAT
1 TTTAAAATAAT
*
800652 TAATAAAATAAT
1 T-TTAAAATAAT
800664 TTTAAAATAAT
1 TTTAAAATAAT
800675 T
1 T
800676 GTTTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTTAAAATAAT
Found at i:806998 original size:42 final size:42
Alignment explanation
Indices: 806943--807061 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
806933 TTCTTCTCTC
* *
806943 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCATGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* *
806985 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
* * *
807027 CTCCTCCTATCATCCCTCATCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
807062 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.10, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCATGTCT
Found at i:810873 original size:8 final size:8
Alignment explanation
Indices: 810860--810889 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
810850 AACTATACTG
810860 AAAATTGA
1 AAAATTGA
810868 AAAATTGA
1 AAAATTGA
810876 AAAATTGA
1 AAAATTGA
810884 AAAATT
1 AAAATT
810890 AATTTTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (8 bp):
AAAATTGA
Found at i:813985 original size:29 final size:29
Alignment explanation
Indices: 813927--814080 Score: 91
Period size: 29 Copynumber: 5.2 Consensus size: 29
813917 CGCCACATTG
* * *
813927 ATTAAAGTATTCTTAAGTTTTAAATAAATT
1 ATTAAAGTAATATTAA-TTTGAAATAAATT
813957 ATTAAAGTAATATTAATTTGAAATAAATT
1 ATTAAAGTAATATTAATTTGAAATAAATT
* * **
813986 ATTTATTA-TAATA--AATCTTG-CATCACTTT
1 A-TTA-AAGTAATATTAAT-TTGAAAT-AAATT
** * *
814015 GATTAAAGTGCTCTTAAATTTTAAATAAATT
1 -ATTAAAGTAATATT-AATTTGAAATAAATT
* * *
814046 ATTAAAATAATATTAATGTAAAATAAATT
1 ATTAAAGTAATATTAATTTGAAATAAATT
814075 ATTAAA
1 ATTAAA
814081 ACACTATTAT
Statistics
Matches: 93, Mismatches: 21, Indels: 21
0.69 0.16 0.16
Matches are distributed among these distances:
28 6 0.06
29 43 0.46
30 33 0.35
31 6 0.06
32 5 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (29 bp):
ATTAAAGTAATATTAATTTGAAATAAATT
Found at i:814043 original size:11 final size:12
Alignment explanation
Indices: 814029--814080 Score: 52
Period size: 16 Copynumber: 4.0 Consensus size: 12
814019 AAAGTGCTCT
814029 TAAATT-TTAAA
1 TAAATTATTAAA
814040 TAAATTATTAAAA
1 TAAATTATT-AAA
814053 TAATATTAATGTAAAA
1 TAA-ATT-AT-T-AAA
814069 TAAATTATTAAA
1 TAAATTATTAAA
814081 ACACTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.17
12 5 0.14
13 7 0.19
14 5 0.14
15 5 0.14
16 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TAAATTATTAAA
Found at i:814051 original size:89 final size:89
Alignment explanation
Indices: 813900--814077 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 89
813890 ATGATGTGAC
* * * *
813900 TATTATAACAAACCTTGCGCCACATTGATTAAAGTATTCTTAAGTTTTAAATAAATTATTAAAGT
1 TATTATAACAAACCTTGCACCACATTGATTAAAGTACTCTTAAATTTTAAATAAATTATTAAAAT
* *
813965 AATATTAATTTGAAATAAATTATT
66 AATATTAATGTAAAATAAATTATT
* * * * *
813989 TATTATAATAAATCTTGCATCACTTTGATTAAAGTGCTCTTAAATTTTAAATAAATTATTAAAAT
1 TATTATAACAAACCTTGCACCACATTGATTAAAGTACTCTTAAATTTTAAATAAATTATTAAAAT
814054 AATATTAATGTAAAATAAATTATT
66 AATATTAATGTAAAATAAATTATT
814078 AAAACACTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (89 bp):
TATTATAACAAACCTTGCACCACATTGATTAAAGTACTCTTAAATTTTAAATAAATTATTAAAAT
AATATTAATGTAAAATAAATTATT
Found at i:814055 original size:13 final size:13
Alignment explanation
Indices: 814029--814081 Score: 65
Period size: 13 Copynumber: 4.0 Consensus size: 13
814019 AAAGTGCTCT
814029 TAAATT-TT-AAA
1 TAAATTATTAAAA
814040 TAAATTATTAAAA
1 TAAATTATTAAAA
814053 TAATATTAATGTAAAA
1 TAA-ATT-AT-TAAAA
814069 TAAATTATTAAAA
1 TAAATTATTAAAA
814082 CACTATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.16
12 2 0.05
13 11 0.30
14 5 0.14
15 5 0.14
16 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (13 bp):
TAAATTATTAAAA
Found at i:814441 original size:15 final size:15
Alignment explanation
Indices: 814421--814450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
814411 TAATAGTTTT
814421 TATTATTAAAAATAA
1 TATTATTAAAAATAA
*
814436 TATTATTATAAATAA
1 TATTATTAAAAATAA
814451 AATAATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTATTAAAAATAA
Found at i:814442 original size:42 final size:42
Alignment explanation
Indices: 814385--814474 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
814375 TATTATTAAC
* *
814385 AAAAGATAATATTATTATAAATATAATAATAGTTTTTATTATT
1 AAAA-ATAATATTATTATAAATAAAATAATAATTTTTATTATT
814428 AAAAATAATATTATTATAAATAAAATAATAATTTTTATTATT
1 AAAAATAATATTATTATAAATAAAATAATAATTTTTATTATT
814470 AAAAA
1 AAAAA
814475 ATTATTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (42 bp):
AAAAATAATATTATTATAAATAAAATAATAATTTTTATTATT
Found at i:814555 original size:27 final size:27
Alignment explanation
Indices: 814525--814581 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
814515 TAAATTGCAA
*
814525 TTAG-GTAATTATTTTAAAATATTTAAT
1 TTAGTGTAATTAATTTAAAAT-TTTAAT
* **
814552 TTAGTTTGTTTAATTTAAAATTTTAAT
1 TTAGTGTAATTAATTTAAAATTTTAAT
814579 TTA
1 TTA
814582 CGTTATAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (27 bp):
TTAGTGTAATTAATTTAAAATTTTAAT
Found at i:814668 original size:30 final size:31
Alignment explanation
Indices: 814633--814692 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
814623 ATATAATTAA
* *
814633 TAAGAGTTGTAATCAT-TTATTATTTTAAAT
1 TAAGAGTAGTAATCATCTAATTATTTTAAAT
*
814663 TAAGAGTAGTAATCCTCTAATTATTTTAAA
1 TAAGAGTAGTAATCATCTAATTATTTTAAA
814693 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (31 bp):
TAAGAGTAGTAATCATCTAATTATTTTAAAT
Found at i:814721 original size:37 final size:34
Alignment explanation
Indices: 814678--814763 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 34
814668 GTAGTAATCC
* *
814678 TCTAATTATTTTAAAATTTTAATTTATGTTATAATT
1 TCTAATTATTTTAAAATTATAA-TTAT-TTAAAATT
*
814714 GTCTAATTATTTTTCAAATTATAATTATTTAAAATT
1 -TCTAATTA-TTTTAAAATTATAATTATTTAAAATT
814750 T-TAATTATTTTAAA
1 TCTAATTATTTTAAA
814764 TTGCTAAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
33 6 0.14
34 6 0.14
35 1 0.02
36 7 0.16
37 12 0.27
38 12 0.27
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (34 bp):
TCTAATTATTTTAAAATTATAATTATTTAAAATT
Found at i:814740 original size:18 final size:18
Alignment explanation
Indices: 814717--814760 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
814707 TATAATTGTC
*
814717 TAATTATTTTTCAAATTA
1 TAATTATTTTTAAAATTA
*
814735 TAATTA--TTTAAAATTT
1 TAATTATTTTTAAAATTA
814751 TAATTATTTT
1 TAATTATTTT
814761 AAATTGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 14 0.64
18 8 0.36
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTATTTTTAAAATTA
Found at i:814845 original size:31 final size:32
Alignment explanation
Indices: 814810--814869 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
814800 TACAATCTTT
814810 AATAATTAGATAACTACAAC-CTAAATTTTAA
1 AATAATTAGATAACTACAACTCTAAATTTTAA
* * *
814841 AATAATTAGATTATTACAACTCTTAATTT
1 AATAATTAGATAACTACAACTCTAAATTT
814870 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (32 bp):
AATAATTAGATAACTACAACTCTAAATTTTAA
Found at i:814916 original size:39 final size:39
Alignment explanation
Indices: 814839--814917 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 39
814829 CCTAAATTTT
* *
814839 AAAATAATTAGATTATTACAACTCTTAATTTAAATTTAA
1 AAAATAATTAGATGATTACAACTCTTAATTAAAATTTAA
814878 AAAATAATTAGATGATTACAA-T-TTAAATTAAAAGTTTAA
1 AAAATAATTAGATGATTACAACTCTT-AATTAAAA-TTTAA
814917 A
1 A
814918 TCAAATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 2 0.06
38 8 0.22
39 26 0.72
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (39 bp):
AAAATAATTAGATGATTACAACTCTTAATTAAAATTTAA
Found at i:815053 original size:19 final size:19
Alignment explanation
Indices: 815013--815065 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
815003 TAAAAACTAT
* *
815013 TATTATATTTTA-TAATAA
1 TATTATCTTTTATTAACAA
815031 TATTATCTTTTATTAACAA
1 TATTATCTTTTATTAACAA
*
815050 TATTATCATTTATTAA
1 TATTATCTTTTATTAA
815066 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTATCTTTTATTAACAA
Found at i:815971 original size:26 final size:25
Alignment explanation
Indices: 815942--815991 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
815932 TAAAATATTC
* *
815942 TAAAGAGTTTAACTTTGTAGATCAAA
1 TAAAAAGTTTAACTTGGTA-ATCAAA
815968 TAAAAAGTTTAACTTGGTAATCAA
1 TAAAAAGTTTAACTTGGTAATCAA
815992 TATATTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (25 bp):
TAAAAAGTTTAACTTGGTAATCAAA
Found at i:819157 original size:90 final size:90
Alignment explanation
Indices: 818995--819178 Score: 316
Period size: 90 Copynumber: 2.1 Consensus size: 90
818985 ACTTAAAAAT
* *
818995 CTTTAGTCTGTTACTTATAAAAGTGTACTGTAACAACAAAGCAACAATCTCCATTGCCCATAATC
1 CTTTAGTCTGTTACATATAAAAGTGTACTGCAACAACAAAGCAACAATCTCCATTGCCCATAATC
* *
819060 TATTTTTTTATGGAAGAACTAAACA
66 TAGTTTTTTATGAAAGAACTAAACA
*
819085 CTTTTGTCTGTTACATATAAAAGTGTACTGCAACAACAAAGCAACAATCTCCATTGCCCATAATC
1 CTTTAGTCTGTTACATATAAAAGTGTACTGCAACAACAAAGCAACAATCTCCATTGCCCATAATC
819150 TAGTTTTTTATGAAAGAACTAAACA
66 TAGTTTTTTATGAAAGAACTAAACA
819175 -TTTA
1 CTTTA
819179 AAGTTGATAG
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 3 0.03
90 85 0.97
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (90 bp):
CTTTAGTCTGTTACATATAAAAGTGTACTGCAACAACAAAGCAACAATCTCCATTGCCCATAATC
TAGTTTTTTATGAAAGAACTAAACA
Found at i:819741 original size:33 final size:33
Alignment explanation
Indices: 819699--819764 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
819689 ATTTTTTTGG
819699 GGGCATGTGAGGTGTAATTTCTTTAGTTATGAT
1 GGGCATGTGAGGTGTAATTTCTTTAGTTATGAT
819732 GGGCATGTGAGGTGTAATTTCTTTAGTTATGAT
1 GGGCATGTGAGGTGTAATTTCTTTAGTTATGAT
819765 AAATTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.06, G:0.30, T:0.42
Consensus pattern (33 bp):
GGGCATGTGAGGTGTAATTTCTTTAGTTATGAT
Found at i:820955 original size:2 final size:2
Alignment explanation
Indices: 820948--821000 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
820938 CTACATAAAC
820948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
820990 AT AT AT AT AT A
1 AT AT AT AT AT A
821001 AGCATTTCGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:821494 original size:17 final size:18
Alignment explanation
Indices: 821461--821499 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
821451 TATGTAGGTG
821461 AAAATGATAATATTTTTA
1 AAAATGATAATATTTTTA
821479 AAAAT-AT-ATATATTTTA
1 AAAATGATAATAT-TTTTA
821496 AAAA
1 AAAA
821500 AATAAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAATGATAATATTTTTA
Found at i:821500 original size:18 final size:18
Alignment explanation
Indices: 821461--821500 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
821451 TATGTAGGTG
*
821461 AAAATGATAATATTTTTA
1 AAAATGATAATATTTTAA
821479 AAAAT-ATATATATTTTAA
1 AAAATGATA-ATATTTTAA
821497 AAAA
1 AAAA
821501 ATAAGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATGATAATATTTTAA
Found at i:822288 original size:20 final size:20
Alignment explanation
Indices: 822265--822302 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
822255 GTAATGAATT
*
822265 AAAGTTAACTAAGGAAAAAA
1 AAAGTTAACCAAGGAAAAAA
822285 AAAGTTAACCAAGGAAAA
1 AAAGTTAACCAAGGAAAA
822303 TATTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAGTTAACCAAGGAAAAAA
Found at i:823833 original size:3 final size:3
Alignment explanation
Indices: 823825--823859 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
823815 AAACTGCTAT
823825 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
823860 TGTATTGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:828003 original size:18 final size:18
Alignment explanation
Indices: 827984--828048 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
827974 TGAATTTAAT
* *
827984 ATTATTAAATTAAGTAAT
1 ATTATAAAATTAAGTAAA
*
828002 ATTAATTAAATTAA-TAAA
1 ATT-ATAAAATTAAGTAAA
*
828020 AATATAAAAATTAAGTAAA
1 ATTAT-AAAATTAAGTAAA
828039 ATTATAAAAT
1 ATTATAAAAT
828049 CAAAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.05
18 20 0.50
19 18 0.45
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
ATTATAAAATTAAGTAAA
Found at i:828032 original size:27 final size:25
Alignment explanation
Indices: 828002--828064 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
827992 ATTAAGTAAT
828002 ATTAATTAAATTAATAAAAAT-ATAAAA
1 ATTAATTAAATT-AT-AAAATCA-AAAA
*
828029 ATTAAGTAAAATTATAAAATCAAAAA
1 ATTAA-TTAAATTATAAAATCAAAAA
*
828055 ATTAAATAAA
1 ATTAATTAAA
828065 AATAATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.10
26 14 0.45
27 8 0.26
28 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
ATTAATTAAATTATAAAATCAAAAA
Found at i:830351 original size:18 final size:18
Alignment explanation
Indices: 830330--830368 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
830320 TAATAAGTAA
*
830330 TTTAATCTATTTATAACT
1 TTTAATCTAATTATAACT
* *
830348 TTTAATTTAATTATATCT
1 TTTAATCTAATTATAACT
830366 TTT
1 TTT
830369 TATTATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATCTAATTATAACT
Found at i:831326 original size:20 final size:20
Alignment explanation
Indices: 831303--831356 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
831293 CATAAGTAAA
831303 TGTATCGATACATTATCCAT
1 TGTATCGATACATTATCCAT
831323 TGTATCGATACATTATCCAT
1 TGTATCGATACATTATCCAT
831343 TGTATCGATACATT
1 TGTATCGATACATT
831357 CTGGGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTATCCAT
Found at i:832324 original size:20 final size:21
Alignment explanation
Indices: 832299--832338 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
832289 TCTAAACAGC
832299 CCATGTT-CATGCATTTTAAG
1 CCATGTTCCATGCATTTTAAG
832319 CCATGTTCCATGCATTTTAA
1 CCATGTTCCATGCATTTTAA
832339 CATGTCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
CCATGTTCCATGCATTTTAAG
Found at i:834723 original size:22 final size:22
Alignment explanation
Indices: 834695--834746 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
834685 ATGTTTTGAC
834695 CGGTCATTGGTTTCGTCAGTTT
1 CGGTCATTGGTTTCGTCAGTTT
*
834717 CGGTCATTGGTTTCGTTAGTTT
1 CGGTCATTGGTTTCGTCAGTTT
*
834739 CAGTCATT
1 CGGTCATT
834747 ATTTAGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (22 bp):
CGGTCATTGGTTTCGTCAGTTT
Found at i:839757 original size:30 final size:29
Alignment explanation
Indices: 839716--839877 Score: 91
Period size: 30 Copynumber: 5.5 Consensus size: 29
839706 AAATCTTTTT
*
839716 CCTTCTTCAAAGTCCACGACTTAGTGGCGTC
1 CCTTC-TCAAAGTCCACGACTCAGTGGC-TC
* *
839747 CCTTCTCAAAGTCGACGACTCAGTGGCATTT
1 CCTTCTCAAAGTCCACGACTCAGTGGC--TC
** * *
839778 TTTTTTCAAAGTCCACAACTCAGTGGCATCC
1 CCTTCTCAAAGTCCACGACTCAGTGGC-T-C
* * *
839809 TCCTTC-C-AAGTCCACGACTTAATGGCAC
1 -CCTTCTCAAAGTCCACGACTCAGTGGCTC
* * * * *
839837 CCTTTTTAAAGTCCACAACTCCGT-GCAC
1 CCTTCTCAAAGTCCACGACTCAGTGGCTC
839865 CCTT-TC-AAGTCCA
1 CCTTCTCAAAGTCCA
839878 TAACTCTGTG
Statistics
Matches: 101, Mismatches: 25, Indels: 15
0.72 0.18 0.11
Matches are distributed among these distances:
26 7 0.07
27 5 0.05
28 9 0.09
29 12 0.12
30 37 0.37
31 29 0.29
32 2 0.02
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (29 bp):
CCTTCTCAAAGTCCACGACTCAGTGGCTC
Found at i:839820 original size:61 final size:60
Alignment explanation
Indices: 839716--839877 Score: 149
Period size: 61 Copynumber: 2.8 Consensus size: 60
839706 AAATCTTTTT
* * * * * * *
839716 CCTTCTTCAAAGTCCACGACTTAGTGGCGTCCCTTCTCAAAGTCGACGACTCAGTGGCATT
1 CCTTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTCAAAGTCCACGACTCAATGGCA-C
** *
839777 TTTTTTTCAAAGTCCACAACTCAGTGGCATCCTCCTTC-C-AAGTCCACGACTTAATGGCAC
1 CCTTTTTCAAAGTCCACAACTCAGTGGCAT-C-CCTTCTCAAAGTCCACGACTCAATGGCAC
*
839837 CCTTTTT-AAAGTCCACAACTCCGT-GCA-CCCTT-TC-AAGTCCA
1 CCTTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTCAAAGTCCA
839878 TAACTCTGTG
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
55 12 0.14
56 1 0.01
58 3 0.04
59 16 0.19
60 5 0.06
61 41 0.48
62 2 0.02
63 5 0.06
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (60 bp):
CCTTTTTCAAAGTCCACAACTCAGTGGCATCCCTTCTCAAAGTCCACGACTCAATGGCAC
Found at i:839913 original size:33 final size:33
Alignment explanation
Indices: 839871--840252 Score: 176
Period size: 33 Copynumber: 12.3 Consensus size: 33
839861 GCACCCTTTC
*
839871 AAGTCCATAACTCTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
* * *
839904 AAGTCCATAACT-TATGGCACCCTTTGTTCTTTTA
1 AAGTCCACAACTCTGTGGCA-CCTTT-TTCTTTTT
* *
839938 AAGTCTACAACTCCGTGGCACC-----C-TTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
** ** *
839965 AAGTCCACAACTCCATGGCATATTTTTCTTCTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
* * *
839998 AAGTCCACAACTCCGTTGCA--TTTGTTCTTTTA
1 AAGTCCACAACTCTGTGGCACCTTT-TTCTTTTT
* * *
840030 AAGTCCACAACTATATGGCA-C----TC-TTCT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
* *
840057 AAGTCCACAACTTTGTGGCACATTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
*
840090 AAGTCCACAACTCCGTGATGC-CC--TTTC-----
1 AAGTCCACAACTCTGTG--GCACCTTTTTCTTTTT
* * ** *
840117 AAGTCTATAACTCCATGGCACCTCTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
* * * *
840150 AACTCTATAACTAC-ATGGCACC----TC--TTT
1 AAGTCCACAACT-CTGTGGCACCTTTTTCTTTTT
* *
840177 AAGTCCATAACTCTGTGGCACCTTTTTCTTTTA
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
* * *
840210 AAGTCCATAACTTTGTGGCACCCTTTTGCTTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTTCTTTTT
*
840244 AAGCCCACA
1 AAGTCCACA
840253 GAAGTCGATG
Statistics
Matches: 271, Mismatches: 42, Indels: 71
0.71 0.11 0.18
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 75 0.28
28 7 0.03
29 2 0.01
31 5 0.02
32 35 0.13
33 96 0.35
34 39 0.14
35 7 0.03
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
Found at i:839974 original size:27 final size:28
Alignment explanation
Indices: 839932--839984 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
839922 ACCCTTTGTT
* *
839932 CTTTTAAAGTCTACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCATGGCACC
839960 CTTTT-AAGTCCACAACTCCATGGCA
1 CTTTTAAAGTCCACAACTCCATGGCA
839985 TATTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCATGGCACC
Found at i:839991 original size:27 final size:27
Alignment explanation
Indices: 839933--839991 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
839923 CCCTTTGTTC
* * * *
839933 TTTTAAAGTCTACAACTCCGTGGCACC
1 TTTTTAAGTCCACAACTCCATGGCACA
* *
839960 CTTTTAAGTCCACAACTCCATGGCATA
1 TTTTTAAGTCCACAACTCCATGGCACA
839987 TTTTT
1 TTTTT
839992 CTTCTTAAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (27 bp):
TTTTTAAGTCCACAACTCCATGGCACA
Found at i:840060 original size:92 final size:92
Alignment explanation
Indices: 839840--840105 Score: 277
Period size: 92 Copynumber: 2.9 Consensus size: 92
839830 ATGGCACCCT
* * * ** * *
839840 TTTTAAAGTCCACAACTCCGT-GCACCCTT-TCAAGTCCATAACTCTGTGGCACCTTTTTCTTTT
1 TTTTAAAGTCCACAACTACATGGCACCCTTCT-AAGTCCACAACTCCATGGCACATTTTTCTTCT
* ** *
839903 TAAGTCCATAACT-TATGGCACCCTTTGTTC
65 TAAGTCCACAACTCCGTTGCA---TTTGTTC
* * * * *
839933 TTTTAAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATATTTTTCTTCTT
1 TTTTAAAGTCCACAACTACATGGCACCCTTCTAAGTCCACAACTCCATGGCACATTTTTCTTCTT
839998 AAGTCCACAACTCCGTTGCATTTGTTC
66 AAGTCCACAACTCCGTTGCATTTGTTC
* * *** *
840025 TTTTAAAGTCCACAACTATATGGCACTCTTCTAAGTCCACAACTTTGTGGCACATTTTTCTTTTT
1 TTTTAAAGTCCACAACTACATGGCACCCTTCTAAGTCCACAACTCCATGGCACATTTTTCTTCTT
840090 AAGTCCACAACTCCGT
66 AAGTCCACAACTCCGT
840106 GATGCCCTTT
Statistics
Matches: 148, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
92 77 0.52
93 20 0.14
94 46 0.31
95 5 0.03
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (92 bp):
TTTTAAAGTCCACAACTACATGGCACCCTTCTAAGTCCACAACTCCATGGCACATTTTTCTTCTT
AAGTCCACAACTCCGTTGCATTTGTTC
Found at i:840231 original size:60 final size:60
Alignment explanation
Indices: 839996--840221 Score: 201
Period size: 60 Copynumber: 3.8 Consensus size: 60
839986 ATTTTTCTTC
* *
839996 TTAAGTCCACAACTCCGTTGCA--TTTGTTCTTTTAAAGTCCACAACTATATGGCA-CTCT
1 TTAAGTCCACAACTCCGTGGCACCTTT-TTCTTTTAAAGTCCACAACTACATGGCACCTCT
** * * * *
840054 TCTAAGTCCACAACTTTGTGGCACATTTTTCTTTTTAAGTCCACAACTCCGTGATGC-CCT-T
1 T-TAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTACATG--GCACCTCT
* * * * * * * * *
840115 TCAAGTCTATAACTCCATGGCACCTCTTTCTTTTTAACTCTATAACTACATGGCACCTCT
1 TTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTACATGGCACCTCT
* * *
840175 TTAAGTCCATAACTCTGTGGCACCTTTTTCTTTTAAAGTCCATAACT
1 TTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACT
840222 TTGTGGCACC
Statistics
Matches: 132, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
58 3 0.02
59 21 0.16
60 99 0.75
61 5 0.04
62 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (60 bp):
TTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTACATGGCACCTCT
Found at i:840284 original size:34 final size:32
Alignment explanation
Indices: 840244--840961 Score: 654
Period size: 31 Copynumber: 22.2 Consensus size: 32
840234 TTTGCTTTTT
* *
840244 AAGCCCACAGAAGTCGATGGCAACCCCTTTTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCC-TTTCTA
* * * *
840278 AAGCCCACACAAATTGGTGGTAACCCCTTCTTTA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTT-TCTA
* *
840312 AAGCCTACACAAGTCGGTGGCAACCCCTTCTTTA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTT-TCTA
*
840346 AAGCCTACACAAGTCGGTGGCAACCCCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTT-TCTA
* *
840380 AAGCCCATACAAGTCGGTGGCAATCCC-TTCAA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTTTCTA
*
840412 AAGCCCACACAAGTCGGTGGCAATCCC-TTCAA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTTTCTA
* *
840444 AAGCCCACAAAAGTCAGTGGCAACCCTTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCC-TT-TCTA
* * * *
840478 AAG-CCACACAAATTGGTGGCAACCCCTTCAA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* *
840509 AAGCTCACACAAGTCGATGGCAACCCCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTT-TCTA
* *
840543 AAGCCCACATAAGTCGGTGGTAACCCTTTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCC-TTTCTA
* *
840576 AAGTCCACACAAGTCAGTGGCAA--CTATTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCT-TTCTA
* * *
840607 AAGTCCACATAAGTTGGTGGCAACCCTTT-TA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* *
840638 AAGTCCACACAAGTCGGTGGTAA-CCTTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* *
840669 AAGTCCACACAAGTCGGTGGCAACCC-TTCTC
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* ** * *
840700 AAGTCCACACAAGTCATTGGTAACCTTTATCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTT-TCTA
* *
840733 AAGCCCACACGAGTCGATGGCAACCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * *
840764 AAGCCCAC-TAAGTCGATGGAAAACCCCTTT-TA
1 AAGCCCACACAAGTCGGTGG-CAA-CCCTTTCTA
* * * *
840796 AAACCCACACAAGTCAGTGGTAA-CCTTTCAA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* *
840827 AAGCACACACAAGTTGGTGGCAACCCTTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * *
840859 AAGCCCACACAAGTCGGTGGCGACCTTTTTTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * * *
840891 GAAGCTCACACAAGTTGGTGGCAACCCTCTCAA
1 -AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
*
840924 AAGCCCACACAAGTCGGTGGCATCTCCTTT-T-
1 AAGCCCACACAAGTCGGTGGCAAC-CCTTTCTA
840955 AAGCCCA
1 AAGCCCA
840962 ATGTCGTTGG
Statistics
Matches: 571, Mismatches: 90, Indels: 49
0.80 0.13 0.07
Matches are distributed among these distances:
30 20 0.04
31 147 0.26
32 146 0.26
33 116 0.20
34 142 0.25
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
Found at i:840609 original size:31 final size:32
Alignment explanation
Indices: 840244--840945 Score: 582
Period size: 32 Copynumber: 21.7 Consensus size: 32
840234 TTTGCTTTTT
* * *
840244 AAGCCCACAGAAGTCGATGGCAACCCCTTTTCTA
1 AAGCCCACACAAGTCGGTGGCAA--CCTCTTCTA
* * * *
840278 AAGCCCACACAAATTGGTGGTAACCCCTTCTTTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTC--TA
* *
840312 AAGCCTACACAAGTCGGTGGCAACCCCTTCTTTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTC--TA
* *
840346 AAGCCTACACAAGTCGGTGGCAACCCCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTC-T-TCTA
* *
840380 AAGCCCATACAAGTCGGTGGCAATCC-CTTCAA
1 AAGCCCACACAAGTCGGTGGCAA-CCTCTTCTA
*
840412 AAGCCCACACAAGTCGGTGGCAATCC-CTTCAA
1 AAGCCCACACAAGTCGGTGGCAA-CCTCTTCTA
* * *
840444 AAGCCCACAAAAGTCAGTGGCAACCCTTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCTCT-TCTA
* * * *
840478 AAG-CCACACAAATTGGTGGCAACCCCTTCAA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* * *
840509 AAGCTCACACAAGTCGATGGCAACCCCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTC-T-TCTA
* * *
840543 AAGCCCACATAAGTCGGTGGTAACCCTTTTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCTCTTCTA
* * *
840576 AAGTCCACACAAGTCAGTGGCAA-CTATTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* * * *
840607 AAGTCCACATAAGTTGGTGGCAACC-CTTTTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* *
840638 AAGTCCACACAAGTCGGTGGTAACCT-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* *
840669 AAGTCCACACAAGTCGGTGGCAACC-CTTCTC
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* ** * *
840700 AAGTCCACACAAGTCATTGGTAACCTTTATCTA
1 AAGCCCACACAAGTCGGTGGCAACCTCT-TCTA
* *
840733 AAGCCCACACGAGTCGATGGCAACC-CTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* * * * *
840764 AAGCCCAC-TAAGTCGATGGAAAACCCCTTTTA
1 AAGCCCACACAAGTCGGTGG-CAACCTCTTCTA
* * * *
840796 AAACCCACACAAGTCAGTGGTAACCT-TTCAA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* *
840827 AAGCACACACAAGTTGGTGGCAACC-CTTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTC-TTCTA
* * *
840859 AAGCCCACACAAGTCGGTGGCGACCTTTTTTA
1 AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
* * *
840891 GAAGCTCACACAAGTTGGTGGCAACC-CTCTCAA
1 -AAGCCCACACAAGTCGGTGGCAACCTCT-TCTA
840924 AAGCCCACACAAGTCGGTGGCA
1 AAGCCCACACAAGTCGGTGGCA
840946 TCTCCTTTTA
Statistics
Matches: 548, Mismatches: 96, Indels: 50
0.79 0.14 0.07
Matches are distributed among these distances:
30 9 0.02
31 152 0.28
32 154 0.28
33 96 0.18
34 130 0.24
35 5 0.01
36 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCTCTTCTA
Found at i:840955 original size:65 final size:63
Alignment explanation
Indices: 840238--840956 Score: 544
Period size: 65 Copynumber: 11.1 Consensus size: 63
840228 CACCCTTTTG
* * * * * * * *
840238 CTTTTTAAGCCCACAGAAGTCGATGGCAACCCCTTTTCTAAAGCCCACACAAATTGGTGGTAACC
1 CTTTTAAAGCTCACACAAGTCGGTGGCAA-CCC-TCTCTAAAGCCCACACAAGTCGGTGGCAA-C
840303 C
63 C
* *
840304 CTTCTTTAAAGC-CTACACAAGTCGGTGGCAACCCCTTCTTTAAAGCCTACACAAGTCGGTGGCA
1 C-T-TTTAAAGCTC-ACACAAGTCGGTGGCAA-CCC-TCTCTAAAGCCCACACAAGTCGGTGGCA
840368 ACCC
61 A-CC
* * *
840372 CTTCTCTAAAGCCCATACAAGTCGGTGGCAATCCCT-TCAAAAGCCCACACAAGTCGGTGGCAAT
1 CTT-T-TAAAGCTCACACAAGTCGGTGGCAA-CCCTCTCTAAAGCCCACACAAGTCGGTGGCAA-
840436 CC
62 CC
** * * * * *
840438 CTTCAAAAGCCCACAAAAGTCAGTGGCAACCCTTTCTCTAAAG-CCACACAAATTGGTGGCAACC
1 CTTTTAAAGCTCACACAAGTCGGTGGCAACCC--TCTCTAAAGCCCACACAAGTCGGTGGCAA-C
840502 C
63 C
** * * *
840503 CTTCAAAAGCTCACACAAGTCGATGGCAACCCCTTCTCTAAAGCCCACATAAGTCGGTGGTAACC
1 CTTTTAAAGCTCACACAAGTCGGTGGCAA-CCC-TCTCTAAAGCCCACACAAGTCGGTGGCAACC
* ** * * *
840568 CTTTTCTAAAG-TCCACACAAGTCAGTGGCAACTAT-TCTAAAGTCCACATAAGTTGGTGGCAAC
1 C-TTT-TAAAGCT-CACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAAC
840631 C
63 C
* * *
840632 CTTTTAAAG-TCCACACAAGTCGGTGGTAA-CCTTTCTAAAGTCCACACAAGTCGGTGGCAACC
1 CTTTTAAAGCT-CACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* * ** * * * * *
840694 CTTCTCAAG-TCCACACAAGTCATTGGTAACCTTTATCTAAAGCCCACACGAGTCGATGGCAACC
1 CTTTTAAAGCT-CACACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* * * * * * *
840758 CTTCTAAAGC-C-CACTAAGTCGATGGAAAACCC-CTTTTAAAACCCACACAAGTCAGTGGTAA-
1 CTTTTAAAGCTCACAC-AAGTCGGTGG-CAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAAC
840819 C
63 C
* * * * *
840820 CTTTCAAAAGCACACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCGACC
1 CTTT-TAAAGCTCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
* * * *
840884 TTTTTTAGAAGCTCACACAAGTTGGTGGCAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCT
1 -CTTTTA-AAGCTCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAAC-
840949 C
63 C
840950 CTTTTAA
1 CTTTTAA
840957 GCCCAATGTC
Statistics
Matches: 537, Mismatches: 87, Indels: 60
0.79 0.13 0.09
Matches are distributed among these distances:
61 1 0.00
62 82 0.15
63 69 0.13
64 99 0.18
65 121 0.23
66 60 0.11
67 25 0.05
68 79 0.15
69 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (63 bp):
CTTTTAAAGCTCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:841332 original size:61 final size:59
Alignment explanation
Indices: 841223--841476 Score: 184
Period size: 61 Copynumber: 4.3 Consensus size: 59
841213 GCATCTTTGT
* * * * ** * *
841223 CATCTTTAAGCCCAATATCGCTGGCCATGAATCAGTGTATCGGTACCTTTATCATTCTTCG
1 CATCTTTAAGTCCAATGTCACT-GCCTTGAATCAGCATATTGGCACCTTTATCATTCTT-G
* *
841284 CATCTTTAAGTCCAATGTCACTAGCCTTGAATTAGCATATTGGCACC----T--TT-GT-
1 CATCTTTAAGTCCAATGTCACT-GCCTTGAATCAGCATATTGGCACCTTTATCATTCTTG
* * *
841336 CATCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTTG
1 CATCTTTAAGTCCAATGTCACT-GCCTTGAATCAGCATATTGGCACCTTTATCATTC-TTG
** * * * * *
841397 CATCTTTAAGTCCAATGTTGCTGACCTTGAATCAGCACATTGGCA-TTCTTCTCATCCTTAT
1 CATCTTTAAGTCCAATGTCACTG-CCTTGAATCAGCATATTGGCACCT-TTATCATTCTT-G
*
841458 CATCTTTAAGTCTAATGTC
1 CATCTTTAAGTCCAATGTC
841477 GTAAGCTTTG
Statistics
Matches: 152, Mismatches: 29, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
52 42 0.28
54 1 0.01
55 2 0.01
56 1 0.01
57 1 0.01
58 2 0.01
60 5 0.03
61 98 0.64
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (59 bp):
CATCTTTAAGTCCAATGTCACTGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTG
Found at i:841339 original size:113 final size:113
Alignment explanation
Indices: 841064--841441 Score: 463
Period size: 113 Copynumber: 3.4 Consensus size: 113
841054 TTTTTCTTTC
* * * * * * ***
841064 TTAAGTCCAGTATCGCTAGCCTTGAATCAACATATTGGCGCCTTTGTTATCTTTAAGTTTAATAT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATAT
** * * *
841129 CGTTAACCTTGAATTAGCATATTAGCACCTTTATCATTC-TCTCATCT
66 CGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCGCATCT
** * *
841176 TTAAGTCCAATGTCGCTAGTATTGAATCAGCACATTAGCATCTTTGTCATCTTTAAGCCCAATAT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATAT
* * ** * *
841241 CGCTGGCCATGAATCAGTGTATCGGTACCTTTATCATTCTTCGCATCT
66 CGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCGCATCT
* * *
841289 TTAAGTCCAATGTCACTAGCCTTGAATTAGCATATTGGCACCTTTGTCATCTTTAAGCCCAATAT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATAT
* *
841354 CATTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTTGCATCT
66 CGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCGCATCT
*
841402 TTAAGTCCAATGTTGCT-GACCTTGAATCAGCACATTGGCA
1 TTAAGTCCAATGTCGCTAG-CCTTGAATCAGCACATTGGCA
841442 TTCTTCTCAT
Statistics
Matches: 221, Mismatches: 43, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
112 82 0.37
113 139 0.63
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (113 bp):
TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATAT
CGTTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCGCATCT
Found at i:841363 original size:52 final size:52
Alignment explanation
Indices: 841284--841395 Score: 161
Period size: 52 Copynumber: 2.1 Consensus size: 52
841274 TCATTCTTCG
* * * *
841284 CATCTTTAAGTCCAATGTCACTAGCCTTGAATTAGCATATTGGCACCTTTGT
1 CATCTTTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAT
* *
841336 CATCTTTAAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CATCTTTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAT
841388 CATTCTTT
1 CA-TCTTT
841396 GCATCTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 48 0.91
53 5 0.09
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (52 bp):
CATCTTTAAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:841488 original size:61 final size:61
Alignment explanation
Indices: 841360--841496 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 61
841350 ATATCATTGG
* * * *
841360 CCTTGAATCAGCATATTGGCACCTTTATCATTCTTTGCATCTTTAAGTCCAATGTTGCTGA
1 CCTTGAATCAGCACATTGGCACCTTTATCATCCTTTGCATCTTTAAGTCCAATGTCGCTAA
* * *
841421 CCTTGAATCAGCACATTGGCA-TTCTTCTCATCCTTAT-CATCTTTAAGTCTAATGTCG-TAA
1 CCTTGAATCAGCACATTGGCACCT-TTATCATCCTT-TGCATCTTTAAGTCCAATGTCGCTAA
* *
841481 GCTTTGAATCTGCACA
1 -CCTTGAATCAGCACA
841497 CTAGCACATC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
60 3 0.05
61 60 0.94
62 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (61 bp):
CCTTGAATCAGCACATTGGCACCTTTATCATCCTTTGCATCTTTAAGTCCAATGTCGCTAA
Found at i:842113 original size:21 final size:20
Alignment explanation
Indices: 842087--842161 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
842077 TTATAATTTT
*
842087 TATCGATATAAACAGTAAATG
1 TATCGATACAAA-AGTAAATG
* *
842108 TATCGATACATAAGTGAATG
1 TATCGATACAAAAGTAAATG
****
842128 TATCGATACATTCCTAAAATG
1 TATCGATACAAAAGT-AAATG
842149 TATCGATACAAAA
1 TATCGATACAAAA
842162 CCACCCTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 19 0.44
21 24 0.56
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
TATCGATACAAAAGTAAATG
Found at i:849859 original size:140 final size:139
Alignment explanation
Indices: 849601--849974 Score: 484
Period size: 140 Copynumber: 2.7 Consensus size: 139
849591 GTAAATTTCG
* ** * *
849601 AAAATCTCATTTTGTACCTTAATGGAGAATTGAAAAATACGAAAAGTTTTGAAGATTTTTATACC
1 AAAAT-TCATTTTGTACCTTAAT-GAAAACCGAAAGATACAAAAAGTTTTGAAGATTTTTATACC
* * *
849666 CTTAC-AAAAATCGTAGGAATATTAGAAATCTTGAAAATTTAAGATAATAATTTTTATTTAATTT
64 CTTACGAAAACT-ATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTT
*
849730 TTAATTT-TCAA
128 TTAATTTCTAAA
* *
849741 AAAATTCATTTCGTACCTTAATCGAAAACCGAAAGATACAAAAAGTTTTAAAGATTTTTATACCC
1 AAAATTCATTTTGTACCTTAAT-GAAAACCGAAAGATACAAAAAGTTTTGAAGATTTTTATACCC
*
849806 TTACGGAAAACTATAGGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAATTTT
65 TTAC-GAAAACTATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTT
849871 TAATTTCTAAA
129 TAATTTCTAAA
* * *
849882 AAAATT-ATTTTGTACCTTAATGAAAAACCGAAATGATATAAAAAGTTTCGAAGATTTCTATACC
1 AAAATTCATTTTGTACCTTAATG-AAAACCGAAA-GATACAAAAAGTTTTGAAGATTTTTATACC
* * * * *
849946 CCTATGATAACCATAGGAATAATAGAAAT
64 CTTACGAAAACTATAGGAATATTAGAAAT
849975 ATATAAAAAT
Statistics
Matches: 206, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
139 57 0.28
140 106 0.51
141 43 0.21
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (139 bp):
AAAATTCATTTTGTACCTTAATGAAAACCGAAAGATACAAAAAGTTTTGAAGATTTTTATACCCT
TACGAAAACTATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTA
ATTTCTAAA
Found at i:853244 original size:17 final size:19
Alignment explanation
Indices: 853204--853244 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
853194 TAGTTAGTTC
*
853204 TTTGGAGCTATGGATTGGT
1 TTTGGAGCTATGGAGTGGT
*
853223 GTTGGAGCT-TGG-GTGGT
1 TTTGGAGCTATGGAGTGGT
853240 TTTGG
1 TTTGG
853245 GGAGGTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 8 0.42
ACGTcount: A:0.10, C:0.05, G:0.44, T:0.41
Consensus pattern (19 bp):
TTTGGAGCTATGGAGTGGT
Found at i:853673 original size:51 final size:52
Alignment explanation
Indices: 853609--853747 Score: 199
Period size: 52 Copynumber: 2.7 Consensus size: 52
853599 TTTGGAATGA
* *
853609 AAATGTATCGATACATTTTTCATTGTATCGATTCATTTTAGG-TTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTTTGACCC
* * *
853660 GAATGTATTGATACATTCTTCATTGTATCGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTTTGACCC
* * *
853712 AAATGTATCAAGACATTTTTCAATGTATCGATACAT
1 AAATGTATCGATACATTTTTCATTGTATCGATACAT
853748 GCAAGTAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 37 0.49
52 39 0.51
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTTTGACCC
Found at i:857537 original size:20 final size:20
Alignment explanation
Indices: 857497--857539 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
857487 TTTACCCAGA
*
857497 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCTGCAT
857517 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-CTGCAT
857537 TGT
1 TGT
857540 TCACTTCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTCTGCAT
Found at i:859964 original size:51 final size:51
Alignment explanation
Indices: 859904--860021 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
859894 TTATTTCCGA
* *
859904 GGGGATACTCCAACCCCGATTTTATTTTTTAAATACCAATTTT-TCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCT-ACAATC
* * *
859955 GGGGATACTCCAACTCTGATTTTATTTTTAAAACACCAATTTTCTATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCTACAATC
*
860006 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
860022 TGTTATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCTACAATC
Found at i:860038 original size:79 final size:78
Alignment explanation
Indices: 859955--860173 Score: 316
Period size: 79 Copynumber: 2.8 Consensus size: 78
859945 TTTCACAATC
* * *
859955 GGGGATACTCCAACTCTGATTTTATTTTTAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAAC-CTGATTTTACTTTCAAAATACCAATTTTCTATAATCAGGGATACTCCAAC
860020 CCTGTTATTTCCGA
65 CCTGTTATTTCCGA
* * *
860034 GGGGATACTCCAACCTCGATTTTAGTTTCAAAATACCGATTTTCTATAATCAGGGATACTCTAAC
1 GGGGATACTCCAACCT-GATTTTACTTTCAAAATACCAATTTTCTATAATCAGGGATACTCCAAC
*
860099 CCTGTTATTTTCGA
65 CCTGTTATTTCCGA
* *
860113 GGGGATACTCCAA-CTGATTTTACTTCCAAAATACCAATTTTCCATAATC-GAGGATACTCCA
1 GGGGATACTCCAACCTGATTTTACTTTCAAAATACCAATTTTCTATAATCAG-GGATACTCCA
860174 GCCCCGTTGT
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
76 1 0.01
77 39 0.31
78 4 0.03
79 83 0.65
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCTGATTTTACTTTCAAAATACCAATTTTCTATAATCAGGGATACTCCAACC
CTGTTATTTCCGA
Found at i:861561 original size:20 final size:20
Alignment explanation
Indices: 861536--861590 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
861526 TTGCCAGTTT
* **
861536 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGAA
*
861556 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
861575 CATGTATCGATACAAT
1 CATGTATCGATACAAT
861591 GTATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:861594 original size:13 final size:13
Alignment explanation
Indices: 861576--861602 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
861566 TATAATGAAC
861576 ATGTATCGATACA
1 ATGTATCGATACA
861589 ATGTATCGATACA
1 ATGTATCGATACA
861602 A
1 A
861603 AGCAGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:861621 original size:33 final size:32
Alignment explanation
Indices: 861557--861621 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
861547 ACAATTGTCC
* * *
861557 ATGTATCGATATAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATATATCGATACA
*
861589 ATGTATCGATACAAAGCAGCATATATCGATACA
1 ATGTATCGATACAAAG-AACATATATCGATACA
861622 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATATATCGATACA
Found at i:862251 original size:48 final size:44
Alignment explanation
Indices: 862150--862253 Score: 109
Period size: 48 Copynumber: 2.2 Consensus size: 44
862140 TTCTTCCCTT
*
862150 AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTATAAAAA
1 AAAAAATTCTCCCCCTTAAACGATTATCTCCCCCTTTATAAAAA
* *
862194 ATTTTAAAAATTCTCCCCTTTAAACGATTATCTTCTCCCCTTTTTTTAAAAA
1 A----AAAAATTCTCCCCCTTAAACGATTATC-TC-CCCC--TTTATAAAAA
862246 AAAAAATT
1 AAAAAATT
862254 TATTTTCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
44 1 0.02
48 33 0.67
49 2 0.04
50 3 0.06
52 10 0.20
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (44 bp):
AAAAAATTCTCCCCCTTAAACGATTATCTCCCCCTTTATAAAAA
Found at i:869357 original size:19 final size:19
Alignment explanation
Indices: 869317--869368 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
869307 CAGTTTCATA
**
869317 TATCGATACAATTGTCCATG
1 TATCGATACAA-TGAACATG
869337 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
869356 TATCGATACAATG
1 TATCGATACAATG
869369 TATCGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:869371 original size:13 final size:13
Alignment explanation
Indices: 869353--869379 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
869343 TACAATGAAC
869353 ATGTATCGATACA
1 ATGTATCGATACA
869366 ATGTATCGATACA
1 ATGTATCGATACA
869379 A
1 A
869380 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:869375 original size:32 final size:33
Alignment explanation
Indices: 869334--869398 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
869324 ACAATTGTCC
* *
869334 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTACCGATACA
*
869366 ATGTATCGATACAAAGCAGCATGTACCGATACA
1 ATGTATCGATACAAAGCAACATGTACCGATACA
869399 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTACCGATACA
Found at i:870710 original size:33 final size:33
Alignment explanation
Indices: 870650--870716 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
870640 CATTAGGCAT
*
870650 AATGTATCAATACACTTCTTCACGTATCGATAC
1 AATGTATCAATACACTTCCTCACGTATCGATAC
* *
870683 AATGTATCAATACATTATCCT-ATGTATCGATAC
1 AATGTATCAATACACT-TCCTCACGTATCGATAC
870716 A
1 A
870717 TTTCACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (33 bp):
AATGTATCAATACACTTCCTCACGTATCGATAC
Found at i:870804 original size:17 final size:18
Alignment explanation
Indices: 870769--870804 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
870759 ATTAGGTATA
870769 TATCGATACAATGAGCATG
1 TATCGATACAA-GAGCATG
870788 TATCGATACAA-AGCATG
1 TATCGATACAAGAGCATG
870805 ATGTATCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (18 bp):
TATCGATACAAGAGCATG
Found at i:870828 original size:20 final size:20
Alignment explanation
Indices: 870805--870856 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
870795 ACAAAGCATG
870805 ATGTATCGATACATCTGGAT
1 ATGTATCGATACATCTGGAT
870825 ATGTATCGATACATCTGGAT
1 ATGTATCGATACATCTGGAT
870845 ATGTATCGATAC
1 ATGTATCGATAC
870857 TTTCAAGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATCTGGAT
Found at i:871409 original size:150 final size:149
Alignment explanation
Indices: 871138--871409 Score: 345
Period size: 150 Copynumber: 1.8 Consensus size: 149
871128 TTTATTGAGG
* *
871138 TATCCCTAAGACCTACCGTTGACATAAAAGTGCCGGAGATCCTAGAAGATTTGGAAAAAGATAAA
1 TATCCCTAAGACCTACCATTGACATAAAAGTGCCGGAGATCCTAGAAGACTT-GAAAAAGATAAA
* * *
871203 AACAAACCTACTCCTAATTCACACCTTCGACGTAAAAGCAAACTAGGTAGTTTTATAAGACTAGG
65 AACAAACCTACCCCTAATTCACACCTTCGACATAAAAGCAAACTAGGTAGCTTTATAAGACTAGG
871268 TTTCAAAGAAAAAACTAAAA
130 TTTCAAAGAAAAAACTAAAA
* * *
871288 TATCCCTAAGACCTACCATTGACATAAAAGTTCTCGGTGATCCTA-AAGAACTT-AAAAAGGTAA
1 TATCCCTAAGACCTACCATTGACATAAAAGTGC-CGGAGATCCTAGAAG-ACTTGAAAAAGATAA
* * * * *
871351 AAGGATAAACCTACCCCTAATAT-ATACCTTCGGCATAAAAGC-GACTCGGTAGCTTTATA
64 AA--ACAAACCTACCCCTAAT-TCACACCTTCGACATAAAAGCAAACTAGGTAGCTTTATA
871410 GGATTAGATT
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
149 11 0.11
150 48 0.46
151 44 0.42
152 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (149 bp):
TATCCCTAAGACCTACCATTGACATAAAAGTGCCGGAGATCCTAGAAGACTTGAAAAAGATAAAA
ACAAACCTACCCCTAATTCACACCTTCGACATAAAAGCAAACTAGGTAGCTTTATAAGACTAGGT
TTCAAAGAAAAAACTAAAA
Found at i:872839 original size:52 final size:52
Alignment explanation
Indices: 872748--872862 Score: 119
Period size: 52 Copynumber: 2.2 Consensus size: 52
872738 AACAACGCTG
* *
872748 GAGTATCCCCGATTATGGAAAATCGGTGTTATAAAAAATAAAATC-GAGGTTA
1 GAGTATCCCCGATTATGAAAAATCGATGTTATAAAAAATAAAATCAG-GGTTA
* * ** *
872800 GAGTATCCCCGATTGTGAAAAAATCGATGCTT-T-AGAAATAAGGTCAGGGTTG
1 GAGTATCCCCGATTATG-AAAAATCGATG-TTATAAAAAATAAAATCAGGGTTA
872852 GAGTATCCCCG
1 GAGTATCCCCG
872863 TGAAAATAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
52 40 0.75
53 11 0.21
54 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
GAGTATCCCCGATTATGAAAAATCGATGTTATAAAAAATAAAATCAGGGTTA
Found at i:872943 original size:51 final size:51
Alignment explanation
Indices: 872872--872991 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
872862 GTGAAAATAA
* * * *
872872 CGGAGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAACTAAAAT
1 CGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
*
872923 CGGAGTTAGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
1 CGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
872974 CGG-GATTGGAGTATCCCC
1 CGGAG-TTGGAGTATCCCC
872992 TCAAAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (51 bp):
CGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
Found at i:872999 original size:130 final size:131
Alignment explanation
Indices: 872746--873022 Score: 343
Period size: 130 Copynumber: 2.1 Consensus size: 131
872736 ACAACAACGC
872746 TGGAGTATCCCCGATTATGGAAAATCGGTGTTATAAAAAATAAAATCGAGGTTAGAGTATCCCCG
1 TGGAGTATCCCCGATTATGGAAAATCGGTGTTATAAAAAATAAAATCGAGGTTAGAGTATCCCCG
** *
872811 ATTGTGAAAAAATCGATGCTTTAGAAATAAGGTCAGGGTTGGAGTATCCCCGTGAAAATAACG-G
66 ATTGTGAAAAAATCGAT-CTTTAGAAATAAAATCAGGGTTGGAGTATCCCCGTAAAAATAACGAG
872875 AGT
130 A-T
* * *** *
872878 TGGAGTATCCCCGATTGT-GAGAAATTGGTGTT-TTGGAACTAAAATCG-GAGTTAGAGTATCCC
1 TGGAGTATCCCCGATTATGGA-AAATCGGTGTTATAAAAAATAAAATCGAG-GTTAGAGTATCCC
* *
872940 CGATTGTGAAAAATTGGTAT-TTTAGAAATAAAATC-GGGATTGGAGTATCCCC-TCAAAAATAA
64 CGATTGTGAAAAAATCG-ATCTTTAGAAATAAAATCAGGG-TTGGAGTATCCCCGT-AAAAATAA
873002 CGAGAT
126 CGAGAT
873008 TGGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
873023 AACATAATGA
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
129 4 0.03
130 52 0.41
131 43 0.34
132 29 0.23
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (131 bp):
TGGAGTATCCCCGATTATGGAAAATCGGTGTTATAAAAAATAAAATCGAGGTTAGAGTATCCCCG
ATTGTGAAAAAATCGATCTTTAGAAATAAAATCAGGGTTGGAGTATCCCCGTAAAAATAACGAGA
T
Found at i:875473 original size:20 final size:20
Alignment explanation
Indices: 875448--875538 Score: 114
Period size: 20 Copynumber: 4.5 Consensus size: 20
875438 ATGCCTAAAG
*
875448 GTATCGATACATTGTA-AAAT
1 GTATCGATACAATG-AGAAAT
*
875468 GTATCGATACAATGAGCAAT
1 GTATCGATACAATGAGAAAT
* *
875488 GTATTGATACAATGAGTAAT
1 GTATCGATACAATGAGAAAT
875508 GTATCGATACAATGCA-AAAT
1 GTATCGATACAATG-AGAAAT
875528 GTATCGATACA
1 GTATCGATACA
875539 TCTGGGTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.02
20 61 0.97
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAGAAAT
Found at i:875572 original size:13 final size:13
Alignment explanation
Indices: 875554--875583 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
875544 GTAAACCCAG
875554 AATGTATCGATAC
1 AATGTATCGATAC
875567 AATGTATCGATAC
1 AATGTATCGATAC
875580 AATG
1 AATG
875584 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:876429 original size:45 final size:44
Alignment explanation
Indices: 876286--876437 Score: 170
Period size: 45 Copynumber: 3.5 Consensus size: 44
876276 AAAAGAGTAC
* * ** *
876286 GTCCTGCT-TTTCGAGGATAAAGGA-AAAAAAGAAAATGAAATGT
1 GTCCTGCTCTTT-GAGGACAAAAGAGAAAAAAGGGAATGAAGTGT
* * *
876329 GTCCTGCTCTTTGAGGAC-AAA-AG-AAAGAGGAGAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGAGAAAAAAGG-GAATGAAGTGT
876371 GTCCTGCTCTTTGAGGACAAAAGAGAAAATAAGGGAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAGAGAAAA-AAGGGAATGAAGTGT
876416 GTCCTGCTCTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAA
876438 AAGTGCCACC
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
41 6 0.07
42 27 0.30
43 16 0.18
44 5 0.05
45 34 0.37
46 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (44 bp):
GTCCTGCTCTTTGAGGACAAAAGAGAAAAAAGGGAATGAAGTGT
Found at i:876509 original size:61 final size:63
Alignment explanation
Indices: 876414--876591 Score: 249
Period size: 61 Copynumber: 2.9 Consensus size: 63
876404 GGAATGAAGT
* *
876414 GTGTCCTGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAG-AAAG
1 GTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAG
* * * *
876475 GTGTCCTACTCTTTAAGGACTAGAAAA-TGCCACCAACTTGGGTGGGCTTTG-AAAGGAAAAG
1 GTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAG
*
876536 GCGTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
1 GTGTCCTGCTCTTTGAGGAC-TAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
876592 GGCGTCCTAC
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
60 4 0.04
61 61 0.60
62 12 0.12
63 25 0.25
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (63 bp):
GTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAG
Found at i:876643 original size:96 final size:95
Alignment explanation
Indices: 876536--876806 Score: 433
Period size: 94 Copynumber: 2.9 Consensus size: 95
876526 AAAGGAAAAG
* *
876536 GCGTCCTGCTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTA
1 GCGTCCTGCTCTTTGAGGAC-TAGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
876601 CTCTTTGAGGACTAAAGGGC-AAAAGGAGAGA
65 CTCTTTGAGGACTAAAGGGCGAAAA-GAGAGA
* * * *
876632 GTGTCCTGCTCTTTGAGGACT-GAGAAGTGCCACTAACTTGTGTGGGCTCTAAAAGGCATCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
876696 TCTTTGAGGACTAAAGGGCGAAAAGAGAGA
66 TCTTTGAGGACTAAAGGGCGAAAAGAGAGA
876726 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
876789 TCTTTGAGGACTGAAAGG
66 TCTTTGAGGACT-AAAGG
876807 TGCCACCAAC
Statistics
Matches: 162, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
93 24 0.15
94 113 0.70
95 6 0.04
96 19 0.12
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
TCTTTGAGGACTAAAGGGCGAAAAGAGAGA
Found at i:876790 original size:54 final size:56
Alignment explanation
Indices: 876726--876856 Score: 205
Period size: 54 Copynumber: 2.4 Consensus size: 56
876716 AAAAGAGAGA
*
876726 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
876780 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
876835 ACGTCCTACTTTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTA
876857 AAGGGTGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
53 3 0.04
54 45 0.64
55 22 0.31
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (56 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:876811 original size:148 final size:148
Alignment explanation
Indices: 876634--876926 Score: 482
Period size: 148 Copynumber: 2.0 Consensus size: 148
876624 AGGAGAGAGT
* * *
876634 GTCCTGCTCTTTGAGGACTGAGAAGTGCCACTAACTTGTGTGGGCTCTAAAAGGCATCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTCTAAAAGACATCCTACTCT
876699 TTGAGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAAC
66 TTGAGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAAC
876763 TTGTGTGGGCTTTAAAGGC
130 TTGTGTGGGCTTTAAAGGC
* * * *
876782 GTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTACTT
1 GTCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTGGGCTCTAAAAGACATCCTACTC
*
876846 TTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAAC
65 TTTGAGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAAC
876911 TTGTGTGGGCTTTAAA
130 TTGTGTGGGCTTTAAA
876927 AGAAAAAGGC
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
147 5 0.04
148 130 0.96
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (148 bp):
GTCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTCTAAAAGACATCCTACTCT
TTGAGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACT
TGTGTGGGCTTTAAAGGC
Found at i:877940 original size:1 final size:1
Alignment explanation
Indices: 877934--878005 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
877924 CAGATTCTTC
* * * * * * * * * *
877934 TTTTTTTTTCTCTTTTTCTTTGTTTTGTTTTTTGTTTTTTTTTTGTTTTTTTGTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
877999 TTTTTTT
1 TTTTTTT
878006 AAAAGAATGT
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:877949 original size:12 final size:11
Alignment explanation
Indices: 877934--878005 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
877924 CAGATTCTTC
*
877934 TTTTTTTTTCT
1 TTTTTTTTTGT
*
877945 CTTTTTCTTTGT
1 -TTTTTTTTTGT
877957 TTTGTTTTTTGT
1 TTT-TTTTTTGT
877969 TTTTTTTTTGT
1 TTTTTTTTTGT
*
877980 TTTTTTGTTGT
1 TTTTTTTTTGT
*
877991 TTTTGTTTT-T
1 TTTTTTTTTGT
878001 TTTTT
1 TTTTT
878006 AAAAGAATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
10 5 0.10
11 28 0.54
12 19 0.37
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:877966 original size:17 final size:16
Alignment explanation
Indices: 877946--878005 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
877936 TTTTTTTCTC
*
877946 TTTTTCTTTGTTTTGTT
1 TTTTTTTTTGTTTTG-T
*
877963 TTTTGTTTTTTTTTTGT
1 TTTT-TTTTTGTTTTGT
*
877980 TTTTTTGTTGTTTTTGT
1 TTTTTTTTTG-TTTTGT
877997 TTTTTTTTT
1 TTTTTTTTT
878006 AAAAGAATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.11
17 23 0.64
18 9 0.25
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTGTTTTGT
Found at i:877972 original size:34 final size:34
Alignment explanation
Indices: 877934--878005 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
877924 CAGATTCTTC
*
877934 TTTTTTTTTCTCTTTTTCT-TTG-TTTTGTTTTT
1 TTTTTTTTTTTCTTTTTCTGTTGTTTTTGTTTTT
* *
877966 TGTTTTTTTTTTGTTTTTTTGTTGTTTTTGTTTTT
1 T-TTTTTTTTTTCTTTTTCTGTTGTTTTTGTTTTT
878001 TTTTT
1 TTTTT
878006 AAAAGAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 1 0.03
33 15 0.44
34 7 0.21
35 11 0.32
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (34 bp):
TTTTTTTTTTTCTTTTTCTGTTGTTTTTGTTTTT
Found at i:877985 original size:35 final size:34
Alignment explanation
Indices: 877935--878005 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
877925 AGATTCTTCT
*
877935 TTTTTTTTCTCTTTTTCTT-TGTTTTGTTTTTTGTT
1 TTTTTTTTCTCTTTTTGTTGT-TTTTGTTTTTT-TT
* *
877970 TTTTTTTTGTTTTTTTGTTGTTTTTGTTTTTTTT
1 TTTTTTTTCTCTTTTTGTTGTTTTTGTTTTTTTT
878004 TT
1 TT
878006 AAAAGAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 27 0.84
36 1 0.03
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (34 bp):
TTTTTTTTCTCTTTTTGTTGTTTTTGTTTTTTTT
Found at i:888323 original size:4 final size:4
Alignment explanation
Indices: 888314--888342 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
888304 ACGATAAAAC
888314 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
888343 CCTCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:890614 original size:51 final size:51
Alignment explanation
Indices: 890543--890660 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
890533 GTGAAAATAA
* * *
890543 CGGAGTTGGAGTATCCCCGATTGTGAGAAA-TTGGTGTTTTGGAACTAAAAT
1 CGGAGTTGGAGTATCCCCGATTGTGA-AAATTTGGTATTTTAGAAATAAAAT
*
890594 CGGAGTTAGAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAAT
1 CGGAGTTGGAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAAT
890645 C-GAGGTTGGAGTATCC
1 CGGA-GTTGGAGTATCC
890661 ACTCAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 5 0.08
51 55 0.92
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
CGGAGTTGGAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAAT
Found at i:890672 original size:130 final size:131
Alignment explanation
Indices: 890417--890689 Score: 288
Period size: 130 Copynumber: 2.1 Consensus size: 131
890407 ACAACAGAGC
*
890417 TGGAGTATCCCCGATTATGGAAAATCGGTGTTCTAAAAAATAAAATCTGGGTTAGAGTATCCCTG
1 TGGAGTATCCCCGATTATGGAAAATCGGTGTTCTAAAAAATAAAATCTGGGTTAGAGTATCCCCG
** * * * *
890482 ATTGTGAAAAAATCAATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGTGAAAATAAC-GG
66 ATTGTGAAAAAATCAAT-CTTTAGAAATAAAACCGAGGTTGGAGTATCCACGTAAAAATAACAAG
890546 AGT
130 A-T
* * *** *
890549 TGGAGTATCCCCGATTGT-GAGAAATTGGTGTT-TTGGAACTAAAATC-GGAGTTAGAGTATCCC
1 TGGAGTATCCCCGATTATGGA-AAATCGGTGTTCTAAAAAATAAAATCTGG-GTTAGAGTATCCC
** ** *
890611 CGATTGTGAAAATTTGGTAT-TTTAGAAATAAAATCGAGGTTGGAGTATCCAC-TCAAAAATAAC
64 CGATTGTGAAAAAAT-CAATCTTTAGAAATAAAACCGAGGTTGGAGTATCCACGT-AAAAATAAC
890674 AAGAT
127 AAGAT
890679 TGGAGTATCCC
1 TGGAGTATCCC
890690 TGATGACATA
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
129 1 0.01
130 49 0.42
131 39 0.33
132 29 0.25
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (131 bp):
TGGAGTATCCCCGATTATGGAAAATCGGTGTTCTAAAAAATAAAATCTGGGTTAGAGTATCCCCG
ATTGTGAAAAAATCAATCTTTAGAAATAAAACCGAGGTTGGAGTATCCACGTAAAAATAACAAGA
T
Found at i:893990 original size:42 final size:42
Alignment explanation
Indices: 893929--894047 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
893919 TAGCCCTCAA
* *
893929 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
893971 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
894013 GGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
894048 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.42, C:0.03, G:0.47, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:899874 original size:20 final size:19
Alignment explanation
Indices: 899849--899923 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 19
899839 AAAATGCCTG
*
899849 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
899869 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
899889 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
899908 CAATGTATCGATACAA
1 -AATGTATCGATACAA
899924 ATTGTGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:901210 original size:140 final size:140
Alignment explanation
Indices: 900925--901461 Score: 706
Period size: 140 Copynumber: 3.8 Consensus size: 140
900915 AGTAATATAC
* * * *
900925 TATTTAAATTTTTAATTTTCAAAAAACCTCATTTCCTATCTTAATAGAGAATTGAAAAGATAC-A
1 TATTT-AATTTTTAATTTTCAAAAAA-TTCATTTCGTACCTTAATAGAGAATCGAAAAGATACGA
* * * * * **
900989 AAATATTTTGAAGATTTTTATATCCTCACGAAAAACTATAGGAATATTAGAAATCTCAAAAAATT
64 AAA-GTTTTGAAGATTTCTATACCCT-ACGAAAAACCATAAGAATATTAGAAATCTTGAAAAATT
901054 AAGATAATAATTTT
127 AAGATAATAATTTT
* *
901068 TATTTAATTTTTAATCTCCAAAAAATTCATTTCGTACCTTAAT-GAAGAATCGAAAAGATACGAA
1 TATTTAATTTTTAATTTTCAAAAAATTCATTTCGTACCTTAATAG-AGAATCGAAAAGATACGAA
* *
901132 AAGTTTTAAAGATTTCTATACCCTACAAAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAG
65 AAGTTTTGAAGATTTCTATACCCTACGAAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAG
901197 ATAATAATTTT
130 ATAATAATTTT
** * *
901208 TATTTAATTTTTAATTTTTTAAAAATTCATTTCGTACCTTAATAGAGAATCGAAAAGACATGAAA
1 TATTTAATTTTTAATTTTCAAAAAATTCATTTCGTACCTTAATAGAGAATCGAAAAGATACGAAA
*
901273 AGTTTTGAAGATTTTTATACCCCTACGAAAAACCATAAGAATATTAGAAATCTTG-AAAATTAAG
66 AGTTTTGAAGATTTCTATA-CCCTACGAAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAG
901337 ATAATAATTTT
130 ATAATAATTTT
* * * * *
901348 TATTTAATTTTTAATTTTTAAAAAAAAT-ATTTCATACCTTAATAGAGAACCAAAAAGATACGAA
1 TATTTAATTTTTAA-TTTTCAAAAAATTCATTTCGTACCTTAATAGAGAATCGAAAAGATACGAA
* * * * *
901412 ACGTTTTGAAGATTTCTATACCCTACG-ATAACTATAGGAATAATAGAAAT
65 AAGTTTTGAAGATTTCTATACCCTACGAAAAACCATAAGAATATTAGAAAT
901462 ATATAAAAAT
Statistics
Matches: 351, Mismatches: 38, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
138 19 0.05
139 7 0.02
140 205 0.58
141 93 0.26
142 22 0.06
143 5 0.01
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (140 bp):
TATTTAATTTTTAATTTTCAAAAAATTCATTTCGTACCTTAATAGAGAATCGAAAAGATACGAAA
AGTTTTGAAGATTTCTATACCCTACGAAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGA
TAATAATTTT
Found at i:902556 original size:21 final size:20
Alignment explanation
Indices: 902527--902569 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
902517 TTTCATTTTA
* *
902527 TTTTTATTTTTCATGCCATT
1 TTTTTATTTTTCAAGCAATT
902547 TTTTTCATTTTTCAAGCAATT
1 TTTTT-ATTTTTCAAGCAATT
902568 TT
1 TT
902570 GACAAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTTCAAGCAATT
Found at i:902569 original size:20 final size:20
Alignment explanation
Indices: 902527--902569 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
902517 TTTCATTTTA
* *
902527 TTTTTATTTTTCATGCCATT
1 TTTTTATTTTTCAAGCCAAT
902547 TTTTTCATTTTTCAAG-CAAT
1 TTTTT-ATTTTTCAAGCCAAT
902567 TTT
1 TTT
902570 GACAAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTTCAAGCCAAT
Found at i:913228 original size:98 final size:98
Alignment explanation
Indices: 913096--913298 Score: 316
Period size: 98 Copynumber: 2.1 Consensus size: 98
913086 ATCATTGAGC
* * *
913096 TTTATTGTTTTCTCAAGATTTATATGATGGTAATTTTTTATACACTAACGATTTAGGGTGAATAA
1 TTTATTATTTTCTCAAAATTTATATGATGGTAATTTTTTATACACTAACAATTTAGGGTGAATAA
* * *
913161 AACTTGAAAGAGGTAGTGATATAAATATGTCAA
66 AACTTAAAAAAGATAGTGATATAAATATGTCAA
* * * *
913194 TTTATTATTTTTTCAAAATTTATGTGATGGTAATTTTTTATGCACTAACAATTTGGGGTGAATAA
1 TTTATTATTTTCTCAAAATTTATATGATGGTAATTTTTTATACACTAACAATTTAGGGTGAATAA
913259 AACTTAAAAAAGATAGTGATATAAATATGTCAA
66 AACTTAAAAAAGATAGTGATATAAATATGTCAA
913292 TTTATTA
1 TTTATTA
913299 GTGTTAGTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.41
Consensus pattern (98 bp):
TTTATTATTTTCTCAAAATTTATATGATGGTAATTTTTTATACACTAACAATTTAGGGTGAATAA
AACTTAAAAAAGATAGTGATATAAATATGTCAA
Found at i:913857 original size:4 final size:4
Alignment explanation
Indices: 913848--913873 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
913838 ATAATGCTTA
913848 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
913874 CATGTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:915596 original size:16 final size:17
Alignment explanation
Indices: 915577--915609 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
915567 TTCAGGTTAA
915577 TTGAATTTGGA-TAATT
1 TTGAATTTGGATTAATT
915593 TTGAATTTGGATTAATT
1 TTGAATTTGGATTAATT
915610 AAGATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (17 bp):
TTGAATTTGGATTAATT
Found at i:916443 original size:16 final size:16
Alignment explanation
Indices: 916421--916475 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
916411 TTAAGTTTAG
916421 ATCATTTTGGGTTCAA
1 ATCATTTTGGGTTCAA
* *
916437 ATTATTTTGGGTTCGA
1 ATCATTTTGGGTTCAA
* *
916453 ATCATTTTGAGTTCAG
1 ATCATTTTGGGTTCAA
916469 ATCATTT
1 ATCATTT
916476 AAGATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (16 bp):
ATCATTTTGGGTTCAA
Found at i:916487 original size:48 final size:48
Alignment explanation
Indices: 916392--916492 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 48
916382 TATTCAGGTC
* * * ** *
916392 ATTTTGAGTTCGGATTATTTTAAGTTTAGATCATTTTGGGTTCAAATT
1 ATTTTGAGTTCGAATCATTTTAAGTTCAGATCATTTAAGATTCAAATT
* * *
916440 ATTTTGGGTTCGAATCATTTTGAGTTCAGATCATTTAAGATTTAAATT
1 ATTTTGAGTTCGAATCATTTTAAGTTCAGATCATTTAAGATTCAAATT
916488 ATTTT
1 ATTTT
916493 TAAATTTGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (48 bp):
ATTTTGAGTTCGAATCATTTTAAGTTCAGATCATTTAAGATTCAAATT
Found at i:917691 original size:46 final size:45
Alignment explanation
Indices: 917603--917740 Score: 138
Period size: 45 Copynumber: 3.0 Consensus size: 45
917593 AACTTATAAG
** * * *
917603 GTAAATTGCACGTG-AAAAGTAAAGAGATTAAAATGAAAATGTAAA
1 GTAAATTGCATATGAAAAATTAAAGA-ATTAAAAAGAACATGTAAA
*
917648 GTAAATTGCATATGAAAAATTAAAGTAATTAAAAGGAACATGTAAA
1 GTAAATTGCATATGAAAAATTAAAG-AATTAAAAAGAACATGTAAA
* * *
917694 GTAAGTTTCATAT-AAAAAGTT-AAGAAAGTAAAAAGAACATGTAAA
1 GTAAATTGCATATGAAAAA-TTAAAG-AATTAAAAAGAACATGTAAA
917739 GT
1 GT
917741 TAGTCGAACT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
45 40 0.50
46 39 0.49
47 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (45 bp):
GTAAATTGCATATGAAAAATTAAAGAATTAAAAAGAACATGTAAA
Found at i:918350 original size:30 final size:30
Alignment explanation
Indices: 918261--918352 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
918251 GTTTTGATAG
* * *
918261 AAATTAAAGTTTAAGAATTTATTTAAGTAA
1 AAATTAAAGTTCAAAAATTTATTTAAGTAT
**
918291 AAATTAAAAGTTC-AAAGCTTATTTAAGTAT
1 AAATT-AAAGTTCAAAAATTTATTTAAGTAT
*
918321 AAATTAAAGATCAAAAATTTATTTAAGTAT
1 AAATTAAAGTTCAAAAATTTATTTAAGTAT
918351 AA
1 AA
918353 TAAAAATATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
29 6 0.12
30 40 0.77
31 6 0.12
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (30 bp):
AAATTAAAGTTCAAAAATTTATTTAAGTAT
Found at i:918759 original size:16 final size:16
Alignment explanation
Indices: 918740--918795 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
918730 ATTTAAATAA
*
918740 AAAATGACCCAAATTC
1 AAAATGATCCAAATTC
*
918756 AAAATTATCCAAATTC
1 AAAATGATCCAAATTC
* *
918772 AAAATTATCTAAATTC
1 AAAATGATCCAAATTC
918788 AAAATGAT
1 AAAATGAT
918796 TTAAATCTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.29
Consensus pattern (16 bp):
AAAATGATCCAAATTC
Found at i:918801 original size:16 final size:16
Alignment explanation
Indices: 918750--918792 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
918740 AAAATGACCC
*
918750 AAATTCAAAATTATCC
1 AAATTCAAAATTATCT
918766 AAATTCAAAATTATCT
1 AAATTCAAAATTATCT
918782 AAATTCAAAAT
1 AAATTCAAAAT
918793 GATTTAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTCAAAATTATCT
Found at i:919051 original size:33 final size:33
Alignment explanation
Indices: 918991--919061 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
918981 TTTTGTTCTC
*
918991 TTATCTATATGTAAAATAATACAATAAT-TATA
1 TTATATATATGTAAAATAATACAATAATCTATA
919023 TATATATATATGTAAACACT-ATAC-ATAATCTATA
1 T-TATATATATGTAAA-A-TAATACAATAATCTATA
919057 TTATA
1 TTATA
919062 CTATTATAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
32 1 0.03
33 22 0.65
34 10 0.29
35 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (33 bp):
TTATATATATGTAAAATAATACAATAATCTATA
Found at i:920091 original size:2 final size:2
Alignment explanation
Indices: 920084--920119 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
920074 TCTTTTACAA
920084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
920120 TGCGCATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:923734 original size:52 final size:52
Alignment explanation
Indices: 923656--923783 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
923646 CGAAATATGA
*
923656 AAATTTGCCTACATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
*
923708 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
923760 AAA-TTGCCTACATGTATCGATACA
1 AAATTTGCCTACATGTATCGATACA
923784 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.28
52 47 0.65
53 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:923810 original size:13 final size:13
Alignment explanation
Indices: 923792--923816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
923782 CAAAGATCAG
923792 TGTATCGATACAA
1 TGTATCGATACAA
923805 TGTATCGATACA
1 TGTATCGATACA
923817 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:923894 original size:33 final size:33
Alignment explanation
Indices: 923857--923923 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
923847 AGTAGCTTAA
923857 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
923890 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
923923 A
1 A
923924 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:923897 original size:13 final size:13
Alignment explanation
Indices: 923879--923903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
923869 CAAAAAAATA
923879 TGTATCGATACAT
1 TGTATCGATACAT
923892 TGTATCGATACA
1 TGTATCGATACA
923904 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:924136 original size:10 final size:10
Alignment explanation
Indices: 924121--924164 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
924111 TTGTTCGGAC
924121 AAATTGTCAA
1 AAATTGTCAA
924131 AAATTGTCAA
1 AAATTGTCAA
924141 AAATTGTC--
1 AAATTGTCAA
924149 AAATTGTCAA
1 AAATTGTCAA
924159 AAATTG
1 AAATTG
924165 GCCCGGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
10 24 0.75
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (10 bp):
AAATTGTCAA
Found at i:924152 original size:18 final size:19
Alignment explanation
Indices: 924121--924164 Score: 72
Period size: 18 Copynumber: 2.3 Consensus size: 19
924111 TTGTTCGGAC
924121 AAATTGTCAAAAATTGTCAA
1 AAATTGTC-AAAATTGTCAA
924141 AAATTGTC-AAATTGTCAA
1 AAATTGTCAAAATTGTCAA
924159 AAATTG
1 AAATTG
924165 GCCCGGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.67
20 8 0.33
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATTGTCAAAATTGTCAA
Found at i:924970 original size:49 final size:49
Alignment explanation
Indices: 924763--925328 Score: 877
Period size: 49 Copynumber: 11.7 Consensus size: 49
924753 AAAAGGATGT
*
924763 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
924815 CGATATGCTGATT--AGGCCAGCTATATTGGACCT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
924856 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
924904 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
924953 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
925001 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
925050 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
925098 CAATGTGCTAATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
925147 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
925195 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
925244 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
925293 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
925329 GAAGGGTTGC
Statistics
Matches: 475, Mismatches: 27, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
41 18 0.04
43 18 0.04
46 1 0.00
48 186 0.39
49 224 0.47
50 17 0.04
52 11 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:924988 original size:97 final size:97
Alignment explanation
Indices: 924763--925328 Score: 905
Period size: 97 Copynumber: 5.9 Consensus size: 97
924753 AAAAGGATGT
* * * *
924763 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGCCAATGTGCTGATT
* *
924828 --AGGCCAGCTATATTGGACCT----A--AAGGTGC
62 CAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
924856 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
924921 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
924953 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
925018 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
925050 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTAATTCAAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
*
925115 GCTAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
925147 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
925212 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
925244 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAA
* *
925309 GGCCAGCTATATTGGGCTTA
65 GGCCAGCTACATTGGACTTA
925329 GAAGGGTTGC
Statistics
Matches: 448, Mismatches: 16, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
89 17 0.04
91 18 0.04
92 1 0.00
93 39 0.09
95 1 0.00
97 334 0.75
98 38 0.08
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (97 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
GCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:925407 original size:34 final size:33
Alignment explanation
Indices: 925369--926491 Score: 1235
Period size: 34 Copynumber: 33.8 Consensus size: 33
925359 AGGAAGGGAG
* *
925369 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA--GAA
925403 AAAGAGTGCCACGGAGTTGTGGGCTTT--AA-AA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
925434 AGA-GTGCCACGGAGTCGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
* *
925467 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
* * *
925501 GAAGGTGCCATGGAGCTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
*
925535 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
925565 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAA
925598 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAA
925633 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
925669 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
925703 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
*
925737 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
925767 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAA
925800 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAA
925835 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
925871 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
925905 AAAGGTGCCACGGAATTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
*
925939 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
925969 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAA
926002 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
926036 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
926072 AAAGAGTGCCACAGAGTTGTGGGCTTT-AAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
926105 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
*
926139 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
926169 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAA
926202 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
926236 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
926272 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
926306 AAAGGTGCCACCGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
* *
926340 GAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAA
* * *
926374 AAAAGTGCCACGGAATTATGGGCTTTAAAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
*
926405 ---GGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-GAA
* *
926435 CAAGGTGCCATGGAGTTGTGGGCTTT-AAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
* * * *
926467 AAA-ATGCCACTGAGTCGTGGACTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTT
926492 GAGACAAAAT
Statistics
Matches: 954, Mismatches: 57, Indels: 159
0.82 0.05 0.14
Matches are distributed among these distances:
27 90 0.09
28 21 0.02
29 21 0.02
30 8 0.01
31 29 0.03
32 47 0.05
33 141 0.15
34 324 0.34
35 63 0.07
36 42 0.04
37 168 0.18
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAA
Found at i:926051 original size:70 final size:70
Alignment explanation
Indices: 925965--926460 Score: 644
Period size: 70 Copynumber: 7.4 Consensus size: 70
925955 TGTGGGCTTT
*
925965 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
926030 AAAGAA
65 AAAGAA
* *
926036 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
926100 AAGAA
66 AAGAA
*
926105 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
926166 AAG--
66 AAGAA
*
926169 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
926231 AAGAA
66 AAGAA
* *
926236 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
926301 AAGAA
66 AAGAA
* * *
926306 AAAGGTGCCACCGAGTTGTGGGCTTT-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGAC-TTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
926367 AGATGAA
66 A-A-GAA
* * * *
926374 AAAAGTGCCACGGAATTATGGGCTTT--AAA-AG-----G-GTGCCACGGAGTTGTGGAC-TTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
926429 AAGGAA
66 AA-GAA
* *
926435 CAAGGTGCCATGGAGTTGTGGGCTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTT
926461 AAAGAAAAAA
Statistics
Matches: 388, Mismatches: 26, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
61 46 0.12
62 30 0.08
63 7 0.02
64 22 0.06
65 4 0.01
66 30 0.08
67 29 0.07
68 35 0.09
69 37 0.10
70 144 0.37
71 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (70 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
AAGAA
Found at i:926211 original size:200 final size:201
Alignment explanation
Indices: 925369--926369 Score: 1783
Period size: 202 Copynumber: 5.0 Consensus size: 201
925359 AGGAAGGGAG
* * *
925369 AAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
1 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
* * *
925430 -AA-AAAGA-GTGCCACGGAGTCGTGGGCTTTGAAAA--GAAGAAG-GTGCCACAGAGTTGTGGG
66 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
* * *
925489 CTTTGAAAAGAAGAAGGTGCCATGGAGCTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGT
131 CTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGT
925554 GGGCTTT
195 GGGCTTT
925561 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
925626 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
66 AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
925691 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGT
130 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGT
925756 GGGCTTT
195 GGGCTTT
925763 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
925828 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
66 AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGG
*
925893 GCTTTAAAAGAAAAAGGTGCCACGGAATTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGT
130 GCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGT
925958 GGGCTTT
195 GGGCTTT
925965 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
926030 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
66 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
926095 CTTT-AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTG
131 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTG
926159 GGCTTT
196 GGCTTT
926165 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
926230 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
66 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
*
926295 CTTTAAAAGAAAAAGGTGCCACCGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTG
131 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTG
*
926360 GAC-TT
196 GGCTTT
926365 AAAGA
1 AAAGA
926370 TGAAAAAAGT
Statistics
Matches: 784, Mismatches: 13, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
192 5 0.01
193 16 0.02
194 2 0.00
195 35 0.04
197 1 0.00
198 1 0.00
199 4 0.01
200 232 0.30
201 128 0.16
202 338 0.43
203 22 0.03
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (201 bp):
AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTG
GGCTTT
Found at i:926428 original size:27 final size:28
Alignment explanation
Indices: 926378--926432 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
926368 GATGAAAAAA
*
926378 GTGCCACGGAATTATGGGCTTTAAAAGG
1 GTGCCACGGAATTATGGACTTTAAAAGG
* *
926406 GTGCCACGGAGTTGTGGAC-TTAAAAGG
1 GTGCCACGGAATTATGGACTTTAAAAGG
926433 AACAAGGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.24
Consensus pattern (28 bp):
GTGCCACGGAATTATGGACTTTAAAAGG
Found at i:926546 original size:62 final size:63
Alignment explanation
Indices: 926447--926615 Score: 213
Period size: 62 Copynumber: 2.7 Consensus size: 63
926437 AGGTGCCATG
* * **
926447 GAGTTGTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAG-ACAAAATGCCACT
1 GAGTCGTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGTACAAAATGCCACT
* * * *
926508 GAGTCGTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGTAGAGATTGCCACT
1 GAGTCGTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGTACAAAATGCCACT
926571 GAGTCGTGGACTTT---GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAGTCGTGGACTTTAAAGAGAAG-GA-TGCCACTGAGTCGTGGACTTT
926616 TTTTTTTTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
60 6 0.06
61 19 0.20
62 46 0.48
63 24 0.25
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (63 bp):
GAGTCGTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGTACAAAATGCCACT
Found at i:926571 original size:31 final size:30
Alignment explanation
Indices: 926471--926615 Score: 193
Period size: 31 Copynumber: 4.7 Consensus size: 30
926461 AAAGAAAAAA
* * *
926471 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGAGAGAT
*
926501 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGAG-A-GAT
*
926533 TGCCACTGCGTCGTGGACTTTGAGTAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAG-AGAGAT
926564 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAG-AGAGAT
926595 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
926616 TTTTTTTTTT
Statistics
Matches: 103, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
30 23 0.22
31 56 0.54
32 23 0.22
33 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAGAGAT
Found at i:927616 original size:12 final size:11
Alignment explanation
Indices: 927601--927632 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
927591 GGTTTTTCCC
927601 TTTTTTTTGTT
1 TTTTTTTTGTT
927612 TTTTTTTTGTT
1 TTTTTTTTGTT
927623 TTTTTTTTGT
1 TTTTTTTTGT
927633 GAAGATTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTTTGTT
Done.