Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 111 of 131
Found at i:19818520 original size:18 final size:18
Alignment explanation
Indices: 19818463--19818526 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 18
19818453 ATAATTCTCC
*
19818463 TATTAAATTATATATGAAA
1 TATTAAA-TATATATTAAA
*
19818482 TTTTAACATA-ATA-TAAA
1 TATTAA-ATATATATTAAA
19818499 -ATTAAATATATATTAAA
1 TATTAAATATATATTAAA
19818516 TATTAAA-ATAT
1 TATTAAATATAT
19818527 CCTTACCATG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
15 3 0.08
16 7 0.18
17 11 0.29
18 9 0.24
19 7 0.18
20 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TATTAAATATATATTAAA
Found at i:19818593 original size:128 final size:126
Alignment explanation
Indices: 19818336--19818642 Score: 315
Period size: 128 Copynumber: 2.4 Consensus size: 126
19818326 ATGATACCCT
* *
19818336 TATTAAATTACGTAT-TAAAATTTTAACATGATATAAAATT-TATCACATATTAAATTATTAAAA
1 TATTAAATTA--TATATAAAATTTTAACATAATATAAAATTATAT-ATATATTAAATTATTAAAA
* * * *
19818399 TTTTGCCATTGCTTTATAGAAATTTGACAAGTGATATTTTATTTAAAAATTATTATAATTCTCC
63 TTTTACCATGGCTTTATAGAAATTTGACAAGTAATATTTTATTTAAAAATTATCATAATTCTCC
* *
19818463 TATTAAATTATATATGAAATTTTAACATAATATAAAATTAAATATATATTAAA-TATTAAAATAT
1 TATTAAATTATATATAAAATTTTAACATAATATAAAATTATATATATATTAAATTATTAAAAT-T
* * * * * *
19818527 CCTTACCATGGTTTTGTAGAAATTTGACATA-TAATATTTTGTTTGATATTTATCATAATAT-TC
65 --TTACCATGGCTTTATAGAAATTTGACA-AGTAATATTTTATTTAAAAATTATCATAAT-TCTC
19818590 C
126 C
* * *
19818591 TATTAAATT-TCATATTAAATGTTAA-ATAATAT-ATATATATATATATATTAAA
1 TATTAAATTAT-ATATAAAATTTTAACATAATATAAAAT-TATATATATATTAAA
19818643 GCAATTCCAT
Statistics
Matches: 153, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
125 12 0.08
126 36 0.24
127 34 0.22
128 69 0.45
129 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.45
Consensus pattern (126 bp):
TATTAAATTATATATAAAATTTTAACATAATATAAAATTATATATATATTAAATTATTAAAATTT
TACCATGGCTTTATAGAAATTTGACAAGTAATATTTTATTTAAAAATTATCATAATTCTCC
Found at i:19819159 original size:114 final size:116
Alignment explanation
Indices: 19819011--19819232 Score: 317
Period size: 117 Copynumber: 1.9 Consensus size: 116
19819001 TAGGAAGTTA
19819011 ATATGTAACATTTTTATTTCAAAATTACTATAATACCCTATTAAATTACAT-TATAA-TTAACAT
1 ATATGTAACATTTTTATTTCAAAATTACTATAATACCCTATTAAATTACATATA-AATTTAACAT
19819074 AATATTAA-ATTAATCACATAATAAATTATTAAAATACCCTTATAGAAATTTG
65 AATA-TAAGATTAATCACATAATAAATTATTAAAATACCCTTATAGAAATTTG
* * * * *
19819126 ATATGTGACA-TTTTATTTGAAATTTACTGTAATACCCTATTAAATTATATATGAAATTTTAACA
1 ATATGTAACATTTTTATTTCAAAATTACTATAATACCCTATTAAATTACATAT-AAA-TTTAACA
* *
19819190 TAATATAAGATTAATTACATATTAAATTATTAAAATACCCTTA
64 TAATATAAGATTAATCACATAATAAATTATTAAAATACCCTTA
19819233 CCATTACTTC
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
114 36 0.38
115 12 0.13
116 4 0.04
117 43 0.45
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (116 bp):
ATATGTAACATTTTTATTTCAAAATTACTATAATACCCTATTAAATTACATATAAATTTAACATA
ATATAAGATTAATCACATAATAAATTATTAAAATACCCTTATAGAAATTTG
Found at i:19819342 original size:129 final size:127
Alignment explanation
Indices: 19819134--19819474 Score: 370
Period size: 129 Copynumber: 2.7 Consensus size: 127
19819124 TGATATGTGA
* * * * * *
19819134 CATTTTATTTGAAATTTACTGTAATACCCTATTAAATTATATATGAAATTTTAACATAATATAAG
1 CATTTTATTTGAAATTTATTATAATACCCTATTAAATTACATATTAAAATTT-ACATAATATAAA
* * * *
19819199 ATTAATTACATATTAAATTATTAAAATACCCTTACCATTACTTCAT-AAAATTTTGAAATGTAG
65 ATTAACTACATATTAAATTACTAAAATACCCTTACAATTACTTCATGAAAA-TTTGAAATATAG
*
19819262 CATTTTATTTGAAATTTATTATAATACCTCTATTAAATTACATATTAAAATTTAGCATAATGTAA
1 CATTTTATTTGAAATTTATTATAATACC-CTATTAAATTACATATTAAAATTTA-CATAATATAA
* * ** * * * *
19819327 AATTAACTACATATTATATCACTAAAATATTCTTACAATTGCTTCTTGAAAATTTGACATATGG
64 AATTAACTACATATTAAATTACTAAAATACCCTTACAATTACTTCATGAAAATTTGAAATATAG
* * * * *
19819391 TATTTTA--TGAAAATTATTATAATACCCTTATGAAATTACATATT-TAA-TTA-ATTATATAAA
1 CATTTTATTTGAAATTTATTATAATACCC-TATTAAATTACATATTAAAATTTACATAATAT-AA
19819451 AATTAACTACATATTAAATTACTA
64 AATTAACTACATATTAAATTACTA
19819475 TAATGAAATA
Statistics
Matches: 181, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
123 5 0.03
124 24 0.13
125 3 0.02
126 3 0.02
127 33 0.18
128 27 0.15
129 82 0.45
130 4 0.02
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.42
Consensus pattern (127 bp):
CATTTTATTTGAAATTTATTATAATACCCTATTAAATTACATATTAAAATTTACATAATATAAAA
TTAACTACATATTAAATTACTAAAATACCCTTACAATTACTTCATGAAAATTTGAAATATAG
Found at i:19819704 original size:19 final size:20
Alignment explanation
Indices: 19819680--19819718 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19819670 ATGAAATACT
*
19819680 ATATTTATATTA-ATTTTTA
1 ATATTTATATAATATTTTTA
*
19819699 ATATTTTTATAATATTTTTA
1 ATATTTATATAATATTTTTA
19819719 TTCATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATTTATATAATATTTTTA
Found at i:19819771 original size:3 final size:3
Alignment explanation
Indices: 19819750--19819791 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
19819740 TTTATATTAA
*
19819750 AAT AAT TAT AA- ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19819792 TATTATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:19819796 original size:3 final size:3
Alignment explanation
Indices: 19819790--19819826 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
19819780 AATAATAATA
19819790 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
19819827 AAATTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:19820880 original size:2 final size:2
Alignment explanation
Indices: 19820873--19820897 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19820863 AATCTCATAA
19820873 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19820898 ACAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19839884 original size:17 final size:19
Alignment explanation
Indices: 19839849--19839887 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
19839839 TCTTACAAAT
19839849 AATATAATTAAAATATTAA
1 AATATAATTAAAATATTAA
*
19839868 AATATAA-T-AAATTTTAA
1 AATATAATTAAAATATTAA
19839885 AAT
1 AAT
19839888 TCAAAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 1 0.05
19 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAATTAAAATATTAA
Found at i:19840088 original size:21 final size:21
Alignment explanation
Indices: 19840064--19840124 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
19840054 ATACCCTTAC
19840064 AAATTTATATAATTTTAAAAT
1 AAATTTATATAATTTTAAAAT
*
19840085 AAATTT-TATTAATTTAAAAAT
1 AAATTTATA-TAATTTTAAAAT
19840106 AATGATTTA-A-AATTTTAAA
1 AA--ATTTATATAATTTTAAA
19840125 TAATATGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.06
21 27 0.79
23 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AAATTTATATAATTTTAAAAT
Found at i:19841161 original size:21 final size:21
Alignment explanation
Indices: 19841132--19841171 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19841122 ATTATTTAAT
19841132 AATAAAATAATTAATTATATA
1 AATAAAATAATTAATTATATA
* *
19841153 AATATAATATTTAATTATA
1 AATAAAATAATTAATTATA
19841172 AGTTTGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATAAAATAATTAATTATATA
Found at i:19842674 original size:2 final size:2
Alignment explanation
Indices: 19842667--19842698 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
19842657 TATATGTTGT
19842667 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19842699 TAGATATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19842869 original size:31 final size:31
Alignment explanation
Indices: 19842800--19842870 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
19842790 TTCAATTAAT
* *
19842800 ATAAATTCATTATTTTATTTATAAATTTGAA
1 ATAAATTTATGATTTTATTTATAAATTTGAA
* *
19842831 ATAAATTTATGATTTTATTTTTAAGTTT-AA
1 ATAAATTTATGATTTTATTTATAAATTTGAA
19842861 AGTAAATTTA
1 A-TAAATTTA
19842871 ATCAAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (31 bp):
ATAAATTTATGATTTTATTTATAAATTTGAA
Found at i:19845452 original size:17 final size:16
Alignment explanation
Indices: 19845430--19845469 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
19845420 ATATAAATAC
*
19845430 AATATAATTTATATAAT
1 AATATAAATTATAT-AT
19845447 AATATAAAATTATATAT
1 AATAT-AAATTATATAT
19845464 AATATA
1 AATATA
19845470 TCATTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.57
18 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATAAATTATATAT
Found at i:19845958 original size:21 final size:21
Alignment explanation
Indices: 19845934--19845985 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
19845924 AAATTTAAAA
*
19845934 TTTTATATATTTTAATATA-AT
1 TTTTATATATTTAAAT-TAGAT
*
19845955 TTTTAATACATTTAAATTAGAT
1 TTTT-ATATATTTAAATTAGAT
*
19845977 TTTAATATA
1 TTTTATATA
19845986 AAATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATATATTTAAATTAGAT
Found at i:19846029 original size:18 final size:19
Alignment explanation
Indices: 19846008--19846050 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19845998 TATTTTATTT
19846008 TATAAAA-T-TTAAAATATA
1 TATAAAACTATTAAAA-ATA
19846026 TATAAAAACTATTAAAAATA
1 TAT-AAAACTATTAAAAATA
19846046 TATAA
1 TATAA
19846051 TTTGATACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.14
19 6 0.27
20 7 0.32
21 6 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAACTATTAAAAATA
Found at i:19847362 original size:14 final size:14
Alignment explanation
Indices: 19847333--19847393 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
19847323 AAAATTATTT
19847333 TTTAATTA-AT-TA
1 TTTAATTATATATA
19847345 TTTAATTATATATA
1 TTTAATTATATATA
* *
19847359 TTTATATAATGATATT
1 TTTA-ATTAT-ATATA
* *
19847375 TTTAAATATTTATA
1 TTTAATTATATATA
19847389 TTTAA
1 TTTAA
19847394 AAAATAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 14 0.36
15 7 0.18
16 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:19847379 original size:30 final size:30
Alignment explanation
Indices: 19847345--19847406 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
19847335 TAATTAATTA
* * * *
19847345 TTTAATTATATATATTTATATAATGATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
19847375 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
19847405 TT
1 TT
19847407 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:19847409 original size:21 final size:22
Alignment explanation
Indices: 19847379--19847430 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
19847369 GATATTTTTA
19847379 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
19847399 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
19847421 AATATTTTAT
1 AATATTTTAT
19847431 TAATTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:19847766 original size:28 final size:32
Alignment explanation
Indices: 19847695--19847766 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 32
19847685 ATTTATATTA
*
19847695 TATTTTATGTAAAAATTATGAATTATAATTTG
1 TATTTTATATAAAAATTATGAATTATAATTTG
* * *
19847727 TA-TTGATATAAAAA-TAT-AA-TATATTTTT
1 TATTTTATATAAAAATTATGAATTATAATTTG
19847755 TATTTTAT-TAAA
1 TATTTTATATAAA
19847767 TTTATATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 13 0.38
29 6 0.18
30 3 0.09
31 10 0.29
32 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (32 bp):
TATTTTATATAAAAATTATGAATTATAATTTG
Found at i:19847809 original size:20 final size:20
Alignment explanation
Indices: 19847784--19847821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19847774 AAATTTTAAA
* *
19847784 TTATATTATTTTTATATTTT
1 TTATATCATGTTTATATTTT
19847804 TTATATCATGTTTATATT
1 TTATATCATGTTTATATT
19847822 ATATTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATATCATGTTTATATTTT
Found at i:19848856 original size:10 final size:10
Alignment explanation
Indices: 19848841--19848870 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19848831 ATCGAATATT
19848841 TATATTTTAA
1 TATATTTTAA
19848851 TATATTTTAA
1 TATATTTTAA
19848861 T-TATTTTAA
1 TATATTTTAA
19848870 T
1 T
19848871 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:19849712 original size:2 final size:2
Alignment explanation
Indices: 19849705--19849729 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19849695 GAGGTCTCCC
19849705 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19849730 CTCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19850412 original size:21 final size:20
Alignment explanation
Indices: 19850388--19850431 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
19850378 AATTTGAAGT
19850388 ATTTGAAAATAAATTTCAAAA
1 ATTTGAAAA-AAATTTCAAAA
* *
19850409 ATTTTTAAAAAATTTTCAAAA
1 A-TTTGAAAAAAATTTCAAAA
19850430 AT
1 AT
19850432 GTGTCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.05
21 12 0.60
22 7 0.35
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTGAAAAAAATTTCAAAA
Found at i:19850452 original size:12 final size:12
Alignment explanation
Indices: 19850404--19850452 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
19850394 AAATAAATTT
19850404 CAAAAATTTTTA
1 CAAAAATTTTTA
19850416 -AAAAA-TTTT-
1 CAAAAATTTTTA
* * *
19850425 CAAAAATGTGTC
1 CAAAAATTTTTA
19850437 CAAAAATTTTTA
1 CAAAAATTTTTA
19850449 CAAA
1 CAAA
19850453 TTTTGAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 9 0.31
11 7 0.24
12 13 0.45
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (12 bp):
CAAAAATTTTTA
Found at i:19850674 original size:16 final size:16
Alignment explanation
Indices: 19850653--19850683 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19850643 ATTTGGAAAA
19850653 AAAAAAAGAAAAAGAG
1 AAAAAAAGAAAAAGAG
*
19850669 AAAAAAAGAAGAAGA
1 AAAAAAAGAAAAAGA
19850684 AGGTAATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAG
Found at i:19851364 original size:30 final size:33
Alignment explanation
Indices: 19851295--19851353 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
19851285 TATTATTATA
19851295 TAATT-TATTATCAATATATAATATTTATACAC
1 TAATTATATTATCAATATATAATATTTATACAC
19851327 TAATTATATT-TCAA-ATATAA-ATTTATA
1 TAATTATATTATCAATATATAATATTTATA
19851354 ATTTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 7 0.27
31 6 0.23
32 9 0.35
33 4 0.15
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (33 bp):
TAATTATATTATCAATATATAATATTTATACAC
Found at i:19852246 original size:16 final size:18
Alignment explanation
Indices: 19852221--19852256 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19852211 CTTTAATTCT
19852221 TTTTTAAAATTTT-TTTA
1 TTTTTAAAATTTTATTTA
19852238 TTTTT-AAATTTTATTTA
1 TTTTTAAAATTTTATTTA
19852255 TT
1 TT
19852257 AATGATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTAAAATTTTATTTA
Found at i:19857756 original size:18 final size:18
Alignment explanation
Indices: 19857726--19857760 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19857716 TCTTTCATAT
19857726 ATTTTCTTCTATAATTTTC
1 ATTTTCTTCTAT-ATTTTC
19857745 ATTTTC-TCTATATTTT
1 ATTTTCTTCTATATTTT
19857761 AATACCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTCTTCTATATTTTC
Found at i:19859631 original size:14 final size:13
Alignment explanation
Indices: 19859593--19859632 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
19859583 GTTTATTTCG
19859593 TAAAAATTAATTTT
1 TAAAAATT-ATTTT
*
19859607 TAAAAAGTATTTT
1 TAAAAATTATTTT
19859620 TAAAAAATTATTT
1 T-AAAAATTATTT
19859633 ATATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TAAAAATTATTTT
Found at i:19859948 original size:24 final size:24
Alignment explanation
Indices: 19859910--19859962 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
19859900 AAATATTATT
* **
19859910 TTTATTAATATAATAATAGTAATA
1 TTTATTAATAAAATAATAAAAATA
* *
19859934 TTTATTATTAAAATATTAAAAATA
1 TTTATTAATAAAATAATAAAAATA
19859958 TTTAT
1 TTTAT
19859963 ACTGTTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTATTAATAAAATAATAAAAATA
Found at i:19860263 original size:24 final size:25
Alignment explanation
Indices: 19860228--19860278 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
19860218 AATGTCATAC
* *
19860228 TATTTATTTTTAA-AATATTAAAAA
1 TATTTATGTTTAATAATATAAAAAA
19860252 TATTTATGTTTAATAATATAAAAAA
1 TATTTATGTTTAATAATATAAAAAA
19860277 TA
1 TA
19860279 AAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTTATGTTTAATAATATAAAAAA
Found at i:19860531 original size:19 final size:19
Alignment explanation
Indices: 19860507--19860546 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19860497 TTTTATGTAA
19860507 TATTAA-ATAAAAATAATTT
1 TATTAATATAAAAAT-ATTT
*
19860526 TATTAATATAATAATATTT
1 TATTAATATAAAAATATTT
19860545 TA
1 TA
19860547 AATCAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTAATATAAAAATATTT
Found at i:19860725 original size:53 final size:54
Alignment explanation
Indices: 19860623--19860731 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
19860613 TTTCGCGATA
19860623 AGTAATCTTATTTATAAATAGTTTTTTTTTTAAAATTGTCTTTCTTTTAAAAAC
1 AGTAATCTTATTTATAAATAGTTTTTTTTTTAAAATTGTCTTTCTTTTAAAAAC
19860677 AGTAATCTTATTTATAAATAGTTTTTTTTTT-AAATTGTCTTTCTTTTAAAAAC
1 AGTAATCTTATTTATAAATAGTTTTTTTTTTAAAATTGTCTTTCTTTTAAAAAC
19860730 AG
1 AG
19860732 AAAGATATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 24 0.44
54 31 0.56
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.53
Consensus pattern (54 bp):
AGTAATCTTATTTATAAATAGTTTTTTTTTTAAAATTGTCTTTCTTTTAAAAAC
Found at i:19861584 original size:13 final size:14
Alignment explanation
Indices: 19861569--19861615 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
19861559 TAAAAATTCA
*
19861569 TAATAATTTAATA-
1 TAATAATTAAATAT
*
19861582 TAAAAATTAAATAT
1 TAATAATTAAATAT
19861596 TAAT-ATTAAATAT
1 TAATAATTAAATAT
19861609 TAA-AATT
1 TAATAATT
19861616 TAATTAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 26 0.90
14 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATTAAATAT
Found at i:19861610 original size:20 final size:20
Alignment explanation
Indices: 19861576--19861696 Score: 67
Period size: 20 Copynumber: 6.0 Consensus size: 20
19861566 TCATAATAAT
*
19861576 TTAATA-TAAAAATTAAATA
1 TTAATATTAAATATTAAATA
19861595 TTAATATTAAATATTAAA-A
1 TTAATATTAAATATTAAATA
* * *
19861614 TTTA-ATT-AAGATTAACTCCA
1 TTAATATTAAATATTAAAT--A
* *
19861634 -CAATATTAAATGTTAAATTA
1 TTAATATTAAATATTAAA-TA
19861654 TTAATATTAATATTTATTAAATA
1 TTAATATTAA-A--TATTAAATA
19861677 TT-AT-TTAAAAATATTAAATA
1 TTAATATT--AAATATTAAATA
19861697 CTTTTTCAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
17 7 0.09
18 3 0.04
19 11 0.14
20 24 0.31
21 16 0.21
22 5 0.06
23 6 0.08
24 6 0.08
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (20 bp):
TTAATATTAAATATTAAATA
Found at i:19861729 original size:20 final size:20
Alignment explanation
Indices: 19861646--19861729 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 20
19861636 ATATTAAATG
*
19861646 TTAAATTATTAATATTAATATTT
1 TTAAA-TATT-AT-TTAATAATT
* *
19861669 ATTAAATATTATTTAAAAATA
1 -TTAAATATTATTTAATAATT
19861690 TTAAATACTT-TTTCAATAATT
1 TTAAATA-TTATTT-AATAATT
19861711 TTAAATATTATTTAATAAT
1 TTAAATATTATTTAATAAT
19861730 ATTTCATATG
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 18 0.35
21 23 0.44
22 2 0.04
23 4 0.08
24 5 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAATATTATTTAATAATT
Found at i:19861738 original size:20 final size:20
Alignment explanation
Indices: 19861668--19861773 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
19861658 TATTAATATT
* *
19861668 TATTAAATATTATTTAAAAA
1 TATTTAATATTATTTAATAA
*
19861688 TATTAAATACTT-TTTCAATAA
1 TATTTAATA-TTATTT-AATAA
19861709 T-TTTAAATATTATTTAATAA
1 TATTT-AATATTATTTAATAA
* *
19861729 TATTTCATATGA---AACTAA
1 TATTTAATATTATTTAA-TAA
* *
19861747 TAATAAATATTAATTTAATAA
1 TATTTAATATT-ATTTAATAA
19861768 TATTTA
1 TATTTA
19861774 TAAATATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
17 2 0.03
18 10 0.15
19 1 0.02
20 27 0.41
21 24 0.36
22 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (20 bp):
TATTTAATATTATTTAATAA
Found at i:19861792 original size:11 final size:11
Alignment explanation
Indices: 19861752--19861798 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
19861742 ACTAATAATA
*
19861752 AATATTAATTT
1 AATATTATTTT
*
19861763 AATAATATTTAT
1 AATATTATTT-T
19861775 AA-A-TATTTT
1 AATATTATTTT
19861784 AATATTATTTT
1 AATATTATTTT
19861795 AATA
1 AATA
19861799 ATATGTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 3 0.10
10 6 0.19
11 19 0.61
12 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATTATTTT
Found at i:19861860 original size:73 final size:71
Alignment explanation
Indices: 19861714--19861867 Score: 177
Period size: 73 Copynumber: 2.2 Consensus size: 71
19861704 AATAATTTTA
19861714 AATATTA-TTTAATAATATTTCATATGAAACTAATAATAAATATTAATTTAATAATATTTATAAA
1 AATATTATTTTAATAATATTTCATATGAAACTAATAATAAATATTAATTTAATAATATTTATAAA
* *
19861778 TATTTT
66 AATTAT
* ** * * * * *
19861784 AATATTATTTTAATAATATGTTCATAATTAATTTGATATTACATATTGATTTGATAATAATTTA-
1 AATATTATTTTAATAATAT-TTCAT-ATGAAACTAATAATAAATATTAATTTAATAAT-ATTTAT
19861848 AAAAATTAT
63 AAAAATTAT
19861857 AATATTATTTT
1 AATATTATTTT
19861868 CATATTAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
70 7 0.10
71 11 0.16
72 5 0.07
73 42 0.60
74 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (71 bp):
AATATTATTTTAATAATATTTCATATGAAACTAATAATAAATATTAATTTAATAATATTTATAAA
AATTAT
Found at i:19861932 original size:39 final size:40
Alignment explanation
Indices: 19861852--19861944 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
19861842 AATTTAAAAA
* *
19861852 ATTATAATATTATTTTCATATTAAATATTAAATAAACAAT
1 ATTATAATATTATTTTAATATTAAATACTAAATAAACAAT
* * *
19861892 ATTATAATATTGTTTTAAT-TTAAAATACT-AATGAATAAT
1 ATTATAATATTATTTTAATATT-AAATACTAAATAAACAAT
*
19861931 ATTTTAATACTTAT
1 ATTATAATA-TTAT
19861945 GATTTTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 18 0.41
40 26 0.59
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (40 bp):
ATTATAATATTATTTTAATATTAAATACTAAATAAACAAT
Found at i:19862222 original size:10 final size:10
Alignment explanation
Indices: 19862207--19862284 Score: 68
Period size: 10 Copynumber: 7.7 Consensus size: 10
19862197 TTAATTTTTA
*
19862207 AATAATATTG
1 AATAATATTT
* *
19862217 AATAATAGTA
1 AATAATATTT
*
19862227 AATATTATTT
1 AATAATATTT
19862237 AATAATATTT
1 AATAATATTT
* *
19862247 AATATTACGTT
1 AATAATA-TTT
19862258 AATAATAGTTT
1 AATAATA-TTT
*
19862269 AATATTATTT
1 AATAATATTT
19862279 -ATAATA
1 AATAATA
19862285 AAAATTAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
9 5 0.09
10 33 0.61
11 16 0.30
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (10 bp):
AATAATATTT
Found at i:19862250 original size:20 final size:20
Alignment explanation
Indices: 19862207--19862284 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
19862197 TTAATTTTTA
* * * *
19862207 AATAATATTGAATAATAGTA
1 AATATTATTTAATAATATTT
19862227 AATATTATTTAATAATATTT
1 AATATTATTTAATAATATTT
*
19862247 AATATTACGTTAATAATAGTTT
1 AATATTA-TTTAATAATA-TTT
19862269 AATATTATTT-ATAATA
1 AATATTATTTAATAATA
19862285 AAAATTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 29 0.58
21 11 0.22
22 10 0.20
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (20 bp):
AATATTATTTAATAATATTT
Found at i:19862398 original size:57 final size:52
Alignment explanation
Indices: 19862319--19862442 Score: 131
Period size: 57 Copynumber: 2.3 Consensus size: 52
19862309 TATTTAATAC
* * * *
19862319 TATTATTTTAATATGAAGTATTAATTCAATAATACTTTAGTATTTAATATATTTTAA
1 TATTA-TTTAATATTAAATATTAATTCAATAAT-CATT--TATTAAAT-TATTTTAA
* *
19862376 TATTATGTTAATATTAAATATTAATTTATTAATCATTTATTAAATTATTTTAA
1 TATTAT-TTAATATTAAATATTAATTCAATAATCATTTATTAAATTATTTTAA
*
19862429 TAATATTTAATATT
1 TATTATTTAATATT
19862443 CTTTTACTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
52 8 0.14
53 13 0.22
54 7 0.12
56 4 0.07
57 27 0.46
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (52 bp):
TATTATTTAATATTAAATATTAATTCAATAATCATTTATTAAATTATTTTAA
Found at i:19862671 original size:38 final size:37
Alignment explanation
Indices: 19862597--19862678 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 37
19862587 TTTTGTTAAC
** * *
19862597 ATTTTAATATTATTTTAGTATGGAATAATTTCATAAT
1 ATTTTAATATTATGATAATATGGAATAATTTAATAAT
19862634 ATTTTAATATT-TGATAATATGGAAACTAATTTAATAAT
1 ATTTTAATATTATGATAATATGG-AA-TAATTTAATAAT
19862672 ATTTTAA
1 ATTTTAA
19862679 AAATAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 8 0.21
37 13 0.33
38 18 0.46
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (37 bp):
ATTTTAATATTATGATAATATGGAATAATTTAATAAT
Found at i:19862696 original size:29 final size:29
Alignment explanation
Indices: 19862660--19862757 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
19862650 ATATGGAAAC
19862660 TAATTTAATAATATTTTAAAAATAAATAT
1 TAATTTAATAATATTTTAAAAATAAATAT
* * *
19862689 TAATTTAATAATACTTT-AATATATTATAT
1 TAATTTAATAATATTTTAAAAATA-AATAT
* * * * *
19862718 TATTTTCACAATATTTTAAACATTAGATATT
1 TAATTTAATAATATTTTAAA-AATAAATA-T
19862749 TAATTTAAT
1 TAATTTAAT
19862758 GAGATTTTGA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
28 5 0.10
29 33 0.63
30 5 0.10
31 9 0.17
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (29 bp):
TAATTTAATAATATTTTAAAAATAAATAT
Found at i:19862771 original size:60 final size:58
Alignment explanation
Indices: 19862669--19862783 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 58
19862659 CTAATTTAAT
* *
19862669 AATATTTTAAAAATAAATATTAATTTAATAATACTTTAATATATTATATTATTTTCAC
1 AATATTTTAAAAATAAATATTAATTTAATAAGACTTTAATATAGTATATTATTTTCAC
* * * * *
19862727 AATATTTTAAACATTAGATATTTAATTTAATGAGATTTTGATATAGTATATTATTTT
1 AATATTTTAAA-AATAAATA-TTAATTTAATAAGACTTTAATATAGTATATTATTTT
19862784 AATAGTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 11 0.23
59 6 0.12
60 31 0.65
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
AATATTTTAAAAATAAATATTAATTTAATAAGACTTTAATATAGTATATTATTTTCAC
Found at i:19862825 original size:17 final size:16
Alignment explanation
Indices: 19862792--19862836 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
19862782 TTAATAGTAA
19862792 ATTTTAATTTAAAAAT
1 ATTTTAATTTAAAAAT
*
19862808 ATTTTAATGTTAATAAT
1 ATTTTAAT-TTAAAAAT
19862825 ATTTATAATTTA
1 ATTT-TAATTTA
19862837 TAATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.31
17 14 0.54
18 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTTAATTTAAAAAT
Found at i:19862839 original size:16 final size:16
Alignment explanation
Indices: 19862660--19862840 Score: 71
Period size: 16 Copynumber: 11.8 Consensus size: 16
19862650 ATATGGAAAC
19862660 TAATTTAATAATATTT
1 TAATTTAATAATATTT
* *
19862676 TAA--AAATAA-ATAT
1 TAATTTAATAATATTT
*
19862689 TAATTTAATAATACTT
1 TAATTTAATAATATTT
* *
19862705 TAA--T-ATATTATAT
1 TAATTTAATAATATTT
* * *
19862718 TATTTTCACAATATTT
1 TAATTTAATAATATTT
** *
19862734 TAA-ACATTAGATA-TT
1 TAATTTAATA-ATATTT
* *
19862749 TAATTTAATGAGATTT
1 TAATTTAATAATATTT
* * *
19862765 TGATATAGTATATTATTT
1 TAATTTA--ATAATATTT
*
19862783 TAA--TAGTAA-ATTT
1 TAATTTAATAATATTT
*
19862796 TAATTTAAAAATATTT
1 TAATTTAATAATATTT
19862812 TAATGTTAATAATATTT
1 TAAT-TTAATAATATTT
19862829 ATAATTT-ATAAT
1 -TAATTTAATAAT
19862841 TTATTTATTT
Statistics
Matches: 115, Mismatches: 34, Indels: 32
0.64 0.19 0.18
Matches are distributed among these distances:
13 21 0.18
14 8 0.07
15 18 0.16
16 43 0.37
17 13 0.11
18 12 0.10
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:19863349 original size:21 final size:21
Alignment explanation
Indices: 19863310--19863349 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19863300 ATTTATCTAT
*
19863310 TCTTTCCGTTTCTTTCCTTTG
1 TCTTTCCGTTTCTTGCCTTTG
19863331 TCTTTCC-TTTCCTTGCCTT
1 TCTTTCCGTTT-CTTGCCTT
19863350 CTCCAGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.60
Consensus pattern (21 bp):
TCTTTCCGTTTCTTGCCTTTG
Found at i:19867454 original size:7 final size:7
Alignment explanation
Indices: 19867442--19867472 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
19867432 TATAACTTTT
19867442 TAAAAAA
1 TAAAAAA
19867449 TAAAAAA
1 TAAAAAA
19867456 TAAAAAA
1 TAAAAAA
19867463 TAAAAAA
1 TAAAAAA
19867470 TAA
1 TAA
19867473 TTTTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:19880251 original size:64 final size:63
Alignment explanation
Indices: 19880168--19880358 Score: 161
Period size: 65 Copynumber: 2.9 Consensus size: 63
19880158 ATCCATTACA
* *
19880168 AAAAATTAAATGAGG-TTATTCAAGGTATTTCT-GGCACAAAATATCTTAATAATCCCCTTTAAT
1 AAAAATTAAA-GGGGATTATTCAAGGCATTT-TAGGCA-AAAATATCTTAATAATCCCCTTTAAT
19880231 T
63 T
* * * * ** *
19880232 AAAAATTAGAGGGGATTATTGAAGGCATTTTAGGCTAAAAATGCTTTTAATAATCATCTCTAATT
1 AAAAATTAAAGGGGATTATTCAAGGCATTTTAGGC-AAAAAT-ATCTTAATAATCCCCTTTAATT
*** * **
19880297 TTTAATTAAAGGGGATTATTTAAGGCATTTTTACCCAAAAAATATCTTGAATAATCCCCTTT
1 AAAAATTAAAGGGGATTATTCAAGGCA-TTTTAGGC-AAAAATATCTT-AATAATCCCCTTT
19880359 TATTTTGTTT
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
63 4 0.04
64 30 0.30
65 43 0.43
66 22 0.22
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (63 bp):
AAAAATTAAAGGGGATTATTCAAGGCATTTTAGGCAAAAATATCTTAATAATCCCCTTTAATT
Found at i:19880705 original size:24 final size:24
Alignment explanation
Indices: 19880627--19880705 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
19880617 TCCATTCAAT
*
19880627 TTTTTTACGAGATTATTCAATGCA
1 TTTTTCACGAGATTATTCAATGCA
* * * * *
19880651 TTTTTCATTGA-ATAACATCCATTCAA
1 TTTTTCA-CGAGATTA-TTCAATGC-A
*
19880677 TTTTTGACGAGATTATTCAATGCA
1 TTTTTCACGAGATTATTCAATGCA
19880701 TTTTT
1 TTTTT
19880706 TGATGAAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
24 15 0.38
25 14 0.36
26 10 0.26
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (24 bp):
TTTTTCACGAGATTATTCAATGCA
Found at i:19880706 original size:51 final size:51
Alignment explanation
Indices: 19880605--19880705 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 51
19880595 GCCAAAAACA
*
19880605 CATTGAATAACATCCATTCAATTTTTTTACGAGATTATTCAATGCATTTTT
1 CATTGAATAACATCCATTCAATTTTTTGACGAGATTATTCAATGCATTTTT
19880656 CATTGAATAACATCCATTCAA-TTTTTGACGAGATTATTCAATGCATTTTT
1 CATTGAATAACATCCATTCAATTTTTTGACGAGATTATTCAATGCATTTTT
19880706 TGATGAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 28 0.57
51 21 0.43
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.44
Consensus pattern (51 bp):
CATTGAATAACATCCATTCAATTTTTTGACGAGATTATTCAATGCATTTTT
Found at i:19880707 original size:25 final size:25
Alignment explanation
Indices: 19880625--19880708 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
19880615 CATCCATTCA
*
19880625 ATTTTTTTACGAGATTATTCAATGC
1 ATTTTTTGACGAGATTATTCAATGC
* * * * * *
19880650 A-TTTTTCATTGA-ATAACATCCATTC
1 ATTTTTTGA-CGAGATTA-TTCAATGC
*
19880675 AATTTTTGACGAGATTATTCAATGC
1 ATTTTTTGACGAGATTATTCAATGC
19880700 ATTTTTTGA
1 ATTTTTTGA
19880709 TGAAAAATGC
Statistics
Matches: 42, Mismatches: 13, Indels: 8
0.67 0.21 0.13
Matches are distributed among these distances:
24 9 0.21
25 24 0.57
26 9 0.21
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (25 bp):
ATTTTTTGACGAGATTATTCAATGC
Found at i:19883009 original size:21 final size:20
Alignment explanation
Indices: 19882972--19883012 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19882962 ACAGAAAAGA
19882972 CTTGATGACCAAAAGTAATG
1 CTTGATGACCAAAAGTAATG
* *
19882992 CTTGAATGATCAATAGTAATG
1 CTTG-ATGACCAAAAGTAATG
19883013 ACTCATAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
CTTGATGACCAAAAGTAATG
Found at i:19889098 original size:31 final size:32
Alignment explanation
Indices: 19889054--19889136 Score: 125
Period size: 31 Copynumber: 2.6 Consensus size: 32
19889044 GCTGCCTTTG
*
19889054 TTTTTTTTATTTTATTTTTTAAATGAAATTAA
1 TTTTTTTTGTTTTATTTTTTAAATGAAATTAA
*
19889086 -TTTTTTTGTTTTATTTTTTAAATGACATTAA
1 TTTTTTTTGTTTTATTTTTTAAATGAAATTAA
19889117 TTTTTTTTTGTTTT-TTTTTT
1 -TTTTTTTTGTTTTATTTTTT
19889137 GTTTCGTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
31 29 0.62
32 6 0.13
33 12 0.26
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (32 bp):
TTTTTTTTGTTTTATTTTTTAAATGAAATTAA
Found at i:19890516 original size:23 final size:23
Alignment explanation
Indices: 19890476--19890526 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
19890466 CTTTTTTGTC
*
19890476 TTTTTCTTCTATTTTTTTTTAAT
1 TTTTTCTTCTATTTTTTTGTAAT
* *
19890499 TTTTTCTTGT-TTTGTTTTGTGAT
1 TTTTTCTTCTATTT-TTTTGTAAT
19890522 TTTTT
1 TTTTT
19890527 TTTACGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.78
Consensus pattern (23 bp):
TTTTTCTTCTATTTTTTTGTAAT
Found at i:19891893 original size:41 final size:41
Alignment explanation
Indices: 19891804--19891899 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
19891794 TTTTATACAA
* * *
19891804 ATGCAAATACAAGTGATGCAAATGCGAATGTCTCTCTTGTG
1 ATGCATATACAAGTGATGCAAATGCGAATATCTCTCTTATG
* * * *
19891845 ATACATATGCAAGTGATGCAAATGCTAATATCT-TTTTCATG
1 ATGCATATACAAGTGATGCAAATGCGAATATCTCTCTT-ATG
19891886 ATGCATATACAAGT
1 ATGCATATACAAGT
19891900 ACAAATGCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 3 0.07
41 42 0.93
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (41 bp):
ATGCATATACAAGTGATGCAAATGCGAATATCTCTCTTATG
Found at i:19891951 original size:42 final size:42
Alignment explanation
Indices: 19891901--19892060 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 42
19891891 TATACAAGTA
* *
19891901 CAAATGCAAGTGATGCAAATGTAAATGTCTTTTTTTGTGATG
1 CAAATGCAAGCGATGCAAATGCAAATGTCTTTTTTTGTGATG
* ** ** *
19891943 CAGATGCAAGTAATGCAAATGTGAATGTC-TTTTTCGTGATG
1 CAAATGCAAGCGATGCAAATGCAAATGTCTTTTTTTGTGATG
* *
19891984 CAAATGCAAGCGATGCAAA-GCAAATGTCCTTTTTCTTATGATA
1 CAAATGCAAGCGATGCAAATGCAAATGT-CTTTTT-TTGTGATG
* *
19892027 CAAATGCAAGCGATGTAAATACAAATGTCTTTTT
1 CAAATGCAAGCGATGCAAATGCAAATGTCTTTTT
19892061 CATAATGCAT
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
40 6 0.06
41 28 0.28
42 30 0.30
43 29 0.29
44 7 0.07
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (42 bp):
CAAATGCAAGCGATGCAAATGCAAATGTCTTTTTTTGTGATG
Found at i:19891983 original size:95 final size:94
Alignment explanation
Indices: 19891797--19891985 Score: 245
Period size: 95 Copynumber: 2.0 Consensus size: 94
19891787 ACAAATGTTT
* * * *
19891797 TATACAAATGCAAATACAAGTGATGCAAATGCGAATGTCTCTCTTGTGATACATATGCAAGTGAT
1 TATACAAATACAAATACAAGTGATGCAAATGCAAATGTCTCTCTTGTGATACAGATGCAAGTAAT
19891862 GCAAATGCTAATATCTTTTTCATGATGCA
66 GCAAATGCTAATATCTTTTTCATGATGCA
* * * * * *
19891891 TATACAAGTACAAATGCAAGTGATGCAAATGTAAATGTCTTTTTTTGTGATGCAGATGCAAGTAA
1 TATACAAATACAAATACAAGTGATGCAAATGCAAATGTC-TCTCTTGTGATACAGATGCAAGTAA
* *
19891956 TGCAAATG-TGAATGTCTTTTTCGTGATGCA
65 TGCAAATGCT-AATATCTTTTTCATGATGCA
19891986 AATGCAAGCG
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
94 35 0.43
95 46 0.57
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (94 bp):
TATACAAATACAAATACAAGTGATGCAAATGCAAATGTCTCTCTTGTGATACAGATGCAAGTAAT
GCAAATGCTAATATCTTTTTCATGATGCA
Found at i:19892153 original size:39 final size:39
Alignment explanation
Indices: 19892092--19892193 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 39
19892082 AGTGCGAGTG
* * * *
19892092 ATGCAAATGTGAATATCATTTTTTGTGATGCAGA-TGTGA
1 ATGCAAATGTGAATGTCTTTTTTTGTGATACAAAGT-TGA
** *
19892131 ATGCAAATGCAAATGTCTTTTTTTGTGATATAAAGTTGA
1 ATGCAAATGTGAATGTCTTTTTTTGTGATACAAAGTTGA
19892170 ATGCAAATGTGAATGTCTTTTTTT
1 ATGCAAATGTGAATGTCTTTTTTT
19892194 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 52 0.98
40 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (39 bp):
ATGCAAATGTGAATGTCTTTTTTTGTGATACAAAGTTGA
Found at i:19898023 original size:25 final size:25
Alignment explanation
Indices: 19897990--19898038 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
19897980 TTTTTTTGAA
*
19897990 AAATTAAAATAAAA-GAATTAAATT
1 AAATTAAAATAAAACCAATTAAATT
19898014 AAATATAAAATAAAACCAATTAAAT
1 AAAT-TAAAATAAAACCAATTAAAT
19898039 CCAACAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATTAAAATAAAACCAATTAAATT
Found at i:19901778 original size:20 final size:20
Alignment explanation
Indices: 19901753--19901796 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
19901743 AAAAATTCAC
*
19901753 TTAAATTAATTCGAATAAAT
1 TTAAATTAATTCGAATAAAA
*
19901773 TTAAATTAATTCGAGTAAAA
1 TTAAATTAATTCGAATAAAA
19901793 TTAA
1 TTAA
19901797 GTATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (20 bp):
TTAAATTAATTCGAATAAAA
Found at i:19905971 original size:9 final size:8
Alignment explanation
Indices: 19905951--19905975 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19905941 TTTCAATATC
19905951 AAAAAATT
1 AAAAAATT
19905959 AAAAAATT
1 AAAAAATT
19905967 AAAAAATT
1 AAAAAATT
19905975 A
1 A
19905976 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:19906000 original size:27 final size:26
Alignment explanation
Indices: 19905953--19906045 Score: 73
Period size: 28 Copynumber: 3.5 Consensus size: 26
19905943 TCAATATCAA
*
19905953 AAAATTAAAAAATTAAAAAATTATTTT
1 AAAATTAAAAAAAT-AAAAATTATTTT
*
19905980 AAAATATAAAAAAATAAAAATT-TTAT
1 AAAAT-TAAAAAAATAAAAATTATTTT
* * * *
19906006 -ATATTAAAAAAATTAATATAATTTT
1 AAAATTAAAAAAATAAAAATTATTTT
*
19906031 GAAACATAAAAAAAA
1 -AAA-ATTAAAAAAA
19906046 AATTAGACAG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
24 13 0.25
25 6 0.12
26 3 0.06
27 13 0.25
28 17 0.33
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (26 bp):
AAAATTAAAAAAATAAAAATTATTTT
Found at i:19909343 original size:907 final size:908
Alignment explanation
Indices: 19907558--19909352 Score: 1925
Period size: 906 Copynumber: 2.0 Consensus size: 908
19907548 CTTACTTTTC
* * * **
19907558 AAGAATCATTTTTCTCTTAGAATTCTTCTTTTGTAAATTTTTTTATCCATTAAGTAATATCTAGT
1 AAGAATCATTTTTCTCTTAGAATTCTTCTTTTGTAAAGTTTTTTACCCATAAAGTAATATCTAAC
* * * * * *
19907623 CAATCTCAAATAAATCTCTTATGAGATTTAAGTCACTATTTCAAATAATTTTTACCTTGACTCAA
66 CAATCCCAAATAAATCTCTTATGAAATTTAAGTCACTATTCCAAATAATCTCTACATTGACTCAA
* * * * * * *
19907688 ATTTCATCAAATCATCTGTCTTTATGCTAGACATGCTTGGTTCCATCTATAATGAAAGTCTCATA
131 ATTTCATCAAATCATCTATCTTTATGCTAAACATACTTGATTCCATCTATAATAAAAATCCCATA
* * * * *
19907753 ATCATTTTTTCTTATGTATCTTCATGCTTCATGTAAACTGATTTATTAAAGCATGAACTTGAACT
196 ATCATTTTTTCTTATGTATCTTCATGCTTCACGCAAACTGATCTATCAAAGCATGAACTTAAACT
* * * * * *
19907818 TTTTACTTGAATTAATCATCTAGGCTTGCCTCTTCTCATGGCTCGAATCATGCTTTCATACTACT
261 CTTCACTTGAATCAAGCATCTAGGCTTGCCTCTTCTCATGGCTCGAATCATGCTCTCATACCACT
* ** * * * *
19907883 TGTTGAGGATCACCACAGTGTTGATACAACTTGTTATCAAACTTTGCTGCTTGCATTGAAACTAA
326 TGTTAAGGATCACCACAACGCTGATACAACTTGTTATCAAACTCTGCTGCTTGCACTGAAACCAA
* * * * * * **
19907948 GCTTTGATACACTTATTAGGTAAAAAGCCTCAATTCAATTACATCAGTAGAAGTGAAATCAAACA
391 GCTCTGATACACTTATTAGATAAAAAGCATCAATCCAATTAAATCAGCAGAAGCAAAATCAAACA
* * * *
19908013 ATCAATCAATCAATCACACAAGAGATAATAATTTAACGTGGTTCAATCTAATCAACCTATATCCA
456 ATCAATCAATCAATCACACAAGAGATAACAATTTAACGTGATTCAATCCAATCAACCTACATCCA
* * * * * *
19908078 CGGATGAAAAATAAAATCTATTAGTTGTAAAAAATTATAAATATACATCAAAACATGCACTCACA
521 CGGATGAAAAATAAAATCTACTAATAGTAAAAAATTACAAACATACATCAAAAAATGCACTCACA
* * *
19908143 ATTAATACCCATAGACTTTCTCAATCTCTTCTAATCTTATGGAGCATTCTTAACCTAAACAAATA
586 ATTAATACCCATAGACTTTCTAAATCTCTTCTAATCATATGGAGCATTCTTAACCCAAACAAATA
* * ** * * * *
19908208 CTTCCCTATGTATACCATACACTATACCTATGTGAATTATTTCAATCTATTCTAGTCCACTCACA
651 CTTCCCTATGTACACCATACACCATACCTATGTGAACCATCTCAATCTACTCTAATCCACTAACA
* * * *
19908273 AACATACACACTTATAAAACGTAAATTCTAGTACTTCTATAGGGTGTCTATCCTATAAAATCCAA
716 AACATACACAATGATAAAACGTAAATTCTAATACTTCTATAGAGTGTCTATCCTATAAAATCCAA
* * *
19908338 TAACTCTTTACATCTTTTTCTTATACCTAACCTAATTGAGACTTCACCTATTTATAAGCATACTA
781 TAACCCTTTACATCTTTTTCTTATACCTAACCTAATAGAGACTTCACCTATTTATAAACATACTA
*
19908403 ACTTGCCTATCAAGAATTTTATTATTCTTAGAATT-TTTTTCTACAAGTCAAACTTGCTTATT
846 ACTTACCTATCAAGAATTTTATTATTCTTAGAATTCTTTTTCTACAAGTCAAACTTGCTTATT
* * * *
19908465 AAGAATC-TATTTTCTCTTAGAATTTTTTTTTTG-CAAGTTTTTTGCCCATAAAGTAATATCTAA
1 AAGAATCAT-TTTTCTCTTAGAATTCTTCTTTTGTAAAGTTTTTTACCCATAAAGTAATATCTAA
* *
19908528 CCAATCCCAAATAAATCTCTTATGAAATTTGAGTCACTATTCCCAATAATCTCTACATTGACTCA
65 CCAATCCCAAATAAATCTCTTATGAAATTTAAGTCACTATTCCAAATAATCTCTACATTGACTCA
* *
19908593 AATTTCATCAAATCATCTATCTTTATGCTAAATATACTTGATTTCA-CT-TGCAATAAAAATCCC
130 AATTTCATCAAATCATCTATCTTTATGCTAAACATACTTGATTCCATCTAT--AATAAAAATCCC
* * * * * *
19908656 GTAATCATCTTCTTT-TTGTGTATCTTTATGTTTTACGCAAA-TCGATCTATCAAAGTATGAACT
193 ATAATCAT-TT-TTTCTTATGTATCTTCATGCTTCACGCAAACT-GATCTATCAAAGCATGAACT
* * * * * *
19908719 TAAACTCTTCACTTGAATCGAGCTTTTTTGAGCTTGCCTCTTCGT-ATGGTTTGAATCATGCTCT
255 TAAACTCTTCACTTGAATCAAGC-ATCTAG-GCTTGCCTCTTC-TCATGGCTCGAATCATGCTCT
* * * * *
19908783 GATACCATTTGTTAAGGATCACCACAACGCTGATACTACTTGTTATCAGACTCTGTTGCTTGCAC
317 CATACCACTTGTTAAGGATCACCACAACGCTGATACAACTTGTTATCAAACTCTGCTGCTTGCAC
* *
19908848 TGAAACCAAGC-CTGATACCACTTATTAGATAAAAAAAGCATTAATCCAATTATAAT-AGCGGAA
382 TGAAACCAAGCTCTGATA-CACTTATTAGAT--AAAAAGCATCAATCCAATTA-AATCAGCAGAA
* * * * *
19908911 GCAAAATCAAATAATCAATCAAT-TAT-AC-CAA-TGATAACAA-TTAATGTGATTTAATCCAAT
443 GCAAAATCAAACAATCAATCAATCAATCACACAAGAGATAACAATTTAACGTGATTCAATCCAAT
* * * * * *
19908971 CGATCTACATCTATGGATGAAAAATAAAATTTACTAATAGTAAAGAATTACAAACATACATCAAA
508 CAACCTACATCCACGGATGAAAAATAAAATCTACTAATAGTAAAAAATTACAAACATACATCAAA
* * * * * *
19909036 ATAAT-CACTTATATTTAATACCCATAGACCTTT-TAAATCTCTTTTAGTCATATGGAGTATT-T
573 A-AATGCACTCACAATTAATACCCATAGA-CTTTCTAAATCTCTTCTAATCATATGGAGCATTCT
* * * *
19909098 TCAACCCAAATAAATA-TAT-ACTCATGTACACTCATGCACCATACCTATGTGAACCATCTCAGT
636 T-AACCCAAACAAATACT-TCCCT-ATGTACAC-CATACACCATACCTATGTGAACCATCTCAAT
* * * * * *
19909161 CTCCTCTAATCTACTAATAAATATACACAATGATAAGACTTAAATTCTAATAC-TC-ATATGAAG
697 CTACTCTAATCCACTAACAAACATACACAATGATAAAACGTAAATTCTAATACTTCTATA-G-AG
* ** * *
19909224 TGTCTAT-TTCATAAAATCTTATAACCCTCTTACAT-TTTTT-TTCATACCTAACTTAATAGAGG
760 TGTCTATCCT-ATAAAATCCAATAACCCT-TTACATCTTTTTCTT-ATACCTAACCTAATAGAGA
* * * * * *
19909286 CTTTACTTATTTATAAATATACTAACTTACTTGTCAAGAATATTT-TTCCTT-TTAGAATTCTTT
822 CTTCACCTATTTATAAACATACTAACTTACCTATCAAGAAT-TTTATT-ATTCTTAGAATTCTTT
19909349 TTCT
885 TTCT
19909353 GTAAATTTTT
Statistics
Matches: 723, Mismatches: 138, Indels: 53
0.79 0.15 0.06
Matches are distributed among these distances:
904 1 0.00
905 10 0.01
906 277 0.38
907 252 0.35
908 32 0.04
909 104 0.14
910 3 0.00
911 42 0.06
912 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (908 bp):
AAGAATCATTTTTCTCTTAGAATTCTTCTTTTGTAAAGTTTTTTACCCATAAAGTAATATCTAAC
CAATCCCAAATAAATCTCTTATGAAATTTAAGTCACTATTCCAAATAATCTCTACATTGACTCAA
ATTTCATCAAATCATCTATCTTTATGCTAAACATACTTGATTCCATCTATAATAAAAATCCCATA
ATCATTTTTTCTTATGTATCTTCATGCTTCACGCAAACTGATCTATCAAAGCATGAACTTAAACT
CTTCACTTGAATCAAGCATCTAGGCTTGCCTCTTCTCATGGCTCGAATCATGCTCTCATACCACT
TGTTAAGGATCACCACAACGCTGATACAACTTGTTATCAAACTCTGCTGCTTGCACTGAAACCAA
GCTCTGATACACTTATTAGATAAAAAGCATCAATCCAATTAAATCAGCAGAAGCAAAATCAAACA
ATCAATCAATCAATCACACAAGAGATAACAATTTAACGTGATTCAATCCAATCAACCTACATCCA
CGGATGAAAAATAAAATCTACTAATAGTAAAAAATTACAAACATACATCAAAAAATGCACTCACA
ATTAATACCCATAGACTTTCTAAATCTCTTCTAATCATATGGAGCATTCTTAACCCAAACAAATA
CTTCCCTATGTACACCATACACCATACCTATGTGAACCATCTCAATCTACTCTAATCCACTAACA
AACATACACAATGATAAAACGTAAATTCTAATACTTCTATAGAGTGTCTATCCTATAAAATCCAA
TAACCCTTTACATCTTTTTCTTATACCTAACCTAATAGAGACTTCACCTATTTATAAACATACTA
ACTTACCTATCAAGAATTTTATTATTCTTAGAATTCTTTTTCTACAAGTCAAACTTGCTTATT
Found at i:19909979 original size:22 final size:23
Alignment explanation
Indices: 19909945--19909988 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19909935 AATTGAATTA
19909945 ATAAAATTCAAATATT-TTATTT
1 ATAAAATTCAAATATTATTATTT
*
19909967 ATAAAATAT-AAATTTTATTATT
1 ATAAAAT-TCAAATATTATTATT
19909989 AGTAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAAAATTCAAATATTATTATTT
Found at i:19914380 original size:24 final size:24
Alignment explanation
Indices: 19914335--19914380 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
19914325 ATTAATTTCT
*
19914335 TATAATTATGTAAAAATTAATTTG
1 TATAATTATGTAAAAATAAATTTG
* * *
19914359 TATAATTCTTTAATAATAAATT
1 TATAATTATGTAAAAATAAATT
19914381 AATAATTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
TATAATTATGTAAAAATAAATTTG
Found at i:19914703 original size:17 final size:18
Alignment explanation
Indices: 19914667--19914708 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
19914657 TAATTTTTAA
* *
19914667 AATTAATAAATATGATTT
1 AATTAATAAAAATAATTT
19914685 AATTAA-AAAAATAATTT
1 AATTAATAAAAATAATTT
19914702 AATTAAT
1 AATTAAT
19914709 TCAATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTAATAAAAATAATTT
Found at i:19922760 original size:23 final size:23
Alignment explanation
Indices: 19922715--19922761 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19922705 TTAATGTTGA
*
19922715 TTTTTGTTGTTGATATTTTGTAT
1 TTTTTGTTGTTGATATTTGGTAT
*
19922738 TTTTTGTTGTT-TTATATTGGTAT
1 TTTTTGTTGTTGATAT-TTGGTAT
19922761 T
1 T
19922762 AGCTTACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.13, C:0.00, G:0.17, T:0.70
Consensus pattern (23 bp):
TTTTTGTTGTTGATATTTGGTAT
Found at i:19923192 original size:3 final size:3
Alignment explanation
Indices: 19923184--19923222 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
19923174 ATTTTGGCTT
19923184 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19923223 TTTTTTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:19927375 original size:44 final size:44
Alignment explanation
Indices: 19927325--19927413 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
19927315 ATAAAAAATA
19927325 AATATTAAAAATTTT-ATTTAAAAGTATATTGATAAATTAATTTT
1 AATATT-AAAATTTTCATTTAAAAGTATATTGATAAATTAATTTT
*
19927369 AATATTAAAATTTTCATTTAAAAGTATGTTGATAAATTAATTTT
1 AATATTAAAATTTTCATTTAAAAGTATATTGATAAATTAATTTT
19927413 A
1 A
19927414 TGTATATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 8 0.19
44 35 0.81
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (44 bp):
AATATTAAAATTTTCATTTAAAAGTATATTGATAAATTAATTTT
Found at i:19929787 original size:40 final size:39
Alignment explanation
Indices: 19929717--19929792 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
19929707 AAAAAGCATT
* * *
19929717 ATTCACAATAGCTTACCCATTCATACCAAATCTCAAACA
1 ATTCACAACAGCCTACCAATTCATACCAAATCTCAAACA
*
19929756 ATTCACAACAGCCTACCAAGTTCATATCAAATCTCAA
1 ATTCACAACAGCCTACCAA-TTCATACCAAATCTCAA
19929793 GCATTTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.50
40 16 0.50
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.25
Consensus pattern (39 bp):
ATTCACAACAGCCTACCAATTCATACCAAATCTCAAACA
Found at i:19934265 original size:22 final size:23
Alignment explanation
Indices: 19934229--19934278 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
19934219 TATATAATTA
19934229 TATTATTAAAAAATTAA-TTAAT
1 TATTATTAAAAAATTAATTTAAT
*
19934251 TATTA-TAAAATAATTAATTTATT
1 TATTATTAAAA-AATTAATTTAAT
19934274 TATTA
1 TATTA
19934279 AAAGAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 5 0.20
22 11 0.44
23 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTATTAAAAAATTAATTTAAT
Found at i:19934272 original size:19 final size:19
Alignment explanation
Indices: 19934222--19934273 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
19934212 ATCATATTAT
19934222 ATAATT-ATATTATTAAAAA
1 ATAATTAAT-TTATTAAAAA
*
19934241 ATTAATTAA-TTATTATAAA
1 A-TAATTAATTTATTAAAAA
19934260 ATAATTAATTTATT
1 ATAATTAATTTATT
19934274 TATTAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 5 0.17
21 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATTAATTTATTAAAAA
Found at i:19934679 original size:22 final size:21
Alignment explanation
Indices: 19934651--19934691 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
19934641 TAATTAAAAC
*
19934651 TTTAATAAAAATTATATATTAG
1 TTTAATAAAAA-AATATATTAG
19934673 TTTAATAAAAAAATATATT
1 TTTAATAAAAAAATATATT
19934692 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAATAAAAAAATATATTAG
Found at i:19934682 original size:21 final size:22
Alignment explanation
Indices: 19934651--19934691 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19934641 TAATTAAAAC
**
19934651 TTTAATAAAAATTATATATTAG
1 TTTAATAAAAAAAATATATTAG
19934673 TTTAAT-AAAAAAATATATT
1 TTTAATAAAAAAAATATATT
19934692 TTTTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTAATAAAAAAAATATATTAG
Found at i:19942347 original size:64 final size:64
Alignment explanation
Indices: 19942253--19942379 Score: 143
Period size: 64 Copynumber: 2.0 Consensus size: 64
19942243 ATTTTTTTAA
* * * ** *
19942253 AAAATTATTTAATATATTTTTGGTTAAAAATTATTTTAAATAA-TCTCA-TTATAAAAATATAAT
1 AAAATTATTTAATACATTTATGATTAAAAA-TACCTTAAAGAATTC-CATTTATAAAAATATAAT
19942316 T
64 T
*
19942317 AAAATTATTTAA-AGCATTTATGATTGAAAATACCTTAAAGAATTCCATTTATAAAAATATAAT
1 AAAATTATTTAATA-CATTTATGATTAAAAATACCTTAAAGAATTCCATTTATAAAAATATAAT
19942380 GGAGACCCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
63 12 0.23
64 41 0.77
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (64 bp):
AAAATTATTTAATACATTTATGATTAAAAATACCTTAAAGAATTCCATTTATAAAAATATAATT
Found at i:19943322 original size:28 final size:28
Alignment explanation
Indices: 19943268--19943362 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 28
19943258 ACACCCTTTA
*
19943268 TAAATATCATAATAATTAATGAATTTATAATT
1 TAAATATCATAATAATT--T--TTTTATAATT
*
19943300 TAAATATCATAATAATTTTTTTAAAATT
1 TAAATATCATAATAATTTTTTTATAATT
* *
19943328 TATATATCATATTTAATATTTTATTATAATT
1 TAAATATCATA-ATAAT-TTTT-TTATAATT
19943359 TAAA
1 TAAA
19943363 AATTATTCGT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 18 0.33
29 4 0.07
30 5 0.09
31 10 0.19
32 17 0.31
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (28 bp):
TAAATATCATAATAATTTTTTTATAATT
Found at i:19944083 original size:20 final size:21
Alignment explanation
Indices: 19944058--19944102 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19944048 GGGCAGAATG
19944058 ATAATT-T-ACTTTCTTTTGTA
1 ATAATTATAACTTT-TTTTGTA
*
19944078 ATAATTATAACTTTTTTTTTA
1 ATAATTATAACTTTTTTTGTA
19944099 ATAA
1 ATAA
19944103 ATACATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 11 0.50
22 5 0.23
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (21 bp):
ATAATTATAACTTTTTTTGTA
Found at i:19946151 original size:7 final size:8
Alignment explanation
Indices: 19946124--19946153 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19946114 ATTCATCATC
*
19946124 AAAATTTT
1 AAAAATTT
19946132 AAAAATTT
1 AAAAATTT
19946140 AAAAATTT
1 AAAAATTT
19946148 AAAAAT
1 AAAAAT
19946154 AACTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAAATTT
Found at i:19946760 original size:26 final size:29
Alignment explanation
Indices: 19946725--19946787 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
19946715 TAAATTGTAA
*
19946725 TAAAATATTTAATATG-AT-ATTAAAATT
1 TAAAATATTTAATATGAATAAATAAAATT
*
19946752 TAAAA-ATTTTATATGAATAAATAAAATT
1 TAAAATATTTAATATGAATAAATAAAATT
19946780 T-AAATATT
1 TAAAATATT
19946788 ATATTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 9 0.29
27 10 0.32
28 12 0.39
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAAATATTTAATATGAATAAATAAAATT
Found at i:19946824 original size:16 final size:16
Alignment explanation
Indices: 19946776--19946825 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
19946766 GAATAAATAA
19946776 AATTTAAATATTATATT
1 AATTTAAATATTATA-T
*
19946793 AA-TTAATTAATT-TAT
1 AATTTAAAT-ATTATAT
19946808 AATTTAAATATTATAT
1 AATTTAAATATTATAT
19946824 AA
1 AA
19946826 ATATTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 6 0.21
16 17 0.61
17 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTAAATATTATAT
Found at i:19947321 original size:21 final size:21
Alignment explanation
Indices: 19947297--19947337 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19947287 AATTTTTTAA
19947297 AATATTATATTT-TTAATAATT
1 AATATTA-ATTTATTAATAATT
*
19947318 AATATTAATTTATTTATAAT
1 AATATTAATTTATTAATAAT
19947338 CATAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATATTAATTTATTAATAATT
Found at i:19949423 original size:62 final size:62
Alignment explanation
Indices: 19949344--19949481 Score: 233
Period size: 62 Copynumber: 2.2 Consensus size: 62
19949334 GATCCTTGAG
*
19949344 AATGATTTTATTCCTGTGCAATAAGGCTAATCTAATTTTAAGTAGTTTTTTTTTTTATTTGT
1 AATGATTTTATTCCTGTGCAATAAGGCTAATCTAATTTTAAGCAGTTTTTTTTTTTATTTGT
*
19949406 AATGATTTTATTTCTGTGCAATAAGGCTAATCTAATTTTAAGCAGTTTTTTTTTTTATTTGT
1 AATGATTTTATTCCTGTGCAATAAGGCTAATCTAATTTTAAGCAGTTTTTTTTTTTATTTGT
* *
19949468 -CTCATTTTATTCCT
1 AATGATTTTATTCCT
19949482 TTAAATAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
61 11 0.15
62 60 0.85
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.54
Consensus pattern (62 bp):
AATGATTTTATTCCTGTGCAATAAGGCTAATCTAATTTTAAGCAGTTTTTTTTTTTATTTGT
Found at i:19955594 original size:50 final size:51
Alignment explanation
Indices: 19955527--19955642 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 51
19955517 TTTTTATGAT
* *
19955527 AAAACACCTTGAATAATCCCTTGGGGTTAGTCAAGGTATTTATGG-TAAAA
1 AAAACACCTTGAATAATCACTTAGGGTTAGTCAAGGTATTTATGGCTAAAA
* * * * * *
19955577 AAAATACCTTTAATAATCATTTAGGGTTAGTTAAGTTGTTTATGGCT---A
1 AAAACACCTTGAATAATCACTTAGGGTTAGTCAAGGTATTTATGGCTAAAA
19955625 AAAACACCTTGAATAATC
1 AAAACACCTTGAATAATC
19955643 CCTTCAATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
48 17 0.31
50 37 0.67
51 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (51 bp):
AAAACACCTTGAATAATCACTTAGGGTTAGTCAAGGTATTTATGGCTAAAA
Found at i:19956162 original size:16 final size:16
Alignment explanation
Indices: 19956141--19956187 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
19956131 TGTCTTTATT
19956141 TTATTTATTTTTTGTA
1 TTATTTATTTTTTGTA
*
19956157 TTATTTATATTTTTTTA
1 TTATTTAT-TTTTTGTA
*
19956174 TATATGTATTTTTT
1 T-TATTTATTTTTT
19956188 TCGTTCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 8 0.30
17 13 0.48
18 6 0.22
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTATTTATTTTTTGTA
Found at i:19956167 original size:18 final size:18
Alignment explanation
Indices: 19956146--19956188 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19956136 TTATTTTATT
*
19956146 TATTTTTTGTAT-TATTTA
1 TATTTTTT-TATATATGTA
19956164 TATTTTTTTATATATGTA
1 TATTTTTTTATATATGTA
19956182 T-TTTTTT
1 TATTTTTT
19956189 CGTTCCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
TATTTTTTTATATATGTA
Found at i:19958434 original size:87 final size:87
Alignment explanation
Indices: 19958288--19958469 Score: 328
Period size: 87 Copynumber: 2.1 Consensus size: 87
19958278 TCAGCTTCTG
* *
19958288 ATATTATTGCTTATATGAGGTTAGCTTATAAATTTAAATATGCAAAATTAATATGTATTAATCTA
1 ATATTATTACTTATATGAGGTTAGCTTATAAATTTAAATATACAAAATTAATATGTATTAATCTA
*
19958353 TATTACGGTGTATTACTAACTA
66 TATTACAGTGTATTACTAACTA
*
19958375 ATATTATTACTTATATGTGGTTAGCTTATAAATTTAAATATACAAAATTAATATGTATTAATCTA
1 ATATTATTACTTATATGAGGTTAGCTTATAAATTTAAATATACAAAATTAATATGTATTAATCTA
19958440 TATTACAGTGTATTACTAACTA
66 TATTACAGTGTATTACTAACTA
19958462 ATATTATT
1 ATATTATT
19958470 GATTATTATC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (87 bp):
ATATTATTACTTATATGAGGTTAGCTTATAAATTTAAATATACAAAATTAATATGTATTAATCTA
TATTACAGTGTATTACTAACTA
Found at i:19969070 original size:13 final size:13
Alignment explanation
Indices: 19969052--19969076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19969042 TATTTAAAAA
19969052 AAAAATCAAAATC
1 AAAAATCAAAATC
19969065 AAAAATCAAAAT
1 AAAAATCAAAAT
19969077 AGAAAGGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATCAAAATC
Found at i:19969244 original size:60 final size:61
Alignment explanation
Indices: 19969112--19969416 Score: 284
Period size: 61 Copynumber: 5.0 Consensus size: 61
19969102 TTTTTTGTGT
* * * *
19969112 AGGAAAA-TGATACCTTCAACTTTTCCCCACAAACATTTTTTTTTTTGGAAAATTTTTAATTGTT
1 AGGAAAATTGATACTTTCAACTTTT-CCCA-AAA-AATATTTTTTTT-GAAAA-TTTTGA-T-TT
*
19969176 TTA
59 TCA
* * *
19969179 AGGAAAATTGATACTTTCAACTTTTCTCAAAAATATATTTTTTTTG-AAA-CTTGATTTCCA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAA-ATATTTTTTTTGAAAATTTTGATTTTCA
* *
19969239 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTCGAAAATTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTTGATTTTCA
*** * ** ** *
19969298 AGGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCCTTATTTAAAAAATTTTTTTTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTTGAAAATTTTGATTTTCA
*
19969359 AGGAAAATTGATACTTTCAACTTTTCCC-TAAAATATTTTTTTTTGAAAA-TTTGATTTT
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTTTGAAAATTTTGATTTT
19969417 TATTTAAAGA
Statistics
Matches: 200, Mismatches: 30, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
57 6 0.03
58 3 0.01
59 44 0.22
60 47 0.23
61 54 0.27
62 3 0.01
64 3 0.01
65 2 0.01
66 12 0.06
67 10 0.05
68 16 0.08
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (61 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAATTTTGATTTTCA
Found at i:19969377 original size:61 final size:59
Alignment explanation
Indices: 19969174--19969391 Score: 235
Period size: 59 Copynumber: 3.7 Consensus size: 59
19969164 TTTTTAATTG
* * * *** *
19969174 TTTT-AAGGAAAATTGATACTTTCAACTTTTCTCAAAAATATATTTTTTTTGAAA-CTTGA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAA-ACA-TTTTTAAAAAATTTTGA
* * **
19969233 TTTCCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTAAAAAATTTTGA
* **
19969292 TTTTCAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTATTTAAAAAATTTTTT
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-CATT-TTTAAAAAATTTTGA
*
19969353 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAA
19969392 TATTTTTTTT
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
58 11 0.08
59 45 0.33
60 34 0.25
61 45 0.33
62 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (59 bp):
TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTAAAAAATTTTGA
Found at i:19969464 original size:25 final size:24
Alignment explanation
Indices: 19969421--19969500 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 24
19969411 GATTTTTATT
*
19969421 TAAAGAAAATAGAATAATAAATAAAA
1 TAAATAAAATA-AA-AATAAATAAAA
*
19969447 -AAATGAAAGTGAAAAATAAATAAAA
1 TAAAT-AAAAT-AAAAATAAATAAAA
19969472 TAAATAAAATAAAAATAAAATAAAA
1 TAAATAAAATAAAAAT-AAATAAAA
19969497 TAAA
1 TAAA
19969501 GATAAAAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 6 0.13
25 30 0.64
26 10 0.21
27 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
TAAATAAAATAAAAATAAATAAAA
Found at i:19969473 original size:9 final size:9
Alignment explanation
Indices: 19969459--19969500 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
19969449 ATGAAAGTGA
19969459 AAAATAAAT
1 AAAATAAAT
19969468 AAAATAAAT
1 AAAATAAAT
19969477 AAAATAAA-
1 AAAATAAAT
*
19969485 AATA-AAAT
1 AAAATAAAT
19969493 AAAATAAA
1 AAAATAAA
19969501 GATAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 3 0.10
8 6 0.21
9 20 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:19969474 original size:5 final size:5
Alignment explanation
Indices: 19969459--19969507 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
19969449 ATGAAAGTGA
19969459 AAAAT -AAAT AAAAT -AAAT AAAAT AAAAAT AAAAT AAAAT AAAGAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAA-AT AAAA
19969508 AGAATATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.20
5 22 0.55
6 10 0.25
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:19969494 original size:16 final size:16
Alignment explanation
Indices: 19969459--19969560 Score: 72
Period size: 16 Copynumber: 6.5 Consensus size: 16
19969449 ATGAAAGTGA
19969459 AAAAT-AAAT-AAAAT
1 AAAATAAAATAAAAAT
19969473 -AAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
*
19969488 AAAATAAAATAAAGAT
1 AAAATAAAATAAAAAT
* *
19969504 AAAA-AGAATATTAAAT
1 AAAATAAAATA-AAAAT
* **
19969520 AAACCTAATCTAATAAAT
1 AAA-ATAAAATAA-AAAT
19969538 -AAATAAAATAAAAA-
1 AAAATAAAATAAAAAT
19969552 ACAAATAAA
1 A-AAATAAA
19969561 CAAATAAATG
Statistics
Matches: 67, Mismatches: 12, Indels: 16
0.71 0.13 0.17
Matches are distributed among these distances:
13 4 0.06
14 4 0.06
15 13 0.19
16 37 0.55
17 2 0.03
18 7 0.10
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:19969565 original size:24 final size:23
Alignment explanation
Indices: 19969531--19969584 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
19969521 AACCTAATCT
*
19969531 AATAAATAAATAAAAT-AAAAAACA
1 AATAAACAAAT-AAATGAAAAAA-A
19969555 AATAAACAAATAAATGAAAAAAA
1 AATAAACAAATAAATGAAAAAAA
*
19969578 AAAAAAC
1 AATAAAC
19969585 CTGGAGCGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.13
Consensus pattern (23 bp):
AATAAACAAATAAATGAAAAAAA
Found at i:19970419 original size:22 final size:21
Alignment explanation
Indices: 19970371--19970424 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
19970361 TAATTAGAAA
* * *
19970371 AGATAAATCAAAAATTATTAT
1 AGATAAATAAAAAAATAATAT
19970392 AGGATAAATAAAAAAATAATAT
1 A-GATAAATAAAAAAATAATAT
*
19970414 CAGATATATAA
1 -AGATAAATAA
19970425 TTAGATAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (21 bp):
AGATAAATAAAAAAATAATAT
Found at i:19970464 original size:6 final size:6
Alignment explanation
Indices: 19970435--19970481 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
19970425 TTAGATAAAC
*
19970435 AAAAAT ACAAAA- ATAAAT -AAAAT AAAAAT AAAAAAT AAAAAT AAAAA
1 AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAA
19970482 ATATATTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 7 0.20
6 18 0.51
7 10 0.29
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:19970470 original size:7 final size:7
Alignment explanation
Indices: 19970435--19970484 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
19970425 TTAGATAAAC
19970435 AAAAATA
1 AAAAATA
19970442 CAAAAATA
1 -AAAAATA
19970450 AATAAA-A
1 AA-AAATA
19970457 TAAAAATA
1 -AAAAATA
19970465 AAAAAT-
1 AAAAATA
19970471 AAAAATA
1 AAAAATA
19970478 AAAAATA
1 AAAAATA
19970485 TATTACTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.16
7 19 0.50
8 13 0.34
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAATA
Found at i:19970471 original size:13 final size:13
Alignment explanation
Indices: 19970443--19970484 Score: 66
Period size: 13 Copynumber: 3.1 Consensus size: 13
19970433 ACAAAAATAC
19970443 AAAAATAAATAAAAT
1 AAAAAT-AA-AAAAT
19970458 AAAAATAAAAAAT
1 AAAAATAAAAAAT
19970471 AAAAATAAAAAAT
1 AAAAATAAAAAAT
19970484 A
1 A
19970485 TATTACTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 19 0.70
14 2 0.07
15 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:19970557 original size:12 final size:12
Alignment explanation
Indices: 19970527--19970555 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
19970517 TAGGATATAC
19970527 ATAAAATATAAA
1 ATAAAATATAAA
19970539 ATAAAATA-AAA
1 ATAAAATATAAA
19970550 ATAAAA
1 ATAAAA
19970556 ATGACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:19970731 original size:1 final size:1
Alignment explanation
Indices: 19970720--19970838 Score: 85
Period size: 1 Copynumber: 119.0 Consensus size: 1
19970710 ATTGTCTTTC
* * * * * * * * * *
19970720 TTTTTTGTTTTTTTATTTTTTTTGTGTTTTTTGTGTTTTTTGTTTTTTTTTTGTTTTTTTTCTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
19970785 TGTTGTTTTTTTTTTTTTTTTTCTTGTGTTATTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19970839 ATCAAAGCTC
Statistics
Matches: 84, Mismatches: 34, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:19970753 original size:26 final size:25
Alignment explanation
Indices: 19970721--19970840 Score: 118
Period size: 27 Copynumber: 4.6 Consensus size: 25
19970711 TTGTCTTTCT
* *
19970721 TTTTTGTTTTTTTATTTTTTTTGTG
1 TTTTTTTTTTTTTATTTTTTTTTTG
*
19970746 TTTTTTGTGTTTTTTGTTTTTTTTTTG
1 TTTTTT-T-TTTTTTATTTTTTTTTTG
*
19970773 TTTTTTTTCTTGTGTTGTTTTTTTTTT-
1 TTTTTTTT-TT-T-TTATTTTTTTTTTG
*
19970800 TTTTTTTCTTGTGTTA-TTTTTTTTTG
1 TTTTTTT-TT-TTTTATTTTTTTTTTG
19970826 TTTTTTTTTTTTTAT
1 TTTTTTTTTTTTTAT
19970841 CAAAGCTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.05
25 17 0.21
26 13 0.16
27 31 0.39
28 15 0.19
ACGTcount: A:0.03, C:0.02, G:0.11, T:0.85
Consensus pattern (25 bp):
TTTTTTTTTTTTTATTTTTTTTTTG
Found at i:19970760 original size:28 final size:28
Alignment explanation
Indices: 19970720--19970838 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 28
19970710 ATTGTCTTTC
* *
19970720 TTTTTTGT-TT-TTTTATTTTTTTTGTG
1 TTTTTTGTGTTATTTTTTTTTTTTTGTT
*
19970746 TTTTTTGTGTTTTTTGTTTTTTTTTTGTTTT
1 TTTTTTGTGTTATTT-TTTTTTTTTTG--TT
*
19970777 TTTTCTTGTGTT-GTTTTTTTTTTTT-TT
1 TTTT-TTGTGTTATTTTTTTTTTTTTGTT
* *
19970804 TTTCTTGTGTTATTTTTTTTTGTTTTTTT
1 TTTTTTGTGTTATTTTTTTTT-TTTTGTT
19970833 TTTTTT
1 TTTTTT
19970839 ATCAAAGCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
26 15 0.19
27 15 0.19
28 7 0.09
29 17 0.22
30 10 0.13
31 7 0.09
32 7 0.09
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (28 bp):
TTTTTTGTGTTATTTTTTTTTTTTTGTT
Found at i:19970976 original size:41 final size:41
Alignment explanation
Indices: 19970845--19971390 Score: 867
Period size: 41 Copynumber: 13.1 Consensus size: 41
19970835 TTTTATCAAA
* * *
19970845 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
*
19970888 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* *
19970930 GCTCCTTTAAACAGAGGCACCACGACTTTCAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
19970971 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
19971012 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
19971053 GCTCCTCCAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
19971095 GCTCTTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
19971137 GCTCCTCTCAACAGAGGCACCACGACATTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
19971178 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
19971219 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
19971261 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
19971302 GCTCCCCTAAACAGAGGCACGAAGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
19971344 GCTCCTCTAAACAGAGGCACTACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
19971386 GCTCC
1 GCTCC
19971391 CTGACAATCA
Statistics
Matches: 471, Mismatches: 27, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
41 235 0.50
42 204 0.43
43 30 0.06
44 2 0.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:19970993 original size:83 final size:82
Alignment explanation
Indices: 19970845--19971390 Score: 867
Period size: 83 Copynumber: 6.6 Consensus size: 82
19970835 TTTTATCAAA
* * * *
19970845 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
19970910 CGACTTTGGAAAAGTAAATT
64 CGACTTT-GAAAAGTAAATT
* *
19970930 GCTCCTTTAAACAGAGGCACCACGACTTTCAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
19970995 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
*
19971012 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCCAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
19971077 ACTTTTGAAAAGTAAATT
66 AC-TTTGAAAAGTAAATT
* *
19971095 GCTCTTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
19971160 GACATTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATT
*
19971178 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
19971243 ACTTTTGAAAAGTAAATT
66 AC-TTTGAAAAGTAAATT
* * * *
19971261 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCCCTAAACAGAGGCACGAAG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
19971326 ACTTTGAAAAAGTAAATT
66 ACTTTG-AAAAGTAAATT
* *
19971344 GCTCCTCTAAACAGAGGCACTACGACTTTGGAAAAATAAATTGCTCC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCC
19971391 CTGACAATCA
Statistics
Matches: 433, Mismatches: 23, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
82 120 0.28
83 228 0.53
84 58 0.13
85 27 0.06
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATT
Found at i:19971207 original size:207 final size:207
Alignment explanation
Indices: 19970845--19971390 Score: 871
Period size: 207 Copynumber: 2.6 Consensus size: 207
19970835 TTTTATCAAA
* * * *
19970845 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
* * *
19970910 CGACTTTGGAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACGACTTTCAAAAGTAAATTGCTC
64 CGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
19970975 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-T
129 CTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTT
19971039 TTGAAAAGTAAATT
194 TTGAAAAGTAAATT
* *
19971053 GCTCCTCCAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCTTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
19971118 GACTTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACATTGAAAAGTAAATTGCTCC
65 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCC
*
19971183 TCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
130 TCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
19971248 TGAAAAGTAAATT
195 TGAAAAGTAAATT
* * * *
19971261 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCCCTAAACAGAGGCACGAAG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
19971326 AC-TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACTACGACTTTGGAAAAATAAATTGCTC
66 ACTTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTC
19971390 C
129 C
19971391 CTGACAATCA
Statistics
Matches: 312, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
206 4 0.01
207 222 0.71
208 81 0.26
209 5 0.02
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (207 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTT
GAAAAGTAAATT
Found at i:19972676 original size:15 final size:15
Alignment explanation
Indices: 19972613--19972677 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
19972603 TTTTCTCATT
*
19972613 TCTTTCTTTTTTTTTA
1 TCTTT-TTTTTTTTCA
*
19972629 TTTTTTTTGTTTTTTC-
1 -TCTTTTT-TTTTTTCA
* *
19972645 CCTTTTTTTTTCATCA
1 TCTTTTTTTTT-TTCA
19972661 TCTTTTTTTTTTTCA
1 TCTTTTTTTTTTTCA
19972676 TC
1 TC
19972678 CATTGTTGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 12 0.32
17 10 0.26
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (15 bp):
TCTTTTTTTTTTTCA
Found at i:19976481 original size:13 final size:13
Alignment explanation
Indices: 19976463--19976487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19976453 TATTTAAAGA
19976463 AAAAATCAAAATC
1 AAAAATCAAAATC
19976476 AAAAATCAAAAT
1 AAAAATCAAAAT
19976488 AGAAAGGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATCAAAATC
Found at i:19976715 original size:61 final size:59
Alignment explanation
Indices: 19976525--19976824 Score: 397
Period size: 61 Copynumber: 5.0 Consensus size: 59
19976515 TTTTGTGTAG
* * *
19976525 GGAAAATTGATACCTTCAACTTTTCCCCACAAACATTTTTTTTTGAAAATTTA-TTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTG-AAATTTATTTTTAA
* *
19976584 GGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGGAAATTTATTTTTAA
1 GG-AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTTTAA
* * **
19976643 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTT-ATTTTTAA
* * *
19976704 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTTTTAAATTTTTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTTGAAA-TTTATTTTTAA
*
19976765 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTT-ATTTTTA
19976825 TTTAAAGAAA
Statistics
Matches: 213, Mismatches: 21, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
58 39 0.18
59 29 0.14
60 48 0.23
61 82 0.38
62 15 0.07
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTTTAA
Found at i:19976758 original size:13 final size:13
Alignment explanation
Indices: 19976740--19976764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19976730 CCAAAAATCT
19976740 TTTTTTTTTTAAA
1 TTTTTTTTTTAAA
19976753 TTTTTTTTTTAA
1 TTTTTTTTTTAA
19976765 GGAAAATTGA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTTAAA
Found at i:19976876 original size:30 final size:27
Alignment explanation
Indices: 19976842--19976911 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 27
19976832 AAAATAGAAT
19976842 AATAAAATAAAAAAATGAAAGTGAAAAAT-A
1 AATAAAATAAAAAAA--AAA-T-AAAAATAA
*
19976872 AATAAAA-AAAAACAAAATAAAAATAA
1 AATAAAATAAAAAAAAAATAAAAATAA
19976898 AATAAAGATAAAAA
1 AATAAA-ATAAAAA
19976912 GAATATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 6 0.17
26 8 0.22
27 4 0.11
28 5 0.14
29 6 0.17
30 7 0.19
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.14
Consensus pattern (27 bp):
AATAAAATAAAAAAAAAATAAAAATAA
Found at i:19976883 original size:15 final size:15
Alignment explanation
Indices: 19976865--19976903 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
19976855 AATGAAAGTG
19976865 AAAAATAAATAAAAA
1 AAAAATAAATAAAAA
19976880 AAAACA-AAATAAAAA
1 AAAA-ATAAATAAAAA
*
19976895 TAAAATAAA
1 AAAAATAAA
19976904 GATAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAATAAATAAAAA
Found at i:19976908 original size:11 final size:11
Alignment explanation
Indices: 19976871--19976910 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
19976861 AGTGAAAAAT
19976871 AAATAAAA-AA
1 AAATAAAATAA
*
19976881 AAACAAAATAA
1 AAATAAAATAA
19976892 AAATAAAATAA
1 AAATAAAATAA
*
19976903 AGATAAAA
1 AAATAAAA
19976911 AGAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:19976916 original size:26 final size:26
Alignment explanation
Indices: 19976832--19976903 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
19976822 TTATTTAAAG
**
19976832 AAAATAGAATAATAAAAT-AAAAAAATG
1 AAAATA-AA-AATAAAATAAAAAAAAAC
*
19976859 AAAGTGAAAAAT-AAATAAAAAAAAAC
1 AAAAT-AAAAATAAAATAAAAAAAAAC
19976885 AAAATAAAAATAAAATAAA
1 AAAATAAAAATAAAATAAA
19976904 GATAAAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 10 0.26
26 21 0.55
27 6 0.16
28 1 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (26 bp):
AAAATAAAAATAAAATAAAAAAAAAC
Found at i:19976960 original size:23 final size:24
Alignment explanation
Indices: 19976934--19976979 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19976924 AACCTAATCT
* *
19976934 AATAAAT-AAAAAACAAATAAACA
1 AATAAATGAAAAAAAAAAAAAACA
19976957 AATAAATGAAAAAAAAAAAAAAC
1 AATAAATGAAAAAAAAAAAAAAC
19976980 CTGGAGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (24 bp):
AATAAATGAAAAAAAAAAAAAACA
Found at i:19977340 original size:19 final size:20
Alignment explanation
Indices: 19977302--19977345 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19977292 ACACCGGTAC
*
19977302 CGGATTCTGGAAAATGTCGT
1 CGGAATCTGGAAAATGTCGT
*
19977322 CGGAATCTGG-AAATTTCGT
1 CGGAATCTGGAAAATGTCGT
19977341 CGGAA
1 CGGAA
19977346 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (20 bp):
CGGAATCTGGAAAATGTCGT
Found at i:19977504 original size:25 final size:25
Alignment explanation
Indices: 19977458--19977511 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
19977448 AATCCAGAAA
*
19977458 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCAGAAAAATT
* *
19977483 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAAATT
19977508 TTTC
1 TTTC
19977512 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAATT
Done.