Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 55 of 127
Found at i:10874000 original size:24 final size:24
Alignment explanation
Indices: 10873934--10874003 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
10873924 TATTAATTTC
*
10873934 TTAAATTAATATATCAAATA-ATAA
1 TTAAATTAATA-ATAAAATATATAA
** *
10873958 TTTTATTAAT-ATAATATATATAA
1 TTAAATTAATAATAAAATATATAA
10873981 TTAAATTAATAATAAAATATATA
1 TTAAATTAATAATAAAATATATA
10874004 TTTTTATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 19 0.51
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAATTAATAATAAAATATATAA
Found at i:10874535 original size:17 final size:15
Alignment explanation
Indices: 10874491--10874536 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 15
10874481 TCCTAACTTT
10874491 AAAAATTTTAAATAA
1 AAAAATTTTAAATAA
10874506 AAAAATTTATTAAATATA
1 AAAAA-TT-TTAAATA-A
10874524 AAAAATCTTTAAA
1 AAAAAT-TTTAAA
10874537 AAGGTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.19
16 2 0.07
17 13 0.48
18 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAATTTTAAATAA
Found at i:10878591 original size:2 final size:2
Alignment explanation
Indices: 10878584--10878622 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
10878574 ATGTTTTTAT
* *
10878584 TA TA TA TA TG TA TA CA 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 TA TA TA TA TA TA TA T
10878623 GAAGCAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10882096 original size:7 final size:7
Alignment explanation
Indices: 10882084--10882116 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
10882074 AGTATACAAA
10882084 AAAATAT
1 AAAATAT
10882091 AAAATAT
1 AAAATAT
10882098 AAAATAT
1 AAAATAT
10882105 AAAATAT
1 AAAATAT
10882112 CAAAA
1 -AAAA
10882117 AAATATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:10882693 original size:7 final size:7
Alignment explanation
Indices: 10882673--10882705 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
10882663 TTCTTCGATC
10882673 ACCGACG
1 ACCGACG
10882680 A-CGACG
1 ACCGACG
10882686 ACCGACG
1 ACCGACG
10882693 ACCGACG
1 ACCGACG
10882700 A-CGACG
1 ACCGACG
10882706 GTGACGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.44
7 14 0.56
ACGTcount: A:0.30, C:0.39, G:0.30, T:0.00
Consensus pattern (7 bp):
ACCGACG
Found at i:10886206 original size:20 final size:18
Alignment explanation
Indices: 10886170--10886214 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10886160 CATAAATGAT
*
10886170 TTTTAAATTATAATTAAAA
1 TTTTAAATGATAATT-AAA
*
10886189 TTTTAATATGATACTTAAA
1 TTTTAA-ATGATAATTAAA
10886208 TTTTAAA
1 TTTTAAA
10886215 AATCTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTTAAATGATAATTAAA
Found at i:10888984 original size:7 final size:7
Alignment explanation
Indices: 10888972--10889005 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
10888962 TAATAACACA
10888972 AAAAATT
1 AAAAATT
10888979 AAAAATT
1 AAAAATT
10888986 AAAAATT
1 AAAAATT
10888993 AAAAAATT
1 -AAAAATT
10889001 AAAAA
1 AAAAA
10889006 AATAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:10888990 original size:8 final size:8
Alignment explanation
Indices: 10888971--10889012 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
10888961 ATAATAACAC
10888971 AAAAAATT
1 AAAAAATT
10888979 -AAAAATT
1 AAAAAATT
10888986 -AAAAATT
1 AAAAAATT
10888993 AAAAAATT
1 AAAAAATT
*
10889001 AAAAAAAT
1 AAAAAATT
10889009 AAAA
1 AAAA
10889013 TAAAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 14 0.44
8 18 0.56
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATT
Found at i:10889012 original size:14 final size:14
Alignment explanation
Indices: 10888973--10889023 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
10888963 AATAACACAA
10888973 AAAATT-AAAAATT
1 AAAATTAAAAAATT
10888986 AAAAATTAAAAAATT
1 -AAAATTAAAAAATT
*
10889001 AAAA--AAATAAAAT
1 AAAATTAAA-AAATT
10889014 AAAATTAAAA
1 AAAATTAAAA
10889024 GAAAGCTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 8 0.25
14 11 0.34
15 10 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:10889012 original size:15 final size:15
Alignment explanation
Indices: 10888972--10889005 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10888962 TAATAACACA
10888972 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
10888986 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
10889001 AAAAA
1 AAAAA
10889006 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:10889012 original size:22 final size:21
Alignment explanation
Indices: 10888971--10889017 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
10888961 ATAATAACAC
*
10888971 AAAAAATTAAAAATTAAAAATT
1 AAAAAATTAAAAAATAAAAA-T
10888993 AAAAAATTAAAAAA-ATAAAAT
1 AAAAAATTAAAAAATA-AAAAT
10889014 AAAA
1 AAAA
10889018 TTAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAATTAAAAAATAAAAAT
Found at i:10890177 original size:23 final size:23
Alignment explanation
Indices: 10890151--10890198 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
10890141 TAAATAATGG
10890151 ATACATAGCAATTAGTCAAGACT
1 ATACATAGCAATTAGTCAAGACT
10890174 ATACATAGCAATTAGTCAAGACT
1 ATACATAGCAATTAGTCAAGACT
10890197 AT
1 AT
10890199 CTATCTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (23 bp):
ATACATAGCAATTAGTCAAGACT
Found at i:10891654 original size:29 final size:30
Alignment explanation
Indices: 10891617--10891682 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
10891607 TAATTTATGT
*
10891617 TAAGAGTTTACTTAGGTAT-AATTAAAAGA
1 TAAGGGTTTACTTAGGTATAAATTAAAAGA
* * *
10891646 TAAGGGTTTATTTAGGTATAAATTAAATGT
1 TAAGGGTTTACTTAGGTATAAATTAAAAGA
10891676 TAAGGGT
1 TAAGGGT
10891683 AGAGATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
TAAGGGTTTACTTAGGTATAAATTAAAAGA
Found at i:10892812 original size:40 final size:39
Alignment explanation
Indices: 10892754--10892871 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 39
10892744 TTCAAGTCGT
10892754 TTTTAAGAAGAAATGCTTTAATTGATATCAATTAAGGTA
1 TTTTAAGAAGAAATGCTTTAATTGATATCAATTAAGGTA
* * * *
10892793 TTTTAAGAAAGAAACGCTTTTATTTGATATCAATTAAAGTG
1 TTTTAAG-AAGAAATGC-TTTAATTGATATCAATTAAGGTA
* * *
10892834 TTTTAATGAAGAAATACTTTAATTGAAATCAAATAAGG
1 TTTTAA-GAAGAAATGCTTTAATTGATATCAATTAAGG
10892872 CGTTTCAAGA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
39 7 0.11
40 25 0.38
41 33 0.50
42 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.37
Consensus pattern (39 bp):
TTTTAAGAAGAAATGCTTTAATTGATATCAATTAAGGTA
Found at i:10894670 original size:17 final size:17
Alignment explanation
Indices: 10894648--10894681 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10894638 TTTATCCGAT
10894648 AATTACTAAATACACTC
1 AATTACTAAATACACTC
*
10894665 AATTACTAATTACACTC
1 AATTACTAAATACACTC
10894682 CTCATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTACTAAATACACTC
Found at i:10895443 original size:4 final size:4
Alignment explanation
Indices: 10895436--10895470 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
10895426 AACTTATATA
10895436 TATC TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TAT
10895471 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:10895475 original size:4 final size:4
Alignment explanation
Indices: 10895430--10895492 Score: 54
Period size: 4 Copynumber: 15.8 Consensus size: 4
10895420 ATAATAAACT
* * * * * * * *
10895430 TATA TATA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
10895478 TATA TATA TATA TAT
1 TATA TATA TATA TAT
10895493 TGGTTAATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:10895492 original size:12 final size:12
Alignment explanation
Indices: 10895432--10895490 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
10895422 AATAAACTTA
*
10895432 TATATATCTATC
1 TATATATATATC
* *
10895444 TATCTATCTATC
1 TATATATATATC
* *
10895456 TATCTATCTATC
1 TATATATATATC
*
10895468 TATATATATATA
1 TATATATATATC
10895480 TATATATATAT
1 TATATATATAT
10895491 ATTGGTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATATC
Found at i:10900886 original size:16 final size:16
Alignment explanation
Indices: 10900865--10900897 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10900855 TCAAAGCTCT
*
10900865 TAAATTTCGTTGTTAA
1 TAAATTTCATTGTTAA
10900881 TAAATTTCATTGTTAA
1 TAAATTTCATTGTTAA
10900897 T
1 T
10900898 GATGCTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (16 bp):
TAAATTTCATTGTTAA
Found at i:10905195 original size:19 final size:19
Alignment explanation
Indices: 10905171--10905213 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
10905161 TTTTTTTTCA
10905171 TCTTGGTGTAACCAAAGTC
1 TCTTGGTGTAACCAAAGTC
10905190 TCTTGGTGTAACCAAAGTC
1 TCTTGGTGTAACCAAAGTC
10905209 TCTTG
1 TCTTG
10905214 CTTTGTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (19 bp):
TCTTGGTGTAACCAAAGTC
Found at i:10910763 original size:29 final size:29
Alignment explanation
Indices: 10910712--10910767 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10910702 TGTCTATTCC
*
10910712 TATATATCTATATTAACCGTATTTATTTG
1 TATATATCTATATTAACCATATTTATTTG
* **
10910741 TATATATCTGTATTATTCATATTTATT
1 TATATATCTATATTAACCATATTTATT
10910768 CATATTGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.55
Consensus pattern (29 bp):
TATATATCTATATTAACCATATTTATTTG
Found at i:10911359 original size:61 final size:62
Alignment explanation
Indices: 10911282--10911423 Score: 250
Period size: 62 Copynumber: 2.3 Consensus size: 62
10911272 AATCACCGAA
*
10911282 TAAAATATTCAGATATGATTA-TTTTTAAGAGATAATGTCACAAATAATTTTCAGATTGTAG
1 TAAAATATTCAAATATGATTATTTTTTAAGAGATAATGTCACAAATAATTTTCAGATTGTAG
*
10911343 TAAAATATTCATATATGATTATTTTTTAAGAGATAATGTCACAAATAATTTTCAGATTGTAG
1 TAAAATATTCAAATATGATTATTTTTTAAGAGATAATGTCACAAATAATTTTCAGATTGTAG
*
10911405 TAAAATAATCAAATATGAT
1 TAAAATATTCAAATATGAT
10911424 ATATAATTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
61 20 0.26
62 57 0.74
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.39
Consensus pattern (62 bp):
TAAAATATTCAAATATGATTATTTTTTAAGAGATAATGTCACAAATAATTTTCAGATTGTAG
Found at i:10911571 original size:28 final size:29
Alignment explanation
Indices: 10911534--10911601 Score: 102
Period size: 28 Copynumber: 2.3 Consensus size: 29
10911524 AGTTAACAAA
*
10911534 TTTATAATTCAAATATCATATTAAATATT
1 TTTATAATTCAAATATCACATTAAATATT
10911563 TTTAT-ATTCAAATATCACATTAAATATT
1 TTTATAATTCAAATATCACATTAAATATT
10911591 TCATTATAATT
1 T--TTATAATT
10911602 TATAATTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 23 0.66
29 5 0.14
30 4 0.11
31 3 0.09
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTATAATTCAAATATCACATTAAATATT
Found at i:10912504 original size:1 final size:1
Alignment explanation
Indices: 10912498--10912569 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
10912488 TTACTTTAAT
* ** *** * * * *
10912498 AAAAAAAATAAAAAAAAAAAAAAAAAGGAAAAGGGAGAAAACAAAAAATAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10912563 AAAAAAA
1 AAAAAAA
10912570 GCTCTTTAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.86, C:0.01, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Found at i:10913411 original size:29 final size:28
Alignment explanation
Indices: 10913364--10913419 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
10913354 AATATCATAT
10913364 TTTTATTAAATTAAAACATTAAATAATAA
1 TTTTATTAAATTAAAACA-TAAATAATAA
* *
10913393 TTTTATT-AATATAATACATATATAATA
1 TTTTATTAAAT-TAAAACATAAATAATA
10913420 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTATTAAATTAAAACATAAATAATAA
Found at i:10913830 original size:16 final size:16
Alignment explanation
Indices: 10913792--10913848 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
10913782 AGAAAAAATT
*
10913792 AAAAAAAAAAAGTGAAA
1 AAAAAAAAAAAG-CAAA
*
10913809 AGAAAAGACAAAAGCAAA
1 A-AAAA-AAAAAAGCAAA
*
10913827 AAAAAAAAAAAGGAAA
1 AAAAAAAAAAAGCAAA
10913843 AAAAAA
1 AAAAAA
10913849 TCAAGTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 15 0.44
17 5 0.15
18 8 0.24
19 6 0.18
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAGCAAA
Found at i:10914482 original size:19 final size:20
Alignment explanation
Indices: 10914450--10914493 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10914440 TATCTATTTC
* * *
10914450 AAAAATAAATCAAATTAA-A
1 AAAAAAAAAACAAAGTAACA
10914469 AAAAAAAAAACAAAGTAACA
1 AAAAAAAAAACAAAGTAACA
10914489 AAAAA
1 AAAAA
10914494 TATATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAACAAAGTAACA
Found at i:10915541 original size:21 final size:22
Alignment explanation
Indices: 10915517--10915558 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
10915507 ATCATTAATT
10915517 TTAATTTTATTATTAT-AATAA
1 TTAATTTTATTATTATCAATAA
10915538 TTAATTTTATTATTATCAATA
1 TTAATTTTATTATTATCAATA
10915559 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTTTATTATTATCAATAA
Found at i:10916092 original size:25 final size:26
Alignment explanation
Indices: 10916064--10916113 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
10916054 ACAGACGGCG
*
10916064 AATGAGAGATGAGTGCCTA-CAGGCT
1 AATGAGAGACGAGTGCCTACCAGGCT
*
10916089 AATGAGAGACGAGTGCTTACCAGGC
1 AATGAGAGACGAGTGCCTACCAGGC
10916114 GTTAAGTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (26 bp):
AATGAGAGACGAGTGCCTACCAGGCT
Found at i:10917137 original size:21 final size:23
Alignment explanation
Indices: 10917104--10917146 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10917094 AATTCCAGGA
*
10917104 AAAAACTTCATCTCAAA-CTAAC
1 AAAAACCTCATCTCAAAGCTAAC
10917126 AAAAACCT-ATCTCAAAGCTAA
1 AAAAACCTCATCTCAAAGCTAA
10917147 AATAACTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAAACCTCATCTCAAAGCTAAC
Found at i:10923936 original size:16 final size:16
Alignment explanation
Indices: 10923906--10923946 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
10923896 CCATGTCTGG
10923906 TTTCTCTTTTCTTTTCT
1 TTTCT-TTTTCTTTTCT
*
10923923 TTTCTTTTTTTTTTCT
1 TTTCTTTTTCTTTTCT
*
10923939 TTTGTTTT
1 TTTCTTTT
10923947 AAGAGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTCTTTTCT
Found at i:10933360 original size:26 final size:26
Alignment explanation
Indices: 10933331--10933384 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
10933321 AAATTTAGAT
10933331 AAAATTTATCACTTAAAAATTTTATA
1 AAAATTTATCACTTAAAAATTTTATA
* * *
10933357 AAAATTTATCATTTGAAATTTTTATA
1 AAAATTTATCACTTAAAAATTTTATA
10933383 AA
1 AA
10933385 TTCAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAATTTATCACTTAAAAATTTTATA
Found at i:10933392 original size:25 final size:25
Alignment explanation
Indices: 10933347--10933397 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
10933337 TATCACTTAA
*
10933347 AAATTTTATAAAAATTTATCATTTG
1 AAATTTTATAAAAATTAATCATTTG
*
10933372 AAATTTT-TATAAATTCAATCATTTG
1 AAATTTTATAAAAATT-AATCATTTG
10933397 A
1 A
10933398 TAAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (25 bp):
AAATTTTATAAAAATTAATCATTTG
Found at i:10933521 original size:13 final size:13
Alignment explanation
Indices: 10933480--10933518 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10933470 AAACCAATTC
*
10933480 ATAAATAAAATAC
1 ATAAATAAAATAA
*
10933493 TTAAATAAAATAA
1 ATAAATAAAATAA
10933506 ATAAAT-AAATAA
1 ATAAATAAAATAA
10933518 A
1 A
10933519 ATATCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:10933818 original size:21 final size:20
Alignment explanation
Indices: 10933785--10933824 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
10933775 TTCTTCAAAT
10933785 TTCCCTTTTTTCTCTCTCTC
1 TTCCCTTTTTTCTCTCTCTC
10933805 TTCCCTTCTTTTCTCTCTCT
1 TTCCCTT-TTTTCTCTCTCT
10933825 TCTCTAAAAT
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCCCTTTTTTCTCTCTCTC
Found at i:10933821 original size:19 final size:20
Alignment explanation
Indices: 10933785--10933826 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
10933775 TTCTTCAAAT
*
10933785 TTCCCTTTTTTCTCTCTCTC
1 TTCCCTTCTTTCTCTCTCTC
10933805 TTCCCTTCTTT-TCTCTCTC
1 TTCCCTTCTTTCTCTCTCTC
10933824 TTC
1 TTC
10933827 TCTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCCCTTCTTTCTCTCTCTC
Found at i:10934278 original size:19 final size:19
Alignment explanation
Indices: 10934249--10934304 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
10934239 CCAAGAAACC
*
10934249 AATAA-AATAAAAAATGAT
1 AATAATAATAAAAAATAAT
*
10934267 AATGATAATAAAAAATAAT
1 AATAATAATAAAAAATAAT
10934286 AATAATAATAAATAAATAA
1 AATAATAATAAA-AAATAA
10934305 AAATGGCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 4 0.12
19 23 0.70
20 6 0.18
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAATAATAAAAAATAAT
Found at i:10934284 original size:16 final size:16
Alignment explanation
Indices: 10934265--10934300 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10934255 ATAAAAAATG
*
10934265 ATAATGATAATAAAAA
1 ATAATAATAATAAAAA
*
10934281 ATAATAATAATAATAA
1 ATAATAATAATAAAAA
10934297 ATAA
1 ATAA
10934301 ATAAAAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
ATAATAATAATAAAAA
Found at i:10940977 original size:62 final size:63
Alignment explanation
Indices: 10940911--10941206 Score: 171
Period size: 62 Copynumber: 4.8 Consensus size: 63
10940901 TTTTTAAAAA
* *
10940911 GGATTATTCAAGGTATTTTTTAAGC-AAAAATGCTTTAAATAATCC-TGTCAT-AAAATTGAAAG
1 GGATTATTCAAGGTATTTTTT-AGCAAAAAATACATTAAATAATCCAT-TCATAAAAATTGAAAG
* * * * *
10940973 GGATTATTGAAAGT-GTTTTTAGCAAAAAATACATTGAATAATCCATTCATAAAAATTTAAAG
1 GGATTATTCAAGGTATTTTTTAGCAAAAAATACATTAAATAATCCATTCATAAAAATTGAAAG
* * * * * ** * **
10941035 GGATTATTCAAGGCATTTTTGA-CTAAAAATGCATTAACTAACTTTATTCA-AAAATTTCTAAG
1 GGATTATTCAAGGTATTTTTTAGCAAAAAATACATTAAATAA-TCCATTCATAAAAATTGAAAG
* * * ** * * ** * * *
10941097 TGATTATTTAATGCGTTTTTTGGGAAAAAATATTTTGAATAAT-C--TCAAAAAAATTAAAAG
1 GGATTATTCAAGGTATTTTTTAGCAAAAAATACATTAAATAATCCATTCATAAAAATTGAAAG
* * * * * *
10941157 GGATTATTGAAGGCA-TTTTTGGCTAAAAATACATTGAATAACCACATTCA
1 GGATTATTCAAGGTATTTTTTAGCAAAAAATACATTAAATAATC-CATTCA
10941207 ATTTTTTATA
Statistics
Matches: 176, Mismatches: 47, Indels: 21
0.72 0.19 0.09
Matches are distributed among these distances:
59 25 0.14
60 23 0.13
61 27 0.15
62 75 0.43
63 26 0.15
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (63 bp):
GGATTATTCAAGGTATTTTTTAGCAAAAAATACATTAAATAATCCATTCATAAAAATTGAAAG
Found at i:10941206 original size:122 final size:122
Alignment explanation
Indices: 10940974--10941273 Score: 318
Period size: 122 Copynumber: 2.4 Consensus size: 122
10940964 AATTGAAAGG
* * * *
10940974 GATTATTGAAAGTG-TTTTT-AGCAAAAAATACATTGAATAATCCATTCATAAAAATTTAAAGGG
1 GATTATTCAAAGCGTTTTTTGAG-AAAAAATACATTGAATAAT-C--TCAAAAAAATTAAAAGGG
* *** * *
10941037 ATTATTCAAGGCATTTTTGACTAAAAATGCATTAACTAACTTTATTCAAAAATTTCTAAGT
62 ATTATTCAAGGCATTTTTGACTAAAAATACATTAACTAACCACATTCAAAAATTTATAAGA
* * * **
10941098 GATTATTTAATGCGTTTTTTGGGAAAAAATATTTTGAATAATCTCAAAAAAATTAAAAGGGATTA
1 GATTATTCAAAGCGTTTTTTGAGAAAAAATACATTGAATAATCTCAAAAAAATTAAAAGGGATTA
* * ***
10941163 TTGAAGGCATTTTTGGCTAAAAATACATTGAA-TAACCACATTCAATTTTTTATAAGA
66 TTCAAGGCATTTTTGACTAAAAATACATT-AACTAACCACATTCAAAAATTTATAAGA
** * *
10941220 GATTATTCAAAGCGTTTTTTGATCAAAAACACATTGAATCATCTCAAAAAAATT
1 GATTATTCAAAGCGTTTTTTGAGAAAAAATACATTGAATAATCTCAAAAAAATT
10941274 GGAAGAAATT
Statistics
Matches: 145, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
122 108 0.74
123 2 0.01
124 12 0.08
125 22 0.15
126 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (122 bp):
GATTATTCAAAGCGTTTTTTGAGAAAAAATACATTGAATAATCTCAAAAAAATTAAAAGGGATTA
TTCAAGGCATTTTTGACTAAAAATACATTAACTAACCACATTCAAAAATTTATAAGA
Found at i:10941285 original size:122 final size:122
Alignment explanation
Indices: 10940974--10941315 Score: 287
Period size: 122 Copynumber: 2.8 Consensus size: 122
10940964 AATTGAAAGG
* * * * * **
10940974 GATTATTGAAAGTG-TTTTT-AGCAAAAAATACATTGAATAATCCATTCATAAAAATTTAAAGGG
1 GATTATTCAAAGCGTTTTTTGAG-AAAAAACACATTGAATAAT-C--TCAAAAAAATTAAAAGAA
* *** * *
10941037 ATTATTCAAGGCATTTTTGACTAAAAATGCATTAACTAACTTTATTCAAAAATTTCTAAGT
62 ATTATTCAAGGCATTTTTGACTAAAAATACATTAACTAACCACATTCAAAAATTTATAAGA
* * * * ** **
10941098 GATTATTTAATGCGTTTTTTGGGAAAAAATATTTTGAATAATCTCAAAAAAATTAAAAGGGATTA
1 GATTATTCAAAGCGTTTTTTGAGAAAAAACACATTGAATAATCTCAAAAAAATTAAAAGAAATTA
* * ***
10941163 TTGAAGGCATTTTTGGCTAAAAATACATTGAA-TAACCACATTCAATTTTTTATAAGA
66 TTCAAGGCATTTTTGACTAAAAATACATT-AACTAACCACATTCAAAAATTTATAAGA
** * **
10941220 GATTATTCAAAGCGTTTTTTGATCAAAAACACATTGAATCATCTCAAAAAAATTGGAAGAAATTA
1 GATTATTCAAAGCGTTTTTTGAGAAAAAACACATTGAATAATCTCAAAAAAATTAAAAGAAATTA
* * * *
10941285 TTAAATGCGTTTTTGAC-AGAAAACACATTAA
66 TTCAAGGCATTTTTGACTA-AAAATACATTAA
10941316 ACAATCCTCT
Statistics
Matches: 177, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
121 3 0.02
122 137 0.77
123 2 0.01
124 12 0.07
125 22 0.12
126 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (122 bp):
GATTATTCAAAGCGTTTTTTGAGAAAAAACACATTGAATAATCTCAAAAAAATTAAAAGAAATTA
TTCAAGGCATTTTTGACTAAAAATACATTAACTAACCACATTCAAAAATTTATAAGA
Found at i:10941804 original size:27 final size:28
Alignment explanation
Indices: 10941751--10941805 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10941741 AGGCATTTTT
*
10941751 GACAAAAAAAGCTTTAAATAATCCTTTC
1 GACAAAAAAAGCCTTAAATAATCCTTTC
10941779 GACAAAAAACA-CCTTAAATAAT-CTTTC
1 GACAAAAAA-AGCCTTAAATAATCCTTTC
10941806 ATAAAAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 5 0.20
28 19 0.76
29 1 0.04
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.27
Consensus pattern (28 bp):
GACAAAAAAAGCCTTAAATAATCCTTTC
Found at i:10941980 original size:62 final size:60
Alignment explanation
Indices: 10941818--10941981 Score: 148
Period size: 62 Copynumber: 2.6 Consensus size: 60
10941808 AAAAGTTAAA
* * * * *
10941818 AAAAGATTATTTAAGGTATTTTTGATAAAAAATACCTTGAATAACCCTGTTCAATTTTTTGT
1 AAAAGATTATTCAAGGTATTTTGGCT-AAAAATACCTT-AATAACCCTATTCAATTTTTTAT
** * * ** ** *
10941880 AAGGGATTATTCAAGATATTTTTGGCCAGTAACGCCTTAATTAACCCTATTTAATTTTTTAT
1 AAAAGATTATTCAAGGTA-TTTTGGCTAAAAATACCTTAA-TAACCCTATTCAATTTTTTAT
*
10941942 AAAAGATTATTCAAGGTGTTTCTGGCTAAAAATACCTTAA
1 AAAAGATTATTCAAGGTATTT-TGGCTAAAAATACCTTAA
10941982 ATAATCTCTC
Statistics
Matches: 76, Mismatches: 23, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
61 5 0.07
62 66 0.87
63 5 0.07
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (60 bp):
AAAAGATTATTCAAGGTATTTTGGCTAAAAATACCTTAATAACCCTATTCAATTTTTTAT
Found at i:10942776 original size:11 final size:11
Alignment explanation
Indices: 10942732--10942799 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
10942722 TCAAACAAAT
*
10942732 AAATTAATAAA
1 AAATTAATATA
*
10942743 TAAATT-ATAAA
1 -AAATTAATATA
10942754 ATAATTAA-ATA
1 A-AATTAATATA
*
10942765 AATTTAATATA
1 AAATTAATATA
*
10942776 AAATTAAAATA
1 AAATTAATATA
*
10942787 AACTTACATATA
1 AAATTA-ATATA
10942799 A
1 A
10942800 TGGTATTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 6 0.13
11 29 0.63
12 11 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATTAATATA
Found at i:10953799 original size:16 final size:16
Alignment explanation
Indices: 10953761--10953813 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
10953751 GGAGAAAATA
10953761 AAAAGAAAAT-AAGAA-
1 AAAA-AAAATGAAGAAG
*
10953776 AAAGAAAAAAGAAGGAAG
1 AAA-AAAAATGAA-GAAG
10953794 AAAAAAAATGAAGAAG
1 AAAAAAAATGAAGAAG
10953810 AAAA
1 AAAA
10953814 TAGAAAGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 7 0.22
16 11 0.34
17 11 0.34
18 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (16 bp):
AAAAAAAATGAAGAAG
Found at i:10953821 original size:14 final size:14
Alignment explanation
Indices: 10953763--10953821 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
10953753 AGAAAATAAA
10953763 AAGAAAATAAGAAA-
1 AAGAAAA-AAGAAAG
*
10953777 AAGAAAAAAGAAGG
1 AAGAAAAAAGAAAG
*
10953791 AAGAAAAAAAATGAAG
1 AAGAAAAAAGA--AAG
*
10953807 AAGAAAATAGAAAG
1 AAGAAAAAAGAAAG
10953821 A
1 A
10953822 GAGACTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 5 0.14
14 21 0.57
16 11 0.30
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (14 bp):
AAGAAAAAAGAAAG
Found at i:10956879 original size:21 final size:21
Alignment explanation
Indices: 10956855--10956904 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 21
10956845 ATTTATATTT
10956855 ATTATTAAAATAGTAAAATAA
1 ATTATTAAAATAGTAAAATAA
10956876 ATTATTAAAATAGTAAAATAA
1 ATTATTAAAATAGTAAAATAA
10956897 ATATATTA
1 AT-TATTA
10956905 GTCAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
ATTATTAAAATAGTAAAATAA
Found at i:10956979 original size:19 final size:19
Alignment explanation
Indices: 10956918--10956982 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
10956908 AATAAATATA
10956918 AAAATAATATATTATA-TATT
1 AAAA-AATAT-TTATATTATT
* *
10956938 AAAAAATATTAAGTAATGA-T
1 AAAAAATATTTA-T-ATTATT
10956958 AAAAAATATTTATATTATT
1 AAAAAATATTTATATTATT
10956977 AAAAAA
1 AAAAAA
10956983 ATGTTGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.14
19 14 0.38
20 17 0.46
21 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAAATATTTATATTATT
Found at i:10957960 original size:18 final size:17
Alignment explanation
Indices: 10957905--10957961 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
10957895 AAAATATGAG
*
10957905 TAAAATAATAAATAAGGA
1 TAAAAAAATAAATAA-GA
*
10957923 TAAAAAAATTAAA-AA-T
1 TAAAAAAA-TAAATAAGA
10957939 TAAAAAAATAATATAAGA
1 TAAAAAAATAA-ATAAGA
10957957 TAAAA
1 TAAAA
10957962 TTTAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 2 0.06
18 14 0.44
19 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
TAAAAAAATAAATAAGA
Found at i:10958001 original size:32 final size:31
Alignment explanation
Indices: 10957906--10958001 Score: 86
Period size: 34 Copynumber: 2.9 Consensus size: 31
10957896 AAATATGAGT
* *
10957906 AAAATAATAAATAAGGATAAAAAAATTAAAAATT
1 AAAAAAATAAATAA-GATAAAAAAA--AAAAATC
**
10957940 AAAAAAATAATATAAGATAAAATTTAAAAAATC
1 AAAAAAATAA-ATAAGATAAAA-AAAAAAAATC
*
10957973 AAAACAAA-AAATAAGATGAAAAAAAAAAA
1 AAAA-AAATAAATAAGATAAAAAAAAAAAA
10958002 GCGGACACCT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
31 6 0.12
32 10 0.19
33 12 0.23
34 19 0.37
35 5 0.10
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (31 bp):
AAAAAAATAAATAAGATAAAAAAAAAAAATC
Found at i:10959480 original size:43 final size:43
Alignment explanation
Indices: 10959355--10959731 Score: 338
Period size: 43 Copynumber: 8.7 Consensus size: 43
10959345 AAAATCATTA
* * * *
10959355 CCTCTATATAGAGGC-AAACAACTCTAAAATAGGAAATGGGTT
1 CCTCTATACAGAGGCTAAACAACTTTAAATTAGGAAATGGGCT
* *
10959397 CCTC--TACA-AGGCTTAACAATTTTAAATTAAGG-AATGGGCT
1 CCTCTATACAGAGGCTAAACAACTTTAAATT-AGGAAATGGGCT
* * *
10959437 CCTCTATACAGATGCTAAACAACTTTAAAAATA-GAAATTGGCT
1 CCTCTATACAGAGGCTAAACAACTTT-AAATTAGGAAATGGGCT
* * *
10959480 CCTCTATACAGAGGTTAAATAACTTTAAATTAAGG-AATGAGCT
1 CCTCTATACAGAGGCTAAACAACTTTAAATT-AGGAAATGGGCT
* * *
10959523 CCTTTATACAGAGGCTAAACAACTTTAAAGTAGGAAATAGGCT
1 CCTCTATACAGAGGCTAAACAACTTTAAATTAGGAAATGGGCT
* *
10959566 CTCTTGTATTCAGAGGCTAAACAACTTTAAATTAGGAAATGGGCTTT
1 C-C-TCTATACAGAGGCTAAACAACTTTAAATTAGGAAATGGGC--T
* * * *
10959613 TCTATATAAAGAAGGTTAAACAACTTTAAATTAGGAAATGGGCT
1 CCTCTATACAG-AGGCTAAACAACTTTAAATTAGGAAATGGGCT
* * * * *
10959657 CTTTTATACAAAAAAGGCTAAACAACTTTAAAATAAGAAATGGGCT
1 CCTCTATAC---AGAGGCTAAACAACTTTAAATTAGGAAATGGGCT
* *
10959703 CCTCTATTCAGAGGTTAAA-AATCTTTAAA
1 CCTCTATACAGAGGCTAAACAA-CTTTAAA
10959732 ATTAAGAATC
Statistics
Matches: 271, Mismatches: 45, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.01
40 25 0.09
41 3 0.01
42 18 0.07
43 99 0.37
44 12 0.04
45 42 0.15
46 66 0.24
47 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (43 bp):
CCTCTATACAGAGGCTAAACAACTTTAAATTAGGAAATGGGCT
Found at i:10961683 original size:61 final size:61
Alignment explanation
Indices: 10961613--10961764 Score: 236
Period size: 61 Copynumber: 2.5 Consensus size: 61
10961603 TTCCTAAAAT
*
10961613 AAAATTTTCAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAACA
1 AAAATTTTCAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACA
* *
10961674 AAAATTTTCAAAAAAAATATTTTTGATGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACA
1 AAAATTTTCAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACA
* * *
10961735 TAAATTTTC-AAAAAG-TATTTGTAAGGAAAA
1 AAAATTTTCAAAAAAGATATTTTTGAGGAAAA
10961765 AAAATTTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
59 12 0.14
60 5 0.06
61 66 0.80
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (61 bp):
AAAATTTTCAAAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACA
Found at i:10961852 original size:58 final size:57
Alignment explanation
Indices: 10961761--10961920 Score: 180
Period size: 58 Copynumber: 2.8 Consensus size: 57
10961751 ATTTGTAAGG
* * * *
10961761 AAAAAAAATTTTTAAATAAAAGTTGAAAATATCAATTTTCCTTGAAAATAA-AATTGTT
1 AAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA-AATAAAT-TT
* * *
10961819 AAAAAAAATTTCTGAAGAAAAGTTGGAAGTATCAATTTTTCTT-AAAAAATAAATTT
1 AAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAAATAAATTT
* * *
10961875 AAAAAAAATATTTTTAAGAAAAAATTGAAAGCATCAATTTTTCTTG
1 AAAAAAAAT-TTTTAAAG-AAAAGTTGAAAGTATCAATTTTTCTTG
10961921 TATAAAAGCA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
56 13 0.15
57 13 0.15
58 60 0.70
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (57 bp):
AAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAAATAAATTT
Found at i:10961882 original size:15 final size:16
Alignment explanation
Indices: 10961862--10961899 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10961852 AATTTTTCTT
10961862 AAAAAATAAATTTAA-
1 AAAAAATAAATTTAAG
**
10961877 AAAAAATATTTTTAAG
1 AAAAAATAAATTTAAG
10961893 AAAAAAT
1 AAAAAAT
10961900 TGAAAGCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAAATAAATTTAAG
Found at i:10972412 original size:15 final size:14
Alignment explanation
Indices: 10972375--10972421 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 14
10972365 ACTATGCTTG
10972375 AAAAA-AAAAAAA-
1 AAAAATAAAAAAAT
*
10972387 AAAAAGAAAAATAAT
1 AAAAATAAAAA-AAT
10972402 GAAAAATAAAAAAAT
1 -AAAAATAAAAAAAT
10972417 AAAAA
1 AAAAA
10972422 AAAGAAGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 7 0.23
15 3 0.10
16 10 0.33
ACGTcount: A:0.87, C:0.00, G:0.04, T:0.09
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:10973552 original size:41 final size:41
Alignment explanation
Indices: 10973432--10973941 Score: 581
Period size: 41 Copynumber: 12.2 Consensus size: 41
10973422 TGTCAATGAA
* * * *
10973432 CAATTTATTTTTTCAAAAGTTATGGTGCTTCTGTTTAAATGAG
1 CAATTTA-TTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAG
* * *
10973475 CAATTTATTTTTCCAAAGTTATGGTGCCTTTGTTTAGATGAG
1 CAATTTATTTTT-CAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* * *
10973517 CAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGATGAA
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
*
10973558 CAATTTATTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* * * * *
10973599 TAATTTATTTTTCAAAGTTTTGGTGCCTTTGTTTAAAAGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* * *
10973640 CAATTTATTTTTCAAAGTTGTGGTGCATCTATTTAAAGGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
** * * *
10973681 CAATTTATTTGCCAAAGTTTTAGTGTCTCTGTTTAGAGGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* *
10973722 CAATTTATTTTCCAAAGTTCAAAGTTGTGGTTCCTCTATTTAGAGGAG
1 CAATTTA-TTT------TTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
*
10973770 CAATTTATTTTTCAAAGTTTTGGTGCCTCTGTTTAGAGGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* * * * *
10973811 CATTTTATTTCTCAAAGTTGTGGTGCCTCTATTTAAAGAAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* *
10973852 CAATTTATTTTTCAAAATTGTGGTGCCTCTGTTTAGAAGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
* * * *
10973893 CAATTTATTTTTCAAAGTTTTGATACCTCTGTTTAAAGGAG
1 CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
10973934 C-ATTTATT
1 CAATTTATT
10973942 ATCATTGAGC
Statistics
Matches: 399, Mismatches: 60, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
40 7 0.02
41 305 0.76
42 45 0.11
43 8 0.02
47 3 0.01
48 31 0.08
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (41 bp):
CAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
Found at i:10975275 original size:60 final size:59
Alignment explanation
Indices: 10975083--10975380 Score: 310
Period size: 60 Copynumber: 5.1 Consensus size: 59
10975073 TTTTCAATGA
* * *
10975083 TTTTCTT-AAAATAAAATTTTCAAAAAAAAATATTATTGATGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAATTTT--AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
* * *** * *
10975143 TTTTTTTGAAAAAAAAAATTTTCTTAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAAATAAAATTTTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
*
10975203 TTTTCTTAAAAATAAAATTTTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAGT
1 TTTTCTTAAAAATAAAATTTTAAAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAAT
** * * *
10975263 TTCCCTT-----GAAAA--TTAAAAAAAA-AATTTTAAGGAAAAGTTGGAAA-TACCAAT
1 TTTTCTTAAAAATAAAATTTTAAAAAAAATATTTTTAAGGAAAAGTT-GAAAGTATCAAT
* *
10975314 TTTTCTTAAAAAATAAAATTTTTAAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAAT
1 TTTTCTT-AAAAATAAAATTTTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
10975374 TTTTCTT
1 TTTTCTT
10975381 GTATAAAAAC
Statistics
Matches: 195, Mismatches: 29, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
51 26 0.13
52 5 0.03
53 9 0.05
55 4 0.02
57 4 0.02
59 29 0.15
60 106 0.54
62 12 0.06
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (59 bp):
TTTTCTTAAAAATAAAATTTTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
Found at i:10975327 original size:52 final size:53
Alignment explanation
Indices: 10975222--10975331 Score: 127
Period size: 51 Copynumber: 2.1 Consensus size: 53
10975212 AAATAAAATT
* * * *
10975222 TTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAGTTTCCCTTGAAAA
1 TTAAAAAAATATAATTTTAAGGAAAAGTTGAAAGTACCAATTTCCCTTAAAAA
**
10975275 TTAAAAAAA-A-AATTTTAAGGAAAAGTTGGAAA-TACCAATTTTTCTTAAAAA
1 TTAAAAAAATATAATTTTAAGGAAAAGTT-GAAAGTACCAATTTCCCTTAAAAA
*
10975326 ATAAAA
1 TTAAAA
10975332 TTTTTAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
51 35 0.71
52 5 0.10
53 9 0.18
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (53 bp):
TTAAAAAAATATAATTTTAAGGAAAAGTTGAAAGTACCAATTTCCCTTAAAAA
Found at i:10981823 original size:17 final size:17
Alignment explanation
Indices: 10981801--10981838 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10981791 AGTATTAGGG
*
10981801 TGGTAGGTGTTGGTAGA
1 TGGTAGGTATTGGTAGA
*
10981818 TGGTAGGTATTGGTAGG
1 TGGTAGGTATTGGTAGA
10981835 TGGT
1 TGGT
10981839 CGAAATGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.37
Consensus pattern (17 bp):
TGGTAGGTATTGGTAGA
Found at i:10987966 original size:20 final size:22
Alignment explanation
Indices: 10987919--10987968 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
10987909 CTTTTAATAT
10987919 TAATA-TTTTAATTAAAATTAA
1 TAATATTTTTAATTAAAATTAA
* *
10987940 AAATATTTTTAA-TAATA-TAA
1 TAATATTTTTAATTAAAATTAA
10987960 TAATATTTT
1 TAATATTTT
10987969 GAGTCAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 8 0.32
22 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATATTTTTAATTAAAATTAA
Found at i:10988056 original size:25 final size:23
Alignment explanation
Indices: 10988028--10988091 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
10988018 CTTAAGTAGA
*
10988028 ATTATAAAATATTTAAAATTAAAAT
1 ATTATAAAATTTTTAAAATT--AAT
* * *
10988053 ATTAGAAGATTTTTAATATTAAT
1 ATTATAAAATTTTTAAAATTAAT
*
10988076 ATTTTAAAATTTTTAA
1 ATTATAAAATTTTTAA
10988092 GTAAAATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 16 0.50
25 16 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
ATTATAAAATTTTTAAAATTAAT
Found at i:10988087 original size:23 final size:23
Alignment explanation
Indices: 10988032--10988091 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
10988022 AGTAGAATTA
*
10988032 TAAAATATTTAAAATTAAAATAT
1 TAAAATTTTTAAAATTAAAATAT
* * *
10988055 TAGAAGATTTTTAATATTAATATTT
1 TA-AA-ATTTTTAAAATTAAAATAT
10988080 TAAAATTTTTAA
1 TAAAATTTTTAA
10988092 GTAAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 10 0.32
24 4 0.13
25 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
TAAAATTTTTAAAATTAAAATAT
Found at i:10989691 original size:10 final size:10
Alignment explanation
Indices: 10989676--10989734 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
10989666 CTAAAAAGTT
10989676 TTTTAAAAAA
1 TTTTAAAAAA
10989686 TTTT-AAAAA
1 TTTTAAAAAA
* * *
10989695 -TCTAAATAT
1 TTTTAAAAAA
*
10989704 TTTTAAAGAA
1 TTTTAAAAAA
*
10989714 TTCTAAAATAA
1 TTTTAAAA-AA
10989725 TTTTAAAAAA
1 TTTTAAAAAA
10989735 AAAACCTAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
8 2 0.05
9 8 0.22
10 18 0.49
11 9 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:10989715 original size:28 final size:29
Alignment explanation
Indices: 10989656--10989721 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
10989646 TAAAATTTTC
*
10989656 TTTTAAAATTCTAAAAAGTTTTTTAAAAAA
1 TTTTAAAAATCTAAAAAG-TTTTTAAAAAA
* *
10989686 TTTTAAAAATCTAAATA-TTTTTAAAGAA
1 TTTTAAAAATCTAAAAAGTTTTTAAAAAA
*
10989714 TTCTAAAA
1 TTTTAAAA
10989722 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 17 0.53
30 15 0.47
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTTAAAAATCTAAAAAGTTTTTAAAAAA
Found at i:10989720 original size:20 final size:19
Alignment explanation
Indices: 10989679--10989733 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 19
10989669 AAAAGTTTTT
10989679 TAAAA-AATTTTAAAAATC
1 TAAAATAATTTTAAAAATC
*
10989697 T-AAATATTTTTAAAGAATTC
1 TAAAATAATTTTAAA-AA-TC
10989717 TAAAATAATTTTAAAAA
1 TAAAATAATTTTAAAAA
10989734 AAAAACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 3 0.10
18 9 0.29
19 2 0.06
20 5 0.16
21 12 0.39
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAATAATTTTAAAAATC
Found at i:10989763 original size:18 final size:17
Alignment explanation
Indices: 10989678--10989792 Score: 59
Period size: 18 Copynumber: 6.0 Consensus size: 17
10989668 AAAAAGTTTT
10989678 TTAAAAAATTTTAAAAA
1 TTAAAAAATTTTAAAAA
* *
10989695 TCTAAATATTTTTAAAGAA
1 T-TAAAAAATTTTAAA-AA
10989714 TTCTAAAATAATTTTAAAAAA
1 -T-TAAAA-AATTTT-AAAAA
**
10989735 AAAACCTAAAATATTTAAAAA
1 TTAA---AAAAT-TTTAAAAA
*
10989756 TTAAAAAATTTATGAAATA
1 TTAAAAAATTT-T-AAAAA
*
10989775 TTAAAAATTTTTTAAAAA
1 TTAAAAA-ATTTTAAAAA
10989793 ATCTCAAATT
Statistics
Matches: 75, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
17 3 0.04
18 22 0.29
19 16 0.21
20 9 0.12
21 17 0.23
22 8 0.11
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAAATTTTAAAAA
Found at i:10989829 original size:8 final size:9
Alignment explanation
Indices: 10989808--10989849 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
10989798 AAATTTTACT
10989808 AAAAAATTC
1 AAAAAATTC
10989817 AAAAAATTC
1 AAAAAATTC
*
10989826 AAAAAAAAT-
1 -AAAAAATTC
*
10989835 GAAAAATTC
1 AAAAAATTC
10989844 AAAAAA
1 AAAAAA
10989850 ATTAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (9 bp):
AAAAAATTC
Found at i:10989829 original size:18 final size:18
Alignment explanation
Indices: 10989817--10989856 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10989807 TAAAAAATTC
10989817 AAAAAATTCAAAAAAAAT
1 AAAAAATTCAAAAAAAAT
* *
10989835 GAAAAATTCAAAAAAATT
1 AAAAAATTCAAAAAAAAT
10989853 AAAA
1 AAAA
10989857 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAAATTCAAAAAAAAT
Found at i:10989867 original size:19 final size:19
Alignment explanation
Indices: 10989751--10989877 Score: 61
Period size: 19 Copynumber: 6.8 Consensus size: 19
10989741 TAAAATATTT
* *
10989751 AAAAATTAAAAAATTT-ATG
1 AAAAATT-AAAATTTTAATA
* *
10989770 AAATATTAAAAATTTT-TTA
1 AAAAATT-AAAATTTTAATA
* *
10989789 AAAAATCTCAAATTTTACTA
1 AAAAAT-TAAAATTTTAATA
* *
10989809 AAAAATTCAAAAAATTCAA-A
1 AAAAATT--AAAATTTTAATA
* * *
10989829 AAAAATGAAAA-ATTCA-A
1 AAAAATTAAAATTTTAATA
10989846 AAAAATTAAAATTTTAAT-
1 AAAAATTAAAATTTTAATA
10989864 AAAAA-TAAAATTTT
1 AAAAATTAAAATTTT
10989878 CTTCAAATTA
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
17 22 0.26
18 12 0.14
19 28 0.33
20 16 0.19
21 6 0.07
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATTAAAATTTTAATA
Found at i:10989869 original size:28 final size:28
Alignment explanation
Indices: 10989788--10989868 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
10989778 AAAATTTTTT
* *
10989788 AAAAAATCTCAAATTTTACTAAAAAATTC
1 AAAAAAT-TAAAATTTTAATAAAAAATTC
** *
10989817 AAAAAATTCAAAA--AAAATGAAAAATTC
1 AAAAAATT-AAAATTTTAATAAAAAATTC
10989844 AAAAAAATTAAAATTTTAATAAAAA
1 -AAAAAATTAAAATTTTAATAAAAA
10989869 TAAAATTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
27 14 0.35
28 9 0.22
29 17 0.43
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.26
Consensus pattern (28 bp):
AAAAAATTAAAATTTTAATAAAAAATTC
Found at i:10989929 original size:24 final size:25
Alignment explanation
Indices: 10989864--10989934 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 25
10989854 AAATTTTAAT
* *
10989864 AAAAA-TAAAATTTTCTTCAAATTAA
1 AAAAATTAAAA-TTTTTTCAAAATAA
**
10989889 AAAAATTAAAAAATTTT-AAAAT-A
1 AAAAATTAAAATTTTTTCAAAATAA
*
10989912 AAAAATCTAAAATTTTTTGAAAA
1 AAAAAT-TAAAATTTTTTCAAAA
10989935 ATTCTAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.19
24 13 0.35
25 12 0.32
26 5 0.14
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (25 bp):
AAAAATTAAAATTTTTTCAAAATAA
Found at i:10989946 original size:18 final size:19
Alignment explanation
Indices: 10989910--10989960 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
10989900 AATTTTAAAA
10989910 TAAAAAA-TCTAAAATTTTT
1 TAAAAAATTCT-AAATTTTT
*
10989929 TGAAAAATTCTAAA-TTTT
1 TAAAAAATTCTAAATTTTT
*
10989947 TAAAAAATTATAAA
1 TAAAAAATTCTAAA
10989961 AAATTTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 16 0.57
19 9 0.32
20 3 0.11
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAAAAATTCTAAATTTTT
Found at i:10990146 original size:32 final size:31
Alignment explanation
Indices: 10990088--10990164 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 31
10990078 ATTTTTGATG
*
10990088 TTTTAAAAATTTTTTCAAAATTTTTTTAAAA
1 TTTTAAAAATTTTTTCAAAATATTTTTAAAA
* **
10990119 TTTTAAAGAATTTTTT-AAATATATTTTTTATT
1 TTTTAAA-AATTTTTTCAAA-ATATTTTTAAAA
*
10990151 TTTTAAAAAATTTT
1 TTTTAAAAATTTTT
10990165 GATTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 16 0.41
32 23 0.59
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (31 bp):
TTTTAAAAATTTTTTCAAAATATTTTTAAAA
Found at i:10990164 original size:12 final size:11
Alignment explanation
Indices: 10990088--10990148 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
10990078 ATTTTTGATG
10990088 TTTTAAAAATT
1 TTTTAAAAATT
*
10990099 TTTTCAAAATT
1 TTTTAAAAATT
*
10990110 TTTTTAAAA--
1 TTTTAAAAATT
10990119 TTTTAAAGAATT
1 TTTTAAA-AATT
10990131 TTTTAAATATATT
1 TTTTAAA-A-ATT
10990144 TTTTA
1 TTTTA
10990149 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 18 0.43
12 8 0.19
13 8 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAAAAATT
Found at i:10990170 original size:21 final size:20
Alignment explanation
Indices: 10990128--10990174 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
10990118 ATTTTAAAGA
*
10990128 ATTTTTTAAATATATTTTTT
1 ATTTTTTAAATAAATTTTTT
10990148 ATTTTTTAAA-AAATTTTGATT
1 ATTTTTTAAATAAATTTT--TT
10990169 ATTTTT
1 ATTTTT
10990175 GTGAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 10 0.42
21 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTTAAATAAATTTTTT
Found at i:10990347 original size:32 final size:31
Alignment explanation
Indices: 10990300--10990361 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
10990290 TATATATTTA
*
10990300 TTTATTTTTTATAA-TTTTAAAATATCATTTTT
1 TTTATTTCTTATAATTTTTAAAA-A-CATTTTT
*
10990332 TTTATTTCTTGTAATTTTTAAAAACATTTT
1 TTTATTTCTTATAATTTTTAAAAACATTTT
10990362 AGATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 13 0.48
33 8 0.30
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTATTTCTTATAATTTTTAAAAACATTTTT
Found at i:10992038 original size:97 final size:97
Alignment explanation
Indices: 10991872--10992064 Score: 287
Period size: 97 Copynumber: 2.0 Consensus size: 97
10991862 TACATTTGCT
* * * *
10991872 ATCTACTAGCTTTTTTAATAAATTTGTGTCTTTGACATCATTGTATATTGTTTTTATAGTGTTAA
1 ATCTACTAGCTTTTTAAATAAATTTGTGTCTTTGACATCATTGTATACTGTCTTTATAGTGCTAA
*
10991937 TATTCTTCTCATTATATTGTTTTATAGTCAAC
66 TATTCTTCTCATTATATTATTTTATAGTCAAC
* * ** *
10991969 ATCTATTAGCTTTTTAAATATATTTGTGTCTTTGATGTCATTGTATACTGTCTTTATGGTGCTAA
1 ATCTACTAGCTTTTTAAATAAATTTGTGTCTTTGACATCATTGTATACTGTCTTTATAGTGCTAA
*
10992034 TATTCTTCTCATTATATTATTTTATGGTCAA
66 TATTCTTCTCATTATATTATTTTATAGTCAA
10992065 TAGTATGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (97 bp):
ATCTACTAGCTTTTTAAATAAATTTGTGTCTTTGACATCATTGTATACTGTCTTTATAGTGCTAA
TATTCTTCTCATTATATTATTTTATAGTCAAC
Found at i:10992803 original size:34 final size:32
Alignment explanation
Indices: 10992706--10992803 Score: 106
Period size: 34 Copynumber: 2.9 Consensus size: 32
10992696 GAAATTGTGA
10992706 AAAATTATAATATATTTTTGAAAATCTATTTTCG
1 AAAA-TATAATATATTTTTGAAAATC-ATTTTCG
*
10992740 AAAATATAATATAATTCTTAGAAAATCATTTTCG
1 AAAATATAATAT-ATT-TTTGAAAATCATTTTCG
** *
10992774 AAAATGATGTTGTATTTTTGAAAATTCATT
1 AAAAT-ATAATATATTTTTGAAAA-TCATT
10992804 AGGAAATTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
33 15 0.27
34 27 0.49
35 13 0.24
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (32 bp):
AAAATATAATATATTTTTGAAAATCATTTTCG
Found at i:10993003 original size:21 final size:21
Alignment explanation
Indices: 10992978--10993019 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10992968 TTAATAGAAG
* *
10992978 TTTAAAAATTTTGGTTTTAGT
1 TTTAAAAATTTAGGATTTAGT
*
10992999 TTTAAAGATTTAGGATTTAGT
1 TTTAAAAATTTAGGATTTAGT
10993020 GCATGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
TTTAAAAATTTAGGATTTAGT
Found at i:10995867 original size:20 final size:20
Alignment explanation
Indices: 10995825--10995868 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10995815 TATTTATGTG
* *
10995825 GATATTAACTTTGTTGACTT
1 GATATTAACTTTGTTAACGT
10995845 GATATTATA-TTTGTTAACGT
1 GATATTA-ACTTTGTTAACGT
10995865 GATA
1 GATA
10995869 ATTTGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (20 bp):
GATATTAACTTTGTTAACGT
Found at i:10996116 original size:21 final size:23
Alignment explanation
Indices: 10996085--10996148 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 23
10996075 TTAATATTGT
10996085 TTTTGGATTTTTTTAAAATT-AGA
1 TTTT-GATTTTTTTAAAATTAAGA
* *
10996108 TTTT-ATTTTTTAAAAATTCAATA
1 TTTTGATTTTTTTAAAATT-AAGA
10996131 TTTTGATTTTTTTTAAAA
1 TTTTGA-TTTTTTTAAAA
10996149 ATTTCAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.38
23 10 0.29
24 1 0.03
25 10 0.29
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTTGATTTTTTTAAAATTAAGA
Found at i:10996202 original size:16 final size:17
Alignment explanation
Indices: 10996173--10996228 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
10996163 AAAAAATATT
*
10996173 AAATCTGAATTTTTTTA
1 AAATTTGAATTTTTTTA
*
10996190 ATATTTGAATTTTTTTA
1 AAATTTGAATTTTTTTA
* *
10996207 AAATTT-CATTTTTTAA
1 AAATTTGAATTTTTTTA
10996223 AAATTT
1 AAATTT
10996229 TAACATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 14 0.41
17 20 0.59
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (17 bp):
AAATTTGAATTTTTTTA
Found at i:10996854 original size:18 final size:18
Alignment explanation
Indices: 10996839--10996872 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10996829 TACAATTTTT
10996839 AAAAA-ATTAAATATTTA
1 AAAAATATTAAATATTTA
10996856 AAAAATATTAAAT-TTTA
1 AAAAATATTAAATATTTA
10996873 TGTTCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATATTAAATATTTA
Found at i:10996870 original size:16 final size:16
Alignment explanation
Indices: 10996823--10996861 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10996813 AAAAAAATTC
*
10996823 AAAAAA-TACAATTTTT
1 AAAAAATTA-AATATTT
10996839 AAAAAATTAAATATTT
1 AAAAAATTAAATATTT
10996855 AAAAAAT
1 AAAAAAT
10996862 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATTAAATATTT
Found at i:10997081 original size:135 final size:135
Alignment explanation
Indices: 10996934--10997190 Score: 397
Period size: 135 Copynumber: 1.9 Consensus size: 135
10996924 TTTAAAATGT
* *
10996934 GATTTTTAAAAAAAGTAAAAAAAAATGATTTTTTTAGTAACTAGACCAACATTATTAAATTTAAC
1 GATTTTTAAAAAAAGTAAAAAAAAATAATTTTTTTAATAACTAGACCAACATTATTAAATTTAAC
* ***
10996999 TTATACACAAATGAAATTTTTATGAAATTATACTAAAATGGCTAAATTTTAAATTTTGTATGAGA
66 TTATACACAAATGAAATTTTTATAAAATTATACTAAAAAAACTAAATTTTAAATTTTGTATGAGA
10997064 ACAAA
131 ACAAA
* *
10997069 GATTTTTTAAAAAAGTAAAAAAAAATAATTTTTTTAATAATTAGACCAACATTATTAAATTTAAC
1 GATTTTTAAAAAAAGTAAAAAAAAATAATTTTTTTAATAACTAGACCAACATTATTAAATTTAAC
* * * * *
10997134 TTATACATATATGACATTTTTATAAAATTATATTAAAAAAATTAAATTTTAAATTTT
66 TTATACACAAATGAAATTTTTATAAAATTATACTAAAAAAACTAAATTTTAAATTTT
10997191 AAATTTTTTA
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 109 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (135 bp):
GATTTTTAAAAAAAGTAAAAAAAAATAATTTTTTTAATAACTAGACCAACATTATTAAATTTAAC
TTATACACAAATGAAATTTTTATAAAATTATACTAAAAAAACTAAATTTTAAATTTTGTATGAGA
ACAAA
Found at i:11006450 original size:18 final size:17
Alignment explanation
Indices: 11006403--11006450 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
11006393 AATTAATTAT
11006403 TATAATAATAAAATTTGA
1 TATAA-AATAAAATTTGA
11006421 TATAAAATTAAAATTAGTGA
1 TATAAAA-TAAAATT--TGA
11006441 TAT-AAATAAA
1 TATAAAATAAA
11006451 CGTTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.07
18 16 0.59
19 3 0.11
20 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TATAAAATAAAATTTGA
Found at i:11006574 original size:43 final size:44
Alignment explanation
Indices: 11006518--11006602 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 44
11006508 ATCATTAAAT
* *
11006518 ATATTATATTAAATTTTATATGTAATGAAAAATTTAAATTATTAA
1 ATATTATATTAAATTTTATAAGTAATGAAAAA-ATAAATTATTAA
*
11006563 ATATT-TA-TAAATTTTATAAGTAATTAAAAAATAAATTATT
1 ATATTATATTAAATTTTATAAGTAATGAAAAAATAAATTATT
11006603 TTTATATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 9 0.24
43 21 0.57
44 2 0.05
45 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (44 bp):
ATATTATATTAAATTTTATAAGTAATGAAAAAATAAATTATTAA
Found at i:11016160 original size:18 final size:18
Alignment explanation
Indices: 11016139--11016181 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
11016129 AAATTTTACT
11016139 AAAAAATACCAAAAGTTAAA
1 AAAAAAT-CCAAAA-TTAAA
*
11016159 AAAAAATTCAAAATTAAA
1 AAAAAATCCAAAATTAAA
11016177 AAAAA
1 AAAAA
11016182 TTAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 5 0.23
20 7 0.32
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAAATCCAAAATTAAA
Found at i:11016193 original size:18 final size:18
Alignment explanation
Indices: 11016157--11016208 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
11016147 CCAAAAGTTA
11016157 AAAAAAAATTCAAAA--TT
1 AAAAAAAATT-AAAATTTT
11016174 AAAAAAAATTAAAATTTT
1 AAAAAAAATTAAAATTTT
*
11016192 AATAAAAA-TAAAATTTT
1 AAAAAAAATTAAAATTTT
11016209 CTTCAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 4 0.12
17 19 0.59
18 9 0.28
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAAAATTAAAATTTT
Found at i:11016269 original size:24 final size:24
Alignment explanation
Indices: 11016229--11016274 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11016219 AAAAAATCAC
11016229 AAAAATTAAAAAATTTT-AAAATA
1 AAAAATTAAAAAATTTTGAAAATA
**
11016252 AAAAATCTAAAATTTTTTGAAAA
1 AAAAAT-TAAAAAATTTTGAAAA
11016275 AAGTCTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 9 0.47
25 4 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAATTAAAAAATTTTGAAAATA
Found at i:11016424 original size:28 final size:28
Alignment explanation
Indices: 11016393--11016460 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
11016383 AAATTTTAAT
* * *
11016393 TTTTAAAATTTTTTAGAATATTTCAAAA
1 TTTTAAAATTTTTAAAAAAATTTCAAAA
** *
11016421 TTTT-GGATGTTTTAAAAAAATTTTAAAA
1 TTTTAAAAT-TTTTAAAAAAATTTCAAAA
11016449 TTTTAAAATTTT
1 TTTTAAAATTTT
11016461 AAAGAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
27 2 0.07
28 26 0.87
29 2 0.07
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (28 bp):
TTTTAAAATTTTTAAAAAAATTTCAAAA
Found at i:11016450 original size:8 final size:8
Alignment explanation
Indices: 11016437--11016463 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11016427 ATGTTTTAAA
11016437 AAAATTTT
1 AAAATTTT
11016445 AAAATTTT
1 AAAATTTT
11016453 AAAATTTT
1 AAAATTTT
11016461 AAA
1 AAA
11016464 GAATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:11016453 original size:56 final size:56
Alignment explanation
Indices: 11016382--11016496 Score: 142
Period size: 56 Copynumber: 2.1 Consensus size: 56
11016372 TTTTTTTACT
* **
11016382 AAAATTTTAATTTTTAAAATTTTTTAGAATATTTCAAA-ATTTTGGATGTTTTAAA
1 AAAATTTTAAATTTTAAAATTTTAAAGAATATTTCAAATATTTTGGATGTTTTAAA
* * ** *
11016437 AAAATTTTAAAATTTTAAAATTTTAAAGAATTTTTTAAATATTTTTTATTTTTTAAA
1 AAAATTTT-AAATTTTAAAATTTTAAAGAATATTTCAAATATTTTGGATGTTTTAAA
11016494 AAA
1 AAA
11016497 TTTAGATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
55 8 0.16
56 25 0.50
57 17 0.34
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (56 bp):
AAAATTTTAAATTTTAAAATTTTAAAGAATATTTCAAATATTTTGGATGTTTTAAA
Found at i:11016489 original size:19 final size:18
Alignment explanation
Indices: 11016466--11016569 Score: 58
Period size: 18 Copynumber: 6.0 Consensus size: 18
11016456 ATTTTAAAGA
11016466 ATTTTTTAAATATTTTTT
1 ATTTTTTAAATATTTTTT
* * **
11016484 ATTTTTTAAAAAATTTAG
1 ATTTTTTAAATATTTTTT
*
11016502 ATTTTTTTTAAT-TTTTTT
1 A-TTTTTTAAATATTTTTT
* **
11016520 AATTTTTAAGA-AAGTTTT
1 ATTTTTTAA-ATATTTTTT
*
11016538 ATTTATT-AA-A-TTTTT
1 ATTTTTTAAATATTTTTT
*
11016553 ATTTATTAAAT-TTTTTT
1 ATTTTTTAAATATTTTTT
11016570 GGATTCTTAT
Statistics
Matches: 64, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
15 11 0.17
16 4 0.06
17 12 0.19
18 29 0.45
19 8 0.12
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTTAAATATTTTTT
Found at i:11016497 original size:56 final size:54
Alignment explanation
Indices: 11016364--11016499 Score: 137
Period size: 56 Copynumber: 2.4 Consensus size: 54
11016354 TTTTATGAAT
* * **
11016364 TTTTTGTATTTTTTTACTAAAATTTTAATTTTTAAAATTTTTTAGAATATTTCAAAA
1 TTTTT-TA-TTTTTTA-AAAAATTTTAAATTTTAAAATTTTAAAGAATATTTCAAAA
** * * *
11016421 TTTTGGATGTTTTAAAAAAATTTTAAAATTTTAAAATTTTAAAGAATTTTTTAAATA
1 TTTTTTAT-TTTTTAAAAAATTTT-AAATTTTAAAATTTTAAAGAATATTTCAAA-A
11016478 TTTTTTATTTTTTAAAAAATTT
1 TTTTTTATTTTTTAAAAAATTT
11016500 AGATTTTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
55 9 0.14
56 44 0.69
57 11 0.17
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (54 bp):
TTTTTTATTTTTTAAAAAATTTTAAATTTTAAAATTTTAAAGAATATTTCAAAA
Found at i:11016506 original size:36 final size:35
Alignment explanation
Indices: 11016466--11016552 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
11016456 ATTTTAAAGA
11016466 ATTTTTTAAATATTTTTTATTTTTTAA-AAAATTTAG
1 ATTTTTTAAAT-TTTTTTATTTTTTAAGAAAATTT-G
* * * *
11016502 ATTTTTTTTAATTTTTTTAATTTTTAAGAAAGTTTT
1 A-TTTTTTAAATTTTTTTATTTTTTAAGAAAATTTG
*
11016538 ATTTATTAAATTTTT
1 ATTTTTTAAATTTTT
11016553 ATTTATTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
35 12 0.28
36 16 0.37
37 15 0.35
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (35 bp):
ATTTTTTAAATTTTTTTATTTTTTAAGAAAATTTG
Found at i:11016566 original size:14 final size:15
Alignment explanation
Indices: 11016534--11016567 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
11016524 TTTAAGAAAG
11016534 TTTTATTTATTAAAT
1 TTTTATTTATTAAAT
11016549 TTTTATTTATTAAAT
1 TTTTATTTATTAAAT
11016564 TTTT
1 TTTT
11016568 TTGGATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTATTAAAT
Found at i:11018373 original size:97 final size:97
Alignment explanation
Indices: 11018207--11018401 Score: 300
Period size: 97 Copynumber: 2.0 Consensus size: 97
11018197 TACATTTGTG
*
11018207 ATCTAGTAGCTTTTTCAACATATTTATGTCTTTGACATCATTGTATATTATTTTTATAGTGCTAA
1 ATCTAGTAGCTTTTTCAACATATTTATGTCTTTGACATCATTGTATATTATCTTTATAGTGCTAA
11018272 TATTCTTCTCATTATATTATTTTATAGTCAAC
66 TATTCTTCTCATTATATTATTTTATAGTCAAC
* * * * * * *
11018304 ATCTATTAGCTTTTTTAATATATTTGTGTCTTTGACGTCATTGTATATTGTCTTTATGGTGCTAA
1 ATCTAGTAGCTTTTTCAACATATTTATGTCTTTGACATCATTGTATATTATCTTTATAGTGCTAA
* *
11018369 TATTCTTCTCATTATATTGTTTTATGGTCAAC
66 TATTCTTCTCATTATATTATTTTATAGTCAAC
11018401 A
1 A
11018402 GTATGTTTCT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (97 bp):
ATCTAGTAGCTTTTTCAACATATTTATGTCTTTGACATCATTGTATATTATCTTTATAGTGCTAA
TATTCTTCTCATTATATTATTTTATAGTCAAC
Found at i:11019258 original size:315 final size:313
Alignment explanation
Indices: 11018685--11019315 Score: 1093
Period size: 315 Copynumber: 2.0 Consensus size: 313
11018675 TTACATGTCA
11018685 ATCTTATTTTAAATTTCCTCGAGCCTCCTACATTAGAGTTTTTAATTACAATCTTGAAATCTTGA
1 ATCTTATTTTAAATTTCCTCGAGCCTCCTACATTAGAGTTTTTAATTACAATCTTGAAATCTTGA
** * *
11018750 TCTTTTTTTATATGTTTAGCCTATGAAATCAAAGTTTCTCTGCTACAAAACACCTATACAACATT
66 TCTTTTTCGACATGTTTAGCCTATGAAATCAAAGTTTCTCTGCTACAAAACACATATACAACATT
11018815 CTTAACTTATTAAATTTATATAAACTAAACATTCTACGCTTCTATATCTTTTAATAACACTAAGC
131 CTTAACTTATTAAATTTATATAAACTAAACATTCTACGCTTCTATATCTTTTAATAACACTAAGC
* * *
11018880 CTTAAAAACATAATCTTAACTTTGCCATAGTAAATGAATCAGTGCAATCATATATAATATCTAAA
196 CTTAAAAACATAATCTTAACTCTACCATAGTAAATGAATCAATGCAATCATATATAATATCTAAA
* *
11018945 TTATCTAATAATTGATCTCTCTCTCTATCAGTGTAGTCTTCAAATTGATCCACAT
261 TTATCTAATAATTGA--TCTCACTCTATCAGTGCAGTCTTCAAATTGATCCACAT
*
11019000 ATCTTATTTTAAATTTCCTCGAGCCTCTTACATTAGAGTTTTTAATTACAATCTTGAAATCTTGA
1 ATCTTATTTTAAATTTCCTCGAGCCTCCTACATTAGAGTTTTTAATTACAATCTTGAAATCTTGA
11019065 TCTTTTTCGACATGTTTAGCCTATGAAATCAAAGTTTCTCTGCTACAAAACACATATACAACATT
66 TCTTTTTCGACATGTTTAGCCTATGAAATCAAAGTTTCTCTGCTACAAAACACATATACAACATT
* *
11019130 TTTAA-TGTATTAAATTTATATAAACTAAACATTCTACGCTTCTATGTCTTTTAATAACACTAAG
131 CTTAACT-TATTAAATTTATATAAACTAAACATTCTACGCTTCTATATCTTTTAATAACACTAAG
* *
11019194 CCTTAAAAACATAATCTTAACTCTACCATAGTAAATGAATCAATGCAATCATATCTAGTATCTAA
195 CCTTAAAAACATAATCTTAACTCTACCATAGTAAATGAATCAATGCAATCATATATAATATCTAA
*
11019259 ATTATCTAATAATTGATCTCACTCTATCAGTGCAGTTTTCAAATTGATCCACAT
260 ATTATCTAATAATTGATCTCACTCTATCAGTGCAGTCTTCAAATTGATCCACAT
11019313 ATC
1 ATC
11019316 ATAATATGTT
Statistics
Matches: 300, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
313 38 0.13
314 1 0.00
315 261 0.87
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.39
Consensus pattern (313 bp):
ATCTTATTTTAAATTTCCTCGAGCCTCCTACATTAGAGTTTTTAATTACAATCTTGAAATCTTGA
TCTTTTTCGACATGTTTAGCCTATGAAATCAAAGTTTCTCTGCTACAAAACACATATACAACATT
CTTAACTTATTAAATTTATATAAACTAAACATTCTACGCTTCTATATCTTTTAATAACACTAAGC
CTTAAAAACATAATCTTAACTCTACCATAGTAAATGAATCAATGCAATCATATATAATATCTAAA
TTATCTAATAATTGATCTCACTCTATCAGTGCAGTCTTCAAATTGATCCACAT
Found at i:11022484 original size:20 final size:20
Alignment explanation
Indices: 11022434--11022485 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
11022424 ATTAACAATA
11022434 TTTATGTGGATATTAATTTTG
1 TTTATGT-GATATTAATTTTG
* **
11022455 TTGACCTGATATT-ATATTTG
1 TTTATGTGATATTAAT-TTTG
11022475 TTTATGTGATA
1 TTTATGTGATA
11022486 ATTTGCATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (20 bp):
TTTATGTGATATTAATTTTG
Found at i:11022784 original size:27 final size:23
Alignment explanation
Indices: 11022715--11022770 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
11022705 TTGTTTTTGG
*
11022715 ATTTTTT-AAAATT--AGATTTT
1 ATTTTTTAAAAATTCAATATTTT
11022735 ATTTTTTAAAAATTCAATATTTT
1 ATTTTTTAAAAATTCAATATTTT
11022758 GATTTTTTAAAAA
1 -ATTTTTTAAAAA
11022771 AATTTCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.23
21 6 0.19
23 6 0.19
24 12 0.39
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTTTTAAAAATTCAATATTTT
Found at i:11022800 original size:20 final size:19
Alignment explanation
Indices: 11022759--11022801 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11022749 CAATATTTTG
*
11022759 ATTTTTTAAAAAAATTTCA
1 ATTTTTTAAAAAAATTTAA
*
11022778 ATTTTTTTAAAAAATATTAA
1 ATTTTTTAAAAAAAT-TTAA
11022798 ATTT
1 ATTT
11022802 GAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTTTAAAAAAATTTAA
Found at i:11022826 original size:17 final size:17
Alignment explanation
Indices: 11022794--11022828 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11022784 TTAAAAAATA
11022794 TTAAATTTGAATTTTTT
1 TTAAATTTGAATTTTTT
11022811 TTAATATTTGAATTTTTT
1 TTAA-ATTTGAATTTTTT
11022829 AAAATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTAAATTTGAATTTTTT
Found at i:11022828 original size:16 final size:15
Alignment explanation
Indices: 11022794--11022847 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
11022784 TTAAAAAATA
11022794 TTAAATTTGAATTTTTT
1 TTAAATTTGAA--TTTT
11022811 TTAATATTTGAATTTT
1 TTAA-ATTTGAATTTT
**
11022827 TTAAAATTTTCATTTT
1 TT-AAATTTGAATTTT
11022843 TTAAA
1 TTAAA
11022848 AATTTTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 3 0.09
16 17 0.52
17 6 0.18
18 7 0.21
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (15 bp):
TTAAATTTGAATTTT
Found at i:11022848 original size:16 final size:16
Alignment explanation
Indices: 11022807--11022855 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
11022797 AATTTGAATT
* *
11022807 TTTTTTAATATTTGAA
1 TTTTTTAAAATTTTAA
*
11022823 TTTTTTAAAATTTTCA
1 TTTTTTAAAATTTTAA
11022839 TTTTTTAAAAATTTTAA
1 TTTTTT-AAAATTTTAA
11022856 CATTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 19 0.68
17 9 0.32
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTTTAAAATTTTAA
Found at i:11024201 original size:19 final size:19
Alignment explanation
Indices: 11024177--11024221 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
11024167 TATACTTGTT
11024177 CGCAGTCAGTTTCAGTAGA
1 CGCAGTCAGTTTCAGTAGA
11024196 CGCAGTCAGTTTCAGTAGA
1 CGCAGTCAGTTTCAGTAGA
11024215 CGCAGTC
1 CGCAGTC
11024222 GGTGGCTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (19 bp):
CGCAGTCAGTTTCAGTAGA
Found at i:11031895 original size:19 final size:20
Alignment explanation
Indices: 11031871--11031911 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11031861 GTAATTTCAT
11031871 ATAGTTA-AATATCAAAAAA
1 ATAGTTAGAATATCAAAAAA
* *
11031890 ATAGTTAGATTATTAAAAAA
1 ATAGTTAGAATATCAAAAAA
11031910 AT
1 AT
11031912 GTAATTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (20 bp):
ATAGTTAGAATATCAAAAAA
Found at i:11032999 original size:20 final size:20
Alignment explanation
Indices: 11032976--11033074 Score: 57
Period size: 20 Copynumber: 4.9 Consensus size: 20
11032966 CAATAATGCT
11032976 ATAATTACTATATTAATAAA
1 ATAATTACTATATTAATAAA
* *
11032996 ATAATATTCT-TGTTATATAAA
1 ATAAT-TACTATATTA-ATAAA
11033017 AT-ATTA-TAT-TTAAT-AA
1 ATAATTACTATATTAATAAA
*
11033033 ATAATATTAGATTATATTAAT-AA
1 AT-A-ATT--ACTATATTAATAAA
*
11033056 ATAATATATTATATTAATA
1 ATAAT-TACTATATTAATA
11033075 CTATTATATT
Statistics
Matches: 64, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
16 4 0.06
17 2 0.03
18 4 0.06
19 5 0.08
20 22 0.34
21 13 0.20
22 5 0.08
23 9 0.14
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATTACTATATTAATAAA
Found at i:11033051 original size:5 final size:5
Alignment explanation
Indices: 11033017--11033124 Score: 68
Period size: 5 Copynumber: 22.4 Consensus size: 5
11033007 GTTATATAAA
* * * * * *
11033017 ATATT ATATT -TAAT AAATA ATATT AGATT ATATT A-ATAA ATAAT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT
* *
11033066 ATATT A-A-T ACTATT ATATT AATATT AT-TA ATATT ATATT ATATA ATA-T
1 ATATT ATATT A-TATT ATATT -ATATT ATATT ATATT ATATT ATATT ATATT
11033114 -TATT ATATT AT
1 ATATT ATATT AT
11033125 TGATAACAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
3 4 0.05
4 10 0.13
5 55 0.71
6 8 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (5 bp):
ATATT
Found at i:11033064 original size:39 final size:40
Alignment explanation
Indices: 11033015--11033123 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 40
11033005 TTGTTATATA
11033015 AAATATTATATTTA-ATAAATAATATTAGATT-ATATTAAT
1 AAATATTATATTTATATAAATAATATTAGATTAATATT-AT
* * * *
11033054 AAATAATATA-TTATATTAATACTATTATATTAATATTAT
1 AAATATTATATTTATATAAATAATATTAGATTAATATTAT
* * *
11033093 TAATATTATA-TTATAT-AATATTATTATATTA
1 AAATATTATATTTATATAAATAATATTAGATTA
11033124 TTGATAACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
38 17 0.28
39 39 0.64
40 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (40 bp):
AAATATTATATTTATATAAATAATATTAGATTAATATTAT
Found at i:11033081 original size:14 final size:13
Alignment explanation
Indices: 11033008--11033123 Score: 87
Period size: 14 Copynumber: 8.6 Consensus size: 13
11032998 AATATTCTTG
*
11033008 TTATA-TAAAATA
1 TTATATTAATATA
*
11033020 TTATATTTAATAAA
1 TTATA-TTAATATA
*
11033034 TAATATTAGATTATA
1 TTATATTA-A-TATA
*
11033049 TTAATAAATAATATA
1 TT-AT-ATTAATATA
11033064 TTATATTAATACTA
1 TTATATTAATA-TA
11033078 TTATATTAATATTA
1 TTATATTAATA-TA
*
11033092 TTA-A-TATTATA
1 TTATATTAATATA
11033103 TTATA-TAATATTA
1 TTATATTAATA-TA
11033116 TTATATTA
1 TTATATTA
11033124 TTGATAACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
11 5 0.06
12 14 0.17
13 17 0.20
14 32 0.38
15 10 0.12
16 3 0.04
17 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (13 bp):
TTATATTAATATA
Found at i:11033089 original size:20 final size:19
Alignment explanation
Indices: 11033008--11033124 Score: 125
Period size: 20 Copynumber: 6.2 Consensus size: 19
11032998 AATATTCTTG
11033008 TTATA-TAA-AATATTATA
1 TTATATTAATAATATTATA
* *
11033025 TT-TAATAAATAATATTAGA
1 TTAT-ATTAATAATATTATA
*
11033044 TTATATTAATAAATAATATA
1 TTATATTAAT-AATATTATA
*
11033064 TTATATTAATACTATTATA
1 TTATATTAATAATATTATA
*
11033083 TTAATATTATTAATATTATA
1 TT-ATATTAATAATATTATA
*
11033103 TTATA-TAATATTATTATA
1 TTATATTAATAATATTATA
11033121 TTAT
1 TTAT
11033125 TGATAACAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.01
17 3 0.04
18 17 0.20
19 27 0.33
20 35 0.42
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
TTATATTAATAATATTATA
Found at i:11035092 original size:16 final size:17
Alignment explanation
Indices: 11035068--11035102 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11035058 AAGTTTGTCT
*
11035068 AATTAAAAGTTAAAAAA
1 AATTAAAAGATAAAAAA
11035085 AATT-AAAGATAAAAAA
1 AATTAAAAGATAAAAAA
11035101 AA
1 AA
11035103 ATCAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
AATTAAAAGATAAAAAA
Found at i:11035691 original size:21 final size:19
Alignment explanation
Indices: 11035665--11035709 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11035655 TTATTTAATA
11035665 AAAAAGCATAAAAAAAAAAGC
1 AAAAAGCA-AAAAAAAAAA-C
*
11035686 AAAAAGCAAAAATAAAAAC
1 AAAAAGCAAAAAAAAAAAC
11035705 AAAAA
1 AAAAA
11035710 AAGGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.80, C:0.09, G:0.07, T:0.04
Consensus pattern (19 bp):
AAAAAGCAAAAAAAAAAAC
Found at i:11035710 original size:21 final size:21
Alignment explanation
Indices: 11035664--11035719 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
11035654 TTTATTTAAT
11035664 AAAAAAGCATAAAA-AAAAAAG
1 AAAAAAGCA-AAAATAAAAAAG
*
11035685 CAAAAAGCAAAAATAAAAACA-
1 AAAAAAGCAAAAATAAAAA-AG
*
11035706 AAAAAAGGAAAAAT
1 AAAAAAGCAAAAAT
11035720 GAGTTCATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.13
21 25 0.83
22 1 0.03
ACGTcount: A:0.79, C:0.07, G:0.09, T:0.05
Consensus pattern (21 bp):
AAAAAAGCAAAAATAAAAAAG
Found at i:11036340 original size:12 final size:13
Alignment explanation
Indices: 11036323--11036377 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
11036313 AAAATATAAT
11036323 AAAATGAAAAAG-
1 AAAATGAAAAAGC
*
11036335 AAAATGTAAAAGC
1 AAAATGAAAAAGC
*
11036348 AAAA-GTAAAAGC
1 AAAATGAAAAAGC
* *
11036360 AAAAAGTAAAAAGT
1 AAAATG-AAAAAGC
11036374 AAAA
1 AAAA
11036378 AATAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 23 0.62
13 5 0.14
14 9 0.24
ACGTcount: A:0.71, C:0.04, G:0.15, T:0.11
Consensus pattern (13 bp):
AAAATGAAAAAGC
Found at i:11036351 original size:13 final size:13
Alignment explanation
Indices: 11036323--11036370 Score: 64
Period size: 12 Copynumber: 3.8 Consensus size: 13
11036313 AAAATATAAT
*
11036323 AAAATGAAAAAG-
1 AAAATGTAAAAGC
11036335 AAAATGTAAAAGC
1 AAAATGTAAAAGC
11036348 AAAA-GTAAAAGC
1 AAAATGTAAAAGC
*
11036360 AAAAAGTAAAA
1 AAAATGTAAAA
11036371 AGTAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.71, C:0.04, G:0.15, T:0.10
Consensus pattern (13 bp):
AAAATGTAAAAGC
Found at i:11036377 original size:14 final size:14
Alignment explanation
Indices: 11036329--11036385 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 14
11036319 TAATAAAATG
*
11036329 AAAAAG-AAAATGT
1 AAAAAGCAAAAAGT
11036342 -AAAAGC-AAAAGT
1 AAAAAGCAAAAAGT
11036354 -AAAAGCAAAAAGT
1 AAAAAGCAAAAAGT
* *
11036367 AAAAAGTAAAAAAT
1 AAAAAGCAAAAAGT
11036381 AAAAA
1 AAAAA
11036386 AAGTAAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 16 0.42
13 6 0.16
14 16 0.42
ACGTcount: A:0.74, C:0.04, G:0.12, T:0.11
Consensus pattern (14 bp):
AAAAAGCAAAAAGT
Found at i:11036394 original size:7 final size:7
Alignment explanation
Indices: 11036348--11036385 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
11036338 ATGTAAAAGC
11036348 AAAAGT-
1 AAAAGTA
*
11036354 AAAAGCA
1 AAAAGTA
11036361 AAAAGTA
1 AAAAGTA
11036368 AAAAGTA
1 AAAAGTA
*
11036375 AAAAATA
1 AAAAGTA
11036382 AAAA
1 AAAA
11036386 AAGTAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (7 bp):
AAAAGTA
Found at i:11036400 original size:16 final size:16
Alignment explanation
Indices: 11036367--11036405 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11036357 AGCAAAAAGT
*
11036367 AAAAAGTAAAAAATAA
1 AAAAAGTAAAAAACAA
*
11036383 AAAAAGTAAAAACCAA
1 AAAAAGTAAAAAACAA
11036399 AACAAAG
1 AA-AAAG
11036406 CCACCTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAGTAAAAAACAA
Done.