Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 26 of 33
Found at i:4292952 original size:20 final size:21
Alignment explanation
Indices: 4292900--4292953 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
4292890 TTTTTTATTT
*
4292900 AAATTTAATTATAAAAATATAT
1 AAATTTAA-TATAAAAATATAA
*
4292922 AATTATTAATATAAAAATA-AA
1 AAAT-TTAATATAAAAATATAA
4292943 AAATTTAATAT
1 AAATTTAATAT
4292954 TTTTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 13 0.46
23 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATTTAATATAAAAATATAA
Found at i:4294801 original size:3 final size:3
Alignment explanation
Indices: 4294793--4294825 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
4294783 CTAATCCCTT
4294793 TAA TAA TAA TAA TAA TAA TAA TAA TAGA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA
4294826 CTTAATTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4309047 original size:13 final size:13
Alignment explanation
Indices: 4309029--4309056 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4309019 AAGCATACAA
4309029 AAGGTTCAAAAAG
1 AAGGTTCAAAAAG
4309042 AAGGTTCAAAAAG
1 AAGGTTCAAAAAG
4309055 AA
1 AA
4309057 AAAAAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (13 bp):
AAGGTTCAAAAAG
Found at i:4309728 original size:2 final size:2
Alignment explanation
Indices: 4309711--4309762 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
4309701 GAAGAAGACG
* *
4309711 GA GA CA GA GA GC GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4309753 GA GA GA GA GA
1 GA GA GA GA GA
4309763 TCTTTGCAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.04, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4310086 original size:2 final size:2
Alignment explanation
Indices: 4310079--4310111 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4310069 ACTTTGTTGA
4310079 AT AT AT AT 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 AT AT AT AT A
4310112 AAAGGGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4311921 original size:5 final size:4
Alignment explanation
Indices: 4311895--4311928 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
4311885 GCCTCTGCAA
4311895 AAAT AAAT AAAT AAAT AAAT AAAAT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT
4311929 TGACAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:4316181 original size:4 final size:4
Alignment explanation
Indices: 4316172--4316202 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4316162 GAATTTCACT
*
4316172 TTTA TTTA TTTA TTTA CTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4316203 TTGGCCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4322290 original size:19 final size:19
Alignment explanation
Indices: 4322264--4322302 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
4322254 GTATTTATAT
4322264 ATATATATATATAGATATGTA
1 ATATATAT-TAT-GATATGTA
4322285 ATATATATTATGATATGT
1 ATATATATTATGATATGT
4322303 TGTACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
ATATATATTATGATATGTA
Found at i:4324625 original size:20 final size:21
Alignment explanation
Indices: 4324586--4324625 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4324576 AATTCCTCCT
4324586 CAGTCCTTTTTTCTGATGAAA
1 CAGTCCTTTTTTCTGATGAAA
*
4324607 CAGTCTTTTTTTCTG-TGAA
1 CAGTCCTTTTTTCTGATGAA
4324626 TATCTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (21 bp):
CAGTCCTTTTTTCTGATGAAA
Found at i:4329041 original size:11 final size:10
Alignment explanation
Indices: 4329025--4329116 Score: 58
Period size: 10 Copynumber: 9.8 Consensus size: 10
4329015 TTGATAGTTT
4329025 ATATATTCATA
1 ATATATT-ATA
4329036 ATATATTATA
1 ATATATTATA
*
4329046 TTATATTATA
1 ATATATTATA
4329056 ATTATATTA-A
1 A-TATATTATA
4329066 AT-TATT-T-
1 ATATATTATA
4329073 -TATATT-T-
1 ATATATTATA
* *
4329080 ATATGATTTTT
1 ATAT-ATTATA
4329091 ATATATTA-A
1 ATATATTATA
*
4329100 A-ATTTTATA
1 ATATATTATA
4329109 ATATATTA
1 ATATATTA
4329117 ATTTTTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
6 1 0.02
7 5 0.08
8 12 0.18
9 7 0.11
10 23 0.35
11 18 0.27
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (10 bp):
ATATATTATA
Found at i:4329047 original size:16 final size:16
Alignment explanation
Indices: 4329026--4329064 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4329016 TGATAGTTTA
4329026 TATATTCATAATAT-AT
1 TATATT-ATAATATAAT
*
4329042 TATATTATATTATAAT
1 TATATTATAATATAAT
4329058 TATATTA
1 TATATTA
4329065 AATTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATAATATAAT
Found at i:4329050 original size:21 final size:21
Alignment explanation
Indices: 4329026--4329083 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
4329016 TGATAGTTTA
*
4329026 TATATTCATAA-TATATTATAT
1 TATATT-ATAATTATATTAAAT
4329047 TATATTATAATTATATTAAAT
1 TATATTATAATTATATTAAAT
* *
4329068 TATTTTATATTTATAT
1 TATATTATAATTATAT
4329084 GATTTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATTATAATTATATTAAAT
Found at i:4329069 original size:16 final size:16
Alignment explanation
Indices: 4329040--4329070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4329030 TTCATAATAT
*
4329040 ATTATATTATATTATA
1 ATTATATTAAATTATA
4329056 ATTATATTAAATTAT
1 ATTATATTAAATTAT
4329071 TTTATATTTA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATATTAAATTATA
Found at i:4329104 original size:16 final size:16
Alignment explanation
Indices: 4329058--4329117 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
4329048 ATATTATAAT
*
4329058 TATATTAAATTATTTTA
1 TATATTAAAAT-TTTTA
*
4329075 TAT-TTATATGATTTTTA
1 TATATTA-A-AATTTTTA
4329092 TATATTAAAATTTTATAA
1 TATATTAAAATTTT-T-A
4329110 TATATTAA
1 TATATTAA
4329118 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 8 0.23
17 14 0.40
18 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATATTAAAATTTTTA
Found at i:4329121 original size:32 final size:33
Alignment explanation
Indices: 4329058--4329123 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
4329048 ATATTATAAT
* *
4329058 TATATTAAATTATTTTATATTTATATGATTTTTA
1 TATATTAAA-TATTTTATATATATATAATTTTTA
4329092 TATATTAAA-ATTTTATA-ATATATTAATTTTTA
1 TATATTAAATATTTTATATATATA-TAATTTTTA
4329124 AAAATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.14
32 16 0.55
34 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (33 bp):
TATATTAAATATTTTATATATATATAATTTTTA
Found at i:4329299 original size:2 final size:2
Alignment explanation
Indices: 4329292--4329325 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4329282 ACTAATATTA
4329292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4329326 GAGAAGGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4329480 original size:23 final size:23
Alignment explanation
Indices: 4329432--4329497 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 23
4329422 TAAAAAAAGG
**
4329432 GGAAAGAAGGAGAAAAAAAGGGAGA
1 GGAAA-AA-GAGAAAAAAAGACAGA
4329457 GG-AAAAGAGAAAAGAAAGACAGA
1 GGAAAAAGAGAAAA-AAAGACAGA
4329480 GGAAAAAGAGAGAAAAAA
1 GGAAAAAGAGA-AAAAAA
4329498 TATGAAAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
22 7 0.19
23 11 0.31
24 13 0.36
25 5 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GGAAAAAGAGAAAAAAAGACAGA
Found at i:4329680 original size:164 final size:163
Alignment explanation
Indices: 4329493--4329795 Score: 516
Period size: 164 Copynumber: 1.9 Consensus size: 163
4329483 AAAAGAGAGA
* *
4329493 AAAAATATGAAAACTTTATTCTTATATTTATTTTATATTTTATATATTTAAAATATTATTCTTTT
1 AAAAATATGAAAACTTTATTCTTATATTTATTTTATATTTTATATACTTAAAATATTATTATTTT
* * *
4329558 TCATATTTTATTATAATATTATATAAAATTTTAAATGTTTTTATTTTATTCTATTTTTATATATG
66 TAATATTTTATTATAAGATTATATAAAATTTTAAATGGTTTTATTTTATTCTATTTTTATATATG
4329623 TGCATATATATTATTATATTCATGTTATACAAG
131 TGCATATATATTATTATATTCATGTTATACAAG
* *
4329656 AAAAATATGAAAACTTTTATTCTTATATTTATTTTATTTTTTATATGCTTAAAATATTATTATTT
1 AAAAATATGAAAAC-TTTATTCTTATATTTATTTTATATTTTATATACTTAAAATATTATTATTT
* *
4329721 TTAATATTTTATTATAAGATTATATAAAATTTTATATGGTTTTATTTTATTGTATTTTTATATAT
65 TTAATATTTTATTATAAGATTATATAAAATTTTAAATGGTTTTATTTTATTCTATTTTTATATAT
4329786 GTGCATATAT
130 GTGCATATAT
4329796 TATTCATGTT
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
163 14 0.11
164 116 0.89
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.56
Consensus pattern (163 bp):
AAAAATATGAAAACTTTATTCTTATATTTATTTTATATTTTATATACTTAAAATATTATTATTTT
TAATATTTTATTATAAGATTATATAAAATTTTAAATGGTTTTATTTTATTCTATTTTTATATATG
TGCATATATATTATTATATTCATGTTATACAAG
Found at i:4329767 original size:82 final size:83
Alignment explanation
Indices: 4329514--4329787 Score: 267
Period size: 82 Copynumber: 3.3 Consensus size: 83
4329504 AACTTTATTC
* * *
4329514 TTATATTTATTTTATATTTTATATAT-TTAAAATATTATTCTTTTTCATATTTTATTATAATATT
1 TTAT-TTTATTTTAT-TTTTATATATGTTAAAATATTATTATTTTTAATATTTTATTATAAGATT
* *
4329578 ATATAAAATTTTAAATGTTT
64 ATATAAAATTTTATATGCTT
* ** * * * * * **
4329598 TTATTTTATTCTATTTTTATATATGTGCATATA-TATTA-TTATATTCATGTTA-TACAAGAAAA
1 TTATTTTATTTTATTTTTATATATGTTAAAATATTATTATTTTTAAT-ATTTTATTATAAG-ATT
4329660 ATATGAAAACTTTTAT-T-CTT
64 ATAT-AAAA-TTTTATATGCTT
*
4329680 ATA-TTTATTTTATTTTT-TATATGCTTAAAATATTATTATTTTTAATATTTTATTATAAGATTA
1 TTATTTTATTTTATTTTTATATATG-TTAAAATATTATTATTTTTAATATTTTATTATAAGATTA
*
4329743 TATAAAATTTTATATGGTT
65 TATAAAATTTTATATGCTT
*
4329762 TTATTTTATTGTATTTTTATATATGT
1 TTATTTTATTTTATTTTTATATATGT
4329788 GCATATATTA
Statistics
Matches: 148, Mismatches: 29, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
80 12 0.08
81 31 0.21
82 47 0.32
83 43 0.29
84 15 0.10
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (83 bp):
TTATTTTATTTTATTTTTATATATGTTAAAATATTATTATTTTTAATATTTTATTATAAGATTAT
ATAAAATTTTATATGCTT
Found at i:4329815 original size:82 final size:82
Alignment explanation
Indices: 4329514--4329799 Score: 255
Period size: 83 Copynumber: 3.5 Consensus size: 82
4329504 AACTTTATTC
* * * *
4329514 TTATATTTATTTTATATTTTATATAT-TTAAAATATTATTCTTTTTCATATTTTATTATAATATT
1 TTATATTTATTTTAT-TTTTATATATGTGAAAATATTATT-ATTTTAATATTTTATTATAAGATT
*
4329578 ATATAAAATTTTAAATGTT
64 ATATAAAATTTTATATGTT
* * * * * * * *
4329597 TT-TATTTTATTCTATTTTTATATATGTGCATATA-TATTATTATATTCATGTTA-TACAAGAAA
1 TTATA-TTTATTTTATTTTTATATATGTGAAAATATTATTATTTTAAT-ATTTTATTATAAG-AT
* * *
4329659 AATATGAAAACTTT-TAT-TC
63 TATAT-AAAATTTTATATGTT
*
4329678 TTATATTTATTTTATTTTT-TATATGCTTAAAATATTATTATTTTTAATATTTTATTATAAGATT
1 TTATATTTATTTTATTTTTATATATG-TGAAAATATTATTA-TTTTAATATTTTATTATAAGATT
4329742 ATATAAAATTTTATATGGTT
64 ATATAAAATTTTATAT-GTT
* * *
4329762 TTAT-TTTATTGTATTTTTATATATGTGCATATATTATT
1 TTATATTTATTTTATTTTTATATATGTGAAAATATTATT
4329800 CATGTTATCT
Statistics
Matches: 157, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
80 6 0.04
81 36 0.23
82 48 0.31
83 56 0.36
84 11 0.07
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (82 bp):
TTATATTTATTTTATTTTTATATATGTGAAAATATTATTATTTTAATATTTTATTATAAGATTAT
ATAAAATTTTATATGTT
Found at i:4331063 original size:14 final size:14
Alignment explanation
Indices: 4331044--4331090 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
4331034 GACATGATAT
4331044 AATAATATGAAAAA
1 AATAATATGAAAAA
*
4331058 AATAAT-TAAAATAAA
1 AATAATAT-GAA-AAA
4331073 ATATAATATGAAAAA
1 A-ATAATATGAAAAA
4331088 AAT
1 AAT
4331091 GATAATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.04
14 10 0.37
15 8 0.30
16 7 0.26
17 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (14 bp):
AATAATATGAAAAA
Found at i:4331206 original size:19 final size:18
Alignment explanation
Indices: 4331173--4331212 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4331163 AAGCATAATT
*
4331173 AATACATAAAAATATTTA
1 AATACATAAAAATATATA
*
4331191 AATACAATATAAATATATA
1 AATAC-ATAAAAATATATA
4331210 AAT
1 AAT
4331213 TATTCAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AATACATAAAAATATATA
Found at i:4331690 original size:8 final size:8
Alignment explanation
Indices: 4331677--4331713 Score: 60
Period size: 7 Copynumber: 4.9 Consensus size: 8
4331667 TTGGGTAAAT
4331677 ATAAAAAA
1 ATAAAAAA
4331685 AT-AAAAA
1 ATAAAAAA
4331692 AT-AAAAA
1 ATAAAAAA
4331699 ATAAAAAA
1 ATAAAAAA
4331707 ATAAAAA
1 ATAAAAA
4331714 TTACATTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:4331697 original size:14 final size:15
Alignment explanation
Indices: 4331680--4331713 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4331670 GGTAAATATA
4331680 AAAAAAT-AAAAAAT
1 AAAAAATAAAAAAAT
4331694 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
4331709 AAAAA
1 AAAAA
4331714 TTACATTTAC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:4331769 original size:30 final size:28
Alignment explanation
Indices: 4331708--4331781 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
4331698 AATAAAAAAA
* *
4331708 TAAAAATTACATTTACTTGTCTAACTTT
1 TAAAAATTACATTTATTTATCTAACTTT
* *
4331736 TAAAAATTATATTTATTTATCTATGAGTTT
1 TAAAAATTACATTTATTTATCTA--ACTTT
*
4331766 TAAAAAATACATTTAT
1 TAAAAATTACATTTAT
4331782 CATCTATAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 20 0.53
30 18 0.47
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (28 bp):
TAAAAATTACATTTATTTATCTAACTTT
Found at i:4331787 original size:29 final size:30
Alignment explanation
Indices: 4331708--4331803 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
4331698 AATAAAAAAA
* *
4331708 TAAAAATTACATTTACTT-GTCTA-A-CTTT
1 TAAAAAATACATTTA-TTCATCTATAGCTTT
* * *
4331736 TAAAAATTATATTTATTTATCTATGAG-TTT
1 TAAAAAATACATTTATTCATCTAT-AGCTTT
4331766 TAAAAAATACATTTA-TCATCTATAGCTTT
1 TAAAAAATACATTTATTCATCTATAGCTTT
4331795 TCAAAAAAT
1 T-AAAAAAT
4331804 TTTATTATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.04
28 20 0.35
29 11 0.19
30 24 0.42
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (30 bp):
TAAAAAATACATTTATTCATCTATAGCTTT
Found at i:4331801 original size:30 final size:31
Alignment explanation
Indices: 4331732--4331803 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
4331722 ACTTGTCTAA
* * *
4331732 CTTTTAAAAATTATATTTATTTATCTATGAG
1 CTTTTAAAAAATACATTTATTCATCTATGAG
4331763 -TTTTAAAAAATACATTTA-TCATCTAT-AG
1 CTTTTAAAAAATACATTTATTCATCTATGAG
4331791 CTTTTCAAAAAAT
1 CTTTT-AAAAAAT
4331804 TTTATTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.06
29 11 0.31
30 23 0.64
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (31 bp):
CTTTTAAAAAATACATTTATTCATCTATGAG
Found at i:4333094 original size:59 final size:59
Alignment explanation
Indices: 4332979--4333090 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
4332969 AGAGGTTGAA
* * * *
4332979 AATGATAAATATATTTTTTAAAGTTAATAAATAAAAATAAAGCATCCATAAAAATTACG
1 AATGATAAATATAATTTTTAAAATTAATAAATAAAAATAAAACATCAATAAAAATTACG
* * *
4333038 AATGATAAATATAATTTTTACAAATTAA-AAAT-TAAATAAAATATTAATAAAAA
1 AATGATAAATATAATTTTTA-AAATTAATAAATAAAAATAAAACATCAATAAAAA
4333091 ATTATAAATC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 16 0.36
59 23 0.51
60 6 0.13
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (59 bp):
AATGATAAATATAATTTTTAAAATTAATAAATAAAAATAAAACATCAATAAAAATTACG
Found at i:4335872 original size:12 final size:12
Alignment explanation
Indices: 4335857--4335894 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4335847 AAATCTATAA
4335857 TAATAATAATTT
1 TAATAATAATTT
*
4335869 TAATAATGATTT
1 TAATAATAATTT
*
4335881 TAA-AAAAATTT
1 TAATAATAATTT
4335892 TAA
1 TAA
4335895 AATTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:4340210 original size:11 final size:11
Alignment explanation
Indices: 4340194--4340223 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4340184 ATCTCTAATC
4340194 TCTTTTCTTTT
1 TCTTTTCTTTT
*
4340205 TCTTTTTTTTT
1 TCTTTTCTTTT
4340216 TCTTTTCT
1 TCTTTTCT
4340224 CAGTGGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:4341752 original size:42 final size:42
Alignment explanation
Indices: 4341700--4341780 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
4341690 AAGTGTTCTG
*
4341700 CAGAATTCATTTGTTTATCCTGAAATCTTGAATAATTGTCTA
1 CAGAATTCATTTGTTTATCCTGAAATCTTCAATAATTGTCTA
* *
4341742 CAGATTTCATTTGTTTTTCCTGAAATCTTCAATAATTGT
1 CAGAATTCATTTGTTTATCCTGAAATCTTCAATAATTGT
4341781 TCTCTTTCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (42 bp):
CAGAATTCATTTGTTTATCCTGAAATCTTCAATAATTGTCTA
Found at i:4343696 original size:20 final size:20
Alignment explanation
Indices: 4343671--4343752 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
4343661 TGGTATAAAA
4343671 TTATAAATGATATCAAAATT
1 TTATAAATGATATCAAAATT
* *
4343691 TTATAAATGTTATTAAAATT
1 TTATAAATGATATCAAAATT
* * *
4343711 ATATTAAA-CATTATAAAAATT
1 TTA-TAAATGA-TATCAAAATT
4343732 ATTATAAATG-TCATCAAAATT
1 -TTATAAATGAT-ATCAAAATT
4343753 ATATTAAACT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
20 21 0.44
21 25 0.52
22 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (20 bp):
TTATAAATGATATCAAAATT
Found at i:4343724 original size:21 final size:21
Alignment explanation
Indices: 4343681--4343775 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
4343671 TTATAAATGA
* **
4343681 TATCAAAATTTTA-TAAATGT
1 TATCAAAATTATATTAAACAT
*
4343701 TATTAAAATTATATTAAACAT
1 TATCAAAATTATATTAAACAT
* **
4343722 TATAAAAATTAT-TATAAATGT
1 TATCAAAATTATAT-TAAACAT
* *
4343743 CATCAAAATTATATTAAACTT
1 TATCAAAATTATATTAAACAT
4343764 TATCAAAATTAT
1 TATCAAAATTAT
4343776 TTTTAGTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
20 12 0.20
21 47 0.78
22 1 0.02
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (21 bp):
TATCAAAATTATATTAAACAT
Found at i:4343742 original size:42 final size:42
Alignment explanation
Indices: 4343685--4343776 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
4343675 AAATGATATC
* *
4343685 AAAATT-TTATAAATGTTATTAAAATTATATTAAACATTATA
1 AAAATTATTATAAATGTCATCAAAATTATATTAAACATTATA
* *
4343726 AAAATTATTATAAATGTCATCAAAATTATATTAAACTTTATC
1 AAAATTATTATAAATGTCATCAAAATTATATTAAACATTATA
4343768 AAAATTATT
1 AAAATTATT
4343777 TTTAGTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 6 0.13
42 40 0.87
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (42 bp):
AAAATTATTATAAATGTCATCAAAATTATATTAAACATTATA
Found at i:4346991 original size:88 final size:87
Alignment explanation
Indices: 4346840--4347009 Score: 211
Period size: 88 Copynumber: 1.9 Consensus size: 87
4346830 CTATAAATCA
** *
4346840 AATAAATTTTACAATCGATTTTAATAAACACGTGTAATTTTAAGAATCACATATAAATGAATGAA
1 AATAAATAATACAATCGATTTTAAT-AACACGTGTAATTTTAAGAATCACATATAAATAAATGAA
*
4346905 GACAACAATTTGTATTTGGATCT
65 GACAACAATTTATATTTGGATCT
*
4346928 AATAAATAATACAATCGATCTTTACAT-ACACGTGTAATTTTAAGAA-CTACGTA-AGAATAAAT
1 AATAAATAATACAATCGAT-TTTA-ATAACACGTGTAATTTTAAGAATC-ACATATA-AATAAAT
* *
4346990 GAAGATAATAATTTATATTT
62 GAAGACAACAATTTATATTT
4347010 AAATTTTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
87 2 0.03
88 63 0.89
89 4 0.06
90 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (87 bp):
AATAAATAATACAATCGATTTTAATAACACGTGTAATTTTAAGAATCACATATAAATAAATGAAG
ACAACAATTTATATTTGGATCT
Found at i:4347021 original size:88 final size:87
Alignment explanation
Indices: 4346833--4347022 Score: 206
Period size: 88 Copynumber: 2.2 Consensus size: 87
4346823 TCAAACCCTA
* **
4346833 TAAATCAAATAAATTTTACAATCGATTTTAATAAACACGTGTAATTTTAAGAATCACATATAAAT
1 TAAATCTAATAAATAATACAATCGATTTTAAT-AACACGTGTAATTTTAAGAATCACATATAAAT
* *
4346898 GAATGAAGACAACAATTTGTATT
65 AAATGAAGACAACAATTTATATT
** *
4346921 TGGATCTAATAAATAATACAATCGATCTTTACAT-ACACGTGTAATTTTAAGAA-CTACGTA-AG
1 TAAATCTAATAAATAATACAATCGAT-TTTA-ATAACACGTGTAATTTTAAGAATC-ACATATA-
* *
4346983 AATAAATGAAGATAATAATTTATATT
62 AATAAATGAAGACAACAATTTATATT
* *
4347009 TAAATTTTATAAAT
1 TAAATCTAATAAAT
4347023 TAAATAAATT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
87 2 0.02
88 76 0.90
89 4 0.05
90 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.35
Consensus pattern (87 bp):
TAAATCTAATAAATAATACAATCGATTTTAATAACACGTGTAATTTTAAGAATCACATATAAATA
AATGAAGACAACAATTTATATT
Found at i:4347431 original size:7 final size:7
Alignment explanation
Indices: 4347421--4347455 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
4347411 AATTTTTAAT
4347421 AATTTTA
1 AATTTTA
4347428 AATTTTA
1 AATTTTA
4347435 AATTTTA
1 AATTTTA
4347442 AATATTTA
1 AAT-TTTA
4347450 CAATTT
1 -AATTT
4347456 ATTTTTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 17 0.65
8 6 0.23
9 3 0.12
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTTA
Found at i:4347984 original size:3 final size:3
Alignment explanation
Indices: 4347976--4348013 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4347966 CCCAAGTTCT
4347976 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4348014 TCATGTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4350262 original size:17 final size:19
Alignment explanation
Indices: 4350240--4350285 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
4350230 TAAGCTCTTC
4350240 TAAAAAATATTAA-A-AAT
1 TAAAAAATATTAATAGAAT
4350257 TAAAAAA-ATTAATAGAAT
1 TAAAAAATATTAATAGAAT
*
4350275 AAAAAAATATT
1 TAAAAAATATT
4350286 TGTCAATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 8 0.32
18 9 0.36
19 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAAATATTAATAGAAT
Found at i:4352435 original size:129 final size:131
Alignment explanation
Indices: 4352258--4352519 Score: 483
Period size: 130 Copynumber: 2.0 Consensus size: 131
4352248 CCAAAAAAAA
*
4352258 TTCAGACAAACAATATGACAACTGAAGAAATTGAACAAAAATTAAGCAAATTAAACCCTTATTTT
1 TTCAGACAAACAATATGACAACTGAAGAAATTGAACAAAAATTAAGCAAATTAAACCATTATTTT
4352323 CTTCTTAGGAATCTGCC-ATACCTCAAAGATTTCAACTTCAATGGTCAATTGAAATTATTCATTA
66 CTTCTTAGGAATCTGCCAATACCTCAAAGATTTCAACTTCAATGGTCAATTGAAATTATTCATTA
4352387 T
131 T
4352388 TTCAGACAAACAATATGACAA-TGAAGAAATTGAACAAAAATTAAGCAAATTAAACCATTATTTT
1 TTCAGACAAACAATATGACAACTGAAGAAATTGAACAAAAATTAAGCAAATTAAACCATTATTTT
* *
4352452 CTTCTTAGGAATCTGCCAATACCTTAAAGATTTCAACTTTAATGGTCAATTGAAATTATTCATTA
66 CTTCTTAGGAATCTGCCAATACCTCAAAGATTTCAACTTCAATGGTCAATTGAAATTATTCATTA
4352517 T
131 T
4352518 TT
1 TT
4352520 ATTTCTAATA
Statistics
Matches: 128, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
129 59 0.46
130 69 0.54
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (131 bp):
TTCAGACAAACAATATGACAACTGAAGAAATTGAACAAAAATTAAGCAAATTAAACCATTATTTT
CTTCTTAGGAATCTGCCAATACCTCAAAGATTTCAACTTCAATGGTCAATTGAAATTATTCATTA
T
Found at i:4354089 original size:9 final size:9
Alignment explanation
Indices: 4354075--4354114 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
4354065 TATAAAATAA
4354075 TTTTATTAT
1 TTTTATTAT
4354084 TTTTA-TAT
1 TTTTATTAT
*
4354092 TTTTA-AAT
1 TTTTATTAT
4354100 TTTTATTAT
1 TTTTATTAT
4354109 TTTTAT
1 TTTTAT
4354115 GCATCTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTATTAT
Found at i:4354101 original size:16 final size:17
Alignment explanation
Indices: 4354082--4354113 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4354072 TAATTTTATT
4354082 ATTTTTA-TATTTTTAA
1 ATTTTTATTATTTTTAA
4354098 ATTTTTATTATTTTTA
1 ATTTTTATTATTTTTA
4354114 TGCATCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTATTATTTTTAA
Found at i:4354176 original size:22 final size:20
Alignment explanation
Indices: 4354151--4354202 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
4354141 ACCACAACGC
4354151 TATTTTTTTTAATAAAATTAAA
1 TATTTTTTTT--TAAAATTAAA
* *
4354173 TATTTATAATTTTAAAATTATA
1 TATTT-T-TTTTTAAAATTAAA
4354195 TATTTTTT
1 TATTTTTT
4354203 ATTACACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 19 0.76
23 1 0.04
24 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTTTTTAAAATTAAA
Found at i:4359743 original size:15 final size:15
Alignment explanation
Indices: 4359706--4359747 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
4359696 AAATTATAAT
*
4359706 ATATATAAGATATTA
1 ATATATATGATATTA
* *
4359721 GTATATATGATTTTA
1 ATATATATGATATTA
4359736 ATATATAT-ATAT
1 ATATATATGATAT
4359748 ATATCTAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
ATATATATGATATTA
Found at i:4362859 original size:16 final size:16
Alignment explanation
Indices: 4362836--4362881 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
4362826 TTTAAAATTT
4362836 AATAATTTAAATTTAA
1 AATAATTTAAATTTAA
*
4362852 AATTATTTAAATTTAA
1 AATAATTTAAATTTAA
4362868 AATAATTTAAATTT
1 AATAATTTAAATTT
4362882 TTTTAACTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:4363575 original size:2 final size:2
Alignment explanation
Indices: 4363568--4363595 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4363558 CATCATCATC
4363568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4363596 GCACATATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4364746 original size:135 final size:135
Alignment explanation
Indices: 4364592--4364859 Score: 405
Period size: 135 Copynumber: 2.0 Consensus size: 135
4364582 GAGAATTTAA
* * *
4364592 AAAAATCAAAAATCAAAATTTTGTAATAATTTATACAAGTTAATATTAATT-GACATAAATTGAT
1 AAAAATCAAAAATCAAAATTTTATAATAATTTATACAAGTTAATATTAATTAG-CATAAACTAAT
* * *
4364656 ACAATTAATTAATATAAAAATGAAAACAATACAATAC-TAATAATGTTTTATTTTACCTTAAAAC
65 AAAATTAATTAATATAAAAATAAAAACAATACAAT-CTTAAAAATGTTTTATTTTACCTTAAAAC
4364720 GATATTT
129 GATATTT
* * *
4364727 AAAAATCAAAAATTAAAATTTTATAATAATTTATACAAGTTAATATTTATTAGTATAAACTAATA
1 AAAAATCAAAAATCAAAATTTTATAATAATTTATACAAGTTAATATTAATTAGCATAAACTAATA
* *
4364792 AAATTAATTAATATAAAAATAAAAATAATACAATCTTAAAAATGTTTTATTTTACCTTAAAATGA
66 AAATTAATTAATATAAAAATAAAAACAATACAATCTTAAAAATGTTTTATTTTACCTTAAAACGA
4364857 TAT
131 TAT
4364860 ATACTAATCG
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
134 1 0.01
135 118 0.98
136 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (135 bp):
AAAAATCAAAAATCAAAATTTTATAATAATTTATACAAGTTAATATTAATTAGCATAAACTAATA
AAATTAATTAATATAAAAATAAAAACAATACAATCTTAAAAATGTTTTATTTTACCTTAAAACGA
TATTT
Found at i:4365307 original size:17 final size:17
Alignment explanation
Indices: 4365270--4365307 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4365260 GAGGGGATAT
* *
4365270 TATTTTTATATTATTTT
1 TATTTTTATATTAATTA
4365287 TATTTTTATATTAATTA
1 TATTTTTATATTAATTA
4365304 TATT
1 TATT
4365308 AATTTATACT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTATATTAATTA
Found at i:4365619 original size:2 final size:2
Alignment explanation
Indices: 4365612--4365691 Score: 74
Period size: 2 Copynumber: 41.0 Consensus size: 2
4365602 ACATGCAAAC
* * * *
4365612 AT AT AT AT AT TT AT AT AT TT AA AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
4365654 AT A- AT AT AA AT AT AT TT AC AT GT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4365692 TTTATTGAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4365676 original size:25 final size:23
Alignment explanation
Indices: 4365638--4365693 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
4365628 ATTTAAATAT
* *
4365638 ATATATATATATGTATATAATATAA
1 ATATATTTACATGTATAT-ATA-AA
*
4365663 ATATATTTACATGTATATATAAT
1 ATATATTTACATGTATATATAAA
4365686 ATATATTT
1 ATATATTT
4365694 TATTGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 3 0.11
25 16 0.57
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
ATATATTTACATGTATATATAAA
Found at i:4366144 original size:30 final size:30
Alignment explanation
Indices: 4366103--4366173 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
4366093 ACATCAATCC
* ** *
4366103 AAATAATTTTTTAA-TTGTTAATTTCTATTT
1 AAATAAATTTTTAACTT-TTAATTAATATCT
4366133 AAATAAATTTTTAACTTTTAATTAATATCT
1 AAATAAATTTTTAACTTTTAATTAATATCT
4366163 AAATAAATTTT
1 AAATAAATTTT
4366174 AATATAAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (30 bp):
AAATAAATTTTTAACTTTTAATTAATATCT
Found at i:4366742 original size:2 final size:2
Alignment explanation
Indices: 4366735--4366768 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4366725 TCATGTTTGA
4366735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4366769 TACTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4367808 original size:13 final size:13
Alignment explanation
Indices: 4367792--4367818 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4367782 AATCTTAATG
4367792 ATTAAAATTTAAA
1 ATTAAAATTTAAA
4367805 ATTAAAATTTAAA
1 ATTAAAATTTAAA
4367818 A
1 A
4367819 GTTTCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTAAAATTTAAA
Found at i:4368510 original size:24 final size:20
Alignment explanation
Indices: 4368483--4368537 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
4368473 AATTAACAAT
4368483 AATTTAAATTTATAAATTTAAATA
1 AATTTAAATTT-TAAA--TAAA-A
4368507 AATTT-AATTTTAAATAAAA
1 AATTTAAATTTTAAATAAAA
*
4368526 AATTAAAATTTT
1 AATTTAAATTTT
4368538 TCATATAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 5 0.17
20 10 0.34
22 4 0.14
23 5 0.17
24 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAAATTTTAAATAAAA
Found at i:4369043 original size:23 final size:23
Alignment explanation
Indices: 4369017--4369106 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
4369007 TTATTAGTGA
4369017 ATTTTTTAATTATATATTATATT
1 ATTTTTTAATTATATATTATATT
* *
4369040 ATTTATTT-TTTAAATATT-TATT
1 ATTT-TTTAATTATATATTATATT
* * *
4369062 AAATTTTTTAATAATATA-AATATA
1 --ATTTTTTAATTATATATTATATT
*
4369086 ATTATTTTAATTTTAT-TTATA
1 ATT-TTTTAATTATATATTATA
4369107 AAGTTAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
22 7 0.14
23 28 0.56
24 15 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTTAATTATATATTATATT
Found at i:4369061 original size:27 final size:27
Alignment explanation
Indices: 4369017--4369071 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4369007 TTATTAGTGA
* *
4369017 ATTTTTTAATTATATATTATATTATTT
1 ATTTTTTAAATATATATTAAATTATTT
* *
4369044 ATTTTTTAAATATTTATTAAATTTTTT
1 ATTTTTTAAATATATATTAAATTATTT
4369071 A
1 A
4369072 ATAATATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTTTAAATATATATTAAATTATTT
Found at i:4370486 original size:21 final size:21
Alignment explanation
Indices: 4370460--4370500 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4370450 ATAAAATATA
4370460 ATAATAAAAAT-TTATTTAAAT
1 ATAATAAAAATATT-TTTAAAT
4370481 ATAATAAAAATATTTTTAAA
1 ATAATAAAAATATTTTTAAA
4370501 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATAAAAATATTTTTAAAT
Found at i:4377415 original size:16 final size:16
Alignment explanation
Indices: 4377391--4377422 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4377381 GGGTCGAATT
*
4377391 ATATTTAAATAAAAAA
1 ATATATAAATAAAAAA
4377407 ATATATAAATAAAAAA
1 ATATATAAATAAAAAA
4377423 GTGTTTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATATATAAATAAAAAA
Found at i:4380709 original size:23 final size:23
Alignment explanation
Indices: 4380642--4380707 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
4380632 AATTGTTTTA
*
4380642 TATAA-TTATCAATTAAATAATAAT
1 TATAATTTAT-AATTAAAT-TTAAT
*
4380666 TA-ATATTTTTAATTAAATTTAAT
1 TATA-ATTTATAATTAAATTTAAT
4380689 TATAATTTATAA-TAAATTT
1 TATAATTTATAATTAAATTT
4380708 TATATTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 7 0.19
23 14 0.39
24 12 0.33
25 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATAATTTATAATTAAATTTAAT
Found at i:4380721 original size:10 final size:10
Alignment explanation
Indices: 4380708--4380739 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
4380698 TAATAAATTT
4380708 TATATTTTAA
1 TATATTTTAA
4380718 TATATTTTAA
1 TATATTTTAA
4380728 TATATTTTAA
1 TATATTTTAA
4380738 TA
1 TA
4380740 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATATTTTAA
Found at i:4382972 original size:23 final size:23
Alignment explanation
Indices: 4382946--4382995 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4382936 TTAAAATATT
4382946 TTTA-TTATTAAATTAAAATAA-AA
1 TTTATTTATTAAA-T-AAATAATAA
*
4382969 TTTATTTATTTAATAAATAATAA
1 TTTATTTATTAAATAAATAATAA
4382992 TTTA
1 TTTA
4382996 AATTGAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 11 0.46
24 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTATTTATTAAATAAATAATAA
Found at i:4386339 original size:20 final size:20
Alignment explanation
Indices: 4386297--4386339 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4386287 TTTTTTGATT
**
4386297 TTATAAATTTATAAGTTTTA
1 TTATAAATTTATAAGTTAAA
4386317 TTATAAATTTACTAA-TTAAA
1 TTATAAATTTA-TAAGTTAAA
4386337 TTA
1 TTA
4386340 GTGTTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATAAATTTATAAGTTAAA
Found at i:4386635 original size:22 final size:22
Alignment explanation
Indices: 4386591--4386635 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4386581 ATCTATTAAT
* * * *
4386591 ATTTATATATTTATTTAATTAA
1 ATTTAAATATTAATTCAAATAA
4386613 ATTTAAATATTAATTCAAATAA
1 ATTTAAATATTAATTCAAATAA
4386635 A
1 A
4386636 ATTGATTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTAAATATTAATTCAAATAA
Found at i:4387613 original size:14 final size:14
Alignment explanation
Indices: 4387596--4387645 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
4387586 TTATATCATT
4387596 TTTTTTAAAATTTA
1 TTTTTTAAAATTTA
**
4387610 TTTTTTTAAAAAATA
1 -TTTTTTAAAATTTA
4387625 TTTTTTAAAATTTA
1 TTTTTTAAAATTTA
*
4387639 ATTTTTA
1 TTTTTTA
4387646 TTAGATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTAAAATTTA
Found at i:4387615 original size:15 final size:15
Alignment explanation
Indices: 4387595--4387644 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
4387585 TTTATATCAT
4387595 TTTTTTTAAAATTTA
1 TTTTTTTAAAATTTA
**
4387610 TTTTTTTAAAAAATA
1 TTTTTTTAAAATTTA
4387625 -TTTTTTAAAATTTAA
1 TTTTTTTAAAATTT-A
4387640 TTTTT
1 TTTTT
4387645 ATTAGATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 11 0.38
15 14 0.48
16 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTTTAAAATTTA
Found at i:4387701 original size:14 final size:13
Alignment explanation
Indices: 4387657--4387708 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
4387647 TAGATTTAAA
*
4387657 AATATAAATAATTT
1 AATATTAAT-ATTT
*
4387671 AAT-TTAATTTTT
1 AATATTAATATTT
4387683 AATATTAATATTAT
1 AATATTAATATT-T
4387697 AATATTACATAT
1 AATATTA-ATAT
4387709 ATTTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.19
13 11 0.34
14 11 0.34
15 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTAATATTT
Found at i:4390065 original size:2 final size:2
Alignment explanation
Indices: 4390058--4390084 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4390048 TTTTCATTTC
4390058 TA 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 TA T
4390085 TTGTATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4392054 original size:18 final size:17
Alignment explanation
Indices: 4392026--4392102 Score: 72
Period size: 17 Copynumber: 4.6 Consensus size: 17
4392016 TAATTAAAAT
4392026 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
4392043 ATTTTAATATTT-TA-ATA
1 ATTTT-ATATTTATATA-A
4392060 ATTTT-TA-TTATATAA
1 ATTTTATATTTATATAA
* * *
4392075 AATTTAAATATATATAA
1 ATTTTATATTTATATAA
*
4392092 ATATTATATTT
1 ATTTTATATTT
4392103 TAATTATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.04
15 9 0.19
16 3 0.06
17 27 0.57
18 6 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:4392128 original size:48 final size:49
Alignment explanation
Indices: 4392036--4392128 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
4392026 ATTTTATATT
* *
4392036 TATATAAATTTTAATATTTTAATAATTTTTATTATATAAAATTTAAATA
1 TATATAAATATTAATATTTTAATAATTTTTATTACATAAAATTTAAATA
* *
4392085 TATATAAATATT-ATATTTTAATTA-TTTTATTTACATAATATTTA
1 TATATAAATATTAATATTTTAATAATTTTTA-TTACATAAAATTTA
4392129 TAAAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 5 0.13
48 23 0.59
49 11 0.28
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (49 bp):
TATATAAATATTAATATTTTAATAATTTTTATTACATAAAATTTAAATA
Found at i:4392156 original size:40 final size:40
Alignment explanation
Indices: 4392081--4392157 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
4392071 ATAAAATTTA
* ***
4392081 AATATATATAAATATTATATTTTAATTATTTTATTTACAT
1 AATATATATAAATATTATATTTAAATTACCATATTTACAT
*
4392121 AATATTTATAAA-ATTATATTTAATATTACCATATTTA
1 AATATATATAAATATTATATTTAA-ATTACCATATTTA
4392158 TTTCGAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 10 0.32
40 21 0.68
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (40 bp):
AATATATATAAATATTATATTTAAATTACCATATTTACAT
Found at i:4394759 original size:2 final size:2
Alignment explanation
Indices: 4394754--4394784 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4394744 ACCAAAAAAT
4394754 TA TA TA 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 TA TA TA T
4394785 TATTCTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4395502 original size:13 final size:14
Alignment explanation
Indices: 4395484--4395521 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
4395474 GAAGAAATTT
4395484 ATAATTAT-TTTAA
1 ATAATTATATTTAA
*
4395497 ATAATTATATTTTA
1 ATAATTATATTTAA
4395511 A-AATTATATTT
1 ATAATTATATTT
4395522 TTCAAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATAATTATATTTAA
Found at i:4400966 original size:23 final size:24
Alignment explanation
Indices: 4400938--4401012 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 24
4400928 AAATAAAATT
4400938 TTTTATTTTTTATTTTAAATAT-A
1 TTTTATTTTTTATTTTAAATATAA
** * *
4400961 TTTTATAATTAAATTTAAATATAA
1 TTTTATTTTTTATTTTAAATATAA
** * *
4400985 AATTATTTTTTA-TTAAAAAATAA
1 TTTTATTTTTTATTTTAAATATAA
4401008 TTTTA
1 TTTTA
4401013 AATCAAATTC
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
23 30 0.79
24 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATTTTTTATTTTAAATATAA
Found at i:4405647 original size:2 final size:2
Alignment explanation
Indices: 4405640--4405677 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4405630 TACGTATCTT
4405640 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4405678 CGTGTATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4411143 original size:2 final size:2
Alignment explanation
Indices: 4411136--4411167 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4411126 GACAACAAGT
4411136 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4411168 AGGAAGAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4412290 original size:6 final size:6
Alignment explanation
Indices: 4412279--4412304 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4412269 CTTATTACTT
4412279 CACAAG CACAAG CACAAG CACAAG CA
1 CACAAG CACAAG CACAAG CACAAG CA
4412305 AGAAATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.35, G:0.15, T:0.00
Consensus pattern (6 bp):
CACAAG
Found at i:4413255 original size:2 final size:2
Alignment explanation
Indices: 4413250--4413290 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4413240 AAGAAAAAGC
4413250 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
4413291 ACAATGTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4414991 original size:24 final size:26
Alignment explanation
Indices: 4414943--4415037 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 26
4414933 AATTTTGTCC
4414943 TATATAAATATATAATAATAAAAAATAA
1 TATA-AAATATATAATAAT-AAAAATAA
*
4414971 T-TAAAATATATTATAAT-AAAATAA
1 TATAAAATATATAATAATAAAAATAA
* *
4414995 TATAAATTGATATAAATATTAATAAATAA
1 TATAAAAT-ATAT-AATAATAA-AAATAA
*
4415024 -A-AAATTATATAATA
1 TATAAAATATATAATA
4415038 TAATTATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
24 8 0.14
25 9 0.16
26 21 0.36
27 11 0.19
28 3 0.05
29 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (26 bp):
TATAAAATATATAATAATAAAAATAA
Found at i:4415046 original size:31 final size:32
Alignment explanation
Indices: 4414944--4415070 Score: 117
Period size: 31 Copynumber: 4.1 Consensus size: 32
4414934 ATTTTGTCCT
4414944 ATATAAATATATAAT-AATAAAAAATA-AT-TA
1 ATATAAATAT-TAATAAATAAAAAATATATATA
* * *
4414974 A-A-ATATATT-AT-AATAAAATAATATAAATTG
1 ATATAAATATTAATAAATAAAA-AATATATA-TA
4415004 ATATAAATATTAATAAATAAAAAAT-TATATA
1 ATATAAATATTAATAAATAAAAAATATATATA
* * *
4415035 ATATAATTATTAATATATCAAAAATATATATA
1 ATATAAATATTAATAAATAAAAAATATATATA
4415067 ATAT
1 ATAT
4415071 TTTAAATATA
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
26 9 0.11
27 5 0.06
28 6 0.08
29 1 0.01
30 3 0.04
31 24 0.30
32 19 0.24
33 5 0.06
34 7 0.09
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (32 bp):
ATATAAATATTAATAAATAAAAAATATATATA
Found at i:4415048 original size:12 final size:13
Alignment explanation
Indices: 4414976--4415051 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
4414966 AATAATTAAA
* *
4414976 ATATATTATAATA
1 ATATAATATAATT
*
4414989 AAATAATATAAATT
1 ATATAATAT-AATT
4415003 GATATAAATATTAA-T
1 -ATAT-AATA-TAATT
* *
4415018 AAATAA-AAAATT
1 ATATAATATAATT
4415030 ATATAATATAATT
1 ATATAATATAATT
4415043 AT-TAATATA
1 ATATAATATA
4415052 TCAAAAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
11 2 0.04
12 14 0.29
13 16 0.33
14 6 0.12
15 4 0.08
16 6 0.12
17 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:4415305 original size:17 final size:17
Alignment explanation
Indices: 4415280--4415331 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
4415270 TACACCCTCC
*
4415280 AAATAAAAAAGAAAAGA
1 AAATGAAAAAGAAAAGA
*
4415297 AAATGAAAAA-AAAAAA
1 AAATGAAAAAGAAAAGA
* *
4415313 AAAGGGAAAGAGAAAAGA
1 AAA-TGAAAAAGAAAAGA
4415331 A
1 A
4415332 GCTGTTTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 8 0.29
17 14 0.50
18 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (17 bp):
AAATGAAAAAGAAAAGA
Found at i:4418170 original size:24 final size:22
Alignment explanation
Indices: 4418133--4418179 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
4418123 AGGGCTTAAA
* *
4418133 TAAAATTTTTTAATTTTTTTATT
1 TAAAATTTTATAA-TATTTTATT
4418156 TAAATATTTTATAATATTTTATT
1 TAAA-ATTTTATAATATTTTATT
4418179 T
1 T
4418180 TTATTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TAAAATTTTATAATATTTTATT
Found at i:4425116 original size:2 final size:2
Alignment explanation
Indices: 4425109--4425140 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4425099 CCTGAAATTA
*
4425109 CT CT CT CT CT CT CT CT CT CT CT CT CT CG CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4425141 TTTGTAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:4427134 original size:25 final size:25
Alignment explanation
Indices: 4427106--4427165 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
4427096 TTGATATACC
*
4427106 ATTTTAAATTTATTACAT-TTTAAAT
1 ATTTTAAATTT-TTACATATATAAAT
*
4427131 ATTTTAAATTTTTATATATATAAAT
1 ATTTTAAATTTTTACATATATAAAT
4427156 ATTTTCAAAT
1 ATTTT-AAAT
4427166 ATAAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.16
25 22 0.71
26 4 0.13
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTTAAATTTTTACATATATAAAT
Found at i:4427315 original size:31 final size:32
Alignment explanation
Indices: 4427279--4427362 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 32
4427269 AATAATTATC
*
4427279 AAATTTATAAATAATTATGTCTAATATT-TATT
1 AAATTTACAAATAATTATGTCTAATATTCT-TT
* * *
4427311 AATTTTACAAATAATT-TTTTTAATATTCTTT
1 AAATTTACAAATAATTATGTCTAATATTCTTT
*
4427342 AAATTTACAAGTAATTATGTC
1 AAATTTACAAATAATTATGTC
4427363 CAGTTCATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 25 0.60
32 17 0.40
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (32 bp):
AAATTTACAAATAATTATGTCTAATATTCTTT
Found at i:4427333 original size:63 final size:61
Alignment explanation
Indices: 4427259--4427448 Score: 175
Period size: 62 Copynumber: 3.1 Consensus size: 61
4427249 TAAATCTCAG
* * * * * *
4427259 TAATCTTTTTAATAATTATCAAATTTATAAATAATTATGTCTAATATTTATTAATTTTACAAA
1 TAATTTTTTTAATAATTTTAAAATTTATAAGTAATTATGTC-AA-ATTCATCAATTTTACAAA
* * * *
4427322 TAATTTTTTTAAT-ATTCTTTAAATTTACAAGTAATTATGTCCAGTTCATCAATTTTACAAA
1 TAATTTTTTTAATAATT-TTAAAATTTATAAGTAATTATGTCAAATTCATCAATTTTACAAA
* * * ** * * *
4427383 TAATTTTATTTTATATTTTTAAAATTTATAAGTAATTATTTTTAATTTATCAAATTTACAAT
1 TAATTTT-TTTAATAATTTTAAAATTTATAAGTAATTATGTCAAATTCATCAATTTTACAAA
4427445 TAAT
1 TAAT
4427449 ATCAATTTGA
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
61 22 0.21
62 48 0.46
63 34 0.33
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (61 bp):
TAATTTTTTTAATAATTTTAAAATTTATAAGTAATTATGTCAAATTCATCAATTTTACAAA
Found at i:4427435 original size:62 final size:61
Alignment explanation
Indices: 4427279--4427448 Score: 180
Period size: 62 Copynumber: 2.7 Consensus size: 61
4427269 AATAATTATC
* * *
4427279 AAATTTATAAATAATTATGTCTAATATTTATTAATTTTACAAATAATTTTTTTAATATTCTTT
1 AAATTTATAAGTAATTAT-TTTAA-ATTTATCAATTTTACAAATAATTTTTTTAATATTCTTT
* * ** * * *
4427342 AAATTTACAAGTAATTATGTCCAGTTCATCAATTTTACAAATAATTTTATTTTATATT-TTT
1 AAATTTATAAGTAATTATTTTAAATTTATCAATTTTACAAATAATTTT-TTTAATATTCTTT
* * *
4427403 AAAATTTATAAGTAATTATTTTTAATTTATCAAATTTACAATTAAT
1 -AAATTTATAAGTAATTATTTTAAATTTATCAATTTTACAAATAAT
4427449 ATCAATTTGA
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
61 25 0.29
62 46 0.53
63 16 0.18
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (61 bp):
AAATTTATAAGTAATTATTTTAAATTTATCAATTTTACAAATAATTTTTTTAATATTCTTT
Found at i:4431076 original size:16 final size:16
Alignment explanation
Indices: 4431055--4431087 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4431045 ACATAGTAAT
4431055 TTAAAA-TATAAATAAA
1 TTAAAATTAT-AATAAA
4431071 TTAAAATTATAATAAA
1 TTAAAATTATAATAAA
4431087 T
1 T
4431088 ATTACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAATTATAATAAA
Found at i:4432239 original size:22 final size:22
Alignment explanation
Indices: 4432209--4432251 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4432199 ATAAAATATT
*
4432209 TTATTTAAAT-TTAATTATAAAA
1 TTATATAAATATTAA-TATAAAA
4432231 TTATATAAATATTAATATAAA
1 TTATATAAATATTAATATAAA
4432252 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATATAAATATTAATATAAAA
Found at i:4432248 original size:12 final size:12
Alignment explanation
Indices: 4432214--4432253 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
4432204 ATATTTTATT
4432214 TAAAT-TTAATTA
1 TAAATATTAA-TA
4432226 TAAA-ATT-ATA
1 TAAATATTAATA
4432236 TAAATATTAATA
1 TAAATATTAATA
4432248 TAAATA
1 TAAATA
4432254 ATTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATATTAATA
Found at i:4432262 original size:23 final size:23
Alignment explanation
Indices: 4432209--4432266 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
4432199 ATAAAATATT
4432209 TTATTTAAAT-TTAATTATAAAA
1 TTATTTAAATATTAATTATAAAA
*
4432231 TTATATAAATATTAA-TATAAATAA
1 TTATTTAAATATTAATTAT-AA-AA
4432255 TT-TTTAAATATT
1 TTATTTAAATATT
4432267 TTAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 12 0.39
23 15 0.48
24 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATTTAAATATTAATTATAAAA
Found at i:4432756 original size:6 final size:6
Alignment explanation
Indices: 4432745--4432769 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4432735 TTTTAATAAA
4432745 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
4432770 GCCCATTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:4432960 original size:247 final size:248
Alignment explanation
Indices: 4432524--4432999 Score: 830
Period size: 247 Copynumber: 1.9 Consensus size: 248
4432514 GATGCCCTCT
* *
4432524 CCCATTCCCATATTATCCTGATACATTTAATCATAATTTGATTCTTAAAGTGTTATCGCAAGAAT
1 CCCATTCCCATATTATCCTGATACATTTAATCAGAATTTGATTCTTAAAGTGTTATCCCAAGAAT
* *
4432589 AACTTTGATTAACAAAGAAATAAAACTTATCTTCTTACCAATTAGATTAACTCTGGTGGGTGAGA
66 AACTTTGATTAACAAAGAAATAAAACTTATCTTCTTACCAATCAGATTAACTCCGGTGGGTGAGA
4432654 TAAAAAAATGTTTAAAATTTTATTGCATAGTCAAATTATTCTCTGTATCAACCTATGCAATAGAT
131 TAAAAAAATGTTTAAAATTTTATTGCATAGTCAAATTATTCTCTGTATCAACCTATGCAATAGAT
*
4432719 ATGTTC-AGAAATTAAATTTTAAT-AAAAAATTTAAATTTAAATTTAAATTTAG
196 ATATTCGA-AAATTAAATTTTAATAAAAAAATTTAAATTTAAATTTAAATTTAG
* *
4432771 CCCATTCCCATATTATCCTGATGCATTTAATCAGAATTTGATTCTTAAAGTGTTATCCCAAGCAT
1 CCCATTCCCATATTATCCTGATACATTTAATCAGAATTTGATTCTTAAAGTGTTATCCCAAGAAT
*
4432836 AACTTTGATTAACAAAGAAATAAAACTTATCTTCTTACCAATCAGATTAATTCCGGTGGGTGAGA
66 AACTTTGATTAACAAAGAAATAAAACTTATCTTCTTACCAATCAGATTAACTCCGGTGGGTGAGA
* * *
4432901 TAAAAAAATGTTTAAAATTTTATTGCATAGTCAAATTATTTTCTTTATCAACTTATGCAATAGAT
131 TAAAAAAATGTTTAAAATTTTATTGCATAGTCAAATTATTCTCTGTATCAACCTATGCAATAGAT
4432966 ATATTCGAAAATTAAATTTTAATAAAAAAATTTA
196 ATATTCGAAAATTAAATTTTAATAAAAAAATTTA
4433000 TTTAATTACA
Statistics
Matches: 216, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
247 205 0.95
248 11 0.05
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (248 bp):
CCCATTCCCATATTATCCTGATACATTTAATCAGAATTTGATTCTTAAAGTGTTATCCCAAGAAT
AACTTTGATTAACAAAGAAATAAAACTTATCTTCTTACCAATCAGATTAACTCCGGTGGGTGAGA
TAAAAAAATGTTTAAAATTTTATTGCATAGTCAAATTATTCTCTGTATCAACCTATGCAATAGAT
ATATTCGAAAATTAAATTTTAATAAAAAAATTTAAATTTAAATTTAAATTTAG
Found at i:4435727 original size:18 final size:19
Alignment explanation
Indices: 4435692--4435729 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4435682 ATTTTCCAAC
*
4435692 AAAAACATAATTTATTTTA
1 AAAAAAATAATTTATTTTA
4435711 AAAAAAATAATTT-TTTTA
1 AAAAAAATAATTTATTTTA
4435729 A
1 A
4435730 TTTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAAAATAATTTATTTTA
Found at i:4436747 original size:15 final size:17
Alignment explanation
Indices: 4436726--4436773 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
4436716 GTTAATTTTT
4436726 TTAATTTTTTTAAAA-A
1 TTAATTTTTTTAAAAGA
4436742 -TAATTTATTTTAATAAGA
1 TTAATTT-TTTTAA-AAGA
*
4436760 TTAATTCTTTTAAA
1 TTAATTTTTTTAAA
4436774 GTAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.22
16 6 0.22
17 3 0.11
18 7 0.26
19 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTAATTTTTTTAAAAGA
Found at i:4437189 original size:29 final size:29
Alignment explanation
Indices: 4437127--4437189 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
4437117 TTTTTAAAAA
* * *
4437127 TATTA-ATTTAATTAATATTGAATAATAT
1 TATTATATTTAATAAATAATGAATAATAC
*
4437155 TTTTATATTTAATAAATAAT-AATAATTAC
1 TATTATATTTAATAAATAATGAATAA-TAC
4437184 TATTAT
1 TATTAT
4437190 GATTCAACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
TATTATATTTAATAAATAATGAATAATAC
Found at i:4439407 original size:6 final size:6
Alignment explanation
Indices: 4439398--4439432 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
4439388 TCTTCCTCTT
*
4439398 CTTCCC CTTCCC CTTCCC CTTCCC CTCCCC CTTCC
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCC
4439433 TACTCTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CTTCCC
Found at i:4439502 original size:15 final size:15
Alignment explanation
Indices: 4439462--4439502 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4439452 CTCCTTCTCT
*
4439462 TTCTACTTCTCTTCC
1 TTCTACTTCTTTTCC
*
4439477 GTCTACTTCTTTTCC
1 TTCTACTTCTTTTCC
4439492 TTCTACTTCTT
1 TTCTACTTCTT
4439503 ACCTCTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.07, C:0.34, G:0.02, T:0.56
Consensus pattern (15 bp):
TTCTACTTCTTTTCC
Found at i:4443331 original size:12 final size:13
Alignment explanation
Indices: 4443314--4443346 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4443304 TTAGAGTTTA
*
4443314 TTTAAAAA-TATT
1 TTTAAAAAGTAGT
4443326 TTTAAAAAGTAGT
1 TTTAAAAAGTAGT
4443339 TTTAAAAA
1 TTTAAAAA
4443347 ATAAGACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTAAAAAGTAGT
Found at i:4455299 original size:2 final size:2
Alignment explanation
Indices: 4455292--4455320 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4455282 ATACACAAGA
4455292 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4455321 TATACATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4456367 original size:66 final size:68
Alignment explanation
Indices: 4456284--4456418 Score: 213
Period size: 67 Copynumber: 2.0 Consensus size: 68
4456274 ACTAGATAGA
* *
4456284 TGTTATAACAGATAAGGATTGG-AAATATGATAGTAAACTC-AAGATGAATCATGC-AGAAAACT
1 TGTTATAACAGATAAGGATTGGAAAATATGATAATAAAC-CAAAGACGAATCATGCAAGAAAACT
4456346 AACC
65 AACC
*
4456350 TGTTATAACTGATAAGGATTGGAAAATATGATAATAAACCAAAGACGAATCATGCAAGAAAACTA
1 TGTTATAACAGATAAGGATTGGAAAATATGATAATAAACCAAAGACGAATCATGCAAGAAAACTA
4456415 ACC
66 ACC
4456418 T
1 T
4456419 TGATAAAGTA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
66 22 0.35
67 28 0.44
68 13 0.21
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.24
Consensus pattern (68 bp):
TGTTATAACAGATAAGGATTGGAAAATATGATAATAAACCAAAGACGAATCATGCAAGAAAACTA
ACC
Found at i:4457654 original size:2 final size:2
Alignment explanation
Indices: 4457647--4457672 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4457637 TGGGAGACTT
4457647 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4457673 GGTAGGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4457865 original size:15 final size:15
Alignment explanation
Indices: 4457847--4457876 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4457837 ATGGTAAATA
4457847 ATATTTATACTTATT
1 ATATTTATACTTATT
4457862 ATATTTATACTTATT
1 ATATTTATACTTATT
4457877 CCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTATACTTATT
Found at i:4459555 original size:2 final size:2
Alignment explanation
Indices: 4459548--4459573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4459538 GTGCCCACGA
4459548 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4459574 TTGATTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4464380 original size:17 final size:18
Alignment explanation
Indices: 4464360--4464401 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
4464350 AGCATATAAA
4464360 ATTA-ATAATAATATTGT
1 ATTATATAATAATATTGT
*
4464377 ATTAAATATAATAATATTTT
1 ATT--ATATAATAATATTGT
4464397 ATTAT
1 ATTAT
4464402 TTTATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 3 0.14
18 2 0.10
19 1 0.05
20 15 0.71
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTATATAATAATATTGT
Found at i:4465666 original size:17 final size:19
Alignment explanation
Indices: 4465644--4465692 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
4465634 CATATGTAAT
4465644 TATATTTAA-AATTT-TAA
1 TATATTTAATAATTTATAA
*
4465661 TATATTTAATAATTTATAT
1 TATATTTAATAATTTATAA
4465680 TATATTTATATAA
1 TATATTTA-ATAA
4465693 CTAATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 9 0.32
18 5 0.18
19 10 0.36
20 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTAATAATTTATAA
Found at i:4465685 original size:19 final size:18
Alignment explanation
Indices: 4465642--4465692 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
4465632 TACATATGTA
4465642 ATTATATTTAA-AATTTT
1 ATTATATTTAATAATTTT
*
4465659 AATATATTTAATAATTTAT
1 ATTATATTTAATAATTT-T
4465678 ATTATATTTATATAA
1 ATTATATTTA-ATAA
4465693 CTAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 10 0.34
18 5 0.17
19 10 0.34
20 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATATTTAATAATTTT
Found at i:4465699 original size:20 final size:19
Alignment explanation
Indices: 4465661--4465701 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4465651 AAAATTTTAA
* *
4465661 TATATTTAATAATTTATAT
1 TATATTTAATAACTAATAT
4465680 TATATTTATATAACTAATAT
1 TATATTTA-ATAACTAATAT
4465700 TA
1 TA
4465702 AAAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTTAATAACTAATAT
Found at i:4466227 original size:40 final size:40
Alignment explanation
Indices: 4466137--4466270 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 40
4466127 GGATTATTGG
*
4466137 TATTCTTAAAAATTATAAATTTAGTAATTTATATTATATTA
1 TATT-TTAAATATTATAAATTTAGTAATTTATATTATATTA
* * * *
4466178 TATTTTAAATATTTTAAATTTATTATTTTA-ATTA-ATTT
1 TATTTTAAATATTATAAATTTAGTAATTTATATTATATTA
* * *
4466216 TATTATATAAATTTTAATAAA--TA-T-ATTTATATTCTATTC
1 TATT-T-TAAATATT-ATAAATTTAGTAATTTATATTATATTA
*
4466255 TATTTTAATTATTATA
1 TATTTTAAATATTATA
4466271 TATATATATA
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
36 3 0.04
37 10 0.13
38 12 0.16
39 14 0.18
40 29 0.38
41 8 0.11
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (40 bp):
TATTTTAAATATTATAAATTTAGTAATTTATATTATATTA
Found at i:4466274 original size:2 final size:2
Alignment explanation
Indices: 4466267--4466292 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4466257 TTTTAATTAT
4466267 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4466293 ATCACATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4467641 original size:18 final size:18
Alignment explanation
Indices: 4467619--4467660 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4467609 TTTTTAAATT
*
4467619 TTTTTATT-TTAATAATA
1 TTTTTATTGTTAATAAAA
4467636 TATTTT-TTGTTAATAAAA
1 T-TTTTATTGTTAATAAAA
4467654 TTTTTAT
1 TTTTTAT
4467661 AAAAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATTGTTAATAAAA
Found at i:4468209 original size:9 final size:9
Alignment explanation
Indices: 4468190--4468236 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
4468180 TAATAATTAA
4468190 AATTAATTT
1 AATTAATTT
4468199 AATTTAA-TT
1 AA-TTAATTT
*
4468208 AATTATTTT
1 AATTAATTT
4468217 AATTAA-TT
1 AATTAATTT
4468225 -ATTAATTT
1 AATTAATTT
4468233 AATT
1 AATT
4468237 TGATTCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
7 5 0.16
8 7 0.22
9 16 0.50
10 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
AATTAATTT
Found at i:4468219 original size:13 final size:13
Alignment explanation
Indices: 4468190--4468227 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
4468180 TAATAATTAA
*
4468190 AATTAATTTAATTT
1 AATTAA-TTATTTT
4468204 AATTAATTATTTT
1 AATTAATTATTTT
4468217 AATTAATTATT
1 AATTAATTATT
4468228 AATTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTAATTATTTT
Found at i:4470148 original size:38 final size:38
Alignment explanation
Indices: 4470094--4470169 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
4470084 ACAAATATTA
*
4470094 TATATAAAAATCCAAACAATTTTAAAAATAAAATTCTT
1 TATATAAAAATCCAAACAATTCTAAAAATAAAATTCTT
* *
4470132 TATATAAAAATGCAAACACTTCTAAAAATAAAATTCTT
1 TATATAAAAATCCAAACAATTCTAAAAATAAAATTCTT
4470170 ACTTTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (38 bp):
TATATAAAAATCCAAACAATTCTAAAAATAAAATTCTT
Found at i:4471422 original size:6 final size:6
Alignment explanation
Indices: 4471411--4471454 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
4471401 CTTTTTGAAA
* *
4471411 ACACAC ACACAC ACACCC ACACCC ACACCC ACACCC ACACCC AC
1 ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC AC
4471455 GAGTGGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (6 bp):
ACACCC
Found at i:4474563 original size:23 final size:23
Alignment explanation
Indices: 4474528--4474572 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4474518 TTTATTTTTG
*
4474528 AAATCAAATAATATAGCAAAAATA
1 AAATCAAAAAATATAG-AAAAATA
*
4474552 AAAT-AAAAAATATTGAAAAAT
1 AAATCAAAAAATATAGAAAAAT
4474573 GGCAGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
AAATCAAAAAATATAGAAAAATA
Found at i:4475482 original size:19 final size:19
Alignment explanation
Indices: 4475445--4475516 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 19
4475435 TTAAATAATG
4475445 ATTATAATATATT-TT-TA
1 ATTATAATATATTATTATA
*
4475462 ATTGTAATATATTATTATA
1 ATTATAATATATTATTATA
4475481 ATTATAA-ATATATATTAATTTA
1 ATTATAATATAT-TATT-A--TA
*
4475503 ATTATAATAAATTA
1 ATTATAATATATTA
4475517 AATTATAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 12 0.27
18 6 0.13
19 12 0.27
20 1 0.02
22 11 0.24
23 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (19 bp):
ATTATAATATATTATTATA
Found at i:4475493 original size:22 final size:22
Alignment explanation
Indices: 4475468--4475509 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4475458 TTTAATTGTA
4475468 ATATATT-ATTATAATTATAAAT
1 ATATATTAATT-TAATTATAAAT
4475490 ATATATTAATTTAATTATAA
1 ATATATTAATTTAATTATAA
4475510 TAAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATATTAATTTAATTATAAAT
Found at i:4475537 original size:16 final size:15
Alignment explanation
Indices: 4475497--4475542 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
4475487 AATATATATT
* *
4475497 AATTTAATTATAATA
1 AATTAAATTATAAAA
4475512 AATTAAATTATAAAA
1 AATTAAATTATAAAA
4475527 AATTAAAATTATAAAA
1 AATT-AAATTATAAAA
4475543 TAATAATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTAAATTATAAAA
Found at i:4478444 original size:13 final size:13
Alignment explanation
Indices: 4478411--4478446 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
4478401 TATAATTGAT
*
4478411 AAAGAAAAAAAAG
1 AAAGAAAATAAAG
4478424 AAAG-AAATAAAG
1 AAAGAAAATAAAG
4478436 AAAGAAAATAA
1 AAAGAAAATAA
4478447 TTCTTCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (13 bp):
AAAGAAAATAAAG
Done.