Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, 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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 24
Found at i:3672654 original size:28 final size:29
Alignment explanation
Indices: 3672601--3672663 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
3672591 ATCAGGCACG
3672601 AGGTCGCACGACTTGCATGGCGACCTACA
1 AGGTCGCACGACTTGCATGGCGACCTACA
* *
3672630 AGGTCGCACGTC-TGTATGGCGACCTACA
1 AGGTCGCACGACTTGCATGGCGACCTACA
3672658 AGGTCG
1 AGGTCG
3672664 TACGGCCTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.22, C:0.29, G:0.30, T:0.19
Consensus pattern (29 bp):
AGGTCGCACGACTTGCATGGCGACCTACA
Found at i:3673736 original size:20 final size:20
Alignment explanation
Indices: 3673711--3673752 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
3673701 ATTATCATCC
3673711 CGAGAAGTGGTGGTTACTAG
1 CGAGAAGTGGTGGTTACTAG
3673731 CGAGAAGTGGTGGTTACTAG
1 CGAGAAGTGGTGGTTACTAG
3673751 CG
1 CG
3673753 TGGTTAGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (20 bp):
CGAGAAGTGGTGGTTACTAG
Found at i:3674754 original size:27 final size:27
Alignment explanation
Indices: 3674716--3674782 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
3674706 AACAAAGTCC
3674716 ATGAATTGCTGCAGCAACCCCATTTGT
1 ATGAATTGCTGCAGCAACCCCATTTGT
3674743 ATGAATTGCTGCAGCAACCCCATTTGT
1 ATGAATTGCTGCAGCAACCCCATTTGT
3674770 ATGAATTGCTGCA
1 ATGAATTGCTGCA
3674783 TTCAAAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (27 bp):
ATGAATTGCTGCAGCAACCCCATTTGT
Found at i:3674796 original size:27 final size:27
Alignment explanation
Indices: 3674716--3674797 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
3674706 AACAAAGTCC
** *
3674716 ATGAATTGCTGCAGCAACCCCATTTGT
1 ATGAATTGCTGCAGCAACAACAATTGT
** *
3674743 ATGAATTGCTGCAGCAACCCCATTTGT
1 ATGAATTGCTGCAGCAACAACAATTGT
*
3674770 ATGAATTGCTGCATTCAA-AACAATTGT
1 ATGAATTGCTGCA-GCAACAACAATTGT
3674797 A
1 A
3674798 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 47 0.94
28 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (27 bp):
ATGAATTGCTGCAGCAACAACAATTGT
Found at i:3682285 original size:166 final size:168
Alignment explanation
Indices: 3682009--3682345 Score: 642
Period size: 166 Copynumber: 2.0 Consensus size: 168
3681999 TGATGGATTT
3682009 ACATCAATATTTCCAACAAATGCAGAGATCACACATCATCCATTTGTCAATTTCCAGAAGACTTG
1 ACATCAATATTTCCAACAAATGCAGAGAT-ACACATCATCCATTTGTCAATTTCCAGAAGACTTG
3682074 GAAATTTCAGAAGAATTCAGCAATTTAGCGTGATAAAAAATTACACCTGAATCAGAATCTTATAC
65 GAAATTTCAGAAGAATTCAGCAATTTAGCGTGATAAAAAATTACACCTGAATCAGAATCTTATAC
3682139 -TCTTCCATATTGTGCCAAATTCCCAGAATCTAAACAAA
130 TTCTTCCATATTGTGCCAAATTCCCAGAATCTAAACAAA
3682177 ACATCAATATTTCCAACAAATGCAGAGAT-CACATCATCCATTTGTCAATTTCCAGAAGACTTGG
1 ACATCAATATTTCCAACAAATGCAGAGATACACATCATCCATTTGTCAATTTCCAGAAGACTTGG
3682241 AAATTTCAGAAGAATTCAGCAATTTAGCGTGATAAAAAATTACACCTGAATCAGAATCTTATACT
66 AAATTTCAGAAGAATTCAGCAATTTAGCGTGATAAAAAATTACACCTGAATCAGAATCTTATAC-
3682306 TTCTTCCATATTGTGCCAAATTCCCAGAATCTAAACAAA
130 TTCTTCCATATTGTGCCAAATTCCCAGAATCTAAACAAA
3682345 A
1 A
3682346 GTGGTTAACA
Statistics
Matches: 167, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
166 99 0.59
168 68 0.41
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (168 bp):
ACATCAATATTTCCAACAAATGCAGAGATACACATCATCCATTTGTCAATTTCCAGAAGACTTGG
AAATTTCAGAAGAATTCAGCAATTTAGCGTGATAAAAAATTACACCTGAATCAGAATCTTATACT
TCTTCCATATTGTGCCAAATTCCCAGAATCTAAACAAA
Found at i:3683252 original size:3 final size:3
Alignment explanation
Indices: 3683244--3683269 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3683234 CATTAAGAAA
3683244 GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
3683270 GGTTCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:3691527 original size:14 final size:14
Alignment explanation
Indices: 3691508--3691536 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3691498 TCCTACGAAA
3691508 ACTGATCTCAACCT
1 ACTGATCTCAACCT
3691522 ACTGATCTCAACCT
1 ACTGATCTCAACCT
3691536 A
1 A
3691537 ATGTTGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTGATCTCAACCT
Found at i:3697075 original size:2 final size:2
Alignment explanation
Indices: 3697022--3697060 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3697012 ACACATTCAA
*
3697022 AT AT AA 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 A
3697061 ATTTTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3698526 original size:25 final size:25
Alignment explanation
Indices: 3698498--3698545 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
3698488 TAAATGAGAT
3698498 TATGTCACACGTTGTAACATGTCGC
1 TATGTCACACGTTGTAACATGTCGC
*
3698523 TATGTCACATGTTGTAACATGTC
1 TATGTCACACGTTGTAACATGTC
3698546 CCCTTCAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (25 bp):
TATGTCACACGTTGTAACATGTCGC
Found at i:3699537 original size:23 final size:22
Alignment explanation
Indices: 3699510--3699556 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3699500 ACCGATACTT
*
3699510 AGGGAAGTATCGATA-CCAAATG
1 AGGGGAGTATCGATACCCAAA-G
3699532 AGGGGAGTATCGATACCCAAAG
1 AGGGGAGTATCGATACCCAAAG
3699554 AGG
1 AGG
3699557 AGTATTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.38, C:0.15, G:0.32, T:0.15
Consensus pattern (22 bp):
AGGGGAGTATCGATACCCAAAG
Found at i:3701940 original size:21 final size:20
Alignment explanation
Indices: 3701916--3701962 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3701906 CATGGGTACC
3701916 GATACTAAGCCCCTCGGTATT
1 GATACTAA-CCCCTCGGTATT
* * *
3701937 GATACTGACCTCTGGGTATT
1 GATACTAACCCCTCGGTATT
3701957 GATACT
1 GATACT
3701963 GATATCTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (20 bp):
GATACTAACCCCTCGGTATT
Found at i:3701974 original size:20 final size:20
Alignment explanation
Indices: 3701931--3701982 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
3701921 TAAGCCCCTC
* *
3701931 GGTATTGATACTGACCTCTG
1 GGTATTGATACTGACATCTA
*
3701951 GGTATTGATACTGATATCTA
1 GGTATTGATACTGACATCTA
*
3701971 GGTATCGATACT
1 GGTATTGATACT
3701983 ACTGACTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (20 bp):
GGTATTGATACTGACATCTA
Found at i:3702970 original size:15 final size:15
Alignment explanation
Indices: 3702952--3702993 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
3702942 GAGGGAGAAG
3702952 GAAGAAGAAAAAGGA
1 GAAGAAGAAAAAGGA
3702967 GAAGAAGAAAAAGGA
1 GAAGAAGAAAAAGGA
3702982 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3702994 AGAGGAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAAAAGGA
Found at i:3702975 original size:18 final size:18
Alignment explanation
Indices: 3702945--3703001 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
3702935 AGGAGGTGAG
3702945 GGAGAAGGAAGAAGAAAAA
1 GGAGAA-GAAGAAGAAAAA
3702964 -G-G-AGAAGAAGAAAAA
1 GGAGAAGAAGAAGAAAAA
3702979 GGAGAAGAAGAA-AAAAGA
1 GGAGAAGAAGAAGAAAA-A
3702997 GGAGA
1 GGAGA
3703002 CAACGTGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 12 0.35
16 2 0.06
17 6 0.18
18 14 0.41
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (18 bp):
GGAGAAGAAGAAGAAAAA
Found at i:3704069 original size:60 final size:59
Alignment explanation
Indices: 3704004--3704153 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 59
3703994 AAATTGATAT
* *
3704004 ATAAACTTTTGAATATTTCAATTTCATCTCCAAACTATGAATCTCATTCTAAATTAGTTC
1 ATAAACTTTTGAATATTTCAATTTCATC-CCAAACTATGAATCTCATTCTAAATCAGTCC
* * * * * ** *
3704064 TTAAACTTTTGAA-ATTTTTAATTTTATCCATAAACTATGACTCTTTTTCTAAATCGGTCC
1 ATAAACTTTTGAATA-TTTCAATTTCATCC-CAAACTATGAATCTCATTCTAAATCAGTCC
*
3704124 ATAAACTTTT-ACATATTCCAATTTCATCCC
1 ATAAACTTTTGA-ATATTTCAATTTCATCCC
3704154 CAAATTCATC
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
59 3 0.04
60 67 0.94
61 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (59 bp):
ATAAACTTTTGAATATTTCAATTTCATCCCAAACTATGAATCTCATTCTAAATCAGTCC
Found at i:3706083 original size:19 final size:20
Alignment explanation
Indices: 3706040--3706083 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
3706030 AAGATGCCAC
3706040 TTTTTTAAGGAAATCAAATG
1 TTTTTTAAGGAAATCAAATG
3706060 TTTTTTAAGGAAATCAAATG
1 TTTTTTAAGGAAATCAAATG
3706080 TTTT
1 TTTT
3706084 AAAGAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
TTTTTTAAGGAAATCAAATG
Found at i:3709464 original size:25 final size:25
Alignment explanation
Indices: 3709394--3709456 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
3709384 AAAAAATAAC
3709394 TTTTAAAAGTGTAATAGAAAAGAAT
1 TTTTAAAAGTGTAATAGAAAAGAAT
3709419 TTTTAAAAGTGTAATAGAAAAGAAT
1 TTTTAAAAGTGTAATAGAAAAGAAT
3709444 TTTTAAAAGTGTA
1 TTTTAAAAGTGTA
3709457 CTTTAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (25 bp):
TTTTAAAAGTGTAATAGAAAAGAAT
Found at i:3709675 original size:16 final size:18
Alignment explanation
Indices: 3709654--3709695 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
3709644 ACTCATTAAT
*
3709654 AATATT-TTATAA-ATAA
1 AATATTATTAAAATATAA
3709670 AATATTATTAAAATATAA
1 AATATTATTAAAATATAA
3709688 AAT-TTATT
1 AATATTATT
3709696 TATTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
18 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATTATTAAAATATAA
Found at i:3709976 original size:46 final size:44
Alignment explanation
Indices: 3709926--3710035 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 44
3709916 CATGGTTTAA
*
3709926 GATTTAGGTTTTATGGTTTAGGGTTATGATTTATGTTTTAAGGTTT
1 GATTTAGG-TTTA-GGTTTAGGGTTATGATTTATGTTTTAAAGTTT
*
3709972 GATTTA-----AGATTTAGGGTTATGATTTATGTTTTAAAGTTT
1 GATTTAGGTTTAGGTTTAGGGTTATGATTTATGTTTTAAAGTTT
3710011 GATTTAGGGTTTAGGGTTTAGGGTT
1 GATTTA-GGTTTA-GGTTTAGGGTT
3710036 TATGGTATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
39 36 0.67
40 1 0.02
45 1 0.02
46 16 0.30
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (44 bp):
GATTTAGGTTTAGGTTTAGGGTTATGATTTATGTTTTAAAGTTT
Found at i:3709986 original size:39 final size:39
Alignment explanation
Indices: 3709942--3710028 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
3709932 GGTTTTATGG
*
3709942 TTTAGGGTTATGATTTATGTTTTAAGGTTTGATTTAAGA
1 TTTAGGGTTATGATTTATGTTTTAAAGTTTGATTTAAGA
* *
3709981 TTTAGGGTTATGATTTATGTTTTAAAGTTTGATTTAGGG
1 TTTAGGGTTATGATTTATGTTTTAAAGTTTGATTTAAGA
3710020 TTTAGGGTT
1 TTTAGGGTT
3710029 TAGGGTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (39 bp):
TTTAGGGTTATGATTTATGTTTTAAAGTTTGATTTAAGA
Found at i:3710023 original size:7 final size:7
Alignment explanation
Indices: 3710013--3710037 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3710003 TAAAGTTTGA
3710013 TTTAGGG
1 TTTAGGG
3710020 TTTAGGG
1 TTTAGGG
3710027 TTTAGGG
1 TTTAGGG
3710034 TTTA
1 TTTA
3710038 TGGTATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:3710023 original size:19 final size:19
Alignment explanation
Indices: 3709935--3710016 Score: 92
Period size: 20 Copynumber: 4.2 Consensus size: 19
3709925 AGATTTAGGT
* *
3709935 TTTATGGTTTAGGGTTATGA
1 TTTATGTTTTAAGGTT-TGA
3709955 TTTATGTTTTAAGGTTTGA
1 TTTATGTTTTAAGGTTTGA
* * *
3709974 TTTAAGATTTAGGGTTATGA
1 TTTATGTTTTAAGGTT-TGA
*
3709994 TTTATGTTTTAAAGTTTGA
1 TTTATGTTTTAAGGTTTGA
3710013 TTTA
1 TTTA
3710017 GGGTTTAGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 23 0.44
20 29 0.56
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (19 bp):
TTTATGTTTTAAGGTTTGA
Found at i:3710029 original size:19 final size:19
Alignment explanation
Indices: 3709935--3710029 Score: 100
Period size: 19 Copynumber: 4.9 Consensus size: 19
3709925 AGATTTAGGT
3709935 TTTATGGTTTAGGGTTATGA
1 TTTATGGTTTAGGGTT-TGA
* *
3709955 TTTATGTTTTAAGGTTTGA
1 TTTATGGTTTAGGGTTTGA
* *
3709974 TTTAAGATTTAGGGTTATGA
1 TTTATGGTTTAGGGTT-TGA
* **
3709994 TTTATGTTTTAAAGTTTGA
1 TTTATGGTTTAGGGTTTGA
*
3710013 TTTAGGGTTTAGGGTTT
1 TTTATGGTTTAGGGTTT
3710030 AGGGTTTATG
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
19 32 0.52
20 29 0.48
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (19 bp):
TTTATGGTTTAGGGTTTGA
Found at i:3710069 original size:8 final size:7
Alignment explanation
Indices: 3710054--3710096 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
3710044 ATGACATTGA
3710054 GGTTTAT
1 GGTTTAT
3710061 GGATTTAT
1 GG-TTTAT
3710069 GGTTTAT
1 GGTTTAT
*
3710076 AGTTTAT
1 GGTTTAT
*
3710083 AGTTTAT
1 GGTTTAT
*
3710090 AGTTTAT
1 GGTTTAT
3710097 CGATTTGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (7 bp):
GGTTTAT
Found at i:3710080 original size:7 final size:7
Alignment explanation
Indices: 3710064--3710096 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
3710054 GGTTTATGGA
*
3710064 TTTATGG
1 TTTATAG
3710071 TTTATAG
1 TTTATAG
3710078 TTTATAG
1 TTTATAG
3710085 TTTATAG
1 TTTATAG
3710092 TTTAT
1 TTTAT
3710097 CGATTTGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (7 bp):
TTTATAG
Found at i:3710265 original size:21 final size:21
Alignment explanation
Indices: 3710236--3710276 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3710226 GGTTTAGGAT
*
3710236 TATGCTTTAGGGTTTAAGGTA
1 TATGATTTAGGGTTTAAGGTA
*
3710257 TATGATTTATGGTTTAAGGT
1 TATGATTTAGGGTTTAAGGT
3710277 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.46
Consensus pattern (21 bp):
TATGATTTAGGGTTTAAGGTA
Found at i:3710626 original size:27 final size:28
Alignment explanation
Indices: 3710581--3710634 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
3710571 GAGGTTATGG
* *
3710581 TTTGAGGTTTAGGGGTTAG-GTTTAATA
1 TTTGAGGCTTAAGGGTTAGTGTTTAATA
*
3710608 TTTGAGGCTTAAGGTTTAGTGTTTAAT
1 TTTGAGGCTTAAGGGTTAGTGTTTAAT
3710635 GCTTGTGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (28 bp):
TTTGAGGCTTAAGGGTTAGTGTTTAATA
Found at i:3711047 original size:20 final size:20
Alignment explanation
Indices: 3711022--3711075 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3711012 GACCAACAAA
3711022 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
3711042 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
3711062 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
3711076 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:3711187 original size:19 final size:20
Alignment explanation
Indices: 3711099--3711187 Score: 103
Period size: 19 Copynumber: 4.6 Consensus size: 20
3711089 TGCGATTTTC
* **
3711099 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGTGAATTT
*
3711119 CAAATTCGCAA-ATGAATTT
1 CAAATTCGCAACGTGAATTT
*
3711138 CAAATTCGCAA-TTGAATTT
1 CAAATTCGCAACGTGAATTT
3711157 CAAATTCGCAACGTGAATTT
1 CAAATTCGCAACGTGAATTT
*
3711177 -AATTTCGCAAC
1 CAAATTCGCAAC
3711188 AGGTTTTAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 43 0.70
20 18 0.30
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACGTGAATTT
Found at i:3712107 original size:24 final size:24
Alignment explanation
Indices: 3712087--3712133 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
3712077 ACTCAATATT
3712087 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
* *
3712111 CGGACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
3712134 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:3712138 original size:24 final size:24
Alignment explanation
Indices: 3712092--3712145 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3712082 ATATTCGAAA
3712092 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
3712116 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
3712140 TTTGAT
1 TTTGAT
3712146 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:3714398 original size:18 final size:18
Alignment explanation
Indices: 3714375--3714410 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3714365 AAGCAAAAGG
*
3714375 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
3714393 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
3714411 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:3714744 original size:20 final size:20
Alignment explanation
Indices: 3714696--3714745 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3714686 ATGTTGCGAT
3714696 CAACACGAAAGTCAAATTCG
1 CAACACGAAAGTCAAATTCG
**
3714716 CAATGCGAAAGTCAAATTCG
1 CAACACGAAAGTCAAATTCG
3714736 CAACACGAAA
1 CAACACGAAA
3714746 TAAGCGTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.24, G:0.16, T:0.14
Consensus pattern (20 bp):
CAACACGAAAGTCAAATTCG
Found at i:3714777 original size:20 final size:20
Alignment explanation
Indices: 3714754--3714792 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3714744 AATAAGCGTT
3714754 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
*
3714774 GCGATTGTCAAATTCGCAA
1 GCGATAGTCAAATTCGCAA
3714793 ACCGAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:3714809 original size:20 final size:20
Alignment explanation
Indices: 3714795--3714861 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
3714785 ATTCGCAAAC
*
3714795 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTTTCGCGTAG
*
3714815 CGAATTTGACTATCGCGTAG
1 CGAATTTGACTTTCGCGTAG
*
3714835 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTTTCGCGTAG
3714855 CGAATTT
1 CGAATTT
3714862 ACCTTCAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
CGAATTTGACTTTCGCGTAG
Found at i:3714966 original size:25 final size:25
Alignment explanation
Indices: 3714926--3714975 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3714916 AAATCAATTA
* *
3714926 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATAGGTACATTATTTG
*
3714951 AACATTGTTATAGGTATATTATTTG
1 AACATTGTTATAGGTACATTATTTG
3714976 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (25 bp):
AACATTGTTATAGGTACATTATTTG
Found at i:3715383 original size:18 final size:18
Alignment explanation
Indices: 3715362--3715398 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3715352 GTAATTGGAG
3715362 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3715380 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3715398 T
1 T
3715399 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3715405 original size:24 final size:24
Alignment explanation
Indices: 3715354--3715406 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3715344 TTTCATATGT
* * *
3715354 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
3715378 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
3715402 AATTT
1 AATTT
3715407 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:3715752 original size:39 final size:39
Alignment explanation
Indices: 3715709--3715794 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
3715699 TCCGATGCTC
3715709 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
3715748 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
3715787 ATCAAAAT
1 ATCAAAAT
3715795 TTACAACATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:3715971 original size:20 final size:20
Alignment explanation
Indices: 3715946--3715987 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3715936 TGCGATCAAT
* *
3715946 GCGAAAGTTAAATTCGTAAC
1 GCGAAAGTCAAATTCGCAAC
3715966 GCGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
3715986 GC
1 GC
3715988 AGAATAAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:3716034 original size:34 final size:34
Alignment explanation
Indices: 3715966--3716039 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
3715956 AATTCGTAAC
* *
3715966 GCGAAAGTCAAATTCGCAACGCAGAATAAGCGTT
1 GCGAAAGTCAAATTCGAAACGCAAAATAAGCGTT
*
3716000 GCGAAAGTCAAATTCGTAAAC-CGAAAATTA-CGTT
1 GCGAAAGTCAAATTCG-AAACGC-AAAATAAGCGTT
3716034 GCGAAA
1 GCGAAA
3716040 TTGACTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 27 0.77
35 8 0.23
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (34 bp):
GCGAAAGTCAAATTCGAAACGCAAAATAAGCGTT
Found at i:3716203 original size:14 final size:14
Alignment explanation
Indices: 3716169--3716222 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
3716159 ATAATTCTTA
*
3716169 TTTACAAATCAAAT
1 TTTACAAATCAACT
**
3716183 TAAACAAATCAACT
1 TTTACAAATCAACT
*
3716197 TTTACAAATCATCT
1 TTTACAAATCAACT
3716211 TTTACAAATCAA
1 TTTACAAATCAA
3716223 TTAATCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTACAAATCAACT
Found at i:3717691 original size:20 final size:21
Alignment explanation
Indices: 3717648--3717742 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
3717638 GGCGGGACCA
* *
3717648 CTTGAACGATGACAGGGGCCT
1 CTTGAATGATGAGAGGGGCCT
* *
3717669 CTTGAATGATG-GGGGGGCTT
1 CTTGAATGATGAGAGGGGCCT
3717689 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAATGATGAGAGGGGCCT
* **
3717710 CTTGAACGAT-AGGAGACGCCT
1 CTTGAATGATGA-GAGGGGCCT
3717731 CTTGAATGATGA
1 CTTGAATGATGA
3717743 TAGGTGCATC
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
20 17 0.29
21 41 0.69
22 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (21 bp):
CTTGAATGATGAGAGGGGCCT
Found at i:3719931 original size:19 final size:20
Alignment explanation
Indices: 3719909--3719951 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3719899 AATTCGCAAC
3719909 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
*
3719928 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
3719948 GCGA
1 GCGA
3719952 ATTTGGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCGTT
Found at i:3720411 original size:20 final size:20
Alignment explanation
Indices: 3720386--3720450 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
3720376 GCGTAAAAAC
3720386 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
***
3720406 ATTTGAC-TTCTATATTGCGA
1 ATTTGACTTTC-GCGTTGCGA
*
3720426 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
3720446 ATTTG
1 ATTTG
3720451 GAAACTGAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 3 0.08
20 31 0.86
21 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:3720464 original size:40 final size:41
Alignment explanation
Indices: 3720386--3720490 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 41
3720376 GCGTAAAAAC
**
3720386 ATTTGACTTTCGCGTTGCGAATTT-GACTTCTATATTGCG-A
1 ATTTGAC-TTCGCGTTGCGAATTTGGACAACTATATTGCGAA
*
3720426 ATTTGACTATCGCGTTGCGAATTTGGA-AACTGA-GTTGCGAA
1 ATTTGACT-TCGCGTTGCGAATTTGGACAACT-ATATTGCGAA
* * *
3720467 ATTGGAATTCGTGTTGCGAATTTG
1 ATTTGACTTCGCGTTGCGAATTTG
3720491 AGATCGCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
39 1 0.02
40 44 0.80
41 10 0.18
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (41 bp):
ATTTGACTTCGCGTTGCGAATTTGGACAACTATATTGCGAA
Found at i:3722570 original size:39 final size:38
Alignment explanation
Indices: 3722526--3722608 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 38
3722516 TCATTAAACT
* *
3722526 TTTTTAT-ATTTTCAATTTTGTAAAAAAGAATATATATAA
1 TTTTTATGAATTTAAATTTTGTAAAAAA-AATATATA-AA
* *
3722565 TTTTTATGAATTTAAATTTTTTAAAGAAAATATATAAA
1 TTTTTATGAATTTAAATTTTGTAAAAAAAATATATAAA
3722603 TATTTT
1 T-TTTT
3722609 CTAACTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 3 0.08
39 19 0.50
40 16 0.42
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (38 bp):
TTTTTATGAATTTAAATTTTGTAAAAAAAATATATAAA
Found at i:3723250 original size:37 final size:36
Alignment explanation
Indices: 3723175--3723250 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
3723165 TTTTTATATT
*
3723175 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
3723211 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
3723248 TTT
1 TTT
3723251 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:3723432 original size:20 final size:20
Alignment explanation
Indices: 3723396--3723433 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3723386 ATCTTATTCC
**
3723396 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
3723416 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
3723434 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:3728361 original size:3 final size:3
Alignment explanation
Indices: 3728347--3728377 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3728337 TTTTAGTTTG
3728347 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3728378 GTTTTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:3733510 original size:2 final size:2
Alignment explanation
Indices: 3733503--3733580 Score: 89
Period size: 2 Copynumber: 42.5 Consensus size: 2
3733493 CCACCCTGAT
3733503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3733544 TA T- TT TA TA TA T- TT TA TA T- TA -A T- TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3733580 T
1 T
3733581 TTTCGGATTC
Statistics
Matches: 67, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
1 7 0.10
2 60 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:3733856 original size:23 final size:23
Alignment explanation
Indices: 3733826--3733895 Score: 131
Period size: 23 Copynumber: 3.0 Consensus size: 23
3733816 ATGATTTGTT
3733826 TTTTACTTAATTTGTCACCCAAC
1 TTTTACTTAATTTGTCACCCAAC
3733849 TTTTACTTAATTTGTCACCCAAC
1 TTTTACTTAATTTGTCACCCAAC
*
3733872 TTTTACTTAATTTGTCATCCAAC
1 TTTTACTTAATTTGTCACCCAAC
3733895 T
1 T
3733896 AGCCGAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (23 bp):
TTTTACTTAATTTGTCACCCAAC
Found at i:3735831 original size:2 final size:2
Alignment explanation
Indices: 3735824--3735857 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3735814 AATTTAAATG
3735824 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
3735858 TCATTTATAG
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:3737560 original size:17 final size:17
Alignment explanation
Indices: 3737540--3737573 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3737530 AATGAAATAA
*
3737540 AAATTAAATAAATAAAT
1 AAATAAAATAAATAAAT
*
3737557 AAATAAAATAACTAAAT
1 AAATAAAATAAATAAAT
3737574 TGGGACAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAATAAATAAAT
Found at i:3738075 original size:76 final size:76
Alignment explanation
Indices: 3737970--3738184 Score: 317
Period size: 76 Copynumber: 2.8 Consensus size: 76
3737960 TAAAACATCT
* * *
3737970 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAA-AAAAAATATTT
1 TAAATCCTAATTAAAATAC-TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATTA
*
3738034 AAAATAATATTA
65 AAAATAATATCA
3738046 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATA-TA
1 TAAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATTA
*
3738110 AAAATAATATCC
65 AAAATAATATCA
* * *
3738122 TAAAACTTAATTAAAATACTAAAATCTATTTAAACTAAAATACCTAAAATAAAGATAAAATAT
1 TAAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATAT
3738185 AATGTTTAAA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
75 5 0.04
76 115 0.91
77 7 0.06
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (76 bp):
TAAATCCTAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATTAA
AAATAATATCA
Found at i:3755568 original size:2 final size:2
Alignment explanation
Indices: 3755561--3755593 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3755551 ATTTATTGTC
3755561 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
3755594 AAATAAAATT
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:3757948 original size:3 final size:3
Alignment explanation
Indices: 3757940--3757973 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
3757930 CCAAAAATCT
3757940 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3757974 TATTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3757960 original size:14 final size:14
Alignment explanation
Indices: 3757941--3757969 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3757931 CAAAAATCTT
3757941 TATTATTATTATTA
1 TATTATTATTATTA
3757955 TATTATTATTATTA
1 TATTATTATTATTA
3757969 T
1 T
3757970 TATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:3757962 original size:17 final size:16
Alignment explanation
Indices: 3757939--3757977 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
3757929 CCCAAAAATC
3757939 TTTATTATTATTATTA
1 TTTATTATTATTATTA
3757955 TATTATTATTATTATTA
1 T-TTATTATTATTATTA
3757972 TTTATT
1 TTTATT
3757978 TTGATTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:3758526 original size:212 final size:214
Alignment explanation
Indices: 3758156--3758584 Score: 835
Period size: 212 Copynumber: 2.0 Consensus size: 214
3758146 AATGTCATAT
3758156 CATCATTGAATAATTGGAAAAAATACTCACATCACCAGTTCTGTTTATTTTTTAACGACGGGTGA
1 CATCATTGAATAATTGGAAAAAATACT-ACATCACCAGTTCTGTTTATTTTTTAACGACGGGTGA
3758221 CTAAAATGGAACTAAAACATAACGTTAGTAGGGATGAGAATGGGAGTTGAGCCCGACGAGTTTCA
65 CTAAAATGGAACTAAAACATAACGTTAGTAGGGATGAGAATGGGAGTTGAGCCCGACGAGTTTCA
3758286 GCCCGACCCTATTGAGTCATTTTTTTAAATTAGGTTCAAATTGGGTCAAATTCAGGTTTAGGGTG
130 GCCCGACCCTATTGAGTCATTTTTTTAAATTAGGTTCAAATTGGGTCAAATTCAGGTTTAGGGTG
3758351 AAAATACCCCTCAAAGCACA
195 AAAATACCCCTCAAAGCACA
3758371 CATCATTGAATAATTGGAAAAAATACT-CA-CACCAGTTCTGTTTATTTTTTAACGACGGGTGAC
1 CATCATTGAATAATTGGAAAAAATACTACATCACCAGTTCTGTTTATTTTTTAACGACGGGTGAC
3758434 TAAAATGGAACTAAAACATAACGTTAGTAGGGATGAGAATGGGAGTTGAGCCCGACGAGTTTCAG
66 TAAAATGGAACTAAAACATAACGTTAGTAGGGATGAGAATGGGAGTTGAGCCCGACGAGTTTCAG
3758499 CCCGACCCTATTGAGTCATTTTTTTAAATTAGGTTCAAATTGGGTCAAATTCAGGTTTAGGGTGA
131 CCCGACCCTATTGAGTCATTTTTTTAAATTAGGTTCAAATTGGGTCAAATTCAGGTTTAGGGTGA
3758564 AAATACCCCTCAAAGCACA
196 AAATACCCCTCAAAGCACA
3758583 CA
1 CA
3758585 AAATATAATT
Statistics
Matches: 214, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
212 185 0.86
213 2 0.01
215 27 0.13
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (214 bp):
CATCATTGAATAATTGGAAAAAATACTACATCACCAGTTCTGTTTATTTTTTAACGACGGGTGAC
TAAAATGGAACTAAAACATAACGTTAGTAGGGATGAGAATGGGAGTTGAGCCCGACGAGTTTCAG
CCCGACCCTATTGAGTCATTTTTTTAAATTAGGTTCAAATTGGGTCAAATTCAGGTTTAGGGTGA
AAATACCCCTCAAAGCACA
Found at i:3769651 original size:48 final size:50
Alignment explanation
Indices: 3769583--3769676 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 50
3769573 TTGCATATAC
3769583 TTTCCATTCAGACACATTTCAGAAC-TTTCATATTTCATGTTCATATTAT
1 TTTCCATTCAGACACATTTCAGAACTTTTCATATTTCATGTTCATATTAT
* * * *
3769632 TTTCCTTTCAGTCAC-TTTCAGAACTTTTCTTATTTCATTTTCATA
1 TTTCCATTCAGACACATTTCAGAACTTTTCATATTTCATGTTCATA
3769677 GAACAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 9 0.22
49 31 0.77
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.49
Consensus pattern (50 bp):
TTTCCATTCAGACACATTTCAGAACTTTTCATATTTCATGTTCATATTAT
Found at i:3770089 original size:20 final size:20
Alignment explanation
Indices: 3770060--3770098 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3770050 AGAGCTCATA
*
3770060 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
3770080 TAGGAGCATATAGATGCAT
1 TAGGAGCATATAGATGCAT
3770099 GTGGTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:3778618 original size:20 final size:20
Alignment explanation
Indices: 3778589--3778627 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3778579 AGAGCTCATA
*
3778589 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
3778609 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
3778628 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:3790427 original size:2 final size:2
Alignment explanation
Indices: 3790420--3790486 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
3790410 TTATTATTAT
3790420 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
3790462 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3790487 CCAGCCTCAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3793586 original size:21 final size:20
Alignment explanation
Indices: 3793520--3793657 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
3793510 ACGCGAAATA
* **
3793520 AAAATCGCAACGCGATCCTC
1 AAAATCGCAATGCGATTTTC
* *
3793540 AGAATCGCAAAT-C-AGTTTCC
1 AAAATCGC-AATGCGA-TTTTC
* *
3793560 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAATGCGATT-TTC
* *
3793581 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAATGCGAT-TTTC
* *
3793602 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAATGCGATTTT-C
* * * *
3793623 AAAATCGCAACGCGAATATG
1 AAAATCGCAATGCGATTTTC
3793643 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
3793658 ACACATAAAT
Statistics
Matches: 87, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.03
20 35 0.40
21 49 0.56
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (20 bp):
AAAATCGCAATGCGATTTTC
Found at i:3793648 original size:20 final size:19
Alignment explanation
Indices: 3793622--3793676 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3793612 TGCGATTTTC
*
3793622 CAAAATCGCAACGCGAATA
1 CAAAATCGCAACGCGAACA
* *
3793641 TGAAAATCGCAATGCGAACA
1 -CAAAATCGCAACGCGAACA
3793661 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
3793677 TATCCGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.44, C:0.25, G:0.18, T:0.13
Consensus pattern (19 bp):
CAAAATCGCAACGCGAACA
Found at i:3793686 original size:20 final size:20
Alignment explanation
Indices: 3793663--3793817 Score: 204
Period size: 20 Copynumber: 7.7 Consensus size: 20
3793653 TGCGAACACA
3793663 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
3793683 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
3793703 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
3793723 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
3793743 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
3793763 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
*
3793783 TAAAATCGCAACGCGTGTCCG
1 T-AAATCGCAACGCGTATCCG
3793804 TAAATCGCAACGCG
1 TAAATCGCAACGCG
3793818 ATATTTAAAG
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 99 0.86
21 14 0.12
22 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:3793688 original size:40 final size:39
Alignment explanation
Indices: 3793624--3793818 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
3793614 CGATTTTCCA
* ** * *
3793624 AAATCGCAACGCGAATATGAAAATCGCAATGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * *
3793664 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
3793704 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* ** *
3793744 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
*
3793784 AAAATCGCAACGCGTGTCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
3793819 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:3793709 original size:60 final size:60
Alignment explanation
Indices: 3793624--3793817 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 60
3793614 CGATTTTCCA
* ** * * *
3793624 AAATCGCAACGCGAATATGAAAATCGCAATGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
3793684 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* ** *
3793744 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTGTCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
3793805 AAATCGCAACGCG
1 AAATCGCAACGCG
3793818 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 80 0.73
61 30 0.27
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:3794237 original size:32 final size:33
Alignment explanation
Indices: 3794199--3794268 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
3794189 TTCACTTAGA
*
3794199 TTTCATTTCGCGTTACGATTCTGTCG-TGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
3794231 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
3794264 TTTCA
1 TTTCA
3794269 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 23 0.68
33 11 0.32
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:3794372 original size:20 final size:19
Alignment explanation
Indices: 3794347--3794450 Score: 94
Period size: 20 Copynumber: 5.6 Consensus size: 19
3794337 TGCAGAAGAG
3794347 TCGCAACGAGATAATGAAAA
1 TCGCAACGAGA-AATGAAAA
***
3794367 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGA-AATGAAAA
3794387 TCGCAACGAGAGAAATG-AAA
1 TCGCAAC--GAGAAATGAAAA
3794407 TCGCAACGAG--A-G--AA
1 TCGCAACGAGAAATGAAAA
*
3794421 TCGCAACGCGAAATGAAAA
1 TCGCAACGAGAAATGAAAA
3794440 TCGCAACGAGA
1 TCGCAACGAGA
3794451 GAATCGCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
14 11 0.16
15 1 0.01
16 2 0.03
17 1 0.01
18 3 0.04
19 12 0.18
20 30 0.44
21 4 0.06
22 4 0.06
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (19 bp):
TCGCAACGAGAAATGAAAA
Found at i:3794408 original size:40 final size:40
Alignment explanation
Indices: 3794346--3794454 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
3794336 TTGCAGAAGA
*
3794346 GTCGCAACGAGATAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAAAATGAAAATCGCAACGAGAGAATGACT
3794386 GTCGCAACGAGAGAAATG-AAATCGCAACGAGAG-A--A--
1 GTCGCAACGAGA-AAATGAAAATCGCAACGAGAGAATGACT
*
3794421 -TCGCAACGCG-AAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAAAATGAAAATCGCAACGAGAGAAT
3794455 CGCAACGCGA
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
32 5 0.08
33 15 0.24
34 10 0.16
37 1 0.02
39 1 0.02
40 27 0.43
41 4 0.06
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (40 bp):
GTCGCAACGAGAAAATGAAAATCGCAACGAGAGAATGACT
Found at i:3794424 original size:14 final size:14
Alignment explanation
Indices: 3794405--3794461 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3794395 AGAGAAATGA
3794405 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3794419 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3794438 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3794452 AATCGCAACG
1 AATCGCAACG
3794462 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3794445 original size:33 final size:33
Alignment explanation
Indices: 3794347--3794477 Score: 138
Period size: 33 Copynumber: 3.7 Consensus size: 33
3794337 TGCAGAAGAG
3794347 TCGCAACGAGATAATGAAAATCGCAACGAGAGAATGA
1 TCGCAACGAGA-AATGAAAATCGCAACGAGAG-A--A
3794384 CTGTCGCAACGAGAGAAATG-AAATCGCAACGAGAGAA
1 ---TCGCAAC--GAGAAATGAAAATCGCAACGAGAGAA
*
3794421 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
* **
3794454 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGAGAAATGAAAATCGCA
3794478 TTGCGATTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
32 7 0.08
33 39 0.46
34 7 0.08
37 1 0.01
39 1 0.01
40 22 0.26
41 4 0.05
42 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (33 bp):
TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
Found at i:3794514 original size:14 final size:14
Alignment explanation
Indices: 3794495--3794550 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
3794485 TTTCATTTCG
3794495 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3794509 CGTTGCGATTTTCATTCG
1 CGTTGCGA--TTC--TCT
3794527 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3794541 CGTTGCGATT
1 CGTTGCGATT
3794551 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
16 6 0.17
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3794532 original size:32 final size:32
Alignment explanation
Indices: 3794478--3794556 Score: 149
Period size: 32 Copynumber: 2.4 Consensus size: 32
3794468 CAAAATCGCA
3794478 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCA-TTCGCGTTGCGATTCTCTCG
3794511 TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
3794543 TTGCGATTTTCATT
1 TTGCGATTTTCATT
3794557 TCTCTCGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 34 0.74
33 12 0.26
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (32 bp):
TTGCGATTTTCATTCGCGTTGCGATTCTCTCG
Found at i:3794561 original size:21 final size:21
Alignment explanation
Indices: 3794535--3794599 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
3794525 CGCGTTGCGA
3794535 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
3794556 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
3794576 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
3794597 TTC
1 TTC
3794600 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:3794596 original size:20 final size:20
Alignment explanation
Indices: 3794534--3794597 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
3794524 TCGCGTTGCG
3794534 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
3794554 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
3794575 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
3794595 ATT
1 ATT
3794598 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:3796442 original size:91 final size:91
Alignment explanation
Indices: 3796276--3796645 Score: 640
Period size: 91 Copynumber: 4.1 Consensus size: 91
3796266 TAGATTGCTT
*
3796276 AGTAAATTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
1 AGTAAATTGTTCGGTTGCTGCCAATTCTGCTAAAC-GTGTATTCTTTAACACTGTGAAATAGTAT
3796341 TTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TTGTCTTTGTTTTGTCTTTTGGTTGAA
3796368 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC-TGTATTCTTTAACACTGTGAAATAGTAT
1 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAATAGTAT
3796432 TTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TTGTCTTTGTTTTGTCTTTTGGTTGAA
3796459 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAAC-GTGTATTCTTTAACACTGTGAAATAGTA
3796524 TTTGTCTTTGTTTTGTCTTTTGG-TGAA
64 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3796551 AGCAAATTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
1 AGTAAATTGTTCGGTTGCTGCCAATTCTGCTAAAC-GTGTATTCTTTAACACTGTGAAATAGTAT
*
3796616 TTGT-ATTGTTTTGTCTTTTGGTTG-A
65 TTGTCTTTGTTTTGTCTTTTGGTTGAA
3796641 AGTAA
1 AGTAA
3796646 TGCAATCCAT
Statistics
Matches: 270, Mismatches: 4, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
90 21 0.08
91 156 0.58
92 15 0.06
93 78 0.29
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (91 bp):
AGTAAATTGTTCGGTTGCTGCCAATTCTGCTAAACGTGTATTCTTTAACACTGTGAAATAGTATT
TGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3796505 original size:184 final size:180
Alignment explanation
Indices: 3796276--3796645 Score: 652
Period size: 184 Copynumber: 2.0 Consensus size: 180
3796266 TAGATTGCTT
3796276 AGTAAATTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
1 AGTAAATTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
*
3796341 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC-T
66 TTGTCTTTGTTTTGTCTTTTGG-TGAAAGCAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACGT
*
3796405 GTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
129 GTATTCTTTAACACTGTGAAATAGTATTTGT-ATTGTTTTGTCTTTTGGTTG-A
*
3796459 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAA-TTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3796524 TTTGTCTTTGTTTTGTCTTTTGGTGAAAGCAAATTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
65 TTTGTCTTTGTTTTGTCTTTTGGTGAAAGCAAATTGTTCGGTTGCTGCCAATTCTGCTAAAC-GT
3796589 GTATTCTTTAACACTGTGAAATAGTATTTGTATTGTTTTGTCTTTTGGTTGA
129 GTATTCTTTAACACTGTGAAATAGTATTTGTATTGTTTTGTCTTTTGGTTGA
3796641 AGTAA
1 AGTAA
3796646 TGCAATCCAT
Statistics
Matches: 181, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
182 35 0.19
183 34 0.19
184 112 0.62
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (180 bp):
AGTAAATTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTAT
TTGTCTTTGTTTTGTCTTTTGGTGAAAGCAAATTGTTCGGTTGCTGCCAATTCTGCTAAACGTGT
ATTCTTTAACACTGTGAAATAGTATTTGTATTGTTTTGTCTTTTGGTTGA
Found at i:3796731 original size:19 final size:19
Alignment explanation
Indices: 3796693--3796819 Score: 112
Period size: 19 Copynumber: 7.2 Consensus size: 19
3796683 TAGTTACTTT
* *
3796693 GCAACACGAAACTTAAAATC
1 GCAACGCGAAAC-CAAAATC
3796713 GCAACGCGAAACCAAAATC
1 GCAACGCGAAACCAAAATC
* **
3796732 ACAACGCGAAATGAAAATC
1 GCAACGCGAAACCAAAATC
*
3796751 GCAA--CG--A-CAGAATC
1 GCAACGCGAAACCAAAATC
3796765 GCAACGCGAAACCAAAATC
1 GCAACGCGAAACCAAAATC
*
3796784 GCAA--CG--A-CAAGATC
1 GCAACGCGAAACCAAAATC
3796798 GCAACGCGAAACCAAAATC
1 GCAACGCGAAACCAAAATC
3796817 GCA
1 GCA
3796820 TTGCGATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 44 0.51
20 11 0.13
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (19 bp):
GCAACGCGAAACCAAAATC
Found at i:3796775 original size:33 final size:32
Alignment explanation
Indices: 3796727--3796819 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
3796717 CGCGAAACCA
* **
3796727 AAATCACAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
3796759 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
3796792 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
3796820 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:3796817 original size:52 final size:51
Alignment explanation
Indices: 3796692--3796819 Score: 127
Period size: 52 Copynumber: 2.5 Consensus size: 51
3796682 ATAGTTACTT
**
3796692 TGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCACAACGCGAAA
1 TGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCACAACGCGAAA
* * * *
3796743 TG-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCACAACG-CGAA-A
*
3796796 TCGCAACGCGAAAC-CAAAATCGCA
1 T-GCAACACGAAACACAAAATCGCA
3796820 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
50 3 0.05
51 7 0.11
52 40 0.66
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (51 bp):
TGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCACAACGCGAAA
Found at i:3796837 original size:19 final size:19
Alignment explanation
Indices: 3796815--3796986 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
3796805 GAAACCAAAA
*
3796815 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3796834 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3796850 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3796867 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3796883 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
**
3796899 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
3796918 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
3796937 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
3796956 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3796976 TCGTGTTGCGA
1 TCGCGTTGCGA
3796987 AAGTAAACTA
Statistics
Matches: 127, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 15 0.12
15 3 0.02
16 10 0.08
17 9 0.07
18 8 0.06
19 70 0.55
20 12 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3796856 original size:14 final size:14
Alignment explanation
Indices: 3796837--3796893 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3796827 TTTCATTTCG
3796837 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3796851 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
3796868 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
3796884 CGTTGCGATT
1 CGTTGCGATT
3796894 TCATTTCGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3796920 original size:51 final size:53
Alignment explanation
Indices: 3796837--3796970 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 53
3796827 TTTCATTTCG
3796837 CGTTGCGA-TTC-TTT--CGTTGCGATTTTCATTTCGCATTGCGATTCT-G-T
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTGGTT
** * *
3796884 CGTTGCGATTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCT
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTGG--T-T
3796940 CGTTGCGATTATCATTTCGCGTTGCGATTTT
1 CGTTGCGATT-TCATTTCGCGTTGCGATTTT
3796971 AAGTTTCGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
47 8 0.11
48 3 0.04
49 3 0.04
51 27 0.37
52 1 0.01
56 11 0.15
57 20 0.27
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (53 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTGGTT
Found at i:3796958 original size:38 final size:38
Alignment explanation
Indices: 3796815--3796986 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
3796805 GAAACCAAAA
*
3796815 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
3796850 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
3796883 T--CGTTGCGA-TTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
3796918 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
3796956 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
3796987 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
32 17 0.15
33 39 0.34
34 1 0.01
35 3 0.03
37 8 0.07
38 35 0.31
39 11 0.10
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:3798919 original size:14 final size:14
Alignment explanation
Indices: 3798900--3798938 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
3798890 ATTGTTTAAT
3798900 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3798914 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3798928 TGATTGTGTAA
1 TGATT-TGTAA
3798939 TTGATGCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3799056 original size:19 final size:19
Alignment explanation
Indices: 3799040--3799137 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
3799030 AAAAATGACT
3799040 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3799059 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3799078 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
3799092 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3799111 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3799131 ATCGCAA
1 ATCGCAA
3799138 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3799169 original size:53 final size:53
Alignment explanation
Indices: 3799044--3799156 Score: 210
Period size: 53 Copynumber: 2.2 Consensus size: 53
3799034 ATGACTATCG
3799044 CAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
*
3799096 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
3799149 CAATGCGA
1 CAATGCGA
3799157 TTTTAATTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 25 0.42
53 34 0.58
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (53 bp):
CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
Found at i:3799174 original size:19 final size:19
Alignment explanation
Indices: 3799146--3799346 Score: 185
Period size: 19 Copynumber: 11.7 Consensus size: 19
3799136 AACGAGAGAA
* *
3799146 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
3799165 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
3799181 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3799198 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3799217 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
3799233 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3799250 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3799269 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
3799285 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
3799301 TCCGCATTGCGA-TTTCA--
1 T-CGCATTGCGATTTTCATT
*
3799318 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
3799334 TCGCATTGCGATT
1 TCGCATTGCGATT
3799347 CTCTCGTTGC
Statistics
Matches: 151, Mismatches: 10, Indels: 42
0.74 0.05 0.21
Matches are distributed among these distances:
13 5 0.03
14 23 0.15
15 4 0.03
16 21 0.14
17 20 0.13
19 78 0.52
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3799189 original size:33 final size:33
Alignment explanation
Indices: 3799152--3799360 Score: 214
Period size: 33 Copynumber: 6.2 Consensus size: 33
3799142 AGAATCGCAA
*
3799152 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
3799185 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
3799223 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
3799256 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
3799289 TGCGA-TTTCATTTCCGCATTGCGATT-TCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
3799321 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
3799354 TGCGATT
1 TGCGATT
3799361 GTAATTTCCG
Statistics
Matches: 145, Mismatches: 15, Indels: 32
0.76 0.08 0.17
Matches are distributed among these distances:
31 9 0.06
32 34 0.23
33 71 0.49
35 5 0.03
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:3799209 original size:52 final size:52
Alignment explanation
Indices: 3799146--3799315 Score: 306
Period size: 52 Copynumber: 3.3 Consensus size: 52
3799136 AACGAGAGAA
* *
3799146 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
3799198 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
3799250 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
3799301 TCCGCATTGCGATTT
1 T-CGCATTGCGATTT
3799316 CATGTTGGGA
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
51 8 0.07
52 107 0.93
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:3801646 original size:12 final size:12
Alignment explanation
Indices: 3801629--3801653 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3801619 TCTTCGGGGA
3801629 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3801641 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3801653 C
1 C
3801654 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3801879 original size:24 final size:24
Alignment explanation
Indices: 3801839--3801893 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
3801829 AAAATCCGTG
* * *
3801839 TATTGACCAATATCAAAGTTCGGA
1 TATTGACCAAGACCAAAGTTCGAA
*
3801863 TATTGACCAAGACCAAATTTCGAA
1 TATTGACCAAGACCAAAGTTCGAA
*
3801887 TACTGAC
1 TATTGAC
3801894 TAGTACTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (24 bp):
TATTGACCAAGACCAAAGTTCGAA
Found at i:3802580 original size:20 final size:20
Alignment explanation
Indices: 3802552--3802781 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
3802542 AAATTTCAGT
* * *
3802552 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
3802572 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
3802592 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
3802612 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
3802632 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
3802652 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
3802672 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
3802692 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
3802712 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
3802732 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
3802752 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
3802772 GTTGCGATTT
1 GTTGCGATTT
3802782 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:3802798 original size:21 final size:21
Alignment explanation
Indices: 3802768--3802850 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
3802758 ATTTTCATAT
*
3802768 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
3802789 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
3802810 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
3802831 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
3802851 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:3802841 original size:42 final size:43
Alignment explanation
Indices: 3802748--3802846 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
3802738 ATTTATGTGT
* *
3802748 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
3802789 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
3802831 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
3802847 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:3804894 original size:75 final size:75
Alignment explanation
Indices: 3804794--3805125 Score: 379
Period size: 75 Copynumber: 4.4 Consensus size: 75
3804784 CTTGACCGAT
* * *
3804794 TAAAATAAAATATGCGCTAT-T-TATTATGTTAAACTACCTACTAGTTTGTTTGAAGGTTATTAA
1 TAAAATAAAATA-G-GTTATATCTATTATGTTAAACTACCTACTAGTTTGTTTAAAGGTTACTAA
*
3804857 TAATGTAAATGG
64 TAATGTAAATGA
* * * *
3804869 TAAAATAAAATAGGTTATATCTATTACGTTAAAATACCTACAAGCTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGTTATATCTATTATGTTAAACTACCTACTAGTTTGTTTAAAGGTTACTAATA
* *
3804934 ATGTAAACGG
66 ATGTAAATGA
** * * * *
3804944 TAAAATAAAATA-GACACTACCTAATATGTTAAACTACCTAC-GGTTTGTTTAAAAGTTACTAAT
1 TAAAATAAAATAGGTTA-TATCTATTATGTTAAACTACCTACTAGTTTGTTTAAAGGTTACTAAT
3805007 AATGTAAATGA
65 AATGTAAATGA
* * * *
3805018 TAAAATAAAATAGGTGT-TATCTATTACGCTAAACTAGCTACTAGTTTGTTTAAAGGTTAATAAT
1 TAAAATAAAATAGGT-TATATCTATTATGTTAAACTACCTACTAGTTTGTTTAAAGGTTACTAAT
3805082 AATGTAAATGA
65 AATGTAAATGA
* *
3805093 TAAAATAAAATAGGCGT-TACCTATTATGTTAAA
1 TAAAATAAAATAGG-TTATATCTATTATGTTAAA
3805126 TAGGCGCTAC
Statistics
Matches: 217, Mismatches: 33, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
73 4 0.02
74 63 0.29
75 150 0.69
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (75 bp):
TAAAATAAAATAGGTTATATCTATTATGTTAAACTACCTACTAGTTTGTTTAAAGGTTACTAATA
ATGTAAATGA
Found at i:3805024 original size:149 final size:150
Alignment explanation
Indices: 3804818--3805125 Score: 440
Period size: 149 Copynumber: 2.1 Consensus size: 150
3804808 CGCTATTTAT
* * * *
3804818 TATGTTAAACTACCTACTAGTTTGTTTGAAGGTTATTAATAATGTAAATGGTAAAATAAAATAGG
1 TATGTTAAACTACCTACTAGTTTGTTTAAAAGTTACTAATAATGTAAATGATAAAATAAAATAGG
* * *
3804883 T-TATATCTATTACGTTAAAATACCTACAAGCTTGTTTAAAGGTTACTAATAATGTAAACGGTAA
66 TGT-TATCTATTACGCTAAAATACCTACAAGCTTGTTTAAAGGTTAATAATAATGTAAACGATAA
3804947 AATAAAATAGACACTACCTAA
130 AATAAAATAGACACTACCTAA
*
3804968 TATGTTAAACTACCTAC-GGTTTGTTTAAAAGTTACTAATAATGTAAATGATAAAATAAAATAGG
1 TATGTTAAACTACCTACTAGTTTGTTTAAAAGTTACTAATAATGTAAATGATAAAATAAAATAGG
* * * * *
3805032 TGTTATCTATTACGCTAAACTAGCTACTAGTTTGTTTAAAGGTTAATAATAATGTAAATGATAAA
66 TGTTATCTATTACGCTAAAATACCTACAAGCTTGTTTAAAGGTTAATAATAATGTAAACGATAAA
* ** *
3805097 ATAAAATAGGCGTTACCTAT
131 ATAAAATAGACACTACCTAA
3805117 TATGTTAAA
1 TATGTTAAA
3805126 TAGGCGCTAC
Statistics
Matches: 140, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
149 122 0.87
150 18 0.13
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.35
Consensus pattern (150 bp):
TATGTTAAACTACCTACTAGTTTGTTTAAAAGTTACTAATAATGTAAATGATAAAATAAAATAGG
TGTTATCTATTACGCTAAAATACCTACAAGCTTGTTTAAAGGTTAATAATAATGTAAACGATAAA
ATAAAATAGACACTACCTAA
Found at i:3805126 original size:23 final size:23
Alignment explanation
Indices: 3805100--3805150 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
3805090 TGATAAAATA
* *
3805100 AAATAGGCGTTACCTATTATGTT
1 AAATAGGCGCTACCTATTACGTT
3805123 AAATAGGCGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
3805146 AAATA
1 AAATA
3805151 AACACTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTACGTT
Found at i:3805162 original size:23 final size:23
Alignment explanation
Indices: 3805110--3805171 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
3805100 AAATAGGCGT
* ** *
3805110 TACCTATTATGTTAAATAGGCGC
1 TACCTATTAAGTTAAATAAACAC
*
3805133 TACCTATTACGTTAAATAAACAC
1 TACCTATTAAGTTAAATAAACAC
*
3805156 TATCTATTAAGTTAAA
1 TACCTATTAAGTTAAA
3805172 CTAGCTATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (23 bp):
TACCTATTAAGTTAAATAAACAC
Found at i:3805246 original size:23 final size:23
Alignment explanation
Indices: 3805220--3805314 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
3805210 CGGTAAAATA
* * *
3805220 AAATAGGCGCTACCTATTATGTG
1 AAATAAGCGCTACCTATTACGTT
* *
3805243 AAATATGCGCTACTTATTACGTT
1 AAATAAGCGCTACCTATTACGTT
3805266 AAATAAGCGCTACCTATTACGTT
1 AAATAAGCGCTACCTATTACGTT
*
3805289 AAATAAGTGCTACCTATTACGTT
1 AAATAAGCGCTACCTATTACGTT
3805312 AAA
1 AAA
3805315 CTAGCTACTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (23 bp):
AAATAAGCGCTACCTATTACGTT
Found at i:3805254 original size:120 final size:121
Alignment explanation
Indices: 3805035--3805291 Score: 383
Period size: 120 Copynumber: 2.1 Consensus size: 121
3805025 AAATAGGTGT
* *
3805035 TATCTATTACGCTAAACTAGCTACTAGTTTGTTTAAAGGTTAATAATAATGTAAATGATAAAATA
1 TATCTATTACGTTAAACTAGCTACTAGTTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATA
* *
3805100 AAATAGGCGTTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAACAC
66 AAATAGGCGCTACCTATTATGTGAAATAGGCGCTACCTATTACGTTAAATAAACAC
* * *
3805156 TATCTATTAAGTTAAACTAGCTA-TTGATTTGTTTAAAGGTTAATAAT-ATGTAAACGGTAAAAT
1 TATCTATTACGTTAAACTAGCTACTAG-TTTGTTTAAAGGTTAATAATAATGTAAACGATAAAAT
* * * *
3805219 AAAATAGGCGCTACCTATTATGTGAAATATGCGCTACTTATTACGTTAAATAAGCGC
65 AAAATAGGCGCTACCTATTATGTGAAATAGGCGCTACCTATTACGTTAAATAAACAC
*
3805276 TACCTATTACGTTAAA
1 TATCTATTACGTTAAA
3805292 TAAGTGCTAC
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
120 81 0.66
121 41 0.34
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (121 bp):
TATCTATTACGTTAAACTAGCTACTAGTTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATA
AAATAGGCGCTACCTATTATGTGAAATAGGCGCTACCTATTACGTTAAATAAACAC
Found at i:3805293 original size:143 final size:144
Alignment explanation
Indices: 3805100--3805435 Score: 494
Period size: 143 Copynumber: 2.3 Consensus size: 144
3805090 TGATAAAATA
* * * *
3805100 AAATAGGCGTTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAACACTATCTATTA
1 AAATAGGCGTTACTTATTACGTTAAATAAGCGCTACCTATTACGTTAAATAAACACTACCTATTA
* * *
3805165 AGTTAAACTAGCTATTGATTTGTTTAAAGGTTAATAAT-ATGTAAACGGTAAAATAAAATAGGCG
66 AGTTAAACTAGCTACTGATTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGCG
*
3805229 CTACCTATTATGTG
131 CTACCTACTATGTG
* * ***
3805243 AAATATGCGCTACTTATTACGTTAAATAAGCGCTACCTATTACGTTAAATAAGTGCTACCTATTA
1 AAATAGGCGTTACTTATTACGTTAAATAAGCGCTACCTATTACGTTAAATAAACACTACCTATTA
* *
3805308 CGTTAAACTAGCTACTGATTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGTG
66 AGTTAAACTAGCTACTGATTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGCG
* *
3805373 TTACCTACTATGTT
131 CTACCTACTATGTG
* *
3805387 AAATAGGCGTTATTTATTACGTTAAATAAGTGCTACCTATTACGTTAAA
1 AAATAGGCGTTACTTATTACGTTAAATAAGCGCTACCTATTACGTTAAA
3805436 CTAGCTACCT
Statistics
Matches: 171, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
143 92 0.54
144 79 0.46
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (144 bp):
AAATAGGCGTTACTTATTACGTTAAATAAGCGCTACCTATTACGTTAAATAAACACTACCTATTA
AGTTAAACTAGCTACTGATTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGCG
CTACCTACTATGTG
Found at i:3805391 original size:23 final size:23
Alignment explanation
Indices: 3805364--3805435 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
3805354 CGATAAAATA
* *
3805364 AAATAAGTGTTACCTACTATGTT
1 AAATAAGTGTTACCTATTACGTT
* * **
3805387 AAATAGGCGTTATTTATTACGTT
1 AAATAAGTGTTACCTATTACGTT
*
3805410 AAATAAGTGCTACCTATTACGTT
1 AAATAAGTGTTACCTATTACGTT
3805433 AAA
1 AAA
3805436 CTAGCTACCT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (23 bp):
AAATAAGTGTTACCTATTACGTT
Found at i:3805391 original size:121 final size:121
Alignment explanation
Indices: 3805263--3805484 Score: 365
Period size: 121 Copynumber: 1.8 Consensus size: 121
3805253 TACTTATTAC
3805263 GTTAAATAAGCGCTACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTA-CTGAT
1 GTTAAATAAGCGCTACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCTG-T
3805327 TTGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGTGTTACCTACTAT
65 TTGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGTGTTACCTACTAT
* * **
3805384 GTTAAATAGGCGTTATTTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCTGTT
1 GTTAAATAAGCGCTACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCTGTT
* * *
3805449 TGTTTAAAGGTTAATAGTAATGTAAATGGTAAAATA
66 TGTTTAAAGGTTAATAATAATGTAAACGATAAAATA
3805485 TACACTACTT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
121 90 0.97
122 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (121 bp):
GTTAAATAAGCGCTACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCTGTT
TGTTTAAAGGTTAATAATAATGTAAACGATAAAATAAAATAAGTGTTACCTACTAT
Found at i:3812818 original size:2 final size:2
Alignment explanation
Indices: 3812811--3812837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3812801 TGCCTTAAAT
3812811 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
3812838 TTCTCATTTT
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:3817357 original size:29 final size:29
Alignment explanation
Indices: 3817324--3817406 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
3817314 GGAACATATG
3817324 CTATTGAATCTAAACTAGCGTCAATAATA
1 CTATTGAATCTAAACTAGCGTCAATAATA
3817353 CTATTGAATCTAAACTAGCGTCAATAATA
1 CTATTGAATCTAAACTAGCGTCAATAATA
*
3817382 CTATTGAATCTAAACTAGAGTCAAT
1 CTATTGAATCTAAACTAGCGTCAAT
3817407 CATAATACAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (29 bp):
CTATTGAATCTAAACTAGCGTCAATAATA
Found at i:3818538 original size:141 final size:140
Alignment explanation
Indices: 3818316--3818693 Score: 442
Period size: 141 Copynumber: 2.7 Consensus size: 140
3818306 ACTTTTGCAA
* * * * *
3818316 GACCTTCTTTGGCGATCCTCATTATCATCATCATCAGAATTATGCCGTGAATGACGATGCTGATC
1 GACCTTCTTCGGCGATCCTCATTA-CATCATCATCCGAATCATGCCGTGAACGACGATGATGATC
** * * *
3818381 CCTATTTCTACGCCTATCATTTTCAGATTCCGGCAATCTACCATCACTTATATTCTCTCCTTCCG
65 CCTATTTCTATACCTATCATTTTCAGATTCCAGCAACCAACCATCACTTATATTCTCTCCTT-CG
*
3818446 -TACTTCTGTGG
129 ATACTTCTGCGG
* * * *
3818457 GACCTTCTACGGCGATCCTCATTACCATCATCATCCGAATCATGCCGCGAACGACAATGGTGATC
1 GACCTTCTTCGGCGATCCTCATTA-CATCATCATCCGAATCATGCCGTGAACGACGATGATGATC
* **
3818522 CCTATTTCTATACCTATCATTTTCAGATTCTAGCTCCCAACCATCACTTATATTCTCTCCTTCGA
65 CCTATTTCTATACCTATCATTTTCAGATTCCAGCAACCAACCATCACTTATATTCTCTCCTTCGA
*
3818587 TTCTTCTGCGG
130 TACTTCTGCGG
** * * *
3818598 GACCTTCTTCTTCGATCCTC-GT-CATCA-CTATCCGAATCATGCCGTGAGCGACGGCT-ATGAT
1 GACCTTCTTCGGCGATCCTCATTACATCATC-ATCCGAATCATGCCGTGAACGAC-GATGATGAT
* *
3818659 CCCTATTTCTATATCGATCATTTTCAGATTCCAGC
64 CCCTATTTCTATACCTATCATTTTCAGATTCCAGC
3818694 CGTCTATCAC
Statistics
Matches: 203, Mismatches: 31, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
137 1 0.00
138 62 0.31
139 1 0.00
140 3 0.01
141 136 0.67
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (140 bp):
GACCTTCTTCGGCGATCCTCATTACATCATCATCCGAATCATGCCGTGAACGACGATGATGATCC
CTATTTCTATACCTATCATTTTCAGATTCCAGCAACCAACCATCACTTATATTCTCTCCTTCGAT
ACTTCTGCGG
Found at i:3819260 original size:6 final size:6
Alignment explanation
Indices: 3819249--3819274 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3819239 ATATGGCAAG
3819249 GGGACA GGGACA GGGACA GGGACA GG
1 GGGACA GGGACA GGGACA GGGACA GG
3819275 CTACTCCACC
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:0.31, C:0.15, G:0.54, T:0.00
Consensus pattern (6 bp):
GGGACA
Found at i:3820207 original size:31 final size:31
Alignment explanation
Indices: 3820172--3820239 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
3820162 CAGTTACATT
3820172 GGGGACCATATTGCAAAC-ATACTAAATGTTA
1 GGGGACCATATTGCAAACGA-ACTAAATGTTA
* *
3820203 GGGGACCATATTGTAAACGAATTAAATGTTA
1 GGGGACCATATTGCAAACGAACTAAATGTTA
3820234 GGGGAC
1 GGGGAC
3820240 TGTATTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (31 bp):
GGGGACCATATTGCAAACGAACTAAATGTTA
Found at i:3821261 original size:31 final size:32
Alignment explanation
Indices: 3821223--3821285 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
3821213 TTACGTTGGA
* * *
3821223 GACCATATTATAAACGGATTAAATGTT-GAGG
1 GACCATATTACAAACGAACTAAATGTTAGAGG
*
3821254 GACCATATTGCAAACGAACTAAATGTTAGAGG
1 GACCATATTACAAACGAACTAAATGTTAGAGG
3821286 ATTGTATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (32 bp):
GACCATATTACAAACGAACTAAATGTTAGAGG
Found at i:3824200 original size:35 final size:35
Alignment explanation
Indices: 3824126--3824193 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
3824116 TTAATGTTCA
3824126 AAATTCCAAAACACTTCAATTACATTCTAAACCTC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCTC
* * *
3824161 AAATTCCAAAATACTTTAATTATATTCTAAACC
1 AAATTCCAAAACACTTCAATTACATTCTAAACC
3824194 CTAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCTC
Found at i:3824251 original size:35 final size:35
Alignment explanation
Indices: 3824205--3824272 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
3824195 TAAATTTAAG
* *
3824205 TATTTTAGAATTTGGGGTTTAAAATGTAATTGAAT
1 TATTTTAGAATTTAGGGTTTAAAATGGAATTGAAT
3824240 TATTTTAGAATTTAGGGTTTAAAATGGAATTGA
1 TATTTTAGAATTTAGGGTTTAAAATGGAATTGA
3824273 GAACTGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (35 bp):
TATTTTAGAATTTAGGGTTTAAAATGGAATTGAAT
Found at i:3826413 original size:14 final size:14
Alignment explanation
Indices: 3826394--3826420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3826384 TTTCTTTGTT
3826394 TATATATCTATATC
1 TATATATCTATATC
3826408 TATATATCTATAT
1 TATATATCTATAT
3826421 ACATGTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATCTATATC
Found at i:3828514 original size:48 final size:48
Alignment explanation
Indices: 3828456--3828550 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
3828446 ATAGTTACAT
*
3828456 ACTACCTTAGTTTAGAAAGCTTTGGATGACTCCTAGAATAATTCCTTC
1 ACTACCTTAGTTTAGAAAACTTTGGATGACTCCTAGAATAATTCCTTC
3828504 ACTACCTTAGTTTAGAAAACTTTGGATGACTCCTAGAATAATTCCTT
1 ACTACCTTAGTTTAGAAAACTTTGGATGACTCCTAGAATAATTCCTT
3828551 ATGTGCAGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (48 bp):
ACTACCTTAGTTTAGAAAACTTTGGATGACTCCTAGAATAATTCCTTC
Found at i:3829201 original size:46 final size:46
Alignment explanation
Indices: 3829137--3829230 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
3829127 TGAGTATGCT
3829137 AAACATTCAGAGAATAGCAATGTTAAGGAATCAACATTGCCAACTA
1 AAACATTCAGAGAATAGCAATGTTAAGGAATCAACATTGCCAACTA
3829183 AAACATTCAGAGAATAGCAATGTTAAGGAATCAACATTGCCAACTA
1 AAACATTCAGAGAATAGCAATGTTAAGGAATCAACATTGCCAACTA
3829229 AA
1 AA
3829231 CCAGTAATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (46 bp):
AAACATTCAGAGAATAGCAATGTTAAGGAATCAACATTGCCAACTA
Found at i:3832306 original size:14 final size:14
Alignment explanation
Indices: 3832287--3832318 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3832277 AGCTATAGTA
3832287 TATTATCATAAATT
1 TATTATCATAAATT
*
3832301 TATTATCATAACTT
1 TATTATCATAAATT
3832315 TATT
1 TATT
3832319 TCAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATCATAAATT
Found at i:3832516 original size:27 final size:27
Alignment explanation
Indices: 3832455--3832528 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
3832445 AATTTTGTAA
* * * *
3832455 AAAAATTATATAAAT-TTTATAAATTT
1 AAAAATAATAAAAATATATATAAATTG
**
3832481 AAATTTAATAAAAATATATATAAATTG
1 AAAAATAATAAAAATATATATAAATTG
3832508 AAAAATAATACAATAATATAT
1 AAAAATAATA-AA-AATATAT
3832529 TTTCTATGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 11 0.30
27 17 0.46
28 2 0.05
29 7 0.19
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAAATAATAAAAATATATATAAATTG
Done.