Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 60 of 91
Found at i:13776149 original size:119 final size:119
Alignment explanation
Indices: 13775934--13776149 Score: 292
Period size: 119 Copynumber: 1.8 Consensus size: 119
13775924 ACTATTTTCT
* *
13775934 ATTTATTGCTATTATTCAAGCCAAACTCGTGGTGACCCGATCCGAGGTATAATCCATATTATTTT
1 ATTTATTACTATTATTCAAGCCAAACTCGTGGTGACCCGATCCGAGGTATAATCCACATTATTTT
*
13775999 GGTATGGACTCTATTAACATCTAACCACTAACCGTTAACCACTAACCACTAACA
66 GGTATGGACTATATTAACATCTAACCACTAACCGTTAACCACTAACCACTAACA
* * * *
13776053 ATTTATTACTATTATTCGAA-CCGAACTTGTGGTGACCCGATCCGGGGTATGATCCACATTATTA
1 ATTTATTACTATTATTC-AAGCCAAACTCGTGGTGACCCGATCCGAGGTATAATCCACATTATT-
* * * * *
13776117 TT-GTCTGGAGTATGTTAGCATCTAACCGCTAAC
64 TTGGTATGGACTATATTAACATCTAACCACTAAC
13776150 TTGTGATTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 79 0.95
120 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (119 bp):
ATTTATTACTATTATTCAAGCCAAACTCGTGGTGACCCGATCCGAGGTATAATCCACATTATTTT
GGTATGGACTATATTAACATCTAACCACTAACCGTTAACCACTAACCACTAACA
Found at i:13777966 original size:18 final size:18
Alignment explanation
Indices: 13777943--13777978 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13777933 CACCAAAGAC
*
13777943 CAATATCTTTTACTTTTA
1 CAATATATTTTACTTTTA
*
13777961 CAATATATTTTCCTTTTA
1 CAATATATTTTACTTTTA
13777979 ACTTTTTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
CAATATATTTTACTTTTA
Found at i:13780642 original size:13 final size:13
Alignment explanation
Indices: 13780620--13780656 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13780610 ATTTTAAAAG
*
13780620 TCGAGAAATCGAC
1 TCGAGTAATCGAC
*
13780633 TCGAGTAATCGAT
1 TCGAGTAATCGAC
13780646 TCGAGTAATCG
1 TCGAGTAATCG
13780657 GGCATCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (13 bp):
TCGAGTAATCGAC
Found at i:13780872 original size:23 final size:21
Alignment explanation
Indices: 13780809--13780877 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 21
13780799 AAACTTAATT
* *
13780809 AAAAAAATAAAACAACAAATAAT
1 AAAAAAATAAAA-AA-ACATAAG
13780832 AAAAAACAGTAAAAAAACATAAG
1 AAAAAA-A-TAAAAAAACATAAG
13780855 ATAAAAAATAAAATAAACATAAG
1 A-AAAAAATAAAA-AAACATAAG
13780878 TACAAGGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 5 0.12
23 22 0.55
24 8 0.20
25 5 0.12
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAAAAATAAAAAAACATAAG
Found at i:13781334 original size:111 final size:109
Alignment explanation
Indices: 13781094--13781293 Score: 274
Period size: 109 Copynumber: 1.8 Consensus size: 109
13781084 GTGACCAAAA
* * *
13781094 TGCAAAAACACAACAAAGTTTGGGGGATCTGGAATAAGATATTACCAAAAATACAAAGGATACAG
1 TGCAAAAACACGACAAAGTTTGGGGGACCTGGAATAAGATATTACCAAAAATACAAAGCATACAG
* * * * *
13781159 TAAAATGGGAATATTGTGAAAATAATACGTGAAAGTGACTATTC
66 TAAAATGGGAAAATTATAAAAACAATACCTGAAAGTGACTATTC
* * *
13781203 TGCAAAAGCACGACAAAGTTTGGGGGACCTGGAATGAGATTTTACCAAAAAAATACAAAGCATAC
1 TGCAAAAACACGACAAAGTTTGGGGGACCTGGAATAAGATATTACC--AAAAATACAAAGCATAC
*
13781268 AGTAAAATGGTAAAATTATAAAAACA
64 AGTAAAATGGGAAAATTATAAAAACA
13781294 GTCCCTTCCA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 41 0.53
111 37 0.47
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (109 bp):
TGCAAAAACACGACAAAGTTTGGGGGACCTGGAATAAGATATTACCAAAAATACAAAGCATACAG
TAAAATGGGAAAATTATAAAAACAATACCTGAAAGTGACTATTC
Found at i:13782567 original size:59 final size:59
Alignment explanation
Indices: 13782503--13782614 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 59
13782493 GAGGCGTCAC
* *
13782503 TGATTCGAAGTGTTATGAATCGAGCAAAGGAAATATGAACCCCTTTGGTGGGGTATTGG
1 TGATTCGAAGTGTTATGAATCGAGCAAAGGAAATATGAACCCCTCTAGTGGGGTATTGG
* * * * *
13782562 TGATTCGAAGTGTTGTGAATCGAGTAAAGGTAATGTTAACCCCTCTAGTGGGG
1 TGATTCGAAGTGTTATGAATCGAGCAAAGGAAATATGAACCCCTCTAGTGGGG
13782615 CGTTGTTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.29
Consensus pattern (59 bp):
TGATTCGAAGTGTTATGAATCGAGCAAAGGAAATATGAACCCCTCTAGTGGGGTATTGG
Found at i:13782704 original size:39 final size:39
Alignment explanation
Indices: 13782636--13783114 Score: 642
Period size: 39 Copynumber: 12.4 Consensus size: 39
13782626 TTAAGAAAAA
* * *
13782636 ATCTCAAGTGAGAT-AAATCTTCTATTTTGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
13782674 ATCTCAAGCGAGATAAAATCTTCTGTTTTGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
13782713 ATCTCAAGCGATATAAAATCTT-TCGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCT-GTTTCGAGTGAAACT
* *
13782752 ATCTCAAGAGAGATAAAATCTTCTGTTTCGAGTAAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
13782791 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
** *
13782830 ATCTCAATTGAGATAAAATCTTCTGTTTCGAGTGAAATT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
** * *
13782869 ATCTCAAGCGAGATCTAATATTCTGTTTCGAGTGAAACG
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * * *
13782908 ATCTCAAGCGAGATAAAATCTTATCTTTTGGGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * * *
13782947 ATCTCAAGCTAGATAAAATATTATGTTTCGAGTGAAATT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * *
13782986 ATCTCGAGCAAGATAAAATCTTATGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * * *
13783025 ATCTCGAGTGAGATAAAATCTTATGTTTCAAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* *
13783064 ATCTCCAGCAAGAT-AAATCTTCTGTTT-GAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
13783101 ATCTCAAGCGAGAT
1 ATCTCAAGCGAGAT
13783115 GTTGATCCCT
Statistics
Matches: 391, Mismatches: 47, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
37 21 0.05
38 26 0.07
39 343 0.88
40 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
Found at i:13782822 original size:20 final size:20
Alignment explanation
Indices: 13782761--13782861 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
13782751 TATCTCAAGA
13782761 GAGATAAAATCTTCTGTTTC
1 GAGATAAAATCTTCTGTTTC
****
13782781 GAG-TAAAA-CTATCTCAAGC
1 GAGATAAAATCT-TCTGTTTC
13782800 GAGATAAAATCTTCTGTTTC
1 GAGATAAAATCTTCTGTTTC
* **
13782820 GAG-TGAAA-CTATCTCAATT-
1 GAGATAAAATCT-TCT-GTTTC
13782839 GAGATAAAATCTTCTGTTTC
1 GAGATAAAATCTTCTGTTTC
13782859 GAG
1 GAG
13782862 TGAAATTATC
Statistics
Matches: 59, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
18 4 0.07
19 24 0.41
20 27 0.46
21 4 0.07
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (20 bp):
GAGATAAAATCTTCTGTTTC
Found at i:13783604 original size:54 final size:53
Alignment explanation
Indices: 13783365--13783614 Score: 197
Period size: 54 Copynumber: 4.6 Consensus size: 53
13783355 TTTCAGTTAT
* * * * *
13783365 CATCAAGAAACCCCCAAAAATTAGGTTTAGCTTCTTTAAAAAGTC-C-TTGGAAATAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAG-TT-TCTAAAAA-TCTCATTTG-AA-AA
*
13783421 TCATCAAGAAACCCCT-GAAATCAGGCTTAGTTTCTAAAAA-CTCATTT-AAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAATCTCATTTGAAAA
* * * * * *
13783472 CATCAAAAAACCCCCTAAAAATTAGTCTTAGCATCTTTTAAAAAT-TCATTGGAACTCAT
1 CATCAAGAAA-CCCCTAAAAATCAGGCTTAG--T-TTCTAAAAATCTCATTTGAA---AA
13783531 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAAATCTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCT-AAAAATCTCATTTGAAAA
* * *
13783585 CAACAAGAAACTCCTAAAAATTAGGCTTAG
1 CATCAAGAAACCCCTAAAAATCAGGCTTAG
13783615 CATCTCTTAA
Statistics
Matches: 157, Mismatches: 22, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
50 9 0.06
51 7 0.04
52 14 0.09
53 1 0.01
54 38 0.24
55 18 0.11
56 20 0.13
57 22 0.14
58 18 0.11
59 10 0.06
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (53 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAATCTCATTTGAAAA
Found at i:13783625 original size:112 final size:107
Alignment explanation
Indices: 13783368--13783633 Score: 352
Period size: 112 Copynumber: 2.4 Consensus size: 107
13783358 CAGTTATCAT
* * * * *
13783368 CAAGAAACCCCCAAAAATTAGGTTTAGCTTCTTTAAAAAGTCCTTGGAAATAATCATCAAGAAAC
1 CAAGAAACCCCTAAAAATTAGGCTTAGCATCTTTAAAAATTCATTGGAAATAATCATCAAGAAAC
* *
13783433 CCCTGAAATCAGGCTTAGTTTCTAAAAACTCATTTAAAACAT
66 CCCTAAAATCAGGCTTAGTTTCTAAAAACTCATTTAAAACAA
* * * *
13783475 CAAAAAACCCCCTAAAAATTAGTCTTAGCATCTTTTAAAAATTCATTGGAACTCATCATCAAGAA
1 CAAGAAA-CCCCTAAAAATTAGGCTTAGCATC-TTTAAAAATTCATTGGAAATAATCATCAAGAA
13783540 ACCCCTAAAAATCAGGCTTAGTTTCTAAAAAATCTCATTTGAAAACAA
64 ACCCCT-AAAATCAGGCTTAGTTTCT-AAAAA-CTCATTT-AAAACAA
* *
13783588 CAAGAAACTCCTAAAAATTAGGCTTAGCATCTCTTAAAAGTTCATT
1 CAAGAAACCCCTAAAAATTAGGCTTAGCATCT-TTAAAAATTCATT
13783634 TTAAAATATC
Statistics
Matches: 137, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
107 6 0.04
108 20 0.15
109 34 0.25
110 18 0.13
111 6 0.04
112 41 0.30
113 12 0.09
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (107 bp):
CAAGAAACCCCTAAAAATTAGGCTTAGCATCTTTAAAAATTCATTGGAAATAATCATCAAGAAAC
CCCTAAAATCAGGCTTAGTTTCTAAAAACTCATTTAAAACAA
Found at i:13785930 original size:2 final size:2
Alignment explanation
Indices: 13785923--13785954 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13785913 GGGACAAGGG
13785923 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
13785955 TTGAAAGGAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13799625 original size:8 final size:7
Alignment explanation
Indices: 13799605--13799662 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
13799595 ATCGATTTTC
*
13799605 TTTCTTG
1 TTTCTTT
13799612 TTTCTTT
1 TTTCTTT
13799619 CTTTC--T
1 -TTTCTTT
*
13799625 TTTCATT
1 TTTCTTT
13799632 TTTCTTT
1 TTTCTTT
13799639 TTTCATTT
1 TTTC-TTT
*
13799647 TTTCATT
1 TTTCTTT
13799654 TTTCTTT
1 TTTCTTT
13799661 TT
1 TT
13799663 CACTTTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 4 0.09
6 1 0.02
7 27 0.63
8 11 0.26
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (7 bp):
TTTCTTT
Found at i:13799643 original size:14 final size:14
Alignment explanation
Indices: 13799624--13799670 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
13799614 TCTTTCTTTC
*
13799624 TTTTCATTTTTCTT
1 TTTTCATTTTTCAT
13799638 TTTTCATTTTTTCAT
1 TTTTCA-TTTTTCAT
13799653 TTTTC-TTTTTCACT
1 TTTTCATTTTTCA-T
13799667 TTTT
1 TTTT
13799671 TGTGTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 7 0.23
14 11 0.37
15 12 0.40
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCATTTTTCAT
Found at i:13799652 original size:22 final size:22
Alignment explanation
Indices: 13799624--13799671 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
13799614 TCTTTCTTTC
13799624 TTTTCATTTTTCTTTTTTCA-TT
1 TTTTCATTTTTC-TTTTTCACTT
13799646 TTTTCATTTTTCTTTTTCACTT
1 TTTTCATTTTTCTTTTTCACTT
13799668 TTTT
1 TTTT
13799672 GTGTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCATTTTTCTTTTTCACTT
Found at i:13799668 original size:8 final size:7
Alignment explanation
Indices: 13799624--13799670 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
13799614 TCTTTCTTTC
13799624 TTTTCAT
1 TTTTCAT
*
13799631 TTTTCTT
1 TTTTCAT
13799638 TTTTCATT
1 TTTTCA-T
13799646 TTTTCAT
1 TTTTCAT
13799653 TTTTC-T
1 TTTTCAT
13799659 TTTTCACT
1 TTTTCA-T
13799667 TTTT
1 TTTT
13799671 TGTGTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 6 0.17
7 17 0.49
8 12 0.34
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTCAT
Found at i:13801032 original size:22 final size:22
Alignment explanation
Indices: 13801007--13801048 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13800997 TAAATATACT
13801007 AATGCAAAAATGAAAAAATGCA
1 AATGCAAAAATGAAAAAATGCA
* *
13801029 AATGCAAAGATGCAAAAATG
1 AATGCAAAAATGAAAAAATG
13801049 GGAGTGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.14
Consensus pattern (22 bp):
AATGCAAAAATGAAAAAATGCA
Found at i:13801041 original size:8 final size:8
Alignment explanation
Indices: 13801007--13801048 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
13800997 TAAATATACT
13801007 AATGCAAA
1 AATGCAAA
*
13801015 AATGAAAA
1 AATGCAAA
13801023 AATGC--A
1 AATGCAAA
13801029 AATGCAAA
1 AATGCAAA
*
13801037 GATGCAAA
1 AATGCAAA
13801045 AATG
1 AATG
13801049 GGAGTGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
8 22 0.79
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.14
Consensus pattern (8 bp):
AATGCAAA
Found at i:13804927 original size:21 final size:23
Alignment explanation
Indices: 13804901--13804944 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
13804891 ACAAATAATA
*
13804901 ATAAAAAATTAAA-A-ACATAAG
1 ATAAAAAATAAAATATACATAAG
13804922 ATAAAAAATAAAATATACATAAG
1 ATAAAAAATAAAATATACATAAG
13804945 TACAAGGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (23 bp):
ATAAAAAATAAAATATACATAAG
Found at i:13805039 original size:51 final size:49
Alignment explanation
Indices: 13804970--13805084 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 49
13804960 GAATAAAATA
* * *
13804970 AAATAATAGTGACTAAAATTCAAGAAAATAAAAGT-TAGTAGTTAAATAAG
1 AAATAATAGTGACAAAAATGCAA-AAAATAAAA-TATAGTAGCTAAATAAG
* *
13805020 AAATAAATAGTGACAAAAATGCAAAAATTAAAATAATAGTAGCTAAATCAG
1 AAAT-AATAGTGACAAAAATGCAAAAAATAAAAT-ATAGTAGCTAAATAAG
*
13805071 AAATTAATGGTGAC
1 AAA-TAATAGTGAC
13805085 TAAATTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
49 1 0.02
50 12 0.22
51 41 0.75
52 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.24
Consensus pattern (49 bp):
AAATAATAGTGACAAAAATGCAAAAAATAAAATATAGTAGCTAAATAAG
Found at i:13807262 original size:7 final size:7
Alignment explanation
Indices: 13807252--13807290 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
13807242 TTTTTTTTTT
13807252 TTTTGTA
1 TTTTGTA
13807259 TTTTGTA
1 TTTTGTA
13807266 TTTTGTA
1 TTTTGTA
*
13807273 TTTTGTT
1 TTTTGTA
*
13807280 TTTTGTG
1 TTTTGTA
13807287 TTTT
1 TTTT
13807291 TCTTTCTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (7 bp):
TTTTGTA
Found at i:13807262 original size:14 final size:14
Alignment explanation
Indices: 13807245--13807290 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
13807235 TCTTTTCTTT
*
13807245 TTTTTTTTTTTGTA
1 TTTTGTTTTTTGTA
*
13807259 TTTTGTATTTTGTA
1 TTTTGTTTTTTGTA
*
13807273 TTTTGTTTTTTGTG
1 TTTTGTTTTTTGTA
13807287 TTTT
1 TTTT
13807291 TCTTTCTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.80
Consensus pattern (14 bp):
TTTTGTTTTTTGTA
Found at i:13807269 original size:21 final size:21
Alignment explanation
Indices: 13807245--13807291 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13807235 TCTTTTCTTT
*
13807245 TTTTTTTTTTTGTATTTTGTA
1 TTTTTTATTTTGTATTTTGTA
* * *
13807266 TTTTGTATTTTGTTTTTTGTG
1 TTTTTTATTTTGTATTTTGTA
13807287 TTTTT
1 TTTTT
13807292 CTTTCTATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (21 bp):
TTTTTTATTTTGTATTTTGTA
Found at i:13811525 original size:109 final size:109
Alignment explanation
Indices: 13811325--13811555 Score: 245
Period size: 109 Copynumber: 2.1 Consensus size: 109
13811315 TACGATAAAA
* * * *
13811325 TTTGGGGG-ACTTGGAATGAGATTTTACCAAAAAATACAATGCATATAGTAAAATGGGAAAAATT
1 TTTGGGGGAACTTAGAATGAGATTTTACCAAAAAATACAAAGCATACAATAAAATGGGAAAAATT
* * * * *
13811389 GAAAATAGTCCTTGAAAGTGACTATTTTGCAAAAACACAGCAAAG
66 AAAAACAGTCCTT-AAAGTCACCATTTTACAAAAACACAGCAAAG
* * *
13811434 TTTGGGGGAAC-TAGAATGATATTTTACCTAAAAATACAAAGCATACAATAAAATGGGAAAATTA
1 TTTGGGGGAACTTAGAATGAGATTTTACCAAAAAATACAAAGCATACAATAAAATGGGAAAAAT-
* * * ** *
13811498 TAAAAACGGTTCCTT-CAGTCACCATTTTATAAAAACATGGGAAAG
65 TAAAAACAG-TCCTTAAAGTCACCATTTTACAAAAACACAGCAAAG
13811543 TTTGGGGG-ACTTA
1 TTTGGGGGAACTTA
13811556 AAACGTGATT
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
108 2 0.02
109 85 0.85
110 8 0.08
111 5 0.05
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (109 bp):
TTTGGGGGAACTTAGAATGAGATTTTACCAAAAAATACAAAGCATACAATAAAATGGGAAAAATT
AAAAACAGTCCTTAAAGTCACCATTTTACAAAAACACAGCAAAG
Found at i:13812483 original size:18 final size:18
Alignment explanation
Indices: 13812457--13812491 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13812447 AAAAGTTACT
*
13812457 TTAATAAAGTACTCTACC
1 TTAACAAAGTACTCTACC
*
13812475 TTAACAAAGTTCTCTAC
1 TTAACAAAGTACTCTAC
13812492 TTTTAATCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAACAAAGTACTCTACC
Found at i:13816720 original size:18 final size:18
Alignment explanation
Indices: 13816689--13816723 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13816679 CTACAATTTA
*
13816689 CTTTTCTTATTTTTATTG
1 CTTTTCTTACTTTTATTG
*
13816707 CTTTTGTTACTTTTATT
1 CTTTTCTTACTTTTATT
13816724 TTATTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.71
Consensus pattern (18 bp):
CTTTTCTTACTTTTATTG
Found at i:13816808 original size:31 final size:31
Alignment explanation
Indices: 13816770--13816837 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
13816760 TTTTTAGTAT
13816770 AATTATCAAGGAAAATGATCAATTATTTGAC
1 AATTATCAAGGAAAATGATCAATTATTTGAC
13816801 AATTATCAAGGAAAATGATCAATTATTTGAC
1 AATTATCAAGGAAAATGATCAATTATTTGAC
13816832 AATTAT
1 AATTAT
13816838 GATTCTTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.34
Consensus pattern (31 bp):
AATTATCAAGGAAAATGATCAATTATTTGAC
Found at i:13821987 original size:19 final size:18
Alignment explanation
Indices: 13821948--13821988 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13821938 GTATTTTGTC
*
13821948 ATTTTAATAAAAATATTA
1 ATTTTAATAAAAATATAA
*
13821966 ATTTTAATTAAAATAATAA
1 ATTTTAATAAAAAT-ATAA
13821985 ATTT
1 ATTT
13821989 GAGGTCTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAATAAAAATATAA
Found at i:13823529 original size:33 final size:33
Alignment explanation
Indices: 13823492--13823570 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
13823482 ATAAGCCTTT
*
13823492 CAAAACAAAACCCCTTTTCCTTTTAAACCCAGA
1 CAAAACATAACCCCTTTTCCTTTTAAACCCAGA
13823525 CAAAACATAACCCCTTTTCCTTTTAAACCCAGA
1 CAAAACATAACCCCTTTTCCTTTTAAACCCAGA
13823558 CAAAACATAACCC
1 CAAAACATAACCC
13823571 TAAACAGCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.23
Consensus pattern (33 bp):
CAAAACATAACCCCTTTTCCTTTTAAACCCAGA
Found at i:13824979 original size:135 final size:135
Alignment explanation
Indices: 13824810--13825557 Score: 862
Period size: 136 Copynumber: 5.5 Consensus size: 135
13824800 TTGGAATACT
* * * *
13824810 AAATCTGAAAAAAGAATAATATGCTCAACTACTCTTTAGGGGAGGTCAGACTCGA-AAAAATTTT
1 AAATCTGAAAAAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAAACTTT
* * * *
13824874 GATTCACTTTGCTGCTCTTTAGGGAAGATTGAATCGAATGTGATTTGCTTCGCTGTTCTTCAAGA
66 GATTCACTTTGCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAGGA
*
13824939 ATACC
131 AGACC
* * * * * * * ** *
13824944 AAATTTGAAAGAAAAAAGAATATGCTCCGCTACTCTATAGGGTAGATCAGACTTTAGAATAA-TT
1 AAATCTGAAA-AAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAAACTT
** * * *
13825008 TGATTCACTTCCCTGCTCTCCAGGGAAGATTGAATCGGATTGTGATTTGCTTCACTGCTCTTTAG
65 TGATTCACTTTGCTGCTCTTCAGGGAAGATTGAATC-GAATGTGATTTGCTTCACTGCTCTTCAG
*
13825073 GAAGATC
129 GAAGACC
* * * *
13825080 AGATCTGTAATAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGATG--AAACTT
1 AAATCTGAAAAAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGA-GAAAAACTT
* * *
13825143 TGATTCACTTCGCTGCTCTTCAGGGAAGATTCAATCGGATGTGATTTGCTTCACTGCTCTTCAGG
65 TGATTCACTTTGCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAGG
*
13825208 AAGATC
130 AAGACC
* *** * *
13825214 AAATCTGAAAAAAGAAGAAATCTACTCTGTTACTCTTTAAGGGAGGTCAGACTCGAGAAAAAATT
1 AAATCTGAAAAAAGAAG-AATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAAACTT
* * *
13825279 TGATCCACTTAT-CTACTCTTCAGGGAAGATTGAATCGAATGTGATATGCTTCACTGCTCTTCAG
65 TGATTCACTT-TGCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAG
*
13825343 GAAAACC
129 GAAGACC
* * * * *
13825350 AAATTTGAAAGAATA-AAAAATCTCCTCCGCTACTCTTTAGGGGAGGTCAGACTTGAGAAAAACT
1 AAATCTGAAA-AA-AGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAAACT
* * * * *
13825414 TTGATTCAATTTTCTGCTCTTCATGAAAGATTGAATCGAATGTGATTTGATTCACTGCTCTTCAG
64 TTGATTCACTTTGCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAG
13825479 GAAGACC
129 GAAGACC
* * * * *
13825486 AAGTCTGATAAAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTTAGACTCGAG-AGAATTTT
1 AAATCTGAAAAAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAAACTTT
13825550 GATTCACT
66 GATTCACT
13825558 CCACCACTCT
Statistics
Matches: 515, Mismatches: 86, Indels: 26
0.82 0.14 0.04
Matches are distributed among these distances:
134 72 0.14
135 213 0.41
136 225 0.44
137 4 0.01
138 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (135 bp):
AAATCTGAAAAAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAAACTTT
GATTCACTTTGCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAGGA
AGACC
Found at i:13827705 original size:64 final size:63
Alignment explanation
Indices: 13827637--13827817 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
13827627 TTGGAACACT
* **
13827637 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
*** * **
13827701 TGATGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * *
13827765 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
13827818 CAATTAATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
64 54 0.55
65 44 0.45
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:13827789 original size:19 final size:19
Alignment explanation
Indices: 13827765--13827815 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
13827755 GAAAATATTC
13827765 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
13827784 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
13827803 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
13827816 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:13827857 original size:65 final size:64
Alignment explanation
Indices: 13827659--13827866 Score: 221
Period size: 65 Copynumber: 3.2 Consensus size: 64
13827649 GCACCAAGTG
* *
13827659 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGT-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGTAC-TG
13827723 -
64 A
* *
13827723 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGTACT
13827785 GA
63 GA
* * * *
13827787 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGTACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGTACT
13827851 GA
63 GA
*
13827853 TGCATCGGTGCATG
1 TGCATCGATGCATG
13827867 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 10, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
63 10 0.08
64 45 0.37
65 64 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGTACTGA
Found at i:13834301 original size:22 final size:21
Alignment explanation
Indices: 13834259--13834298 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13834249 GAGTTTGTTT
*
13834259 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
13834280 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
13834299 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:13836292 original size:64 final size:65
Alignment explanation
Indices: 13836224--13836346 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 65
13836214 TTGGAACACT
* *
13836224 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCC
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATAGCC
*****
13836288 TGATGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAA
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAA
13836347 TATTCAGAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 43 0.84
65 8 0.16
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (65 bp):
TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAATAGCC
Found at i:13836347 original size:64 final size:65
Alignment explanation
Indices: 13836244--13836369 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 65
13836234 GTGCACCAAG
* *
13836244 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGA-TGCATCGATGCATGTCT
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAGTGCATCGATGCATGTCT
**
13836308 TGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 TGTGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGAGTGCATCGATGCATG
13836370 GAGAGTGCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 38 0.68
65 18 0.32
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (65 bp):
TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGAGTGCATCGATGCATGTCT
Found at i:13836376 original size:19 final size:19
Alignment explanation
Indices: 13836352--13836390 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13836342 GAAAATATTC
13836352 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
13836371 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
13836390 A
1 A
13836391 ATGAATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:13836378 original size:65 final size:64
Alignment explanation
Indices: 13836245--13836387 Score: 180
Period size: 64 Copynumber: 2.2 Consensus size: 64
13836235 TGCACCAAGT
* * ****
13836245 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGTCTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
**
13836309 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
13836373 A
64 A
*
13836374 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
13836388 GGAATGAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 37 0.54
65 31 0.46
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:13836403 original size:65 final size:65
Alignment explanation
Indices: 13836245--13836404 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 65
13836235 TGCACCAAGT
* ****
13836245 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGTCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
13836309 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
13836373 A
65 A
* * * *
13836374 GTGCATCGGTGCATGGAATGAATTTGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
13836405 CAATTAATTC
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 37 0.46
65 44 0.54
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:13849850 original size:13 final size:13
Alignment explanation
Indices: 13849788--13849855 Score: 91
Period size: 13 Copynumber: 5.2 Consensus size: 13
13849778 TGCGTCATAA
**
13849788 ATTTATGACGCAC
1 ATTTATGACGTGC
*
13849801 ATTTATGACATGC
1 ATTTATGACGTGC
*
13849814 ATTTATGACGCGC
1 ATTTATGACGTGC
13849827 ATTTATGACGTGC
1 ATTTATGACGTGC
*
13849840 ATTTATGACGTTC
1 ATTTATGACGTGC
13849853 ATT
1 ATT
13849856 GCGCATCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (13 bp):
ATTTATGACGTGC
Found at i:13849855 original size:26 final size:26
Alignment explanation
Indices: 13849788--13849849 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
13849778 TGCGTCATAA
13849788 ATTTATGACGCACATTTATGACATGC
1 ATTTATGACGCACATTTATGACATGC
* *
13849814 ATTTATGACGCGCATTTATGACGTGC
1 ATTTATGACGCACATTTATGACATGC
13849840 ATTTATGACG
1 ATTTATGACG
13849850 TTCATTGCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTTATGACGCACATTTATGACATGC
Found at i:13849974 original size:85 final size:84
Alignment explanation
Indices: 13849827--13849992 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 84
13849817 TATGACGCGC
** * *
13849827 ATTTATGACGTGCATTTATGACGTTCATTGCGCATCATTGAAGCCCCCATCATAAATGAAGATGA
1 ATTTATGACACGCATTTATGACGTTCATTGCGCATCATTGAAGCACACATCATAAA-GAAGATGA
*
13849892 CACACATTTGTGTGTCATAA
65 CACACATTCGTGTGTCATAA
** *
13849912 ATTTATGACACGCATTTATGAC-TTACATTGCGTGTCATTGAAGCACACGTCATTAGAA-AAGAT
1 ATTTATGACACGCATTTATGACGTT-CATTGCGCATCATTGAAGCACACATCA-TA-AAGAAGAT
*
13849975 GACATACATTCGTGTGTC
63 GACACACATTCGTGTGTC
13849993 GCGATTGTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 2 0.03
85 63 0.91
86 2 0.03
87 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (84 bp):
ATTTATGACACGCATTTATGACGTTCATTGCGCATCATTGAAGCACACATCATAAAGAAGATGAC
ACACATTCGTGTGTCATAA
Found at i:13850021 original size:2 final size:2
Alignment explanation
Indices: 13850014--13850045 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13850004 TCATAAATTA
13850014 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
13850046 TGTAGATTGA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13852720 original size:17 final size:17
Alignment explanation
Indices: 13852698--13852734 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13852688 TCGACCAATA
13852698 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
13852715 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
13852732 GAA
1 GAA
13852735 AGATAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.32
Consensus pattern (17 bp):
GAAGTATAGATTAATGT
Found at i:13853083 original size:2 final size:2
Alignment explanation
Indices: 13853078--13853111 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13853068 AATGAAATCA
13853078 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
13853112 GTCTAATATC
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:13860699 original size:24 final size:24
Alignment explanation
Indices: 13860672--13860717 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
13860662 GCATGACATG
13860672 GTACATAGATGTTTTATACATCGT
1 GTACATAGATGTTTTATACATCGT
13860696 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTTTATACATC
13860718 ATATGGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCGT
Found at i:13861482 original size:22 final size:23
Alignment explanation
Indices: 13861446--13861496 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
13861436 ATCGATGCAA
13861446 TGTTCACGGGTACTGTTCATAAC
1 TGTTCACGGGTACTGTTCATAAC
*
13861469 TGTTCAC-GGTACTGTTCATCAC
1 TGTTCACGGGTACTGTTCATAAC
*
13861491 TATTCA
1 TGTTCA
13861497 TAAAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (23 bp):
TGTTCACGGGTACTGTTCATAAC
Found at i:13869000 original size:32 final size:32
Alignment explanation
Indices: 13868959--13869023 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13868949 TCGTCGAACT
13868959 AGTGTTTGATATTCGAACTAGTGCTTAAAAGC
1 AGTGTTTGATATTCGAACTAGTGCTTAAAAGC
13868991 AGTGTTTGATATTCGAACTAGTGCTTAAAAGC
1 AGTGTTTGATATTCGAACTAGTGCTTAAAAGC
13869023 A
1 A
13869024 ACAACAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
AGTGTTTGATATTCGAACTAGTGCTTAAAAGC
Found at i:13869843 original size:21 final size:19
Alignment explanation
Indices: 13869819--13869857 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
13869809 ACATGGGTCG
*
13869819 TCATTTAATTAGAGATTAAAT
1 TCATTAAATT-GA-ATTAAAT
13869840 TCATTAAATTGAATTAAA
1 TCATTAAATTGAATTAAA
13869858 ATTATGACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
TCATTAAATTGAATTAAAT
Found at i:13870736 original size:22 final size:22
Alignment explanation
Indices: 13870708--13870793 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
13870698 TCTACATATA
13870708 ACTAAAGTGCCTTAGTACTGGT
1 ACTAAAGTGCCTTAGTACTGGT
13870730 ACTAAAGTGCCTTAGTACTGGT
1 ACTAAAGTGCCTTAGTACTGGT
** *
13870752 ACTAAAGTGCCCCAGTACTGAT
1 ACTAAAGTGCCTTAGTACTGGT
* * *
13870774 ACAAAAGTGCATTAATACTG
1 ACTAAAGTGCCTTAGTACTG
13870794 ATAGAAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (22 bp):
ACTAAAGTGCCTTAGTACTGGT
Found at i:13880774 original size:21 final size:21
Alignment explanation
Indices: 13880724--13880765 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
13880714 GAATCTACAG
*
13880724 AGAAAAAAAAG-AAAAAGAAA
1 AGAAAAAAAGGAAAAAAGAAA
13880744 AGAAAAAAAGGAAAAAAGAAA
1 AGAAAAAAAGGAAAAAAGAAA
13880765 A
1 A
13880766 AATATAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAGGAAAAAAGAAA
Found at i:13886039 original size:63 final size:62
Alignment explanation
Indices: 13885972--13886463 Score: 447
Period size: 63 Copynumber: 7.8 Consensus size: 62
13885962 TCCAAGTTCA
*
13885972 CGTTGCGA-TAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTAGTCGAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* * * * *
13886035 CGTTGCGATTTATTTC-AAATTCGTTGCGATTTATTTCAAATTCGTTGCGA--TAGTCCAAGTT
1 CGTTGCGA-TTA-GTCGAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* * * * *
13886096 CGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
1 --CGTTGCGA-TTAGTCGAAGTTCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAA
13886159 TT
61 TT
* * * * * *
13886161 CGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGA-TTAGTCGAAGTTCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATT
13886224 CGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTAGTCGAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* * * * *
13886287 CGTTACGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTAGTCGAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* **
13886348 CGCGTTGCGATTTA-TAAC-AAATTCGTTGCGATTTATAACAAATTCGTTGCGATTTATTCCAAA
1 --CGTTGCGA-TTAGT--CGAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAA
13886411 TT
61 TT
13886413 CGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
1 CGTTGCGATTAGTCGAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGAT
13886464 AGTCCAAAAT
Statistics
Matches: 365, Mismatches: 38, Indels: 52
0.80 0.08 0.11
Matches are distributed among these distances:
60 1 0.00
61 38 0.10
62 4 0.01
63 280 0.77
64 1 0.00
65 38 0.10
66 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (62 bp):
CGTTGCGATTAGTCGAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
Found at i:13886081 original size:105 final size:104
Alignment explanation
Indices: 13885972--13886400 Score: 680
Period size: 105 Copynumber: 4.1 Consensus size: 104
13885962 TCCAAGTTCA
* * * * * *
13885972 CGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT-C
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGTCGAAGTTCC
* *
13886036 GTTGCGATTTATTTCAAATTCGTTGCGATTTATTTCAAATT
64 GTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
13886077 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTC-CG
13886142 TTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
65 TTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
13886182 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTC-CG
13886247 TTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
65 TTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
* *
13886287 CGTTACGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTC-CG
** **
13886352 TTGCGATTTATAACAAATTCGTTGCGATTTATAACAAATT
65 TTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
13886392 CGTTGCGAT
1 CGTTGCGAT
13886401 TTATTCCAAA
Statistics
Matches: 307, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
103 8 0.03
105 299 0.97
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (104 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCCGT
TGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATT
Found at i:13886374 original size:21 final size:21
Alignment explanation
Indices: 13886350--13886421 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
13886340 TCGAAGTTCG
13886350 CGTTGCGATTTATAACAAATT
1 CGTTGCGATTTATAACAAATT
13886371 CGTTGCGATTTATAACAAATT
1 CGTTGCGATTTATAACAAATT
**
13886392 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATAACAAATT
13886413 CGTTGCGAT
1 CGTTGCGAT
13886422 AGTCGAAGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATAACAAATT
Found at i:13886464 original size:42 final size:40
Alignment explanation
Indices: 13886006--13886470 Score: 436
Period size: 42 Copynumber: 11.1 Consensus size: 40
13885996 TGTGATTTAT
* *
13886006 TCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGA--TAG
* * *
13886048 TTCAAATTCGTTGCGATTTATTTCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
13886088 TCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
13886130 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGA--TAG
* * * *
13886174 TCCAAATTCGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATTTATTCCAAATT--CGTTGCGA--TAG
* * * *
13886216 TCCAAGTTCGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATTTATTCCAAATT--CGTTGCGA--TAG
* *
13886258 TCCAAATTCGTTGCGATTTATTCCAAATTCGTTACGATAG
1 TCCAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
13886298 TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGATAG
* **
13886340 TCGAAGTTCGCGTTGCGATTTATAACAAATTCGTTGCGATTTA-
1 TCCAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGA--TAG
* *
13886383 TAACAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 T-CCAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
13886424 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTT--CGTTGCGATTTATTCCAAATTCGTTGCGATAG
13886466 TCCAA
1 TCCAA
13886471 AATCGCAACG
Statistics
Matches: 369, Mismatches: 38, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
40 31 0.08
41 1 0.00
42 314 0.85
43 1 0.00
44 22 0.06
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (40 bp):
TCCAAGTTCGTTGCGATTTATTCCAAATTCGTTGCGATAG
Found at i:13886569 original size:6 final size:6
Alignment explanation
Indices: 13886558--13886598 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
13886548 CACGTATTAT
* * *
13886558 CACGAC CACGAC CACTAC CACGAC CACGGC CACGGC CACGA
1 CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGA
13886599 GACGAGACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.29, C:0.49, G:0.20, T:0.02
Consensus pattern (6 bp):
CACGAC
Found at i:13887109 original size:6 final size:6
Alignment explanation
Indices: 13887098--13887122 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13887088 TCGCCTCGTC
13887098 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
13887123 AATACGTGTC
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:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:13887246 original size:21 final size:21
Alignment explanation
Indices: 13887221--13887331 Score: 93
Period size: 21 Copynumber: 5.3 Consensus size: 21
13887211 TTTGGAATAA
13887221 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
13887242 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
13887261 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
13887284 ATCGCAATGCAAACTT-GTAAA
1 ATCGCAACGCGAACTTCG-ACT
* *
13887305 ATTGCAACGCAAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
13887326 ATCGCA
1 ATCGCA
13887332 TTGCGATTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 9 0.13
20 1 0.01
21 49 0.71
22 1 0.01
23 9 0.13
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:13887254 original size:42 final size:43
Alignment explanation
Indices: 13887206--13887331 Score: 177
Period size: 42 Copynumber: 3.0 Consensus size: 43
13887196 ACCAGTTGTT
13887206 GCGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 GCGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
13887249 -CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 GCGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
* * * * *
13887291 TGCAAACTT-GTA-AAATTGCAACGCAAACTTCGACTATCGCA
1 -GCGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
13887332 TTGCGATTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
42 69 0.91
43 2 0.03
44 5 0.07
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (43 bp):
GCGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:13887372 original size:21 final size:21
Alignment explanation
Indices: 13887346--13887420 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
13887336 GATTTACATA
13887346 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
**
13887367 TTCGCATTGTAATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
13887388 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
13887409 TTCGCGTTGCGA
1 TTCGCATTGCGA
13887421 ATCTGAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:13889122 original size:21 final size:22
Alignment explanation
Indices: 13889096--13889142 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
13889086 TTTCTTCTTA
13889096 TTTTATATATT-TTATTTATC-T
1 TTTTATATATTATT-TTTATCAT
*
13889117 TTTTATTTATTATTTTTATCAT
1 TTTTATATATTATTTTTATCAT
13889139 TTTT
1 TTTT
13889143 CATTGCCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTATATATTATTTTTATCAT
Found at i:13889132 original size:13 final size:12
Alignment explanation
Indices: 13889097--13889135 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
13889087 TTCTTCTTAT
13889097 TTTATATATTTTA
1 TTTATAT-TTTTA
*
13889110 TTTATCTTTTTA
1 TTTATATTTTTA
13889122 TTTATTATTTTTA
1 TTTA-TATTTTTA
13889135 T
1 T
13889136 CATTTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:13889135 original size:25 final size:25
Alignment explanation
Indices: 13889082--13889132 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
13889072 CACGTGAGGA
13889082 TTATTTTCTTCTTATTTTATATATT
1 TTATTTTCTTCTTATTTTATATATT
*
13889107 TTATTTATCTTTTTA-TTTAT-TATT
1 TTATTT-TCTTCTTATTTTATATATT
13889131 TT
1 TT
13889133 TATCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 11 0.46
26 7 0.29
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TTATTTTCTTCTTATTTTATATATT
Found at i:13899412 original size:21 final size:21
Alignment explanation
Indices: 13899366--13899412 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
13899356 TTTTCTTCTT
* *
13899366 ATTTTATTTATTTTATTTATC
1 ATTTTATTTATGTTATTTACC
*
13899387 TTTTTATTTACTGTT-TTTACC
1 ATTTTATTTA-TGTTATTTACC
13899408 ATTTT
1 ATTTT
13899413 CCATTGCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATTTATGTTATTTACC
Found at i:13903658 original size:17 final size:17
Alignment explanation
Indices: 13903628--13903666 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13903618 ATCAAAGAGA
* * *
13903628 TAGTTTAATTAATGCAC
1 TAGTTAAATGAATGAAC
13903645 TAGTTAAATGAATGAAC
1 TAGTTAAATGAATGAAC
13903662 TAGTT
1 TAGTT
13903667 TAATTAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTAAATGAATGAAC
Found at i:13908039 original size:2 final size:2
Alignment explanation
Indices: 13908032--13908066 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13908022 GTAAGATGTA
13908032 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 A
13908067 ATAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13908072 original size:3 final size:3
Alignment explanation
Indices: 13908064--13908120 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
13908054 ATATATATAT
13908064 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13908112 ATA ATA ATA
1 ATA ATA ATA
13908121 TAGAATAAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13909453 original size:17 final size:17
Alignment explanation
Indices: 13909433--13909475 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
13909423 CAGTTTAATT
13909433 AATGAACTAGTTAAATG
1 AATGAACTAGTTAAATG
* * *
13909450 AATGAATTAGTTTAATT
1 AATGAACTAGTTAAATG
*
13909467 AAAGAACTA
1 AATGAACTA
13909476 ACTTTATTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (17 bp):
AATGAACTAGTTAAATG
Found at i:13915775 original size:43 final size:45
Alignment explanation
Indices: 13915697--13915780 Score: 102
Period size: 43 Copynumber: 1.9 Consensus size: 45
13915687 TGAGTAATAA
** *
13915697 CTCGAGTAGGTTAGTGGTTGGTGGTTATTAATTATTCATTAACAT
1 CTCGAGTAGGTTAGTGGTTGGTGGTTAGCAATTATTAATTAACAT
*
13915742 CTCG-GTAGGTT-GTGGTTGGTGGTT-GCAGGTTATTAATTA
1 CTCGAGTAGGTTAGTGGTTGGTGGTTAGCA-ATTATTAATTA
13915781 TCCATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.03
43 22 0.65
44 7 0.21
45 4 0.12
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.42
Consensus pattern (45 bp):
CTCGAGTAGGTTAGTGGTTGGTGGTTAGCAATTATTAATTAACAT
Found at i:13919081 original size:21 final size:21
Alignment explanation
Indices: 13919057--13919099 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13919047 AGAACAAGAC
13919057 GCCGAGACATCTCACATGCAA
1 GCCGAGACATCTCACATGCAA
13919078 GCCGAGACATCTCACATGCAA
1 GCCGAGACATCTCACATGCAA
13919099 G
1 G
13919100 ATGAAGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.14
Consensus pattern (21 bp):
GCCGAGACATCTCACATGCAA
Found at i:13919544 original size:31 final size:31
Alignment explanation
Indices: 13919502--13919571 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
13919492 GTACATAGTC
* **
13919502 ATCCAACTATTACTTTGATTTTGTTTCAATA
1 ATCCAATTATTACTTTGATTCCGTTTCAATA
* *
13919533 ATCCAATTATTATTTTGATTCCGTTTCAATC
1 ATCCAATTATTACTTTGATTCCGTTTCAATA
*
13919564 ATCTAATT
1 ATCCAATT
13919572 GTAATTTGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (31 bp):
ATCCAATTATTACTTTGATTCCGTTTCAATA
Found at i:13920006 original size:27 final size:26
Alignment explanation
Indices: 13919952--13920008 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
13919942 TATTTCAAAA
13919952 TTATAATTATATAAAAAAATATTAAT
1 TTATAATTATATAAAAAAATATTAAT
*
13919978 TTATATATT-TATAAATAAAATATTTAT
1 TTATA-ATTATATAAA-AAAATATTAAT
13920005 TTAT
1 TTAT
13920009 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTATAATTATATAAAAAAATATTAAT
Found at i:13920110 original size:18 final size:19
Alignment explanation
Indices: 13920075--13920110 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13920065 TTAATAAATA
13920075 TTATAATAATTAAATTTTT
1 TTATAATAATTAAATTTTT
*
13920094 TTATAAT-ATTTAATTTT
1 TTATAATAATTAAATTTT
13920111 AAAATACCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATAATAATTAAATTTTT
Found at i:13920399 original size:28 final size:26
Alignment explanation
Indices: 13920367--13920421 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
13920357 TGAAAATATT
*
13920367 TAAAATTAATTACTAAATTATAATCTAA
1 TAAAATTAAATACTAAATT-TAAT-TAA
*
13920395 TAAAATTAAATACTTAATTTAATTAA
1 TAAAATTAAATACTAAATTTAATTAA
13920421 T
1 T
13920422 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTAAATACTAAATTTAATTAA
Found at i:13921637 original size:3 final size:3
Alignment explanation
Indices: 13921631--13921701 Score: 117
Period size: 3 Copynumber: 23.7 Consensus size: 3
13921621 TATTTTTTTA
13921631 AAT AAT AAT AAT AAT AAT -AT ATAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
13921676 AAT AAT TAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13921702 ATAAATAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 59 0.92
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:13921712 original size:21 final size:20
Alignment explanation
Indices: 13921629--13921724 Score: 103
Period size: 18 Copynumber: 4.8 Consensus size: 20
13921619 ATTATTTTTT
13921629 TAAATAATAATAAT-AATAA
1 TAAATAATAATAATAAATAA
13921648 TATATATAATAATAAT-AATAA
1 TA-A-ATAATAATAATAAATAA
*
13921669 T-AATAATAATAAT-TATAA
1 TAAATAATAATAATAAATAA
13921687 T-AATAATAATAATAAATAAA
1 TAAATAATAATAATAAAT-AA
*
13921707 TAAATAAAAATAGATAAA
1 TAAATAATAATA-ATAAA
13921725 AAAGTTAGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
18 28 0.41
19 5 0.07
20 4 0.06
21 26 0.38
22 5 0.07
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (20 bp):
TAAATAATAATAATAAATAA
Found at i:13922865 original size:58 final size:59
Alignment explanation
Indices: 13922733--13922865 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 59
13922723 TAGTCGAATA
* * * * * * *
13922733 ACCATTTTATAACTTTTAATAGTCGAGGGACTCAAGAGAGCAGCGTCATATAATAGGGG
1 ACCATTTTGTAACTTTTAATAATCGAGAGACTCAACAAAGCAACGTCATATAATAGGAG
** * *
13922792 ATTATTTTGTAACTTTTAATAATCG-GAGACTCAACAAAGCAACGTCCTATAATCGGAG
1 ACCATTTTGTAACTTTTAATAATCGAGAGACTCAACAAAGCAACGTCATATAATAGGAG
13922850 ACCATTTATGT-ACTTT
1 ACCATTT-TGTAACTTT
13922866 ACCCCAAGAG
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
58 36 0.60
59 24 0.40
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (59 bp):
ACCATTTTGTAACTTTTAATAATCGAGAGACTCAACAAAGCAACGTCATATAATAGGAG
Found at i:13929829 original size:35 final size:33
Alignment explanation
Indices: 13929781--13929845 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
13929771 AAATTAAGAA
13929781 ACCTAAACTAAGGCTTTAATT-AAGAACTAAAAC
1 ACCTAAACTAAGGC-TTAATTAAAGAACTAAAAC
13929814 ACCTAAAATCTAAGGCTTAATTAAAGAACTAA
1 ACCT-AAA-CTAAGGCTTAATTAAAGAACTAA
13929846 TTAATACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 4 0.14
34 9 0.31
35 16 0.55
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (33 bp):
ACCTAAACTAAGGCTTAATTAAAGAACTAAAAC
Found at i:13934679 original size:16 final size:16
Alignment explanation
Indices: 13934658--13934734 Score: 77
Period size: 16 Copynumber: 4.7 Consensus size: 16
13934648 TCTTTTTATT
13934658 TTCTTTTT-TATTTTCA
1 TTCTTTTTCT-TTTTCA
*
13934674 TTCTTTTTCTTTTTCT
1 TTCTTTTTCTTTTTCA
13934690 TTCTTCTTTCTTCTTTC-
1 TTCTT-TTTCTT-TTTCA
*
13934707 TTCTTCTTTCTTTTTTA
1 TTCTT-TTTCTTTTTCA
*
13934724 TTTTTTTTCTT
1 TTCTTTTTCTT
13934735 CAAGCATAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
16 27 0.50
17 23 0.43
18 4 0.07
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTTTTTCTTTTTCA
Found at i:13934687 original size:7 final size:7
Alignment explanation
Indices: 13934656--13934729 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
13934646 CCTCTTTTTA
13934656 TTTTCTT
1 TTTTCTT
*
13934663 TTTTATT
1 TTTTCTT
13934670 TTCATTC-T
1 TT--TTCTT
13934678 TTTTC-T
1 TTTTCTT
13934684 TTTTCTT
1 TTTTCTT
*
13934691 TCTTCTT
1 TTTTCTT
*
13934698 TCTTCTT
1 TTTTCTT
*
13934705 TCTTCTT
1 TTTTCTT
*
13934712 CTTTCTT
1 TTTTCTT
*
13934719 TTTTATT
1 TTTTCTT
13934726 TTTT
1 TTTT
13934730 TTCTTCAAGC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
6 9 0.16
7 43 0.75
8 3 0.05
9 2 0.04
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:13934692 original size:10 final size:10
Alignment explanation
Indices: 13934669--13934734 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
13934659 TCTTTTTTAT
*
13934669 TTTCATTCTT
1 TTTCTTTCTT
13934679 TTTCTTT-TT
1 TTTCTTTCTT
13934688 CTTTC-TTCTT
1 -TTTCTTTCTT
13934698 TCTTCTTTCTT
1 T-TTCTTTCTT
*
13934709 CTTCTTTCTT
1 TTTCTTTCTT
*
13934719 TTT-TATTTTT
1 TTTCT-TTCTT
13934729 TTTCTT
1 TTTCTT
13934735 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 6 0.13
10 34 0.74
11 6 0.13
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:13934699 original size:17 final size:16
Alignment explanation
Indices: 13934668--13934721 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 16
13934658 TTCTTTTTTA
13934668 TTTTCATTCTT-TTTCT
1 TTTTC-TTCTTCTTTCT
13934684 TTTTCTTTCTTCTTTCT
1 TTTTC-TTCTTCTTTCT
13934701 TCTTTCTTCTTCTTTCT
1 T-TTTCTTCTTCTTTCT
13934718 TTTT
1 TTTT
13934722 TATTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 13 0.37
17 18 0.51
18 4 0.11
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCT
Found at i:13934717 original size:14 final size:13
Alignment explanation
Indices: 13934674--13934735 Score: 74
Period size: 14 Copynumber: 4.8 Consensus size: 13
13934664 TTTATTTTCA
13934674 TTCTTT-TTCTTT
1 TTCTTTCTTCTTT
13934686 TTCTTTCTTCTTT
1 TTCTTTCTTCTTT
13934699 CTTCTTTCTTCTTCT
1 -TTCTTTCTTCTT-T
* *
13934714 TTCTTTTTTATTT
1 TTCTTTCTTCTTT
13934727 TT-TTTCTTC
1 TTCTTTCTTC
13934736 AAGCATAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
12 11 0.26
13 9 0.21
14 22 0.51
15 1 0.02
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTTTCTTCTTT
Found at i:13938258 original size:17 final size:15
Alignment explanation
Indices: 13938230--13938269 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
13938220 AAAGGGAATC
13938230 AAATGAAAGAAATGTGAA
1 AAATG-AAGAAATGT--A
13938248 AAATGAAGAAATGTA
1 AAATGAAGAAATGTA
13938263 AAATGAA
1 AAATGAA
13938270 AAAAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
AAATGAAGAAATGTA
Found at i:13945606 original size:54 final size:54
Alignment explanation
Indices: 13945545--13945950 Score: 605
Period size: 54 Copynumber: 7.5 Consensus size: 54
13945535 TATTAACGTG
* * * *
13945545 GGTTGCACACATAGTGCCAATACAGAAATTCGTAAACTCATTATGAATTTATTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
* ** * *
13945599 GGTTGCACACATAATGCCAATACAAAAATTCATATACTTATTATTAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
* *
13945653 GGTTGCACTCATAGTGCCAATACTGAAATTCATAAACTTATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
* * * *
13945707 GGTTTCACATATGGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
* ** * * * *
13945761 GGTTTCACACATAGTGTAAATACGAAAATTCTTAAAGTTATTATGAGTTTCTTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
*
13945815 GGTTGCACACATAGTGCCAACACGGAAATTCATAAACTTATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
13945869 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
13945923 GGTTGCACACATAGTGCCAATACGGAAA
1 GGTTGCACACATAGTGCCAATACGGAAA
13945951 ATGCAATACA
Statistics
Matches: 315, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 315 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (54 bp):
GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA
Found at i:13952023 original size:21 final size:20
Alignment explanation
Indices: 13951999--13952045 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
13951989 CATTTTCATC
*
13951999 TCATTTACTTATGTTTTTATT
1 TCATTTACTTAT-TTTTTAAT
*
13952020 TCATTTATTTATTTTTTAAT
1 TCATTTACTTATTTTTTAAT
13952040 TCATTT
1 TCATTT
13952046 CATTTCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (20 bp):
TCATTTACTTATTTTTTAAT
Found at i:13952050 original size:21 final size:21
Alignment explanation
Indices: 13951999--13952050 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13951989 CATTTTCATC
* *
13951999 TCATTTACTTATGTTTTTATT
1 TCATTTATTTATGTTTTTAAT
13952020 TCATTTATTTAT-TTTTTAAT
1 TCATTTATTTATGTTTTTAAT
13952040 TCATTTCATTT
1 TCATTT-ATTT
13952051 CTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (21 bp):
TCATTTATTTATGTTTTTAAT
Found at i:13957485 original size:41 final size:39
Alignment explanation
Indices: 13957367--13957493 Score: 191
Period size: 39 Copynumber: 3.2 Consensus size: 39
13957357 TATTAGGTAC
*
13957367 GCACTTCGGTGCAAAGGATCGACGCAACCTTATGCGTAA
1 GCACTTCGATGCAAAGGATCGACGCAACCTTATGCGTAA
* * *
13957406 GAACTTCGATGCAATGGATCGACGCAACCTTATACGTAA
1 GCACTTCGATGCAAAGGATCGACGCAACCTTATGCGTAA
*
13957445 GCACTTCGATGCAAAAAGGGTCGACGCAACCTTATGCGTAA
1 GCACTTCGATGC--AAAGGATCGACGCAACCTTATGCGTAA
13957486 GCACTTCG
1 GCACTTCG
13957494 GTGCGACTCG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 46 0.59
41 32 0.41
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (39 bp):
GCACTTCGATGCAAAGGATCGACGCAACCTTATGCGTAA
Found at i:13961155 original size:21 final size:21
Alignment explanation
Indices: 13961125--13961164 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13961115 ATACTTTAAG
*
13961125 TAATTAAAATAAATGAAATAA
1 TAATTAAAATAAATAAAATAA
* *
13961146 TAATTTAAATCAATAAAAT
1 TAATTAAAATAAATAAAAT
13961165 GTAAATCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TAATTAAAATAAATAAAATAA
Found at i:13961171 original size:15 final size:16
Alignment explanation
Indices: 13961141--13961173 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13961131 AAATAAATGA
*
13961141 AATAATAATTTAAATC
1 AATAATAATGTAAATC
13961157 AATAA-AATGTAAATC
1 AATAATAATGTAAATC
13961172 AA
1 AA
13961174 ATCCCAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (16 bp):
AATAATAATGTAAATC
Found at i:13970851 original size:3 final size:3
Alignment explanation
Indices: 13970843--13970878 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13970833 TCATACACAC
13970843 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13970879 ACATCACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13971957 original size:15 final size:15
Alignment explanation
Indices: 13971937--13971976 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
13971927 GATACTCAAC
13971937 CGTCTACTTTAGGTA
1 CGTCTACTTTAGGTA
*
13971952 CGTCTACTTAAGGTA
1 CGTCTACTTTAGGTA
*
13971967 CGTATACTTT
1 CGTCTACTTT
13971977 CATGAGGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (15 bp):
CGTCTACTTTAGGTA
Found at i:13974745 original size:14 final size:15
Alignment explanation
Indices: 13974726--13974763 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
13974716 AACTATTTAC
13974726 TTTATTTTTAC-TTT
1 TTTATTTTTACTTTT
*
13974740 TTTATTTATACTTTT
1 TTTATTTTTACTTTT
13974755 TTTATTTTT
1 TTTATTTTT
13974764 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTACTTTT
Found at i:13974746 original size:23 final size:23
Alignment explanation
Indices: 13974719--13974779 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
13974709 CATTTTTAAC
13974719 TATTTACTTTATTTTTACTTTTT
1 TATTTACTTTATTTTTACTTTTT
*
13974742 TATTTA-TACTT-TTTTTATTTTTT
1 TATTTACT--TTATTTTTACTTTTT
*
13974765 TATTTTTCTTTATTT
1 TA-TTTACTTTATTT
13974780 AGGTACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
22 1 0.03
23 21 0.68
24 8 0.26
25 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
TATTTACTTTATTTTTACTTTTT
Found at i:13974757 original size:15 final size:14
Alignment explanation
Indices: 13974726--13974761 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
13974716 AACTATTTAC
*
13974726 TTTATTTTTACTTT
1 TTTATTTATACTTT
13974740 TTTATTTATACTTTT
1 TTTATTTATAC-TTT
13974755 TTTATTT
1 TTTATTT
13974762 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTATACTTT
Found at i:13983898 original size:14 final size:14
Alignment explanation
Indices: 13983879--13983910 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
13983869 AACACTAAAC
13983879 AAAATTTAATAATA
1 AAAATTTAATAATA
13983893 AAAA-TTAATAATA
1 AAAATTTAATAATA
13983906 AAAAT
1 AAAAT
13983911 GATGTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTTAATAATA
Found at i:13991277 original size:29 final size:30
Alignment explanation
Indices: 13991244--13991303 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
13991234 TAAAATTTTA
13991244 TTTAGTGGCCAAAATAT-AAATTTTAAAAG
1 TTTAGTGGCCAAAATATAAAATTTTAAAAG
* *
13991273 TTTAGTGGCCAAAGTGTAAAATTTTAAAAG
1 TTTAGTGGCCAAAATATAAAATTTTAAAAG
13991303 T
1 T
13991304 AAGTTTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.35
Consensus pattern (30 bp):
TTTAGTGGCCAAAATATAAAATTTTAAAAG
Found at i:13993463 original size:34 final size:34
Alignment explanation
Indices: 13993413--13993500 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
13993403 GTGTACATTT
* * *
13993413 GATGATTGCACATGGAGTGCATATTTTTGTATCA
1 GATGGTTGCACTTGGAGTGCATATTTCTGTATCA
* * *
13993447 GATGGTTGCACTTGGAGTTCATATTTCTGTTTCT
1 GATGGTTGCACTTGGAGTGCATATTTCTGTATCA
13993481 GAT-GTTAGCACTTGGAGTGC
1 GATGGTT-GCACTTGGAGTGC
13993501 CTATCGTGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
33 3 0.07
34 43 0.93
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (34 bp):
GATGGTTGCACTTGGAGTGCATATTTCTGTATCA
Found at i:14001804 original size:2 final size:2
Alignment explanation
Indices: 14001791--14001826 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
14001781 TTTTAAATGT
*
14001791 TA TA TT TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14001827 TATCCTTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14002005 original size:80 final size:80
Alignment explanation
Indices: 14001920--14002133 Score: 286
Period size: 80 Copynumber: 2.7 Consensus size: 80
14001910 TTTCTAATTG
** * *
14001920 GCATAATTGACACCTTTCTGCCAAAACGCAGTTAGGCCATCATTCTTTTACTTAACA-ATACTTA
1 GCATAATTGACACCTTTCTGCCAATGCACAGTTAGGCCATTATTCTTTTACTTAA-AGATACTTA
*
14001984 ACTATTCATCTAACTC
65 ACCATTCATCTAACTC
* * *
14002000 GCATAATTGACACCTTTCTGCCAATGCACAGTTAGGCTATTATTATTTTACTCAAAGATACTTAA
1 GCATAATTGACACCTTTCTGCCAATGCACAGTTAGGCCATTATTCTTTTACTTAAAGATACTTAA
* *
14002065 CCGTTCATCTAACTG
66 CCATTCATCTAACTC
* * *
14002080 GCATAATTGACACATTTATGTCATATGCACAGTTAGGCCATTATTCTTTTACTT
1 GCATAATTGACACCTTTCTGCCA-ATGCACAGTTAGGCCATTATTCTTTTACTT
14002134 TAGAGCAGCC
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 1 0.01
80 88 0.76
81 27 0.23
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (80 bp):
GCATAATTGACACCTTTCTGCCAATGCACAGTTAGGCCATTATTCTTTTACTTAAAGATACTTAA
CCATTCATCTAACTC
Found at i:14002561 original size:58 final size:58
Alignment explanation
Indices: 14002493--14002760 Score: 437
Period size: 58 Copynumber: 4.6 Consensus size: 58
14002483 TTTCCATATG
*
14002493 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAGGTGCCCGATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCGATACA
* *
14002551 GAAATTCATACACTTAGTATAAATTTCTTATCATTTAGCACACAAAGTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCGATACA
* * * *
14002609 GAAATTCATACACTTAGTATTAATTTCTCATCATTTAGCACACAAGGTGCTCGATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCGATACA
* *
14002667 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAACACACAAAGTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCGATACA
* *
14002725 AAAATTCATACACTTAGTATGAATTTCTTAACATTT
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTT
14002761 TGGTAATCAC
Statistics
Matches: 194, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 194 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCGATACA
Found at i:14003127 original size:22 final size:20
Alignment explanation
Indices: 14003075--14003128 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
14003065 TCTGGCTCCA
* *
14003075 TAGTATCGATACTTCTACCC
1 TAGTACCGATACTTCTACAC
* *
14003095 TAGTACTGATACTTCTATAC
1 TAGTACCGATACTTCTACAC
14003115 TATGGTACCGATAC
1 TA--GTACCGATAC
14003129 CTCTTTCGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 18 0.67
22 9 0.33
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (20 bp):
TAGTACCGATACTTCTACAC
Found at i:14003307 original size:19 final size:20
Alignment explanation
Indices: 14003259--14003312 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
14003249 TTCGATGTTT
*
14003259 CTAGGTATCGATACCCCTTA
1 CTAGGTATCGATACCCCTCA
14003279 CTATGGTATCGAT-CCACCTCA
1 CTA-GGTATCGATACC-CCTCA
14003300 -TAGGTATCGATAC
1 CTAGGTATCGATAC
14003313 TGATTGAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.30
20 8 0.27
21 13 0.43
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (20 bp):
CTAGGTATCGATACCCCTCA
Found at i:14007379 original size:80 final size:80
Alignment explanation
Indices: 14007242--14007566 Score: 391
Period size: 80 Copynumber: 4.1 Consensus size: 80
14007232 CTTTATTCAC
** * * * *
14007242 TTACTCAACAGTGTTTAA-CGTTCATCTAACTGACATAATTAACACATTTCTGTCAATGCACAAT
1 TTACTCAACAGTACTTAACCGTTCATCTAACTGGCATAATTAACACATTTTTGCCAATGCACAGT
14007306 TAGGCCATTATTCTT
66 TAGGCCATTATTCTT
* * * * *
14007321 TTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTGCCAATGCATAGT
1 TTACTCAACAGTACTTAACCGTTCATCTAACTGGCATAATTAACACATTTTTGCCAATGCACAGT
* *
14007386 TACGACATTATTCTT
66 TAGGCCATTATTCTT
* * * *
14007401 TTACTCAACAGTACTTAACCATTCATCTAACTGGCATAATTGACACCTTTTTGCCAATGCACGGT
1 TTACTCAACAGTACTTAACCGTTCATCTAACTGGCATAATTAACACATTTTTGCCAATGCACAGT
*
14007466 TAGGCCATTATACTT
66 TAGGCCATTATTCTT
* * * * * * * * *
14007481 TTACTCAACGGTACTTAAACGTTCATCTGACTGCCATACTTAACACATTTATGTCATATACATAG
1 TTACTCAACAGTACTTAACCGTTCATCTAACTGGCATAATTAACACATTTTTGCCA-ATGCACAG
14007546 TTAGGCCATTATTCTT
65 TTAGGCCATTATTCTT
14007562 TTACT
1 TTACT
14007567 TTAGAGCACT
Statistics
Matches: 211, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 16 0.08
80 170 0.81
81 25 0.12
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (80 bp):
TTACTCAACAGTACTTAACCGTTCATCTAACTGGCATAATTAACACATTTTTGCCAATGCACAGT
TAGGCCATTATTCTT
Found at i:14008058 original size:58 final size:58
Alignment explanation
Indices: 14007917--14008085 Score: 236
Period size: 57 Copynumber: 3.0 Consensus size: 58
14007907 TATATTTTCC
* * * *
14007917 ATACGAAAATTTATACACTTAGTATGAACTTCTTATCATTTAGCACACAAGGT-CCCG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCG
* * *
14007974 ATACAGAAATTCATACACTTAATATGAATTTCTTATCATTTAGCACACAAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCG
* *
14008032 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTG--CACAAAGTGCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCC
14008086 ATTTGGTAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
56 11 0.11
57 47 0.47
58 42 0.42
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAAGTGCCCG
Found at i:14008601 original size:95 final size:95
Alignment explanation
Indices: 14008430--14008624 Score: 234
Period size: 95 Copynumber: 2.1 Consensus size: 95
14008420 CCTTAGTATT
* *** * * * *
14008430 GATACTTCTATACTATGGTACCGATACCCTTTCGGGTATCGATACCAAAAATAGGTTTGATGTTG
1 GATACTTCTATACTAAGGTACCGATACCCCCACCGGTATCGATACAAAAAATAGATTCGATGTTG
14008495 CCTGGTATCGATA-CCATTACGATGGCATC
66 CCTGGTATCGATACCCATTACGATGGCATC
14008524 GATACTATCT-TACTAAGGTACCGATACCCCCCACCGGTATCGATACAAAAAATAGATTCGATGT
1 GATACT-TCTATACTAAGGTACCGATA-CCCCCACCGGTATCGATACAAAAAATAGATTCGATGT
* * * *
14008588 T-TCTAGGTATCGATACCCCTTACTATGGTATC
64 TGCCT-GGTATCGATACCCATTACGATGGCATC
14008620 GATAC
1 GATAC
14008625 CACCTCATAG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
94 23 0.27
95 44 0.52
96 18 0.21
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (95 bp):
GATACTTCTATACTAAGGTACCGATACCCCCACCGGTATCGATACAAAAAATAGATTCGATGTTG
CCTGGTATCGATACCCATTACGATGGCATC
Found at i:14008619 original size:21 final size:20
Alignment explanation
Indices: 14008591--14008644 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
14008581 TCGATGTTTC
*
14008591 TAGGTATCGATACC-CCTTA
1 TAGGTATCGATACCACCTCA
14008610 CTATGGTATCGATACCACCTCA
1 -TA-GGTATCGATACCACCTCA
14008632 TAGGTATCGATAC
1 TAGGTATCGATAC
14008645 TGATTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.42
21 14 0.45
22 4 0.13
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (20 bp):
TAGGTATCGATACCACCTCA
Found at i:14008639 original size:20 final size:20
Alignment explanation
Indices: 14008590--14008644 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
14008580 TTCGATGTTT
*
14008590 CTAGGTATCGATACCCCTTA
1 CTAGGTATCGATACCCCTCA
14008610 CTATGGTATCGATACCACCTCA
1 CTA-GGTATCGATACC-CCTCA
14008632 -TAGGTATCGATAC
1 CTAGGTATCGATAC
14008645 TGATTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 14 0.44
21 14 0.44
22 4 0.12
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
CTAGGTATCGATACCCCTCA
Found at i:14020261 original size:65 final size:63
Alignment explanation
Indices: 14020192--14020351 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 63
14020182 GAATAAATTG
*
14020192 AACATCGAATGCATTTCATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG
14020255 AA
63 -A
* * * *
14020257 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATTGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGA
*
14020321 AACATCGAATGCATTTCATGCAACGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
14020352 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 49 0.58
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:14023256 original size:73 final size:73
Alignment explanation
Indices: 14023116--14023256 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
14023106 AGTCACTCAC
* *
14023116 GATTTCAAATTCACAATAAAGGATATCGTACCCAAAAGTCTCGACTTAACTTCACGACGAATGAG
1 GATTTCAAATTCACAATAAAGGATATCGTACCCAAAAGTCTCGACTTAACTTCACAACAAATGAG
14023181 TCACCCTT
66 TCACCCTT
* * * * * * * *
14023189 GATTTCAACTTCACGATGAAGGATATCGTGCCCAATAGT-TTGACTTAACATTCATAACAAATTA
1 GATTTCAAATTCACAATAAAGGATATCGTACCCAAAAGTCTCGACTTAAC-TTCACAACAAATGA
14023253 GTCA
65 GTCA
14023257 TCTGTAACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 9 0.16
73 48 0.84
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (73 bp):
GATTTCAAATTCACAATAAAGGATATCGTACCCAAAAGTCTCGACTTAACTTCACAACAAATGAG
TCACCCTT
Found at i:14023885 original size:23 final size:25
Alignment explanation
Indices: 14023859--14023910 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
14023849 AGTATATATT
14023859 ACATATAT-A-ATATAGTTTTGAAA
1 ACATATATAATATATAGTTTTGAAA
14023882 ACATATATAATATATAGTTTTGAAA
1 ACATATATAATATATAGTTTTGAAA
14023907 ACAT
1 ACAT
14023911 TTTTTGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 8 0.30
24 1 0.04
25 18 0.67
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (25 bp):
ACATATATAATATATAGTTTTGAAA
Found at i:14023937 original size:37 final size:37
Alignment explanation
Indices: 14023874--14024231 Score: 458
Period size: 37 Copynumber: 9.6 Consensus size: 37
14023864 TATAATATAG
14023874 TTTTGAAAACATATATAATATATAGTTTTGAAAACATT
1 TTTTG-AAACATATATAATATATAGTTTTGAAAACATT
** *
14023912 TTTTGAAACGCATATAATATGTAGTTTTGAAAACA-T
1 TTTTGAAACATATATAATATATAGTTTTGAAAACATT
* **
14023948 TTTCGAAGATTTATATAATATATAGTTTTGAAAACATT
1 TTTTGAA-ACATATATAATATATAGTTTTGAAAACATT
14023986 TTTTGACAACATATATAATATATAGTTTTGAAAACATT
1 TTTTGA-AACATATATAATATATAGTTTTGAAAACATT
14024024 TTTTGAAACATATATAATATATAGTTTTGAAAACATT
1 TTTTGAAACATATATAATATATAGTTTTGAAAACATT
14024061 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
1 TTTTG-AAACATATATAATATATAGTTTTGAAAACA-TT
* * *
14024100 TTTTGAAAACGTATATAATATATAGTTTTTAAAGCA-T
1 TTTTG-AAACATATATAATATATAGTTTTGAAAACATT
*
14024137 TTTTGAAA-ACATATAATATATAGTTTTGAAAACA-T
1 TTTTGAAACATATATAATATATAGTTTTGAAAACATT
* * ** *
14024172 TTTTGAAAACGTATACAATATATAGTTTTTTAAA-ATAC
1 TTTTG-AAACATATATAATATATAGTTTTGAAAACAT-T
*
14024210 TTTTGAAA-ACATATAATATATA
1 TTTTGAAACATATATAATATATA
14024232 ACTTTTAAAA
Statistics
Matches: 284, Mismatches: 27, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
35 28 0.10
36 25 0.09
37 115 0.40
38 80 0.28
39 36 0.13
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (37 bp):
TTTTGAAACATATATAATATATAGTTTTGAAAACATT
Found at i:14024038 original size:75 final size:74
Alignment explanation
Indices: 14023874--14024231 Score: 483
Period size: 75 Copynumber: 4.8 Consensus size: 74
14023864 TATAATATAG
* *
14023874 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACGCATATAATATGTAGTTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
14023939 TGAAAACAT
66 TGAAAACAT
* * ** *
14023948 TTTCGAAGATTTATATAATATATAGTTTTGAAAACATTTTTTGACAACATATATAATATATAGTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGA-AACACATATAATATATAGTT
14024013 TTGAAAACATT
65 TTGAAAACA-T
*
14024024 TTTTG-AAACATATATAATATATAGTTTTGAAAACATTTTTTGAAAACATATATAATATATAGTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTG-AAACACATATAATATATAGTT
14024088 TTGAAAACATTT
65 TTGAAAACA--T
* * *
14024100 TTTTGAAAACGTATATAATATATAGTTTTTAAAGCA-TTTTTGAAA-ACATATAATATATAGTTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
14024163 TGAAAACAT
66 TGAAAACAT
* * ** *
14024172 TTTTGAAAACGTATACAATATATAGTTTTTTAAA-ATACTTTTGAAA-ACATATAATATATA
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACAT-TTTTTGAAACACATATAATATATA
14024232 ACTTTTAAAA
Statistics
Matches: 258, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
71 1 0.00
72 32 0.12
73 22 0.09
74 65 0.25
75 92 0.36
76 19 0.07
77 27 0.10
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (74 bp):
TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
TGAAAACAT
Found at i:14024049 original size:112 final size:113
Alignment explanation
Indices: 14023874--14024231 Score: 512
Period size: 112 Copynumber: 3.2 Consensus size: 113
14023864 TATAATATAG
* *
14023874 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACGCATATAATATGTAGTTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
* * **
14023939 TGAAAACATTTTCGAAGATTTATATAATATATAGTTTTGAAAACA-TT
66 TGAAAACATTTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
* *
14023986 TTTTGACAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACATATATAATATATAGTTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
14024051 TGAAAACATTTTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
66 TGAAAACA-TTTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
* * *
14024100 TTTTGAAAACGTATATAATATATAGTTTTTAAAGCA-TTTTTGAAA-ACATATAATATATAGTTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
* * ** **
14024163 TGAAAACATTTTTGAAAACGTATACAATATATAGTTTTTTAAA-ATAC
66 TGAAAACATTTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
14024210 TTTTGAAAAC--ATATAATATATA
1 TTTTGAAAACATATATAATATATA
14024232 ACTTTTAAAA
Statistics
Matches: 225, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
108 12 0.05
110 12 0.05
111 31 0.14
112 94 0.42
113 42 0.19
114 34 0.15
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (113 bp):
TTTTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAACACATATAATATATAGTTT
TGAAAACATTTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
Found at i:14024066 original size:13 final size:13
Alignment explanation
Indices: 14024048--14024072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14024038 TAATATATAG
14024048 TTTTGAAAACATT
1 TTTTGAAAACATT
14024061 TTTTGAAAACAT
1 TTTTGAAAACAT
14024073 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACATT
Found at i:14024754 original size:17 final size:17
Alignment explanation
Indices: 14024734--14024766 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14024724 TTTATCTTAG
14024734 TTTTT-TTTTAAATCTA
1 TTTTTATTTTAAATCTA
*
14024750 TTTTTATTTTAACTCTA
1 TTTTTATTTTAAATCTA
14024767 ACTTTAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTATTTTAAATCTA
Found at i:14026269 original size:22 final size:22
Alignment explanation
Indices: 14026239--14026280 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14026229 ACTTTAATTT
* *
14026239 AGTAAAAATGGATTAGAAATGA
1 AGTAAAAATGAATTAAAAATGA
*
14026261 AGTACAAATGAATTAAAAAT
1 AGTAAAAATGAATTAAAAAT
14026281 AATTTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.24
Consensus pattern (22 bp):
AGTAAAAATGAATTAAAAATGA
Found at i:14026489 original size:21 final size:22
Alignment explanation
Indices: 14026464--14026505 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14026454 TTAATAAAAC
*
14026464 AATATGTAAT-ATTCTAAAATT
1 AATATGTAATAATTCCAAAATT
*
14026485 AATATTTAATAATTCCAAAAT
1 AATATGTAATAATTCCAAAAT
14026506 ATTTTCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (22 bp):
AATATGTAATAATTCCAAAATT
Found at i:14027405 original size:20 final size:20
Alignment explanation
Indices: 14027380--14027419 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14027370 CAGATTGCTC
*
14027380 AGAGGGTACCGATACCCCCA
1 AGAGGGTACCGACACCCCCA
14027400 AGAGGGTACCGACACCCCCA
1 AGAGGGTACCGACACCCCCA
14027420 TATAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.38, G:0.25, T:0.07
Consensus pattern (20 bp):
AGAGGGTACCGACACCCCCA
Found at i:14033196 original size:22 final size:22
Alignment explanation
Indices: 14033165--14033224 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 22
14033155 TGGGTGCAGG
*
14033165 AGGTATTGATACCCCATTGAAT
1 AGGTACTGATACCCCATTGAAT
* * * *
14033187 GGGTACTGATTCCCCCTTTGAGT
1 AGGTACTGA-TACCCCATTGAAT
*
14033210 AGGTACCGATACCCC
1 AGGTACTGATACCCC
14033225 CTAGGAGGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (22 bp):
AGGTACTGATACCCCATTGAAT
Found at i:14033207 original size:23 final size:23
Alignment explanation
Indices: 14033172--14033226 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
14033162 AGGAGGTATT
* * *
14033172 GATA-CCCCATTGAATGGGTACT
1 GATACCCCCTTTGAATAGGTACC
* *
14033194 GATTCCCCCTTTGAGTAGGTACC
1 GATACCCCCTTTGAATAGGTACC
14033217 GATACCCCCT
1 GATACCCCCT
14033227 AGGAGGGTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (23 bp):
GATACCCCCTTTGAATAGGTACC
Done.