Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 176 of 343
Found at i:58306790 original size:18 final size:19
Alignment explanation
Indices: 58306767--58306806 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
58306757 AGTAATATTT
*
58306767 TATGTTATGTTATTT-TAA
1 TATGTTATGTAATTTATAA
58306785 TATGTTATGTAATTTATAA
1 TATGTTATGTAATTTATAA
58306804 TAT
1 TAT
58306807 ATAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TATGTTATGTAATTTATAA
Found at i:58306892 original size:12 final size:12
Alignment explanation
Indices: 58306875--58306916 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
58306865 ATATAAAATT
58306875 ATTAAATATTTA
1 ATTAAATATTTA
*
58306887 ATTAAA-ATTAA
1 ATTAAATATTTA
*
58306898 AATAAATATTTA
1 ATTAAATATTTA
*
58306910 TTTAAAT
1 ATTAAAT
58306917 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTAAATATTTA
Found at i:58312903 original size:17 final size:18
Alignment explanation
Indices: 58312858--58312911 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
58312848 AATTACAGAA
* *
58312858 ATATGGGCCCATATACTC
1 ATATGGGCCCATATGCCC
*
58312876 ATTTGGGCCCATATGCCC
1 ATATGGGCCCATATGCCC
*
58312894 ATAT-GGCCCACATGCCC
1 ATATGGGCCCATATGCCC
58312911 A
1 A
58312912 ATTTAGCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (18 bp):
ATATGGGCCCATATGCCC
Found at i:58314783 original size:19 final size:19
Alignment explanation
Indices: 58314759--58314796 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
58314749 TATATAATAG
58314759 GTAGTGGAAAGAAAGATGA
1 GTAGTGGAAAGAAAGATGA
58314778 GTAGTGGAAAGAAAGATGA
1 GTAGTGGAAAGAAAGATGA
58314797 TAAGCTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.16
Consensus pattern (19 bp):
GTAGTGGAAAGAAAGATGA
Found at i:58317483 original size:39 final size:40
Alignment explanation
Indices: 58317366--58317548 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
58317356 GCTACTCGTT
*
58317366 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
58317406 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
58317446 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
58317485 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58317526 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
58317549 AACATCATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58317510 original size:79 final size:80
Alignment explanation
Indices: 58317368--58317548 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
58317358 TACTCGTTCA
* *
58317368 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
58317433 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
58317448 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
58317510 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
58317527 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
58317549 AACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:58319949 original size:39 final size:40
Alignment explanation
Indices: 58319904--58320128 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
58319894 GCTCCTCGTT
* * * * *
58319904 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
58319944 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
58319983 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
58320023 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
58320063 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
58320104 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58320129 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:58320137 original size:41 final size:41
Alignment explanation
Indices: 58320060--58320137 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58320050 CTTGTATCTC
* * *
58320060 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58320101 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58320138 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58333775 original size:44 final size:43
Alignment explanation
Indices: 58333612--58333782 Score: 157
Period size: 44 Copynumber: 3.8 Consensus size: 43
58333602 TGTAACCCGC
* *
58333612 CCATAAGCGAACTCGGACTCAACTCAAC-AGCTCAGGCCTTCCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--GCATTCCAT
* * * * *
58333656 CCATAGGGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT
1 CCATA-AGCGAACTCGGACTCAACTCAACGAGTTCGCATTCC-A--T
* *
58333703 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGACATTCCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCG-CATTCCAT
*
58333748 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
58333783 GATGCCCAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
43 2 0.02
44 36 0.36
45 25 0.25
46 3 0.03
47 30 0.30
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGCATTCCAT
Found at i:58333786 original size:91 final size:92
Alignment explanation
Indices: 58333619--58333788 Score: 272
Period size: 91 Copynumber: 1.9 Consensus size: 92
58333609 CGCCCATAAG
* * *
58333619 CGAACTCGGACTCAACTCAACAGCTCAGGCCTTCCATCCATAGGGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACAGCTCAGACATTCCATCCATAGAGTGAACTCGGACTCAACTCAA
*
58333684 CGAGTTTGGATGCCTAGTTACATTTCA
66 CGAGTTCGGATGCCTAGTTACATTTCA
*
58333711 CGAACTCGGACTCAACTCAACGAGTTC-GACATTCCATCCATA-AGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAC-AGCTCAGACATTCCATCCATAGAGTGAACTCGGACTCAACTCA
58333774 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
58333789 CAAATATCCA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 34 0.47
92 34 0.47
93 4 0.06
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACAGCTCAGACATTCCATCCATAGAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCA
Found at i:58336172 original size:13 final size:13
Alignment explanation
Indices: 58336154--58336213 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 13
58336144 CAAAGATAAC
*
58336154 AAGAAAACGAATA
1 AAGAAACCGAATA
*
58336167 AAGAAATCCAAGATA
1 AAGAAA-CCGA-ATA
*
58336182 GAGAAACCGAATA
1 AAGAAACCGAATA
58336195 AAGAAATCCAGAATA
1 AAGAAA-CC-GAATA
58336210 AAGA
1 AAGA
58336214 TCCAGGATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 14 0.37
14 7 0.18
15 17 0.45
ACGTcount: A:0.62, C:0.12, G:0.17, T:0.10
Consensus pattern (13 bp):
AAGAAACCGAATA
Found at i:58336186 original size:15 final size:14
Alignment explanation
Indices: 58336163--58336213 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
58336153 CAAGAAAACG
58336163 AATAAAGAAATCCA
1 AATAAAGAAATCCA
* *
58336177 AGATAGAGAAA-CCG
1 A-ATAAAGAAATCCA
58336191 AATAAAGAAATCCA
1 AATAAAGAAATCCA
58336205 GAATAAAGA
1 -AATAAAGA
58336214 TCCAGGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.27
14 6 0.20
15 16 0.53
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.12
Consensus pattern (14 bp):
AATAAAGAAATCCA
Found at i:58339313 original size:93 final size:93
Alignment explanation
Indices: 58339154--58339326 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
58339144 CGCCCATAAG
* * *
58339154 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
58339219 ACGAGTTTGGATGCCTAGTTACATTTCA
66 ACAAGTTCGGATGCCTAGTTACATTTCA
*
58339247 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCACATCCATAAGTGAACTCGGACTCAACTC
58339311 AACAAGTTCGGATGCC
65 AACAAGTTCGGATGCC
58339327 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATTTCA
Found at i:58339319 original size:46 final size:46
Alignment explanation
Indices: 58339147--58339322 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
58339137 TGTAACCCGC
* * *
58339147 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACAT
* * *
58339193 CCATAGGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
58339243 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* *
58339286 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58339323 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 4 0.04
46 58 0.55
47 28 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:58346753 original size:42 final size:42
Alignment explanation
Indices: 58346689--58346781 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
58346679 CAAATCAGTG
* * *
58346689 CCGACGCCATGTCCCAGACATGGTCTTATACGAGACCTCATA
1 CCGATGCCATGTCCCAGACATGGTCTTATACGAAACCACATA
* *
58346731 CCGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTA
1 CCGATGCCATGTCCCAGACATGGTCTTATACGAAACCACATA
58346773 CCGATGCCA
1 CCGATGCCA
58346782 AAGCCATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (42 bp):
CCGATGCCATGTCCCAGACATGGTCTTATACGAAACCACATA
Found at i:58349749 original size:21 final size:21
Alignment explanation
Indices: 58349723--58349773 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
58349713 ACATGTTTTT
58349723 CATATAACAAATCATACTCAG
1 CATATAACAAATCATACTCAG
* *
58349744 CATATAACATATCATACTTAG
1 CATATAACAAATCATACTCAG
58349765 CATATAACA
1 CATATAACA
58349774 GACTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (21 bp):
CATATAACAAATCATACTCAG
Found at i:58358529 original size:24 final size:23
Alignment explanation
Indices: 58358481--58358529 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
58358471 GCGTGTGGAA
* *
58358481 ATTTGGGCAAGGCTGTGTGATCC
1 ATTTGGCCAAGGCTGTGTGAGCC
*
58358504 ATTTGGCCAAGGCTAGTGTGGGCC
1 ATTTGGCCAAGGCT-GTGTGAGCC
58358528 AT
1 AT
58358530 GTGGGGCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (23 bp):
ATTTGGCCAAGGCTGTGTGAGCC
Found at i:58358710 original size:6 final size:6
Alignment explanation
Indices: 58358699--58358726 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
58358689 ACTGTGATGC
58358699 ATGTAT ATGTAT ATGTAT ATGTAT ATGT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGT
58358727 TCTGATCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:58361389 original size:29 final size:27
Alignment explanation
Indices: 58361371--58361440 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
58361361 ATATTAAGTC
58361371 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
58361398 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
58361426 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
58361441 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:58361434 original size:28 final size:28
Alignment explanation
Indices: 58361371--58361468 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
58361361 ATATTAAGTC
*
58361371 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
58361398 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58361426 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58361455 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58361469 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58366123 original size:17 final size:19
Alignment explanation
Indices: 58366101--58366137 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
58366091 TTGGGCTTAT
58366101 TGGG-CCACACGGG-CGTG
1 TGGGCCCACACGGGCCGTG
*
58366118 TGGGCCCACATGGGCCGTG
1 TGGGCCCACACGGGCCGTG
58366137 T
1 T
58366138 TGTGGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.11, C:0.30, G:0.43, T:0.16
Consensus pattern (19 bp):
TGGGCCCACACGGGCCGTG
Found at i:58367185 original size:38 final size:38
Alignment explanation
Indices: 58367137--58367230 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 38
58367127 AACTCCGTCT
* * *
58367137 AACCCGACACACCATATGGGGATAAAATCGACCTACCC
1 AACCCTACACACCATATGGGGATAAAATCAACCCACCC
* *
58367175 ATCCCTACACACCAAATATGGGGATAAAATCAACCCATCC
1 AACCCTACACACC--ATATGGGGATAAAATCAACCCACCC
58367215 AACCCTACACACCATA
1 AACCCTACACACCATA
58367231 GAGTACCGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 14 0.29
40 34 0.71
ACGTcount: A:0.39, C:0.35, G:0.11, T:0.15
Consensus pattern (38 bp):
AACCCTACACACCATATGGGGATAAAATCAACCCACCC
Found at i:58370138 original size:26 final size:25
Alignment explanation
Indices: 58370082--58370138 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
58370072 AATCTAAAAT
*
58370082 AAATTC-AAAATCTAATTTCATTTA
1 AAATTCTAAAATCTAATTTCACTTA
* *
58370106 AAGTTCTAAAATCTATTTTACACTTA
1 AAATTCTAAAATCTAATTT-CACTTA
58370132 AAATTCT
1 AAATTCT
58370139 TATAATGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.19
25 11 0.41
26 11 0.41
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATTCTAAAATCTAATTTCACTTA
Found at i:58373817 original size:22 final size:22
Alignment explanation
Indices: 58373769--58373820 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
58373759 GGATAGTAAA
*
58373769 CTGCATCTATATCTGATCTATT
1 CTGCATCTATATCAGATCTATT
* * * *
58373791 TTGCATCTGTATCAGATTTGTT
1 CTGCATCTATATCAGATCTATT
58373813 CTGCATCT
1 CTGCATCT
58373821 TACCTGAACG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (22 bp):
CTGCATCTATATCAGATCTATT
Found at i:58376210 original size:17 final size:19
Alignment explanation
Indices: 58376195--58376232 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
58376185 TTTTTTATTA
58376195 ATTATTTGTACATATTATAT
1 ATTATTTGTACATA-TATAT
58376215 ATTATTTGTACATATATA
1 ATTATTTGTACATATATA
58376233 CACTTTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATTTGTACATATATAT
Found at i:58380182 original size:15 final size:15
Alignment explanation
Indices: 58380146--58380195 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
58380136 GATATTCTTT
58380146 TTTGCAT-TCATACA
1 TTTGCATCTCATACA
58380160 TTTGCATCTCATAGCA
1 TTTGCATCTCATA-CA
*
58380176 TTT-CATCACAT-CA
1 TTTGCATCTCATACA
58380189 TTTGCAT
1 TTTGCAT
58380196 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 12 0.38
16 5 0.16
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATACA
Found at i:58384826 original size:46 final size:46
Alignment explanation
Indices: 58384725--58384812 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
58384715 TGTAACCCGC
* * *
58384725 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
58384771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
58384813 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:58385264 original size:30 final size:30
Alignment explanation
Indices: 58385230--58385289 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58385220 ATTTAATACG
58385230 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
58385260 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
58385290 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:58390859 original size:210 final size:210
Alignment explanation
Indices: 58390547--58391016 Score: 701
Period size: 210 Copynumber: 2.2 Consensus size: 210
58390537 TAAGCCGCAG
* *
58390547 CATAGCAGATCTCACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
*
58390612 TGTAGTCGGCGGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTAGTCGGCGGGGAACAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* * * *
58390677 AATCTAAGATGATTTGTCACCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCATTTT
131 AATCTAAGATGATTTGTCACCTCTATATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTC
* *
58390742 GATGGA-AGGTAGACA
196 AATGGAGA-GCAGACA
*
58390757 CATAGCAGGTCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
* * *
58390822 TGTATTCGGCGGGGAGCAAATCGAATATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTAGTCGGCGGGGAACAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
** * * *
58390887 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAATAGATCGAAGTCTAGCATCTCCACTTC
131 AATCTAAGATGATTTGTCACCTCTATATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTC
*
58390952 AATGGAGAGCAGATA
196 AATGGAGAGCAGACA
** *
58390967 CATAGCAGATCAGACCTTCAGATGATTA-GACTGAAGCAAGATCCAAGATG
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CTGAAGC-AGATCCAAGATG
58391017 GTTTGGCATC
Statistics
Matches: 234, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
209 1 0.00
210 220 0.94
211 13 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
TGTAGTCGGCGGGGAACAAATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTCACCTCTATATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTC
AATGGAGAGCAGACA
Found at i:58391140 original size:206 final size:208
Alignment explanation
Indices: 58390547--58391140 Score: 610
Period size: 210 Copynumber: 2.8 Consensus size: 208
58390537 TAAGCCGCAG
* * * * **
58390547 CATAGCAGATCTCACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCACACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGA-AAATCGCATCTCTC
* * * *
58390612 TGTAGTCGGC--GGGGAACAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAG
65 TGTATTC-ACAAGGAGAA-A-ATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAG
* * * * *
58390675 CAAATCTAAGATGATTTGTCACCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCATT
127 CAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACT
** *
58390740 TTGATGGAAGGTAGACA
192 TCAATGGAAGGCAGACA
* * * **
58390757 CATAGCAGGTCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
1 CATAGCAGATCACACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGA-AAATCGCATCTCTC
* ** * * *
58390822 TGTATTCGGCGGGGAGCAAATCGAATATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
65 TGTATTC-ACAAGGAGAAAATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
* * *
58390887 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAATAGATCGAAGTCTAGCATCTCCACTTC
129 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTC
*
58390952 AATGG-AGAGCAGATA
194 AATGGAAG-GCAGACA
* *** *
58390967 CATAGCAGATCAGACCTTCAGATGATTA-GACTGAAGCAAGATCCAAGATG-GTTTGGCATC-CT
1 CATAGCAGATCACACCTTCAGATGATTACG-CTGAAGC-AGATCCAAGATGAAAATCGCATCTCT
* * * * * *
58391029 -TGTGCTT-ACAAGGAGAAAATCAAAGACATAGCTAATTTGGCTTTCACGTGCTTACGTTAAAGC
64 CTGT-ATTCACAAGGAGAAAATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGC
* * * *
58391092 AAATCTAAGACGAATTGTTATCTTTGTATTGTCAGAGAACAAATCGAAG
128 AAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
58391141 AAGCGAATTT
Statistics
Matches: 330, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
206 87 0.26
207 3 0.01
208 4 0.01
209 7 0.02
210 212 0.64
211 13 0.04
212 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (208 bp):
CATAGCAGATCACACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGAAAATCGCATCTCTCT
GTATTCACAAGGAGAAAATCAAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAA
TCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAA
TGGAAGGCAGACA
Found at i:58395360 original size:18 final size:20
Alignment explanation
Indices: 58395323--58395377 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
58395313 TACAATATTT
*
58395323 TTATTTTAAATTTATGTTT-AA
1 TTATTTTTAA-TT-TGTTTAAA
58395344 TTATTTTT-ATTTGTTTAAA
1 TTATTTTTAATTTGTTTAAA
*
58395363 TTCTTTTTAATTTGT
1 TTATTTTTAATTTGT
58395378 AGGTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 5 0.17
19 11 0.37
20 7 0.23
21 7 0.23
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.67
Consensus pattern (20 bp):
TTATTTTTAATTTGTTTAAA
Found at i:58402938 original size:37 final size:37
Alignment explanation
Indices: 58402849--58402938 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
58402839 TCCATTCAAA
* * * *
58402849 AACATTCCAATTGCTAATAAGAGCTCATCCACCCGAT
1 AACATACCAATTGCTCATAAGAGCTCAGCCACCCAAT
58402886 AACATACCAATTGCTCATAAGAGCTCAGCCACCCAAT
1 AACATACCAATTGCTCATAAGAGCTCAGCCACCCAAT
*
58402923 AACATGCCAATTGCTC
1 AACATACCAATTGCTC
58402939 TGAAGAGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (37 bp):
AACATACCAATTGCTCATAAGAGCTCAGCCACCCAAT
Found at i:58406404 original size:20 final size:20
Alignment explanation
Indices: 58406381--58406419 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58406371 TTTTAAAAAT
*
58406381 TTTTATATATAATTTATTTA
1 TTTTAAATATAATTTATTTA
*
58406401 TTTTAAATATTATTTATTT
1 TTTTAAATATAATTTATTT
58406420 TTACTATAAA
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:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAAATATAATTTATTTA
Found at i:58406422 original size:22 final size:21
Alignment explanation
Indices: 58406381--58406439 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
58406371 TTTTAAAAAT
* *
58406381 TTTTATATATAATTTA-TTTA
1 TTTTAAATATTATTTATTTTA
58406401 TTTTAAATATTATTTATTTTTA
1 TTTTAAATATTATTTA-TTTTA
* * *
58406423 CTATAAACATTATTTAT
1 TTTTAAATATTATTTAT
58406440 ATATGTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 14 0.44
21 1 0.03
22 17 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAATATTATTTATTTTA
Found at i:58406489 original size:21 final size:20
Alignment explanation
Indices: 58406455--58406617 Score: 93
Period size: 21 Copynumber: 7.5 Consensus size: 20
58406445 TAAAAAATTA
58406455 TTATATA-TATTATTTTTAT
1 TTATATATTATTATTTTTAT
*
58406474 TTATGTATTATTTATTATATTAT
1 TTATATATTA-TTATT-T-TTAT
*
58406497 TTATATTTTATTATATTTTAT
1 TTATATATTATTAT-TTTTAT
58406518 TTATATATT-TTATTATATATCATT
1 TTATATATTATTATT-T-T-T-A-T
58406542 TTATTATATATATTATTCATTATAT
1 TTA-TATAT-TATTATT--TT-TAT
* *
58406567 TT-T-TATTATTATATATAT
1 TTATATATTATTATTTTTAT
*
58406585 TATATTATATTATTATTTATTAC
1 T-TA-TATATTATTATTT-TTAT
58406608 TTAT-TATTAT
1 TTATATATTAT
58406618 GTATAATTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 37
0.72 0.06 0.23
Matches are distributed among these distances:
18 4 0.03
19 9 0.08
20 13 0.11
21 26 0.22
22 22 0.19
23 18 0.16
24 4 0.03
25 8 0.07
26 2 0.02
27 8 0.07
28 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (20 bp):
TTATATATTATTATTTTTAT
Found at i:58406511 original size:52 final size:51
Alignment explanation
Indices: 58406452--58406606 Score: 139
Period size: 49 Copynumber: 3.1 Consensus size: 51
58406442 ATGTAAAAAA
58406452 TTATTATATATATTATTTTTATTTATGTATTATTTATTATATTATTTATATT
1 TTATTATATATATTATTTTTATTTAT-TATTATTTATTATATTATTTATATT
* * * * *
58406504 TTATTATAT-T-TTATTTATATATT-TTATTATATATCATTTTATTATATATA
1 TTATTATATATATTATTTTTAT-TTATTATTATTTATTATATTATT-TATATT
* *
58406554 TTATT-CAT-TA-TATTTTTA-TTATTA-TATATATTATATTATATTAT-TAT
1 TTATTATATATATTATTTTTATTTATTATTATTTATTATATTAT-TTATAT-T
58406601 TTATTA
1 TTATTA
58406607 CTTATTATTA
Statistics
Matches: 86, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
46 1 0.01
47 23 0.27
48 4 0.05
49 26 0.30
50 20 0.23
51 3 0.03
52 9 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (51 bp):
TTATTATATATATTATTTTTATTTATTATTATTTATTATATTATTTATATT
Found at i:58406518 original size:33 final size:34
Alignment explanation
Indices: 58406452--58406622 Score: 136
Period size: 36 Copynumber: 4.9 Consensus size: 34
58406442 ATGTAAAAAA
*
58406452 TTATTATA-TATATTATTTTTATT-TATGTATTAT
1 TTATTATATTAT-TTATTTTTATTATATATATTAT
*
58406485 TTATTATATTATTTATATTTTATTATATTTTATTTAT
1 TTATTATATTATTTAT-TTTTATTATA-TATA-TTAT
* * *
58406522 ATATTTTATTATATATCATTTTATTATATATATTAT
1 TTATTATATTATTTAT--TTTTATTATATATATTAT
* *
58406558 TCATTATATT-TTTATTATTATATATATTATATTAT
1 TTATTATATTATTTATTTTTAT-TATA-TATATTAT
* *
58406593 ATTATTAT-TTA-TTACTTATTATTATGTATA
1 -TTATTATATTATTTA-TTTTTATTATATATA
58406623 ATTTTTAAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
33 17 0.15
34 18 0.16
35 22 0.19
36 27 0.23
37 20 0.17
38 11 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (34 bp):
TTATTATATTATTTATTTTTATTATATATATTAT
Found at i:58406564 original size:73 final size:71
Alignment explanation
Indices: 58406458--58406594 Score: 179
Period size: 73 Copynumber: 1.9 Consensus size: 71
58406448 AAAATTATTA
* * * * *
58406458 TATATATTATTTTTATTTATGTATTATTTATTATATTATTTA-TATTTTATTATATTTTATTTAT
1 TATATATCATTTTTATTTATATATTATTCATTATATT-TTTATTATTATA-TATATTATA-TTAT
58406522 ATATTTTAT
63 ATATTTTAT
58406531 TATATATCA-TTTTATTATATATATTATTCATTATATTTTTATTATTATATATATTATATTATAT
1 TATATATCATTTTTATT-TATATATTATTCATTATATTTTTATTATTATATATATTATATTATAT
58406595 TATTATTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
71 6 0.11
72 19 0.33
73 32 0.56
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (71 bp):
TATATATCATTTTTATTTATATATTATTCATTATATTTTTATTATTATATATATTATATTATATA
TTTTAT
Found at i:58406613 original size:57 final size:59
Alignment explanation
Indices: 58406514--58406629 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
58406504 TTATTATATT
*
58406514 TTATTTATATATTTTATTATATATCATTTTATTATATATATTATTCAT-TAT-ATTTTTA
1 TTATTTATATATTATATTATATATCATTTTATTATATATATTATT-ATGTATAATTTTTA
* *
58406572 TTATTATATATATTATATTATATTATTA-TTTATTA-CT-TATTATTATGTATAATTTTTA
1 TTATT-TATATATTATATTATA-TATCATTTTATTATATATATTATTATGTATAATTTTTA
58406630 AAAAAATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
56 2 0.04
57 10 0.20
58 13 0.25
59 22 0.43
60 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (59 bp):
TTATTTATATATTATATTATATATCATTTTATTATATATATTATTATGTATAATTTTTA
Found at i:58406614 original size:10 final size:10
Alignment explanation
Indices: 58406452--58406617 Score: 94
Period size: 10 Copynumber: 15.7 Consensus size: 10
58406442 ATGTAAAAAA
58406452 TTATTATATAT
1 TTATTAT-TAT
*
58406463 ATTATTTTTAT
1 -TTATTATTAT
58406474 TTATGTATTAT
1 TTAT-TATTAT
58406485 TTATTATATTAT
1 TTA-T-TATTAT
*
58406497 TTATATTTTAT
1 TTAT-TATTAT
58406508 TATATT-TTAT
1 T-TATTATTAT
58406518 TTA-TA-TATT
1 TTATTATTA-T
58406527 TTATTA-TAT
1 TTATTATTAT
*
58406536 ATCATT-TTAT
1 -TTATTATTAT
58406546 TATATATATTAT
1 T-TAT-TATTAT
* *
58406558 TCATTATATTT
1 TTATTAT-TAT
58406569 TTATTATTAT
1 TTATTATTAT
58406579 ATATATTA-TAT
1 -T-TATTATTAT
58406590 TATATTATTAT
1 T-TATTATTAT
58406601 TTATTACTTA-
1 TTATTA-TTAT
58406611 TTATTAT
1 TTATTAT
58406618 GTATAATTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 35
0.74 0.06 0.20
Matches are distributed among these distances:
8 3 0.02
9 9 0.07
10 45 0.35
11 42 0.33
12 29 0.23
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (10 bp):
TTATTATTAT
Found at i:58406639 original size:82 final size:82
Alignment explanation
Indices: 58406482--58406640 Score: 191
Period size: 82 Copynumber: 1.9 Consensus size: 82
58406472 ATTTATGTAT
* * *
58406482 TATTTATTATATTATTTATATTTTATTATATTTTATTTATATATTTTATTATATATCATTTTATT
1 TATTTATTATATTATATATATTATATTATATTTTATTTATATATTTTATTATATATCAATTTATT
* * *
58406547 ATATATATTATTCATTA
66 AAAAAAATTATTCATTA
*
58406564 TATTT-TTATTATTATATATATTATATTATATTATTATTTAT-TACTTATTATTATGTAT-AATT
1 TATTTATTA-TATTATATATATTATATTATATT-TTATTTATATA-TT-TTATTATATATCAATT
58406626 T-TTAAAAAAATTATT
62 TATTAAAAAAATTATT
58406641 AAATAATACA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
81 3 0.05
82 39 0.59
83 14 0.21
84 10 0.15
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (82 bp):
TATTTATTATATTATATATATTATATTATATTTTATTTATATATTTTATTATATATCAATTTATT
AAAAAAATTATTCATTA
Found at i:58407107 original size:7 final size:7
Alignment explanation
Indices: 58407097--58407139 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
58407087 GTACCATGTA
58407097 ATTTTAT
1 ATTTTAT
58407104 ATTTTAT
1 ATTTTAT
58407111 ATTTTAT
1 ATTTTAT
58407118 A-TTTATT
1 ATTTTA-T
*
58407125 ATTTTCT
1 ATTTTAT
58407132 ATGTTTAT
1 AT-TTTAT
58407140 TTGCATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:58413058 original size:21 final size:21
Alignment explanation
Indices: 58413028--58413067 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58413018 GACTTCTCAG
58413028 TCAATCAGACAATCAAATAAT
1 TCAATCAGACAATCAAATAAT
*
58413049 TCAATTAGACAATCAAATA
1 TCAATCAGACAATCAAATA
58413068 GATATTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (21 bp):
TCAATCAGACAATCAAATAAT
Found at i:58416623 original size:44 final size:45
Alignment explanation
Indices: 58416511--58416624 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
58416501 AAAATTTATA
* *
58416511 GCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCACTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTG
* * ** * **
58416556 TCTTCAGTCTGCTCTGCTACAACTTCAGGGAGATTAAG-CT-GGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGA-TAAGACTCACTG
58416600 GCTTCAATCTGCTCCACTGCAACTT
1 GCTTCAATCTGCTCCACTGCAACTT
58416625 TAGAAAGATA
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
44 22 0.41
45 28 0.52
46 4 0.07
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (45 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTG
Found at i:58416633 original size:143 final size:143
Alignment explanation
Indices: 58416418--58416769 Score: 406
Period size: 143 Copynumber: 2.5 Consensus size: 143
58416408 AAGATTCGCT
* * * * * *
58416418 AGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTACTGCAGCTTC
1 AGTCTGCTCTGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTC
* * *
58416483 AAGAAGATAAGATTAGCCAAAATTTATAGCT-TCAATCTGCTCCATTGCAACTTCAGGGAGA-TA
66 AAGAAGATAAGATCAGCCAAAATTTATAGCTGT-AATCTGCTCCACTGCAACGTCAGGGA-ATTA
58416546 AGATTCACTGTCTTC
129 AGATTCACTGTCTTC
*
58416561 AGTCTGCTCTGCTACAACTTCAGGGAGATTAA-GCTGGTGGCTTCAATCTGCTCCACTGCAACTT
1 AGTCTGCTCTGCTACAACTTCAGGGAGA-TAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTT
* * * * * * ** *
58416625 -TAGAAAGATAAGATCCGCCATAATTTGTGGCTGTAATCTGTTCTGCTGCAACGTCGGGGAATTA
65 CAAG-AAGATAAGATCAGCCAAAATTTATAGCTGTAATCTGCTCCACTGCAACGTCAGGGAATTA
* **
58416689 AGGTTCGTTGTCTTC
129 AGATTCACTGTCTTC
* * * *
58416704 AGTCTGCTCTACTATAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTACTTCACTGCAACTTC
1 AGTCTGCTCTGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTC
58416769 A
66 A
58416770 GGGAGATGAG
Statistics
Matches: 175, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
142 6 0.03
143 165 0.94
144 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (143 bp):
AGTCTGCTCTGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTC
AAGAAGATAAGATCAGCCAAAATTTATAGCTGTAATCTGCTCCACTGCAACGTCAGGGAATTAAG
ATTCACTGTCTTC
Found at i:58417192 original size:46 final size:46
Alignment explanation
Indices: 58417134--58417271 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
58417124 AAATTTAGTT
* *
58417134 TCTTCCATCCATCCTACTGCAACTCAAGGGTATAGGATTTGTATCA
1 TCTTCAATCCATCCTACTGCAACTCAGGGGTATAGGATTTGTATCA
* * * *
58417180 TCTTCAGTCCATCCCACTGTAACTCAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCTACTGCAACTCAGGGGTATAGGATTTGTATCA
* * *
58417226 TCTTCAATCAATTCTAATTGCAACTCAGGGGTATAGGATTTGTATC
1 TCTTCAATCCATCCT-ACTGCAACTCAGGGGTATAGGATTTGTATC
58417272 CCAATGCAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 51 0.65
47 28 0.35
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCATCCTACTGCAACTCAGGGGTATAGGATTTGTATCA
Found at i:58419228 original size:40 final size:40
Alignment explanation
Indices: 58419144--58419368 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
58419134 TTGAATGATG
* * * *
58419144 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
58419184 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58419224 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58419263 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58419303 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58419344 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58419369 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58419390 original size:119 final size:119
Alignment explanation
Indices: 58419144--58419401 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
58419134 TTGAATGATG
* *
58419144 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
58419209 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
58419263 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
58419326 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
58419383 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58419402 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:58421013 original size:53 final size:53
Alignment explanation
Indices: 58420950--58421053 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
58420940 GGGAGCATAG
58420950 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
* * * *
58421003 CTCGAAATGAATAAGTTAATCAATGATAGCAAATGTAATAAGAAGTAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATT
58421054 GATTAGGAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
Found at i:58421056 original size:27 final size:26
Alignment explanation
Indices: 58420974--58421056 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 26
58420964 ATTAATCAAA
*
58420974 GATAGCAAATGCAATAAGAAGGAAATT
1 GATAGCAAATG-AATAAGAAGTAAATT
* * *
58421001 AACTCG-AAATGAATAAGTTAA-TCAA-T
1 GA-TAGCAAATGAATAAG--AAGTAAATT
58421027 GATAGCAAATGTAATAAGAAGTAAATT
1 GATAGCAAATG-AATAAGAAGTAAATT
58421054 GAT
1 GAT
58421057 TAGGAGCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
25 4 0.10
26 16 0.38
27 18 0.43
28 4 0.10
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.24
Consensus pattern (26 bp):
GATAGCAAATGAATAAGAAGTAAATT
Found at i:58422961 original size:25 final size:25
Alignment explanation
Indices: 58422933--58422981 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
58422923 ATTGAAACAA
58422933 AGATTTTGGACATAGCCTATTTCAG
1 AGATTTTGGACATAGCCTATTTCAG
58422958 AGATTTTGGACATAGCCTATTTCA
1 AGATTTTGGACATAGCCTATTTCA
58422982 CAGAAGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (25 bp):
AGATTTTGGACATAGCCTATTTCAG
Found at i:58434722 original size:37 final size:37
Alignment explanation
Indices: 58434662--58434798 Score: 177
Period size: 37 Copynumber: 4.0 Consensus size: 37
58434652 TTTAGCTCGA
* *
58434662 ATAATCCCCACACGTAGTTATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
58434699 AAAATCTCCACACGTAGTCATCGGG---T-------C
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
58434726 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
58434763 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58434799 ATATATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
27 25 0.29
30 1 0.01
34 1 0.01
37 59 0.69
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:58434737 original size:64 final size:64
Alignment explanation
Indices: 58434662--58434789 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
58434652 TTTAGCTCGA
*
58434662 ATAATCCCCACACGTAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTC
1 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTC
* *
58434726 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTC
58434790 TTACCCGGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (64 bp):
ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTC
Found at i:58434739 original size:27 final size:27
Alignment explanation
Indices: 58434701--58434752 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
58434691 ACCCGGACAA
58434701 AATCTCCACACGTAGTCATCGGGTCAT
1 AATCTCCACACGTAGTCATCGGGTCAT
58434728 AATCTCCACACGTAGTCATCGGGTC
1 AATCTCCACACGTAGTCATCGGGTC
58434753 TTACCCGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (27 bp):
AATCTCCACACGTAGTCATCGGGTCAT
Found at i:58434997 original size:48 final size:48
Alignment explanation
Indices: 58434939--58435180 Score: 376
Period size: 48 Copynumber: 5.0 Consensus size: 48
58434929 ATATACACAC
* * *
58434939 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
58434987 ATCTCATACATATTTCACACTAGCCATTTGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58435035 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58435083 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
58435131 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58435179 AT
1 AT
58435181 TTATCTTGTA
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:58445299 original size:47 final size:46
Alignment explanation
Indices: 58445187--58445458 Score: 198
Period size: 47 Copynumber: 5.8 Consensus size: 46
58445177 AATTTCTTGT
** *
58445187 GTGCCAGTGTAAGACATGTCTGGGACATGCAAT-GGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGC-ATCGG-CACAGAGACGA
* *
58445233 GTGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGACGA
* * **
58445281 GTGCCAGTGTAAGACATGTCTAGGACATGCATCAGC-CTCA-ACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGACGA
* ** **
58445325 TGATAGCCAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGAG--TT
1 -G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGACGA
* * * *
58445372 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC--AGAGACGA
* * *
58445420 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
58445459 ACTTATTCCA
Statistics
Matches: 177, Mismatches: 32, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 33 0.19
45 4 0.02
46 23 0.13
47 62 0.35
48 32 0.18
49 14 0.08
50 8 0.05
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGACGA
Found at i:58445307 original size:94 final size:91
Alignment explanation
Indices: 58445187--58445459 Score: 295
Period size: 94 Copynumber: 2.9 Consensus size: 91
58445177 AATTTCTTGT
*
58445187 GTGCCAGTGTAAGACATGTCTGGGACATGCAAT-GGCCACATTATGAGTGCTAGTATAAGACCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGC-ATCAGCCACATTATGAGTGCTAGTATAAGACCAT
58445251 GTCTGGGACATGGCATCGGCACAGAGACGA
65 GTCTGGGACATGGCATCGGCA-AGAG--GA
* * ** * * *
58445281 GTGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCAACGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGT-GCTAGTATAAGACCA
** **
58445344 TGTCTGGGACA-CACATCGGCTAAGAGTT
64 TGTCTGGGACATGGCATCGGC-AAGAGGA
* *
58445372 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATATATACGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAT-TAT--GAGTGCTAGTATAAGACC
58445436 ATGTCTGGGACATGGCATCGGCAA
63 ATGTCTGGGACATGGCATCGGCAA
58445460 CTTATTCCAT
Statistics
Matches: 146, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
89 1 0.01
90 4 0.03
91 33 0.23
92 12 0.08
93 27 0.18
94 54 0.37
95 15 0.10
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCTAGTATAAGACCATG
TCTGGGACATGGCATCGGCAAGAGGA
Found at i:58447657 original size:75 final size:75
Alignment explanation
Indices: 58447538--58447865 Score: 342
Period size: 75 Copynumber: 4.4 Consensus size: 75
58447528 GTGAAAGAGA
* * * * *
58447538 TTGCACCCAGCGCTAGT-GGATTAACTGACAGTT-TTGAATATGAGCCCAGCTCTAATTGGATAA
1 TTGCACCCAGTGCTAGTCGGATTAACCGATA-TTATTGAATGTGAGCCCAGCTCTAGTTGGATAA
58447601 ACCAACGATAT
65 ACCAACGATAT
58447612 TTGCACCCAGTGCTAGTCGGATTAACCGATATTATTGAATGTGAGCCCAGCTCTAGTTGGATAAA
1 TTGCACCCAGTGCTAGTCGGATTAACCGATATTATTGAATGTGAGCCCAGCTCTAGTTGGATAAA
*
58447677 CCAATGATAT
66 CCAACGATAT
* * * * * * * *
58447687 TCGCACCCAATGCTAGTCGGATTAGCCGATAGTATTGAATGTGAACCCAACTCTAGTCGGATATA
1 TTGCACCCAGTGCTAGTCGGATTAACCGATATTATTGAATGTGAGCCCAGCTCTAGTTGGATAAA
58447752 CCAACGATAT
66 CCAACGATAT
* * * * **
58447762 TTGCACCCAGTGCTAGTCGG-GTATACCAACGATTA-T-AATTGTGAGCCCAGCGCTAGTCAGAT
1 TTGCACCCAGTGCTAGTCGGATTA-ACCGA-TATTATTGAA-TGTGAGCCCAGCTCTAGTTGGAT
* *
58447824 AAACCAATGATAA
63 AAACCAACGATAT
* * ** *
58447837 TTGCATCTAGCACTAGTCGGATAAACCGA
1 TTGCACCCAGTGCTAGTCGGATTAACCGA
58447866 CAGTTGTGTG
Statistics
Matches: 212, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
74 22 0.10
75 186 0.88
76 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (75 bp):
TTGCACCCAGTGCTAGTCGGATTAACCGATATTATTGAATGTGAGCCCAGCTCTAGTTGGATAAA
CCAACGATAT
Found at i:58447746 original size:40 final size:40
Alignment explanation
Indices: 58447624--58447748 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 40
58447614 GCACCCAGTG
* * *
58447624 CTAGTCGGATTAACCGATATTATTGAATGTGAGCCCAGCT
1 CTAGTCGGATTAACCGATAGTATTGAATGTGAACCCAACT
* * * *
58447664 CTAGTTGGATAAACCAAT-G-A-T--AT-TCGCACCCAA-T
1 CTAGTCGGATTAACCGATAGTATTGAATGT-GAACCCAACT
*
58447698 GCTAGTCGGATTAGCCGATAGTATTGAATGTGAACCCAACT
1 -CTAGTCGGATTAACCGATAGTATTGAATGTGAACCCAACT
58447739 CTAGTCGGAT
1 CTAGTCGGAT
58447749 ATACCAACGA
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
34 2 0.03
35 21 0.33
36 1 0.02
37 2 0.03
38 2 0.03
40 34 0.53
41 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (40 bp):
CTAGTCGGATTAACCGATAGTATTGAATGTGAACCCAACT
Found at i:58453262 original size:28 final size:28
Alignment explanation
Indices: 58453194--58453289 Score: 117
Period size: 25 Copynumber: 3.5 Consensus size: 28
58453184 CATGAGATTG
* * * *
58453194 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
58453223 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58453251 GCACTAAGTGTGCGA---TGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58453276 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58453290 GACTTAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
25 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58461199 original size:27 final size:28
Alignment explanation
Indices: 58461115--58461212 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
58461105 CATGAGATTG
* * * *
58461115 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
58461144 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58461172 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58461199 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58461213 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58461223 original size:27 final size:27
Alignment explanation
Indices: 58461143--58461225 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
58461133 TAAATTGTAC
* *
58461143 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
58461171 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
58461198 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
58461225 A
1 A
58461226 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:58461226 original size:29 final size:27
Alignment explanation
Indices: 58461115--58461226 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
58461105 CATGAGATTG
** * *
58461115 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
58461144 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
58461172 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
58461199 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
58461227 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:58467199 original size:13 final size:13
Alignment explanation
Indices: 58467181--58467206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58467171 TAAAGACTAA
58467181 AATGCAATCCACT
1 AATGCAATCCACT
58467194 AATGCAATCCACT
1 AATGCAATCCACT
58467207 CTAAGTACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
AATGCAATCCACT
Found at i:58467729 original size:6 final size:6
Alignment explanation
Indices: 58467718--58467742 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
58467708 ATTGATAATA
58467718 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
58467743 AAAATATTTA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:58472218 original size:47 final size:47
Alignment explanation
Indices: 58472164--58472521 Score: 581
Period size: 47 Copynumber: 7.6 Consensus size: 47
58472154 TATTTGAATA
58472164 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58472211 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58472258 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58472307 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58472354 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58472401 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
58472448 AATGTGAAAGTGCATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58472495 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58472522 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 248 0.85
49 45 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58473642 original size:40 final size:40
Alignment explanation
Indices: 58473593--58473669 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
58473583 CCAACACACC
* * *
58473593 ATGTAGGGATAAAATCGATCCACCCATCCCTACACACAAA
1 ATGTAGGGATAAAATCAACCCACCCAACCCTACACACAAA
* *
58473633 ATGTGGGGATAAAATCAACCCATCCAACCCTACACAC
1 ATGTAGGGATAAAATCAACCCACCCAACCCTACACAC
58473670 CATAGAGTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.31, G:0.13, T:0.17
Consensus pattern (40 bp):
ATGTAGGGATAAAATCAACCCACCCAACCCTACACACAAA
Found at i:58476874 original size:27 final size:27
Alignment explanation
Indices: 58476843--58477020 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58476833 TAAATTGTAC
58476843 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58476870 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58476896 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58476924 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
58476952 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58476979 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58477006 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58477021 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58476957 original size:82 final size:81
Alignment explanation
Indices: 58476844--58476999 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58476834 AAATTGTACA
* *
58476844 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58476908 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58476925 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58476990 TGCGAGTTGA
65 TGCGAATTGA
58477000 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58477011 original size:82 final size:81
Alignment explanation
Indices: 58476840--58477020 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
58476830 GATTAAATTG
* *
58476840 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58476905 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58476921 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58476985 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58477003 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58477021 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58485067 original size:27 final size:27
Alignment explanation
Indices: 58485036--58485213 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58485026 TAAATTGTAC
58485036 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58485063 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58485089 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58485117 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
58485145 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58485172 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58485199 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58485214 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58485150 original size:82 final size:81
Alignment explanation
Indices: 58485037--58485192 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58485027 AAATTGTACA
* *
58485037 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58485101 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58485118 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58485183 TGCGAGTTGA
65 TGCGAATTGA
58485193 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58485204 original size:82 final size:81
Alignment explanation
Indices: 58485033--58485213 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
58485023 GATTAAATTG
* *
58485033 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58485098 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58485114 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58485178 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58485196 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58485214 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58487014 original size:20 final size:20
Alignment explanation
Indices: 58486986--58487023 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58486976 AAGGTATATT
*
58486986 AAAAGAATGATAAAGTGACA
1 AAAAAAATGATAAAGTGACA
*
58487006 AAAAAAATGATAATGTGA
1 AAAAAAATGATAAAGTGA
58487024 ATTAAGATAT
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:0.61, C:0.03, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAAAAATGATAAAGTGACA
Found at i:58487157 original size:13 final size:13
Alignment explanation
Indices: 58487139--58487164 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58487129 TAATGGGTTC
58487139 AAATTTATTATAT
1 AAATTTATTATAT
58487152 AAATTTATTATAT
1 AAATTTATTATAT
58487165 TTTATTTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATTTATTATAT
Found at i:58498101 original size:22 final size:23
Alignment explanation
Indices: 58498028--58498151 Score: 130
Period size: 22 Copynumber: 5.4 Consensus size: 23
58498018 TCAGCTCGTA
* *
58498028 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* * *
58498052 AGAGCTTACCGTTTTAGCTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
58498074 ATGAGCTTACTG-TTCAGCTCAAT
1 A-GAGCTTACTGTTTCAGCTCAAT
*
58498097 AGAGCTTACTG-TTCAGCTCGAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
58498119 AGAGCTTACCGTTTCAGCTCAA-
1 AGAGCTTACTGTTTCAGCTCAAT
58498141 ATGAGCTTACT
1 A-GAGCTTACT
58498152 ATTCATCAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
22 40 0.46
23 37 0.43
24 10 0.11
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:58498132 original size:67 final size:68
Alignment explanation
Indices: 58498028--58498156 Score: 181
Period size: 67 Copynumber: 1.9 Consensus size: 68
58498018 TCAGCTCGTA
* * ** *
58498028 AGAGCTTACTGTTTTTAGCTCATTAGAGCTTACCGTTTTAGCTCGTATGAGCTTACTGTTCAGCT
1 AGAGCTTACTG-TTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAATGAGCTTACTATTCAGCT
58498093 CAAT
65 CAAT
58498097 AGAGCTTACTG-TTCAGCTCGA-TAGAGCTTACCGTTTCAGCTCAAATGAGCTTACTATTCA
1 AGAGCTTACTGTTTCAGCTC-ATTAGAGCTTACCGTTTCAGCTCAAATGAGCTTACTATTCA
58498157 TCAGCTTAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 42 0.78
68 1 0.02
69 11 0.20
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (68 bp):
AGAGCTTACTGTTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAATGAGCTTACTATTCAGCTC
AAT
Found at i:58498135 original size:45 final size:44
Alignment explanation
Indices: 58498018--58498156 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 44
58498008 TATTGATATA
* * *
58498018 TCAGCTCGTAAGAGCTTACTGTTTTTAGCTCATTAGAGCTTACCGTT
1 TCAGCTCGT-AGAGCTTACTG-TTTCAGCTCAATAGAGCTTACTG-T
*
58498065 TTAGCTCGTATGAGCTTACTG-TTCAGCTCAATAGAGCTTACTGT
1 TCAGCTCGTA-GAGCTTACTGTTTCAGCTCAATAGAGCTTACTGT
* *
58498109 TCAGCTCGATAGAGCTTACCGTTTCAGCTCAA-ATGAGCTTACTAT
1 TCAGCTCG-TAGAGCTTACTGTTTCAGCTCAATA-GAGCTTACTGT
58498154 TCA
1 TCA
58498157 TCAGCTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
44 18 0.22
45 44 0.54
46 1 0.01
47 18 0.22
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (44 bp):
TCAGCTCGTAGAGCTTACTGTTTCAGCTCAATAGAGCTTACTGT
Found at i:58503058 original size:22 final size:22
Alignment explanation
Indices: 58503028--58503098 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
58503018 GCATAAGTAT
*
58503028 AATACAAAAACATGCAAATCAC
1 AATAAAAAAACATGCAAATCAC
* *
58503050 AATAAAAAAA-AT-CACAATAAT
1 AATAAAAAAACATGCA-AATCAC
* * *
58503071 ATATACAAAAGCATGCAAAACAC
1 A-ATAAAAAAACATGCAAATCAC
58503094 AATAA
1 AATAA
58503099 TATCACTTCA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
20 2 0.06
21 7 0.19
22 19 0.53
23 6 0.17
24 2 0.06
ACGTcount: A:0.63, C:0.17, G:0.04, T:0.15
Consensus pattern (22 bp):
AATAAAAAAACATGCAAATCAC
Found at i:58517226 original size:48 final size:48
Alignment explanation
Indices: 58517133--58517227 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
58517123 CGGCAGTGAC
* * * *
58517133 ATGTGATCCCATGTAAAACCATGTCTGGGATAAGGCTTTGGCATCATT
1 ATGTGATCCCATGTAAAACCATGTCTGAGACAAGGCATTGACATCATT
* * * *
58517181 ATGTGATCCCATGTAAGATCATGTTTGAGACATGGCATTGACATCAT
1 ATGTGATCCCATGTAAAACCATGTCTGAGACAAGGCATTGACATCAT
58517228 AATGAGACAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (48 bp):
ATGTGATCCCATGTAAAACCATGTCTGAGACAAGGCATTGACATCATT
Found at i:58524936 original size:17 final size:17
Alignment explanation
Indices: 58524914--58524962 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
58524904 CTCAATTAGG
*
58524914 AAAAAAAAAATAAAAGA
1 AAAAAAAAAAGAAAAGA
*
58524931 AAAAAAAGAAGAAAAGA
1 AAAAAAAAAAGAAAAGA
58524948 GAAGGAAAAAAAAGA
1 -AA--AAAAAAAAGA
58524963 GTAATATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.58
18 2 0.08
20 9 0.35
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAGA
Found at i:58525033 original size:26 final size:26
Alignment explanation
Indices: 58524984--58525049 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
58524974 ATATGTTTTT
* *
58524984 TAATTTTT-T-ATTTATTTATCTTTA
1 TAATTTTTATAATTTATATATATTTA
58525008 TAATTTTTATAATTTATATATATTTA
1 TAATTTTTATAATTTATATATATTTA
58525034 -AATTTATTATATATTT
1 TAATTT-TTATA-ATTT
58525050 TTGAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 8 0.22
25 6 0.17
26 18 0.50
27 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TAATTTTTATAATTTATATATATTTA
Found at i:58525044 original size:17 final size:17
Alignment explanation
Indices: 58525004--58525049 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
58524994 TTTATTTATC
*
58525004 TTTATA-ATTTTTATAA
1 TTTATATATATTTATAA
58525020 TTTATATATATTTA-AA
1 TTTATATATATTTATAA
58525036 TTTATTATATATTT
1 TTTA-TATATATTT
58525050 TTGAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATATATATTTATAA
Found at i:58525060 original size:19 final size:18
Alignment explanation
Indices: 58525005--58525060 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
58524995 TTATTTATCT
*
58525005 TTATA-ATTTTTATAAT-
1 TTATATATTTTTAAAATA
* *
58525021 TTATATATATTTAAATTTA
1 TTATATATTTTTAAA-ATA
58525040 TTATATATTTTTGAAAATA
1 TTATATATTTTT-AAAATA
58525059 TT
1 TT
58525061 TATGTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.16
17 7 0.23
18 1 0.03
19 15 0.48
20 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTATATATTTTTAAAATA
Found at i:58526727 original size:43 final size:44
Alignment explanation
Indices: 58526674--58526760 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
58526664 ATTTACTTAA
58526674 TTTTTTTGTATAAATCAAGTTAAAATAGGTAAAA-AAAATCTTT
1 TTTTTTTGTATAAATCAAGTTAAAATAGGTAAAAGAAAATCTTT
*
58526717 TTTTTTTGTATAAATCGAGTTAAAATAGGTAAAAGAAAATCTTT
1 TTTTTTTGTATAAATCAAGTTAAAATAGGTAAAAGAAAATCTTT
58526761 ATTTGAGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 33 0.79
44 9 0.21
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (44 bp):
TTTTTTTGTATAAATCAAGTTAAAATAGGTAAAAGAAAATCTTT
Found at i:58529947 original size:21 final size:21
Alignment explanation
Indices: 58529921--58529961 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58529911 ATCTGCTCAA
* *
58529921 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
58529942 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
58529962 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:58534277 original size:180 final size:176
Alignment explanation
Indices: 58533979--58534317 Score: 466
Period size: 180 Copynumber: 1.9 Consensus size: 176
58533969 AGCATTTTAA
* **
58533979 TCTAAATTATGTCAAAATTATAGAGATTAAATCTCAAATTTGAGTGAAATATAGGGATCAGCACT
1 TCTAAATTATGTCAAAATTATAGAGATTAAATCTCAAATTTGAGTGAAATATAGAGATCAAAACT
* * ** * *
58534044 GAAATTTAATCATTCTTATATAATCTTAAAAAAGTATTGTGACTAGAACTGAAATTTAGCCATTA
66 AAAATTTAACCATTCTTATATAATCTTAAAAAAGTAGAGGGACTAGAACTGAAATTTAACCATTA
*
58534109 -TTTTCTCATGTGAAAAGAAAAGGAAAAAAAAAAAGAACAGTCAGGT
131 TTTTTCTCATGTCAAAAGAAAA-GAAAAAAAAAAAGAACAGTCAGGT
58534155 TCTAAATTATGTCAAAATAAAGTATAGAGATTAAATCTCAAATTTGAGTGAAATATA-AGACTCA
1 TCTAAATTATGTCAAAAT----TATAGAGATTAAATCTCAAATTTGAGTGAAATATAGAGA-TCA
* * * * *
58534219 AAACTAAAATTTAACCGTTCTTATATAATCTTGAGAAGGTAGAGGGATTAGAACTGAAATTTAAC
61 AAACTAAAATTTAACCATTCTTATATAATCTTAAAAAAGTAGAGGGACTAGAACTGAAATTTAAC
*
58534284 CATTATTTTTTTCATGTCAAAAGAAAAGAAAAAA
126 CATTATTTTTCTCATGTCAAAAGAAAAGAAAAAA
58534318 GAATGGGCGG
Statistics
Matches: 141, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
176 18 0.13
179 2 0.01
180 102 0.72
181 19 0.13
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (176 bp):
TCTAAATTATGTCAAAATTATAGAGATTAAATCTCAAATTTGAGTGAAATATAGAGATCAAAACT
AAAATTTAACCATTCTTATATAATCTTAAAAAAGTAGAGGGACTAGAACTGAAATTTAACCATTA
TTTTTCTCATGTCAAAAGAAAAGAAAAAAAAAAAGAACAGTCAGGT
Found at i:58534489 original size:3 final size:3
Alignment explanation
Indices: 58534476--58534505 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
58534466 TCTCATTGTC
*
58534476 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
58534506 CAGGTGCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:58535739 original size:17 final size:16
Alignment explanation
Indices: 58535719--58535761 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
58535709 ATTTAAAGTC
58535719 AAAATTAATTTAAACAT
1 AAAATTAATTT-AACAT
*
58535736 AAAATTAATATAACAT
1 AAAATTAATTTAACAT
58535752 AAAA-TAATTT
1 AAAATTAATTT
58535762 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 10 0.42
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTAATTTAACAT
Found at i:58535752 original size:16 final size:17
Alignment explanation
Indices: 58535719--58535756 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
58535709 ATTTAAAGTC
*
58535719 AAAATTAATTTAAACAT
1 AAAATTAATATAAACAT
58535736 AAAATTAATAT-AACAT
1 AAAATTAATATAAACAT
58535752 AAAAT
1 AAAAT
58535757 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTAATATAAACAT
Found at i:58539664 original size:9 final size:10
Alignment explanation
Indices: 58539639--58539663 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58539629 AAACAAAACA
58539639 GAAAAATTTG
1 GAAAAATTTG
58539649 GAAAAATTTG
1 GAAAAATTTG
58539659 GAAAA
1 GAAAA
58539664 TAGGGTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (10 bp):
GAAAAATTTG
Found at i:58540365 original size:124 final size:124
Alignment explanation
Indices: 58540145--58540390 Score: 483
Period size: 124 Copynumber: 2.0 Consensus size: 124
58540135 TGTGCCCTCA
*
58540145 TTGACACCACAATTCAAACACCTAAACAAAATCACATTCATCTATCACGATTTCACTCATCAATT
1 TTGACACCACAATTCAAACACCTAAACAAAATCACATTCATCTATCACAATTTCACTCATCAATT
58540210 CATCCATTTAACCATTAAATACCAAAGCAATATGAGCTATACTATATATGACCAAAACG
66 CATCCATTTAACCATTAAATACCAAAGCAATATGAGCTATACTATATATGACCAAAACG
58540269 TTGACACCACAATTCAAACACCTAAACAAAATCACATTCATCTATCACAATTTCACTCATCAATT
1 TTGACACCACAATTCAAACACCTAAACAAAATCACATTCATCTATCACAATTTCACTCATCAATT
58540334 CATCCATTTAACCATTAAATACCAAAGCAATATGAGCTATACTATATATGACCAAAA
66 CATCCATTTAACCATTAAATACCAAAGCAATATGAGCTATACTATATATGACCAAAA
58540391 GATCAAACTT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.27
Consensus pattern (124 bp):
TTGACACCACAATTCAAACACCTAAACAAAATCACATTCATCTATCACAATTTCACTCATCAATT
CATCCATTTAACCATTAAATACCAAAGCAATATGAGCTATACTATATATGACCAAAACG
Found at i:58541419 original size:35 final size:35
Alignment explanation
Indices: 58541379--58541449 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
58541369 AATTTAATCC
*
58541379 ATTTAAACTTTATAAATACTCAATTTATACAATTA
1 ATTTAAACCTTATAAATACTCAATTTATACAATTA
58541414 ATTTAAACCTTATAAATACTCAATTTATACAATTA
1 ATTTAAACCTTATAAATACTCAATTTATACAATTA
58541449 A
1 A
58541450 GTCTTTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (35 bp):
ATTTAAACCTTATAAATACTCAATTTATACAATTA
Found at i:58546169 original size:43 final size:43
Alignment explanation
Indices: 58546122--58546224 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
58546112 CCTCAATTGA
* **
58546122 GATTTACGTATAAGACCATATCTGGGACATCGGCATCG-TATCT
1 GATTTACGTGTAAGACCATATCTGGGACAGAGGCATCGATAT-T
* *
58546165 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATATCTGGGACAGAGGCATCGATATT
* *
58546207 GAATTACATGTAAGACCA
1 GATTTACGTGTAAGACCA
58546225 CGTCCAGGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 32 0.64
43 18 0.36
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATATCTGGGACAGAGGCATCGATATT
Found at i:58553046 original size:18 final size:18
Alignment explanation
Indices: 58553019--58553053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58553009 TTGATAATTA
*
58553019 TTAAGTATTTTAAGTTAT
1 TTAAGAATTTTAAGTTAT
*
58553037 TTAAGAATTTTATGTTA
1 TTAAGAATTTTAAGTTA
58553054 ACAAGAAAGT
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:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TTAAGAATTTTAAGTTAT
Found at i:58553437 original size:11 final size:12
Alignment explanation
Indices: 58553421--58553449 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
58553411 TGCCACGTTC
58553421 TATCTTTCCA-T
1 TATCTTTCCATT
58553432 TATCTTTCCATT
1 TATCTTTCCATT
58553444 TATCTT
1 TATCTT
58553450 CTTTATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:58553871 original size:8 final size:8
Alignment explanation
Indices: 58553860--58553898 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
58553850 AAAAAAGTAC
58553860 AAAAAAAT
1 AAAAAAAT
* *
58553868 AAAATACT
1 AAAAAAAT
*
58553876 AAAAAAAC
1 AAAAAAAT
58553884 AAAAAAAT
1 AAAAAAAT
58553892 AAAAAAA
1 AAAAAAA
58553899 ATTCTGTGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:58557402 original size:69 final size:69
Alignment explanation
Indices: 58557320--58557457 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
58557310 CTATTACTGC
58557320 TCCATTAACTGAGATTATTAAAAAATATGTGGGTTTTAAATGGGGAGAAGTTCAGGAAAAGGCTT
1 TCCATTAACTGAGATTATTAAAAAATATGTGGGTTTTAAATGGGGAGAAGTTCAGGAAAAGGCTT
58557385 TTCA
66 TTCA
*
58557389 TCCATTAACTGAGATTATTAAAAAATCTGTGGGTTTTAAATGGGGAGAAGTTCAGGAAAAGGCTT
1 TCCATTAACTGAGATTATTAAAAAATATGTGGGTTTTAAATGGGGAGAAGTTCAGGAAAAGGCTT
58557454 TTCA
66 TTCA
58557458 AACTTTAAAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (69 bp):
TCCATTAACTGAGATTATTAAAAAATATGTGGGTTTTAAATGGGGAGAAGTTCAGGAAAAGGCTT
TTCA
Found at i:58559816 original size:21 final size:21
Alignment explanation
Indices: 58559792--58559837 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
58559782 AGTTTTTCTT
*
58559792 TTTTCAAGAATTTCTC-TTGAG
1 TTTT-AAGAAATTCTCTTTGAG
*
58559813 TTTTAATAAATTCTCTTTGAG
1 TTTTAAGAAATTCTCTTTGAG
58559834 TTTT
1 TTTT
58559838 TCCTTTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (21 bp):
TTTTAAGAAATTCTCTTTGAG
Found at i:58559827 original size:50 final size:50
Alignment explanation
Indices: 58559765--58559866 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
58559755 TTCTTTTGAG
* *
58559765 TTAATAAATTCTCTTTGAGTTTTTCTTTTTTCAAGAATTTCTCTTGAGTT
1 TTAATAAATTCTCTTTGAGTTTTTCCTTTTTCAAGAATTTCTCTTGAATT
58559815 TTAATAAATTCTCTTTGAGTTTTTCCTTTTTCAAGAATTTCTCTTGAATT
1 TTAATAAATTCTCTTTGAGTTTTTCCTTTTTCAAGAATTTCTCTTGAATT
58559865 TT
1 TT
58559867 TTTTAGAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.56
Consensus pattern (50 bp):
TTAATAAATTCTCTTTGAGTTTTTCCTTTTTCAAGAATTTCTCTTGAATT
Found at i:58560042 original size:11 final size:12
Alignment explanation
Indices: 58560026--58560054 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
58560016 CGCCACGTTC
58560026 TATCTTTCCA-T
1 TATCTTTCCATT
58560037 TATCTTTCCATT
1 TATCTTTCCATT
58560049 TATCTT
1 TATCTT
58560055 CTTTATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:58561908 original size:43 final size:44
Alignment explanation
Indices: 58561828--58561912 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
58561818 GTAATGCCTC
* * *
58561828 GTAACCCTAATCTGATGTTAATTACGGGTTAGGGGTGTTACACT
1 GTAACCCTAATCCGATGTTAATTACGGGTGAGCGGTGTTACACT
*
58561872 GTAACCCT-ATCCGGTGTTGAA-TACGGGTGAGCGGTGTTACA
1 GTAACCCTAATCCGATGTT-AATTACGGGTGAGCGGTGTTACA
58561913 GGTTATGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (44 bp):
GTAACCCTAATCCGATGTTAATTACGGGTGAGCGGTGTTACACT
Found at i:58564867 original size:13 final size:13
Alignment explanation
Indices: 58564838--58564870 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58564828 ATTCCAAGTC
*
58564838 ATGTTTT-AAGCT
1 ATGTTTTAAAGAT
58564850 ATGTTTTAAAGAT
1 ATGTTTTAAAGAT
58564863 ATGTTTTA
1 ATGTTTTA
58564871 CACGTGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (13 bp):
ATGTTTTAAAGAT
Found at i:58566195 original size:15 final size:16
Alignment explanation
Indices: 58566175--58566204 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58566165 AAGATCTTAT
58566175 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
58566190 AATCATAACCTTACT
1 AATCATAACCTTACT
58566205 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:58566497 original size:42 final size:41
Alignment explanation
Indices: 58566381--58566529 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 41
58566371 TACCAATGGT
* * * *
58566381 ATATCCTAGATATGGTCTTACATGTAATCTCATATCGTTACC
1 ATATCCCAAATATGGTCTTACATG-AATCTCATATCGATGCC
* *
58566423 AATAGT-CCAACTATGGTCTTACACGAAATCTCATATCGATGCC
1 -ATA-TCCCAAATATGGTCTTACATG-AATCTCATATCGATGCC
58566466 ATATCCCAAATATGGTCTTACATGAAGTCTCATA-CTGATGCC
1 ATATCCCAAATATGGTCTTACATGAA-TCTCATATC-GATGCC
*
58566508 ATATCCCAGATATGGTCTTACA
1 ATATCCCAAATATGGTCTTACA
58566530 CATAAACTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 33 0.36
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (41 bp):
ATATCCCAAATATGGTCTTACATGAATCTCATATCGATGCC
Found at i:58570905 original size:42 final size:42
Alignment explanation
Indices: 58570806--58570946 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
58570796 CATATCTTAG
* * * * * *
58570806 ATATGGTTTTACATGTAATCTCATATCAATACCAATAGCCCAA
1 ATATGGTCTTACACGAAATCTCATATCGATGCC-ATATCCCAA
* * *
58570849 CTACGGTCTTACACGAAATCTCATATCGATGCCATATTCCAA
1 ATATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAA
* * *
58570891 ATATGGTCTTACACGAAGTATCATA-CTGATGCCATATCCCAG
1 ATATGGTCTTACACGAAATCTCATATC-GATGCCATATCCCAA
*
58570933 ATATGGTTTTACAC
1 ATATGGTCTTACAC
58570947 ATAAACTTAG
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 54 0.67
43 26 0.32
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (42 bp):
ATATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAA
Found at i:58580735 original size:46 final size:47
Alignment explanation
Indices: 58580589--58580790 Score: 166
Period size: 46 Copynumber: 4.4 Consensus size: 47
58580579 GTGCTAATGT
* ** *
58580589 AAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCCAGTGA
* * *** ** ** * *
58580635 GAGACCATGTCTAGGACATGGCATCGATATTGAGA-CAAGAGCTAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAGAGCCAGTGA
58580683 AAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-AGCCAGTGA
1 AAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCCAGTGA
* *
58580729 AAGACATATCTGGGACATGCATCGG-CTACAAGATGT---GTCAGTGA
1 AAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAGAGCCAGTGA
58580773 AAGACCATGTCTGGGACA
1 AAGA-CATGTCTGGGACA
58580791 AGGCTTCGAT
Statistics
Matches: 124, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
44 11 0.09
45 14 0.11
46 52 0.42
47 27 0.22
48 20 0.16
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (47 bp):
AAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCCAGTGA
Found at i:58580827 original size:50 final size:48
Alignment explanation
Indices: 58580760--58580896 Score: 138
Period size: 47 Copynumber: 2.9 Consensus size: 48
58580750 TCGGCTACAA
* * *
58580760 GATGTGTCAGTGAAAGACCATGTCTGGGACAA-GGCTTCGATACGAATATG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCG--ACGAA-ATG
**
58580810 TGA-GAGTCAGTGTAAGACCATGTCTGGGA-AATGGCATCGACTTAATG
1 -GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCGACGAAATG
* * *
58580857 GATGAGCCAGTGTAAGACCATGTCTAGGAC-ATGACATCGA
1 GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCGA
58580897 TATTATACCC
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
46 2 0.03
47 36 0.48
48 3 0.04
49 2 0.03
50 30 0.40
51 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (48 bp):
GATGAGTCAGTGTAAGACCATGTCTGGGACAATGGCATCGACGAAATG
Found at i:58584395 original size:18 final size:19
Alignment explanation
Indices: 58584364--58584399 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58584354 CAATAAAAAT
*
58584364 ATTTTTTCATTATTTTCTA
1 ATTTTTACATTATTTTCTA
58584383 ATTTTTACA-TATTTTCT
1 ATTTTTACATTATTTTCT
58584400 TTTTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTACATTATTTTCTA
Found at i:58594044 original size:19 final size:20
Alignment explanation
Indices: 58594001--58594051 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
58593991 ATTGATTAGT
**
58594001 TTAATTAATCATGTTTTCACC
1 TTAATTAATCATAATTT-ACC
58594022 TTAATTAATCATAATTT-CC
1 TTAATTAATCATAATTTACC
58594041 TTAATTAATCA
1 TTAATTAATCA
58594052 ACTAATATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
21 15 0.54
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (20 bp):
TTAATTAATCATAATTTACC
Found at i:58594839 original size:20 final size:20
Alignment explanation
Indices: 58594793--58594830 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58594783 TTCCTAAACC
*
58594793 TTAGCTTTTCTTCTTTTACG
1 TTAGTTTTTCTTCTTTTACG
*
58594813 TTAGTTTTTTTTCTTTTA
1 TTAGTTTTTCTTCTTTTA
58594831 TTTTAGTTTC
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:0.11, C:0.13, G:0.08, T:0.68
Consensus pattern (20 bp):
TTAGTTTTTCTTCTTTTACG
Found at i:58596834 original size:48 final size:48
Alignment explanation
Indices: 58596760--58596854 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
58596750 TCGAGAATCC
* *
58596760 CGCACCTGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTATCT
1 CGCACCCGAAGTGACAATATCATGGCCCAAAGCCAAATCAATGTATCT
* * *
58596808 CGCACCCGAAGTGACAATATCGTGGCCCGAAGCCAACTCAATGTATC
1 CGCACCCGAAGTGACAATATCATGGCCCAAAGCCAAATCAATGTATC
58596855 ACATATACTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.19
Consensus pattern (48 bp):
CGCACCCGAAGTGACAATATCATGGCCCAAAGCCAAATCAATGTATCT
Found at i:58598570 original size:39 final size:39
Alignment explanation
Indices: 58598527--58598654 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
58598517 GGCGTATGCC
* *
58598527 CAGGCCATGTGAGGGCTAGTGAGTCACACGAGTGTGTGA
1 CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
** *
58598566 CAGGCCGTGTGAGGGCTTGCAAGTCACACAAGTGTGTGA
1 CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
* *
58598605 CAGGCCGTGTAAGGGCTTGTGAGTCACACGAGTGTGTGT
1 CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
58598644 CAGGCCGTGTG
1 CAGGCCGTGTG
58598655 CCAGACCATG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.20, C:0.20, G:0.38, T:0.22
Consensus pattern (39 bp):
CAGGCCGTGTGAGGGCTTGTGAGTCACACGAGTGTGTGA
Found at i:58600405 original size:3 final size:3
Alignment explanation
Indices: 58600399--58600433 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
58600389 ATAACGTAAA
58600399 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
58600434 ATTCACTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:58617138 original size:22 final size:23
Alignment explanation
Indices: 58617110--58617162 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
58617100 AATTGAACTT
*
58617110 TTTTTATTAATTATATACTAC-A
1 TTTTTATTAATGATATACTACTA
* * *
58617132 TTTTTATCAATGCTTTACTACTA
1 TTTTTATTAATGATATACTACTA
58617155 TTTTTATT
1 TTTTTATT
58617163 CATTGTGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTTATTAATGATATACTACTA
Found at i:58617686 original size:20 final size:21
Alignment explanation
Indices: 58617651--58617689 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
58617641 TAACATGAAA
58617651 ATTAAAATTATTAAAATATTT
1 ATTAAAATTATTAAAATATTT
58617672 ATTAAAATT-TTAAAATAT
1 ATTAAAATTATTAAAATAT
58617690 AATGCTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTAAAATTATTAAAATATTT
Found at i:58618845 original size:26 final size:26
Alignment explanation
Indices: 58618816--58618923 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
58618806 TGATACAAAT
58618816 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
58618842 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58618868 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58618894 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58618920 TGAT
1 TGAT
58618924 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58625809 original size:26 final size:26
Alignment explanation
Indices: 58625780--58625887 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
58625770 TGATACAAAT
58625780 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
58625806 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58625832 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58625858 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58625884 TGAT
1 TGAT
58625888 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58632895 original size:15 final size:16
Alignment explanation
Indices: 58632877--58632913 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
58632867 CAATTTATAA
58632877 ATATAA-AATGATGTT
1 ATATAACAATGATGTT
58632892 ATATGAACAATGATGTT
1 ATAT-AACAATGATGTT
58632909 A-ATAA
1 ATATAA
58632914 TGTATAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.30
16 4 0.20
17 10 0.50
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (16 bp):
ATATAACAATGATGTT
Found at i:58636449 original size:6 final size:6
Alignment explanation
Indices: 58636438--58636463 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
58636428 TCTTTTCTGC
58636438 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
58636464 AGTTACATAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Done.