Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 61 of 198
Found at i:18658326 original size:43 final size:43
Alignment explanation
Indices: 18658265--18658388 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
18658255 ATTTCTGATA
**
18658265 TGTGTTTTTGTGTAAGACCACATCTGGGACGTTGGCATCGA-C
1 TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCATCGATC
18658307 TTGTGTTTACGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATC
1 -TGTGTTTACGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATC
* * * * *
18658351 TGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
1 TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCAT
18658389 TGTACGAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.01
43 65 0.94
44 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCATCGATC
Found at i:18671803 original size:5 final size:5
Alignment explanation
Indices: 18671793--18671818 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18671783 GTAATTTGAT
18671793 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
18671819 GCCAAATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:18674002 original size:25 final size:25
Alignment explanation
Indices: 18673965--18674018 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
18673955 GTCATTAGGG
* * *
18673965 TTACCAATTTTTAGCTCGAATGAGC
1 TTACCAATATTTACCTCGAATAAGC
*
18673990 TTACCAATATTTACCTCGCATAAGC
1 TTACCAATATTTACCTCGAATAAGC
18674015 TTAC
1 TTAC
18674019 TATTACTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (25 bp):
TTACCAATATTTACCTCGAATAAGC
Found at i:18674063 original size:24 final size:25
Alignment explanation
Indices: 18674029--18674092 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
18674019 TATTACTCAA
*
18674029 CTCGTATGAGCTTACCGATT-ACAG
1 CTCGTATGAGCATACCGATTCACAG
* *
18674053 CTCGTAAGAGCATACCGATTCAGAG
1 CTCGTATGAGCATACCGATTCACAG
18674078 CTCGTATGAGCATAC
1 CTCGTATGAGCATAC
18674093 ATGTATAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
CTCGTATGAGCATACCGATTCACAG
Found at i:18679387 original size:17 final size:17
Alignment explanation
Indices: 18679365--18679400 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18679355 TACCTTAGCC
18679365 TTATTTTTTTCTTTTCA
1 TTATTTTTTTCTTTTCA
18679382 TTATTTTTTTCTTTTCA
1 TTATTTTTTTCTTTTCA
18679399 TT
1 TT
18679401 GCCCTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTTTTTCTTTTCA
Found at i:18694401 original size:59 final size:59
Alignment explanation
Indices: 18694335--18694456 Score: 235
Period size: 59 Copynumber: 2.1 Consensus size: 59
18694325 TAATCACCAC
*
18694335 GATTCATATTTATAAATAGTGAAGAAGTGAATCATAAGAGTATTCTTTAGTTAACGTGG
1 GATTCATATTTATAAATACTGAAGAAGTGAATCATAAGAGTATTCTTTAGTTAACGTGG
18694394 GATTCATATTTATAAATACTGAAGAAGTGAATCATAAGAGTATTCTTTAGTTAACGTGG
1 GATTCATATTTATAAATACTGAAGAAGTGAATCATAAGAGTATTCTTTAGTTAACGTGG
18694453 GATT
1 GATT
18694457 AAAATTAACT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (59 bp):
GATTCATATTTATAAATACTGAAGAAGTGAATCATAAGAGTATTCTTTAGTTAACGTGG
Found at i:18694595 original size:96 final size:95
Alignment explanation
Indices: 18694450--18694659 Score: 241
Period size: 96 Copynumber: 2.2 Consensus size: 95
18694440 TTAGTTAACG
**
18694450 TGGGATTAA-AATTAAC--TTTTTAATGAAAACAGTGAAGAATTTGTTACTTATTTATAAGGTAA
1 TGGGA-TAAGAATTAACTTTTTTTAATGAAAACAGTGAAGAATTTGACACTTATTTATAAGGTAA
*
18694512 ATGTGAGACATGAAAGTATTCTCTAGTCAATA
65 ATGTGAG-CATGAAAGTATTCTCTAGCCAATA
* * * *
18694544 TGGCGTTAA-AATTAATTTTTTTTAATGAAAATAGTGAAGAAATTT-ACACTTATTTATATGGTA
1 TGG-GATAAGAATTAACTTTTTTTAATGAAAACAGTGAAG-AATTTGACACTTATTTATAAGGTA
* ** * *
18694607 AGTGTGAGCATGGGAGTGTTCTCTAGCCAATG
64 AATGTGAGCATGAAAGTATTCTCTAGCCAATA
18694639 TGGGATAAGAATTAACTTTTT
1 TGGGATAAGAATTAACTTTTT
18694660 AAGGGATTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
94 16 0.16
95 34 0.35
96 42 0.43
97 5 0.05
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (95 bp):
TGGGATAAGAATTAACTTTTTTTAATGAAAACAGTGAAGAATTTGACACTTATTTATAAGGTAAA
TGTGAGCATGAAAGTATTCTCTAGCCAATA
Found at i:18694793 original size:69 final size:69
Alignment explanation
Indices: 18694662--18694833 Score: 199
Period size: 69 Copynumber: 2.5 Consensus size: 69
18694652 AACTTTTTAA
* * *
18694662 GGGATTAAATTTAA-TTTTTATTAAAAATAT-TGAAGAAGTGAACTATGAAAGTATTTTCTAGTC
1 GGGATTAAAATTAACTTTTTAATAAAAAT-TGTGAAGAAGTGAACTATGAAAGCATTTTCTAGTC
18694725 AATGT
65 AATGT
* **
18694730 GGGATTAAAATTAACATTTTAATAAAAATTGTGAAGAAGTGAGTTAT-AAGAGCATTGTT-TAGT
1 GGGATTAAAATTAACTTTTTAATAAAAATTGTGAAGAAGTGAACTATGAA-AGCATT-TTCTAGT
*
18694793 CATTGT
64 CAATGT
* * *
18694799 GGAATTAAAATTAACTTTTTAATGAAAATAGTGAA
1 GGGATTAAAATTAACTTTTTAATAAAAATTGTGAA
18694834 AAAAATTGAC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
68 16 0.18
69 71 0.80
70 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (69 bp):
GGGATTAAAATTAACTTTTTAATAAAAATTGTGAAGAAGTGAACTATGAAAGCATTTTCTAGTCA
ATGT
Found at i:18697226 original size:41 final size:41
Alignment explanation
Indices: 18697180--18697355 Score: 196
Period size: 41 Copynumber: 4.3 Consensus size: 41
18697170 ACAGAAGTAT
18697180 GTATGTGCAATTCAAGGGTA-CTAAAGTGA-AAATAGGGGCAC
1 GTATGTGCAATTCAAGGGTATC-AAAGT-ACAAATAGGGGCAC
* * * * *
18697221 ATATGTGCAATTTAGGGGTACCGAAGTACAAATAGGGGCAC
1 GTATGTGCAATTCAAGGGTATCAAAGTACAAATAGGGGCAC
** *
18697262 GTATGTGC-ATTTTAGAGGTATCAAAGTACAAATAGGGGTAC
1 GTATGTGCAATTCAAG-GGTATCAAAGTACAAATAGGGGCAC
* * * *
18697303 GTATGTGCAGTTCAGGGGTATCGAAGTACAAACAGGGGCAC
1 GTATGTGCAATTCAAGGGTATCAAAGTACAAATAGGGGCAC
18697344 GTATGTGCAATT
1 GTATGTGCAATT
18697356 TTTCATTATT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
40 6 0.05
41 103 0.91
42 4 0.04
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (41 bp):
GTATGTGCAATTCAAGGGTATCAAAGTACAAATAGGGGCAC
Found at i:18698570 original size:21 final size:21
Alignment explanation
Indices: 18698514--18698574 Score: 97
Period size: 20 Copynumber: 2.9 Consensus size: 21
18698504 GTTAATATGA
18698514 GATTAAAATTAACTTTTTAAAG
1 GATTAAAATTAA-TTTTTAAAG
*
18698536 GATCAAAATT-ATTTTTAAAG
1 GATTAAAATTAATTTTTAAAG
18698556 GATTAAAATTAATTTTTAA
1 GATTAAAATTAATTTTTAA
18698575 TGAAAATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 9 0.25
22 9 0.25
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (21 bp):
GATTAAAATTAATTTTTAAAG
Found at i:18698649 original size:69 final size:69
Alignment explanation
Indices: 18698554--18698730 Score: 250
Period size: 69 Copynumber: 2.6 Consensus size: 69
18698544 TTATTTTTAA
* * *
18698554 AGGATTAAAATTAA-TTTTTAATGAAAATAGTGAAAAAATGA-TCTATGGGAGTATTGTTTAGTC
1 AGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAAATGAGT-TATGAGAGTATTCTTTAGTC
*
18698617 AATTT
65 AATGT
* * *
18698622 GGGATTAAAATTAACTTTTTAATGAAAATAGAGAAGAAGTGAGTTATGAGAGTATTCTTTAGTCA
1 AGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAAATGAGTTATGAGAGTATTCTTTAGTCA
18698687 ATGT
66 ATGT
**
18698691 AGGATTAAAATTAACTTTTTAACAAAAATAGTGAAGAAAT
1 AGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAAAT
18698731 TTTCATTTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
68 13 0.14
69 81 0.85
70 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (69 bp):
AGGATTAAAATTAACTTTTTAATGAAAATAGTGAAGAAATGAGTTATGAGAGTATTCTTTAGTCA
ATGT
Found at i:18699022 original size:69 final size:68
Alignment explanation
Indices: 18698901--18699049 Score: 185
Period size: 69 Copynumber: 2.2 Consensus size: 68
18698891 ACTTTTGTTG
* * * *
18698901 GGGATTAAAATTAGTTTTTAATGAAACTAGTAAAGAAGTGAGGTATAAGAGTATTCTCTAGTCAA
1 GGGATTAAAATTACTTTTTAATGAAAATAGTAAAGAAGTGAGCTATAAGAGTATTCTCTAGCCAA
*
18698966 TGT
66 TCT
** *
18698969 -GGAGTTAAAATTAACTTTTTAATGAAAATAG-AGAAGAAGTGAGCTATGTGAGTATTCTTTAGC
1 GGGA-TTAAAATT-ACTTTTTAATGAAAATAGTA-AAGAAGTGAGCTATAAGAGTATTCTCTAGC
18699032 CAATCT
63 CAATCT
18699038 GGGATTAAAATT
1 GGGATTAAAATT
18699050 TACTCTCTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
67 3 0.04
68 9 0.13
69 54 0.78
70 3 0.04
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (68 bp):
GGGATTAAAATTACTTTTTAATGAAAATAGTAAAGAAGTGAGCTATAAGAGTATTCTCTAGCCAA
TCT
Found at i:18699168 original size:22 final size:22
Alignment explanation
Indices: 18699138--18699181 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18699128 TAGTAAATGT
*
18699138 GGGATTAAAATTAAATTTTTAA
1 GGGAGTAAAATTAAATTTTTAA
**
18699160 GGGAGTAAAATTATTTTTTTAA
1 GGGAGTAAAATTAAATTTTTAA
18699182 TGAAAATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (22 bp):
GGGAGTAAAATTAAATTTTTAA
Found at i:18700616 original size:185 final size:184
Alignment explanation
Indices: 18700305--18700718 Score: 598
Period size: 185 Copynumber: 2.2 Consensus size: 184
18700295 TAACCAGATG
* * *
18700305 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGCGAAAAATATGGCACTCGATA
1 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAATATGACACTCGACA
* * *
18700370 GTGGGGAAAAAACCAATGATTTTAAGTTGAAAGTGTGGTCTGGGTTTACAAAAAATACACAAAAG
66 ATGGGGAAAAAACCAATGATTTTAAGCTAAAAGTGTGGTCTGGGTTTACAAAAAATACACAAAAG
* * * * *
18700435 CATGATTATAGTCATGGTAATGAAAATTTTTGTAGAGGAAATGGGCCAACTATA
131 CATGATTATAATCATGGTAAAGAAAATTATTGTAGAGGAAATGAGCCAACCATA
*** *
18700489 TGTTTTGAAGAAGAAAAATGGTGTTCAACAAGAGAGAAAATGAGAGAAGAAA-ATGACAGTCGAC
1 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAA-AAATATGACACTCGAC
* *
18700553 AATGGGGTGAAAAAA-CAATGATTTTAAGCTAAAAGTGTGGTGTGGGTTTACAAAAATTACACAA
65 AAT-GGG-GAAAAAACCAATGATTTTAAGCTAAAAGTGTGGTCTGGGTTTACAAAAAATACACAA
* * *
18700617 AAGCATGATTATAATCATGGTAAAGGAAATTATTGTAGATGAAATGAGCCAACCATG
128 AAGCATGATTATAATCATGGTAAAGAAAATTATTGTAGAGGAAATGAGCCAACCATA
*
18700674 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAATATGAGA
1 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGA
18700719 AAATTTTTTT
Statistics
Matches: 203, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
184 55 0.27
185 141 0.69
186 7 0.03
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (184 bp):
TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAATATGACACTCGACA
ATGGGGAAAAAACCAATGATTTTAAGCTAAAAGTGTGGTCTGGGTTTACAAAAAATACACAAAAG
CATGATTATAATCATGGTAAAGAAAATTATTGTAGAGGAAATGAGCCAACCATA
Found at i:18701075 original size:8 final size:8
Alignment explanation
Indices: 18701011--18701096 Score: 57
Period size: 8 Copynumber: 10.1 Consensus size: 8
18701001 TTATTGTTTC
18701011 AAATTTTT
1 AAATTTTT
*
18701019 TAATTTTT
1 AAATTTTT
18701027 ATATATTCTTT
1 A-A-ATT-TTT
18701038 AAATTTTT
1 AAATTTTT
**
18701046 ACCTTTTCT
1 AAATTTT-T
18701055 ATAATTTTAT
1 A-AATTTT-T
18701065 AAATTTTT
1 AAATTTTT
* *
18701073 AAA-ATAT
1 AAATTTTT
*
18701080 AAATTTTG
1 AAATTTTT
18701088 AAATTTTT
1 AAATTTTT
18701096 A
1 A
18701097 TAAATATTTT
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
7 5 0.08
8 28 0.47
9 12 0.20
10 10 0.17
11 4 0.07
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (8 bp):
AAATTTTT
Found at i:18701123 original size:19 final size:19
Alignment explanation
Indices: 18701067--18701132 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
18701057 AATTTTATAA
*
18701067 ATTTTTAAAATATAAATTTTG
1 ATTTTTAAAA-AT-TATTTTG
*
18701088 AAATTTTTATAAA-TATTTTG
1 --ATTTTTAAAAATTATTTTG
18701108 ATTTTTAAAAATTATTTTG
1 ATTTTTAAAAATTATTTTG
18701127 ATTTTT
1 ATTTTT
18701133 TTGTAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.26
19 13 0.33
20 6 0.15
22 1 0.03
23 9 0.23
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:18704161 original size:8 final size:8
Alignment explanation
Indices: 18704148--18704181 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
18704138 CATTGTAAAA
18704148 GAACTTTT
1 GAACTTTT
18704156 GAACTTTT
1 GAACTTTT
18704164 GAACTTTT
1 GAACTTTT
*
18704172 GAACCTTT
1 GAACTTTT
18704180 GA
1 GA
18704182 TTAATGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (8 bp):
GAACTTTT
Found at i:18707167 original size:60 final size:57
Alignment explanation
Indices: 18707063--18707174 Score: 143
Period size: 60 Copynumber: 1.9 Consensus size: 57
18707053 TTTAATATTA
* *
18707063 AATTAATATAATACTTATTAAGATAAATACTATATTAAATTTAATGTTAAATATAAT
1 AATTAATATAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAAATATAAT
* * * *
18707120 AATTAATATAATATTTATTTATAATATAAATATTAAATTAAGTTTAATATTAAAT
1 AATTAATATAATACTTA--T-TAAGATAAATACTAAATTAAATTTAATATTAAAT
18707175 TTATTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 16 0.35
59 1 0.02
60 29 0.63
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (57 bp):
AATTAATATAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAAATATAAT
Found at i:18707177 original size:12 final size:12
Alignment explanation
Indices: 18707094--18707177 Score: 66
Period size: 12 Copynumber: 7.0 Consensus size: 12
18707084 GATAAATACT
18707094 ATATTAAATTTA
1 ATATTAAATTTA
* *
18707106 ATGTTAAATATA
1 ATATTAAATTTA
*
18707118 ATAATT-AATATA
1 AT-ATTAAATTTA
* *
18707130 ATATTTATTTATA
1 ATATTAAATT-TA
18707143 ATA-TAAATATTA
1 ATATTAAAT-TTA
*
18707155 A-ATTAAGTTTA
1 ATATTAAATTTA
18707166 ATATTAAATTTA
1 ATATTAAATTTA
18707178 TTAAAATAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
11 8 0.14
12 41 0.72
13 8 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATATTAAATTTA
Found at i:18720849 original size:77 final size:76
Alignment explanation
Indices: 18720722--18720934 Score: 279
Period size: 75 Copynumber: 2.8 Consensus size: 76
18720712 TATCCGTTAT
* * **
18720722 CGGTGGATTCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAAACCGTTTTCA
1 CGGTGGAATCAGCACTTAGCATCCACCAATGATTCGGGGAATCAGCACTTAGCAAACCCCTTTCA
18720787 CATTCAAAAATA
66 CATT-AAAAATA
* * * *
18720799 CGGTGGAATCAGCACTTAGCATCCACCAATGAATCAGGGAATTAGCACTTAG-TAACCCCTTTCA
1 CGGTGGAATCAGCACTTAGCATCCACCAATGATTCGGGGAATCAGCACTTAGCAAACCCCTTTCA
* *
18720863 CATTTAAGATA
66 CATTAAAAATA
* *
18720874 TGGTGGGATCAGCACTTAGCAAT-CACCAATGATTCGGGGAATCAGCACTTAGC-AACCCCTT
1 CGGTGGAATCAGCACTTAGC-ATCCACCAATGATTCGGGGAATCAGCACTTAGCAAACCCCTT
18720935 GGGGGAATCA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
75 57 0.48
76 15 0.13
77 47 0.39
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCATCCACCAATGATTCGGGGAATCAGCACTTAGCAAACCCCTTTCA
CATTAAAAATA
Found at i:18720987 original size:102 final size:102
Alignment explanation
Indices: 18720835--18721064 Score: 379
Period size: 102 Copynumber: 2.3 Consensus size: 102
18720825 CAATGAATCA
* * * * * * *
18720835 GGGAATTAGCACTTAGTAACCCCTTTCACATTTAAGATATGGTGGGATCAGCACTTAGCAATCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
* *
18720900 CAATGATTCGGGGAATCAGCACTTAGCAACCCCTTGG
66 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTTGG
18720937 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
18721002 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTTGG
66 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTTGG
18721039 GGGAATCAGCACTTAGCAACCCCCTT
1 GGGAATCAGCACTTAGCAACCCCCTT
18721065 TATATTCAAT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 119 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCAGGGAATCAGCACTTAGCAACCCCTTGG
Found at i:18729876 original size:17 final size:17
Alignment explanation
Indices: 18729851--18729893 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
18729841 GGACACTCTT
18729851 CAAACAGAATGGCGTGA
1 CAAACAGAATGGCGTGA
*
18729868 CAAATAGAATGGCGTGA
1 CAAACAGAATGGCGTGA
18729885 CAAACAGAA
1 CAAACAGAA
18729894 GAAATCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.12
Consensus pattern (17 bp):
CAAACAGAATGGCGTGA
Found at i:18730794 original size:22 final size:23
Alignment explanation
Indices: 18730762--18730807 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
18730752 AAAAAAATAA
18730762 TAAGTACAATTC-AATATATTAT
1 TAAGTACAATTCAAATATATTAT
* *
18730784 TAAGTATAATTCAAATATCTTAT
1 TAAGTACAATTCAAATATATTAT
18730807 T
1 T
18730808 TTTTATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAGTACAATTCAAATATATTAT
Found at i:18731680 original size:2 final size:2
Alignment explanation
Indices: 18731668--18731715 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
18731658 GTTCATTGTA
*
18731668 CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18731710 CT CT CT
1 CT CT CT
18731716 TTGAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:18734459 original size:13 final size:13
Alignment explanation
Indices: 18734441--18734508 Score: 59
Period size: 13 Copynumber: 5.0 Consensus size: 13
18734431 AGTTCTGCAA
18734441 TTGAAAAGTGTTT
1 TTGAAAAGTGTTT
18734454 TTGAAAAGT-TTGGT
1 TTGAAAAGTGTT--T
*
18734468 TTGCAAAACGTGCTT
1 TTG-AAAA-GTGTTT
18734483 TTGAAAAGTG-TT
1 TTGAAAAGTGTTT
*
18734495 GTGAGAAAGTGTTT
1 TTGA-AAAGTGTTT
18734509 GTCGTTTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
12 7 0.15
13 18 0.39
14 10 0.22
15 8 0.17
16 2 0.04
17 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.40
Consensus pattern (13 bp):
TTGAAAAGTGTTT
Found at i:18739719 original size:14 final size:14
Alignment explanation
Indices: 18739702--18739730 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18739692 ATTTTCATTC
18739702 GTCTATTCTCTTCA
1 GTCTATTCTCTTCA
18739716 GTCTATTCTCTTCA
1 GTCTATTCTCTTCA
18739730 G
1 G
18739731 CCAATGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.10, T:0.48
Consensus pattern (14 bp):
GTCTATTCTCTTCA
Found at i:18740740 original size:20 final size:17
Alignment explanation
Indices: 18740702--18740739 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18740692 GATGTTGGGA
18740702 TATTTTATTAATATTAT
1 TATTTTATTAATATTAT
* *
18740719 TATTTTATTAAGATAAT
1 TATTTTATTAATATTAT
18740736 TATT
1 TATT
18740740 AAAGAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTTATTAATATTAT
Found at i:18743846 original size:6 final size:6
Alignment explanation
Indices: 18743835--18743859 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18743825 TTTAATATTT
18743835 TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA T
18743860 AATTTATTTG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:18753692 original size:2 final size:2
Alignment explanation
Indices: 18753685--18753714 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18753675 TAATTCCTTT
18753685 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18753715 ACTTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18755935 original size:30 final size:32
Alignment explanation
Indices: 18755899--18755981 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 32
18755889 AAATATATAT
18755899 ATATACATATACAT-A-TATAAAAAAATAGAC
1 ATATACATATACATAATTATAAAAAAATAGAC
*
18755929 ATATACATATATATAGATTATAAAAAAAT--A-
1 ATATACATATACATA-ATTATAAAAAAATAGAC
*
18755959 AT-TACATATATA-AATTATAAAAA
1 ATATACATATACATAATTATAAAAA
18755982 TAGAAATAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
27 10 0.20
28 1 0.02
29 10 0.20
30 15 0.31
31 1 0.02
32 1 0.02
33 11 0.22
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (32 bp):
ATATACATATACATAATTATAAAAAAATAGAC
Found at i:18755943 original size:34 final size:33
Alignment explanation
Indices: 18755895--18755958 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
18755885 ATATAAATAT
*
18755895 ATATATATACATATACATATATAAAAAAATAGAC
1 ATATACATACATATACAT-TATAAAAAAATAGAC
* *
18755929 ATATACATATATATAGATTATAAAAAAATA
1 ATATACATACATATACATTATAAAAAAATA
18755959 ATTACATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (33 bp):
ATATACATACATATACATTATAAAAAAATAGAC
Found at i:18757626 original size:44 final size:44
Alignment explanation
Indices: 18757572--18757858 Score: 149
Period size: 44 Copynumber: 6.6 Consensus size: 44
18757562 CTAATCCACT
* *
18757572 CCACTACAACTTTAGGGAGATAGGATTTGTTTATTCAGTCTGCC
1 CCACTGCAACTTTAGGGAGATAAGATTTGTTTATTCAGTCTGCC
* * * * *
18757616 CCACTGCAACTTTAGGGAGATAATACTTGCTTTCTTGAGTCTACC
1 CCACTGCAACTTTAGGGAGATAAGATTTG-TTTATTCAGTCTGCC
* * * * * * *
18757661 CCACTGCAACCTCAGGGGGATAAGACTAG-ATA-TGA-TCTG-C
1 CCACTGCAACTTTAGGGAGATAAGATTTGTTTATTCAGTCTGCC
* ** * * * * * * * *
18757701 TCTTTGCAACTTTAGAGAGATAAGATCT-ATCACTTTAATCCGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTTTA-TTCAGTCTGCC
* * ** * *
18757745 CCACTACAACTTTAGGGAGATAGGATTATTGGCT-TT-AATCTGCT
1 CCACTGCAACTTTAGGGAGATAAGA-T-TTGTTTATTCAGTCTGCC
* * *
18757789 CCACTGTAACTTTAGGGAGATAAGATTTGTCATCTTCAGTCTGCC
1 CCACTGCAACTTTAGGGAGATAAGATTTGT-TTATTCAGTCTGCC
*
18757834 CCACTGCAACTTCA-GGAGGATAAGA
1 CCACTGCAACTTTAGGGA-GATAAGA
18757859 CTGGATGCGA
Statistics
Matches: 180, Mismatches: 50, Indels: 25
0.71 0.20 0.10
Matches are distributed among these distances:
40 20 0.11
41 3 0.02
42 8 0.04
43 6 0.03
44 78 0.43
45 64 0.36
46 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGATTTGTTTATTCAGTCTGCC
Found at i:18757669 original size:45 final size:44
Alignment explanation
Indices: 18757572--18757687 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
18757562 CTAATCCACT
* * * *
18757572 CCACTACAACTTTAGGGAGATAGGATTTGTTTATTCAGTCTGCC
1 CCACTGCAACTTTAGGGAGATAAGACTTGTTTATTCAGTCTACC
* * *
18757616 CCACTGCAACTTTAGGGAGATAATACTTGCTTTCTTGAGTCTACC
1 CCACTGCAACTTTAGGGAGATAAGACTTG-TTTATTCAGTCTACC
* * *
18757661 CCACTGCAACCTCAGGGGGATAAGACT
1 CCACTGCAACTTTAGGGAGATAAGACT
18757688 AGATATGATC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
44 25 0.42
45 35 0.58
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGACTTGTTTATTCAGTCTACC
Found at i:18757944 original size:174 final size:174
Alignment explanation
Indices: 18757538--18757945 Score: 554
Period size: 173 Copynumber: 2.4 Consensus size: 174
18757528 GTACTCTAAT
* * * *
18757538 TTCAGAGAGATAAGATCCACCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGA-TTTGT
1 TTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTTTGG
* * * * *
18757602 TTATTCAGTCTGCCCCACTGCAACTTTAGGGAGATAATACTTGCTTTCTTGAGTCTACCCCACTG
66 CTATTCAATCTGCCCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTACCCCACTG
* *
18757667 CAACCTCAGGGGGATAAGACTAGATATGATCTGCTCTTTGCAAC
131 CAACCTCAGGAGGATAAGACTAGATACGATCTGCTCTTTGCAAC
* * *
18757711 TTTAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATTG
1 TTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATT-TTG
* * * *
18757776 GCT-TT-AATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTG-TCATCTTCAGTCTGCCCCAC
65 GCTATTCAATCTGCCCCACTGCAACTTTAGGGAGATAAGACTTGCT-ATCTTCAGTCTACCCCAC
* * *
18757838 TGCAACTTCAGGAGGATAAGACTGGATGCGATCTGCTCTTTTGCAAC
129 TGCAACCTCAGGAGGATAAGACTAGATACGATCTGCTC-TTTGCAAC
**
18757885 TTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACCGCAACTTTAGGGAGATAGGATT
1 TTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATT
18757946 GGTTCTTCTA
Statistics
Matches: 205, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
172 1 0.00
173 133 0.65
174 67 0.33
175 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (174 bp):
TTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTTTGG
CTATTCAATCTGCCCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTACCCCACTG
CAACCTCAGGAGGATAAGACTAGATACGATCTGCTCTTTGCAAC
Found at i:18758184 original size:99 final size:99
Alignment explanation
Indices: 18757956--18758349 Score: 576
Period size: 98 Copynumber: 4.0 Consensus size: 99
18757946 GGTTCTTCTA
* * * * *
18757956 TTTAACTGCAATGTTGGGAAGACAAGATTCGCCATCATAGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGAA-ACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCC
*
18758021 AAGGAAGTAAGACT-GCCGTTGTGGCCTCAATCTT
65 AAGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
18758055 TTTAATTGCAATGTCGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
1 TTTAATTGCAATGTCGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
** *
18758120 AGGAAGTAAGATTCGCCAATGTAGCCTCAATCTT
66 AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
* * *
18758154 TTTAATTGCAATGTCGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACATCGCTA
1 TTTAATTGCAATGTCGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
* * *
18758219 GGGAAGTAAGATTCACCGTTGTGGCTTCAATC-T
66 AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
* * * *
18758252 ATTAATTGCAATGTTGGGAAACAAGATTCGCCGTAGTAGCTTCAATCTGTTCCACTACATCGCCA
1 TTTAATTGCAATGTCGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
* *
18758317 AGGAAGTAAGATTCGCTGTTGTGGCTTCAATCT
66 AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCT
18758350 ATTCCACTGT
Statistics
Matches: 267, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
98 144 0.54
99 123 0.46
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (99 bp):
TTTAATTGCAATGTCGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCA
AGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
Found at i:18758349 original size:197 final size:198
Alignment explanation
Indices: 18757956--18758332 Score: 587
Period size: 197 Copynumber: 1.9 Consensus size: 198
18757946 GGTTCTTCTA
* *
18757956 TTTAACTGCAATGTTGGGAAGACAAGATTCGCCATCATAGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAACTGCAATGTCGGGAAGACAAGATTCGCCATCATAGCTTCAATCTGTTCCACTACACCGCC
* *
18758021 AAGGAAGTAAGACTGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGAAACAAGATTCGC
66 AAGGAAGTAAGACTACCGTTGTGGCCTCAATCTTATTAATTGCAATGTCGGGAAACAAGATTCGC
*
18758086 CGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCAATGTAGCCTCAAT
131 CGTAGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCAATGTAGCCTCAAT
18758151 CTT
196 CTT
* ** * * *
18758154 TTTAATTGCAATGTCGGGAA-ACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACATCGCT
1 TTTAACTGCAATGTCGGGAAGACAAGATTCGCCATCATAGCTTCAATCTGTTCCACTACACCGCC
* * * *
18758218 AGGGAAGTAAGATTCACCGTTGTGGCTTCAATC-TATTAATTGCAATGTTGGGAAACAAGATTCG
66 AAGGAAGTAAGACT-ACCGTTGTGGCCTCAATCTTATTAATTGCAATGTCGGGAAACAAGATTCG
*
18758282 CCGTAGTAGCTTCAATCTGTTCCACTACATCGCCAAGGAAGTAAGATTCGC
130 CCGTAGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGC
18758333 TGTTGTGGCT
Statistics
Matches: 162, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
197 128 0.79
198 34 0.21
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (198 bp):
TTTAACTGCAATGTCGGGAAGACAAGATTCGCCATCATAGCTTCAATCTGTTCCACTACACCGCC
AAGGAAGTAAGACTACCGTTGTGGCCTCAATCTTATTAATTGCAATGTCGGGAAACAAGATTCGC
CGTAGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCAATGTAGCCTCAAT
CTT
Found at i:18758367 original size:50 final size:50
Alignment explanation
Indices: 18757979--18758357 Score: 207
Period size: 50 Copynumber: 7.7 Consensus size: 50
18757969 TTGGGAAGAC
* ** * * *
18757979 AAGATTCGCCATCATAGCTTCAATCTGTTCCACTGCACCGCCAAGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACATCGCCAAGGAAGT
* * * * ** * * * * **
18758029 AAGACT-GCCGTTGTGGCCTCAATCTTTTTAATTGCAAT-GTC-GGGAAAC
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTAC-ATCGCCAAGGAAGT
* * *
18758077 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACATCGCCAAGGAAGT
** * * ** * * * * **
18758127 AAGATTCGCCAATGTAGCCTCAATCTTTTTAATTGCAAT-GTC-GGGAAAC
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTAC-ATCGCCAAGGAAGT
* * * * *
18758176 AAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACATCGCTAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACATCGCCAAGGAAGT
* * * * * *** **
18758226 AAGATTCACCGTTGTGGCTTCAATCTATT-AATTGCAAT-G-TTGGGAAAC
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTAC-ATCGCCAAGGAAGT
* *
18758274 AAGATTCGCCGTAGTAGCTTCAATCTGTTCCACTACATCGCCAAGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACATCGCCAAGGAAGT
* *
18758324 AAGATTCGCTGTTGTGGCTTCAATCTATTCCACT
1 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACT
18758358 GTAATGCCAA
Statistics
Matches: 234, Mismatches: 84, Indels: 22
0.69 0.25 0.06
Matches are distributed among these distances:
48 45 0.19
49 84 0.36
50 104 0.44
51 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACATCGCCAAGGAAGT
Found at i:18758675 original size:44 final size:43
Alignment explanation
Indices: 18758620--18758763 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 43
18758610 CACTACTGCT
* **
18758620 CAGGGAGACAAGGCTGGTATCTTCGATCCACTTCACTGCCAATA
1 CAGGAAGACAAGGCTGGTATCTTC-ATCCACTTCACTGCTGATA
* * * * *
18758664 CAGGAAGACAAGATCTGGTATTTTCAACCTACTCCACTGCTGCT-
1 CAGGAAGACAAG-GCTGGTATCTTCATCC-ACTTCACTGCTGATA
* * * * *
18758708 CAGGGAGACAAGGATGGTATCTTCAATCTACTTCGCTGTTGATA
1 CAGGAAGACAAGGCTGGTATCTTC-ATCCACTTCACTGCTGATA
18758752 CAGGAAGACAAG
1 CAGGAAGACAAG
18758764 ATCTGCTATT
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
43 19 0.25
44 38 0.49
45 20 0.26
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (43 bp):
CAGGAAGACAAGGCTGGTATCTTCATCCACTTCACTGCTGATA
Found at i:18758707 original size:88 final size:88
Alignment explanation
Indices: 18758574--18758811 Score: 352
Period size: 88 Copynumber: 2.7 Consensus size: 88
18758564 TTGCTGCTAG
* *
18758574 TACAGGAAGGCAAGATCT-GTCATTTTCAACCTACTCCACTACTGCTCAGGGAGACAAGGCTGGT
1 TACAGGAAGACAAGATCTGGT-ATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGT
*
18758638 ATCTTCGATCCACTTCACTGCCAA
65 ATCTTCAATCCACTTCACTGCCAA
*
18758662 TACAGGAAGACAAGATCTGGTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGATGGTA
1 TACAGGAAGACAAGATCTGGTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTA
* * ***
18758727 TCTTCAATCTACTTCGCTGTTGA
66 TCTTCAATCCACTTCACTGCCAA
* * *
18758750 TACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTG
1 TACAGGAAGACAAGATCTGGTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTG
18758812 AGGTCTCACC
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
88 134 0.99
89 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (88 bp):
TACAGGAAGACAAGATCTGGTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTA
TCTTCAATCCACTTCACTGCCAA
Found at i:18760065 original size:8 final size:7
Alignment explanation
Indices: 18760045--18760093 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
18760035 TTAGCCTCTC
18760045 CATTTTT
1 CATTTTT
18760052 -ACTTTTT
1 CA-TTTTT
18760059 CATTTTT
1 CATTTTT
18760066 CATTTTT
1 CATTTTT
18760073 CA-TTTT
1 CATTTTT
18760079 CATTTCTT
1 CATTT-TT
18760087 CATTTTT
1 CATTTTT
18760094 TCGCATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 23 0.61
8 8 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:18760069 original size:21 final size:21
Alignment explanation
Indices: 18760045--18760093 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
18760035 TTAGCCTCTC
*
18760045 CATTTTTACTTTTTCATTT-TT
1 CATTTTT-CATTTTCATTTCTT
18760066 CATTTTTCATTTTCATTTCTT
1 CATTTTTCATTTTCATTTCTT
18760087 CATTTTT
1 CATTTTT
18760094 TCGCATCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATTTCTT
Found at i:18766990 original size:2 final size:2
Alignment explanation
Indices: 18766985--18767047 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
18766975 GTTAGAAAAA
* * * * * * *
18766985 AT AT AT AA AT AT AT AT AC AT AT AC AT AT AT AA AA AA AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
18767027 AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
18767048 GATTATAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (2 bp):
AT
Found at i:18766996 original size:8 final size:8
Alignment explanation
Indices: 18766983--18767097 Score: 63
Period size: 8 Copynumber: 14.2 Consensus size: 8
18766973 TCGTTAGAAA
18766983 AAATATAT
1 AAATATAT
18766991 AAATATAT
1 AAATATAT
* *
18766999 ATACATAT
1 AAATATAT
*
18767007 ACATATAT
1 AAATATAT
* *
18767015 AAAAAAAT
1 AAATATAT
*
18767023 AGATATAT
1 AAATATAT
*
18767031 ACATATAT
1 AAATATAT
*
18767039 ATATATAT
1 AAATATAT
* *
18767047 AGATTATAA
1 A-AATATAT
*
18767056 AAAAATAATT
1 AAATAT-A-T
*
18767066 ACATATAT
1 AAATATAT
18767074 AAAT-TAT
1 AAATATAT
* *
18767081 AAAAATAG
1 AAATATAT
18767089 AAATA-AT
1 AAATATAT
18767096 AA
1 AA
18767098 TTACATTATT
Statistics
Matches: 78, Mismatches: 25, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
7 9 0.12
8 58 0.74
9 7 0.09
10 4 0.05
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
AAATATAT
Found at i:18767102 original size:34 final size:38
Alignment explanation
Indices: 18767059--18767129 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 38
18767049 ATTATAAAAA
18767059 AATAATTACA-TATAT-AAATT-A-TAAAAATA-GAAAT
1 AATAATTACATTAT-TGAAATTAATTAAAAATATGAAAT
18767093 AATAATTACATTATTGAAATTAATTAAAAATATGAAA
1 AATAATTACATTATTGAAATTAATTAAAAATATGAAA
18767130 AGGACTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
34 11 0.34
35 8 0.25
36 1 0.03
37 8 0.25
38 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (38 bp):
AATAATTACATTATTGAAATTAATTAAAAATATGAAAT
Found at i:18768241 original size:15 final size:15
Alignment explanation
Indices: 18768221--18768249 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18768211 CTGAATCTGT
18768221 TTTGGGCCACTGTAA
1 TTTGGGCCACTGTAA
18768236 TTTGGGCCACTGTA
1 TTTGGGCCACTGTA
18768250 GTTTAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (15 bp):
TTTGGGCCACTGTAA
Found at i:18768319 original size:33 final size:32
Alignment explanation
Indices: 18768264--18768326 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
18768254 AACAAAAATC
* *
18768264 GGGTCTGGGTTTGGGCCTATTTTGTTGTAATT
1 GGGTCTGGGTTTGGGCCCATTTTATTGTAATT
*
18768296 GGGTTTGGGTTGTGGGCCCATTTTATTGTAA
1 GGGTCTGGGTT-TGGGCCCATTTTATTGTAA
18768327 AAAGACTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.11, C:0.10, G:0.35, T:0.44
Consensus pattern (32 bp):
GGGTCTGGGTTTGGGCCCATTTTATTGTAATT
Found at i:18772832 original size:17 final size:18
Alignment explanation
Indices: 18772794--18772834 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
18772784 AATGAGTTTG
*
18772794 AATTAACACTAACAATAT
1 AATTAACACTAAAAATAT
18772812 AATTAAC-CTAAAACATA-
1 AATTAACACTAAAA-ATAT
18772829 AATTAA
1 AATTAA
18772835 ATATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTAACACTAAAAATAT
Found at i:18773290 original size:24 final size:24
Alignment explanation
Indices: 18773262--18773313 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
18773252 TTAGTAGGTC
*
18773262 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
*
18773286 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
18773310 AAAT
1 AAAT
18773314 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:18775253 original size:24 final size:24
Alignment explanation
Indices: 18775225--18775276 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18775215 TTAGTAGGTC
* *
18775225 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18775249 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18775273 AAAT
1 AAAT
18775277 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18778266 original size:13 final size:13
Alignment explanation
Indices: 18778248--18778273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18778238 TTTTGACACA
18778248 TGATGGCTTTCTT
1 TGATGGCTTTCTT
18778261 TGATGGCTTTCTT
1 TGATGGCTTTCTT
18778274 ACTTTTGACA
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:0.08, C:0.15, G:0.23, T:0.54
Consensus pattern (13 bp):
TGATGGCTTTCTT
Found at i:18784091 original size:13 final size:13
Alignment explanation
Indices: 18784052--18784085 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18784042 AAAAACTAAC
* *
18784052 ATTAGTAAATAAA
1 ATTAGAAAAGAAA
18784065 ATTAGAAAAGAAA
1 ATTAGAAAAGAAA
18784078 ATTAGAAA
1 ATTAGAAA
18784086 CAAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
ATTAGAAAAGAAA
Found at i:18791646 original size:7 final size:7
Alignment explanation
Indices: 18791634--18791670 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
18791624 AAAAAAGTAT
18791634 AGAAAAA
1 AGAAAAA
18791641 AGAAAATA
1 AGAAAA-A
*
18791649 TGAAAAA
1 AGAAAAA
18791656 AGAAAAA
1 AGAAAAA
18791663 AGAAAAA
1 AGAAAAA
18791670 A
1 A
18791671 TATTCTGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (7 bp):
AGAAAAA
Found at i:18791655 original size:15 final size:14
Alignment explanation
Indices: 18791634--18791670 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
18791624 AAAAAAGTAT
18791634 AGAAAAAAGAAAATA
1 AGAAAAAAGAAAA-A
*
18791649 TGAAAAAAGAAAAA
1 AGAAAAAAGAAAAA
18791663 AGAAAAAA
1 AGAAAAAA
18791671 TATTCTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (14 bp):
AGAAAAAAGAAAAA
Found at i:18795389 original size:21 final size:17
Alignment explanation
Indices: 18795357--18795401 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 17
18795347 ATCATGTCCA
18795357 TATTTTTAACATAATATAAT
1 TATTTTTAACAT--T-TAAT
18795377 TATTTTATAACATTTAAT
1 TATTTT-TAACATTTAAT
18795395 TATTTTT
1 TATTTTT
18795402 TGACAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 10 0.42
19 1 0.04
20 6 0.25
21 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTTTAACATTTAAT
Found at i:18799986 original size:13 final size:13
Alignment explanation
Indices: 18799968--18799993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18799958 AGATAAGATC
18799968 ATAAAAATATTTA
1 ATAAAAATATTTA
18799981 ATAAAAATATTTA
1 ATAAAAATATTTA
18799994 CGGAGTTGTT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAAAAATATTTA
Found at i:18802380 original size:43 final size:43
Alignment explanation
Indices: 18802314--18802419 Score: 176
Period size: 43 Copynumber: 2.5 Consensus size: 43
18802304 TACTTTGGTT
*
18802314 TATCTGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATA
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATA
* *
18802357 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGATT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATA
*
18802400 TATCCAATGATGCACTGTGT
1 TATCCGATGATGCACTGTGT
18802420 CTGTCAATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (43 bp):
TATCCGATGATGCACTGTGTGTGCCAGTATATTTGCTTCGATA
Found at i:18805522 original size:124 final size:124
Alignment explanation
Indices: 18805302--18805527 Score: 353
Period size: 124 Copynumber: 1.8 Consensus size: 124
18805292 TATTTTTGAG
* ***
18805302 TTGACGTTTCTGATCAAATAGTATAAAATCACTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAAAATGCTATTTGAGAAGAATTTGTG
* * *
18805367 AAATCGCACCCTGGTTGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATATTT
66 AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATATTT
* **
18805426 TTGACGTTTCTGAGCAAATAGTATAAAGTTGCTTCTAGCAAAATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAAAATGCTATTTGAGAAGAATTTGTG
*
18805491 AAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAG
18805528 CATGTTTGGG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 91 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAAAATGCTATTTGAGAAGAATTTGTG
AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATATTT
Found at i:18806230 original size:64 final size:64
Alignment explanation
Indices: 18806153--18806351 Score: 265
Period size: 64 Copynumber: 3.0 Consensus size: 64
18806143 TTTTTTCAAT
*
18806153 TATTTGTACAAATTAATTAAGCTCATGTTATTACATTAAATAATATCAAAATAACTCAAAAAAA
1 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
18806217 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
1 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
* * * * * *
18806281 TTTCTATTT-TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCA
1 ----TATTTGTA-CAAATTAATTAAGC-TC-ATGTTATTACATCAAATAATATCAAAATAACTCA
18806345 AAAAAA
59 AAAAAA
18806351 T
1 T
18806352 TTCTATTTTA
Statistics
Matches: 121, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
64 63 0.52
66 1 0.01
67 2 0.02
68 14 0.12
69 2 0.02
70 39 0.32
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (64 bp):
TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
Found at i:18806300 original size:25 final size:25
Alignment explanation
Indices: 18806272--18806371 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
18806262 TCAAAATAAC
18806272 TCAAAAAAATTTCTATTTTATTACA
1 TCAAAAAAATTTCTATTTTATTACA
* *
18806297 TCAAATAAACTTCTATTTTATTACA
1 TCAAAAAAATTTCTATTTTATTACA
* * ** *
18806322 TC-AAATAATATC-A--AAATAAC-
1 TCAAAAAAATTTCTATTTTATTACA
18806342 TCAAAAAAATTTCTATTTTATTACA
1 TCAAAAAAATTTCTATTTTATTACA
18806367 T-AAAA
1 TCAAAA
18806372 TAATATCAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
20 2 0.04
21 12 0.21
22 1 0.02
23 1 0.02
24 14 0.25
25 26 0.46
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (25 bp):
TCAAAAAAATTTCTATTTTATTACA
Found at i:18806341 original size:70 final size:68
Alignment explanation
Indices: 18806174--18806374 Score: 268
Period size: 70 Copynumber: 3.0 Consensus size: 68
18806164 ATTAATTAAG
* * * * *
18806174 CTCATGTTATTACATTAAATAATATCAAAATAACTCAAAAAAA----TATTTGTA-CAAATTAAT
1 CTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTT-TATTACATAAAA
*
18806234 TAAG
65 TAAA
*
18806238 CTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAAT
1 CTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAAAT
18806303 AAA
66 AAA
*
18806306 CTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAA
1 C-TC-ATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAA
18806371 ATAA
64 ATAA
18806375 TATCAAAATA
Statistics
Matches: 122, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
64 42 0.34
67 2 0.02
68 14 0.11
69 2 0.02
70 62 0.51
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (68 bp):
CTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAAAT
AAA
Found at i:18806346 original size:45 final size:45
Alignment explanation
Indices: 18806297--18806384 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
18806287 TTTTATTACA
* *
18806297 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
18806342 TCAAAAAAATTTCTATTTTATTACATAAAATAATATCAAAATA
1 TCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATA
18806385 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.36
Consensus pattern (45 bp):
TCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:18808621 original size:11 final size:11
Alignment explanation
Indices: 18808605--18808631 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18808595 TTTTATGGTA
18808605 AAAAAAAATTT
1 AAAAAAAATTT
18808616 AAAAAAAATTT
1 AAAAAAAATTT
18808627 AAAAA
1 AAAAA
18808632 TAGAGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAAAATTT
Found at i:18808702 original size:11 final size:12
Alignment explanation
Indices: 18808688--18808730 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
18808678 TTAAATATGG
18808688 ATTTGAGA-GAA
1 ATTTGAGAGGAA
18808699 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
18808711 A-TTGAGAGGAA
1 ATTTGAGAGGAA
18808722 ATTTGAGAG
1 ATTTGAGAG
18808731 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.14
11 8 0.29
12 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:18809732 original size:21 final size:21
Alignment explanation
Indices: 18809690--18809729 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18809680 TAAAAATTAT
*
18809690 ATTTTTATTTTTAGGAATTTA
1 ATTTTTATTTTTAGAAATTTA
*
18809711 ATTTTTCTTTTT-GAAATTT
1 ATTTTTATTTTTAGAAATTT
18809730 TAAATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (21 bp):
ATTTTTATTTTTAGAAATTTA
Found at i:18809934 original size:23 final size:22
Alignment explanation
Indices: 18809908--18809952 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
18809898 GCCTAAAAAG
18809908 AATAAAAAAATTAAATTCTTAAA
1 AATAAAAAAATTAAATT-TTAAA
* *
18809931 AATATAGAAATTAAATTTTAAA
1 AATAAAAAAATTAAATTTTAAA
18809953 TTTGTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AATAAAAAAATTAAATTTTAAA
Found at i:18817467 original size:24 final size:24
Alignment explanation
Indices: 18817440--18817494 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
18817430 AGTGCCTTTT
18817440 TGGCATATTCTATAAGTACCAATG
1 TGGCATATTCTATAAGTACCAATG
* * * **
18817464 TGGCGTATTCTGTAAGTGCCTTTG
1 TGGCATATTCTATAAGTACCAATG
18817488 TGGCATA
1 TGGCATA
18817495 ATTGAGAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (24 bp):
TGGCATATTCTATAAGTACCAATG
Found at i:18817782 original size:27 final size:27
Alignment explanation
Indices: 18817744--18817803 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
18817734 TCCAATTGTT
18817744 ATGAAATTTTAAATTGGAGGTCCTTAA
1 ATGAAATTTTAAATTGGAGGTCCTTAA
18817771 ATGAAATTTTAAATTGGAGGTCCTTAA
1 ATGAAATTTTAAATTGGAGGTCCTTAA
18817798 ATGAAA
1 ATGAAA
18817804 ATTAGACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (27 bp):
ATGAAATTTTAAATTGGAGGTCCTTAA
Found at i:18818690 original size:51 final size:49
Alignment explanation
Indices: 18818558--18818751 Score: 210
Period size: 51 Copynumber: 3.9 Consensus size: 49
18818548 GAAGTTGCTA
* *
18818558 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-GAAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAG-AT
* * *
18818608 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-AT
* * * * * *
18818658 CGATCACGTGTGTAGTACTATGCGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT--AGAT
* *
18818710 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
18818752 GGAATAATTT
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.03
50 39 0.33
51 74 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGAT
Found at i:18818781 original size:102 final size:100
Alignment explanation
Indices: 18818564--18818751 Score: 270
Period size: 102 Copynumber: 1.9 Consensus size: 100
18818554 GCTAGGTCAC
* *
18818564 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAAAGGTCGCATGTGTAGTACTATG
1 GTGTGTA-TACTATGCGCAGGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTACTATG
* * *
18818629 TGCAGGCTACTATGTGTACCGAATAGCTTCGATCAC
65 TGCAGGCTACTATGTGAACCGAATAACTTCGATCAA
* *
18818665 GTGTGTAGTACTATGCGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAGTACTA
1 GTGTGTA-TACTATGCGCAGGCTACTACGTGTACCAGAATG-AAA-GGTCACATGTGTAGTACTA
18818729 TGTGCAGGCTACTATGTGAACCG
63 TGTGCAGGCTACTATGTGAACCG
18818752 GGAATAATTT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
100 4 0.05
101 36 0.45
102 40 0.50
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GTGTGTATACTATGCGCAGGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTACTATGT
GCAGGCTACTATGTGAACCGAATAACTTCGATCAA
Found at i:18820112 original size:16 final size:16
Alignment explanation
Indices: 18820091--18820121 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18820081 AATTGATTGC
18820091 GTAAGCTACTACATGG
1 GTAAGCTACTACATGG
18820107 GTAAGCTACTACATG
1 GTAAGCTACTACATG
18820122 ATTTTAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (16 bp):
GTAAGCTACTACATGG
Found at i:18822181 original size:24 final size:24
Alignment explanation
Indices: 18822154--18822199 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18822144 CAGTAAACAC
* *
18822154 GTATTCTATAAGTGTCTTTGTGGT
1 GTATTCTATAAGAGCCTTTGTGGT
*
18822178 GTATTCTGTAAGAGCCTTTGTG
1 GTATTCTATAAGAGCCTTTGTG
18822200 TTGGAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.46
Consensus pattern (24 bp):
GTATTCTATAAGAGCCTTTGTGGT
Found at i:18829283 original size:36 final size:35
Alignment explanation
Indices: 18829202--18829284 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
18829192 GTTTATGAGA
** * *
18829202 AAAAAATATGAAAATAGAAAAAAAATGAATAAGAT
1 AAAAAATAACAAAATAGAAAAAAAATGAAAAAAAT
* *
18829237 AAAGAGATAACAAATTAGAAAAAAAAATGAAAAAAAT
1 AAA-AAATAACAAAATAG-AAAAAAAATGAAAAAAAT
18829274 AAAAAATAACA
1 AAAAAATAACA
18829285 GTGCATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 3 0.08
36 17 0.44
37 19 0.49
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.14
Consensus pattern (35 bp):
AAAAAATAACAAAATAGAAAAAAAATGAAAAAAAT
Found at i:18830960 original size:3 final size:3
Alignment explanation
Indices: 18830952--18831047 Score: 56
Period size: 3 Copynumber: 33.0 Consensus size: 3
18830942 TATTTAATCT
* * *
18830952 TAA TAA TAA T-A TAA TAA GAA TAA TAC TAA -AGA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
** * * * * * *
18830996 TAA TTC TAA GAT TAA -AG TAA TAA AAA TAA TCA TAA TAA -AC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18831042 TAA TAA
1 TAA TAA
18831048 AACAAAAAGG
Statistics
Matches: 66, Mismatches: 22, Indels: 10
0.67 0.22 0.10
Matches are distributed among these distances:
2 5 0.08
3 60 0.91
4 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:18836170 original size:17 final size:17
Alignment explanation
Indices: 18836150--18836186 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
18836140 AGAACATTGC
18836150 AAGGCCATTACACTCAG
1 AAGGCCATTACACTCAG
18836167 AAGGCCATTACACTCAG
1 AAGGCCATTACACTCAG
18836184 AAG
1 AAG
18836187 TGGTACTGAG
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:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (17 bp):
AAGGCCATTACACTCAG
Found at i:18843435 original size:50 final size:50
Alignment explanation
Indices: 18843370--18843696 Score: 272
Period size: 50 Copynumber: 6.6 Consensus size: 50
18843360 GGTCCAATGC
* ** **
18843370 AAGACCATGTCTGGGACATGGCATTGTCACCGAGATGAGAGGTCCCCCGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGT
* * * * *
18843420 AAGACCATGTATGGGACATGGCATGGGCACTGATATAAGAACTCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGT
* * * * * *
18843470 AAGACCATATATGGGATATGACATTGGCA--GTACA-GAAAACATCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-TCCCATGT
** **
18843519 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGT
* * *
18843569 AAGACCATGTCTGCGACATTGCA-TGGACACCGATATGAGAACTCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGG-CACCGAGATGAGAACTCCCATGT
* * * * * *
18843619 AAGACCATATCTGGGATATGGAATTGGTA--G-TATAGAAAACATCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGAT-GAGAAC-TCCCATGT
* * *
18843668 AAGACCATGACTGGGACATGACTTTGGCA
1 AAGACCATGTCTGGGACATGGCATTGGCA
18843697 TGTTATTATC
Statistics
Matches: 220, Mismatches: 48, Indels: 19
0.77 0.17 0.07
Matches are distributed among these distances:
47 3 0.01
48 11 0.05
49 68 0.31
50 131 0.60
51 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (50 bp):
AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCATGT
Found at i:18843645 original size:149 final size:149
Alignment explanation
Indices: 18843370--18843696 Score: 521
Period size: 149 Copynumber: 2.2 Consensus size: 149
18843360 GGTCCAATGC
* *
18843370 AAGACCATGTCTGGGACATGGCATTGTCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGG
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGCG
* *
18843435 ACATGGCATGGGCACTGATATAAGAACTCCCATGTAAGACCATATATGGGATATGACATTGGCAG
66 ACATGGCATGGACACCGATATAAGAACTCCCATGTAAGACCATATATGGGATATGACATTGGCAG
18843500 TACAGAAAACATCCCATGT
131 TACAGAAAACATCCCATGT
*
18843519 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGCG
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGCG
* * * *
18843584 ACATTGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGA-ATTGGTA
66 ACATGGCATGGACACCGATATAAGAACTCCCATGTAAGACCATATATGGGATAT-GACATTGGCA
*
18843648 GTATAGAAAACATCCCATGT
130 GTACAGAAAACATCCCATGT
* * *
18843668 AAGACCATGACTGGGACATGACTTTGGCA
1 AAGACCATGTCTGGGACATGGCATTGGCA
18843697 TGTTATTATC
Statistics
Matches: 164, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
149 162 0.99
150 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (149 bp):
AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGCG
ACATGGCATGGACACCGATATAAGAACTCCCATGTAAGACCATATATGGGATATGACATTGGCAG
TACAGAAAACATCCCATGT
Found at i:18850966 original size:50 final size:50
Alignment explanation
Indices: 18850888--18851165 Score: 263
Period size: 50 Copynumber: 5.6 Consensus size: 50
18850878 ATTTGGGTAA
* * *
18850888 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGTCACTGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
18850938 AGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * * * * *
18850988 AGAACTCCCATGTAAGACCATATATGGAATATGGCATTGGCAGT-ATA-G
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * * *
18851036 AAAACATCCCATGTAAGACCAAGTCTGGGACATGGCATTGGCACCGAGATG
1 -AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
18851087 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * *
18851137 AGAACTCCCATGTAAGACCATATCTGGGA
1 AGAGGTCCCACGTAAGACCATGTCTGGGA
18851166 TATGAAATTG
Statistics
Matches: 185, Mismatches: 40, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
48 1 0.01
49 37 0.20
50 146 0.79
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:18851079 original size:99 final size:99
Alignment explanation
Indices: 18850949--18851165 Score: 242
Period size: 99 Copynumber: 2.2 Consensus size: 99
18850939 GAGGTCCCCC
* * * * *
18850949 GTAAGACCATGTATGGGACATGGCATGGGCACTGATATGAGAACTCCCATGTAAGACCATATATG
1 GTAAGACCAAGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATATG
* *
18851014 GAATATGGCATTGGCA-G-TATAGAAAACATCCCAT
66 GAACATGGCATGGGCACGATAT-GAAAAC-TCCCAT
* ** * * *
18851048 GTAAGACCAAGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTG
1 GTAAGACCAAGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATATG
* *
18851113 GGACATGGCATGGGCACCGATATGAGAACTCCCAT
66 GAACATGGCATGGGCA-CGATATGAAAACTCCCAT
18851148 GTAAGACCATA-TCTGGGA
1 GTAAGACCA-AGTCTGGGA
18851166 TATGAAATTG
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
99 67 0.68
100 22 0.22
101 7 0.07
102 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (99 bp):
GTAAGACCAAGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATATG
GAACATGGCATGGGCACGATATGAAAACTCCCAT
Found at i:18851169 original size:149 final size:149
Alignment explanation
Indices: 18850893--18851227 Score: 537
Period size: 149 Copynumber: 2.2 Consensus size: 149
18850883 GGTAAAGAGG
* * *
18850893 TCCCATGCAAGACCATGTCTGGGACATGGCATTGTCACTGAGATGAGAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCA
* **
18850958 TGTATGGGACATGGCATGGGCACTGATATGAGAACTCCCATGTAAGACCATATATGGAATATGGC
66 TGTATGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATATGGAATATGAA
*
18851023 ATTGGC-AGTATAGAAAACA
131 ATT-GCTAGTACAGAAAACA
*
18851042 TCCCATGTAAGACCAAGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCA
* * *
18851107 TGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGAA
66 TGTATGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATATGGAATATGAA
18851172 ATTGCTAGTACAGAAAACA
131 ATTGCTAGTACAGAAAACA
* *
18851191 TCCCATGTAAGACCATGACTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18851228 TGTTATTATC
Statistics
Matches: 171, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
148 2 0.01
149 169 0.99
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (149 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCA
TGTATGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATATGGAATATGAA
ATTGCTAGTACAGAAAACA
Found at i:18854698 original size:8 final size:8
Alignment explanation
Indices: 18854684--18854713 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18854674 GCTATGGCCA
18854684 ATTCATGC
1 ATTCATGC
*
18854692 GTTCATGC
1 ATTCATGC
18854700 ATTCATGC
1 ATTCATGC
18854708 ATTCAT
1 ATTCAT
18854714 ACATATTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (8 bp):
ATTCATGC
Found at i:18875968 original size:13 final size:12
Alignment explanation
Indices: 18875952--18876001 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 12
18875942 AATCAAGGTC
*
18875952 AAAATGAAAATGA
1 AAAAAGAAAA-GA
18875965 AAAAAGAGAGAAGA
1 AAAAAGA-A-AAGA
18875979 AAAAAGGAAAAGA
1 AAAAA-GAAAAGA
18875992 AAAAAGAAAA
1 AAAAAGAAAA
18876002 TGAGTGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 5 0.15
13 15 0.45
14 9 0.27
15 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:18878175 original size:44 final size:44
Alignment explanation
Indices: 18878079--18878176 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
18878069 AAAGCCAGAA
* **
18878079 ATCTTATCTCCTTGAGATTATAGCGGAGCAGATTGAAGCTAGTG
1 ATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAAATAGTG
* * *
18878123 ATCCTATCTCCTTGAGATTACAGTGGAGCGGATT-AAAATAAAG-G
1 ATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAAAT--AGTG
18878167 ATCTTATCTC
1 ATCTTATCTC
18878177 TCTGAAGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
43 3 0.07
44 40 0.89
45 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (44 bp):
ATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAAATAGTG
Found at i:18878273 original size:44 final size:44
Alignment explanation
Indices: 18878205--18879292 Score: 292
Period size: 44 Copynumber: 23.1 Consensus size: 44
18878195 TAGATCGCAT
* * *
18878205 CAGATAGAAGCCAGAAATCTTATCTCCCTGATATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * * *
18878249 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * * *
18878293 CAAATT-AAAATA-AAGGATCTTATCTCTCTTA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* * * *
18878344 CATCAGATTCAAGCCAAAAATCTTATCTCCCTGATATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * * *
18878391 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * * * * *
18878435 CGGATT-AAAATA-AAGGGTTTTACCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* *
18878486 CATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** *
18878533 CAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * * *
18878577 CAAATT-AAAATA-AAGGATCTTATCTCTCTTA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* * * * *
18878628 CATCAGATTGAAGCCAGAAATCTTATTTTCCTGAGACTACAGCAGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * *
18878675 CAGATTGAAGCTAGTAATCCCATCTCCCAGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * *
18878719 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* * *
18878770 CATCAGATTGAAGCCAGAAATCTAATCTCCCTGAGACTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * *
18878817 CAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * * * *
18878861 CGGATT-AAAATA-AAGGATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
*
18878912 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * *
18878959 CAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAA
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * * *
18879003 CGGATT-AAAATA-AAGGATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* * * *
18879054 CATCAGATTGAAGCCAGAAATCTTATATCCTTGAGATTACAGTGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** *
18879101 CAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * *
18879145 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
* *
18879196 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * *
18879243 CAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
*
18879287 CGGATT
1 CAGATT
18879293 AAAATAATTG
Statistics
Matches: 750, Mismatches: 182, Indels: 224
0.65 0.16 0.19
Matches are distributed among these distances:
42 7 0.01
43 36 0.05
44 438 0.58
47 28 0.04
49 28 0.04
51 25 0.03
54 145 0.19
55 29 0.04
56 14 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
Found at i:18878327 original size:142 final size:142
Alignment explanation
Indices: 18878070--18879299 Score: 2073
Period size: 142 Copynumber: 8.7 Consensus size: 142
18878060 GAGCAAATTA
* * * * *
18878070 AAGCCAGAAATCTTATCTCCTTGAGATTATAGCGGAGCAGATTGAAGCTAGTGATCCTATCTCCT
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
*
18878135 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
*
18878200 CGCATCAGATAG
131 CGCATCAGATTG
* * *
18878212 AAGCCAGAAATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCT
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
** *
18878277 TGAGATTACAGTGGAGCAAATTAAAATAAAGGATCTTATCTCTCTTAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
*
18878342 CGCATCAGATTC
131 CGCATCAGATTG
* * * *
18878354 AAGCCAAAAATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCT
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
* * *
18878419 TGAGATTACAGTGGAGCGGATTAAAATAAAGGGTTTTACCTCTCTGAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
18878484 CGCATCAGATTG
131 CGCATCAGATTG
*
18878496 AAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
** *
18878561 TGAGATTACAGTGGAGCAAATTAAAATAAAGGATCTTATCTCTCTTAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
18878626 CGCATCAGATTG
131 CGCATCAGATTG
* * * *
18878638 AAGCCAGAAATCTTATTTTCCTGAGACTACAGCAGAGCAGATTGAAGCTAGTAATCCCATCTCCC
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
*
18878703 AGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
18878768 CGCATCAGATTG
131 CGCATCAGATTG
* * *
18878780 AAGCCAGAAATCTAATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCTAGCAATCCCATCTCCC
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
* * *
18878845 AGAGATTACAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTAAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
18878910 CGCATCAGATTG
131 CGCATCAGATTG
18878922 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
* *
18878987 TGAGATTACAGTGGAACGGATTAAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
18879052 CGCATCAGATTG
131 CGCATCAGATTG
* * *
18879064 AAGCCAGAAATCTTATATCCTTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
18879129 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
66 TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
18879194 CGCATCAGATTG
131 CGCATCAGATTG
* *
18879206 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCC
1 AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
18879271 TGAGATTACAGTGGAGCGGATTAAAATAA
66 TGAGATTACAGTGGAGCGGATTAAAATAA
18879300 TTGCAGCGGA
Statistics
Matches: 1029, Mismatches: 59, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 1029 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC
TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
CGCATCAGATTG
Found at i:18879319 original size:68 final size:68
Alignment explanation
Indices: 18879235--18879367 Score: 248
Period size: 68 Copynumber: 2.0 Consensus size: 68
18879225 CCTGAGATTA
*
18879235 CAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
18879300 TTG
66 TTG
*
18879303 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
18879368 AGGATCTTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (68 bp):
CAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
TTG
Found at i:18879380 original size:44 final size:45
Alignment explanation
Indices: 18879326--18884182 Score: 928
Period size: 44 Copynumber: 102.6 Consensus size: 45
18879316 TGAAGCTAGT
*
18879326 AATCTCATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * ***
18879370 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* **
18879424 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18879467 TAATCTCATCTCCCTAAGATTACAGTGGAGCAGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * ** ***
18879512 GATTTTATCTATCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* * * * ** **
18879566 AATTTTATTTTCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18879609 CAATCCCATCTCCCAGAGATTACAGTGGAGCAGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * *
18879654 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCACATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-A--A-A-T-AA---AG
* * ** **
18879707 AAATCTAATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18879751 CAATCCCATCTCCCAGAGATTACAGTGGAGCAGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18879796 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18879849 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18879893 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18879938 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18879991 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18880035 TAATCCCCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AAT-CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * *
18880081 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18880134 AAATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18880178 TAATCCCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18880223 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG--A--A-AAT-AA---AG
** **
18880277 AAATC-TATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18880320 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18880365 GATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18880418 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18880462 TAATCCCATCTCCCTGAGATTACAGTGGAGCAAATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * ***
18880507 GATCTTATCTCTCTTA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* * ** **
18880561 AATTTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18880604 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18880649 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * * **
18880702 AAATCTAATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * * *
18880746 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAAGAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18880791 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18880844 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18880888 TAATCCCATCTCCCTGAGATTACAGTGGAACGGATT-AAAATAAACG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAA-G
* * * * * *
18880934 -ATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18880986 AAATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18881030 TAATCCCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18881075 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
** ** *
18881128 AAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCT--TG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * *
18881172 TAATCTCATCTCCCTGAGATTACAGTGCAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * ***
18881217 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* **
18881271 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18881314 TAATCCCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAA-
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * * * * *
18881358 AGATCTTATCTATCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACA
1 A-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT--A--AA-G
* ** **
18881413 AATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18881456 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18881501 GATCTTATCTCTCTGA-AGTTATAGTAGAGTATATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * **
18881554 AAATCTTATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18881598 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18881643 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * * **
18881696 AAATCTTATCTCCCTTAGATTGCAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * *
18881740 TAATCTCATCTCTCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * ***
18881785 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* * **
18881839 AATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
*
18881882 TAATCTCATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * ***
18881927 GATCTTATCTCTCTTA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* * ** **
18881981 AATTTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18882024 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18882069 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * * **
18882122 AAATCTAATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * * *
18882166 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAAGAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18882211 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18882264 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18882308 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18882353 GATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18882406 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18882450 TAATCCCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAA-
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * * * * *
18882494 AGATCTTATCTATCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACA
1 A-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT--A--AA-G
* ** **
18882549 AATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18882592 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18882637 GATCTTATCTCTCTGA-AGTTATAGTAGAGTATATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * **
18882690 AAATCTTATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18882734 CAATCCCATCTCCCAT-AGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCC-TGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * *
18882779 GATCTTATCTCTCTGA-AGTTACAGTAGAGTC-GATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAG-CAGATTG-A--A-AAT-AA---AG
* **
18882832 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18882876 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * ** * * * * *
18882921 GATTTTATCTATCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACA
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT--A--AA-G
* * **
18882975 AATCTTATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18883018 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * ***
18883063 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* **
18883117 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** *
18883160 TAATCCCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAA-
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * * * * *
18883204 AGATCTTATCTATCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACA
1 A-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT--A--AA-G
* ** **
18883259 AATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18883302 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18883347 GATCTTATCTCTCTGA-AGTTATAGTAGAGTATATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * **
18883400 AAATCTTATCTCCCTTAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18883444 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * ***
18883489 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA-
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAAAG
* **
18883543 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18883586 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18883631 GATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18883684 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* *
18883728 TAATCTCATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * * * *
18883773 GATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACA
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT--A--AA-G
* ** **
18883827 AATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCT--AG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * *
18883870 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAATAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18883915 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* * * **
18883968 AAATCTAATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
** * * *
18884012 CAATCCCATCTCCCAGAGATTACAGTGGAGCGGATT-AAAAGAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
* * * * * *
18884057 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-A--A-AAT-AA---AG
* **
18884110 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
**
18884154 TAATCCCATCTCCCTGAGATTACAGTGGA
1 -AATCTTATCTCCCTGAGATTACAGTGGA
18884183 ACGGNNNNNN
Statistics
Matches: 3428, Mismatches: 865, Indels: 1040
0.64 0.16 0.20
Matches are distributed among these distances:
42 8 0.00
43 141 0.04
44 1885 0.55
45 92 0.03
46 27 0.01
47 18 0.01
48 25 0.01
49 79 0.02
50 68 0.02
51 44 0.01
52 2 0.00
53 74 0.02
54 880 0.26
55 85 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (45 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAAAG
Found at i:18879459 original size:210 final size:210
Alignment explanation
Indices: 18879097--18879509 Score: 763
Period size: 210 Copynumber: 2.0 Consensus size: 210
18879087 AGATTACAGT
*
18879097 GGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* *
18879162 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
66 TCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATCTCCC
* *
18879227 TGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGAT
131 TGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTAAGATTACAGTGGAGCAGAT
18879292 TAAAATAATTGCAGC
196 TAAAATAATTGCAGC
*
18879307 GGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
18879372 TCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATCTCCC
66 TCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATCTCCC
*
18879437 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTAAGATTACAGTGGAGCAGAT
131 TGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTAAGATTACAGTGGAGCAGAT
18879502 TAAAATAA
196 TAAAATAA
18879510 AGGATTTTAT
Statistics
Matches: 196, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
210 196 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (210 bp):
GGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
TCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATCTCCC
TGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTAAGATTACAGTGGAGCAGAT
TAAAATAATTGCAGC
Found at i:18879559 original size:142 final size:142
Alignment explanation
Indices: 18879303--18884182 Score: 8396
Period size: 142 Copynumber: 34.4 Consensus size: 142
18879293 AAAATAATTG
* *
18879303 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18879368 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18879433 TCCCTGAGATTA
131 TCCCTGAGATTA
* * *
18879445 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTAAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * * *
18879510 AGGATTTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATTTTATT
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
* *
18879575 TTCCTGAGACTA
131 TCCCTGAGATTA
* * * *
18879587 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18879652 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAAATCTAATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18879717 TCCCTGAGACTA
131 TCCCTGAGATTA
* * * *
18879729 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18879794 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18879859 TCCCTGAGATTA
131 TCCCTGAGATTA
*
18879871 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18879936 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18880001 TCCCTGAGATTA
131 TCCCTGAGATTA
18880013 CAGCGGAGCAGATTGAAGCTAGTAATCCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATA
1 CAGCGGAGCAGATTGAAGCTAGTAAT-CCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATA
*
18880078 AAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTAT
65 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTAT
*
18880143 CTCCTTGAGATTA
130 CTCCCTGAGATTA
*
18880156 CAGTGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18880221 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCCATCAGATTGAAGCCAGAAATC-TAT
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG-CATCAGATTGAAGCCAGAAATCTTAT
18880285 CTCCCTGAGATTA
130 CTCCCTGAGATTA
* *
18880298 CAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18880363 AGGATTTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18880428 TCCCTGAGATTA
131 TCCCTGAGATTA
**
18880440 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCAAATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * *
18880505 AGGATCTTATCTCTCTTAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATTTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18880570 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18880582 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
*
18880647 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTAATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18880712 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18880724 CAGCGGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAAGAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18880789 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18880854 TCCCTGAGATTA
131 TCCCTGAGATTA
*
18880866 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAACGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18880931 ACGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18880996 TCCTTGAGATTA
131 TCCCTGAGATTA
*
18881008 CAGTGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18881073 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18881138 TCCCTGAGATTA
131 TCCCTGAGATTA
* * * *
18881150 CAGCAGAGCAGATTGAAGCTTGTAATCTCATCTCCCTGAGATTACAGTGCAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18881215 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18881280 TCCCTGAGATTA
131 TCCCTGAGATTA
18881292 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * *
18881357 AAGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18881422 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18881434 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18881499 AGGATCTTATCTCTCTGAAGTTATAGTAGAGTATATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18881564 TCCCTGAGACTA
131 TCCCTGAGATTA
* *
18881576 CAGCGGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18881641 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
* *
18881706 TCCCTTAGATTG
131 TCCCTGAGATTA
* *
18881718 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18881783 AGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18881848 TCCTTGAGATTA
131 TCCCTGAGATTA
* *
18881860 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * *
18881925 AGGATCTTATCTCTCTTAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATTTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18881990 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18882002 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
*
18882067 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTAATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18882132 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18882144 CAGCGGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAAGAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18882209 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18882274 TCCCTGAGATTA
131 TCCCTGAGATTA
*
18882286 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18882351 AGGATTTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18882416 TCCCTGAGATTA
131 TCCCTGAGATTA
18882428 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * *
18882493 AAGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18882558 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18882570 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18882635 AGGATCTTATCTCTCTGAAGTTATAGTAGAGTATATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18882700 TCCCTGAGACTA
131 TCCCTGAGATTA
*
18882712 CAGCGGAGCAGATTGAAGCTAGCAATCCCATCTCCCAT-AGATTACAGTGGAGCGGATTAAAATA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCC-TGAGATTACAGTGGAGCGGATTAAAATA
*
18882776 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTCGATCGCATCAGATTGAAGCCAGAAATCTTAT
65 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTAT
18882841 CTCCCTGAGATTA
130 CTCCCTGAGATTA
*
18882854 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * *
18882919 AGGATTTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18882984 TCCCTGAGACTA
131 TCCCTGAGATTA
*
18882996 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18883061 AGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18883126 TCCCTGAGATTA
131 TCCCTGAGATTA
18883138 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * * *
18883203 AAGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18883268 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18883280 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18883345 AGGATCTTATCTCTCTGAAGTTATAGTAGAGTATATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18883410 TCCCTTAGATTA
131 TCCCTGAGATTA
*
18883422 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18883487 AGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18883552 TCCCTGAGATTA
131 TCCCTGAGATTA
*
18883564 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
18883629 AGGATTTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18883694 TCCCTGAGATTA
131 TCCCTGAGATTA
*
18883706 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* * *
18883771 AGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCAACAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18883836 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18883848 CAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
*
18883913 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTAATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
*
18883978 TCCCTGAGACTA
131 TCCCTGAGATTA
* * *
18883990 CAGCGGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGATTACAGTGGAGCGGATTAAAAGAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
18884055 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
18884120 TCCCTGAGATTA
131 TCCCTGAGATTA
18884132 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGA
18884183 ACGGNNNNNN
Statistics
Matches: 4510, Mismatches: 223, Indels: 10
0.95 0.05 0.00
Matches are distributed among these distances:
141 23 0.01
142 4327 0.96
143 160 0.04
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (142 bp):
CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATC
TCCCTGAGATTA
Found at i:18879596 original size:352 final size:352
Alignment explanation
Indices: 18878951--18879651 Score: 1195
Period size: 352 Copynumber: 2.0 Consensus size: 352
18878941 CCTGAGATTA
*
18878951 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAACGGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAACAGATTAAAATAA
* * *
18879016 AGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATA
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATA
* * *
18879081 TCCTTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGC
131 TCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTAAGATTACAGTGGAGC
* *
18879146 GGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
196 AGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
* * * * *
18879211 AGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGA
261 AAAAATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGA
*
18879276 TTACAGTGGAGCGGATTAAAATAATTG
326 TTACAGTGGAGCAGATTAAAATAATTG
* *
18879303 CAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
1 CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAACAGATTAAAATAA
*
18879368 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATA
*
18879433 TCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTCATCTCCCTAAGATTACAGTGGAGC
131 TCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTAAGATTACAGTGGAGC
*
18879498 AGATTAAAATAAAGGATTTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
196 AGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
* * *
18879563 AAAAATTTTATTTTCCTGAGACTACAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGA
261 AAAAATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGA
18879628 TTACAGTGGAGCAGATTAAAATAA
326 TTACAGTGGAGCAGATTAAAATAA
18879652 AGGATCTTAT
Statistics
Matches: 326, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
352 326 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (352 bp):
CAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAACAGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGACCGCATCAGATTGAAGCCAAAAATCTTATA
TCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCCTAAGATTACAGTGGAGC
AGATTAAAATAAAGGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
AAAAATCTTATCTCCCTGAGACTACAGCAGAGCAGATTGAAGCTAGCAATCCCATCTCCCAGAGA
TTACAGTGGAGCAGATTAAAATAATTG
Found at i:18884591 original size:44 final size:44
Alignment explanation
Indices: 18884522--18884746 Score: 186
Period size: 44 Copynumber: 4.9 Consensus size: 44
18884512 TAGATCGCAT
*
18884522 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAG
* ** **
18884566 CAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAG
* ** * *
18884610 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC-----AGCAGA--G
*
18884661 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAG
* *
18884708 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
18884747 TGGAGTGGAT
Statistics
Matches: 142, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 95 0.67
47 1 0.01
49 10 0.07
51 1 0.01
54 23 0.16
55 4 0.03
56 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCAGAG
Found at i:18884747 original size:142 final size:142
Alignment explanation
Indices: 18884491--18884808 Score: 609
Period size: 142 Copynumber: 2.2 Consensus size: 142
18884481 NNNNNNNNNC
18884491 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGAT
1 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGAT
18884556 TACAGCAGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
66 TACAGCAGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
18884621 AAAGGATCTTAT
131 AAAGGATCTTAT
18884633 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGAT
1 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGAT
* * *
18884698 TACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAGAT
66 TACAGCAGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
18884763 AAAGGATCTTAT
131 AAAGGATCTTAT
18884775 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
1 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
18884809 GTCTTATCTC
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 173 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (142 bp):
CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGAT
TACAGCAGAGCAGATTGAAGCTAGTAATCCCATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
AAAGGATCTTAT
Found at i:18884776 original size:44 final size:44
Alignment explanation
Indices: 18884665--18884800 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 44
18884655 AGATCGCATC
** * * *
18884665 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGC
1 AGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTAGAGT
* * *
18884709 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGT
1 AGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTAGAGT
* * *
18884753 GGATT-AAGATAAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAGT
1 AGATTGAAGAT--AGTAATCTTATCTCCCTGAGA-TTACAGTAGAGT
18884797 AGAT
1 AGAT
18884801 CGCATCAGGT
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 5 0.07
44 69 0.91
45 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGTAGAGT
Found at i:18884944 original size:50 final size:50
Alignment explanation
Indices: 18884885--18885661 Score: 505
Period size: 50 Copynumber: 15.6 Consensus size: 50
18884875 TAGTGGAACG
* * **
18884885 GATTAAAGCCACATCAGTGAATCTTGCTTCCCTAACATTGCAGTTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * * * * ** **
18884935 GATTAAAGCCACAGCGGCGAATCTTACTTCTCTGGCGA-TGCAGTGGAGTA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGAC-ATTGCAGTTAAAAA
* * *
18884985 GATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * * * * * ** ** *
18885035 GATTAAATCTACAAT-AGCGAATTTTAC-TCCCCAGGCGGTGCAGTGGAATA
1 GATTAAAGCCAC-ATCGGTGAATCTTACTTCCCC-GACATTGCAGTTAAAAA
* *
18885085 GATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * * * * * * ** *
18885135 GATTAAAGCCACAGCGGCGAATCCTACCTCTCTGGCGATAT--AGTGGAACA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGAC-AT-TGCAGTTAAAAA
* *
18885185 GATTAAAGCCACATCTGTGAATCTTACTTCCCCAACATTGCAGTTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
** * * ** * * ** *
18885235 GATTAAAGGTACAACAGCAAATCTTAC-TCCCCAGGCGA-TGCTG-CGAACA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAAA
* *
18885284 GATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * * * * * * ** *
18885334 GATTAAAGCTACAGCAGTGAATCTTACCT-CCAGGCAGTGCAGTGGAACA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * *
18885383 GATTGAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTCAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * ** * * ** ** *
18885433 GATTAAAGCTACAACAATGAATCTTACTTCCCTGGCGGTGCAGTGGAACA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * * * *
18885483 GATTAAAGCCATATCGGTGAATCTTGCTTCCCTGACACTGCAGCTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
* * * * ** * ** * **
18885533 GATTAAAGCTACAACAGCGAATCTTACTTCCTTGGCGGTGCAGTGGAGCAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGT-TAAAAA
* * *
18885584 -ATTAAAGCCACATCGGTAAATCTTGCTTCCCCGACATTCCAGTTAAAAA
1 GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
*
18885633 GATTAAAGCCACAAT-GGCGAATCTTACTT
1 GATTAAAGCCAC-ATCGGTGAATCTTACTT
18885662 TCCAAAAGTT
Statistics
Matches: 532, Mismatches: 176, Indels: 38
0.71 0.24 0.05
Matches are distributed among these distances:
48 2 0.00
49 85 0.16
50 429 0.81
51 15 0.03
52 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
GATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAA
Found at i:18885028 original size:100 final size:100
Alignment explanation
Indices: 18884869--18885661 Score: 1009
Period size: 100 Copynumber: 8.0 Consensus size: 100
18884859 TATCTCCCAA
* * * **
18884869 GCGATGTAGTGGAACGGATTAAAGCCACATCAGTGAATCTTGCTTCCCTAACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * *
18884934 AGATTAAAGCCACAGCGGCGAATCTTACTTCTCTG
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
** * *
18884969 GCGATGCAGTGGAGTAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * *
18885034 AGATTAAATCTACAATAGCGAATTTTACTCCCCAG
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
* * *
18885069 GCGGTGCAGTGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * *
18885134 AGATTAAAGCCACAGCGGCGAATCCTACCTCTCTG
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
** * * *
18885169 GCGATATAGTGGAACAGATTAAAGCCACATCTGTGAATCTTACTTCCCCAACATTGCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * *
18885234 AGATTAAAGGTACAACAGCAAATCTTACTCCCCAG
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
*
18885269 GCGATGC--TGCGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
1 GCGATGCAGTG-GAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
* * * *
18885332 AAGATTAAAGCTACAGCAGTGAATCTTACCT-CCAG
65 AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
* *
18885367 GC-AGTGCAGTGGAACAGATTGAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTCAAA
1 GCGA-TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
**
18885431 AAGATTAAAGCTACAACAATGAATCTTACTTCCCTG
65 AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
* * * * *
18885467 GCGGTGCAGTGGAACAGATTAAAGCCATATCGGTGAATCTTGCTTCCCTGACACTGCAGCTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
18885532 AGATTAAAGCTACAACAGCGAATCTTACTTCCTTG
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
* * * * *
18885567 GCGGTGCAGTGGAGCAAATTAAAGCCACATCGGTAAATCTTGCTTCCCCGACATTCCAGTTAAAA
1 GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* **
18885632 AGATTAAAGCCACAATGGCGAATCTTACTT
66 AGATTAAAGCTACAACAGCGAATCTTACTT
18885662 TCCAAAAGTT
Statistics
Matches: 597, Mismatches: 90, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
97 1 0.00
98 11 0.02
99 152 0.25
100 433 0.73
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
AGATTAAAGCTACAACAGCGAATCTTACTTCCCTG
Found at i:18904094 original size:50 final size:50
Alignment explanation
Indices: 18903989--18904095 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
18903979 TTATTGAGGT
* * * * * *
18903989 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGTTGGTACCGA
1 TATGAGAGGTCCCACATAAGACCATCTCTAGGACATGGCATGGGCAACGA
* * *
18904039 GATGAGAGGTCCCCCGTAAGACCATCTCTAGGACATGGCATGGGCAACGA
1 TATGAGAGGTCCCACATAAGACCATCTCTAGGACATGGCATGGGCAACGA
18904089 TATGAGA
1 TATGAGA
18904096 ACTCTCATGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
TATGAGAGGTCCCACATAAGACCATCTCTAGGACATGGCATGGGCAACGA
Found at i:18909781 original size:109 final size:106
Alignment explanation
Indices: 18909532--18909844 Score: 475
Period size: 109 Copynumber: 2.9 Consensus size: 106
18909522 AATTCAAGAT
* * * * * *
18909532 GATATTTGGCTATTTGGTTAAATGAGAAATCAAAACCCAGCACATTAGGGCACG-TTCCACGAAT
1 GATATTTGACTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
18909596 TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAG
66 TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAG
* *
18909637 GATATTCGACTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGACTATTTGGTCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
18909702 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAG
64 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAA-TTTTAAAAG
18909746 GATATTTGACTATTTGGTCAAACGAGAAAGGTCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGACTATTTGGTCAAACGAGAAA--TCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
* * *
18909811 ATTTCCAAACGCAAAATATTACCTTATTTGGAAA
64 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
18909845 AATTTTCCTT
Statistics
Matches: 189, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
105 21 0.11
107 30 0.16
108 40 0.21
109 98 0.52
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (106 bp):
GATATTTGACTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
TTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAG
Found at i:18910209 original size:35 final size:37
Alignment explanation
Indices: 18910170--18910238 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
18910160 AATATGTAAG
*
18910170 CATGTAT-ATATGAAAAT-TAAAATGT-ATATATAGGA
1 CATGTATAATAT-AAAATATAAAATATAATATATAGGA
*
18910205 CATGTATAATATAAAGTATAAAATATAATATATA
1 CATGTATAATATAAAATATAAAATATAATATATA
18910239 TTAGGGAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 11 0.38
36 11 0.38
37 7 0.24
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (37 bp):
CATGTATAATATAAAATATAAAATATAATATATAGGA
Found at i:18910346 original size:28 final size:30
Alignment explanation
Indices: 18910315--18910393 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 30
18910305 ATATATATCC
*
18910315 TAAAATATGTATGTATATAT-TA-AGATAA
1 TAAAATATGTATGTATATATACATAGATAA
* * *
18910343 T-AAA-ATGCATGCATATATACATAGATTA
1 TAAAATATGTATGTATATATACATAGATAA
18910371 TAAAATATAGATATGTATATATA
1 TAAAATAT-G-TATGTATATATA
18910394 TATATGTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 12 0.31
27 4 0.10
28 7 0.18
29 3 0.08
30 2 0.05
31 1 0.03
32 10 0.26
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (30 bp):
TAAAATATGTATGTATATATACATAGATAA
Found at i:18910392 original size:14 final size:14
Alignment explanation
Indices: 18910375--18910404 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18910365 AGATTATAAA
18910375 ATATAGATATGTAT
1 ATATAGATATGTAT
*
18910389 ATATATATATGTAT
1 ATATAGATATGTAT
18910403 AT
1 AT
18910405 GTTTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATATAGATATGTAT
Found at i:18921034 original size:19 final size:19
Alignment explanation
Indices: 18921012--18921060 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
18921002 AGATATTCTT
18921012 GTATTGGTTAAAAAATTTG
1 GTATTGGTTAAAAAATTTG
* * * *
18921031 GTATCGTGTTAGACATTTTG
1 GTATTG-GTTAAAAAATTTG
18921051 GTATTGGTTA
1 GTATTGGTTA
18921061 GAAATTAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (19 bp):
GTATTGGTTAAAAAATTTG
Found at i:18921061 original size:19 final size:19
Alignment explanation
Indices: 18920999--18921066 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
18920989 AGAGCATCTC
*
18920999 GTTAGATATTCTT-GTATTG
1 GTTAGAAATT-TTGGTATTG
* * *
18921018 GTTAAAAAATTTGGTATCG
1 GTTAGAAATTTTGGTATTG
*
18921037 TGTTAGACATTTTGGTATTG
1 -GTTAGAAATTTTGGTATTG
18921057 GTTAGAAATT
1 GTTAGAAATT
18921067 AGAAATTTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
18 2 0.05
19 21 0.55
20 15 0.39
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (19 bp):
GTTAGAAATTTTGGTATTG
Found at i:18921529 original size:14 final size:14
Alignment explanation
Indices: 18921510--18921542 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18921500 CAAAAATAAA
18921510 AAAAATTATATATG
1 AAAAATTATATATG
*
18921524 AAAAATTATATATT
1 AAAAATTATATATG
18921538 AAAAA
1 AAAAA
18921543 AAGTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAAATTATATATG
Found at i:18921582 original size:17 final size:16
Alignment explanation
Indices: 18921560--18921616 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
18921550 AATATGTTTG
18921560 AAAATTTTAAATTTGTA
1 AAAATTTTAAA-TTGTA
* *
18921577 AAAATTATAAAACTGTA
1 AAAATT-TTAAATTGTA
18921594 AAAATTTATAAATTGTA
1 AAAATTT-TAAATTGTA
18921611 AAAATT
1 AAAATT
18921617 ATAGTAGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.85
18 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (16 bp):
AAAATTTTAAATTGTA
Found at i:18926826 original size:51 final size:51
Alignment explanation
Indices: 18926712--18926825 Score: 203
Period size: 51 Copynumber: 2.2 Consensus size: 51
18926702 AAATAAGATT
18926712 TTATTAAAAAAATTATATTTAACAACTTGAAATTTATATTTAACATGTATC
1 TTATTAAAAAAATTATATTTAACAACTTGAAATTTATATTTAACATGTATC
18926763 TTATTAAAAAAATTATATTTAACAACTTGAAATTTATATTTAACATGTA-C
1 TTATTAAAAAAATTATATTTAACAACTTGAAATTTATATTTAACATGTATC
18926813 TTACATTAAAAAA
1 TT--ATTAAAAAA
18926826 TATTTAATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 3 0.05
51 49 0.80
52 9 0.15
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (51 bp):
TTATTAAAAAAATTATATTTAACAACTTGAAATTTATATTTAACATGTATC
Found at i:18945769 original size:25 final size:26
Alignment explanation
Indices: 18945732--18945782 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
18945722 GTTGTAAATC
18945732 AGAAAAATATCTTTAGA-AATTTTCT
1 AGAAAAATATCTTTAGAGAATTTTCT
* * *
18945757 AGAATAATCTCTTTAGAGGATTTTCT
1 AGAAAAATATCTTTAGAGAATTTTCT
18945783 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (26 bp):
AGAAAAATATCTTTAGAGAATTTTCT
Found at i:18946449 original size:19 final size:19
Alignment explanation
Indices: 18946416--18946455 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18946406 AAAATATCAT
*
18946416 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
18946435 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
18946454 AT
1 AT
18946456 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:18948051 original size:33 final size:33
Alignment explanation
Indices: 18948003--18948100 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
18947993 TGACATCCAC
* *
18948003 AAAATCGAGAAAGTCCACT-GGAGTAGTAAACAT
1 AAAATAGAGAAAGTCCACTGGGA-CAGTAAACAT
* *
18948036 AGAATAGAGAAAGTCCGCTGGGACAGTAAACAT
1 AAAATAGAGAAAGTCCACTGGGACAGTAAACAT
* * * *
18948069 AAAATAGAGATAGTTCACTGAGACAATAAACA
1 AAAATAGAGAAAGTCCACTGGGACAGTAAACA
18948101 CAAATAAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 51 0.94
34 3 0.06
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.17
Consensus pattern (33 bp):
AAAATAGAGAAAGTCCACTGGGACAGTAAACAT
Found at i:18950162 original size:15 final size:15
Alignment explanation
Indices: 18950142--18950170 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18950132 GTGCTTCACA
18950142 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
18950157 CACCGTGTTATCAA
1 CACCGTGTTATCAA
18950171 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:18951942 original size:17 final size:17
Alignment explanation
Indices: 18951910--18952008 Score: 53
Period size: 17 Copynumber: 5.8 Consensus size: 17
18951900 ATAATAATAT
* *
18951910 TTTAATATTAAACTTAA
1 TTTAATATTTATCTTAA
18951927 TTTAATATTTATCTTAA
1 TTTAATATTTATCTTAA
* * *
18951944 --TAGTGTTT-TATTAA
1 TTTAATATTTATCTTAA
* * *
18951958 TTTAATATTGAAATGATTAT
1 TTTAATATT--TAT-CTTAA
18951978 TTTAATATTTAAT-TTAA
1 TTTAATATTT-ATCTTAA
*
18951995 TTTAATGTTTATCT
1 TTTAATATTTATCT
18952009 GGTAGATAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
14 5 0.08
15 6 0.10
16 7 0.11
17 28 0.45
19 3 0.05
20 13 0.21
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAATATTTATCTTAA
Found at i:18952102 original size:62 final size:61
Alignment explanation
Indices: 18951978--18952095 Score: 161
Period size: 62 Copynumber: 2.0 Consensus size: 61
18951968 AAATGATTAT
* * *
18951978 TTTAATATTTAATTTAATTTAATGTTTATCTGGTAGATAAATATTCTATTATTTTAATAAAA
1 TTTAATATTTAATTTAATCTAATATTTATCT-GTAGATAAATATTATATTATTTTAATAAAA
*
18952040 TTTAATA-TTAGATTTAATCTAATATTTATCT-T-GATAAATATTATATTAATTTAATA
1 TTTAATATTTA-ATTTAATCTAATATTTATCTGTAGATAAATATTATATTATTTTAATA
18952096 TTAAAATGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 3 0.06
62 25 0.49
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (61 bp):
TTTAATATTTAATTTAATCTAATATTTATCTGTAGATAAATATTATATTATTTTAATAAAA
Found at i:18961444 original size:3 final size:3
Alignment explanation
Indices: 18961393--18961429 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18961383 TAATAAGGAG
18961393 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18961430 CAAATATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18968041 original size:30 final size:30
Alignment explanation
Indices: 18968002--18968067 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
18967992 ATAAACCAAA
*
18968002 AAAATTGTAAGAATCAAACT-AAAGATAAATT
1 AAAA-TGTAACAATCAAACTAAAAGA-AAATT
* * *
18968033 AAAATGTAACAATTAAATTAAAAGAATATT
1 AAAATGTAACAATCAAACTAAAAGAAAATT
18968063 AAAAT
1 AAAAT
18968068 TAAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAATGTAACAATCAAACTAAAAGAAAATT
Found at i:18973514 original size:7 final size:7
Alignment explanation
Indices: 18973502--18973554 Score: 88
Period size: 7 Copynumber: 7.4 Consensus size: 7
18973492 AAGTCAATTT
18973502 AGGGTTA
1 AGGGTTA
*
18973509 AGGGTTT
1 AGGGTTA
18973516 AGGGTTA
1 AGGGTTA
18973523 AGGGTTA
1 AGGGTTA
18973530 AGGGTTA
1 AGGGTTA
18973537 AGGGTTA
1 AGGGTTA
18973544 AGGGTTTA
1 AGGG-TTA
18973552 AGG
1 AGG
18973555 TCTAATGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.30
Consensus pattern (7 bp):
AGGGTTA
Found at i:18974488 original size:13 final size:13
Alignment explanation
Indices: 18974470--18974494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18974460 TTTTTTTATC
18974470 TGAAATCCCTAAG
1 TGAAATCCCTAAG
18974483 TGAAATCCCTAA
1 TGAAATCCCTAA
18974495 CTCGTTTCAG
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:0.24, G:0.12, T:0.24
Consensus pattern (13 bp):
TGAAATCCCTAAG
Found at i:18976374 original size:21 final size:21
Alignment explanation
Indices: 18976350--18976390 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18976340 CTAAAAGTAG
*
18976350 AGGCAGCAGCGAGGGAAGCAT
1 AGGCAGCAGCGAGAGAAGCAT
*
18976371 AGGCTGCAGCGAGAGAAGCA
1 AGGCAGCAGCGAGAGAAGCA
18976391 GAGGTTCAAA
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:0.34, C:0.20, G:0.41, T:0.05
Consensus pattern (21 bp):
AGGCAGCAGCGAGAGAAGCAT
Found at i:18977003 original size:41 final size:42
Alignment explanation
Indices: 18976831--18977034 Score: 193
Period size: 42 Copynumber: 4.9 Consensus size: 42
18976821 ATAAAACACT
18976831 GCTAAAGAACAT-TTCTTTTAGCGGCGTTTGTTGGTTT--GCGCC
1 GCTAAAGAACATGTTC-TTTAGCGGCGTTTGTT--TTTAAGCGCC
* ** **
18976873 GCTATAGCTCATGTTCTTTAGCGGCGTTTGTTGTACAAGCGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTGTT-TTTAAGCGCC
** * *
18976916 GCTAAAGAACATGAGCTTTAGTGGCATTT-TTTTTGAAGCGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTGTTTTT-AAGCGCC
* *
18976958 GCTAAAGAGCATGTTCTTTAGCGGCGTTT-TTTTTAAGCGCT
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTGTTTTTAAGCGCC
** * *
18976999 GCTAAAGAACATGACCTTTAGCGGTGTTTATTTTTA
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTGTTTTTA
18977035 TAAACATTGT
Statistics
Matches: 133, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 34 0.26
42 69 0.52
43 30 0.23
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (42 bp):
GCTAAAGAACATGTTCTTTAGCGGCGTTTGTTTTTAAGCGCC
Found at i:18977033 original size:85 final size:85
Alignment explanation
Indices: 18976868--18977022 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 85
18976858 TTGTTGGTTT
* ** *
18976868 GCGCCGCTATAGCTCATGTTCTTTAGCGGCGTTTGTTGTACAAGCGCCGCTAAAGAACATGAGCT
1 GCGCCGCTAAAGAGCATGTTCTTTAGCGGCGTTTGTTGTACAAGCGCCGCTAAAGAACATGACCT
*
18976933 TTAGTGGCATTTTTTTTGAA
66 TTAGCGGCATTTTTTTTGAA
** *
18976953 GCGCCGCTAAAGAGCATGTTCTTTAGCGGCGTTT-TT-TTTAAGCGCTGCTAAAGAACATGACCT
1 GCGCCGCTAAAGAGCATGTTCTTTAGCGGCGTTTGTTGTACAAGCGCCGCTAAAGAACATGACCT
18977016 TTAGCGG
66 TTAGCGG
18977023 TGTTTATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 29 0.47
84 2 0.03
85 31 0.50
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (85 bp):
GCGCCGCTAAAGAGCATGTTCTTTAGCGGCGTTTGTTGTACAAGCGCCGCTAAAGAACATGACCT
TTAGCGGCATTTTTTTTGAA
Found at i:18977550 original size:23 final size:23
Alignment explanation
Indices: 18977523--18977570 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
18977513 TTCATTAGGA
18977523 TTAATGTTGGACTAAGCTATTAG
1 TTAATGTTGGACTAAGCTATTAG
* *
18977546 TTAATGTTTGACTAAGCTTTTAG
1 TTAATGTTGGACTAAGCTATTAG
18977569 TT
1 TT
18977571 TTAATTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (23 bp):
TTAATGTTGGACTAAGCTATTAG
Found at i:18978246 original size:32 final size:31
Alignment explanation
Indices: 18978210--18978276 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 31
18978200 CCATCTTCTG
18978210 TACTGTCATTTATTATAGTGAAATCTCCTTT
1 TACTGTCATTTATTATAGTGAAATCTCCTTT
*
18978241 ATACTGTCCTTTATTATAGTGAAATCTCCTTT
1 -TACTGTCATTTATTATAGTGAAATCTCCTTT
18978273 TACT
1 TACT
18978277 CATGGTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (31 bp):
TACTGTCATTTATTATAGTGAAATCTCCTTT
Found at i:18986235 original size:21 final size:21
Alignment explanation
Indices: 18986211--18986252 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18986201 GCTATATATT
18986211 ATAAAAATAA-TATAGTTTTTA
1 ATAAAAA-AATTATAGTTTTTA
18986232 ATAAAAAAATTTATAGTTTTT
1 ATAAAAAAA-TTATAGTTTTT
18986253 TTTCTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 7 0.37
22 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATAAAAAAATTATAGTTTTTA
Done.