Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 62 of 168
Found at i:17888147 original size:46 final size:46
Alignment explanation
Indices: 17888080--17888182 Score: 161
Period size: 46 Copynumber: 2.2 Consensus size: 46
17888070 CCATTAACAT
*
17888080 TTCGTACCAAATCGTATTACCATTTCGAACCAAATCACCTTACAAA
1 TTCGTACCAAATCGTATTACCATTTCGAACCAAATCACATTACAAA
* * *
17888126 TTCGTACCAAATCGTATTACCATTTTGAACCAAATCACATTACCAT
1 TTCGTACCAAATCGTATTACCATTTCGAACCAAATCACATTACAAA
*
17888172 TTCGTAACAAA
1 TTCGTACCAAA
17888183 CCCAAAACCG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (46 bp):
TTCGTACCAAATCGTATTACCATTTCGAACCAAATCACATTACAAA
Found at i:17888497 original size:19 final size:19
Alignment explanation
Indices: 17888460--17888496 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17888450 AAAAAAGAGT
17888460 TCGAAAAAAAAATTCAAAA
1 TCGAAAAAAAAATTCAAAA
17888479 TCGAAAAAAAAA-TCAAAA
1 TCGAAAAAAAAATTCAAAA
17888497 AAATTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.70, C:0.11, G:0.05, T:0.14
Consensus pattern (19 bp):
TCGAAAAAAAAATTCAAAA
Found at i:17893967 original size:23 final size:23
Alignment explanation
Indices: 17893935--17894046 Score: 116
Period size: 23 Copynumber: 4.9 Consensus size: 23
17893925 CTTTTTGAAC
* *
17893935 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
17893958 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
17893981 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* ***
17894004 TATTACCATTTTAAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
17894027 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
17894047 CCCAAAACCG
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:17894011 original size:46 final size:46
Alignment explanation
Indices: 17893935--17894046 Score: 161
Period size: 46 Copynumber: 2.4 Consensus size: 46
17893925 CTTTTTGAAC
* * *
17893935 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCAAACCAAATCA
* *
17893981 CCTTACCAATTCGTACCAAATCGTATTACCATTTTAAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCAAACCAAATCA
* *
17894027 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
17894047 CCCAAAACCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCAAACCAAATCA
Found at i:17901485 original size:25 final size:25
Alignment explanation
Indices: 17901457--17901512 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
17901447 ACCGATTCTC
17901457 AGCTCG-AGAGAGCTTACCGATATTT
1 AGCTCGCA-AGAGCTTACCGATATTT
* *
17901482 AGCTCGCATGAGCTTATCGATATTT
1 AGCTCGCAAGAGCTTACCGATATTT
17901507 AGCTCG
1 AGCTCG
17901513 TATGAGCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCTCGCAAGAGCTTACCGATATTT
Found at i:17901517 original size:25 final size:25
Alignment explanation
Indices: 17901466--17901519 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
17901456 CAGCTCGAGA
17901466 GAGCTTACCGATATTTAGCTCGCAT
1 GAGCTTACCGATATTTAGCTCGCAT
* *
17901491 GAGCTTATCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTTAGCTCGCAT
17901516 GAGC
1 GAGC
17901520 ATACATGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTACCGATATTTAGCTCGCAT
Found at i:17910866 original size:26 final size:26
Alignment explanation
Indices: 17910830--17910910 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
17910820 AGAGCGTAGT
*
17910830 AGGCTTCGTGCTGGTGTATATTTAGC
1 AGGCTTTGTGCTGGTGTATATTTAGC
* * * *
17910856 AGGCTTTGTGCTAGTGTTTCTATAGC
1 AGGCTTTGTGCTGGTGTATATTTAGC
* *
17910882 AGACACTTTGTACTGGTGTTATATTTAGC
1 AG--GCTTTGTGCTGGTG-TATATTTAGC
17910911 CAGTACTCTG
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
26 23 0.56
28 11 0.27
29 7 0.17
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.41
Consensus pattern (26 bp):
AGGCTTTGTGCTGGTGTATATTTAGC
Found at i:17913132 original size:41 final size:41
Alignment explanation
Indices: 17913054--17913139 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
17913044 ATTTTCCAGG
* **
17913054 TATGATTTCGTGTAAGAATATGTCTGGGACATTGGCATCGTA
1 TATGATTTCGTGTAAGAACATGTCTGGGACAGAGGCATCG-A
* * *
17913096 TATGA-TTCGTGTAAGACCCTGTCTGGGATAGAGGCATCGA
1 TATGATTTCGTGTAAGAACATGTCTGGGACAGAGGCATCGA
17913136 TATG
1 TATG
17913140 TGATAACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 5 0.13
41 28 0.74
42 5 0.13
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (41 bp):
TATGATTTCGTGTAAGAACATGTCTGGGACAGAGGCATCGA
Found at i:17916118 original size:50 final size:50
Alignment explanation
Indices: 17916045--17916336 Score: 345
Period size: 50 Copynumber: 5.9 Consensus size: 50
17916035 ACATTAAGAG
* *
17916045 GATGAGA--TCCCATGTTAGACCATGTTTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
*
17916093 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* *
17916143 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATAGTGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* * * * *
17916193 GATGAGAGGTCCCATGTAAGACCATGTTTGGGATACGGCGTTGACACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * *
17916243 GATAAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * * * * *
17916293 TATGAGAACTCTCATGCAAAACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
17916337 TAATACAAGA
Statistics
Matches: 209, Mismatches: 33, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
48 7 0.03
50 202 0.97
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:17920370 original size:39 final size:39
Alignment explanation
Indices: 17920283--17920432 Score: 140
Period size: 39 Copynumber: 3.8 Consensus size: 39
17920273 ATCCTATTAC
* * * ** *
17920283 ACATATAATCACCTAACATTCAAGCATATATCATGATAT
1 ACATATAATCTCATAACATTTAAGCATATATCACAACAT
* * * *
17920322 ATATTTAATCTTATAACATTTAAGCATATATCACAACCCT
1 ACATATAATCTCATAACATTTAAGCATATATCACAA-CAT
* * * * *
17920362 -CGTATAATCACATAACATTCAAGCATATACCACAATAT
1 ACATATAATCTCATAACATTTAAGCATATATCACAACAT
*
17920400 ACATATAATCTCACAACATTTAAGCATATATCA
1 ACATATAATCTCATAACATTTAAGCATATATCA
17920433 TAATACTCAA
Statistics
Matches: 85, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
38 1 0.01
39 83 0.98
40 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
ACATATAATCTCATAACATTTAAGCATATATCACAACAT
Found at i:17920400 original size:78 final size:78
Alignment explanation
Indices: 17920286--17920432 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 78
17920276 CTATTACACA
* * ** * * * *
17920286 TATAATCACCTAACATTCAAGCATATATCATGATATATATTTAATCTTATAACATTTAAGCATAT
1 TATAATCACATAACATTCAAGCATATACCACAATATACATATAATCTCACAACATTTAAGCATAT
17920351 ATCACAACCCTCG
66 ATCACAACCCTCG
17920364 TATAATCACATAACATTCAAGCATATACCACAATATACATATAATCTCACAACATTTAAGCATAT
1 TATAATCACATAACATTCAAGCATATACCACAATATACATATAATCTCACAACATTTAAGCATAT
17920429 ATCA
66 ATCA
17920433 TAATACTCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (78 bp):
TATAATCACATAACATTCAAGCATATACCACAATATACATATAATCTCACAACATTTAAGCATAT
ATCACAACCCTCG
Found at i:17920517 original size:17 final size:17
Alignment explanation
Indices: 17920474--17920518 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
17920464 GCATAATGGT
17920474 CATATGTCAT-ATAAACA
1 CATAT-TCATAATAAACA
*
17920491 CATA-TCATAATACACA
1 CATATTCATAATAAACA
17920507 CATATTCATAAT
1 CATATTCATAAT
17920519 TTATGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 11 0.44
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (17 bp):
CATATTCATAATAAACA
Found at i:17924280 original size:39 final size:40
Alignment explanation
Indices: 17924206--17924341 Score: 161
Period size: 39 Copynumber: 3.5 Consensus size: 40
17924196 ATTCACTTTT
* * * *
17924206 AAGCATATATCCCATTAC-ACATATAACCACCTAACATTC
1 AAGCATATATCACAATACTACATATAATCACATAACATTC
* *
17924245 AATCATAAATCACAATACT-CATATAATCACATAACATTC
1 AAGCATATATCACAATACTACATATAATCACATAACATTC
* * * *
17924284 AAGCATATATCATAATA-TACGTATAATCTCATAACATTT
1 AAGCATATATCACAATACTACATATAATCACATAACATTC
17924323 AAGCATATATCACAATACT
1 AAGCATATATCACAATACT
17924342 GAAAAACATC
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 79 0.98
40 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (40 bp):
AAGCATATATCACAATACTACATATAATCACATAACATTC
Found at i:17924977 original size:47 final size:47
Alignment explanation
Indices: 17924908--17925006 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
17924898 CATATTCACA
17924908 AACACATAAACACTTTATTCATAAGGTAACATAGGTATGAAAAAGCT
1 AACACATAAACACTTTATTCATAAGGTAACATAGGTATGAAAAAGCT
17924955 AACACATAAACACTTTATTCATAAGGTAACATAGGTATGAAAAAGCT
1 AACACATAAACACTTTATTCATAAGGTAACATAGGTATGAAAAAGCT
*
17925002 TACAC
1 AACAC
17925007 TCAAAATTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (47 bp):
AACACATAAACACTTTATTCATAAGGTAACATAGGTATGAAAAAGCT
Found at i:17937977 original size:20 final size:20
Alignment explanation
Indices: 17937952--17937989 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17937942 TTAGCAAAGT
*
17937952 TACGGTTTTCCAACACAAGC
1 TACGGTTTTCAAACACAAGC
17937972 TACGGTTTTCAAACACAA
1 TACGGTTTTCAAACACAA
17937990 TACCATACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (20 bp):
TACGGTTTTCAAACACAAGC
Found at i:17940070 original size:104 final size:102
Alignment explanation
Indices: 17939880--17940239 Score: 576
Period size: 104 Copynumber: 3.5 Consensus size: 102
17939870 TGTATATAAA
** * * *
17939880 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCAT-ATCCACCATATCTT
*
17939945 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17939984 AGGGGTTGCTAAGTGTTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCAATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGC-ATATCCACCATATCT
*
17940049 TTGAAATGAAAAGGGGGTTGCTATGTTCTGATTCCCCCG
64 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
17940088 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGC-ATATCCACCATATCT
*
17940153 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCTCG
64 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17940192 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC
17940240 GGGATCCACC
Statistics
Matches: 241, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
103 20 0.08
104 180 0.75
105 40 0.17
106 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCATATCCACCATATCTTT
GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17951277 original size:25 final size:25
Alignment explanation
Indices: 17951230--17951302 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
17951220 CGTATACTCT
17951230 TACGAGCTGTAA-AT-AGTAAGCTCA
1 TACGAGCTG-AATATCAGTAAGCTCA
17951254 TACGAGCTGAATATCAGTAAGCTCA
1 TACGAGCTGAATATCAGTAAGCTCA
*
17951279 TACGAGCTAAATATCAGTAAGCTC
1 TACGAGCTGAATATCAGTAAGCTC
17951303 TCTCGAGATG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 2 0.04
24 11 0.24
25 33 0.72
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (25 bp):
TACGAGCTGAATATCAGTAAGCTCA
Found at i:17962040 original size:50 final size:50
Alignment explanation
Indices: 17961936--17962227 Score: 336
Period size: 50 Copynumber: 5.7 Consensus size: 50
17961926 GGTAAAGGGA
17961936 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGG
* *
17961992 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGACGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
17962042 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
17962092 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * **
17962142 TCCCATGTAAGGCCATATCTGGGATATGACATTGGCA--GTACATGATATA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
17962191 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17962228 TGTTATTATC
Statistics
Matches: 205, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 125 0.61
53 3 0.01
55 2 0.01
56 36 0.18
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:17968468 original size:16 final size:16
Alignment explanation
Indices: 17968447--17968477 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17968437 AGCCTAGGGG
17968447 CAAAATGTAATTTTTC
1 CAAAATGTAATTTTTC
17968463 CAAAATGTAATTTTT
1 CAAAATGTAATTTTT
17968478 GCACTAGATT
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:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (16 bp):
CAAAATGTAATTTTTC
Found at i:17968758 original size:51 final size:50
Alignment explanation
Indices: 17968703--17968837 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 50
17968693 AAAGTGATGG
17968703 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACC-AGATAGCT-TCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGA-ATAG-TAT-GA
* * * *
17968754 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTGATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT-ATGA
* *
17968805 TCACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
17968838 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 1 0.01
51 71 0.96
52 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTATGA
Found at i:17968913 original size:46 final size:43
Alignment explanation
Indices: 17968841--17968933 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 43
17968831 TACTATGTGA
*
17968841 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
17968884 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
17968930 ACCG
1 ACCG
17968934 TGTGTCTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 5 0.12
44 11 0.26
45 2 0.05
46 23 0.53
47 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:17969084 original size:16 final size:16
Alignment explanation
Indices: 17969063--17969094 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17969053 TGATTGAAAG
*
17969063 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
17969079 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
17969095 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:17971411 original size:82 final size:82
Alignment explanation
Indices: 17971270--17971434 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
17971260 TAGATTCCCT
17971270 TATTAATCCTTTGAGAGTTTGAAAACACTTTAGAAACAGTTTGGGACTAAATCGAGAACATTTGA
1 TATTAATCCTTTGAGAGTTTGAAAACACTTTAGAAACAGTTTGGGACTAAATCGAGAACATTTGA
17971335 AAATTTTAGAAGAAAAG
66 AAATTTTAGAAGAAAAG
* *
17971352 TATTAATCCTTTGAGAGTTTGAAAACACTTTAGAAACGGTTTGGGACTAAATCGGGAACATTTGA
1 TATTAATCCTTTGAGAGTTTGAAAACACTTTAGAAACAGTTTGGGACTAAATCGAGAACATTTGA
17971417 AAATTTTAGAAGAAAAG
66 AAATTTTAGAAGAAAAG
17971434 T
1 T
17971435 TAGAAAAATT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (82 bp):
TATTAATCCTTTGAGAGTTTGAAAACACTTTAGAAACAGTTTGGGACTAAATCGAGAACATTTGA
AAATTTTAGAAGAAAAG
Found at i:17972936 original size:16 final size:16
Alignment explanation
Indices: 17972915--17972948 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17972905 CCAGTATCCA
* *
17972915 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
17972931 ATTATCACATTTACAC
1 ATTATCACATTTACAC
17972947 AT
1 AT
17972949 ACATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:17990987 original size:43 final size:42
Alignment explanation
Indices: 17990940--17991034 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
17990930 TCCCAGAGTT
* * *
17990940 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAGACAG
** *
17990983 GGTCTTACACGAAATCGTATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
17991025 GGTCTTACAC
1 GGTCTTACAC
17991035 ATAAATCTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
Found at i:17993566 original size:42 final size:42
Alignment explanation
Indices: 17993456--17993578 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
17993446 TGTGATTTCG
* * * **
17993456 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCA
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATGTGATAACA
* * *
17993498 TATAAGACCCTATCTGGGACAGTGGCATCGATATGTGGTAACA
1 TGTAAGACCATATCTGGGACAGTGGCATCG-TATGTGATAACA
* * *
17993541 TGTAAGACCATATCTGAGATA-TGGCATTGTATGTGATA
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATGTGATA
17993579 TATGTGTTTC
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
41 8 0.12
42 33 0.50
43 25 0.38
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTATGTGATAACA
Found at i:18000761 original size:40 final size:40
Alignment explanation
Indices: 18000706--18000802 Score: 185
Period size: 40 Copynumber: 2.4 Consensus size: 40
18000696 CCAAGCACCT
*
18000706 TTGTAAAAATGTCAGCCAACTGAATGGAGGTCGGAACATA
1 TTGTAAAAATGTCAGCCAACCGAATGGAGGTCGGAACATA
18000746 TTGTAAAAATGTCAGCCAACCGAATGGAGGTCGGAACATA
1 TTGTAAAAATGTCAGCCAACCGAATGGAGGTCGGAACATA
18000786 TTGTAAAAATGTCAGCC
1 TTGTAAAAATGTCAGCC
18000803 TATCCTGAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (40 bp):
TTGTAAAAATGTCAGCCAACCGAATGGAGGTCGGAACATA
Found at i:18002317 original size:9 final size:9
Alignment explanation
Indices: 18002303--18002328 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18002293 ATTCATTAAT
18002303 TTTTAGTTA
1 TTTTAGTTA
18002312 TTTTAGTTA
1 TTTTAGTTA
18002321 TTTTAGTT
1 TTTTAGTT
18002329 TGTGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Found at i:18003841 original size:11 final size:11
Alignment explanation
Indices: 18003825--18003851 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18003815 AAGTTAGTGA
18003825 AAAAAAATTCG
1 AAAAAAATTCG
18003836 AAAAAAATTCG
1 AAAAAAATTCG
18003847 AAAAA
1 AAAAA
18003852 GAAAATTCGT
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:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:18007067 original size:23 final size:21
Alignment explanation
Indices: 18007021--18007072 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
18007011 TGTTAATGTG
*
18007021 TGTGTTTAATAAGTGCTTACA
1 TGTGTTTAATAAGTGCTTAAA
18007042 TGTGTTTAATAAGCT-CATTTAAA
1 TGTGTTTAATAAG-TGC--TTAAA
18007065 TGTGTTTA
1 TGTGTTTA
18007073 TTGTAGGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 12 0.44
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (21 bp):
TGTGTTTAATAAGTGCTTAAA
Found at i:18009721 original size:28 final size:29
Alignment explanation
Indices: 18009681--18009740 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
18009671 CTCCAGCTTA
18009681 GGTGGGCCAAAAGGA-AAAAAAAAACTAT
1 GGTGGGCCAAAAGGAGAAAAAAAAACTAT
18009709 GGTGGGCCAAAAGGAGAAAAAAAAACTAT
1 GGTGGGCCAAAAGGAGAAAAAAAAACTAT
18009738 GGT
1 GGT
18009741 ATTGTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.50, C:0.10, G:0.28, T:0.12
Consensus pattern (29 bp):
GGTGGGCCAAAAGGAGAAAAAAAAACTAT
Found at i:18013244 original size:25 final size:25
Alignment explanation
Indices: 18013210--18013267 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
18013200 CATATGAGCT
*
18013210 GTAAACTCCTCCAAGCTGAATAAAG
1 GTAAGCTCCTCCAAGCTGAATAAAG
* *
18013235 GTAAGCTCCTCCGAGCTGAATAATG
1 GTAAGCTCCTCCAAGCTGAATAAAG
18013260 GTAAGCTC
1 GTAAGCTC
18013268 ATACGAGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (25 bp):
GTAAGCTCCTCCAAGCTGAATAAAG
Found at i:18013274 original size:25 final size:25
Alignment explanation
Indices: 18013223--18013295 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
18013213 AACTCCTCCA
* * *
18013223 AGCTGAATAAAGGTAAGCTCCTCCG
1 AGCTGAATAATGGTAAGCTCATACG
18013248 AGCTGAATAATGGTAAGCTCATACG
1 AGCTGAATAATGGTAAGCTCATACG
*
18013273 AGCTGAGT-ATCGGTAAGCTCATA
1 AGCTGAATAAT-GGTAAGCTCATA
18013296 GGAGTTGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 2 0.05
25 41 0.95
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTGAATAATGGTAAGCTCATACG
Found at i:18013304 original size:25 final size:25
Alignment explanation
Indices: 18013234--18013313 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
18013224 GCTGAATAAA
* * *
18013234 GGTAAGCTCCTCCGAGCTGAATAAT-
1 GGTAAGCTCATACGAGCTGAGT-ATC
18013259 GGTAAGCTCATACGAGCTGAGTATC
1 GGTAAGCTCATACGAGCTGAGTATC
* *
18013284 GGTAAGCTCATAGGAGTTGAGTATC
1 GGTAAGCTCATACGAGCTGAGTATC
18013309 GGTAA
1 GGTAA
18013314 CCCTATTGAC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
24 2 0.04
25 47 0.96
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAGTATC
Found at i:18021013 original size:25 final size:25
Alignment explanation
Indices: 18020985--18021096 Score: 116
Period size: 25 Copynumber: 4.5 Consensus size: 25
18020975 ACAAGCTGTA
*
18020985 AACGGTAAGCTCCTTCGACCTGAAT
1 AACGGTAAGCTCCTTCGAGCTGAAT
* * *
18021010 AACGGTAAACTCCTCCGAGCGGAAT
1 AACGGTAAGCTCCTTCGAGCTGAAT
* *
18021035 AACAGTAAGCTCCTTCGAGCTAAAT
1 AACGGTAAGCTCCTTCGAGCTGAAT
* * * * *
18021060 AAAGGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCCTTCGAGCTGAAT
*
18021085 ATCGGTAAGCTC
1 AACGGTAAGCTC
18021097 ATAAGAGCTG
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 69 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCCTTCGAGCTGAAT
Found at i:18021097 original size:25 final size:25
Alignment explanation
Indices: 18021063--18021111 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
18021053 GCTAAATAAA
* *
18021063 GGTAAGCTCATACGAGTTGAGTATC
1 GGTAAGCTCATAAGAGCTGAGTATC
18021088 GGTAAGCTCATAAGAGCTGAGTAT
1 GGTAAGCTCATAAGAGCTGAGTAT
18021112 TGATAACCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCATAAGAGCTGAGTATC
Found at i:18022734 original size:42 final size:42
Alignment explanation
Indices: 18022679--18022758 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
18022669 ATGGCCAAGC
18022679 CACACACCCGTGTGCTAGG-CAGTGTAACCTTCGAAATGGCCT
1 CACACACCCGTGTGCTAGGCCA-TGTAACCTTCGAAATGGCCT
* * * *
18022721 CACACGCCTGTGTGCTAGGCCATGTAACTTTTGAAATG
1 CACACACCCGTGTGCTAGGCCATGTAACCTTCGAAATG
18022759 AAACCTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (42 bp):
CACACACCCGTGTGCTAGGCCATGTAACCTTCGAAATGGCCT
Found at i:18027793 original size:25 final size:25
Alignment explanation
Indices: 18027773--18027829 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
18027763 TGAGCTGAAG
*
18027773 ATTGGTGTGCTCTCACAAGCTATAA
1 ATTGGTATGCTCTCACAAGCTATAA
*
18027798 ATTGGTATGCTCTCACGAGCTATAA
1 ATTGGTATGCTCTCACAAGCTATAA
*
18027823 ATCGGTA
1 ATTGGTA
18027830 ACCTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (25 bp):
ATTGGTATGCTCTCACAAGCTATAA
Found at i:18031243 original size:69 final size:73
Alignment explanation
Indices: 18031152--18031320 Score: 238
Period size: 70 Copynumber: 2.3 Consensus size: 73
18031142 CAACCCCTTG
* * *
18031152 GGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATACGGTGGAATCAGCACTTAGCAGCC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
18031216 -CC-T-CA
66 ACCATACA
*
18031221 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
*
18031286 ACCGATGAATA
66 ACC-AT--ACA
18031297 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
18031321 TCTATATTCA
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
69 25 0.28
70 35 0.40
71 2 0.02
73 1 0.01
76 25 0.28
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (73 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
ACCATACA
Found at i:18034523 original size:42 final size:42
Alignment explanation
Indices: 18034464--18034566 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 42
18034454 TGAAACGGGC
* * *
18034464 TTGCTCACACGATCTGTGGGTCGAAATGTAAGCTATACGATA
1 TTGCTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATA
18034506 TTGCTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATA
1 TTGCTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATA
* *
18034548 CTGCTCAAACGAGCTGTGG
1 TTGCTCACACGAGCTGTGG
18034567 AGTATCCACA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
TTGCTCACACGAGCTGTGGGTCAAAATGTAAGCTACACGATA
Found at i:18040598 original size:13 final size:15
Alignment explanation
Indices: 18040574--18040606 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
18040564 TGATTTATAT
18040574 ATTAAGATTAATTAG
1 ATTAAGATTAATTAG
18040589 -TTAA-ATTAATTAG
1 ATTAAGATTAATTAG
18040602 ATTAA
1 ATTAA
18040607 TCATGCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (15 bp):
ATTAAGATTAATTAG
Found at i:18044761 original size:29 final size:29
Alignment explanation
Indices: 18044719--18044995 Score: 197
Period size: 29 Copynumber: 9.5 Consensus size: 29
18044709 TCATCGACTA
* * *
18044719 ATGAAAAAGGATAGATTCGACAATCAATT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* * **
18044748 ATGAAAAGGGATAGCTTTGGCCATCGGTT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* *
18044777 ATGAAAAAGGGATAGCTTC-AGCTATCGATT
1 ATG-AAAAGGGATAGCTTCGA-CCATCAATT
* * * * *
18044807 ATGAAAATGGA-CGGTGACGACCATCAACT
1 ATGAAAAGGGATAGCT-TCGACCATCAATT
*
18044836 ATGAAAAGGGAT-G-TTGACAACCATCAATT
1 ATGAAAAGGGATAGCTT--CGACCATCAATT
* * *
18044865 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACCATCAATT
* * *
18044894 ATGAAAAAGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CCATCAATT
* *
18044923 ATGAAAAGGGAT-GGTCACGACCATCAATT
1 ATGAAAAGGGATAGCT-TCGACCATCAATT
* * **
18044952 AATGAAAAGGGATGGTTTCGACCATCAAAG
1 -ATGAAAAGGGATAGCTTCGACCATCAATT
18044982 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
18044996 TTACAACCAT
Statistics
Matches: 196, Mismatches: 38, Indels: 28
0.75 0.15 0.11
Matches are distributed among these distances:
28 5 0.03
29 138 0.70
30 49 0.25
31 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACCATCAATT
Found at i:18044926 original size:87 final size:87
Alignment explanation
Indices: 18044775--18044964 Score: 231
Period size: 87 Copynumber: 2.2 Consensus size: 87
18044765 TGGCCATCGG
* * *
18044775 TTATGAAAAAGGGATAGCTTCAGCTATCGATTATGAAAATGGACGGTGACGACCATCAACTATGA
1 TTATG-AAAAGGGATAGCTTCAGCTATCGATTATGAAAAAGGAAGGTCACGACCATCAACTATGA
* *
18044840 AAAGGGATGTTGACAACCATCAA
65 AAAGGGATGGTCACAACCATCAA
* * * * *
18044863 TTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATAGCTTCA-G-CTATCGATTATG
1 TTATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAAGGA-AG-GTCACGACCATCAACTATG
*
18044926 AAAAGGGATGGTCACGACCATCAA
64 AAAAGGGATGGTCACAACCATCAA
18044950 TTAATGAAAAGGGAT
1 TT-ATGAAAAGGGAT
18044965 GGTTTCGACC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
87 67 0.76
88 19 0.22
89 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (87 bp):
TTATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAAGGAAGGTCACGACCATCAACTATGAA
AAGGGATGGTCACAACCATCAA
Found at i:18044957 original size:117 final size:117
Alignment explanation
Indices: 18044741--18044995 Score: 379
Period size: 117 Copynumber: 2.2 Consensus size: 117
18044731 AGATTCGACA
* *
18044741 ATCAATTATGAAAAGGGATAGCTTTGGCCATCGGTTATGAAAAAGGGATAGCTTCAGCTATCGAT
1 ATCAATTATGAAAAGGGATAGCTTCGGCCATCGATTATGAAAAAGGGATAGCTTCAGCTATCGAT
* *
18044806 TATGAAAATGGACGGTGACGACCATCAACTATGAAAAGGGAT-GTTGACAACC
66 TATGAAAAGGGACGGTCACGACCATCAACTATGAAAAGGGATGGTT-ACAACC
*
18044858 ATCAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAA-GGATAGCTTCAGCTATCGAT
1 ATCAATTATGAAAAGGGATAGCTTCGGCCATCGATTATGAAAAAGGGATAGCTTCAGCTATCGAT
* * * *
18044922 TATGAAAAGGGATGGTCACGACCATCAATTAATGAAAAGGGATGGTTTCGACC
66 TATGAAAAGGGACGGTCACGACCATCAACT-ATGAAAAGGGATGGTTACAACC
**
18044975 ATCAAAGATGAAAAGGGATAG
1 ATCAATTATGAAAAGGGATAG
18044996 TTACAACCAT
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
116 46 0.37
117 76 0.61
118 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (117 bp):
ATCAATTATGAAAAGGGATAGCTTCGGCCATCGATTATGAAAAAGGGATAGCTTCAGCTATCGAT
TATGAAAAGGGACGGTCACGACCATCAACTATGAAAAGGGATGGTTACAACC
Found at i:18044986 original size:146 final size:146
Alignment explanation
Indices: 18044719--18045006 Score: 341
Period size: 146 Copynumber: 2.0 Consensus size: 146
18044709 TCATCGACTA
* ** *
18044719 ATGAAAAAGGATAGATTCGACAATCAATTATGAAAAGGGATAGCTTTGGCCATCGGTTATGAAAA
1 ATGAAAAAGGATAGATTCGACAATCAATTATGAAAAAGGATAGCTTCAGCCATCGATTATGAAAA
* * * * **
18044784 AGGGATAGCTTCAGCTATCGATTATGAAAATGGACGGTGACGACCATCAACTATGAAAAGGGAT-
66 AGGGATAGCGTCAGCCATCAATTATGAAAAGGGACGGTGACGACCATCAAAGATGAAAAGGGATA
18044848 GTTGACAACCATCAATT
131 GTT-ACAACCATCAATT
* * * * * *
18044865 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATAGCTTCAGCTATCGATTATG-AAA
1 ATGAAAAAGGATAGATTCGACAATCAATTATGAAAAAGGATAGCTTCAGCCATCGATTATGAAAA
* **
18044929 AGGGAT-G-GTCACGACCATCAATTAATGAAAAGGGATGGTTTCGACCATCAAAGATGAAAAGGG
66 AGGGATAGCGTCA-G-CCATCAATT-ATGAAAAGGGACGGTGACGACCATCAAAGATGAAAAGGG
18044992 ATAGTTACAACCATC
128 ATAGTTACAACCATC
18045007 GTTCAACACA
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
143 3 0.03
144 2 0.02
145 16 0.13
146 95 0.80
147 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (146 bp):
ATGAAAAAGGATAGATTCGACAATCAATTATGAAAAAGGATAGCTTCAGCCATCGATTATGAAAA
AGGGATAGCGTCAGCCATCAATTATGAAAAGGGACGGTGACGACCATCAAAGATGAAAAGGGATA
GTTACAACCATCAATT
Found at i:18048224 original size:20 final size:20
Alignment explanation
Indices: 18048191--18048229 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18048181 TTTTAAGGAC
*
18048191 ATTTTAATTCAATATAGTTTT
1 ATTTAAATTCAATA-AGTTTT
18048212 ATTTAAATT-AATAAGTTT
1 ATTTAAATTCAATAAGTTT
18048230 GCATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTAAATTCAATAAGTTTT
Found at i:18050904 original size:10 final size:10
Alignment explanation
Indices: 18050889--18050950 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
18050879 TTTAAACCAT
*
18050889 TACCAATTCG
1 TACCAATTCA
*
18050899 TACCAAATACAA
1 TACC-AATTC-A
*
18050911 TACCATTTCA
1 TACCAATTCA
18050921 TACCAATTCCA
1 TACCAATT-CA
* *
18050932 TACCATTTCG
1 TACCAATTCA
18050942 TACCAATTC
1 TACCAATTC
18050951 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 21 0.51
11 16 0.39
12 4 0.10
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:18050936 original size:21 final size:21
Alignment explanation
Indices: 18050910--18050951 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18050900 ACCAAATACA
18050910 ATACCATTTCATACCAATTCC
1 ATACCATTTCATACCAATTCC
*
18050931 ATACCATTTCGTACCAATTCC
1 ATACCATTTCATACCAATTCC
18050952 CAAATACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (21 bp):
ATACCATTTCATACCAATTCC
Found at i:18051721 original size:21 final size:20
Alignment explanation
Indices: 18051678--18051738 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
18051668 AATCTTGAAG
18051678 GAAATTAAGAGAAGAAA-AAAA
1 GAAA-TAAGAGAA-AAAGAAAA
*
18051699 GAAATGAGAGAAAAAGAAGAA
1 GAAATAAGAGAAAAAGAA-AA
* *
18051720 GAGATAAAAGAAAAAGAAA
1 GAAATAAGAGAAAAAGAAA
18051739 CTGAGAGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 21 0.62
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (20 bp):
GAAATAAGAGAAAAAGAAAA
Found at i:18051728 original size:15 final size:14
Alignment explanation
Indices: 18051689--18051736 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
18051679 AAATTAAGAG
*
18051689 AAGAAAAAAAGAAA
1 AAGAGAAAAAGAAA
* *
18051703 TGAGAGAAAAAGAAG
1 -AAGAGAAAAAGAAA
18051718 AAGAGATAAAAGAAA
1 AAGAGA-AAAAGAAA
18051733 AAGA
1 AAGA
18051737 AACTGAGAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (14 bp):
AAGAGAAAAAGAAA
Found at i:18053539 original size:40 final size:40
Alignment explanation
Indices: 18053461--18053540 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
18053451 GAGAAGCTCG
* *
18053461 ATCAGCTCACTTGAGCTCATTTAAGCTCGTTCCTGCTCAA
1 ATCAGCTCACTTGAGCACATTTAAGCTCGTTCCAGCTCAA
* **
18053501 ATCAGCTCACTTGAGCACTTTTCAA-CTCGTTTGAGCTCAA
1 ATCAGCTCACTTGAGCACATTT-AAGCTCGTTCCAGCTCAA
18053541 TTAAGCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (40 bp):
ATCAGCTCACTTGAGCACATTTAAGCTCGTTCCAGCTCAA
Found at i:18057015 original size:33 final size:34
Alignment explanation
Indices: 18056950--18057023 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
18056940 TTTTACTTGG
* *
18056950 TTTCTTTCTTCACTCGTTTCTTTTGCAGACTCTT
1 TTTCTTTCTTCACTCGTTTCTTTTGCAAACTCTC
18056984 TTTCTTTC-TCACTCGATTTCTTTT-CAAACTCTC
1 TTTCTTTCTTCACTCG-TTTCTTTTGCAAACTCTC
18057017 TTTCTTT
1 TTTCTTT
18057024 TTCTTTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.11, C:0.27, G:0.05, T:0.57
Consensus pattern (34 bp):
TTTCTTTCTTCACTCGTTTCTTTTGCAAACTCTC
Found at i:18057028 original size:6 final size:6
Alignment explanation
Indices: 18057017--18057071 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
18057007 TCAAACTCTC
* * * *
18057017 TTTCTT TTTCTT TTTCAT TTTC-T TTTC-- TTTCAA TTTCTT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
18057062 TTTCAT TTTC
1 TTTCAT TTTC
18057072 TCGCTCGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.09
5 5 0.12
6 34 0.79
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTCAT
Found at i:18061326 original size:14 final size:14
Alignment explanation
Indices: 18061307--18061333 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18061297 TAGTTAAATT
18061307 AGTTAATTAATTTA
1 AGTTAATTAATTTA
18061321 AGTTAATTAATTT
1 AGTTAATTAATTT
18061334 GTTAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
AGTTAATTAATTTA
Found at i:18066143 original size:43 final size:43
Alignment explanation
Indices: 18066048--18066421 Score: 301
Period size: 43 Copynumber: 8.7 Consensus size: 43
18066038 CAGGTTTATA
* *
18066048 CTTCGATTTAGCCGATGATGCACT-TATGTGCCAGTATATTTG
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATATTTG
* * * * *
18066090 CTTCAATTTATCCAATGATGCACTATCTGTGACAGTATGA-TGG
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTAT-ATTTG
* * *
18066133 CTTCGGTTTATCCAATGATGCACTATGTGTGCCAGTATATTTT
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATATTTG
** *** ** * * ** *
18066176 CTTCGATTTATCTAATGATATGCTACATATGCAAAAATATGATTA
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATAT--TTG
*
18066221 CTTCGGTTTATCCGATGATGCAC--TGTGTGCCAGTATATTTG
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATATTTG
* * * * *
18066262 CTTTGGTTTATCCGGTGATGCGCTATGTGTGTCAGTATGA-TTG
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTAT-ATTTG
* * * *
18066305 CTTCGATTTAAACCAATGATGCACTATGTTTGCTAGTATATTTG
1 CTTCGATTT-ATCCGATGATGCACTATGTGTGCCAGTATATTTG
* * * *
18066349 CTTCGATTTATCTGATGATGCACCATTTGTGCCGGTATGA-TTG
1 CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTAT-ATTTG
* * *
18066392 CTTCGGTTTATCTGATGATGCGCTATGTGT
1 CTTCGATTTATCCGATGATGCACTATGTGT
18066422 TGGATCTGGT
Statistics
Matches: 259, Mismatches: 62, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
41 22 0.08
42 22 0.08
43 159 0.61
44 37 0.14
45 19 0.07
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (43 bp):
CTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATATTTG
Found at i:18066193 original size:86 final size:86
Alignment explanation
Indices: 18066048--18066421 Score: 378
Period size: 86 Copynumber: 4.3 Consensus size: 86
18066038 CAGGTTTATA
* * * *
18066048 CTTCGATTTAGCCGATGATGCACT-TATGTGCCAGTATATTTGCTTCAATTTATCCAATGATGCA
1 CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATTTGCTTCGATTTATCCAATGATGCA
* *
18066112 CTATCTGTGACAGTATGATGG
66 CTATATGTGACAGTATGATTG
* * *
18066133 CTTCGGTTTATCCAATGATGCACTATGTGTGCCAGTATATTTTCTTCGATTTATCTAATGATATG
1 CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATTTGCTTCGATTTATCCAATG--ATG
** * * *
18066198 CTAC-ATATGCAAAAATATGATTA
64 C-ACTATATGTGACAGTATGATTG
* * ** *
18066221 CTTCGGTTTATCCGATGATGCAC--TGTGTGCCAGTATATTTGCTTTGGTTTATCCGGTGATGCG
1 CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATTTGCTTCGATTTATCCAATGATGCA
* *
18066284 CTATGTGTGTCAGTATGATTG
66 CTATATGTGACAGTATGATTG
* * * * * **
18066305 CTTCGATTTAAACCAATGATGCACTATGTTTGCTAGTATATTTGCTTCGATTTATCTGATGATGC
1 CTTCGGTTT-ATCCGATGATGCACTATGTGTGCCAGTATATTTGCTTCGATTTATCCAATGATGC
* * * *
18066370 ACCATTTGTGCCGGTATGATTG
65 ACTATATGTGACAGTATGATTG
* *
18066392 CTTCGGTTTATCTGATGATGCGCTATGTGT
1 CTTCGGTTTATCCGATGATGCACTATGTGT
18066422 TGGATCTGGT
Statistics
Matches: 232, Mismatches: 49, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
83 1 0.00
84 24 0.10
85 33 0.14
86 76 0.33
87 58 0.25
88 38 0.16
89 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (86 bp):
CTTCGGTTTATCCGATGATGCACTATGTGTGCCAGTATATTTGCTTCGATTTATCCAATGATGCA
CTATATGTGACAGTATGATTG
Found at i:18066345 original size:173 final size:173
Alignment explanation
Indices: 18066046--18066367 Score: 466
Period size: 173 Copynumber: 1.9 Consensus size: 173
18066036 TACAGGTTTA
18066046 TACTTCGATTTAGCCGATGATGCACTTATGTGCCAGTATATTTGCTTCAATTTATCCAATGATGC
1 TACTTCGATTTAGCCGATGATGCACTTATGTGCCAGTATATTTGCTTCAATTTATCCAATGATGC
* * *
18066111 ACTATCTGTGACAGTATGATGGCTTCGGTTTATCCAATGATGCACTATGTGTGCCAGTATATTTT
66 ACTATCTGTGACAGTATGATGGCTTCGATTTAACCAATGATGCACTATGTGTGCCAGTATATTTG
18066176 CTTCGATTTATCTAATGATATGCTACATATGCAAAAATATGAT
131 CTTCGATTTATCTAATGATATGCTACATATGCAAAAATATGAT
* * * *** **
18066219 TACTTCGGTTTATCCGATGATGCAC-TGTGTGCCAGTATATTTGCTTTGGTTTATCCGGTGATGC
1 TACTTCGATTTAGCCGATGATGCACTTATGTGCCAGTATATTTGCTTCAATTTATCCAATGATGC
* * * * * *
18066283 GCTATGTGTGTCAGTATGATTGCTTCGATTTAAACCAATGATGCACTATGTTTGCTAGTATATTT
66 ACTATCTGTGACAGTATGATGGCTTCGATTT-AACCAATGATGCACTATGTGTGCCAGTATATTT
*
18066348 GCTTCGATTTATCTGATGAT
130 GCTTCGATTTATCTAATGAT
18066368 GCACCATTTG
Statistics
Matches: 130, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
172 59 0.45
173 71 0.55
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (173 bp):
TACTTCGATTTAGCCGATGATGCACTTATGTGCCAGTATATTTGCTTCAATTTATCCAATGATGC
ACTATCTGTGACAGTATGATGGCTTCGATTTAACCAATGATGCACTATGTGTGCCAGTATATTTG
CTTCGATTTATCTAATGATATGCTACATATGCAAAAATATGAT
Found at i:18068226 original size:51 final size:51
Alignment explanation
Indices: 18068024--18068353 Score: 275
Period size: 51 Copynumber: 6.5 Consensus size: 51
18068014 ATAGACGTAC
* * * *
18068024 TAGCCTTCACATAGTACTACACACGTGATC--AGTTTTACAG-TTCACGTAG
1 TAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTACCGATACACATAG
* * *
18068073 TAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTACGGCT-CACATAG
1 TAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTACCGATACACATAG
* * *
18068123 TAGCCTTCACATAGTACTACATACGTGACCAAAGCTTT-CTGGTATC-CATAG
1 TAGCCTTCACATAGTACTACACACGTGACCAAAG-TTTACCGATA-CACATAG
* * * * * *
18068174 TAGCCTTCACTTAGTACCACACATGTAACCATAGTTTACCGATACACGTAG
1 TAGCCTTCACATAGTACTACACACGTGACCAAAGTTTACCGATACACATAG
* * * ** *
18068225 TAGCTTTCGCACAGTACTACACACGTG-CTCAAAACTT-CTCGGTACACATAG
1 TAGCCTTCACATAGTACTACACACGTGAC-CAAAGTTTAC-CGATACACATAG
* * * * *
18068276 TAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACGTAG
1 TAGCCTTCACATAGTACTACACACGTGACCA-AAGTTTACCGATACACATAG
*
18068327 TAGCCTTCACACAGTACTACACACGTG
1 TAGCCTTCACATAGTACTACACACGTG
18068354 TTCATCGATA
Statistics
Matches: 228, Mismatches: 41, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
49 30 0.13
50 52 0.23
51 143 0.63
52 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
TAGCCTTCACATAGTACTACACACGTGACCAAAGTTTACCGATACACATAG
Found at i:18068275 original size:102 final size:102
Alignment explanation
Indices: 18068070--18068353 Score: 355
Period size: 102 Copynumber: 2.8 Consensus size: 102
18068060 ACAGTTCACG
* * * * * *
18068070 TAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTACGGCT-CACATAGTAGCCTTCAC
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATAG-TTTACCGATACACGTAGTAGCCTTCAC
* * *
18068133 ATAGTACTACATACGTGACCAAAGCTTTCTGGTATCCA
65 ACAGTACTACACACGTGACCAAAACTTTCTGGTATCCA
* * * *
18068171 TAGTAGCCTTCACTTAGTACCACACATGTAACCATAGTTTACCGATACACGTAGTAGCTTTCGCA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCATAGTTTACCGATACACGTAGTAGCCTTCACA
18068236 CAGTACTACACACGTG-CTCAAAAC-TTCTCGGTA-CACA
66 CAGTACTACACACGTGAC-CAAAACTTTCT-GGTATC-CA
*
18068273 TAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACGTAGTAGCCTTCAC
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTACCGATACACGTAGTAGCCTTCAC
18068337 ACAGTACTACACACGTG
65 ACAGTACTACACACGTG
18068354 TTCATCGATA
Statistics
Matches: 159, Mismatches: 18, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
101 42 0.26
102 115 0.72
103 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
TAGTAGCCTTCACTTAGTACTACACATGTGACCATAGTTTACCGATACACGTAGTAGCCTTCACA
CAGTACTACACACGTGACCAAAACTTTCTGGTATCCA
Found at i:18068343 original size:153 final size:152
Alignment explanation
Indices: 18068066--18068349 Score: 335
Period size: 153 Copynumber: 1.9 Consensus size: 152
18068056 TTTTACAGTT
* * *
18068066 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACATAGTAGCCTTC
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGATCAACTTCTACGGCTCACATAGTAGCCTTC
* * **
18068131 ACATAGTACTACATACGTGACCAAAGCTTTCTGGTATCCATAGTAGCCTTCACTTAGTACCACAC
66 ACATAGTACTACACACGTGACCAAAGCTTTCTGATATCCATAGTAGCCTTCACACAGTACCACAC
18068196 ATGTAACCATAGTTTACCGATA
131 ATGTAACCATAGTTTACCGATA
* * *
18068218 CACGTAGTAGCTTTCGCACAGTACTACACACGTGCTCAAAACTTCT-CGG-TACACATAGTAGCC
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGATC--AACTTCTACGGCT-CACATAGTAGCC
* * * * *
18068281 TTCACTTAGTACTACACATGTGACCATTA--TTTATCGATA-CACGTAGTAGCCTTCACACAGTA
63 TTCACATAGTACTACACACGTGACCA-AAGCTTTCT-GATATC-CATAGTAGCCTTCACACAGTA
*
18068343 CTACACA
125 CCACACA
18068350 CGTGTTCATC
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
152 39 0.35
153 65 0.59
154 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (152 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGATCAACTTCTACGGCTCACATAGTAGCCTTC
ACATAGTACTACACACGTGACCAAAGCTTTCTGATATCCATAGTAGCCTTCACACAGTACCACAC
ATGTAACCATAGTTTACCGATA
Found at i:18075586 original size:51 final size:51
Alignment explanation
Indices: 18075372--18075713 Score: 279
Period size: 51 Copynumber: 6.8 Consensus size: 51
18075362 TTTTATCATT
*
18075372 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTAC
* * * * *
18075422 AG-TTCACGTAGTAGCGTTCACAAAGTACTACACACGTGATCAAGTTTTAC
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTAC
* * * *
18075472 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGTTTTAC
* * * * * * *
18075522 TGGTATC-CATAGTAGCCTTCACTTAGTACCACACATGTAACCATAG-TTTAC
1 CGATA-CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AGTTTTAC
* * * ***
18075573 CGATACACGTAGTAGCTTTCGCACAGTACTACACACGTG-CTCAAAACTT-C
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGTTTTAC
* * * * * * *
18075623 TCGGTACACATCGTAGCCTTCACTTAGTACTACACATGTGACC-ATTATTTAT
1 -CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTAC
* *
18075675 CGATACAGGTAGTAGCCTTCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
18075714 TTCATCGATA
Statistics
Matches: 229, Mismatches: 49, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
49 36 0.16
50 55 0.24
51 136 0.59
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTAC
Found at i:18075611 original size:102 final size:102
Alignment explanation
Indices: 18075372--18075713 Score: 324
Period size: 102 Copynumber: 3.4 Consensus size: 102
18075362 TTTTATCATT
* * * * * * *
18075372 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC---AGTTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAACTTCT-CGGTACACATAGT
* ** * * * * *
18075434 AGCGTTCACAAAGTACTACACACGTGATCAAGT-TTTAC
65 AGCCTTCACTTAGTACCACACATGT-AACCATTATTTAC
* * * * *
18075472 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGAC-CAAAGCTT-TCTGGTATC-CATA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG-CTCAAAACTTCTC-GGTA-CACATA
18075533 GTAGCCTTCACTTAGTACCACACATGTAACCA-TAGTTTAC
63 GTAGCCTTCACTTAGTACCACACATGTAACCATTA-TTTAC
* * *
18075573 CGATACACGTAGTAGCTTTCGCACAGTACTACACACGTGCTCAAAACTTCTCGGTACACATCGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAACTTCTCGGTACACATAGTA
* * *
18075638 GCCTTCACTTAGTACTACACATGTGACCATTATTTAT
66 GCCTTCACTTAGTACCACACATGTAACCATTATTTAC
*
18075675 CGATACAGGTAGTAGCCTTCACACAGTACTACACACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
18075714 TTCATCGATA
Statistics
Matches: 199, Mismatches: 30, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
99 35 0.18
100 6 0.03
101 37 0.19
102 117 0.59
103 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAACTTCTCGGTACACATAGTA
GCCTTCACTTAGTACCACACATGTAACCATTATTTAC
Found at i:18077465 original size:3 final size:3
Alignment explanation
Indices: 18077457--18077491 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18077447 GTACCACTTA
18077457 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
18077492 CCTCTATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18077503 original size:12 final size:12
Alignment explanation
Indices: 18077488--18077517 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18077478 AAGAAGAAGA
*
18077488 AGAACCTCTATT
1 AGAACCTCTATC
18077500 AGAACCTCTATC
1 AGAACCTCTATC
18077512 AGAACC
1 AGAACC
18077518 CTTCTTACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (12 bp):
AGAACCTCTATC
Found at i:18079325 original size:26 final size:26
Alignment explanation
Indices: 18079289--18079342 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
18079279 CAAACTTTCC
*
18079289 TATAAACATATCATCCTGGAATCACT
1 TATAAACATATCATCCCGGAATCACT
*
18079315 TATAAATATATCATCCCGGAATCACT
1 TATAAACATATCATCCCGGAATCACT
18079341 TA
1 TA
18079343 CTTTCACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (26 bp):
TATAAACATATCATCCCGGAATCACT
Found at i:18079743 original size:20 final size:20
Alignment explanation
Indices: 18079715--18079832 Score: 96
Period size: 20 Copynumber: 5.9 Consensus size: 20
18079705 ATAGATGTAT
*
18079715 AACAGGGGCACCGAAGTGCA
1 AACAAGGGCACCGAAGTGCA
**
18079735 AACAAGGGCA-TAAATGTGCA
1 AACAAGGGCACCGAA-GTGCA
* * * *
18079755 AACAGGGGCACCGTAGTACG
1 AACAAGGGCACCGAAGTGCA
* *
18079775 AAC-AGGGACACCAAAGTGTA
1 AACAAGGG-CACCGAAGTGCA
* * *
18079795 TACAGGGGCACCTAAGTGCA
1 AACAAGGGCACCGAAGTGCA
18079815 AACAAGGGCACCGAAGTG
1 AACAAGGGCACCGAAGTG
18079833 AATATCCCGT
Statistics
Matches: 72, Mismatches: 22, Indels: 8
0.71 0.22 0.08
Matches are distributed among these distances:
19 5 0.07
20 63 0.88
21 4 0.06
ACGTcount: A:0.37, C:0.22, G:0.31, T:0.10
Consensus pattern (20 bp):
AACAAGGGCACCGAAGTGCA
Found at i:18079759 original size:40 final size:40
Alignment explanation
Indices: 18079715--18079832 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 40
18079705 ATAGATGTAT
*
18079715 AACAGGGGCACCGAAGTGCAAACAAGGGCA-TAAATGTGCA
1 AACAGGGGCACCGAAGTGCAAACAAGGGCACCAAA-GTGCA
* * * *
18079755 AACAGGGGCACCGTAGTACGAAC-AGGGACACCAAAGTGTA
1 AACAGGGGCACCGAAGTGCAAACAAGGG-CACCAAAGTGCA
* * *
18079795 TACAGGGGCACCTAAGTGCAAACAAGGGCACCGAAGTG
1 AACAGGGGCACCGAAGTGCAAACAAGGGCACCAAAGTG
18079833 AATATCCCGT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 4 0.06
40 53 0.83
41 7 0.11
ACGTcount: A:0.37, C:0.22, G:0.31, T:0.10
Consensus pattern (40 bp):
AACAGGGGCACCGAAGTGCAAACAAGGGCACCAAAGTGCA
Found at i:18080869 original size:15 final size:16
Alignment explanation
Indices: 18080847--18080893 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
18080837 GCAGAAATCG
18080847 AGAGAAAAAGAAAAAA
1 AGAGAAAAAGAAAAAA
18080863 A-AGAAAAA-AATAGAAA
1 AGAGAAAAAGAA-A-AAA
18080879 AGAGCAAAAAGAAAA
1 AGAG-AAAAAGAAAA
18080894 TTGATGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.08
15 8 0.31
16 5 0.19
17 3 0.12
18 6 0.23
19 2 0.08
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (16 bp):
AGAGAAAAAGAAAAAA
Found at i:18086755 original size:32 final size:30
Alignment explanation
Indices: 18086657--18086773 Score: 83
Period size: 32 Copynumber: 3.6 Consensus size: 30
18086647 CAAAAAAGGG
*
18086657 AAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAA
1 AAGAAAAAGAAAAA--AAAATCAAAAT--AAA--AA
**
18086693 AATGAAAAA-AATCAAAAATCAAAATAAAAA
1 AA-GAAAAAGAAAAAAAAATCAAAATAAAAA
* *
18086723 AAGAAGAAAGAAGAAAAAAATCAGAATGAAAA
1 AAGAA-AAAGAA-AAAAAAATCAAAATAAAAA
*
18086755 AGGAAAAAGAAAAAGAAAA
1 AAGAAAAAGAAAAA-AAAA
18086774 GGAGAGGCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
29 3 0.04
30 10 0.15
31 12 0.18
32 22 0.32
34 10 0.15
36 5 0.07
37 6 0.09
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.09
Consensus pattern (30 bp):
AAGAAAAAGAAAAAAAAATCAAAATAAAAA
Found at i:18088911 original size:43 final size:43
Alignment explanation
Indices: 18088861--18089083 Score: 365
Period size: 43 Copynumber: 5.2 Consensus size: 43
18088851 AAGATTGCGG
* * * *
18088861 ATCTTATCTTCCCTAGGAATAGGGAAACAGATCTAAGCTACGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
18088904 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
*
18088947 ATCTTATCTTCCCCAAGAGTAAGGAAACAGATCCAAGCTACGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
*
18088990 ATCTTATCTTCCCCAAGAGTAAGGAAACAGATCCAAGCTACGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
* *
18089033 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCCAAGCCACGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
*
18089076 GTCTTATC
1 ATCTTATC
18089084 CCCCTGAGGT
Statistics
Matches: 171, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (43 bp):
ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
Found at i:18089203 original size:50 final size:50
Alignment explanation
Indices: 18089137--18089687 Score: 411
Period size: 50 Copynumber: 11.0 Consensus size: 50
18089127 CTCCCTAAGG
* * * *
18089137 TTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
* * * * *
18089187 TTGCAGTTCAAAAGATTAAAGCTACATCAGCGAATCTTACCTT-CCAGGCGA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTT-GCTTCCCTGAC-A
* * * *
18089238 -TGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCTTACA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
* * * * * * *
18089287 TTGTAGTTCAAAAGATTAAAGCTACATCAGTGAATCTTACCTT-CCAGGCGA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTT-GCTTCCCTGAC-A
* * **
18089338 -TGCAGTGGAATAGATTAAAGCCACATCAATGAATCTTGCTTCCCTGACA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
* * * * * * *
18089387 TTACAGTTCAAAAGATTAAAGCTACATCAGCAAATCTTACCTT-CCAGGCGA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTT-GCTTCCCTGAC-A
* * * * *
18089438 -TGCAGTGGAACAA-ATTAAAGCCACATCGGTGAATCTTGCTTCCTTAACA
1 TTGCAGTTGAA-AAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
* * * * * *
18089487 TTGCAGTTCAAAAGACTAAAGCTACATCAGCGAATCTTACCTT-CCAGGCA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTT-GCTTCCCTGACA
* * * * *
18089537 GTGCAG-TGAAGCAGATTAAAGCCACATCGGTGAATCTTGATT-CCTCGACA
1 TTGCAGTTGAA-AAGATTAAAGCCACATCAGCGAATCTTGCTTCCCT-GACA
* * * * * * *
18089587 TTGTAGTTGAGAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGATA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
* * * * *
18089637 GTGCAGTGGAACAGATTAAAGCCACAGCGGCGAATCTTGCTTCCCTGACA
1 TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
18089687 T
1 T
18089688 CAAAGTTATG
Statistics
Matches: 375, Mismatches: 107, Indels: 38
0.72 0.21 0.07
Matches are distributed among these distances:
49 21 0.06
50 332 0.89
51 22 0.06
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (50 bp):
TTGCAGTTGAAAAGATTAAAGCCACATCAGCGAATCTTGCTTCCCTGACA
Found at i:18089295 original size:100 final size:100
Alignment explanation
Indices: 18089138--18089687 Score: 822
Period size: 100 Copynumber: 5.5 Consensus size: 100
18089128 TCCCTAAGGT
18089138 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGAT
18089203 TAAAGCTACATCAGCGAATCTTACCTTCCAGGCGA
66 TAAAGCTACATCAGCGAATCTTACCTTCCAGGCGA
* * *
18089238 TGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTTGCTTCCCTTACATTGTAGTTCAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGAT
*
18089303 TAAAGCTACATCAGTGAATCTTACCTTCCAGGCGA
66 TAAAGCTACATCAGCGAATCTTACCTTCCAGGCGA
* ** *
18089338 TGCAGTGGAATAGATTAAAGCCACATCAATGAATCTTGCTTCCCTGACATTACAGTTCAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGAT
*
18089403 TAAAGCTACATCAGCAAATCTTACCTTCCAGGCGA
66 TAAAGCTACATCAGCGAATCTTACCTTCCAGGCGA
* * * *
18089438 TGCAGTGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCTTAACATTGCAGTTCAAAAGAC
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGAT
18089503 TAAAGCTACATCAGCGAATCTTACCTTCCAGGC-A
66 TAAAGCTACATCAGCGAATCTTACCTTCCAGGCGA
* * * *
18089537 GTGCAGT-GAAGCAGATTAAAGCCACATCGGTGAATCTTGATT-CCTCGACATTGTAGTTGAGAA
1 -TGCAGTGGAA-CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTCAAAA
* **
18089600 GATTAAAGCTACAACAGCGAATCTTA-CTTCCCA-GATA
63 GATTAAAGCTACATCAGCGAATCTTACCTT-CCAGGCGA
* *
18089637 GTGCAGTGGAACAGATTAAAGCCACAGCGGCGAATCTTGCTTCCCTGACAT
1 -TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAT
18089688 CAAAGTTATG
Statistics
Matches: 408, Mismatches: 35, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
99 10 0.02
100 392 0.96
101 6 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGAT
TAAAGCTACATCAGCGAATCTTACCTTCCAGGCGA
Found at i:18090258 original size:15 final size:15
Alignment explanation
Indices: 18090220--18090264 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
18090210 GCAGAAATCG
*
18090220 AGAGAAAAATAAAAA
1 AGAGAAAAATAGAAA
*
18090235 AGAAAAAAATAGAAA
1 AGAGAAAAATAGAAA
*
18090250 AGAGCAAAA-AGAAA
1 AGAGAAAAATAGAAA
18090264 A
1 A
18090265 ATGATGTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (15 bp):
AGAGAAAAATAGAAA
Found at i:18099395 original size:20 final size:21
Alignment explanation
Indices: 18099363--18099411 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
18099353 TATAGCTTTC
18099363 TTTAAATATTTTTTAT-ATTTT
1 TTTAAA-ATTTTTTATGATTTT
18099384 TTTAAAA-TTTTTATGATTTT
1 TTTAAAATTTTTTATGATTTT
*
18099404 TTAAAAAT
1 TTTAAAAT
18099412 ATAAATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
20 12 0.48
21 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTAAAATTTTTTATGATTTT
Found at i:18099498 original size:20 final size:20
Alignment explanation
Indices: 18099381--18099488 Score: 109
Period size: 19 Copynumber: 5.3 Consensus size: 20
18099371 TTTTTTATAT
18099381 TTTTTTAAAATT-TTTATG-A
1 TTTTTTAAAATTATTT-TGAA
18099400 TTTTTTAAAAATATAAATTTTGAA
1 TTTTTT-AAAAT-T--ATTTTGAA
*
18099424 -TTTATATAAA-TATTTTGAA
1 TTTTTTA-AAATTATTTTGAA
18099443 -TTTTTAAAATTATTTTGAA
1 TTTTTTAAAATTATTTTGAA
18099462 TTTTTTAAAATTATTTTGAA
1 TTTTTTAAAATTATTTTGAA
18099482 TTATTTT
1 TT-TTTT
18099489 GTAATTTTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
18 3 0.04
19 28 0.36
20 26 0.34
21 6 0.08
22 1 0.01
23 9 0.12
24 4 0.05
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAATTATTTTGAA
Found at i:18099499 original size:11 final size:10
Alignment explanation
Indices: 18099434--18099498 Score: 64
Period size: 10 Copynumber: 6.6 Consensus size: 10
18099424 TTTATATAAA
18099434 TATTTTGAAT
1 TATTTTGAAT
**
18099444 T-TTTAAAAT
1 TATTTTGAAT
18099453 TATTTTGAAT
1 TATTTTGAAT
*
18099463 T-TTTTAAAAT
1 TATTTT-GAAT
18099473 TATTTTGAAT
1 TATTTTGAAT
18099483 TATTTTGTAAT
1 TATTTTG-AAT
18099494 T-TTTT
1 TATTTT
18099499 TAGAGAGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 11 0.24
10 26 0.58
11 8 0.18
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (10 bp):
TATTTTGAAT
Found at i:18104269 original size:19 final size:19
Alignment explanation
Indices: 18104240--18104291 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
18104230 CTTTATATAA
18104240 ATTTATATATATTTTTAAAT
1 ATTT-TATATATTTTTAAAT
18104260 ATTTTATATATTTTTTAAAT
1 ATTTTATATA-TTTTTAAAT
18104280 ATTTTATA-ATTT
1 ATTTTATATATTT
18104292 ATGTCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 21 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATATATTTTTAAAT
Found at i:18105138 original size:17 final size:18
Alignment explanation
Indices: 18105107--18105154 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
18105097 AAAAAATACA
*
18105107 TATTT-ATATTAAATATT
1 TATTTAATATTTAATATT
18105124 T-TGTTAA-ATTTAATATT
1 TAT-TTAATATTTAATATT
18105141 TATTTAATATTTAA
1 TATTTAATATTTAA
18105155 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.04
17 17 0.65
18 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTAATATTTAATATT
Found at i:18108122 original size:21 final size:21
Alignment explanation
Indices: 18108096--18108156 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
18108086 TAACTTAATA
* *
18108096 ATAAAAGATCAAAAATCTATG
1 ATAAAAGATTAAGAATCTATG
18108117 ATAAAAGATTAAGAATCTATG
1 ATAAAAGATTAAGAATCTATG
18108138 ATAAAAGATTAAGAATCTA
1 ATAAAAGATTAAGAATCTA
18108157 ATCACATCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (21 bp):
ATAAAAGATTAAGAATCTATG
Found at i:18109195 original size:30 final size:30
Alignment explanation
Indices: 18109161--18109219 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18109151 ATCTTCAACT
18109161 CCATGGCCGAATTTCACAAGGGGAAACCAC
1 CCATGGCCGAATTTCACAAGGGGAAACCAC
* *
18109191 CCATGGCTGAATTTGACAAGGGGAAACCA
1 CCATGGCCGAATTTCACAAGGGGAAACCA
18109220 TGGCTAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.15
Consensus pattern (30 bp):
CCATGGCCGAATTTCACAAGGGGAAACCAC
Found at i:18110082 original size:50 final size:50
Alignment explanation
Indices: 18110001--18110281 Score: 298
Period size: 50 Copynumber: 5.6 Consensus size: 50
18109991 ATTTGGGTAA
*
18110001 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
18110051 ATAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
18110101 AGAGGTCCCATGTAAGACCATGTGTTGGG-CATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGT-CTGGGACATGGCATTGGCACCGAGATG
** * * *
18110151 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
18110201 AGAACTCTCATGTAATACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
18110250 AAACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACAT
18110282 AACTTTGGCA
Statistics
Matches: 191, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 31 0.16
50 157 0.82
51 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:18113143 original size:49 final size:50
Alignment explanation
Indices: 18113064--18113306 Score: 202
Period size: 50 Copynumber: 4.8 Consensus size: 50
18113054 TGAATATAAC
* * * ** * *
18113064 ATGCCAAAGCTATGTCCCAGACATAATCTTACATGGGATGTT-TCTTGT-G
1 ATGCCAACGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATATAG
* * *
18113113 CTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAG
1 ATGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
* ** * *
18113163 ATGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCG
1 ATGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
* * * * *
18113213 GTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATATCAATG
1 ATGCCAACGCCATATCCCAGACATGGTCTTACATGGGA-GT-TC-TCATAT--A-G
* * *
18113269 ATGCCAATGCCATGTGCCAGACATGGTCTTACATGGGA
1 ATGCCAACGCCATATCCCAGACATGGTCTTACATGGGA
18113307 TCTCTTTACT
Statistics
Matches: 157, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 35 0.22
50 77 0.49
51 1 0.01
52 2 0.01
53 4 0.03
56 35 0.22
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
Found at i:18113239 original size:100 final size:105
Alignment explanation
Indices: 18113114--18113303 Score: 255
Period size: 100 Copynumber: 1.8 Consensus size: 105
18113104 TTTCTTGTGC
* * * * *
18113114 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGA-GT-TC-TCATAT-A-GATGCCAACGCC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAATATAATGATGCCAACGCC
18113174 ATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
66 ATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* *
18113214 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATATCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAATAT-AATGATGCCAACGC
* *
18113279 CATGTGCCAGACATGGTCTTACATG
65 CATATCCCAGACATGGTCTTACATG
18113304 GGATCTCTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 33 0.44
101 1 0.01
102 2 0.03
103 5 0.07
105 1 0.01
106 33 0.44
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (105 bp):
TGCCAACGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAATATAATGATGCCAACGCC
ATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:18113281 original size:56 final size:52
Alignment explanation
Indices: 18113114--18113311 Score: 215
Period size: 50 Copynumber: 3.8 Consensus size: 52
18113104 TTTCTTGTGC
* * **
18113114 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTC-ATAT-AGA
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCTATATCAGA
* * *
18113164 TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTC-ATCTC-GG
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCTATATCAGA
* *
18113214 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATATCAATGA
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTC-T-ATATC-A-GA
* * * *
18113270 TGCCAATGCCATGTGCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCT
18113312 TTACTCATAT
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
50 82 0.66
53 4 0.03
56 39 0.31
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (52 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCTATATCAGA
Found at i:18113930 original size:17 final size:17
Alignment explanation
Indices: 18113910--18113944 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18113900 ATATTCTACC
18113910 ATAAAACATAAAAATAA
1 ATAAAACATAAAAATAA
18113927 ATAAAACATAAAAATAA
1 ATAAAACATAAAAATAA
18113944 A
1 A
18113945 CACATTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAAACATAAAAATAA
Found at i:18124084 original size:18 final size:18
Alignment explanation
Indices: 18124061--18124096 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18124051 GTTATGGCTG
18124061 AATCTGATAATTTTACGA
1 AATCTGATAATTTTACGA
18124079 AATCTGATAATTTTACGA
1 AATCTGATAATTTTACGA
18124097 TAAAGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
AATCTGATAATTTTACGA
Found at i:18124702 original size:24 final size:23
Alignment explanation
Indices: 18124675--18124720 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
18124665 ATACAGAATC
*
18124675 CTACCCCCATCCTCTACACACCAA
1 CTACCACCATCCTCT-CACACCAA
* *
18124699 CTACGAGCATCCTCTCACACCA
1 CTACCACCATCCTCTCACACCA
18124721 TGTGGGGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.28, C:0.50, G:0.04, T:0.17
Consensus pattern (23 bp):
CTACCACCATCCTCTCACACCAA
Found at i:18129490 original size:24 final size:26
Alignment explanation
Indices: 18129436--18129504 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
18129426 ATAATAAGAA
18129436 AGGAT-GAAATTGGCTAAGTGAAATG
1 AGGATGGAAATTGGCTAAGTGAAATG
* *
18129461 ATGATGGAAA-TGGCTAGGTG-AATG
1 AGGATGGAAATTGGCTAAGTGAAATG
*
18129485 AGGATGGAGATTTGGCTAAG
1 AGGATGGA-AATTGGCTAAG
18129505 GTTTTGAAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 11 0.31
25 14 0.39
26 11 0.31
ACGTcount: A:0.35, C:0.04, G:0.36, T:0.25
Consensus pattern (26 bp):
AGGATGGAAATTGGCTAAGTGAAATG
Found at i:18130832 original size:30 final size:30
Alignment explanation
Indices: 18130793--18130883 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
18130783 ATAAAATAGC
18130793 ATCGAGCTCAATGAGCTAAGATTGAGCTGA
1 ATCGAGCTCAATGAGCTAAGATTGAGCTGA
* * **
18130823 ATTGAGCTCAAGGAATTGAA-ATTCGAGCTGA
1 ATCGAGCTCAATGAGCT-AAGATT-GAGCTGA
* * *
18130854 ATCAAGCTCAATAAGCTAGGATTGAGCTGA
1 ATCGAGCTCAATGAGCTAAGATTGAGCTGA
18130884 TCAACTAGAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
30 24 0.51
31 23 0.49
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (30 bp):
ATCGAGCTCAATGAGCTAAGATTGAGCTGA
Found at i:18141617 original size:42 final size:42
Alignment explanation
Indices: 18141554--18141656 Score: 170
Period size: 42 Copynumber: 2.5 Consensus size: 42
18141544 TGTGAATACT
* *
18141554 CCACAGCTCGTATGAGCAGCATCGTGTAGCTTACATTCTGAC
1 CCACAGCTCGTATGAGTAGCATCGTATAGCTTACATTCTGAC
*
18141596 CCACAACTCGTATGAGTAGCATCGTATAGCTTACATTCTGAC
1 CCACAGCTCGTATGAGTAGCATCGTATAGCTTACATTCTGAC
*
18141638 CCACAGCTCGTGTGAGTAG
1 CCACAGCTCGTATGAGTAG
18141657 ACCAATTCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CCACAGCTCGTATGAGTAGCATCGTATAGCTTACATTCTGAC
Found at i:18147446 original size:15 final size:15
Alignment explanation
Indices: 18147398--18147449 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18147388 TCCATTGAGC
18147398 AAGAAAAAGAAAAAGAGA
1 AAGAAAAAG--AAAGA-A
* **
18147416 AACAAAAAGAGTGAA
1 AAGAAAAAGAAAGAA
18147431 AAGAAAAAGAAAGAA
1 AAGAAAAAGAAAGAA
18147446 AAGA
1 AAGA
18147450 CTGACGAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 17 0.61
16 3 0.11
18 8 0.29
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (15 bp):
AAGAAAAAGAAAGAA
Found at i:18147459 original size:26 final size:26
Alignment explanation
Indices: 18147429--18147496 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
18147419 AAAAAGAGTG
18147429 AAAAGAAAAAGAAAGAA-AAGACTGAC
1 AAAAGAAAAAGAAA-AACAAGACTGAC
* ** * * *
18147455 GAAAGTGAGATAAAAACAAGAGTGAC
1 AAAAGAAAAAGAAAAACAAGACTGAC
18147481 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
18147497 GAGTGTGAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.68, C:0.06, G:0.21, T:0.06
Consensus pattern (26 bp):
AAAAGAAAAAGAAAAACAAGACTGAC
Found at i:18154900 original size:19 final size:19
Alignment explanation
Indices: 18154876--18154932 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
18154866 ATGCACGTCC
18154876 AAATGCATGTCTCTCCATT
1 AAATGCATGTCTCTCCATT
18154895 AAATGCA-G----TCCATT
1 AAATGCATGTCTCTCCATT
*
18154909 -GA-GCATGTCTCTCCATT
1 AAATGCATGTCTCTCCATT
18154926 AAATGCA
1 AAATGCA
18154933 GTCCATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
12 3 0.10
13 2 0.07
14 6 0.21
17 6 0.21
18 2 0.07
19 10 0.34
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (19 bp):
AAATGCATGTCTCTCCATT
Found at i:18154915 original size:31 final size:31
Alignment explanation
Indices: 18154880--18154941 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
18154870 ACGTCCAAAT
18154880 GCATGTCTCTCCATTAAATGCAGTCCATTGA
1 GCATGTCTCTCCATTAAATGCAGTCCATTGA
18154911 GCATGTCTCTCCATTAAATGCAGTCCATTGA
1 GCATGTCTCTCCATTAAATGCAGTCCATTGA
18154942 ATATACTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (31 bp):
GCATGTCTCTCCATTAAATGCAGTCCATTGA
Found at i:18160362 original size:27 final size:27
Alignment explanation
Indices: 18160330--18160381 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18160320 ACAAGTGAGG
18160330 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* * *
18160357 AAAAAGAGAATGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
18160382 ATGTGAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.25, T:0.06
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:18161652 original size:18 final size:18
Alignment explanation
Indices: 18161617--18161663 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
18161607 GTTGTAAAGT
*
18161617 TTTATTTTTATTTATTTA
1 TTTATTTTTACTTATTTA
18161635 TTTA-TTTTACTTAGTTTAA
1 TTTATTTTTACTTA-TTT-A
*
18161654 TTTTTTTTTA
1 TTTATTTTTA
18161664 AATATTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 4 0.17
20 5 0.21
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTATTTTTACTTATTTA
Found at i:18175564 original size:21 final size:22
Alignment explanation
Indices: 18175538--18175578 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18175528 TTTTTCCACT
*
18175538 ATTTCTTTTTC-CTCTCTTTCA
1 ATTTCTTTTTCAATCTCTTTCA
18175559 ATTTCTTTTTCAATCTCTTT
1 ATTTCTTTTTCAATCTCTTT
18175579 TTGCTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTCTTTTTCAATCTCTTTCA
Found at i:18180350 original size:45 final size:46
Alignment explanation
Indices: 18180295--18180387 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 46
18180285 CAAAGAAAAG
* *
18180295 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTAGTATATGATGA
1 ACCTCGACCCACTACCAATG-ACGATAGGAACCTTAGTATATGATGA
* *
18180341 ACCTC-ACCCACTACCAATGACGATAGGATCCTTGGTATATGATGA
1 ACCTCGACCCACTACCAATGACGATAGGAACCTTAGTATATGATGA
18180386 AC
1 AC
18180388 GCCACACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 36 0.86
46 6 0.14
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTACCAATGACGATAGGAACCTTAGTATATGATGA
Found at i:18184514 original size:46 final size:46
Alignment explanation
Indices: 18184462--18184554 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
18184452 CAAAGAAAAG
18184462 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
*
18184508 ACCTCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
18184554 A
1 A
18184555 TGCCACACTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:18186439 original size:22 final size:22
Alignment explanation
Indices: 18186408--18186472 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
18186398 ACCTTTTTGA
*
18186408 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
18186431 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
18186453 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
18186473 TTCCTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:18192665 original size:22 final size:22
Alignment explanation
Indices: 18192610--18192677 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
18192600 CATCTTTTTA
*
18192610 TTTTCTCACTTTCTTTTCAT-TTT
1 TTTTCTCAATTT-TTTT-ATCTTT
*
18192633 CTTTTGT-AATTTTTTTATCTTT
1 -TTTTCTCAATTTTTTTATCTTT
18192655 TTTTCTCAATTTTCTTT-TCTTT
1 TTTTCTCAATTTT-TTTATCTTT
18192677 T
1 T
18192678 GGATTTTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 7 0.18
22 19 0.50
23 7 0.18
24 5 0.13
ACGTcount: A:0.10, C:0.16, G:0.01, T:0.72
Consensus pattern (22 bp):
TTTTCTCAATTTTTTTATCTTT
Found at i:18194788 original size:16 final size:16
Alignment explanation
Indices: 18194752--18194791 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18194742 CTTTTTTTTG
18194752 TTTTTTTAAATCACAA
1 TTTTTTTAAATCACAA
*
18194768 ATTTTTTAAATCAC--
1 TTTTTTTAAATCACAA
18194782 TTTTTTTAAA
1 TTTTTTTAAA
18194792 AATTTCGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTTTAAATCACAA
Found at i:18197597 original size:20 final size:20
Alignment explanation
Indices: 18197583--18197641 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
18197573 ATGAGCTTAA
*
18197583 TTGAGCTCGTGTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
*
18197603 TTGAGCTCGAATGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
18197623 TTGAGCTCGAGTGAGCTGA
1 TTGAGCTCGAGTGAGCTGA
18197642 ACCGCATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:18199583 original size:7 final size:6
Alignment explanation
Indices: 18199563--18199616 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
18199553 TCACTTGCAC
* * * **
18199563 TTTCTT TTTCTT TTTCGT TTTCTA TTTCCT TTTCAC TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
18199611 TTTCTT
1 TTTCTT
18199617 CCTCTTCGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:18199584 original size:18 final size:18
Alignment explanation
Indices: 18199545--18199614 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
18199535 CTTTTTTCGA
** *
18199545 TTTCTTTTTCACTTGCAC
1 TTTCTTTTTCTTTTTCAC
**
18199563 TTTCTTTTTCTTTTTCGT
1 TTTCTTTTTCTTTTTCAC
* *
18199581 TTTCTATTTCCTTTTCAC
1 TTTCTTTTTCTTTTTCAC
18199599 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
18199615 TTCCTCTTCG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.06, C:0.23, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCAC
Found at i:18199585 original size:36 final size:36
Alignment explanation
Indices: 18199537--18199614 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
18199527 TTCTCTCACT
*
18199537 TTTTTCGATTTCTTTTTCAC-TTGCACTTTCTTTTTC
1 TTTTTCGATTTCTATTTC-CTTTGCACTTTCTTTTTC
* *
18199573 TTTTTCGTTTTCTATTTCCTTTTCACTTTCTTTTTC
1 TTTTTCGATTTCTATTTCCTTTGCACTTTCTTTTTC
18199609 TTTTTC
1 TTTTTC
18199615 TTCCTCTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.06, C:0.22, G:0.04, T:0.68
Consensus pattern (36 bp):
TTTTTCGATTTCTATTTCCTTTGCACTTTCTTTTTC
Found at i:18200402 original size:24 final size:24
Alignment explanation
Indices: 18200374--18200419 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18200364 GTCTTTGCTA
* *
18200374 AAGCAAGCCTAGACAGCATTAAAG
1 AAGCAAGCATAGACAACATTAAAG
*
18200398 AAGCAAGCATGGACAACATTAA
1 AAGCAAGCATAGACAACATTAA
18200420 TGGAGCTGCT
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:0.48, C:0.20, G:0.20, T:0.13
Consensus pattern (24 bp):
AAGCAAGCATAGACAACATTAAAG
Found at i:18201760 original size:14 final size:14
Alignment explanation
Indices: 18201743--18201779 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
18201733 GAAAAAAAAT
*
18201743 AAAAAAAAGTGAGC
1 AAAAAAAAGTGAGA
*
18201757 AAAAAAAATTGAGA
1 AAAAAAAAGTGAGA
18201771 AAAAAAAAG
1 AAAAAAAAG
18201780 AGTTGAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.73, C:0.03, G:0.16, T:0.08
Consensus pattern (14 bp):
AAAAAAAAGTGAGA
Found at i:18202735 original size:15 final size:15
Alignment explanation
Indices: 18202711--18202746 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18202701 ATTGAGAGAC
18202711 GAAA-AAAAAGAAAT
1 GAAAGAAAAAGAAAT
18202725 GAAAGAAAAAGAAAT
1 GAAAGAAAAAGAAAT
*
18202740 CAAAGAA
1 GAAAGAA
18202747 GTGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (15 bp):
GAAAGAAAAAGAAAT
Found at i:18202770 original size:24 final size:24
Alignment explanation
Indices: 18202717--18202762 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18202707 AGACGAAAAA
18202717 AAAGAAATGAAAGAAAAAGAAATC
1 AAAGAAATGAAAGAAAAAGAAATC
* *
18202741 AAAGAAGTGAGAGAAAAAGAAA
1 AAAGAAATGAAAGAAAAAGAAA
18202763 ATGAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.07
Consensus pattern (24 bp):
AAAGAAATGAAAGAAAAAGAAATC
Found at i:18202789 original size:18 final size:18
Alignment explanation
Indices: 18202766--18202808 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18202756 AAAGAAAATG
18202766 AAGAAA-AGAGAATTGAAA
1 AAGAAATAGAG-ATTGAAA
* *
18202784 AAGAAATTGAGATTGAGA
1 AAGAAATAGAGATTGAAA
18202802 AAGAAAT
1 AAGAAAT
18202809 TGAAAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.16
Consensus pattern (18 bp):
AAGAAATAGAGATTGAAA
Found at i:18202809 original size:18 final size:18
Alignment explanation
Indices: 18202777--18202811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18202767 AGAAAAGAGA
18202777 ATTGAAAAAGAAATTGAG
1 ATTGAAAAAGAAATTGAG
*
18202795 ATTGAGAAAGAAATTGA
1 ATTGAAAAAGAAATTGA
18202812 AAAAGAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
ATTGAAAAAGAAATTGAG
Found at i:18217271 original size:20 final size:19
Alignment explanation
Indices: 18217216--18217260 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18217206 CATTTCATTG
*
18217216 AGCTCCAATTAGCTCATTTTC
1 AGCTCC-ATGAGCTCA-TTTC
*
18217237 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
18217256 AGCTC
1 AGCTC
18217261 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 7 0.32
21 6 0.27
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.33
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:18220801 original size:22 final size:23
Alignment explanation
Indices: 18220756--18220801 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18220746 AAATTCTACT
* *
18220756 AGTAAAAATGCAGACAAGTTGCC
1 AGTAAAAATGCAGACAAATCGCC
*
18220779 AGTAAAAATGC-GATAAATCGCC
1 AGTAAAAATGCAGACAAATCGCC
18220801 A
1 A
18220802 TTCTGCTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (23 bp):
AGTAAAAATGCAGACAAATCGCC
Found at i:18224909 original size:22 final size:22
Alignment explanation
Indices: 18224884--18224934 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
18224874 TTTGGCACGT
18224884 AATGGTTTAAGTTTAAGTACGA
1 AATGGTTTAAGTTTAAGTACGA
** *
18224906 AATGGTTTTTGGTTTAGGTACGA
1 AATGG-TTTAAGTTTAAGTACGA
18224929 AATGGT
1 AATGGT
18224935 ATGGTTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.39
Consensus pattern (22 bp):
AATGGTTTAAGTTTAAGTACGA
Found at i:18231181 original size:18 final size:17
Alignment explanation
Indices: 18231139--18231456 Score: 138
Period size: 17 Copynumber: 17.6 Consensus size: 17
18231129 ACGAGGATTT
18231139 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
18231156 TTTATGAAACACGGTCAA
1 TTTTTGAAACAC-GAAAA
*
18231174 TTTTTGAAAACACAAAAA
1 TTTTTG-AAACACGAAAA
* * *
18231192 TTTTTGAAAGATGAGAATTT
1 TTTTTGAAACACGA-AA--A
*
18231212 TTTTTAAAACACGAAAA
1 TTTTTGAAACACGAAAA
* * *
18231229 TTTATGAAACATGGAAATCT
1 TTTTTGAAACA-CGAAA--A
*
18231249 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* * *
18231267 TTTTCGAAATACGAGAA
1 TTTTTGAAACACGAAAA
* * *
18231284 TTTTAGAAAAACGGGAAA
1 TTTTTGAAACAC-GAAAA
18231302 -TTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
18231319 TTTTGGAAACAC-AGGAA
1 TTTTTGAAACACGA-AAA
** *
18231336 TTTTAAAAACACGAAGAT
1 TTTTTGAAACACGAA-AA
* * *
18231354 TTTTTGAAGCATGAGAA
1 TTTTTGAAACACGAAAA
**
18231371 TTTTTGAAAACACGAATTT
1 TTTTTG-AAACACGAA-AA
* * *
18231390 TTTTTAAAAAACAAGGAAA
1 TTTTT--GAAACACGAAAA
*
18231409 TTTTTGAAGCACGAGAAA
1 TTTTTGAAACACGA-AAA
18231427 TTTTTTGAAAACACG-AAA
1 -TTTTTG-AAACACGAAAA
18231445 TCTTTTGAAACA
1 T-TTTTGAAACA
18231457 TGATTTTTTT
Statistics
Matches: 218, Mismatches: 60, Indels: 46
0.67 0.19 0.14
Matches are distributed among these distances:
16 1 0.00
17 87 0.40
18 68 0.31
19 24 0.11
20 33 0.15
21 5 0.02
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:18231185 original size:36 final size:36
Alignment explanation
Indices: 18231124--18231444 Score: 157
Period size: 37 Copynumber: 8.8 Consensus size: 36
18231114 GATAAAAAAC
*
18231124 GAAACACGAGGATTTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGA-GA-ATTTTTTGAAAACACGAAAATTTAT
* *
18231161 GAAACACG-GTCAA-TTTTTGAAAACACAAAAATTTTT
1 GAAACACGAG--AATTTTTTGAAAACACGAAAATTTAT
* * *
18231197 GAAAGATGAGAATTTTTTTTAAAACACGAAAATTTAT
1 GAAACACGAGAA-TTTTTTGAAAACACGAAAATTTAT
* *
18231234 GAAACATG-GAAATCTTTTTTGAAAACAAGAAAATTT-T
1 GAAACACGAG-AA--TTTTTTGAAAACACGAAAATTTAT
* * *
18231271 CGAAATACGAGAA-TTTTAGAAAA-ACGGGAAATTT-T
1 -GAAACACGAGAATTTTTTGAAAACAC-GAAAATTTAT
* * * *
18231306 GAAAACACGA-AA-ATTTTGGAAACACAGGAATTTTA-
1 G-AAACACGAGAATTTTTTGAAAACAC-GAAAATTTAT
* * * * *
18231341 AAAACACGA-AGATTTTTTG-AAGCATGAGAATTTTT
1 GAAACACGAGA-ATTTTTTGAAAACACGAAAATTTAT
* * * * *
18231376 GAAAACACGA-ATTTTTTTTAAAAAACAAGGAAATTTTT
1 G-AAACACGAGA-ATTTTTT-GAAAACACGAAAATTTAT
*
18231414 GAAGCACGAGAAATTTTTTGAAAACACGAAA
1 GAAACACGAG-AATTTTTTGAAAACACGAAA
18231445 TCTTTTGAAA
Statistics
Matches: 218, Mismatches: 44, Indels: 44
0.71 0.14 0.14
Matches are distributed among these distances:
34 25 0.11
35 47 0.22
36 41 0.19
37 56 0.26
38 47 0.22
39 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (36 bp):
GAAACACGAGAATTTTTTGAAAACACGAAAATTTAT
Found at i:18231222 original size:73 final size:73
Alignment explanation
Indices: 18231123--18231287 Score: 208
Period size: 73 Copynumber: 2.2 Consensus size: 73
18231113 TGATAAAAAA
* * *
18231123 CGAAACACGAGGATTTTTTTTGAAACACGAAAATTTATGAAACACGG-TCAATTTTTGAAAACAC
1 CGAAAGACGAGAATTTTTTTTAAAACACGAAAATTTATGAAACACGGATC-ATTTTTGAAAACA-
18231187 A-AAAATTTT
64 AGAAAATTTT
* * * *
18231196 TGAAAGATGAGAATTTTTTTTAAAACACGAAAATTTATGAAACATGGAAATCTTTTTTGAAAACA
1 CGAAAGACGAGAATTTTTTTTAAAACACGAAAATTTATGAAACACGG--ATCATTTTTGAAAACA
18231261 AGAAAATTTT
64 AGAAAATTTT
*
18231271 CGAAATACGAGAATTTT
1 CGAAAGACGAGAATTTT
18231288 AGAAAAACGG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
73 41 0.53
74 1 0.01
75 34 0.44
76 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (73 bp):
CGAAAGACGAGAATTTTTTTTAAAACACGAAAATTTATGAAACACGGATCATTTTTGAAAACAAG
AAAATTTT
Found at i:18231450 original size:19 final size:18
Alignment explanation
Indices: 18231138--18231454 Score: 110
Period size: 18 Copynumber: 17.6 Consensus size: 18
18231128 CACGAGGATT
18231138 TTTTTTG-AAACACGAAA
1 TTTTTTGAAAACACGAAA
* * *
18231155 ATTTATG-AAACACGGTCAA
1 TTTTTTGAAAACAC-G-AAA
*
18231174 -TTTTTGAAAACACAAAA
1 TTTTTTGAAAACACGAAA
* * *
18231191 ATTTTTGAAAGATGA-GAAT
1 TTTTTTGAAA-A-CACGAAA
*
18231210 TTTTTTTAAAACACGAAA
1 TTTTTTGAAAACACGAAA
* * *
18231228 ATTTATG-AAACATGGAAA
1 TTTTTTGAAAACA-CGAAA
*
18231246 TCTTTTTTGAAAACAAGAAA
1 --TTTTTTGAAAACACGAAA
* * *
18231266 ATTTTCG-AAATACGAGAA
1 TTTTTTGAAAACACGA-AA
*
18231284 -TTTTAGAAAA-ACGGGAAA
1 TTTTTTGAAAACAC--GAAA
18231302 --TTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
* * *
18231318 -ATTTTGGAAACACAGGAA
1 TTTTTTGAAAACAC-GAAA
*
18231336 --TTTTAAAAACACGAAGA
1 TTTTTTGAAAACACGAA-A
* *
18231353 TTTTTTG-AAGCATGAGAA
1 TTTTTTGAAAACACGA-AA
*
18231371 -TTTTTGAAAACACGAATT
1 TTTTTTGAAAACACGAA-A
* *
18231389 TTTTTTAAAAAACAAGGAAA
1 TTTTTT-GAAAAC-ACGAAA
*
18231409 -TTTTTG-AAGCACGAGAAA
1 TTTTTTGAAAACAC--GAAA
18231427 TTTTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
*
18231445 TCTTTTGAAA
1 TTTTTTGAAA
18231455 CATGATTTTT
Statistics
Matches: 224, Mismatches: 45, Indels: 61
0.68 0.14 0.18
Matches are distributed among these distances:
16 7 0.03
17 72 0.32
18 74 0.33
19 42 0.19
20 20 0.09
21 9 0.04
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (18 bp):
TTTTTTGAAAACACGAAA
Found at i:18231592 original size:15 final size:16
Alignment explanation
Indices: 18231576--18231607 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18231566 TGATTCTATT
18231576 AAAACACGAGAATTTAA
1 AAAACACGAGAATTT-A
18231593 AAAACACGAGAATTT
1 AAAACACGAGAATTT
18231608 TAGAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAACACGAGAATTTA
Done.