Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 90 of 120
Found at i:26771367 original size:64 final size:64
Alignment explanation
Indices: 26771263--26771391 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
26771253 GCAAGAAGCG
26771263 TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGTGAGTGAGAAAGAAGGAATAATGAACAAT
1 TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGTGAGTGAGAAAGAAGGAATAATGAACAAT
* * *
26771327 TAAGACTATTGCAGGGGTTGTGCGCGTCAGTTCT-TCGAGTGAGAAGGAAGGAATAATTAACAAT
1 TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGT-GAGTGAGAAAGAAGGAATAATGAACAAT
26771391 T
1 T
26771392 GTAGCTATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 60 0.98
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (64 bp):
TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGTGAGTGAGAAAGAAGGAATAATGAACAAT
Found at i:26772440 original size:140 final size:140
Alignment explanation
Indices: 26772188--26772452 Score: 521
Period size: 140 Copynumber: 1.9 Consensus size: 140
26772178 GGGTAGATAT
26772188 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
1 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
*
26772253 GGAAGAACTCTTCAGATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCCTTTTG
66 GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCCTTTTG
26772318 CTGCGAATGA
131 CTGCGAATGA
26772328 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
1 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
26772393 GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCC
66 GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCC
26772453 CTTCTAATAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (140 bp):
GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCCTTTTG
CTGCGAATGA
Found at i:26772814 original size:58 final size:58
Alignment explanation
Indices: 26772719--26772942 Score: 256
Period size: 58 Copynumber: 3.9 Consensus size: 58
26772709 TGTTAGCTGA
* *
26772719 GGATATGAATCTGTGAGCTATTTTATACTTGTAAAAATTTTGAAAGATAATCAACTGG
1 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAACTGG
* *
26772777 GGATGTGAATCCGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAATTGG
1 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAACTGG
* * ** * * * *
26772835 GGATGTGAATTTGAGAAATGTTTTATACTTGTGAAAACTTTGAAACATAA-CATATCT-A
1 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCA-A-CTGG
* * * *
26772893 AGAGTTTGAATCTGCGAGCTGTTTTATACTTGTGAAAATTTTGAAA-ATAA
1 GGA-TGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAA
26772943 CATAGCTGAG
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.01
58 103 0.73
59 37 0.26
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (58 bp):
GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAACTGG
Found at i:26773281 original size:69 final size:69
Alignment explanation
Indices: 26773005--26773290 Score: 236
Period size: 69 Copynumber: 4.1 Consensus size: 69
26772995 ATCCTGCCAA
* ** * * *
26773005 CCTTAGTATGACAGTTGGGAGTTTTACTCTCTTTAATTGTGTTAGAGGTTGCGACTCTTTGCCTA
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGCGACTCTTCGCCTA
26773070 CGAG
66 CGAG
* * * * * * * *
26773074 CCTAAATATGATAGTTGGGAGTTTTACTCTCATTAACTGTGTTAGAGTCTGCTG-CCCTTCGCAT
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGC-GACTCTTCGCCT
*
26773138 GCGAG
65 ACGAG
* * * * * ** * * * * * *
26773143 CCTCAATATTACAGCTGGGAGCTCTGTTCTCGCCAACTGTGTTGGAGGTTGCGACTTTTCACCTA
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGCGACTCTTCGCCTA
26773208 CGAG
66 CGAG
* * *
26773212 CCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGT-TTTGAAGGCTGCGGCTCTTCG-CT
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAG-AGGCTGCGACTCTTCGCCT
*
26773275 CGCGAG
65 -ACGAG
26773281 CCTTAGTATG
1 CCTTAGTATG
26773291 GCATAAATGT
Statistics
Matches: 169, Mismatches: 44, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
68 6 0.04
69 162 0.96
70 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (69 bp):
CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGCGACTCTTCGCCTA
CGAG
Found at i:26782967 original size:5 final size:5
Alignment explanation
Indices: 26782957--26782985 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
26782947 GATAATGCAT
26782957 GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGA
26782986 GCAGACTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:26785129 original size:2 final size:2
Alignment explanation
Indices: 26785122--26785153 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26785112 GAGTTTCTAT
26785122 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
26785154 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:26786222 original size:2 final size:2
Alignment explanation
Indices: 26786215--26786260 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
26786205 AAGCTACCCC
* *
26786215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26786257 AT AT
1 AT AT
26786261 GAAATAAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26789061 original size:17 final size:17
Alignment explanation
Indices: 26789025--26789066 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
26789015 GTAAAGTATG
*
26789025 ATAAAAGAAAAGGGAAA
1 ATAAAAGAAAAGAGAAA
26789042 ATAAAAGAAAA-AGAATA
1 ATAAAAGAAAAGAGAA-A
26789059 ATATAAAG
1 ATA-AAAG
26789067 GGAAGAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (17 bp):
ATAAAAGAAAAGAGAAA
Found at i:26791318 original size:19 final size:22
Alignment explanation
Indices: 26791272--26791320 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
26791262 AAAAAGAACT
26791272 TATTTTCTGTTGACTTGTAAGTC
1 TATTTTCTGTTGAC-TGTAAGTC
26791295 T-TTTTCTGTTGA-T-TAAG-C
1 TATTTTCTGTTGACTGTAAGTC
26791313 TATTTTCT
1 TATTTTCT
26791321 ATGAAGCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.08
19 10 0.40
20 1 0.04
22 11 0.44
23 1 0.04
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.57
Consensus pattern (22 bp):
TATTTTCTGTTGACTGTAAGTC
Found at i:26791896 original size:23 final size:23
Alignment explanation
Indices: 26791870--26791917 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
26791860 ACCAATATAT
*
26791870 AAATCAAATC-TCTTAAGATTACA
1 AAATCAAATCTTC-TAAAATTACA
26791893 AAATCAAATCTTCTAAAATTACA
1 AAATCAAATCTTCTAAAATTACA
26791916 AA
1 AA
26791918 TCTTCCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATCAAATCTTCTAAAATTACA
Found at i:26793237 original size:25 final size:24
Alignment explanation
Indices: 26793194--26793246 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
26793184 AAGTTCAAGC
*
26793194 GAGCCATATCAGGAAGCTCATTAA
1 GAGCCATATCAGGAAGCTCATAAA
* *
26793218 GAGCCTATATCGGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
26793243 GAGC
1 GAGC
26793247 TATGGTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:26793332 original size:64 final size:64
Alignment explanation
Indices: 26793231--26793383 Score: 234
Period size: 64 Copynumber: 2.4 Consensus size: 64
26793221 CCTATATCGG
* * * *
26793231 GACGCTCATAAAGAGCTATGGTATGTCCACATTATATGCAAGATCCATACCAATCATATAACAA
1 GACGCTCACAAAGAGCTGTAGTATGTCCACATCATATGCAAGATCCATACCAATCATATAACAA
* * *
26793295 GACGCTCACAAAGAGCTGCAGTATGTCCACATCATATGCAAGATTCATACCAATCATATAACAG
1 GACGCTCACAAAGAGCTGTAGTATGTCCACATCATATGCAAGATCCATACCAATCATATAACAA
*
26793359 GATGCTCACAAAGAGCTGTAGTATG
1 GACGCTCACAAAGAGCTGTAGTATG
26793384 ATCGCAACAC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 80 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (64 bp):
GACGCTCACAAAGAGCTGTAGTATGTCCACATCATATGCAAGATCCATACCAATCATATAACAA
Found at i:26802961 original size:19 final size:19
Alignment explanation
Indices: 26802937--26802976 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
26802927 CCGTTAGTTA
26802937 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
26802956 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
26802975 AT
1 AT
26802977 TTGGATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (19 bp):
ATGTTAGTTAAGTCTGTTG
Found at i:26807431 original size:19 final size:19
Alignment explanation
Indices: 26807407--26807445 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26807397 TCGTTAGTTA
26807407 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
26807426 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
26807445 A
1 A
26807446 CTTGGATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (19 bp):
ATGTTAGTTAAGTCTGTTG
Found at i:26809087 original size:24 final size:24
Alignment explanation
Indices: 26809051--26809113 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
26809041 TGGTATAGGA
* * *
26809051 GTCAAAAATTGTATTTGCAGAAAT
1 GTCACAAACTGTATTTACAGAAAT
26809075 GT-AGCAAACTGTATTTACAGAAAT
1 GTCA-CAAACTGTATTTACAGAAAT
*
26809099 GTCACAAATTGTATT
1 GTCACAAACTGTATT
26809114 CTAGAATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (24 bp):
GTCACAAACTGTATTTACAGAAAT
Found at i:26809300 original size:54 final size:54
Alignment explanation
Indices: 26809234--26809603 Score: 372
Period size: 54 Copynumber: 6.9 Consensus size: 54
26809224 GTAGTCCTTA
* * ** *
26809234 AGATTC-TAAAAATCTTGTATGTAGAAGGTCGTGATCGTAAATCAGTGGACCATG
1 AGATTCGT-AAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* * *
26809288 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAACTTAACAGACCGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
** ** * * * *
26809342 AGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGTAGACCGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* * * *
26809396 AGATTTGTAAAATCTCGAAAGTAAAAGGTCGTGATCATAAATC-G-ACGAACCGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCA-G-ACCGTG
* * * * * *
26809450 AGATTTGTAAAATCTCGAAAATAGAAGGTC-TGATCATAAATCAACAGACTGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* * * **
26809503 AGATTCGTAAAATCTTAAAAATAGAAGGTCGTGATTGTAAATCAGCAGACCAAG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* *
26809557 AAATTCGTAAAAT-TTCAAAAGTAGAAGGTCGTGATCGTAAATCAGCA
1 AGATTCGTAAAATCTT-GAAAGTAGAAGGTCGTGATCGTAAATCAGCA
26809604 TAACAACCCA
Statistics
Matches: 267, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.00
53 48 0.18
54 216 0.81
55 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (54 bp):
AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
Found at i:26809424 original size:108 final size:108
Alignment explanation
Indices: 26809255--26809601 Score: 419
Period size: 108 Copynumber: 3.2 Consensus size: 108
26809245 ATCTTGTATG
* *
26809255 TAGAAGGTCGTGATCGTAAATCAGTGGACCATGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGT
1 TAGAAGGTCGTGATCGTAAATCAGTAGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGT
* * **
26809320 GATCGTAACTTAACAGACCGTGAGATTCACAAAATCTCAAAAA
66 GATCGTAAATCAACAGACCGTGAGATTCGTAAAATCTCAAAAA
* * * * *
26809363 TAAAAGGTCGTGATTGTAAATCAGTAGACCGTGAGATTTGTAAAATCTCGAAAGTAAAAGGTCGT
1 TAGAAGGTCGTGATCGTAAATCAGTAGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGT
* * * *
26809428 GATCATAAATCGAC-GAACCGTGAGATTTGTAAAATCTCGAAAA
66 GATCGTAAATCAACAG-ACCGTGAGATTCGTAAAATCTCAAAAA
* ** * * *
26809471 TAGAAGGTC-TGATCATAAATCAACAGACTGTGAGATTCGTAAAATCTTAAAAATAGAAGGTCGT
1 TAGAAGGTCGTGATCGTAAATCAGTAGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGT
* * ** * * *
26809535 GATTGTAAATCAGCAGACCAAGAAATTCGTAAAATTTCAAAAG
66 GATCGTAAATCAACAGACCGTGAGATTCGTAAAATCTCAAAAA
26809578 TAGAAGGTCGTGATCGTAAATCAG
1 TAGAAGGTCGTGATCGTAAATCAG
26809602 CATAACAACC
Statistics
Matches: 197, Mismatches: 39, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
107 85 0.43
108 112 0.57
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (108 bp):
TAGAAGGTCGTGATCGTAAATCAGTAGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGT
GATCGTAAATCAACAGACCGTGAGATTCGTAAAATCTCAAAAA
Found at i:26809540 original size:161 final size:162
Alignment explanation
Indices: 26809258--26809602 Score: 460
Period size: 161 Copynumber: 2.1 Consensus size: 162
26809248 TTGTATGTAG
* * * *
26809258 AAGGTCGTGATCGTAAATCAGTGGACCATGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGAT
1 AAGGTCGTGATCGTAAATCAGCGAACCATGAGATTCGTAAAATCTCGAAAATAGAAGGTCGTGAT
* * * *
26809323 CGTAACTTAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGT
66 CATAAATCAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGC
** * * *
26809388 AGACCGTGAGATTTGTAAAATCTCGAAAGTAA
131 AGACCAAGAAATTCGTAAAATCTCAAAAGTAA
* * *
26809420 AAGGTCGTGATCATAAATC-GACGAACCGTGAGATTTGTAAAATCTCGAAAATAGAAGGTC-TGA
1 AAGGTCGTGATCGTAAATCAG-CGAACCATGAGATTCGTAAAATCTCGAAAATAGAAGGTCGTGA
* ** * *
26809483 TCATAAATCAACAGACTGTGAGATTCGTAAAATCTTAAAAATAGAAGGTCGTGATTGTAAATCAG
65 TCATAAATCAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAG
* *
26809548 CAGACCAAGAAATTCGTAAAATTTCAAAAGTAG
130 CAGACCAAGAAATTCGTAAAATCTCAAAAGTAA
26809581 AAGGTCGTGATCGTAAATCAGC
1 AAGGTCGTGATCGTAAATCAGC
26809603 ATAACAACCC
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
161 105 0.67
162 52 0.33
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (162 bp):
AAGGTCGTGATCGTAAATCAGCGAACCATGAGATTCGTAAAATCTCGAAAATAGAAGGTCGTGAT
CATAAATCAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGC
AGACCAAGAAATTCGTAAAATCTCAAAAGTAA
Found at i:26827127 original size:87 final size:87
Alignment explanation
Indices: 26826981--26827159 Score: 313
Period size: 87 Copynumber: 2.1 Consensus size: 87
26826971 GGTGTGAACG
* *
26826981 GTGTGTTTCCGAGGGGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACGCAAT
1 GTGTGTTTCCGAGGAGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACCCAAT
26827046 TATGATTTGGGAAATAAAGGCA
66 TATGATTTGGGAAATAAAGGCA
* *
26827068 GTGTGTTTCCGAGGAGTGATCCAAGCAAGTCTTTTATGTTAATTTGTAGGTGTTTATTACCCATT
1 GTGTGTTTCCGAGGAGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACCCAAT
26827133 TATGATTTGGGAAATAAAGGCA
66 TATGATTTGGGAAATAAAGGCA
*
26827155 ATGTG
1 GTGTG
26827160 GTAGAACTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (87 bp):
GTGTGTTTCCGAGGAGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACCCAAT
TATGATTTGGGAAATAAAGGCA
Found at i:26828869 original size:114 final size:113
Alignment explanation
Indices: 26828690--26828921 Score: 437
Period size: 114 Copynumber: 2.0 Consensus size: 113
26828680 TTTCTCTCTT
*
26828690 TTTCCTTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
1 TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
26828755 ATTATCTTAATAATAAATAATTTAAATAAAAAAATATTCAACATCATAA
66 ATTATCTTAATAATAAATAATTTAAAT-AAAAAATATTCAACATCATAA
*
26828804 TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATTTCTTCATATTTCCTTAATA
1 TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
26828869 ATTATCTTAATAATAAATAATTTAAATAAAAAATATTCAACATCATAA
66 ATTATCTTAATAATAAATAATTTAAATAAAAAATATTCAACATCATAA
26828917 TTTCA
1 TTTCA
26828922 ATGTAAGGGC
Statistics
Matches: 116, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 26 0.22
114 90 0.78
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (113 bp):
TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
ATTATCTTAATAATAAATAATTTAAATAAAAAATATTCAACATCATAA
Found at i:26829914 original size:17 final size:17
Alignment explanation
Indices: 26829864--26829921 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
26829854 GGGTGAGAAG
*
26829864 TAAAAGTTTAGAGGAAAAA
1 TAAAAGTTT-GAGG-GAAA
*
26829883 TAAAAAGTTT-TGGGAAA
1 T-AAAAGTTTGAGGGAAA
26829900 TAAAAGTTTGAGGGAAA
1 TAAAAGTTTGAGGGAAA
26829917 GTAAA
1 -TAAA
26829922 TAGGGGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.30
18 6 0.18
19 1 0.03
20 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTGAGGGAAA
Found at i:26830037 original size:30 final size:31
Alignment explanation
Indices: 26829998--26830057 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26829988 GGAGGTGAGA
*
26829998 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
26830029 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
26830058 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:26830227 original size:21 final size:21
Alignment explanation
Indices: 26830193--26830233 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26830183 GGAGGTAAGT
*
26830193 GGGAATAAGTAAAAGTTTTGA
1 GGGAATAAGTAAAAGGTTTGA
26830214 GGGAA-AAGTAAAAAGGTTTG
1 GGGAATAAGT-AAAAGGTTTG
26830234 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (21 bp):
GGGAATAAGTAAAAGGTTTGA
Found at i:26830285 original size:9 final size:9
Alignment explanation
Indices: 26830271--26830298 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26830261 TATAGTTTGA
26830271 TATTCGAAT
1 TATTCGAAT
26830280 TATTCGAAT
1 TATTCGAAT
26830289 TATTCGAAT
1 TATTCGAAT
26830298 T
1 T
26830299 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26830553 original size:29 final size:30
Alignment explanation
Indices: 26830489--26830599 Score: 100
Period size: 31 Copynumber: 3.7 Consensus size: 30
26830479 ATATCAAAAT
* * *
26830489 TATACAT-AAACTTTGATTTAATGTGCAGTTG
1 TATACATGAAACTTTAATTT--GGTGCAATTG
*
26830520 TATACATG-AACTTTAATTTGGTGCAATTA
1 TATACATGAAACTTTAATTTGGTGCAATTG
* * * *
26830549 TATACGTGAAACTCTAATTGTGGTTCAAATG
1 TATACATGAAACTTTAATT-TGGTGCAATTG
*
26830580 TATACTTGAAACTTTAATTT
1 TATACATGAAACTTTAATTT
26830600 TGATTTAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 14 0.21
30 10 0.15
31 42 0.64
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
TATACATGAAACTTTAATTTGGTGCAATTG
Found at i:26831510 original size:26 final size:26
Alignment explanation
Indices: 26831481--26831530 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
26831471 GTTACGGTAG
*
26831481 ATTTCAACCTATTTTTGTAATTAATA
1 ATTTCAACATATTTTTGTAATTAATA
** *
26831507 ATTTTTATATATTTTTGTAATTAA
1 ATTTCAACATATTTTTGTAATTAA
26831531 CTTTTTGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTTCAACATATTTTTGTAATTAATA
Found at i:26835075 original size:30 final size:29
Alignment explanation
Indices: 26835041--26835132 Score: 92
Period size: 30 Copynumber: 3.4 Consensus size: 29
26835031 AATTTTAAAA
*
26835041 TTTTAAAAATTCAGAAA-CATATAAAATTAT
1 TTTTAAAAATT-AAAAATCAT-TAAAATTAT
26835071 TTTTAAAAATTAAAAATCATTAAAATTA-
1 TTTTAAAAATTAAAAATCATTAAAATTAT
*
26835099 -TTTAAAAA-T--AAA-CATTATAATT-T
1 TTTTAAAAATTAAAAATCATTAAAATTAT
26835122 TTTTAAAAATT
1 TTTTAAAAATT
26835133 TTTAAATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
23 9 0.16
24 11 0.20
25 1 0.02
26 1 0.02
27 8 0.14
29 12 0.21
30 14 0.25
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATTAAAAATCATTAAAATTAT
Found at i:26835078 original size:29 final size:29
Alignment explanation
Indices: 26835040--26835106 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
26835030 TAATTTTAAA
*
26835040 ATTTT-AAAAATTCAGAAA-CATATAAAATT
1 ATTTTAAAAAATT-AAAAATCAT-TAAAATT
*
26835069 ATTTTTAAAAATTAAAAATCATTAAAATT
1 ATTTTAAAAAATTAAAAATCATTAAAATT
26835098 A-TTTAAAAA
1 ATTTTAAAAA
26835107 TAAACATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 7 0.21
29 17 0.50
30 10 0.29
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (29 bp):
ATTTTAAAAAATTAAAAATCATTAAAATT
Found at i:26835114 original size:23 final size:24
Alignment explanation
Indices: 26835055--26835131 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 24
26835045 AAAAATTCAG
26835055 AAACATATAAAATTATTTTTAAAAATTAA
1 AAACAT-TAAAATTA--TTTAAAAA-T-A
26835084 AAATCATTAAAATTATTTAAAAAT-
1 AAA-CATTAAAATTATTTAAAAATA
* *
26835108 AAACATTATAATTTTTTTAAAAAT
1 AAACATTA-AAATTATTTAAAAAT
26835132 TTTTAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
23 5 0.11
24 16 0.36
26 1 0.02
27 8 0.18
29 11 0.25
30 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AAACATTAAAATTATTTAAAAATA
Found at i:26835811 original size:33 final size:32
Alignment explanation
Indices: 26835774--26835840 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
26835764 TAAAGTAGAC
*
26835774 ATATGCTAATGACATTTAAATATTA-AAAATTAT
1 ATATGCTAAT-ACA-ATAAATATTATAAAATTAT
* *
26835807 ATATGGTAATACAATAAATTTTATAAAATTAT
1 ATATGCTAATACAATAAATATTATAAAATTAT
26835839 AT
1 AT
26835841 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.27
32 13 0.43
33 9 0.30
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (32 bp):
ATATGCTAATACAATAAATATTATAAAATTAT
Found at i:26836133 original size:12 final size:13
Alignment explanation
Indices: 26836103--26836143 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
26836093 CAGAGCCCTA
26836103 AACCATGAACT-TCG
1 AACC-TGAACTCT-G
26836117 AACCTGAAC-CTG
1 AACCTGAACTCTG
26836129 AACCTGAACTCTG
1 AACCTGAACTCTG
26836142 AA
1 AA
26836144 TTCAGGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 10 0.40
13 11 0.44
14 4 0.16
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (13 bp):
AACCTGAACTCTG
Found at i:26848781 original size:22 final size:22
Alignment explanation
Indices: 26848756--26848797 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
26848746 AATATAATAG
*
26848756 CAAAATGGCAACAAAACAACAT
1 CAAAATGACAACAAAACAACAT
* *
26848778 CAAATTGACAGCAAAACAAC
1 CAAAATGACAACAAAACAAC
26848798 GACAGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.24, G:0.10, T:0.10
Consensus pattern (22 bp):
CAAAATGACAACAAAACAACAT
Found at i:26853680 original size:19 final size:19
Alignment explanation
Indices: 26853634--26853780 Score: 104
Period size: 19 Copynumber: 7.4 Consensus size: 19
26853624 TTGGATTAGT
*
26853634 ATTTTGTATGAATATTCTA
1 ATTTTGTATGAATATTGTA
26853653 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
26853674 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
26853693 ATTATTTTAT-AATTAATTTCGT-
1 ATT-TTGTATGAA-T-A-TT-GTA
* * *
26853715 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
*
26853735 ATTTTGTATGAATTTTGTA
1 ATTTTGTATGAATATTGTA
*
26853754 ATTTTGTATGAATATTGGA
1 ATTTTGTATGAATATTGTA
*
26853773 ATATTGTA
1 ATTTTGTA
26853781 ATCTTTTGTA
Statistics
Matches: 103, Mismatches: 12, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.05
18 4 0.04
19 49 0.48
20 12 0.12
21 21 0.20
22 6 0.06
23 2 0.02
24 3 0.03
25 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.54
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:26853728 original size:101 final size:106
Alignment explanation
Indices: 26853616--26853807 Score: 297
Period size: 101 Copynumber: 1.8 Consensus size: 106
26853606 ATATTTAGTG
26853616 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTT-T-TG-TA-T-GAATATTGTAA-
1 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTGTATGATATTGGAATATTGTAAC
26853675 TTTTGTATGAATATTGTAATTATTTTATAATTAATTTCGTA
66 TTTTGTATGAATATTGTAATTATTTTATAATTAATTTCGTA
* *
26853716 TTTATAGTTTTGGATTAGTATTTTGTATGAATTTTGTAATTTTGTATGAATATTGGAATATTGTA
1 TTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTGTATG-ATATTGGAATATTGTA
26853781 ATCTTTTGTATGAATATTGTAATTATT
64 A-CTTTTGTATGAATATTGTAATTATT
26853808 AATTGTTAGT
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
100 7 0.09
101 33 0.41
102 1 0.01
103 2 0.02
105 2 0.02
106 1 0.01
107 11 0.14
109 24 0.30
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (106 bp):
TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTGTATGATATTGGAATATTGTAAC
TTTTGTATGAATATTGTAATTATTTTATAATTAATTTCGTA
Found at i:26853809 original size:101 final size:98
Alignment explanation
Indices: 26853598--26853811 Score: 234
Period size: 101 Copynumber: 2.1 Consensus size: 98
26853588 ATTAATTATA
*
26853598 AATTATTTATATTTAGTGTTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTA
1 AATTA-TTA-ATTTAGTATTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAA-TTTTTGTA
* * *
26853663 TGAATATTGTAATTTTGTATGAATATTGTAATTATTT
63 TGAATATTGGAATATTGTAT-AATATTGTAAATATTT
* * * * *
26853700 TATAATTAATTTCGTATTTATAGTTTTGGATTAGTATTTTGTATGAATTTTGTAA-TTTTGTATG
1 AATTATTAATTTAGTATTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATG
* *
26853764 AATATTGGAATATTGTA-ATCTTTTGTATGAATATTGT
65 AATATTGGAATATTGTATA-ATATTGTA--AATATT-T
26853801 AATTATTAATT
1 AATTATTAATT
26853812 GTTAGTAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
97 1 0.01
98 6 0.06
99 24 0.26
100 18 0.19
101 42 0.45
102 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (98 bp):
AATTATTAATTTAGTATTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGA
ATATTGGAATATTGTATAATATTGTAAATATTT
Found at i:26856294 original size:26 final size:26
Alignment explanation
Indices: 26856261--26856312 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26856251 GTAATTAAGT
26856261 ACATATTAATTTCTACCCGATTGAGA
1 ACATATTAATTTCTACCCGATTGAGA
26856287 ACATATTAATTTCTACCCGATTGAGA
1 ACATATTAATTTCTACCCGATTGAGA
26856313 CGATTGTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
ACATATTAATTTCTACCCGATTGAGA
Found at i:26859336 original size:27 final size:27
Alignment explanation
Indices: 26859306--26859366 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
26859296 TCAACATGAC
*
26859306 ACCACTAATGGCGCCTCTCATATAGGT
1 ACCACTAATGGCGCCTCTCAGATAGGT
* * *
26859333 ACCACCATTGGCGCCTCTGAGATAGGT
1 ACCACTAATGGCGCCTCTCAGATAGGT
*
26859360 GCCACTA
1 ACCACTA
26859367 CTATGTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (27 bp):
ACCACTAATGGCGCCTCTCAGATAGGT
Found at i:26860114 original size:11 final size:11
Alignment explanation
Indices: 26860098--26860123 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26860088 TTGACCCATA
26860098 TAATCGTTAAC
1 TAATCGTTAAC
26860109 TAATCGTTAAC
1 TAATCGTTAAC
26860120 TAAT
1 TAAT
26860124 GGAAGTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (11 bp):
TAATCGTTAAC
Found at i:26866998 original size:36 final size:36
Alignment explanation
Indices: 26866951--26867141 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
26866941 GCTAAGCTAC
*
26866951 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
26866987 CACTTATCACTTTTTCACTTGATCTGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
26867023 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
26867065 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
26867105 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
26867141 C
1 C
26867142 TAAAGCTACC
Statistics
Matches: 135, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
36 97 0.72
38 3 0.02
40 3 0.02
42 2 0.01
44 2 0.01
46 28 0.21
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:26867074 original size:46 final size:46
Alignment explanation
Indices: 26867023--26867173 Score: 205
Period size: 46 Copynumber: 3.5 Consensus size: 46
26867013 ATAAGTATAA
26867023 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
26867069 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
26867105 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
26867151 CACTTATCACTTTATCACTTGAT
1 CACTTATCACTTTTTCACTTGAT
26867174 TAGAAGTACT
Statistics
Matches: 90, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
36 28 0.31
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 50 0.56
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:26867080 original size:82 final size:82
Alignment explanation
Indices: 26866987--26867173 Score: 320
Period size: 82 Copynumber: 2.3 Consensus size: 82
26866977 ATAAGTATAG
* *
26866987 CACTTATCACTTTTTCACTTGATCTGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
26867052 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* * * *
26867069 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
26867134 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
26867151 CACTTATCACTTTATCACTTGAT
1 CACTTATCACTTTATCACTTGAT
26867174 TAGAAGTACT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 98 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:26867082 original size:118 final size:115
Alignment explanation
Indices: 26866908--26867136 Score: 386
Period size: 118 Copynumber: 2.0 Consensus size: 115
26866898 TACGTATGAT
26866908 CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
*
26866973 TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCTGATAAGTATAA
66 TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAA
* * *
26867023 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
*
26867088 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGT
63 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
26867137 GTAGCTAAAG
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 9 0.08
116 5 0.05
117 20 0.19
118 72 0.68
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (115 bp):
CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:26869769 original size:73 final size:73
Alignment explanation
Indices: 26869642--26869789 Score: 242
Period size: 73 Copynumber: 2.0 Consensus size: 73
26869632 CAGAGAATAT
* * *
26869642 TTACTATTCATGCATCTTTTCTTGCAGGGACTATTTACTGTTTACGCCATAGAATATTTCCTGTT
1 TTACTATTCATGCATCTTTTCTTGCAGGGAATATTTACTGCTTACGCCAGAGAATATTTCCTGTT
26869707 CACTTGTC
66 CACTTGTC
* **
26869715 TTACTATTCATGCGTCTTTTCTTGCAGGGAATATTTACTGCTTACGTTAGAGAATATTTCCTGTT
1 TTACTATTCATGCATCTTTTCTTGCAGGGAATATTTACTGCTTACGCCAGAGAATATTTCCTGTT
26869780 CACTTGTC
66 CACTTGTC
26869788 TT
1 TT
26869790 TTCTTGCATC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (73 bp):
TTACTATTCATGCATCTTTTCTTGCAGGGAATATTTACTGCTTACGCCAGAGAATATTTCCTGTT
CACTTGTC
Found at i:26884437 original size:11 final size:11
Alignment explanation
Indices: 26884421--26884447 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26884411 ACTATTGGGG
26884421 TCATTCACTCA
1 TCATTCACTCA
26884432 TCATTCACTCA
1 TCATTCACTCA
26884443 TCATT
1 TCATT
26884448 TCTTCTTCCA
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:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (11 bp):
TCATTCACTCA
Found at i:26888063 original size:19 final size:19
Alignment explanation
Indices: 26888039--26888189 Score: 257
Period size: 19 Copynumber: 7.8 Consensus size: 19
26888029 AATTTTTGAG
26888039 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
26888058 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
26888077 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26888096 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
26888117 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26888136 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
26888155 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26888174 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
26888190 ATATATGATT
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
19 105 0.85
21 19 0.15
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26888103 original size:59 final size:59
Alignment explanation
Indices: 26888040--26888196 Score: 277
Period size: 59 Copynumber: 2.7 Consensus size: 59
26888030 ATTTTTGAGG
*
26888040 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
26888099 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
26888158 ATAT--AATCTTAGATATGATATGCAATCTTAGA-AT-ATATG
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATG
26888197 ATTTTGTAAT
Statistics
Matches: 97, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
55 5 0.05
56 2 0.02
57 28 0.29
59 62 0.64
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:26888255 original size:37 final size:37
Alignment explanation
Indices: 26888205--26888279 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
26888195 TGATTTTGTA
26888205 ATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTC
1 ATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTC
26888242 ATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTC
1 ATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTC
26888279 A
1 A
26888280 GCCGTTGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.43
Consensus pattern (37 bp):
ATCTTAGAGATTTAATTTGTAGATACCCTTTAATCTC
Found at i:26895244 original size:133 final size:133
Alignment explanation
Indices: 26895085--26895567 Score: 774
Period size: 133 Copynumber: 3.6 Consensus size: 133
26895075 GTGGAGCAGG
26895085 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGCAGATTTTAC
1 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGCAGATTTTAC
26895150 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
26895215 AGA
131 AGA
*
26895218 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGCGGATTTTAC
1 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGCAGATTTTAC
* *
26895283 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGTAGCAGTGGAAT
66 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
26895348 AGA
131 AGA
* * *
26895351 TTAGAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGATGGCGGATTTTAC
1 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGCAGATTTTAC
* *
26895416 CTCCCTGTCGTTATAGTGGAGTACATTGAAGCTAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
26895481 AGA
131 AGA
* ** ** * * * *
26895484 TTGAAGATTTCAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGATGGCAGATTTT
1 TTAAAGATAGCAGATCTTGCCTTCCT--GCATTGACAGCGAAGCAGATCGAAGATGGCAGATTTT
26895546 ACCTCCCTGTGGTTATAGTGGA
64 ACCTCCCTGTGGTTATAGTGGA
26895568 AACATAATTT
Statistics
Matches: 326, Mismatches: 22, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
132 47 0.14
133 277 0.85
135 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (133 bp):
TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGCAGATTTTAC
CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
AGA
Found at i:26895607 original size:19 final size:19
Alignment explanation
Indices: 26895583--26895693 Score: 195
Period size: 19 Copynumber: 5.8 Consensus size: 19
26895573 AATTTTTGAG
26895583 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
26895602 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
26895621 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26895640 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
26895659 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26895678 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
26895694 ATATATGATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 86 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26897145 original size:98 final size:98
Alignment explanation
Indices: 26897024--26897219 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 98
26897014 TTTTAAAAAA
* * *
26897024 AAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGTCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
26897089 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGT
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGT
*
26897122 AAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
26897187 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGT
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGT
26897220 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
TAAATCTTGGATAAGTGGATGTTCTTTTAAAGT
Found at i:26902864 original size:19 final size:19
Alignment explanation
Indices: 26902815--26902888 Score: 80
Period size: 18 Copynumber: 3.9 Consensus size: 19
26902805 AAAATATAAC
*
26902815 AAAACTAAAGAAAAATCATT
1 AAAACTTAA-AAAAATCATT
*
26902835 AAAA-TTCAAAAAATCATT
1 AAAACTTAAAAAAATCATT
* *
26902853 AAAACTTAAAAAAATTATA
1 AAAACTTAAAAAAATCATT
*
26902872 AAAAC-TAAAAGAATCAT
1 AAAACTTAAAAAAATCAT
26902889 AATCTATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 24 0.52
19 18 0.39
20 4 0.09
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAACTTAAAAAAATCATT
Found at i:26902964 original size:18 final size:18
Alignment explanation
Indices: 26902913--26902956 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
26902903 ATTTGTGTGC
* *
26902913 AAAATTTTTTAAAAATTT
1 AAAAATTTTCAAAAATTT
*
26902931 AAAAATTTTCATAAATTT
1 AAAAATTTTCAAAAATTT
*
26902949 TAAAATTT
1 AAAAATTT
26902957 CGAAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAATTTTCAAAAATTT
Found at i:26903114 original size:18 final size:18
Alignment explanation
Indices: 26903091--26903139 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
26903081 TAAATATAGA
26903091 TTATAATTTTTTTTAGTT
1 TTATAATTTTTTTTAGTT
* *
26903109 TTATAA-TTTTCTAAGTT
1 TTATAATTTTTTTTAGTT
26903126 TTAGT-ATTTTTTTT
1 TTA-TAATTTTTTTT
26903140 TGGGATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (18 bp):
TTATAATTTTTTTTAGTT
Found at i:26912415 original size:20 final size:19
Alignment explanation
Indices: 26912380--26912418 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
26912370 GTTTATATTC
26912380 TTTACATTCCAGTACACTT
1 TTTACATTCCAGTACACTT
26912399 TTTACCATTACCA-TACACTT
1 TTTA-CATT-CCAGTACACTT
26912419 AATCAGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (19 bp):
TTTACATTCCAGTACACTT
Found at i:26918864 original size:50 final size:52
Alignment explanation
Indices: 26918810--26918934 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 52
26918800 TTCTGCATTT
* *
26918810 AATAAAGTTATGCATTATGTAACTTCTATGCTAG-TTAAGTATGCATCA-GA
1 AATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAGTATGCATCATGA
* ** * * *
26918860 AATAATGACATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTA
1 AATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAGTATGCATCATGA
* *
26918912 AATTAAGTCT-TGCATTAAGTAAC
1 AATAAAGT-TATGCATTATGTAAC
26918935 GCATTTAGTT
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
50 28 0.47
51 13 0.22
52 18 0.31
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (52 bp):
AATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAGTATGCATCATGA
Found at i:26921427 original size:21 final size:21
Alignment explanation
Indices: 26921376--26921428 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
26921366 TATATGGCTA
* *
26921376 GGCCATGTGCCTTAGGGACAT
1 GGCCATGTGGCTCAGGGACAT
26921397 GGCCATGTGGCTCAGGGACAT
1 GGCCATGTGGCTCAGGGACAT
*
26921418 GGCCGTGTGGC
1 GGCCATGTGGC
26921429 CAAACTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.25, G:0.40, T:0.21
Consensus pattern (21 bp):
GGCCATGTGGCTCAGGGACAT
Found at i:26923041 original size:36 final size:35
Alignment explanation
Indices: 26922950--26923108 Score: 103
Period size: 36 Copynumber: 4.6 Consensus size: 35
26922940 TTTTAGATAC
** * *
26922950 AAGACCATGGTTGGACCATGG-AAATGTT-TACAT
1 AAGACCATGGTTGGACCATGGCATTTTTTATACGT
* * * *
26922983 AATACCATAGGCTAGG-CTATGGCATTTTTTTATACGC
1 AAGACCAT-GG-TTGGACCATGGCA-TTTTTTATACGT
***
26923020 AAGACCATGGTTGGACCATGGCA-ACGTT-TACGT
1 AAGACCATGGTTGGACCATGGCATTTTTTATACGT
* * * * *
26923053 AAGACCATAGTTGGGCTATGGCAGTTTTTCAGACGT
1 AAGACCATGGTTGGACCATGGCA-TTTTTTATACGT
26923089 AAGACCATGGTTGGACCATG
1 AAGACCATGGTTGGACCATG
26923109 ACAGTGTATA
Statistics
Matches: 91, Mismatches: 26, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
33 31 0.34
34 9 0.10
35 8 0.09
36 33 0.36
37 10 0.11
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (35 bp):
AAGACCATGGTTGGACCATGGCATTTTTTATACGT
Found at i:26923058 original size:33 final size:33
Alignment explanation
Indices: 26923015--26923108 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
26923005 CATTTTTTTA
*
26923015 TACGCAAGACCATGGTTGGACCATGGCAACGTT
1 TACGTAAGACCATGGTTGGACCATGGCAACGTT
* * * ***
26923048 TACGTAAGACCATAGTTGGGCTATGGCAGTTTT
1 TACGTAAGACCATGGTTGGACCATGGCAACGTT
26923081 TCAGACGTAAGACCATGGTTGGACCATG
1 T---ACGTAAGACCATGGTTGGACCATG
26923109 ACAGTGTATA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 27 0.56
36 21 0.44
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (33 bp):
TACGTAAGACCATGGTTGGACCATGGCAACGTT
Found at i:26923108 original size:69 final size:70
Alignment explanation
Indices: 26922879--26923108 Score: 318
Period size: 70 Copynumber: 3.3 Consensus size: 70
26922869 TAAAAATGTA
* * *
26922879 CAAGACTATGGTTAGACCATGACAATGTTTACATAAGACCATAGGCTAGGCTATGGCAGTTTTTT
1 CAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTAGGCTATGGCAGTTTTTT
**
26922944 AGATA
66 AGACG
* * *
26922949 CAAGACCATGGTTGGACCATGGAAATGTTTACATAATACCATAGGCTAGGCTATGGCATTTTTTT
1 CAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTAGGCTATGGCAGTTTTTT
*
26923014 ATACG
66 AGACG
* * * * *
26923019 CAAGACCATGGTTGGACCATGGCAACGTTTACGTAAGACCATA-GTTGGGCTATGGCAGTTTTTC
1 CAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTAGGCTATGGCAGTTTTTT
26923083 AGACG
66 AGACG
*
26923088 TAAGACCATGGTTGGACCATG
1 CAAGACCATGGTTGGACCATG
26923109 ACAGTGTATA
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
69 41 0.29
70 100 0.71
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (70 bp):
CAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTAGGCTATGGCAGTTTTTT
AGACG
Found at i:26923347 original size:28 final size:29
Alignment explanation
Indices: 26923295--26923356 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
26923285 TTACAATGTT
26923295 CATCGAATATAAAAAAGGAAGGTTTCGAC
1 CATCGAATATAAAAAAGGAAGGTTTCGAC
* *
26923324 CATCGATTA-AAAAAAGGATA-GTTTCGAT
1 CATCGAATATAAAAAAGGA-AGGTTTCGAC
26923352 CATCG
1 CATCG
26923357 TTTAGCACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (29 bp):
CATCGAATATAAAAAAGGAAGGTTTCGAC
Found at i:26926612 original size:16 final size:17
Alignment explanation
Indices: 26926591--26926622 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26926581 TATATAATAA
26926591 AAGAAAGAAA-AGAAAT
1 AAGAAAGAAACAGAAAT
26926607 AAGAAAGAAACAGAAA
1 AAGAAAGAAACAGAAA
26926623 GCTTAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (17 bp):
AAGAAAGAAACAGAAAT
Found at i:26927561 original size:25 final size:24
Alignment explanation
Indices: 26927533--26927644 Score: 108
Period size: 25 Copynumber: 4.7 Consensus size: 24
26927523 GAACTTTAGC
26927533 GTGCTCTCTGATTATTAGCACGTTA
1 GTGCTCTCTG-TTATTAGCACGTTA
*
26927558 GTGCTCTCTGATTACTAGCACGTTA
1 GTGCTCTCTG-TTATTAGCACGTTA
* * *
26927583 GTGCTATCTG-T-TTAGCGCATCTA
1 GTGCTCTCTGTTATTAGCACGT-TA
*
26927606 -TGCTCTCTG-TA-TAGCACTTTA
1 GTGCTCTCTGTTATTAGCACGTTA
26927627 GTGCTCTCTGTTTATTAG
1 GTGCTCTCTG-TTATTAG
26927645 TGCATAATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.03
22 30 0.41
23 3 0.04
24 2 0.03
25 36 0.49
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (24 bp):
GTGCTCTCTGTTATTAGCACGTTA
Found at i:26932596 original size:16 final size:16
Alignment explanation
Indices: 26932575--26932605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26932565 TTCACTATTA
*
26932575 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
26932591 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26932606 ACATACATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:26937526 original size:18 final size:18
Alignment explanation
Indices: 26937503--26937539 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26937493 GGCGGCCCTA
*
26937503 GTGGATCACGCTTCTTTG
1 GTGGATCAAGCTTCTTTG
*
26937521 GTGGATCAAGTTTCTTTG
1 GTGGATCAAGCTTCTTTG
26937539 G
1 G
26937540 CTTTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.16, G:0.30, T:0.41
Consensus pattern (18 bp):
GTGGATCAAGCTTCTTTG
Found at i:26963753 original size:46 final size:45
Alignment explanation
Indices: 26963686--26963921 Score: 231
Period size: 46 Copynumber: 5.6 Consensus size: 45
26963676 TTTGAGTACT
* *
26963686 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
26963732 TCTGATCAAGTGAAAAAGTGATAAGT-G-A---TA--T--ATTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
26963768 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
26963804 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
26963850 TCTAATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
26963896 TCTGATCAAGTG-ACAAGTGGTAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
26963922 ATCATACGTA
Statistics
Matches: 164, Mismatches: 13, Indels: 27
0.80 0.06 0.13
Matches are distributed among these distances:
34 1 0.01
36 58 0.35
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 2 0.01
44 2 0.01
45 12 0.07
46 83 0.51
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:26963770 original size:36 final size:36
Alignment explanation
Indices: 26963727--26963830 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
26963717 CTTTAGCTAC
26963727 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
* *
26963763 ATTTATCTGATCAAGTGAAAAAGTGATAAGTGCTAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
*
26963799 ACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTG
26963831 TTAGCCTTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (36 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
Found at i:26966798 original size:19 final size:20
Alignment explanation
Indices: 26966770--26966821 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
26966760 AAATTTTAAT
26966770 AAAA-TATTTT-AAAATTTG
1 AAAATTATTTTGAAAATTTG
**
26966788 AAAATTATTTTGAATTTTTG
1 AAAATTATTTTGAAAATTTG
26966808 AAAATTATTTTGAA
1 AAAATTATTTTGAA
26966822 TTATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 4 0.13
19 6 0.20
20 20 0.67
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (20 bp):
AAAATTATTTTGAAAATTTG
Found at i:26966809 original size:20 final size:20
Alignment explanation
Indices: 26966784--26966823 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26966774 TATTTTAAAA
26966784 TTTGAAAATTATTTTGAATT
1 TTTGAAAATTATTTTGAATT
26966804 TTTGAAAATTATTTTGAATT
1 TTTGAAAATTATTTTGAATT
26966824 ATTTTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTGAAAATTATTTTGAATT
Found at i:26967550 original size:18 final size:19
Alignment explanation
Indices: 26967523--26967560 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
26967513 TTTTTAAATT
*
26967523 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
26967541 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
26967560 T
1 T
26967561 CTTTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:26968130 original size:12 final size:12
Alignment explanation
Indices: 26968115--26968144 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26968105 AATAATTAAA
26968115 TAAATTAGAAAT
1 TAAATTAGAAAT
*
26968127 TAAATTGGAAAT
1 TAAATTAGAAAT
26968139 TAAATT
1 TAAATT
26968145 CAGATTTTGT
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:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:26969411 original size:23 final size:23
Alignment explanation
Indices: 26969382--26969549 Score: 223
Period size: 23 Copynumber: 7.3 Consensus size: 23
26969372 ATAAGTGCCA
*
26969382 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
26969405 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
26969428 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
26969451 CACTGAAATATAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
26969474 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26969497 CACTGGA-ATGTAGCCGAAGCTAC
1 CACT-GATATGTAGCCGAAGCTAC
26969520 CACTGGA-ATGTAGCCGAAGCTAC
1 CACT-GATATGTAGCCGAAGCTAC
26969543 CACTGAT
1 CACTGAT
26969550 CAATAACACT
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
22 2 0.02
23 124 0.97
24 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:26969493 original size:69 final size:69
Alignment explanation
Indices: 26969382--26969549 Score: 273
Period size: 69 Copynumber: 2.4 Consensus size: 69
26969372 ATAAGTGCCA
* * *
26969382 CACTGATATGTAGTCGAAGCTACCACTGATATGTAGCTGTAGCTACCATTGAAATGTAGCCGAAG
1 CACTGAAATGTAGTCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAGCCGAAG
26969447 CTAC
66 CTAC
* *
26969451 CACTGAAATATAGTCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGGAATGTAGCCGAAG
1 CACTGAAATGTAGTCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAGCCGAAG
26969516 CTAC
66 CTAC
* *
26969520 CACTGGAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGTCGAAGCTACCACTGAT
26969550 CAATAACACT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 91 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (69 bp):
CACTGAAATGTAGTCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAGCCGAAG
CTAC
Found at i:26973557 original size:3 final size:3
Alignment explanation
Indices: 26973549--26973601 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
26973539 TATTTTAATG
* * *
26973549 TTA TTA TTA TTA TTG TTA TCA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26973597 -TA TTA
1 TTA TTA
26973602 ATATAATTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:26973975 original size:2 final size:2
Alignment explanation
Indices: 26973968--26974012 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
26973958 TTCCTACATA
26973968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26974010 AT A
1 AT A
26974013 CTCTCCATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26974509 original size:109 final size:109
Alignment explanation
Indices: 26974313--26974623 Score: 457
Period size: 109 Copynumber: 2.9 Consensus size: 109
26974303 AAGTTTTTCT
* * * * *
26974313 AAATGAGGCAATATTTAGGGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
*
26974378 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAATTCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAAATTCA
* *
26974422 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* *
26974487 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAGAAATTTCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAAATTCA
* *
26974531 AAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCG--G
1 AAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* * * *
26974593 TTTCTCGTTTAACCAATTAGCCAATTATCCT
66 TTTCTCGTTCAACCAAATAGCTAAATATCCT
26974624 CTTGAATTTT
Statistics
Matches: 184, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
106 27 0.15
108 25 0.14
109 132 0.72
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
TTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAAATTCA
Found at i:26975629 original size:25 final size:26
Alignment explanation
Indices: 26975582--26975640 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
26975572 TAAGATGGCT
*
26975582 ATATAAAAATTTCAATAAATAAAA-A
1 ATATAAAAATTTAAATAAATAAAATA
*
26975607 ATATAAAAATATTAAAT-ATTAAAATA
1 ATATAAAAAT-TTAAATAAATAAAATA
*
26975633 AAATAAAA
1 ATATAAAA
26975641 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
ATATAAAAATTTAAATAAATAAAATA
Found at i:26981674 original size:98 final size:98
Alignment explanation
Indices: 26981501--26981695 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
26981491 TACAATAAAA
* *
26981501 CTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTC
* *
26981566 CTCTAGAATCCCAAGCTCAGAATATTTCCTTTT
66 CTCTAAAATCCCAAACTCAGAATATTTCCTTTT
*
26981599 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTC
1 CTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTC
* *
26981664 CTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CTCTAAAATCCCAAACTCAGAATATTTCCTTT
26981696 ATTATTTTAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTAATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTC
CTCTAAAATCCCAAACTCAGAATATTTCCTTTT
Found at i:26981982 original size:9 final size:9
Alignment explanation
Indices: 26981968--26981992 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26981958 TGCAAATGCT
26981968 ATAATAACA
1 ATAATAACA
26981977 ATAATAACA
1 ATAATAACA
26981986 ATAATAA
1 ATAATAA
26981993 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:26983055 original size:22 final size:23
Alignment explanation
Indices: 26983006--26983050 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26982996 GGGTATCTAC
*
26983006 AAATTAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
26983028 AAATCAAATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
26983051 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:26983076 original size:21 final size:19
Alignment explanation
Indices: 26983039--26983131 Score: 150
Period size: 19 Copynumber: 4.8 Consensus size: 19
26983029 AATCAAATCT
*
26983039 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
26983058 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
26983079 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
26983098 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
26983117 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
26983132 ACTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 50 0.72
21 19 0.28
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:26983087 original size:40 final size:38
Alignment explanation
Indices: 26983039--26983131 Score: 150
Period size: 40 Copynumber: 2.4 Consensus size: 38
26983029 AATCAAATCT
*
26983039 TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGC--ATATCATA
*
26983079 TCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATCATA
26983117 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
26983132 ACTCAAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 23 0.45
40 28 0.55
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATCATA
Found at i:26993365 original size:22 final size:22
Alignment explanation
Indices: 26993322--26993380 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
26993312 TGTAGTTTTC
26993322 TAGGTGAAAAGA-T-GGATGTGA
1 TAGGTG-AAAGATTAGGATGTGA
*
26993343 TAGGTGAAAGATTAGGATTTGA
1 TAGGTGAAAGATTAGGATGTGA
* *
26993365 TGGGTGAAAGGTTAGG
1 TAGGTGAAAGATTAGG
26993381 GTATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 21 0.64
ACGTcount: A:0.34, C:0.00, G:0.39, T:0.27
Consensus pattern (22 bp):
TAGGTGAAAGATTAGGATGTGA
Found at i:26993453 original size:25 final size:24
Alignment explanation
Indices: 26993425--26993486 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
26993415 TGGTAGTGTA
*
26993425 AATTTGGGTTTTATTTTTGGGTTTG
1 AATTTGGGTTTTA-TATTGGGTTTG
*
26993450 AATTTGGGTTAGTATATTGGGTTTG
1 AATTTGGGTT-TTATATTGGGTTTG
**
26993475 GGTTTGGGTTTT
1 AATTTGGGTTTT
26993487 GGTTAATGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 28 0.90
26 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (24 bp):
AATTTGGGTTTTATATTGGGTTTG
Found at i:26993457 original size:12 final size:12
Alignment explanation
Indices: 26993425--26993485 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
26993415 TGGTAGTGTA
*
26993425 AATTTGGGTTTT
1 AATTTGGGTTTG
*
26993437 ATTTTTGGGTTTG
1 A-ATTTGGGTTTG
*
26993450 AATTTGGGTTAG
1 AATTTGGGTTTG
*
26993462 TATATTGGGTTTG
1 AAT-TTGGGTTTG
**
26993475 GGTTTGGGTTT
1 AATTTGGGTTT
26993486 TGGTTAATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 20 0.51
13 19 0.49
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (12 bp):
AATTTGGGTTTG
Found at i:26993636 original size:6 final size:6
Alignment explanation
Indices: 26993627--26993671 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
26993617 AAAACAAAAC
26993627 AAAATA AAAATA AAAAT- AAAATA AAATAGTA AAAATA AATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAA-A-TA AAAATA AA-AATA A
26993672 TAAAAGGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.14
6 18 0.51
7 7 0.20
8 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:26993641 original size:16 final size:15
Alignment explanation
Indices: 26993616--26993676 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
26993606 GTTTCCCTGC
*
26993616 AAAAACAAAACAAAAT
1 AAAAATAAAA-AAAAT
26993632 AAAAATAAAAATAAAAT
1 AAAAAT-AAAA-AAAAT
26993649 AAAATAGTAAAAATAAAT
1 AAAA-A-TAAAAA-AAAT
*
26993667 AATAATAAAA
1 AAAAATAAAA
26993677 GGAAAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 10 0.26
17 15 0.39
18 12 0.32
19 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:26993673 original size:19 final size:19
Alignment explanation
Indices: 26993622--26993665 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
26993612 CTGCAAAAAC
*
26993622 AAAACAAAATAAAA-A-TA
1 AAAATAAAATAAAATAGTA
26993639 AAAATAAAATAAAATAGTA
1 AAAATAAAATAAAATAGTA
26993658 AAAATAAA
1 AAAATAAA
26993666 TAATAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 1 0.04
19 10 0.42
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAATAAAATAAAATAGTA
Found at i:26993695 original size:29 final size:29
Alignment explanation
Indices: 26993627--26993695 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
26993617 AAAACAAAAC
* *
26993627 AAAATAAAAATAAAAATAAAATAAAATAGT
1 AAAATTAAAATAAAAATAAAAGAAAATA-T
* *
26993657 AAAAAT-AAATAATAATAAAAGGAAAAT-T
1 AAAATTAAAATAAAAATAAAA-GAAAATAT
26993685 AAAATTAAAAT
1 AAAATTAAAAT
26993696 GTGTATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.19
29 17 0.53
30 9 0.28
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (29 bp):
AAAATTAAAATAAAAATAAAAGAAAATAT
Found at i:27003877 original size:2 final size:2
Alignment explanation
Indices: 27003864--27003895 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
27003854 GACATAACCA
*
27003864 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27003896 GTAAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27011235 original size:51 final size:51
Alignment explanation
Indices: 27011152--27011249 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
27011142 ATTAATGTAC
27011152 AATTAGGACCAAGTTGACATCATATGCAAATTTTGAGGGCTAAATTTGTTA
1 AATTAGGACCAAGTTGACATCATATGCAAATTTTGAGGGCTAAATTTGTTA
* * *
27011203 AATTAGGACCAAGTTGGCATTATTTGTC-AATTTTGAGGGCTAAATTT
1 AATTAGGACCAAGTTGACATCATATG-CAAATTTTGAGGGCTAAATTT
27011250 ATTATATCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (51 bp):
AATTAGGACCAAGTTGACATCATATGCAAATTTTGAGGGCTAAATTTGTTA
Found at i:27011515 original size:19 final size:19
Alignment explanation
Indices: 27011491--27011528 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27011481 ACGTTCGAGG
27011491 CCATTAATTAGAATGCTAT
1 CCATTAATTAGAATGCTAT
27011510 CCATTAATTAGAATGCTAT
1 CCATTAATTAGAATGCTAT
27011529 GTGATTGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
CCATTAATTAGAATGCTAT
Found at i:27016615 original size:24 final size:24
Alignment explanation
Indices: 27016587--27016650 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
27016577 GGTATTACAG
*
27016587 ATTTAATATTTATTAGTATAATGT
1 ATTTAATATTTATTAGTATAATAT
* **
27016611 TTTTAGCATTTATTAGTATAATAT
1 ATTTAATATTTATTAGTATAATAT
* *
27016635 ATTTGATATTAATTAG
1 ATTTAATATTTATTAG
27016651 AATTAAGTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (24 bp):
ATTTAATATTTATTAGTATAATAT
Found at i:27024801 original size:50 final size:50
Alignment explanation
Indices: 27024663--27024838 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 50
27024653 TTACGTGAGG
*
27024663 CCTCTATGGCGAGTCCTCTGTAAAG-C-CTGTGGCGATTTATTTGGGAAA
1 CCTCTATGGCGAGTCCTCTGTAAAGCCTCTGTAGCGATTTATTTGGGAAA
* * * * * * * *
27024711 CCTCTGTTGTGAGTCATCTATAAAACCTTTGTAGCAATTTATTTGGGAAA
1 CCTCTATGGCGAGTCCTCTGTAAAGCCTCTGTAGCGATTTATTTGGGAAA
* * * * *
27024761 CCTCTGTGGCAAGTCC-CTTGTAAAGCCTCTGTTGCGATTTATTTCGGAAG
1 CCTCTATGGCGAGTCCTC-TGTAAAGCCTCTGTAGCGATTTATTTGGGAAA
*
27024811 CCTCTATAGCGAGTCAC-CTGTAAAGCCT
1 CCTCTATGGCGAGTC-CTCTGTAAAGCCT
27024839 TTATGGTAGG
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
48 19 0.19
49 2 0.02
50 78 0.77
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (50 bp):
CCTCTATGGCGAGTCCTCTGTAAAGCCTCTGTAGCGATTTATTTGGGAAA
Found at i:27028564 original size:878 final size:881
Alignment explanation
Indices: 27026535--27028700 Score: 3175
Period size: 884 Copynumber: 2.5 Consensus size: 881
27026525 ACGACACACC
* *
27026535 ACCAATAAAACGATTAAGGAAAACTTCAAT-GAA-A-CATAATAAATAAT-AATAAACGAGATGC
1 ACCAATAAAACGATTAAGGAAAACTTCAATGGAACATAATAATAAATAATAAAAAAACGAGATGC
** * * *
27026596 TAGTTTGAGGTTCCTCCGATGCTAATCCGTGTCCTA-TTTTTCTATGTTACCTGAGAGTTAAGGA
66 TAGTCCGAGGTTCCTCCGATGCTAATCCGAGTCCTAGTTTTT-TGTGTTACCTGAGAGGTAA-GA
* * * *
27026660 AAATA-GGGAGTGCGCTTATGACAGCCCAATGTGAGTCTAATTTTTAAACCATTATATATAATTG
129 AAAAAGGGGAGTGAGCTTATGACAGCCCAATGTGAGTTTAATTTTTAAACCATTACATATAATTG
* **
27026724 TTCAAACGACAAAGCATTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGAAACATTCA
194 TTCAAACGATAAAGCATTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCA
27026789 GTAAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACTC
259 GTAAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACTC
* * ** * * * *
27026854 ATCTATCTTATTTGCCCTCGAGCATCACTTGACACTCGAAAACACATTTCAGTAATTGACCGTCT
324 ATCCATCCTATCCGCCCTCGAGCATCACTCGACACTCCAAAACACATTTCAGTAACTGACCATCT
* * * *
27026919 TGGATTT-TTCGGTGACGATGGTCGTTCACTTATCATCCGTGACGATGAATTTTAATACAATAAC
389 TGGATTTCCT-GATGACGATGGTCATTCACTTATCATCCGTGACGATAAATTTTAATACAATAAC
* * ** * * * *
27026983 TTACCAAATGTAACACCCCCGATCTGGATTAGGAGTTTCGAGTAAGTTAAATGCGTTACATTGAT
453 TTACCAAATGTAAAACCCCCGAACCAGATTAGGAGTTTCGACTAAGTCAAAGGAGTTACATTGAT
*
27027048 CACCGAAGTAATCCAATAAAGCCATTCTTTTGCTTGAGTTGAATTGTATGAAAATCACTCTTTTG
518 CACCGAAGTAATCCAATAAAGCCATTCTTTTGATTGAGTTGAATTGTATGAAAATCACTCTTTTG
* * * *
27027113 TTTTTAGGAATGACATTCATTAATTAATCCGACTTTACTTAGTAATCTATCTACAATATTATTAA
583 TTTTTAAGAAAGACATTCATTAATTAATCCGACTTTACTCAATAATCTATCTACAATATTATTAA
* *
27027178 CGTGAAGTTTTTTTTATTTTGAGAAAACGGTTTATGATTTTAAAAGACTTATCAAAACTTTAAGT
648 CGTGAAG---TTTATATTTTGAGAAAACGATTTATGATTTTAAAAGACTTATCAAAACTTTAAGT
*
27027243 ATTTTGCAAAGCAACAGAAACCAATAATAAGGATAATAATTTTCTAAACCAATTAGCATGCAATA
710 ATTTTGCAAAGCAACAGAAACCAATAATAAGAATAATAATTTTCTAAACCAATTAGCATGCAATA
* *
27027308 ATCAGAGTAATAACTAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTA
775 ATCAAAGTAATAAATAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTA
**
27027373 TGAAAGCAATAAATAATTAATAGCTTACGACCCAATTAACAA
840 ACAAAGCAATAAATAATTAATAGCTTACGACCCAATTAACAA
* *
27027415 ACCAATAAAACAATTAAGGAAAACTTCAATGGAACATAATAATAAATAATAAAAAAATGAGATGC
1 ACCAATAAAACGATTAAGGAAAACTTCAATGGAACATAATAATAAATAATAAAAAAACGAGATGC
* * * *
27027480 TAGTCCAAGGTTCCTCCGATGCCAATCCGAGTCCTAGTTTTCTGTGTTACCTGAGAGGTAAGGAA
66 TAGTCCGAGGTTCCTCCGATGCTAATCCGAGTCCTAGTTTTTTGTGTTACCTGAGAGGTAAGAAA
** * * * *
27027545 ACTGGAGAGTAAGCTTATGACAGCCTAATATGAGTTTAATTTTTAAACCATTACATATAATTGTT
131 AAAGGGGAGTGAGCTTATGACAGCCCAATGTGAGTTTAATTTTTAAACCATTACATATAATTGTT
* * *
27027610 CAAACGGTAAAGCATTCAATTTAAAACATCATAACAAATTAAGCATAATATAAGGGGCATTCAGT
196 CAAACGATAAAGCATTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCAGT
* * ** * *
27027675 TAATTAATGCATGTACTCGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTGCCACCCAT
261 AAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACTCAT
* * *
27027740 CCATCCTATCCGCCCTCGAGCATCGCTCGACACTCCAAAACACATTTCAGTAACTGACCATCCTA
326 CCATCCTATCCGCCCTCGAGCATCACTCGACACTCCAAAACACATTTCAGTAACTGACCATCTTG
* * * *
27027805 GATTTCCTGATGACGATGGTCATTCACTTGTCATCTGTGATGATAAATTTTACTACAATAACTTA
391 GATTTCCTGATGACGATGGTCATTCACTTATCATCCGTGACGATAAATTTTAATACAATAACTTA
*
27027870 CCAAATGTAAAACCCCC-AACCAGACTTAGGAGTTTTGACTAAGTCAAAGGAGTTACATTGATCA
456 CCAAATGTAAAACCCCCGAACCAGA-TTAGGAGTTTCGACTAAGTCAAAGGAGTTACATTGATCA
* * * * *
27027934 CTGAAGTGATCCAGTAAAGTCATTCTTTTGATTGAGTTGAATTGTATGAAAATCGCTCTTTTGTT
520 CCGAAGTAATCCAATAAAGCCATTCTTTTGATTGAGTTGAATTGTATGAAAATCACTCTTTTGTT
* * *
27027999 TTTAAGAAAGACATTCATTAATTAATCTGGCTTTACTCAATAATCTATCTATAATATTATTAACG
585 TTTAAGAAAGACATTCATTAATTAATCCGACTTTACTCAATAATCTATCTACAATATTATTAACG
* *
27028064 TGAAG-TTAT-TTTTGAGCAAACGATTTATGGTTTTAAAAGACTTATCAAAACTTTAAGTATTTT
650 TGAAGTTTATATTTTGAGAAAACGATTTATGATTTTAAAAGACTTATCAAAACTTTAAGTATTTT
* ** *
27028127 GCAAAGCAACAGAAATCAATAATAAGAATAATGGTTTTCTAAACCAATTAGCATTCAATAATCAA
715 GCAAAGCAACAGAAACCAATAATAAGAATAATAATTTTCTAAACCAATTAGCATGCAATAATCAA
* * *
27028192 AGTAATAAATAAATTTCATGCTT-AAAATTTATAAGCTAAATAATCTCAAACCACAGTTAACAAA
780 AGTAATAAATAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTAACAAA
*
27028256 GTAATAAATAATTAATAGCTTACGACCCAATTAACAA
845 GCAATAAATAATTAATAGCTTACGACCCAATTAACAA
* *
27028293 ACCAATAAAATGATTAAGGAAAACTTCAATGGAACATAATAATAAATAATAAAAAAACGATATGC
1 ACCAATAAAACGATTAAGGAAAACTTCAATGGAACATAATAATAAATAATAAAAAAACGAGATGC
* * * * *
27028358 TAGTCCGAGGTTCCTTCGATGCTAATTCAAGTCCTAGTTTTTTGTGTTACTTGATAGGTAAGAAA
66 TAGTCCGAGGTTCCTCCGATGCTAATCCGAGTCCTAGTTTTTTGTGTTACCTGAGAGGTAAGAAA
*
27028423 AAAGGGGAGTGAGCTTATGACAGCCCAATGTGAGTTTAATTTTTAAACCATTACAGATAATTGTT
131 AAAGGGGAGTGAGCTTATGACAGCCCAATGTGAGTTTAATTTTTAAACCATTACATATAATTGTT
* * * *
27028488 CAAATGATAAATCATTCAATTTAAAACATCATAGCAAATTAAGCATACTATAAGGGACATTCAAT
196 CAAACGATAAAGCATTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCAGT
* *
27028553 AAATCAATGCATGTACAAGTTATGTTCATGATGTAATGAAATTATAATTTTAAATTCCCACTCAT
261 AAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACTCAT
* * **
27028618 CCATCCTATCCGCCGTCGAGCATCACTCGACATTTTAAAACACATTTCAGTAACTGACCATCTTG
326 CCATCCTATCCGCCCTCGAGCATCACTCGACACTCCAAAACACATTTCAGTAACTGACCATCTTG
**
27028683 GATTTCCAAATGACGATG
391 GATTTCCTGATGACGATG
27028701 TGACGATGAA
Statistics
Matches: 1142, Mismatches: 136, Indels: 18
0.88 0.10 0.01
Matches are distributed among these distances:
878 437 0.38
879 131 0.11
880 32 0.03
881 3 0.00
882 1 0.00
883 20 0.02
884 513 0.45
885 5 0.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (881 bp):
ACCAATAAAACGATTAAGGAAAACTTCAATGGAACATAATAATAAATAATAAAAAAACGAGATGC
TAGTCCGAGGTTCCTCCGATGCTAATCCGAGTCCTAGTTTTTTGTGTTACCTGAGAGGTAAGAAA
AAAGGGGAGTGAGCTTATGACAGCCCAATGTGAGTTTAATTTTTAAACCATTACATATAATTGTT
CAAACGATAAAGCATTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCAGT
AAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACTCAT
CCATCCTATCCGCCCTCGAGCATCACTCGACACTCCAAAACACATTTCAGTAACTGACCATCTTG
GATTTCCTGATGACGATGGTCATTCACTTATCATCCGTGACGATAAATTTTAATACAATAACTTA
CCAAATGTAAAACCCCCGAACCAGATTAGGAGTTTCGACTAAGTCAAAGGAGTTACATTGATCAC
CGAAGTAATCCAATAAAGCCATTCTTTTGATTGAGTTGAATTGTATGAAAATCACTCTTTTGTTT
TTAAGAAAGACATTCATTAATTAATCCGACTTTACTCAATAATCTATCTACAATATTATTAACGT
GAAGTTTATATTTTGAGAAAACGATTTATGATTTTAAAAGACTTATCAAAACTTTAAGTATTTTG
CAAAGCAACAGAAACCAATAATAAGAATAATAATTTTCTAAACCAATTAGCATGCAATAATCAAA
GTAATAAATAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTAACAAAG
CAATAAATAATTAATAGCTTACGACCCAATTAACAA
Found at i:27029166 original size:15 final size:15
Alignment explanation
Indices: 27029124--27029242 Score: 65
Period size: 13 Copynumber: 8.5 Consensus size: 15
27029114 TGTTCGCATT
*
27029124 TAGGGTTCGCACATA
1 TAGGGTTTGCACATA
* *
27029139 CA-TGTTT-CACATA
1 TAGGGTTTGCACATA
27029152 TAGGGTTTGCACATA
1 TAGGGTTTGCACATA
* *
27029167 TAGAGTTTG--CATG
1 TAGGGTTTGCACATA
*
27029180 TAGGGTTCGCACATA
1 TAGGGTTTGCACATA
* ** * *
27029195 CAAAG-TT-CGCATG
1 TAGGGTTTGCACATA
27029208 TAGGGTTTGCACATA
1 TAGGGTTTGCACATA
*
27029223 CAGGG-TT-CACATA
1 TAGGGTTTGCACATA
*
27029236 TAAGGTT
1 TAGGGTT
27029243 CGCATACTAA
Statistics
Matches: 73, Mismatches: 24, Indels: 15
0.65 0.21 0.13
Matches are distributed among these distances:
13 32 0.44
14 13 0.18
15 28 0.38
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (15 bp):
TAGGGTTTGCACATA
Found at i:27029230 original size:28 final size:28
Alignment explanation
Indices: 27029115--27029246 Score: 131
Period size: 28 Copynumber: 4.7 Consensus size: 28
27029105 TACATAACAT
*
27029115 GTTCGCATTTAGGGTTCGCACATACATG-
1 GTTCGCATGTAGGGTTCGCACATACA-GA
* * * * *
27029143 TTTCACATATAGGGTTTGCACATATAGA
1 GTTCGCATGTAGGGTTCGCACATACAGA
* *
27029171 GTTTGCATGTAGGGTTCGCACATACAAA
1 GTTCGCATGTAGGGTTCGCACATACAGA
* *
27029199 GTTCGCATGTAGGGTTTGCACATACAGG
1 GTTCGCATGTAGGGTTCGCACATACAGA
* * *
27029227 GTTCACATATAAGGTTCGCA
1 GTTCGCATGTAGGGTTCGCA
27029247 TACTAAATCA
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 1 0.01
28 82 0.99
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (28 bp):
GTTCGCATGTAGGGTTCGCACATACAGA
Found at i:27029291 original size:24 final size:24
Alignment explanation
Indices: 27029239--27029374 Score: 87
Period size: 24 Copynumber: 5.7 Consensus size: 24
27029229 TCACATATAA
* *
27029239 GGTTCGCATACTAAATCACATGGT
1 GGTTCGCATAATAAATCACATGGG
*
27029263 AGTTCGCATAATAAATCACATGGG
1 GGTTCGCATAATAAATCACATGGG
** ** *
27029287 GGTTCATATACAT-AATCGTATGAG
1 GGTTCGCATA-ATAAATCACATGGG
* * **
27029311 GGTTTGCATATTAAATC-CATAAG
1 GGTTCGCATAATAAATCACATGGG
* * * *
27029334 GGTTCGCATATTAAAACATATAGG
1 GGTTCGCATAATAAATCACATGGG
* *
27029358 GGTTCTCATACTAAATC
1 GGTTCGCATAATAAATC
27029375 CATAAGGGCT
Statistics
Matches: 87, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
23 20 0.23
24 65 0.75
25 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (24 bp):
GGTTCGCATAATAAATCACATGGG
Found at i:27029382 original size:24 final size:24
Alignment explanation
Indices: 27029310--27029391 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 24
27029300 AATCGTATGA
*
27029310 GGGTTTGCATATTAAATCCATAA-
1 GGGTTCGCATATTAAATCCATAAG
*
27029333 GGGTTCGCATATTAAA-ACATATAG
1 GGGTTCGCATATTAAATCCATA-AG
* *
27029357 GGGTTCTCATACTAAATCCATAAG
1 GGGTTCGCATATTAAATCCATAAG
*
27029381 GGCTT-GCATAT
1 GGGTTCGCATAT
27029392 AGGGTTCGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.08
23 20 0.42
24 20 0.42
25 4 0.08
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (24 bp):
GGGTTCGCATATTAAATCCATAAG
Found at i:27029455 original size:58 final size:58
Alignment explanation
Indices: 27029364--27029586 Score: 218
Period size: 58 Copynumber: 3.8 Consensus size: 58
27029354 TAGGGGTTCT
* *
27029364 CATACTAAATC-CATAAGGGCTTGCATATAGGGTTCGCATAATATATAGTAAGAGATCA
1 CATACTAAATCACATAAAGGTTTGCATAT-GGGTTCGCATAATATATAGTAAGAGATCA
* * *
27029422 CATACTAAGTCACATAAAGGTTTGCATATGGGTTAG-ACTAATATATGGTAAGAGAT-A
1 CATACTAAATCACATAAAGGTTTGCATATGGGTTCGCA-TAATATATAGTAAGAGATCA
* * * * * * * * * *
27029479 GTATACTAAATCATATAAAGTTTTTCATACGGGTTCACATTATTTATGGTAAGAGATCG
1 -CATACTAAATCACATAAAGGTTTGCATATGGGTTCGCATAATATATAGTAAGAGATCA
* * * *
27029538 TATACTAAATCATATAAAAGGTTTTCATATAGGTTCGCATAATATATAG
1 CATACTAAATCACAT-AAAGGTTTGCATATGGGTTCGCATAATATATAG
27029587 GGTTCACATA
Statistics
Matches: 136, Mismatches: 23, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
57 2 0.01
58 92 0.68
59 42 0.31
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (58 bp):
CATACTAAATCACATAAAGGTTTGCATATGGGTTCGCATAATATATAGTAAGAGATCA
Found at i:27029596 original size:18 final size:18
Alignment explanation
Indices: 27029564--27029608 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
27029554 AAAGGTTTTC
* *
27029564 ATATA-GGTTCGCATAAT
1 ATATAGGGTTCACATAAG
27029581 ATATAGGGTTCACATAAG
1 ATATAGGGTTCACATAAG
27029599 ATATAGGGTT
1 ATATAGGGTT
27029609 TGCATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (18 bp):
ATATAGGGTTCACATAAG
Found at i:27029792 original size:16 final size:16
Alignment explanation
Indices: 27029755--27029797 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
27029745 TTAATAGTTC
*
27029755 ACCTAA-GGTTCGCAT
1 ACCTAAGGGTTCACAT
* *
27029770 TCATAAGGGTTCACAT
1 ACCTAAGGGTTCACAT
27029786 ACCTAAGGGTTC
1 ACCTAAGGGTTC
27029798 GTATGCATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (16 bp):
ACCTAAGGGTTCACAT
Found at i:27029837 original size:15 final size:16
Alignment explanation
Indices: 27029804--27029863 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 16
27029794 GTTCGTATGC
27029804 ATGGGGTTTCGCATAT
1 ATGGGGTTTCGCATAT
*
27029820 ATGGGGTTT-GCGTAT
1 ATGGGGTTTCGCATAT
*
27029835 ATGGGAG-TTCGCATAC
1 ATGGG-GTTTCGCATAT
27029851 AT-GGGTTT-GCATA
1 ATGGGGTTTCGCATA
27029864 ACAGATTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.16
15 16 0.42
16 16 0.42
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (16 bp):
ATGGGGTTTCGCATAT
Found at i:27031989 original size:20 final size:20
Alignment explanation
Indices: 27031966--27032003 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27031956 AAATAATAAA
**
27031966 ATTTAAAATTAAAGTAATAT
1 ATTTAAAAGAAAAGTAATAT
27031986 ATTTAAAAGAAAAGTAAT
1 ATTTAAAAGAAAAGTAAT
27032004 TCAACATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
ATTTAAAAGAAAAGTAATAT
Found at i:27033412 original size:22 final size:22
Alignment explanation
Indices: 27033371--27033412 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27033361 CGTACGGATC
*
27033371 GATTTTTAATACTTTTTTTATA
1 GATTTTTAATACTTTATTTATA
**
27033393 GATTTTTAATGGTTTATTTA
1 GATTTTTAATACTTTATTTA
27033413 ATTGAATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (22 bp):
GATTTTTAATACTTTATTTATA
Found at i:27037423 original size:16 final size:16
Alignment explanation
Indices: 27037402--27037453 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
27037392 TTTGGTTCGC
27037402 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27037418 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
** *
27037434 TGTAACGGAATAGAGG
1 TGTATTGGATTAGAGG
27037450 TGTA
1 TGTA
27037454 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27037500 original size:45 final size:44
Alignment explanation
Indices: 27037434--27037524 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
27037424 GGATTAGAGG
* *
27037434 TGTAACGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAACGGAATAGAAGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
27037479 TGTAATGGAATAGAAGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAACGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
27037523 TG
1 TG
27037525 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAACGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:27037723 original size:18 final size:18
Alignment explanation
Indices: 27037673--27037723 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
27037663 ATCATATTTA
27037673 AAAATA-ATAA-TT-ATT
1 AAAATATATAATTTAATT
27037688 -AAATATATATATTATAATT
1 AAAATATATA-ATT-TAATT
27037707 AAAATATATAATTTAAT
1 AAAATATATAATTTAAT
27037724 ATTTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 1 0.03
17 1 0.03
18 5 0.17
19 6 0.20
20 9 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATATATAATTTAATT
Found at i:27037827 original size:16 final size:16
Alignment explanation
Indices: 27037784--27037829 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
27037774 CATAATATAG
*
27037784 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
27037800 ATTATT-AAATATATT
1 ATAATTAAAATATATT
27037815 ATAATTAAAATATAT
1 ATAATTAAAATATAT
27037830 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:27037836 original size:14 final size:15
Alignment explanation
Indices: 27037784--27037838 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
27037774 CATAATATAG
27037784 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
27037800 ATTATTAAATATATT
1 ATAATTAAATATATT
27037815 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
27037828 ATAATTTAATA
1 ATAATTAAATA
27037839 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:27038156 original size:91 final size:91
Alignment explanation
Indices: 27038001--27038253 Score: 479
Period size: 91 Copynumber: 2.8 Consensus size: 91
27037991 NNNNNNNNNN
* * *
27038001 ATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATA
1 ATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATA
27038066 TAATTTCATAAAATTCTTGATAATAA
66 TAATTTCATAAAATTCTTGATAATAA
27038092 ATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATA
1 ATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATA
27038157 TAATTTCATAAAATTCTTGATAATAA
66 TAATTTCATAAAATTCTTGATAATAA
27038183 ATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATA
1 ATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATA
27038248 TAATTT
66 TAATTT
27038254 ATACATTTAA
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 159 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
ATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATA
TAATTTCATAAAATTCTTGATAATAA
Found at i:27042616 original size:18 final size:18
Alignment explanation
Indices: 27042593--27042637 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
27042583 AGAATCTGAT
27042593 TTGTGGATTCATCAACTC
1 TTGTGGATTCATCAACTC
27042611 TTGTGGATTCATCAACTC
1 TTGTGGATTCATCAACTC
27042629 TTGTGGATT
1 TTGTGGATT
27042638 TCTATGCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (18 bp):
TTGTGGATTCATCAACTC
Found at i:27044946 original size:40 final size:40
Alignment explanation
Indices: 27044902--27045105 Score: 246
Period size: 40 Copynumber: 5.1 Consensus size: 40
27044892 CACACTAGAT
* * * *
27044902 AGAAGCTCATAAGAGCTGATCCACCCGAAGCACACCAGAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * *
27044942 AGAAGCTCATAAGAGTTGATCCAACCGTAACATGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * **
27044982 AGAAGATCATAAGAGCTGATTCAATAGAAACACGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * * *
27045022 AGTAGCTCAGAAGAGCTGATCCAACTGAAACATGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * *
27045062 AGAAGCTCATAAGAGTTGATCCAACCGTAACACGCCTAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
27045102 AGAA
1 AGAA
27045106 AGTATAACAC
Statistics
Matches: 136, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
Found at i:27053945 original size:19 final size:20
Alignment explanation
Indices: 27053918--27053957 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
27053908 GTAAATACAC
* *
27053918 ATATGTTTATAAT-TGATCA
1 ATATATTTAAAATATGATCA
27053937 ATATATTTAAAATATGATCA
1 ATATATTTAAAATATGATCA
27053957 A
1 A
27053958 CATCATATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (20 bp):
ATATATTTAAAATATGATCA
Found at i:27056965 original size:43 final size:43
Alignment explanation
Indices: 27056876--27056967 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
27056866 GTTGTGGTTG
* * * *
27056876 CTTCCTTTTTTGTTGTTTCTTGGTTGTGGTTGCTTCCATGTTA
1 CTTCCTTTTTTGTCGTTTCTTGGTAGTGGTTGCTTCCACGTAA
** *
27056919 CTTCCTTTTTTGTCGTTTCTTGGTAGTGGTTTTTTCTACGTAA
1 CTTCCTTTTTTGTCGTTTCTTGGTAGTGGTTGCTTCCACGTAA
27056962 CTTCCT
1 CTTCCT
27056968 CTGTCTTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.07, C:0.18, G:0.18, T:0.57
Consensus pattern (43 bp):
CTTCCTTTTTTGTCGTTTCTTGGTAGTGGTTGCTTCCACGTAA
Found at i:27057582 original size:21 final size:22
Alignment explanation
Indices: 27057544--27057585 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27057534 AATAAATGAA
**
27057544 AAGAAAAATTTTATCCACAACC
1 AAGAAAAATTACATCCACAACC
27057566 AAGAAAAATTACA-CCACAAC
1 AAGAAAAATTACATCCACAAC
27057586 TGGCAAGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.55, C:0.24, G:0.05, T:0.17
Consensus pattern (22 bp):
AAGAAAAATTACATCCACAACC
Found at i:27059468 original size:27 final size:27
Alignment explanation
Indices: 27059438--27059523 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
27059428 CCCATAAGAG
*
27059438 TATCTCGTATTTAACGTCCCGTCAAAC
1 TATCTCGTGTTTAACGTCCCGTCAAAC
* * *
27059465 TATCCCGTGTTTAACGTCTCGTTAGAA-
1 TATCTCGTGTTTAACGTCCCGTCA-AAC
* *
27059492 TATCTCGTGTTTAATGTCCCGTCAGAC
1 TATCTCGTGTTTAACGTCCCGTCAAAC
27059519 TATCT
1 TATCT
27059524 ATGATGCCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
26 1 0.02
27 45 0.94
28 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (27 bp):
TATCTCGTGTTTAACGTCCCGTCAAAC
Found at i:27064868 original size:54 final size:54
Alignment explanation
Indices: 27064809--27064976 Score: 130
Period size: 54 Copynumber: 3.1 Consensus size: 54
27064799 AACATACATT
*
27064809 TACCAAAACCCTATTTACGTGCCACTTAAAATTGAGCCAAAATAAACAAATAGA
1 TACCAAAACCCTATTTACGTGACACTTAAAATTGAGCCAAAATAAACAAATAGA
*** ** ** * * * * * *
27064863 TACCAAAAGAGT-TGAGACACGAAACATAACCAATTGA-TCACAA-ACATAAAT--A
1 TACCAAAACCCTAT-TTACGTGACACTTAA--AATTGAGCCAAAATAAACAAATAGA
* *
27064915 TACCAAAACCCAATTTACGTGTCACTTAAAATTGAGCCAAAATAAACAAATAGA
1 TACCAAAACCCTATTTACGTGACACTTAAAATTGAGCCAAAATAAACAAATAGA
27064969 TACCAAAA
1 TACCAAAA
27064977 GAGTTGACGG
Statistics
Matches: 77, Mismatches: 29, Indels: 16
0.63 0.24 0.13
Matches are distributed among these distances:
50 6 0.08
51 4 0.05
52 23 0.30
53 2 0.03
54 32 0.42
55 4 0.05
56 6 0.08
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.20
Consensus pattern (54 bp):
TACCAAAACCCTATTTACGTGACACTTAAAATTGAGCCAAAATAAACAAATAGA
Found at i:27064908 original size:106 final size:106
Alignment explanation
Indices: 27064775--27064983 Score: 373
Period size: 106 Copynumber: 2.0 Consensus size: 106
27064765 ATCAAATGAA
* * * *
27064775 ACGAAACATAACCAATTGGTCACAAACATACATTTACCAAAACCCTATTTACGTGCCACTTAAAA
1 ACGAAACATAACCAATTGATCACAAACATAAATATACCAAAACCCAATTTACGTGCCACTTAAAA
27064840 TTGAGCCAAAATAAACAAATAGATACCAAAAGAGTTGAGAC
66 TTGAGCCAAAATAAACAAATAGATACCAAAAGAGTTGAGAC
*
27064881 ACGAAACATAACCAATTGATCACAAACATAAATATACCAAAACCCAATTTACGTGTCACTTAAAA
1 ACGAAACATAACCAATTGATCACAAACATAAATATACCAAAACCCAATTTACGTGCCACTTAAAA
27064946 TTGAGCCAAAATAAACAAATAGATACCAAAAGAGTTGA
66 TTGAGCCAAAATAAACAAATAGATACCAAAAGAGTTGA
27064984 CGGATAGTGC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 98 1.00
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.21
Consensus pattern (106 bp):
ACGAAACATAACCAATTGATCACAAACATAAATATACCAAAACCCAATTTACGTGCCACTTAAAA
TTGAGCCAAAATAAACAAATAGATACCAAAAGAGTTGAGAC
Found at i:27071667 original size:38 final size:40
Alignment explanation
Indices: 27071625--27071715 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
27071615 ACCGGCTTTT
* *
27071625 AGCCTGCTAGACCT-A-TCTGAAATGTATCACCGACATTA
1 AGCCTGCTAGACCTAAGTCTGAAATATATCACCGACATCA
* * * *
27071663 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACCT-AAGTCTGAAATATATCACCGACATCA
27071704 AGCCTGCTAGAC
1 AGCCTGCTAGAC
27071716 GTAAAGTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 13 0.30
40 1 0.02
41 30 0.68
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
AGCCTGCTAGACCTAAGTCTGAAATATATCACCGACATCA
Found at i:27072229 original size:12 final size:12
Alignment explanation
Indices: 27072212--27072265 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
27072202 CTCAAAAACT
27072212 TATATATATACA
1 TATATATATACA
*
27072224 TATATATATTCGA
1 TATATATATAC-A
27072237 -ATATTATACGTACA
1 TATA-TATA--TACA
27072251 TATATATATACA
1 TATATATATACA
27072263 TAT
1 TAT
27072266 CTTTGTCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
12 20 0.57
13 5 0.14
14 5 0.14
15 5 0.14
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Done.