Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 224 of 325
Found at i:70475186 original size:93 final size:93
Alignment explanation
Indices: 70475027--70475198 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
70475017 GGATGATTGA
* * *
70475027 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70475092 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
70475120 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
70475185 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
70475199 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:70475203 original size:46 final size:46
Alignment explanation
Indices: 70475031--70475205 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
70475021 GATTGAGCAT
* * *
70475031 CCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
70475077 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
70475122 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
70475170 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70475206 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 62 0.58
47 27 0.25
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:70491507 original size:28 final size:27
Alignment explanation
Indices: 70491475--70491557 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 27
70491465 AACACACCAG
* *
70491475 TATAATCCTCCAAAACACACTAGTATCA
1 TATAATCCTCC-AAACACACTAGAATAA
70491503 TATAATCCTCCGAAACACACTAGAATAA
1 TATAATCCTCC-AAACACACTAGAATAA
70491531 TATAATCCATCCAAACACACTAGAATA
1 TATAATCC-TCCAAACACACTAGAATA
70491558 GCACAGAGTG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 48 0.94
29 3 0.06
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.23
Consensus pattern (27 bp):
TATAATCCTCCAAACACACTAGAATAA
Found at i:70491530 original size:23 final size:23
Alignment explanation
Indices: 70491464--70491531 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
70491454 GATTCCAACC
* *
70491464 AAACACACCAGTATAATCCTCCA
1 AAACACACTAGAATAATCCTCCA
*
70491487 AAACACACTAGTATCATATAATCCTCCG
1 AAACACACTAG----A-ATAATCCTCCA
70491515 AAACACACTAGAATAAT
1 AAACACACTAGAATAAT
70491532 ATAATCCATC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 15 0.41
24 1 0.03
28 21 0.57
ACGTcount: A:0.46, C:0.28, G:0.06, T:0.21
Consensus pattern (23 bp):
AAACACACTAGAATAATCCTCCA
Found at i:70492109 original size:36 final size:36
Alignment explanation
Indices: 70492069--70492148 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
70492059 TATCCTATTT
* *
70492069 TCAATTTAATTCTAACTAAACTTACTTATTCTTAAC
1 TCAATTCAATTCTAAATAAACTTACTTATTCTTAAC
70492105 TCAATTCAATTCTAAATAAACTTACTTATTCTTAAC
1 TCAATTCAATTCTAAATAAACTTACTTATTCTTAAC
70492141 TCAATTCA
1 TCAATTCA
70492149 TACTTTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (36 bp):
TCAATTCAATTCTAAATAAACTTACTTATTCTTAAC
Found at i:70502192 original size:43 final size:43
Alignment explanation
Indices: 70502144--70502231 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
70502134 AAGGCTAGGA
*
70502144 ACAAAAATAATTGAATTTTCCCAAAATAAGATTCGAACCCATG
1 ACAAAAATAATTAAATTTTCCCAAAATAAGATTCGAACCCATG
* *
70502187 ACAAAAATAATTAAATTTTCCCAAAATCAGATTCGAACCTATG
1 ACAAAAATAATTAAATTTTCCCAAAATAAGATTCGAACCCATG
70502230 AC
1 AC
70502232 CTCAAACTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (43 bp):
ACAAAAATAATTAAATTTTCCCAAAATAAGATTCGAACCCATG
Found at i:70508551 original size:22 final size:20
Alignment explanation
Indices: 70508521--70508566 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
70508511 TGAAATTTTA
70508521 ATTAGTATTATGAGATAAAATT
1 ATTAGTATTATGAGA-AAAA-T
* *
70508543 ATTATTATTATTAGAAAAAT
1 ATTAGTATTATGAGAAAAAT
70508563 ATTA
1 ATTA
70508567 CTGTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
ATTAGTATTATGAGAAAAAT
Found at i:70508657 original size:15 final size:15
Alignment explanation
Indices: 70508639--70508667 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70508629 ATATTTATAA
70508639 AATTATTATTATTAT
1 AATTATTATTATTAT
70508654 AATTATTATTATTA
1 AATTATTATTATTA
70508668 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:70509569 original size:20 final size:20
Alignment explanation
Indices: 70509483--70509569 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 20
70509473 ATTTTTTTCT
*
70509483 TTTCTCCTCTCTTCATCTAC
1 TTTCTCTTCTCTTCATCTAC
* *
70509503 -TTC-CTT-TCTTCTTCTTC
1 TTTCTCTTCTCTTCATCTAC
* * * * * **
70509520 TTTCCCTTATTTTCTTTTTT
1 TTTCTCTTCTCTTCATCTAC
*
70509540 TTTCTTTTCTCTTCATCTAC
1 TTTCTCTTCTCTTCATCTAC
70509560 TTTCTCTTCT
1 TTTCTCTTCT
70509570 TCTTTTCCTC
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
17 9 0.18
18 5 0.10
19 6 0.12
20 29 0.59
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCTCTTCTCTTCATCTAC
Found at i:70525132 original size:22 final size:24
Alignment explanation
Indices: 70525104--70525148 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
70525094 TTTTTTTTCA
70525104 ATTTTAA-CTTTTAT-TCAAAAAC
1 ATTTTAATCTTTTATATCAAAAAC
*
70525126 ATTTTAATTTTTTATATCAAAAA
1 ATTTTAATCTTTTATATCAAAAA
70525149 ATATTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTTAATCTTTTATATCAAAAAC
Found at i:70525290 original size:18 final size:18
Alignment explanation
Indices: 70525267--70525303 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70525257 ATTTAAGGCC
70525267 TAAATTAAAAAATTGACA
1 TAAATTAAAAAATTGACA
* *
70525285 TAAATTCAAAATTTGACA
1 TAAATTAAAAAATTGACA
70525303 T
1 T
70525304 TCATTTTTAC
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:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (18 bp):
TAAATTAAAAAATTGACA
Found at i:70526395 original size:158 final size:158
Alignment explanation
Indices: 70526107--70526425 Score: 593
Period size: 158 Copynumber: 2.0 Consensus size: 158
70526097 TGCCCTCCTG
*
70526107 ATAGTCTTATTAATGTTATTGAACATAATAAGGGCTAGGTCAGACACCTATCAGAATGGATAGAA
1 ATAGTCTTATTAATGTTATTGAACATAATAAGGGCTAGGTCAGAAACCTATCAGAATGGATAGAA
* * *
70526172 TCAAGCCACCAATAATCAGTATTGTAAAGCTAGACATGTTTCTTGATAGGATGCCAATTCCAAGT
66 TCAAGCCACCAATAATCAGTATTGTAAAACTAGACATGTTTCTTGATAGAACGCCAATTCCAAGT
70526237 GATAATCAAATGGAGAACACGATCATGA
131 GATAATCAAATGGAGAACACGATCATGA
70526265 ATAGTCTTATTAATGTTATTGAACATAATAAGGGCTAGGTCAGAAACCTATCAGAATGGATAGAA
1 ATAGTCTTATTAATGTTATTGAACATAATAAGGGCTAGGTCAGAAACCTATCAGAATGGATAGAA
*
70526330 TCAAGCCACCAATAATCAGTGTTGTAAAACTAGACATGTTTCTTGATAGAACGCCAATTCCAAGT
66 TCAAGCCACCAATAATCAGTATTGTAAAACTAGACATGTTTCTTGATAGAACGCCAATTCCAAGT
70526395 GATAATCAAATGGAGAACACGATCATGA
131 GATAATCAAATGGAGAACACGATCATGA
70526423 ATA
1 ATA
70526426 TTAAGTTTGG
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 156 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (158 bp):
ATAGTCTTATTAATGTTATTGAACATAATAAGGGCTAGGTCAGAAACCTATCAGAATGGATAGAA
TCAAGCCACCAATAATCAGTATTGTAAAACTAGACATGTTTCTTGATAGAACGCCAATTCCAAGT
GATAATCAAATGGAGAACACGATCATGA
Found at i:70531915 original size:20 final size:20
Alignment explanation
Indices: 70531890--70531937 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
70531880 ATTTTTCAAC
70531890 TTAAAAGAATTCTTACTTGA
1 TTAAAAGAATTCTTACTTGA
** *
70531910 TTAAAATTATTTTTACTTGA
1 TTAAAAGAATTCTTACTTGA
70531930 TTATAAAG
1 TTA-AAAG
70531938 TTGATTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (20 bp):
TTAAAAGAATTCTTACTTGA
Found at i:70532056 original size:22 final size:24
Alignment explanation
Indices: 70532030--70532073 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
70532020 ATTTTGTTTA
70532030 ATTTTAACTT-TTAT-TCAAAAAC
1 ATTTTAACTTATTATATCAAAAAC
*
70532052 ATTTTAATTTATTATATCAAAA
1 ATTTTAACTTATTATATCAAAA
70532074 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTTTAACTTATTATATCAAAAAC
Found at i:70535021 original size:59 final size:58
Alignment explanation
Indices: 70534920--70535063 Score: 157
Period size: 59 Copynumber: 2.4 Consensus size: 58
70534910 AATATCATGA
* * *
70534920 ACTAACTTGAAT-AAAAAAATTCAAATCCTAATATGAGAACAATTA-CTAAGTTCAAAG
1 ACTAACTTGAATAAAAAAAATTCAAACCCTAAAATAAGAACAATTATC-AAGTTCAAAG
* * *
70534977 ACTAACTTGAATAAAAAAAACTTGAAGCCCTAAAATAAGAACAATTATCAAGTTTAAAG
1 ACTAACTTGAATAAAAAAAA-TTCAAACCCTAAAATAAGAACAATTATCAAGTTCAAAG
* * *
70535036 ATTATCTTGGATAAAGAAAAAATTCAAA
1 ACTAACTTGAAT-AA-AAAAAATTCAAA
70535064 ACCAATGTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
57 12 0.17
58 7 0.10
59 39 0.55
60 7 0.10
61 6 0.08
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (58 bp):
ACTAACTTGAATAAAAAAAATTCAAACCCTAAAATAAGAACAATTATCAAGTTCAAAG
Found at i:70535174 original size:77 final size:78
Alignment explanation
Indices: 70535074--70535254 Score: 242
Period size: 77 Copynumber: 2.3 Consensus size: 78
70535064 ACCAATGTGA
* *
70535074 AAATGTCAATATAAATTTTATCTTCACAAGATAAA-TTGGAAAATATATAAATAAAT-AAAAA-T
1 AAATGTTAATATAAATTTTATCTTCACAAGATAAACTCGG-AAATATATAAAT-AATGAAAAATT
*
70535136 TAAAATATGCAATAT
64 TAAAATATGCAACAT
* **
70535151 AAATGTTAATATAAATTTTATCTTCACAAGTTAAACTCGGAAATATATAAATTTTGAAAAATTTA
1 AAATGTTAATATAAATTTTATCTTCACAAGATAAACTCGGAAATATATAAATAATGAAAAATTTA
70535216 AAATATGCAACAT
66 AAATATGCAACAT
* * *
70535229 ATATGCTAATATAAACTTTATCTTCA
1 AAATGTTAATATAAATTTTATCTTCA
70535255 TGAATTTTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
76 1 0.01
77 50 0.54
78 41 0.45
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (78 bp):
AAATGTTAATATAAATTTTATCTTCACAAGATAAACTCGGAAATATATAAATAATGAAAAATTTA
AAATATGCAACAT
Found at i:70537094 original size:138 final size:138
Alignment explanation
Indices: 70536634--70537191 Score: 906
Period size: 138 Copynumber: 4.1 Consensus size: 138
70536624 TAGAAAAATG
*
70536634 AATTATATTCTTTCCAAAAGAATATTAACTTT-CATGTCTTTTATATTTTGATCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAA-TTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
* *
70536698 ATATAATTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATAAATCAAAT
65 ATATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTTTGTATAAATCAAAT
70536763 TCATATATT
130 TCATATATT
*
70536772 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAT
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
70536837 TATAACTGTTTACATTAATTAATTCGGTAAAATATA-AAAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
*
70536901 CA-AAATT
131 CATATATT
* * *
70536908 AATTATATTATTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
** * * *
70536973 TATAATTGTCCATATTAATTAATTCAGTAAAATATATATAATTAATATTTTATAAAAATCAAATT
66 TATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
70537038 CATATATT
131 CATATATT
*
70537046 AATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
70537111 TATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
70537176 CATATATT
131 CATATATT
70537184 AATTATAT
1 AATTATAT
70537192 CCATGTTCTC
Statistics
Matches: 385, Mismatches: 32, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
136 96 0.25
137 57 0.15
138 232 0.60
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
CATATATT
Found at i:70537130 original size:274 final size:275
Alignment explanation
Indices: 70536628--70537191 Score: 943
Period size: 274 Copynumber: 2.1 Consensus size: 275
70536618 GAAAGTTAGA
* *
70536628 AAAATGAATTATATTCTTTCCAAAAGAATATTAACTTTCATGTCTTTTATATTTTGATCGAAATT
1 AAAATTAATTATATTATTTCCAAAAGAATATTAACTTTCATGTCTTTTATATTTTGATCGAAATT
** * *
70536693 AATTAATATAATTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATAAAT
66 AATTAATATAATTGTCCATATTAATAAATTCAATAAAATATATACAATTAATATTTTATAAAAAT
70536758 CAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA
131 CAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA
* *
70536823 CCGAAATTAATTATTATAACTGTTTACATTAATTAATTCGGTAAAATATA-AAAATTAATATTTT
196 CCGAAATTAATTAATATAACTGTTTACATTAATTAATTCAGTAAAATATATAAAATTAATATTTT
70536887 GTATGAATCAAATTC
261 GTATGAATCAAATTC
*
70536902 AAAATTAATTATATTATTTTCAAAAGAATATTAA-TTTCCATGTCTTTTATATTTTGATCGAAAT
1 AAAATTAATTATATTATTTCCAAAAGAATATTAACTTT-CATGTCTTTTATATTTTGATCGAAAT
* * *
70536966 TAATTAATATAATTGTCCATATTAATTAATTCAGTAAAATATATATAATTAATATTTTATAAAAA
65 TAATTAATATAATTGTCCATATTAATAAATTCAATAAAATATATACAATTAATATTTTATAAAAA
*
70537031 TCAAATTCATATATTAATTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG
130 TCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG
* * *
70537096 ACCGAAATTAATTAATATAATTGTTTATATTAATTAATTCAGTAAAATATATACAATTAATATTT
195 ACCGAAATTAATTAATATAACTGTTTACATTAATTAATTCAGTAAAATATATAAAATTAATATTT
70537161 TGTATGAATCAAATTC
260 TGTATGAATCAAATTC
*
70537177 ATATATTAATTATAT
1 A-AAATTAATTATAT
70537192 CCATGTTCTC
Statistics
Matches: 270, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
273 3 0.01
274 226 0.84
275 29 0.11
276 12 0.04
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (275 bp):
AAAATTAATTATATTATTTCCAAAAGAATATTAACTTTCATGTCTTTTATATTTTGATCGAAATT
AATTAATATAATTGTCCATATTAATAAATTCAATAAAATATATACAATTAATATTTTATAAAAAT
CAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA
CCGAAATTAATTAATATAACTGTTTACATTAATTAATTCAGTAAAATATATAAAATTAATATTTT
GTATGAATCAAATTC
Found at i:70541490 original size:18 final size:18
Alignment explanation
Indices: 70541467--70541505 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
70541457 TTTTCCTTTG
70541467 TTGGGCTTGGCCTTACCA
1 TTGGGCTTGGCCTTACCA
*
70541485 TTGGGCTTGGCCTTGCCA
1 TTGGGCTTGGCCTTACCA
70541503 TTG
1 TTG
70541506 TCCTTAGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.26, G:0.31, T:0.36
Consensus pattern (18 bp):
TTGGGCTTGGCCTTACCA
Found at i:70545369 original size:28 final size:28
Alignment explanation
Indices: 70545313--70545377 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
70545303 TATACAGTAT
* *
70545313 TAGT-ACAGTCTGGGCCTTAGCCCTGTA
1 TAGTAACAGTCTGGGCCTAAGCCCTATA
*
70545340 TAGTAACAGTGTGGGCCTAAG-CCTAATA
1 TAGTAACAGTCTGGGCCTAAGCCCT-ATA
*
70545368 TAGTATCAGT
1 TAGTAACAGT
70545378 ACAGTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (28 bp):
TAGTAACAGTCTGGGCCTAAGCCCTATA
Found at i:70545558 original size:27 final size:27
Alignment explanation
Indices: 70545528--70545584 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
70545518 AGCATAGCTG
70545528 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
* * * *
70545555 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
70545582 CCA
1 CCA
70545585 ATAATAGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (27 bp):
CCAGAAACAGTAAATGTGGCAAAGCCA
Found at i:70545599 original size:27 final size:26
Alignment explanation
Indices: 70545535--70545619 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
70545525 CTGCCAGAAA
* *
70545535 CAGTAAATGTGGCAAAGCCACCAGTAT
1 CAGT-AATGTGGCATAGCCACCAATAT
70545562 CAGTAATTGTGGCATAGCCACCAATAAT
1 CAGTAA-TGTGGCATAGCCACCAAT-AT
* * *
70545590 -AGTGAATGTGACATAGTCACCAGTAT
1 CAGT-AATGTGGCATAGCCACCAATAT
70545616 -AGTA
1 CAGTA
70545620 CTTCCTCTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 38 0.76
28 4 0.08
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (26 bp):
CAGTAATGTGGCATAGCCACCAATAT
Found at i:70545786 original size:27 final size:27
Alignment explanation
Indices: 70545755--70545897 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
70545745 GCCATAATCA
* * * *
70545755 TCATTTTACCATATAGGGGTATTAAGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
70545782 TCATTTTACCATACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
70545809 TTATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
70545836 TCATTTTACCCTACAGGGACATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
70545863 TCATTTTACCCTATAGGGGTATTAGGG
1 TCATTTTACCCTACAGGGGCATTACGG
70545890 TCATTTTA
1 TCATTTTA
70545898 TCTATATTGG
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:70548687 original size:18 final size:18
Alignment explanation
Indices: 70548664--70548706 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
70548654 CAACTAATGG
70548664 CACTCACTAGAATTCCTA
1 CACTCACTAGAATTCCTA
**
70548682 CACTCACTAGAATTTTTA
1 CACTCACTAGAATTCCTA
70548700 CACTCAC
1 CACTCAC
70548707 AATGCACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.30
Consensus pattern (18 bp):
CACTCACTAGAATTCCTA
Found at i:70552232 original size:98 final size:98
Alignment explanation
Indices: 70552063--70552260 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
70552053 AGGGCTGTTA
70552063 CATCCATATAGTGCTCGCCCATAAACTTTCTCTTAAAAACCTCAAGAAAATATCCCCAAGTCAAA
1 CATCCATATAGTGCTCGCCCATAAACTTTCTCTTAAAAACCTCAAGAAAATATCCCCAAGTCAAA
70552128 TGATCAGTAGTAGTACCTCTCTTAATAGTATTC
66 TGATCAGTAGTAGTACCTCTCTTAATAGTATTC
*
70552161 CATCCATATGGTGCTCGCCCATAAACTTTCTCTTAAAAACCTCAAGAAAATATCCCCAAGTCAAA
1 CATCCATATAGTGCTCGCCCATAAACTTTCTCTTAAAAACCTCAAGAAAATATCCCCAAGTCAAA
*
70552226 TGATCAGTAGTAGTACCTTTCTTAATAGTATTC
66 TGATCAGTAGTAGTACCTCTCTTAATAGTATTC
70552259 CA
1 CA
70552261 CCAACGATAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (98 bp):
CATCCATATAGTGCTCGCCCATAAACTTTCTCTTAAAAACCTCAAGAAAATATCCCCAAGTCAAA
TGATCAGTAGTAGTACCTCTCTTAATAGTATTC
Found at i:70554724 original size:5 final size:5
Alignment explanation
Indices: 70554714--70554739 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
70554704 AAAAATTTCA
70554714 AGTCG AGTCG AGTCG AGTCG AGTCG A
1 AGTCG AGTCG AGTCG AGTCG AGTCG A
70554740 ATTAACGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.19
Consensus pattern (5 bp):
AGTCG
Found at i:70559144 original size:20 final size:20
Alignment explanation
Indices: 70559121--70559417 Score: 224
Period size: 20 Copynumber: 15.1 Consensus size: 20
70559111 GCACGAATGG
**
70559121 ACAAACAGGGGTACTGAAGT
1 ACAAACAGGGGTACCAAAGT
*
70559141 ACAAACAGGAGTACCAAAGT
1 ACAAACAGGGGTACCAAAGT
70559161 ACAAACAGGGGTACCAAAGT
1 ACAAACAGGGGTACCAAAGT
* * *
70559181 ACATACAGGAGTACCAAAAT
1 ACAAACAGGGGTACCAAAGT
*
70559201 ATAAACAGGGGTACCAAAGT
1 ACAAACAGGGGTACCAAAGT
* * * * * *
70559221 GCATACAAGAGTATCGAAGT
1 ACAAACAGGGGTACCAAAGT
*
70559241 ACAAGCAGGGGTACCAAAGT
1 ACAAACAGGGGTACCAAAGT
* * * *
70559261 ACATACAAGAGTACCGAAGT
1 ACAAACAGGGGTACCAAAGT
* *
70559281 ACAAA-TGGGGTACCAAAGA
1 ACAAACAGGGGTACCAAAGT
70559300 ACAAACAGGGGTACCAAAGT
1 ACAAACAGGGGTACCAAAGT
* * *
70559320 ACATACA--TG-ACCGAAGT
1 ACAAACAGGGGTACCAAAGT
* * **
70559337 ACAAACAAGGCTACTGAAGT
1 ACAAACAGGGGTACCAAAGT
* * ** * *
70559357 ATAAATAAAGGTATCGAAGT
1 ACAAACAGGGGTACCAAAGT
* *
70559377 ACAAATAGGGGTACCGAAGT
1 ACAAACAGGGGTACCAAAGT
** *
70559397 ACGTACAGGCGTACCAAAGT
1 ACAAACAGGGGTACCAAAGT
70559417 A
1 A
70559418 AATTCACATA
Statistics
Matches: 213, Mismatches: 60, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
17 13 0.06
18 1 0.00
19 14 0.07
20 185 0.87
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (20 bp):
ACAAACAGGGGTACCAAAGT
Found at i:70559165 original size:40 final size:40
Alignment explanation
Indices: 70559121--70559322 Score: 253
Period size: 40 Copynumber: 5.1 Consensus size: 40
70559111 GCACGAATGG
** *
70559121 ACAAACAGGGGTACTGAAGTACAAACAGGAGTACCAAAGT
1 ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAGT
*
70559161 ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAAT
1 ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAGT
* * * * *
70559201 ATAAACAGGGGTACCAAAGTGCATACAAGAGTATCGAAGT
1 ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAGT
* * *
70559241 ACAAGCAGGGGTACCAAAGTACATACAAGAGTACCGAAGT
1 ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAGT
* * * *
70559281 ACAAA-TGGGGTACCAAAGAACAAACAGGGGTACCAAAGT
1 ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAGT
70559320 ACA
1 ACA
70559323 TACATGACCG
Statistics
Matches: 141, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 31 0.22
40 110 0.78
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (40 bp):
ACAAACAGGGGTACCAAAGTACATACAGGAGTACCAAAGT
Found at i:70561587 original size:19 final size:19
Alignment explanation
Indices: 70561563--70561601 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
70561553 CGGCTCGGGC
70561563 GTGGTTCAACTATGGGGGT
1 GTGGTTCAACTATGGGGGT
* *
70561582 GTGGTTCTACTATGGTGGT
1 GTGGTTCAACTATGGGGGT
70561601 G
1 G
70561602 AGGAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.41, T:0.36
Consensus pattern (19 bp):
GTGGTTCAACTATGGGGGT
Found at i:70561674 original size:19 final size:19
Alignment explanation
Indices: 70561647--70561690 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
70561637 TAATTGAAAG
*
70561647 AGAGGAGAAAAAGGGGAGA
1 AGAGAAGAAAAAGGGGAGA
** *
70561666 AGAGAAGAAAATTGGTAGA
1 AGAGAAGAAAAAGGGGAGA
70561685 AGAGAA
1 AGAGAA
70561691 TGTGACTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.07
Consensus pattern (19 bp):
AGAGAAGAAAAAGGGGAGA
Found at i:70611362 original size:22 final size:23
Alignment explanation
Indices: 70611315--70611362 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
70611305 TGAATTGTGT
*
70611315 TTAT-TTATATGATTGTATTGAA
1 TTATGTTATATGATTGTATCGAA
*
70611337 -TATGTTATGTGATTGTA-CGAA
1 TTATGTTATATGATTGTATCGAA
70611358 TTATG
1 TTATG
70611363 AATGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (23 bp):
TTATGTTATATGATTGTATCGAA
Found at i:70613494 original size:25 final size:25
Alignment explanation
Indices: 70613453--70613531 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
70613443 CCTATAAATT
* *
70613453 GGTAAGCTTATACGAGCTGAGAATC
1 GGTAAGCTTACATGAGCTGAGAATC
*
70613478 GGTAAGCTCT-CATGAGCTG-CAATC
1 GGTAAGCT-TACATGAGCTGAGAATC
* * *
70613502 AGTAAGCTTATATGAGCTGAGAATT
1 GGTAAGCTTACATGAGCTGAGAATC
70613527 GGTAA
1 GGTAA
70613532 TCCCTAATGA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 19 0.44
25 22 0.51
26 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (25 bp):
GGTAAGCTTACATGAGCTGAGAATC
Found at i:70613516 original size:24 final size:25
Alignment explanation
Indices: 70613454--70613521 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
70613444 CTATAAATTG
* * *
70613454 GTAAGCTTATACGAGCTGAGAATCG
1 GTAAGCTTATATGAGCTGACAATCA
*
70613479 GTAAGCTCT-CATGAGCTG-CAATCA
1 GTAAGCT-TATATGAGCTGACAATCA
70613503 GTAAGCTTATATGAGCTGA
1 GTAAGCTTATATGAGCTGA
70613522 GAATTGGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 19 0.54
25 14 0.40
26 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (25 bp):
GTAAGCTTATATGAGCTGACAATCA
Found at i:70615220 original size:30 final size:30
Alignment explanation
Indices: 70615177--70615281 Score: 131
Period size: 30 Copynumber: 3.5 Consensus size: 30
70615167 GGATATTGAT
*
70615177 TATGTAAAGGGATGGTGACGACCATCAAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* * * *
70615207 TATGAAAAAGGATGGTGACAACCACCGAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* *
70615237 TATGAAAAGGGATGGCT-TCGACTATCAAAC
1 TATGAAAAGGGATGG-TGACGACCATCAAAC
70615267 TATGAAAAGGGATGG
1 TATGAAAAGGGATGG
70615282 CTTCGGCTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAC
Found at i:70615282 original size:30 final size:30
Alignment explanation
Indices: 70615234--70615399 Score: 179
Period size: 30 Copynumber: 5.5 Consensus size: 30
70615224 ACAACCACCG
*
70615234 AACTATGAAAAGGGATGGCTTCGACTATCA
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
70615264 AACTATGAAAAGGGATGGCTTCGGCTATCA
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
* * * *
70615294 ATCTATGAAAAGGAATGACTTAGGCTATCA
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
** * ***
70615324 ATTTATGAAAAGAGATATTTTCGGCTATCA
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
* * * * * *
70615354 GATTATGAAAAGGGATAGCTTTGGCTGTCG
1 AACTATGAAAAGGGATGGCTTCGGCTATCA
70615384 AACTATGAAAAGGGAT
1 AACTATGAAAAGGGAT
70615400 AACTTTGGTT
Statistics
Matches: 114, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 114 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (30 bp):
AACTATGAAAAGGGATGGCTTCGGCTATCA
Found at i:70615300 original size:60 final size:59
Alignment explanation
Indices: 70615237--70615430 Score: 199
Period size: 60 Copynumber: 3.2 Consensus size: 59
70615227 ACCACCGAAC
* * **
70615237 TATGAAAAGGGATGGCTTCGACTATCAAACTATGAAAAGGGATGGCTTCGGCTATCAAT
1 TATGAAAAGGGATGGCTTAGGCTATCAAACTATGAAAAGGGATAACTTCGGCTATCAAT
* * ** * **
70615296 CTATGAAAAGGAATGACTTAGGCTATCAATTTATGAAAAGAGATATTTTCGGCTATCAGAT
1 -TATGAAAAGGGATGGCTTAGGCTATCAAACTATGAAAAGGGATAACTTCGGCTATCA-AT
* * * * * *
70615357 TATGAAAAGGGATAGCTTTGGCTGTCGAACTATGAAAAGGGATAACTTTGGTTATCGAAT
1 TATGAAAAGGGATGGCTTAGGCTATCAAACTATGAAAAGGGATAACTTCGGCTATC-AAT
*
70615417 TAAGAAAAGGGATG
1 TATGAAAAGGGATG
70615431 TGTCAACCAT
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 104 0.97
61 3 0.03
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (59 bp):
TATGAAAAGGGATGGCTTAGGCTATCAAACTATGAAAAGGGATAACTTCGGCTATCAAT
Found at i:70615331 original size:90 final size:90
Alignment explanation
Indices: 70615232--70615430 Score: 222
Period size: 90 Copynumber: 2.2 Consensus size: 90
70615222 TGACAACCAC
* *
70615232 CGAACTATGAAAAGGGATGGCTTCGACTATCAAACTATGAAAAGGGATGGCTTCGGCTATC-AAT
1 CGAATTATGAAAAGGGATGGCTTCGACTATCAAACTATGAAAAGGGATAGCTTCGGCTATCGAA-
*
70615296 CTATGAAAAGGAATGACTTAGGCTAT
65 CTATGAAAAGGAATAACTTAGGCTAT
* *** * * * * *
70615322 C-AATTTATGAAAAGAGATATTTTCGGCTATCAGATTATGAAAAGGGATAGCTTTGGCTGTCGAA
1 CGAA-TTATGAAAAGGGATGGCTTCGACTATCAAACTATGAAAAGGGATAGCTTCGGCTATCGAA
* * *
70615386 CTATGAAAAGGGATAACTTTGGTTAT
65 CTATGAAAAGGAATAACTTAGGCTAT
*
70615412 CGAATTAAGAAAAGGGATG
1 CGAATTATGAAAAGGGATG
70615431 TGTCAACCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
89 2 0.02
90 82 0.93
91 4 0.05
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (90 bp):
CGAATTATGAAAAGGGATGGCTTCGACTATCAAACTATGAAAAGGGATAGCTTCGGCTATCGAAC
TATGAAAAGGAATAACTTAGGCTAT
Found at i:70615400 original size:30 final size:29
Alignment explanation
Indices: 70615234--70615429 Score: 162
Period size: 30 Copynumber: 6.6 Consensus size: 29
70615224 ACAACCACCG
* * *
70615234 AACTATGAAAAGGGATGGCTTCGACTATC
1 AACTATGAAAAGGGATAGCTTTGGCTATC
* *
70615263 AAACTATGAAAAGGGATGGCTTCGGCTATC
1 -AACTATGAAAAGGGATAGCTTTGGCTATC
* *
70615293 AATCTATGAAAAGGAAT-GACTTAGGCTATC
1 AA-CTATGAAAAGGGATAG-CTTTGGCTATC
* * *
70615323 AATTTATGAAAAGAGATA-TTTTCGGCTATC
1 AA-CTATGAAAAGGGATAGCTTT-GGCTATC
* *
70615353 AGATTATGAAAAGGGATAGCTTTGGCTGTC
1 A-ACTATGAAAAGGGATAGCTTTGGCTATC
* *
70615383 GAACTATGAAAAGGGATAACTTTGGTTATC
1 -AACTATGAAAAGGGATAGCTTTGGCTATC
* *
70615413 GAATTAAGAAAAGGGAT
1 -AACTATGAAAAGGGAT
70615430 GTGTCAACCA
Statistics
Matches: 142, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.04
30 132 0.93
31 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (29 bp):
AACTATGAAAAGGGATAGCTTTGGCTATC
Found at i:70616581 original size:31 final size:31
Alignment explanation
Indices: 70616538--70616678 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
70616528 TTTAACGGTT
*
70616538 ACTGGGTCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
70616569 ACTGGGCTGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
70616600 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
70616631 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
70616662 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
70616679 ACTATAAACG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:70616911 original size:24 final size:24
Alignment explanation
Indices: 70616884--70616990 Score: 144
Period size: 25 Copynumber: 4.4 Consensus size: 24
70616874 CTGGAGGCCT
*
70616884 AGCCTCTTTT-ATTAACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
70616908 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
70616932 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
* *
70616957 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
70616982 AGCCCTTTT
1 AGCCCTTTT
70616991 AGCACTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.06
24 26 0.33
25 47 0.60
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:70616953 original size:25 final size:25
Alignment explanation
Indices: 70616897--70616990 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
70616887 CTCTTTTATT
*
70616897 AACTGGGGCAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
70616921 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
70616946 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
70616971 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
70616991 AGCACTTCCT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:70617947 original size:27 final size:27
Alignment explanation
Indices: 70617902--70618253 Score: 203
Period size: 27 Copynumber: 13.0 Consensus size: 27
70617892 TACAATGGTG
* * * *
70617902 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
** * * *
70617929 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
** *
70617956 TTTTTATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTATAAA-TCAAGGGTA
* *
70617985 TTTCT-GTAATTTTATAAATTAGGGGTA
1 TTT-TGGTAATTTTATAAATCAAGGGTA
* **
70618012 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
* * * *
70618039 TTTCGGTAATTTCACAAA-CTAGCGGTA
1 TTTTGGTAATTTTATAAATCAAG-GGTA
* *
70618066 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTATAAATC-AAGGGTA
* *
70618093 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTATAAATC-AAGGGTA
* * * * * *
70618120 TTTTAGCAATTTTACAGA-CTAGGGTT
1 TTTTGGTAATTTTATAAATCAAGGGTA
* *
70618146 TTTTGGTAATTTTACT-GATCGAGGGTA
1 TTTTGGTAATTTTA-TAAATCAAGGGTA
* *
70618173 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
* * *
70618200 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
***** *
70618227 AAACAGTAATTCTATAAATCAAGGGTA
1 TTTTGGTAATTTTATAAATCAAGGGTA
70618254 AAACAGTAAT
Statistics
Matches: 262, Mismatches: 54, Indels: 18
0.78 0.16 0.05
Matches are distributed among these distances:
26 22 0.08
27 210 0.80
28 16 0.06
29 13 0.05
30 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTATAAATCAAGGGTA
Found at i:70618199 original size:80 final size:81
Alignment explanation
Indices: 70617902--70618212 Score: 263
Period size: 81 Copynumber: 3.8 Consensus size: 81
70617892 TACAATGGTG
* * * * ** ** * *
70617902 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTTA-TAAT
1 TTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACTAAGGGTA-TTTTAGTAA-
* *
70617966 TTTTAGAAAGTCAAG-GGTA
64 TTTTACAAA--CTAGCGGTA
* ** * * **
70617985 TTTCT-GTAATTTTATAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAAT
1 TTT-TGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAAT
*
70618049 TTCACAAACTAGCGGTA
65 TTTACAAACTAGCGGTA
* * *
70618066 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGCAATT
1 TTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATT
* *
70618131 TTACAGACTAG-GGTT
66 TTACAAACTAGCGGTA
* * ** *
70618146 TTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAAT
1 TTTTGGTAATTTTAC-AAACGAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAAT
70618210 TTT
65 TTT
70618213 GTAAATCGAG
Statistics
Matches: 185, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
80 62 0.34
81 71 0.38
82 10 0.05
83 41 0.22
84 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
TTTTGGTAATTTTACAAACGAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATT
TTACAAACTAGCGGTA
Found at i:70618221 original size:54 final size:54
Alignment explanation
Indices: 70617902--70618226 Score: 248
Period size: 54 Copynumber: 6.0 Consensus size: 54
70617892 TACAATGGTG
* * ** * * * *
70617902 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCTAGGGTA
** * *
70617956 TTTTTATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAATTTTATAAAT-TAGGGGTA
1 TTTTGGTAA-TTTTACAAA-CCAAGGGTATTT-TGGTAATTTTATAAATCTA-GGGTA
*** * * *
70618012 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAGCGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCTAG-GGTA
* * *
70618066 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCTA-GGGTA
* * * * * * *
70618120 TTTTAGCAATTTTACAGA-CTAGGGTTTTTTGGTAATTTTACT-GATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-TAAATCTAGGGTA
** * * *
70618173 TTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCTAGGGTA
70618227 AAACAGTAAT
Statistics
Matches: 215, Mismatches: 44, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
53 39 0.18
54 126 0.59
55 16 0.07
56 34 0.16
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCTAGGGTA
Found at i:70618254 original size:27 final size:27
Alignment explanation
Indices: 70618204--70618334 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
70618194 AGGGTATTTT
* *
70618204 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
70618231 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
70618258 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
70618285 GGCAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
70618312 GGTAATTCTATAAATCGATGGTA
1 AGTAATTCTATAAATCGAGGGTA
70618335 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:70625169 original size:27 final size:27
Alignment explanation
Indices: 70625139--70625192 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
70625129 AGGGGTAAAC
70625139 ATGATA-CGAAATCCATAGTAACTCTAT
1 ATGATATC-AAATCCATAGTAACTCTAT
70625166 ATGATATCAAATCCATAGTAACTCTAT
1 ATGATATCAAATCCATAGTAACTCTAT
70625193 CTCATTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
ATGATATCAAATCCATAGTAACTCTAT
Found at i:70640205 original size:27 final size:27
Alignment explanation
Indices: 70640126--70640206 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
70640116 ACCCCAAAAT
* *
70640126 GGGTAAAATAACCATAATACCCCTATA
1 GGGTAAAATGACCATAATACCCCTGTA
*
70640153 GGGTAAAATGACCATAATGCCCCTGTA
1 GGGTAAAATGACCATAATACCCCTGTA
* * *
70640180 GGGTAAAATGACCGTGATACCTCTGTA
1 GGGTAAAATGACCATAATACCCCTGTA
70640207 TAGCAAAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCATAATACCCCTGTA
Found at i:70640412 original size:27 final size:27
Alignment explanation
Indices: 70640360--70640455 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 27
70640350 GGAAGTATTG
* **
70640360 TACTGGTGACTATGTTAC-ATTCACTGT
1 TACTGGTGGCTATGCCACAATT-ACTGT
*
70640387 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGT
* * *
70640414 TACAGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACAATTACTGT
* **
70640441 TTCTGGCAGCTATGC
1 TACTGGTGGCTATGC
70640456 TACATTATTA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
27 52 0.95
28 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGT
Found at i:70644081 original size:125 final size:125
Alignment explanation
Indices: 70643859--70644092 Score: 416
Period size: 125 Copynumber: 1.9 Consensus size: 125
70643849 AGCAAATGTG
*
70643859 AGTTTTGGCTCTGAGAAGTTGGTTTTCTAGGACATATAGTATCGGCTGATGGCATCAGAGTTGAT
1 AGTTTTGGCTCTGAGAAGTTGGTTTTCTAGGACATATAGTATCGGCTGATGGCATCAAAGTTGAT
70643924 CCAAGTAAAATTTCAACAGTTTGTGACTGGAAACCACTGAGAAATGTATCTGAAGTTAGA
66 CCAAGTAAAATTTCAACAGTTTGTGACTGGAAACCACTGAGAAATGTATCTGAAGTTAGA
* **
70643984 AGTTTTGGCTCTGAGAAGTTGGTTTTCTGGGACATATAGTATCGGCTGATGTTATCAAAGTTGAT
1 AGTTTTGGCTCTGAGAAGTTGGTTTTCTAGGACATATAGTATCGGCTGATGGCATCAAAGTTGAT
70644049 CCAAGTAAAATTTCAACAG-TTGTTGACTGGAAACCACTGAGAAA
66 CCAAGTAAAATTTCAACAGTTTG-TGACTGGAAACCACTGAGAAA
70644093 GATGTGATGT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
124 3 0.03
125 101 0.97
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (125 bp):
AGTTTTGGCTCTGAGAAGTTGGTTTTCTAGGACATATAGTATCGGCTGATGGCATCAAAGTTGAT
CCAAGTAAAATTTCAACAGTTTGTGACTGGAAACCACTGAGAAATGTATCTGAAGTTAGA
Found at i:70646294 original size:24 final size:24
Alignment explanation
Indices: 70646262--70646308 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
70646252 ATGTACAGTG
**
70646262 ATTAGAATTTGAAGGCAGTTGGGT
1 ATTAGAATTCAAAGGCAGTTGGGT
70646286 ATTAGAATTCAAAGGCAGTTGGG
1 ATTAGAATTCAAAGGCAGTTGGG
70646309 AGAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (24 bp):
ATTAGAATTCAAAGGCAGTTGGGT
Found at i:70652072 original size:46 final size:45
Alignment explanation
Indices: 70652019--70652194 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
70652009 TATTTGGGCA
70652019 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
70652065 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
70652112 TCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
70652158 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70652195 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:70652174 original size:93 final size:93
Alignment explanation
Indices: 70652015--70652186 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
70652005 AGGATATTTG
* * *
70652015 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
70652080 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
70652108 GGCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
70652173 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
70652187 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:70655931 original size:12 final size:11
Alignment explanation
Indices: 70655914--70655947 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
70655904 ATTTTGCGAC
70655914 ATACCCTTGAAG
1 ATACCC-TGAAG
*
70655926 ATACCCTAAAG
1 ATACCCTGAAG
70655937 ATACCCTGAAG
1 ATACCCTGAAG
70655948 CTGAGCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (11 bp):
ATACCCTGAAG
Found at i:70657579 original size:8 final size:8
Alignment explanation
Indices: 70657554--70657590 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
70657544 CTGAGTATAG
70657554 TAGGG-TT
1 TAGGGTTT
70657561 TAGGG-TT
1 TAGGGTTT
70657568 TAGGGTTT
1 TAGGGTTT
70657576 TAGGGTTT
1 TAGGGTTT
70657584 TAGGGTT
1 TAGGGTT
70657591 ATCAAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.46
Consensus pattern (8 bp):
TAGGGTTT
Found at i:70657579 original size:15 final size:14
Alignment explanation
Indices: 70657554--70657590 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
70657544 CTGAGTATAG
70657554 TAGGGTTTAGGGTT
1 TAGGGTTTAGGGTT
70657568 TAGGGTTTTAGGGTTT
1 TAGGG-TTTAGGG-TT
70657584 TAGGGTT
1 TAGGGTT
70657591 ATCAAAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.46
Consensus pattern (14 bp):
TAGGGTTTAGGGTT
Found at i:70659074 original size:33 final size:33
Alignment explanation
Indices: 70659037--70659104 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
70659027 ACCCTTAGAG
70659037 AGAGAGAAAAAACTTTCATGGCCAAATTGGGTA
1 AGAGAGAAAAAACTTTCATGGCCAAATTGGGTA
* *
70659070 AGAGAGAAGAAACTTTCATGGCCAATTTGGGTA
1 AGAGAGAAAAAACTTTCATGGCCAAATTGGGTA
70659103 AG
1 AG
70659105 TTTCCTTGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (33 bp):
AGAGAGAAAAAACTTTCATGGCCAAATTGGGTA
Found at i:70662421 original size:35 final size:35
Alignment explanation
Indices: 70662352--70662421 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
70662342 AGACCAAGGA
* * *
70662352 AGAACCAATACTATAGATAGTATTGACTTGAACCT
1 AGAACCAATACTATAGAAAGTATTGACCTAAACCT
*
70662387 AGAACCAATACTATTGAAAGTATTGACCTAAACCT
1 AGAACCAATACTATAGAAAGTATTGACCTAAACCT
70662422 TATACGACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (35 bp):
AGAACCAATACTATAGAAAGTATTGACCTAAACCT
Found at i:70664158 original size:44 final size:42
Alignment explanation
Indices: 70664079--70664182 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 42
70664069 TGGCTGTGTA
* * *
70664079 AATGGCACTATGTGTGCGATACCAATATAAGTTCGGTTTAATGC
1 AATGGCACTAAGTGTGCAATACCAATATAAGTTCGG-CTAAT-C
* *
70664123 AATGGCACTAAGTGTGCAATA-TAAT-TATAGCTTCGGCTAATT
1 AATGGCACTAAGTGTGCAATACCAATATA-AG-TTCGGCTAATC
70664165 AATTGGCACTAAGTGTGC
1 AA-TGGCACTAAGTGTGC
70664183 TAGTTCGTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
42 4 0.08
43 24 0.46
44 24 0.46
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
AATGGCACTAAGTGTGCAATACCAATATAAGTTCGGCTAATC
Found at i:70670186 original size:2 final size:2
Alignment explanation
Indices: 70670179--70670203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
70670169 CACTGTATGT
70670179 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
70670204 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:70670596 original size:41 final size:41
Alignment explanation
Indices: 70670503--70670792 Score: 370
Period size: 41 Copynumber: 7.1 Consensus size: 41
70670493 CAAAAATTGT
* ** **
70670503 AAAACACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCATTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTCGGT--AAAACGCCGCTA
*
70670546 AAAA-TAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
70670586 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
* * * *
70670627 ACAACCAGAGCATTAGCGGCGCTTTCTGTAAAATGCCACT-
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
*
70670667 AAAACCAGAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
* * * *
70670708 AAAACCAGGGCCTTAGCGGCGCTTTCGGTAAAACACCACTA
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
* * *
70670749 AAAACTAGAACATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
70670790 AAA
1 AAA
70670793 GTCATATAAC
Statistics
Matches: 217, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
40 50 0.23
41 158 0.73
42 5 0.02
43 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
Found at i:70670687 original size:81 final size:82
Alignment explanation
Indices: 70670503--70670792 Score: 379
Period size: 81 Copynumber: 3.5 Consensus size: 82
70670493 CAAAAATTGT
* ** ** *
70670503 AAAACACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCATTAAAAA-TAGAGCATTAGCGGCG
1 AAAAC-CAGAGCATTAGCGGCGCTTTCGGT--AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG
*
70670566 CTTTCGGTAAAACGCCGCTA
63 CTTTCGGTAAAACGCCACTA
*
70670586 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAACAACCAGAGCATTAGCGGCGCTT
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTT
* *
70670651 TCTGTAAAATGCCACT-
66 TCGGTAAAACGCCACTA
* * *
70670667 AAAACCAGAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAACCAGGGCCTTAGCGGCGCTT
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTT
*
70670732 TCGGTAAAACACCACTA
66 TCGGTAAAACGCCACTA
* * *
70670749 AAAACTAGAACATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
70670793 GTCATATAAC
Statistics
Matches: 183, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
81 87 0.48
82 86 0.47
83 10 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (82 bp):
AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTT
TCGGTAAAACGCCACTA
Found at i:70670763 original size:122 final size:122
Alignment explanation
Indices: 70670503--70670792 Score: 386
Period size: 122 Copynumber: 2.4 Consensus size: 122
70670493 CAAAAATTGT
* * * * **
70670503 AAAACACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCATTAAAAATAGAGCATTAGCGGCGC
1 AAAAC-CAGAACATTAGCGGCGCTTTTGGT--AAAACGCCACTAAAACCAGAGCATTAGCGGCGC
* * *
70670567 TTTCGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
63 TTTCAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACACCACTA
* * *
70670627 ACAACCAGAGCATTAGCGGCGCTTTCT-GTAAAATGCCACTAAAACCAGAGCATTAGCGGCGCTT
1 AAAACCAGAACATTAGCGGCGCTTT-TGGTAAAACGCCACTAAAACCAGAGCATTAGCGGCGCTT
* *
70670691 TCAGTAAAACGCCGCTAAAAACCAGGGCCTTAGCGGCGCTTTCGGTAAAACACCACTA
65 TCAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACACCACTA
* *
70670749 AAAACTAGAACATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AAAACCAGAACATTAGCGGCGCTTTTGGTAAAACGCCACTAAAA
70670793 GTCATATAAC
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
121 1 0.01
122 121 0.82
123 15 0.10
124 9 0.06
125 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (122 bp):
AAAACCAGAACATTAGCGGCGCTTTTGGTAAAACGCCACTAAAACCAGAGCATTAGCGGCGCTTT
CAGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACACCACTA
Found at i:70670971 original size:14 final size:14
Alignment explanation
Indices: 70670949--70671046 Score: 61
Period size: 14 Copynumber: 6.7 Consensus size: 14
70670939 TTAATTATCA
*
70670949 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
70670963 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
70670977 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
70670991 TTAAGGTTTATGAGT
1 TTATGGTTTAAG-GT
*
70671006 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGGT
* * *
70671023 ATATGGTCTAGGGT
1 TTATGGTTTAAGGT
*
70671037 TTAAGGTTTA
1 TTATGGTTTA
70671047 GGAGTTAACT
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
14 49 0.79
15 3 0.05
17 1 0.02
18 9 0.15
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:70670984 original size:21 final size:21
Alignment explanation
Indices: 70670960--70671041 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
70670950 TATAGTTTAA
*
70670960 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
* *
70670981 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTAGGGTTTAAGATATAT
*
70671002 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
*
70671027 GGTCTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
70671042 GTTTAGGAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 2 0.04
25 15 0.31
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.43
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:70671014 original size:46 final size:46
Alignment explanation
Indices: 70670964--70671057 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
70670954 GTTTAAGGTT
* *
70670964 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTCTAGGGTTTAAGGTTTAGGAGTTAAC
70671010 TATGGTTTAAGATATATGGTCTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTCTAGGGTTTAAGGTTTAGGAGTTAAC
70671056 TA
1 TA
70671058 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.03, G:0.27, T:0.41
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTCTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:70671211 original size:7 final size:7
Alignment explanation
Indices: 70671084--70671211 Score: 64
Period size: 7 Copynumber: 18.0 Consensus size: 7
70671074 GATGAATTAT
70671084 GGGTTTA
1 GGGTTTA
*
70671091 GGGATTA
1 GGGTTTA
* *
70671098 TGATTTA
1 GGGTTTA
70671105 GGGTTTAA
1 GGGTTT-A
70671113 GGG-TTA
1 GGGTTTA
70671119 GGG-TT-
1 GGGTTTA
70671124 GGAGTTTA
1 GG-GTTTA
* *
70671132 AGGTGTAA
1 GGGT-TTA
*
70671140 GGGTTTG
1 GGGTTTA
*
70671147 GGGTTAA
1 GGGTTTA
*
70671154 GGGTTAA
1 GGGTTTA
*
70671161 AGGTTTA
1 GGGTTTA
70671168 GGGTTTA
1 GGGTTTA
*
70671175 GTGTTTA
1 GGGTTTA
* *
70671182 TGGGATAA
1 -GGGTTTA
* *
70671190 AGGTTAA
1 GGGTTTA
70671197 GAGGTTTA
1 G-GGTTTA
70671205 GGGTTTA
1 GGGTTTA
70671212 AATTAATTAG
Statistics
Matches: 90, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 61 0.68
8 20 0.22
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:70673113 original size:26 final size:29
Alignment explanation
Indices: 70673052--70673116 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 29
70673042 GGTGTGACTC
70673052 TTTTTATCTATTCCATAGTATTAGTCATTAGG
1 TTTTTATCTATTCCATAGTATTAGTCA-T--G
70673084 TTTTTATCTATTCCATAGTATT-GTC-T-
1 TTTTTATCTATTCCATAGTATTAGTCATG
70673110 TTTTTAT
1 TTTTTAT
70673117 GCACTGCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.21
29 1 0.03
31 3 0.09
32 22 0.67
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTTTATCTATTCCATAGTATTAGTCATG
Found at i:70677196 original size:19 final size:19
Alignment explanation
Indices: 70677174--70677214 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
70677164 TTTATTGATA
70677174 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
70677192 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
70677211 TTTT
1 TTTT
70677215 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:70679696 original size:15 final size:16
Alignment explanation
Indices: 70679678--70679710 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
70679668 TTCACTTGCA
70679678 TCTTTTTC-ACTCATT
1 TCTTTTTCAACTCATT
70679693 TCTTTTTCTAACTCATT
1 TCTTTTTC-AACTCATT
70679710 T
1 T
70679711 TCAAATCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (16 bp):
TCTTTTTCAACTCATT
Found at i:70682130 original size:27 final size:27
Alignment explanation
Indices: 70682092--70682143 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
70682082 TCGGAGGAAG
70682092 TACTGTACTGGTGGCTTTGCCACGTTT
1 TACTGTACTGGTGGCTTTGCCACGTTT
* *
70682119 TACTGTTCTGGTGGCTTTTCCACGT
1 TACTGTACTGGTGGCTTTGCCACGT
70682144 ATTATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.10, C:0.23, G:0.25, T:0.42
Consensus pattern (27 bp):
TACTGTACTGGTGGCTTTGCCACGTTT
Found at i:70682266 original size:21 final size:21
Alignment explanation
Indices: 70682240--70682279 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
70682230 TCCCCACATA
70682240 GTGTGTTGGTTGGTACGGGTG
1 GTGTGTTGGTTGGTACGGGTG
70682261 GTGTGTTGGTTGGTACGGG
1 GTGTGTTGGTTGGTACGGG
70682280 ATGGGTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.05, G:0.53, T:0.38
Consensus pattern (21 bp):
GTGTGTTGGTTGGTACGGGTG
Found at i:70693213 original size:40 final size:40
Alignment explanation
Indices: 70692981--70693206 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
70692971 TTGAATGATG
* * * *
70692981 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
70693021 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
70693061 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
70693101 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
70693141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
70693182 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
70693207 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:70696206 original size:27 final size:27
Alignment explanation
Indices: 70696176--70696353 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70696166 ATATTGAGTC
* * * *
70696176 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
70696203 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70696230 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
70696258 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
70696285 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
70696312 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70696339 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70696354 GTCCAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:70696315 original size:82 final size:81
Alignment explanation
Indices: 70696197--70696352 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70696187 TGCTATATAA
* *
70696197 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
70696262 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
70696279 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
70696343 CACTTAGTGC
65 CACTTAGTGC
70696353 TGTCCAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70697121 original size:2 final size:2
Alignment explanation
Indices: 70697114--70697150 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
70697104 ATGGGCTTAC
* *
70697114 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70697151 GCCGAATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70704449 original size:27 final size:27
Alignment explanation
Indices: 70704419--70704596 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70704409 ATATTGAGTC
* * * *
70704419 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
70704446 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70704473 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
70704501 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
70704528 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
70704555 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
70704582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
70704597 GTCCAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:70704558 original size:82 final size:81
Alignment explanation
Indices: 70704440--70704595 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70704430 TGCTATATAA
* *
70704440 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
70704505 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
70704522 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
70704586 CACTTAGTGC
65 CACTTAGTGC
70704596 TGTCCAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:70705361 original size:2 final size:2
Alignment explanation
Indices: 70705354--70705388 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
70705344 ATGGGCTTAC
* *
70705354 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70705389 GCCGAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70709212 original size:40 final size:40
Alignment explanation
Indices: 70709149--70709245 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
70709139 TAGTTATTTG
* *
70709149 TGGCACTTAGTGTGTGATACGACATAACTTTAGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAACTTCAGCTATATA
* * *
70709189 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAACTTCAGCTATATA
70709229 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
70709246 GATATCGAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAACTTCAGCTATATA
Found at i:70709269 original size:28 final size:28
Alignment explanation
Indices: 70709227--70709313 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
70709217 TTCGGCTATA
70709227 TATGGCACTTAGTGTGCGAGATATCGAG
1 TATGGCACTTAGTGTGCGAGATATCGAG
* **
70709255 TGTGGCACTTAGTGTGAAAGATATCGAG
1 TATGGCACTTAGTGTGCGAGATATCGAG
* *
70709283 TATGGCACTTAGTGTGCGAGACATTGAG
1 TATGGCACTTAGTGTGCGAGATATCGAG
70709311 TAT
1 TAT
70709314 TCAACGGCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCGAGATATCGAG
Found at i:70716145 original size:39 final size:38
Alignment explanation
Indices: 70716095--70716193 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 38
70716085 TGAATATAAT
* * *
70716095 AATTATAATTACCATAATTATAATAATTTTTGACCAAAA
1 AATTATAATTACAATAATTATAATAATATTCGACC-AAA
* * *
70716134 AATTACAATTACAATAATTATAATAATATTCGATCATA
1 AATTATAATTACAATAATTATAATAATATTCGACCAAA
70716172 AATTATAATTACAATAATTATA
1 AATTATAATTACAATAATTATA
70716194 GCAAGGATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 23 0.43
39 30 0.57
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGACCAAA
Found at i:70720380 original size:20 final size:18
Alignment explanation
Indices: 70720351--70720395 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
70720341 AACGAAAAGC
70720351 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
70720369 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
70720388 AGGGAAAA
1 AGGGAAAA
70720396 TTGAAGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:70721267 original size:19 final size:20
Alignment explanation
Indices: 70721245--70721292 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
70721235 AATTATATTG
*
70721245 AATTGAAAAAAATAT-AGTT
1 AATTGAAAAAAATATGAATT
*
70721264 AATT-AATTAAAATATGAATT
1 AATTGAA-AAAAATATGAATT
70721284 AATTGAAAA
1 AATTGAAAA
70721293 CTGGAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTGAAAAAAATATGAATT
Found at i:70721706 original size:18 final size:18
Alignment explanation
Indices: 70721666--70721731 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
70721656 AGATCGACTA
* *
70721666 TTACTAAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
* * *
70721685 TTACTGTATATTTGATTT
1 TTACTGAATAATTGATTG
70721703 TTACTGAATAATTGATTG
1 TTACTGAATAATTGATTG
*
70721721 TTACTGGATAA
1 TTACTGAATAA
70721732 CCGATCAGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 30 0.79
19 8 0.21
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:70731923 original size:41 final size:41
Alignment explanation
Indices: 70731845--70731964 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
70731835 AATACTCGAT
* * *
70731845 ATCTCGCACACTAAGTGCCAATACATAACTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTATTATA
70731887 ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATTATA
* * *
70731928 ATCTCGCACACTGAGTGCCTTACATAGTCAAAGCTAT
1 ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTAT
70731965 CTCGGTCTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 53 0.74
42 19 0.26
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATTATA
Found at i:70731979 original size:41 final size:41
Alignment explanation
Indices: 70731845--70732026 Score: 147
Period size: 41 Copynumber: 4.4 Consensus size: 41
70731835 AATACTCGAT
* * ** **
70731845 ATCTCGCACACTAAGTGCCAATACATAACTGAAGCTAT-TATA
1 ATCTCGCACACTAAGTGCC-TTACATAGCCAAAGCTATCT-CG
* **
70731887 ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTAT-TATA
1 ATCTCGCACACTAAGTGCCTTACATAGCCAAAGCTATCT-CG
* *
70731928 ATCTCGCACACTGAGTGCCTTACATAGTCAAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCTTACATAGCCAAAGCTATCTCG
* * * * *
70731969 GTCTCACACACTAAGTGCCATATATAGCCAAAGCTGTCTCG
1 ATCTCGCACACTAAGTGCCTTACATAGCCAAAGCTATCTCG
*
70732010 AAT-T-GCACATTAAGTGC
1 -ATCTCGCACACTAAGTGC
70732027 AATATATATA
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
40 11 0.09
41 88 0.73
42 21 0.17
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCTTACATAGCCAAAGCTATCTCG
Found at i:70742205 original size:19 final size:20
Alignment explanation
Indices: 70742163--70742206 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
70742153 AACCTATCCC
*
70742163 CATGCAACATATCATAATAT
1 CATGCAACATATCATAATAG
*
70742183 CATGCAACATAT-ATAATGG
1 CATGCAACATATCATAATAG
70742202 CATGC
1 CATGC
70742207 TCGATTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (20 bp):
CATGCAACATATCATAATAG
Found at i:70753177 original size:37 final size:37
Alignment explanation
Indices: 70753133--70753271 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
70753123 AGCTCAGACG
* * *
70753133 TAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
70753170 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
70753207 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
70753244 TAATCTCCACACGTAGTCATCGAGTCTT
1 TAATCTCCACACGTAGTCATCGGGTCTT
70753272 TAGAGCTCGG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (37 bp):
TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:70753611 original size:49 final size:47
Alignment explanation
Indices: 70753390--70753757 Score: 567
Period size: 47 Copynumber: 7.7 Consensus size: 47
70753380 CCCTTCGGGA
* * * * * *
70753390 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
70753437 CCTGTCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70753484 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70753531 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70753578 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70753627 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70753676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
70753723 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
70753758 AAAATCCTCG
Statistics
Matches: 301, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 204 0.68
49 96 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:70762387 original size:11 final size:11
Alignment explanation
Indices: 70762371--70762395 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70762361 AGTCGAATTA
70762371 ATTATTTTAAT
1 ATTATTTTAAT
70762382 ATTATTTTAAT
1 ATTATTTTAAT
70762393 ATT
1 ATT
70762396 TACAGCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:70762922 original size:21 final size:20
Alignment explanation
Indices: 70762898--70762937 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
70762888 CATGTATTTT
70762898 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
70762919 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
70762938 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:70762945 original size:20 final size:21
Alignment explanation
Indices: 70762903--70762945 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
70762893 ATTTTAATGA
*
70762903 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
70762924 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
70762944 TT
1 TT
70762946 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:70766764 original size:11 final size:11
Alignment explanation
Indices: 70766745--70766777 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
70766735 TCTGAGTCAG
*
70766745 AAAAATATTTT
1 AAAATTATTTT
70766756 AAAATTATTTT
1 AAAATTATTTT
70766767 AAAATTATTTT
1 AAAATTATTTT
70766778 CTATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:70785822 original size:27 final size:27
Alignment explanation
Indices: 70785792--70785932 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
70785782 GGGACGAAGT
70785792 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
* *
70785819 CACCACA-ACAGATATATGTGACAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
** *
70785846 CACCAGAT-CAGATAATCATGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
70785873 TACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
70785900 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
70785927 CACCAG
1 CACCAG
70785933 GACGCTCCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
26 10 0.11
27 80 0.85
28 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:70785932 original size:54 final size:54
Alignment explanation
Indices: 70785792--70785932 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
70785782 GGGACGAAGT
* *
70785792 CACCAGATACAGAT-ATTGTGGCAGAGCCACCACAACAGATATATGTGACAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGACAGAGC
** * *
70785846 CACCAGATCAGATAATCATGGCATAGCTACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGACAGAGC
70785900 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
70785933 GACGCTCCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGACAGAGC
Found at i:70787561 original size:26 final size:26
Alignment explanation
Indices: 70787530--70787635 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
70787520 TGAAATGCCC
*
70787530 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
70787556 ATCATGGAACATTTACCT-AACC-CT
1 ATCATGGAACATTTACCTAAACCATT
* *
70787580 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
70787606 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
70787632 ATCA
1 ATCA
70787636 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
24 18 0.25
25 7 0.10
26 46 0.65
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:70787588 original size:50 final size:50
Alignment explanation
Indices: 70787530--70787628 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
70787520 TGAAATGCCC
*
70787530 ATCATGGAACATTTACTTAAACCATTATCATGGAACATTTACCTAACCCT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCT
* *
70787580 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCC
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCC
70787629 ATTATCAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (50 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCT
Found at i:70792543 original size:27 final size:27
Alignment explanation
Indices: 70792495--70792653 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
70792485 GCGAGGCTTC
* *
70792495 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
70792522 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
70792548 CAGATATATGTGGCAGAGCCACCAG-TT
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
70792575 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
70792602 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
70792629 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
70792654 GAAGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:70792587 original size:54 final size:54
Alignment explanation
Indices: 70792513--70792653 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
70792503 GTGACGAAGT
* *
70792513 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAG-TTCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
70792567 CACCAGTTCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGTTCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
70792621 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGTTCAGATAATTGTGGCATAGCCACCAG
70792654 GAAGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGTTCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:70797531 original size:57 final size:59
Alignment explanation
Indices: 70797437--70797546 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 59
70797427 CACATATCGT
* * *
70797437 ATTACAGATTGCCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTC-AGAAGAGCTCA
1 ATTACAGATTACCAGTCCAGGCTAAATCCTATATGTAACATATGCTCGAGAAGAGCTCA
*
70797495 ATTA-AGATTACCAGTCCAGTCTAAATCCTA-ATTGTAACATATGCTCGAGAAG
1 ATTACAGATTACCAGTCCAGGCTAAATCCTATA-TGTAACATATGCTCGAGAAG
70797547 GATTATATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 1 0.02
57 36 0.78
58 9 0.20
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (59 bp):
ATTACAGATTACCAGTCCAGGCTAAATCCTATATGTAACATATGCTCGAGAAGAGCTCA
Found at i:70801257 original size:24 final size:24
Alignment explanation
Indices: 70801216--70801268 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
70801206 TACATGTATT
*
70801216 TATTTTTTTATTTATT-AAATAATA
1 TATTTTTTAATTTATTAAAAT-ATA
70801240 TATTTTTATAATTT-TTAAAATATA
1 TATTTTT-TAATTTATTAAAATATA
70801264 TATTT
1 TATTT
70801269 ACTAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTTAATTTATTAAAATATA
Found at i:70801561 original size:26 final size:26
Alignment explanation
Indices: 70801532--70801586 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
70801522 CACAATTATG
70801532 TAAATATTATTAAA-ATAAAATAATAA
1 TAAA-ATTATTAAATATAAAATAATAA
*
70801558 TAAAATTATTAAATATCAAATAATAA
1 TAAAATTATTAAATATAAAATAATAA
70801584 TAA
1 TAA
70801587 TTAAGCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAATTATTAAATATAAAATAATAA
Found at i:70802085 original size:50 final size:48
Alignment explanation
Indices: 70801980--70802077 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 48
70801970 TGTTTAATTT
* * **
70801980 AATTAATTCAGTTGTTTTAATTTTCTTTAGTTGCTTAAATACTTAGTTT
1 AATTAATTAAGTTGTTTTAATTTTCTTTAGTTGCTTAAATAATTA-TCG
70802029 AATTAATTAAGTTGTTTTGAATTTTCTTTAGTTGCTTAAATAATT-TCG
1 AATTAATTAAGTTGTTTT-AATTTTCTTTAGTTGCTTAAATAATTATCG
70802077 A
1 A
70802078 CATTTAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
48 2 0.05
49 17 0.39
50 25 0.57
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (48 bp):
AATTAATTAAGTTGTTTTAATTTTCTTTAGTTGCTTAAATAATTATCG
Found at i:70807079 original size:42 final size:42
Alignment explanation
Indices: 70806986--70807134 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 42
70806976 TACTGCCTGG
* * * *
70806986 AGCCTATGTTCTTGCCCGTGTAGCTCACACGGCCTGGACACA
1 AGCCTATGTCCTTGCCCATGTGGCTCACACGGCCTGGGCACA
* * *
70807028 TGCCCATGTCCTTTCCCATGTGGCTCACACGGCCTGGGCACA
1 AGCCTATGTCCTTGCCCATGTGGCTCACACGGCCTGGGCACA
* *
70807070 AGCCTATGTCCTTGCCCATGTGGCTCACATGGCTTGGGCACA
1 AGCCTATGTCCTTGCCCATGTGGCTCACACGGCCTGGGCACA
** * *
70807112 CTCCTATGTCCCTGGCCATGTGG
1 AGCCTATGTCCTTGCCCATGTGG
70807135 TTCTAAAGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.15, C:0.34, G:0.25, T:0.26
Consensus pattern (42 bp):
AGCCTATGTCCTTGCCCATGTGGCTCACACGGCCTGGGCACA
Found at i:70809399 original size:12 final size:12
Alignment explanation
Indices: 70809384--70809415 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
70809374 ACAGTGAGTT
70809384 ACACAGCCTACC
1 ACACAGCCTACC
*
70809396 ACACAGCTTACC
1 ACACAGCCTACC
70809408 ACACAGCC
1 ACACAGCC
70809416 ATCTAGCGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.47, G:0.09, T:0.09
Consensus pattern (12 bp):
ACACAGCCTACC
Found at i:70811345 original size:47 final size:46
Alignment explanation
Indices: 70811288--70811389 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 46
70811278 GTGGTTTAAC
* * *
70811288 CACATTTCTATTCTGGCAACTT-GACTACAATTATAGTGGCTCGACCA
1 CACATATCTATTATGGCAACTTAG-CTACAA-TATAGTGACTCGACCA
* *
70811335 CACATATCTATTATGGCAGCTTAGCTACAATATAGTGACTTGACCA
1 CACATATCTATTATGGCAACTTAGCTACAATATAGTGACTCGACCA
*
70811381 CATATATCT
1 CACATATCT
70811390 GATCTGACAG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 22 0.46
47 25 0.52
48 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (46 bp):
CACATATCTATTATGGCAACTTAGCTACAATATAGTGACTCGACCA
Found at i:70811388 original size:46 final size:47
Alignment explanation
Indices: 70811286--70811389 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 47
70811276 TGGTGGTTTA
* *
70811286 ACCACAT-T-TCTATTCTGGCAACTTGACTACAATTATAGTGGCTCG
1 ACCACATATATCTATTATGGCAACTTGACTACAATTATAGTGACTCG
* * *
70811331 ACCACACATATCTATTATGGCAGCTT-AGCTACAA-TATAGTGACTTG
1 ACCACATATATCTATTATGGCAACTTGA-CTACAATTATAGTGACTCG
70811377 ACCACATATATCT
1 ACCACATATATCT
70811390 GATCTGACAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 6 0.12
46 24 0.48
47 20 0.40
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (47 bp):
ACCACATATATCTATTATGGCAACTTGACTACAATTATAGTGACTCG
Found at i:70817014 original size:39 final size:39
Alignment explanation
Indices: 70816960--70817038 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
70816950 GTTTTAAGTG
70816960 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
1 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
*
70816999 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGTCGTA
1 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
70817038 T
1 T
70817039 GTTTATATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.41
Consensus pattern (39 bp):
TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
Found at i:70818458 original size:37 final size:37
Alignment explanation
Indices: 70818399--70818507 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
70818389 AGCTCAGACG
* * *
70818399 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
70818436 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
70818473 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
70818508 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:70818711 original size:48 final size:48
Alignment explanation
Indices: 70818657--70818788 Score: 255
Period size: 48 Copynumber: 2.8 Consensus size: 48
70818647 CATCGCCTAC
70818657 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
70818705 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
*
70818753 ATATTTCACACTAGCCATTCGGCTTTATCACATATA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATA
70818789 TGCATGTTCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
Found at i:70818828 original size:47 final size:47
Alignment explanation
Indices: 70818766--70818947 Score: 292
Period size: 47 Copynumber: 3.9 Consensus size: 47
70818756 TTTCACACTA
* *
70818766 GCCATTCGGCTTTATCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
70818813 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
70818860 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
70818907 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATC
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
70818948 GCATAAAATC
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:70818879 original size:22 final size:22
Alignment explanation
Indices: 70818804--70818922 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
70818794 GTTCATATTC
70818804 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
70818826 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
70818850 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
70818873 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
70818897 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
70818920 ATC
1 ATC
70818923 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:70822029 original size:43 final size:43
Alignment explanation
Indices: 70821971--70822141 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
70821961 TATCGAAATG
70821971 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATA-TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* *
70822015 TGATATCGGGCTTCGGGCCTAGCAAGCTATAATGCCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
70822058 TAATATCGAGCCTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** *
70822101 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
70822142 TGAGTTCAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 11 0.10
43 96 0.86
44 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:70822217 original size:40 final size:41
Alignment explanation
Indices: 70821988--70822220 Score: 168
Period size: 43 Copynumber: 5.6 Consensus size: 41
70821978 CGGGCTTCGG
***
70821988 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * ***
70822031 GCCTAGCAAGCTATAATGCCGGTGAGAT-AATATCGAGCCTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGCTTAAA
* *
70822074 GCCTAGCAGGCTATAATGCCAGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
70822117 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
70822158 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
70822198 ACCTAGCAGGCTAAATGCCGGTG
1 GCCTAGCAGGCTAAATGCCGGTG
70822221 TTTTGATAAA
Statistics
Matches: 156, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
40 31 0.20
41 30 0.19
42 11 0.07
43 83 0.53
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:70823503 original size:61 final size:61
Alignment explanation
Indices: 70823438--70823576 Score: 162
Period size: 60 Copynumber: 2.3 Consensus size: 61
70823428 CAGTGTTAAC
* * *
70823438 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCTATTACAAG--TCGAGA-TATAT
* * *
70823499 TGGGCC-TAGCCCATATCAGTATCAATCTGGGTCGTAACCCTATTACAAGTCGAGATATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCTATTACAAGTCGAGATATAT
70823559 TGGGCCTT-GCCCATATCA
1 TGGGCCTTAGCCCATATCA
70823577 GCACAGTTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
60 52 0.76
61 14 0.21
62 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (61 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAACCCTATTACAAGTCGAGATATAT
Found at i:70840667 original size:5 final size:5
Alignment explanation
Indices: 70840643--70840702 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
70840633 AAATCAGAGT
* * *
70840643 AATAA AATGAA AAT-A AATAA AATAA AATAA AA-AA TAAGAA CATTA AAT-A
1 AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA
70840692 AATAA AATAA A
1 AATAA AATAA A
70840703 GAAAAGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 10 0.22
5 29 0.63
6 7 0.15
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:70848275 original size:31 final size:31
Alignment explanation
Indices: 70848237--70848304 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
70848227 TGGGCCATAT
*
70848237 GAACGTGTGGGTCCACACGGGTGAACTACAC
1 GAACGTGTGGGTCCACACGGGTGAACCACAC
*
70848268 GAACGTGTGGGTCCACACTGGTGAACCACAC
1 GAACGTGTGGGTCCACACGGGTGAACCACAC
70848299 GAACGT
1 GAACGT
70848305 ATGGAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.16
Consensus pattern (31 bp):
GAACGTGTGGGTCCACACGGGTGAACCACAC
Found at i:70870323 original size:40 final size:40
Alignment explanation
Indices: 70870273--70870352 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
70870263 TGAAGTACAC
* *
70870273 GGCTTAGCGACATAGTTGTGTGTCATCTAAGAATTTATTA
1 GGCTTAGCGACATAGTCGTGTGTCACCTAAGAATTTATTA
* * *
70870313 GGCTTGGCGACATGGTCGTGTGTCACCTGAGAATTTATTA
1 GGCTTAGCGACATAGTCGTGTGTCACCTAAGAATTTATTA
70870353 AGGTTCCAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
GGCTTAGCGACATAGTCGTGTGTCACCTAAGAATTTATTA
Found at i:70871659 original size:30 final size:30
Alignment explanation
Indices: 70871623--70871684 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
70871613 ATCTACTAAT
70871623 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
1 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
70871653 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
1 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
70871683 CT
1 CT
70871685 ATCTTTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (30 bp):
CTTATATTCAAGTTTAAGAGCTCAAAAAGA
Found at i:70872505 original size:13 final size:13
Alignment explanation
Indices: 70872487--70872512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70872477 TTTTCCAAGT
70872487 ATAACGATTTATA
1 ATAACGATTTATA
70872500 ATAACGATTTATA
1 ATAACGATTTATA
70872513 TAAGGAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATAACGATTTATA
Done.