Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 195 of 276
Found at i:64569588 original size:10 final size:10
Alignment explanation
Indices: 64569573--64569597 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
64569563 CATGGGTTGA
64569573 GGCCATTTTG
1 GGCCATTTTG
64569583 GGCCATTTTG
1 GGCCATTTTG
64569593 GGCCA
1 GGCCA
64569598 AAATGAGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (10 bp):
GGCCATTTTG
Found at i:64570820 original size:21 final size:21
Alignment explanation
Indices: 64570794--64570836 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
64570784 TTTGCGAAAA
64570794 ACACTTCAATGTGACATCACT
1 ACACTTCAATGTGACATCACT
64570815 ACACTTCAATGTGACATCACT
1 ACACTTCAATGTGACATCACT
64570836 A
1 A
64570837 GATTCGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (21 bp):
ACACTTCAATGTGACATCACT
Found at i:64573540 original size:47 final size:47
Alignment explanation
Indices: 64573472--64573594 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
64573462 ATCCATAAGT
*
64573472 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
64573519 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
64573566 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
64573595 CATTCGCATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:64573633 original size:46 final size:48
Alignment explanation
Indices: 64573418--64573640 Score: 200
Period size: 47 Copynumber: 4.8 Consensus size: 48
64573408 TGTAACCCGC
* * *
64573418 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GC--GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
64573464 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
64573514 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * *
64573561 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
64573604 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64573641 TGCTCAACCA
Statistics
Matches: 156, Mismatches: 12, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 2 0.01
46 63 0.40
47 75 0.48
48 2 0.01
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:64581165 original size:47 final size:47
Alignment explanation
Indices: 64581096--64581552 Score: 914
Period size: 47 Copynumber: 9.7 Consensus size: 47
64581086 TTCGCATCCA
64581096 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581143 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581190 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581237 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581284 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581331 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581378 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581425 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581472 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
64581519 TTCACGAACTCGGACTCAACTCAACGAGTTCGGA
1 TTCACGAACTCGGACTCAACTCAACGAGTTCGGA
64581553 CATTCGCATC
Statistics
Matches: 410, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 410 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (47 bp):
TTCACGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
Found at i:64583691 original size:13 final size:13
Alignment explanation
Indices: 64583673--64583698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64583663 GATTAGGCAA
64583673 AATTATTTTGCAG
1 AATTATTTTGCAG
64583686 AATTATTTTGCAG
1 AATTATTTTGCAG
64583699 CGATAATTTA
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
AATTATTTTGCAG
Found at i:64589378 original size:18 final size:20
Alignment explanation
Indices: 64589341--64589385 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
64589331 AGATAATTTC
64589341 ATTCAAT-T-AAGTACTTCA
1 ATTCAATCTCAAGTACTTCA
64589359 ATT-AATCTCAAGTA-TTCA
1 ATTCAATCTCAAGTACTTCA
64589377 ATTCAATCT
1 ATTCAATCT
64589386 ATAATTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (20 bp):
ATTCAATCTCAAGTACTTCA
Found at i:64589922 original size:19 final size:19
Alignment explanation
Indices: 64589898--64589935 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
64589888 AATGAAGATG
64589898 ATACTAATTTGTTTTATTT
1 ATACTAATTTGTTTTATTT
64589917 ATACTAATTTGTTTTATTT
1 ATACTAATTTGTTTTATTT
64589936 TAGTTTAATA
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:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
ATACTAATTTGTTTTATTT
Found at i:64593404 original size:21 final size:21
Alignment explanation
Indices: 64593366--64593405 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
64593356 TTACCCCAAG
*
64593366 GAAGTCGATTGATCCATCACA
1 GAAGTCGATTCATCCATCACA
64593387 GAAGTCGGATTCAT-CATCA
1 GAAGTC-GATTCATCCATCA
64593406 AGACTGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
GAAGTCGATTCATCCATCACA
Found at i:64597025 original size:34 final size:34
Alignment explanation
Indices: 64596981--64597048 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
64596971 AATTGATAGC
64596981 AGGAAGGAGGAGTATAAACTCCTCGAACCACCCT
1 AGGAAGGAGGAGTATAAACTCCTCGAACCACCCT
*
64597015 AGGAATGAGGAGTATAAACTCCTCGAACCACCCT
1 AGGAAGGAGGAGTATAAACTCCTCGAACCACCCT
64597049 GACCATTCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.16
Consensus pattern (34 bp):
AGGAAGGAGGAGTATAAACTCCTCGAACCACCCT
Found at i:64598084 original size:15 final size:15
Alignment explanation
Indices: 64598050--64598291 Score: 108
Period size: 14 Copynumber: 16.9 Consensus size: 15
64598040 GATGTTTAGA
64598050 AATTTTTATTTTATT
1 AATTTTTATTTTATT
64598065 -A-TTTTATGTTT-TT
1 AATTTTTAT-TTTATT
** *
64598078 AATTTTTATTCAAACT
1 AATTTTTATT-TTATT
*
64598094 ACTTTTTATTTT-TT
1 AATTTTTATTTTATT
64598108 ATATTTTATATTTTATT
1 A-ATTTT-TATTTTATT
64598125 --TTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598138 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598152 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598166 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598180 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598194 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598208 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598222 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598236 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598250 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598264 -ATTTTATATTTTA-T
1 AATTTT-TATTTTATT
64598278 -ATTTTATATTTTAT
1 AATTTT-TATTTTAT
64598292 ATTTTATNNN
Statistics
Matches: 209, Mismatches: 8, Indels: 20
0.88 0.03 0.08
Matches are distributed among these distances:
13 9 0.04
14 172 0.82
15 10 0.05
16 16 0.08
17 2 0.01
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTATT
Found at i:64598108 original size:7 final size:7
Alignment explanation
Indices: 64598097--64598298 Score: 386
Period size: 7 Copynumber: 28.9 Consensus size: 7
64598087 TCAAACTACT
*
64598097 TTTTATT
1 TTTTATA
64598104 TTTTATA
1 TTTTATA
64598111 TTTTATA
1 TTTTATA
*
64598118 TTTTATT
1 TTTTATA
64598125 TTTTATA
1 TTTTATA
64598132 TTTTATA
1 TTTTATA
64598139 TTTTATA
1 TTTTATA
64598146 TTTTATA
1 TTTTATA
64598153 TTTTATA
1 TTTTATA
64598160 TTTTATA
1 TTTTATA
64598167 TTTTATA
1 TTTTATA
64598174 TTTTATA
1 TTTTATA
64598181 TTTTATA
1 TTTTATA
64598188 TTTTATA
1 TTTTATA
64598195 TTTTATA
1 TTTTATA
64598202 TTTTATA
1 TTTTATA
64598209 TTTTATA
1 TTTTATA
64598216 TTTTATA
1 TTTTATA
64598223 TTTTATA
1 TTTTATA
64598230 TTTTATA
1 TTTTATA
64598237 TTTTATA
1 TTTTATA
64598244 TTTTATA
1 TTTTATA
64598251 TTTTATA
1 TTTTATA
64598258 TTTTATA
1 TTTTATA
64598265 TTTTATA
1 TTTTATA
64598272 TTTTATA
1 TTTTATA
64598279 TTTTATA
1 TTTTATA
64598286 TTTTATA
1 TTTTATA
64598293 TTTTAT
1 TTTTAT
64598299 NNNNNNNNNN
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 192 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTATA
Found at i:64607171 original size:21 final size:21
Alignment explanation
Indices: 64607129--64607177 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
64607119 TAAACTGCAA
*
64607129 AAATATAACAAAAAAATTTAAT
1 AAAT-TAACAAAAAAATATAAT
64607151 AAATTAACAATAAAAA-ATAAT
1 AAATTAACAA-AAAAATATAAT
64607172 -AATTAA
1 AAATTAA
64607178 ACCATAGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 6 0.24
21 10 0.40
22 9 0.36
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATTAACAAAAAAATATAAT
Found at i:64608074 original size:3 final size:3
Alignment explanation
Indices: 64608066--64608092 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
64608056 CTGATTATAT
64608066 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
64608093 GCAATTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:64609499 original size:33 final size:31
Alignment explanation
Indices: 64609440--64609508 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 31
64609430 TTTTCTCCCT
**
64609440 TTTCCATTTCATTTAACATATTTTTTTGTATG
1 TTTCCATTTCATTTAACATAACTTTTT-TATG
* *
64609472 CTTTCCATTTCTTTTAATATAACTTTTTTATG
1 -TTTCCATTTCATTTAACATAACTTTTTTATG
64609504 TTTCC
1 TTTCC
64609509 GAAATAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 5 0.16
32 4 0.12
33 23 0.72
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.59
Consensus pattern (31 bp):
TTTCCATTTCATTTAACATAACTTTTTTATG
Found at i:64616354 original size:30 final size:30
Alignment explanation
Indices: 64616296--64616354 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
64616286 ATTTTCGAGC
**
64616296 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
64616326 CTAGGGGTAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
64616355 ATATAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:64616747 original size:46 final size:45
Alignment explanation
Indices: 64616689--64616864 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
64616679 GGGTCATTGT
* *
64616689 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACGA
*
64616735 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT---ACGA
* * * * *
64616783 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-AACGT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTACGA
* *
64616829 GAGCCAGTGTAATACATGTCTAGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
64616865 TATGAGATGT
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 4 0.04
46 52 0.49
47 27 0.25
48 22 0.21
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
Found at i:64623766 original size:40 final size:40
Alignment explanation
Indices: 64623704--64623921 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
64623694 AAACCAAGTA
* * ** * *
64623704 CCTTCGGGATTTA-ACCGGATATAGCCACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
64623743 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
64623783 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64623823 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATG
* *
64623863 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
64623903 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
64623922 TTATCATCCG
Statistics
Matches: 161, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.09
40 146 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:64625915 original size:63 final size:63
Alignment explanation
Indices: 64625811--64625937 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
64625801 AGGCCGCCTC
** *
64625811 GGATAGACAGAAATCTTACGTGGATTTGAAACGAAAGGAAATTGAATTTCAAGTCGGCAATAA
1 GGATAGACAGAAATCTTACGCAGATTTGAAACGAAACGAAATTGAATTTCAAGTCGGCAATAA
*
64625874 GGATAGATAGAAATCTTACGCAGATTTGAAACGAAACGAAATTGAATTTCAAGTCGGCAATAA
1 GGATAGACAGAAATCTTACGCAGATTTGAAACGAAACGAAATTGAATTTCAAGTCGGCAATAA
64625937 G
1 G
64625938 TTATTTTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (63 bp):
GGATAGACAGAAATCTTACGCAGATTTGAAACGAAACGAAATTGAATTTCAAGTCGGCAATAA
Found at i:64627256 original size:30 final size:30
Alignment explanation
Indices: 64627198--64627256 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
64627188 ATTTTCGAGC
**
64627198 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
64627228 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
64627257 ACATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:64627744 original size:46 final size:45
Alignment explanation
Indices: 64627596--64627809 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 45
64627586 ATTGTGAGCT
* * *
64627596 AGTGTCAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAA-CC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC--GA-GACGAAGCC
* * * *
64627642 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA-AGCC
*
64627690 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
* * * * * *
64627736 AGTGTAAGACATGTCTAGGACTTGCATCGG-CTATGAGATG-TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAAGCC
*
64627780 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
64627810 AACACAGATA
Statistics
Matches: 137, Mismatches: 22, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 64 0.47
47 29 0.21
48 18 0.13
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:64636677 original size:39 final size:40
Alignment explanation
Indices: 64636634--64636803 Score: 236
Period size: 40 Copynumber: 4.3 Consensus size: 40
64636624 TCCTCGTTCA
* * *
64636634 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
64636673 AATGCCTTCGGGACATAACCCGGATTTA-TCAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGT-AACTCGCACG
* *
64636713 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
* * *
64636753 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
*
64636793 AAGGCCTTCGG
1 AATGCCTTCGG
64636804 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.28
40 84 0.70
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACG
Found at i:64636732 original size:40 final size:39
Alignment explanation
Indices: 64636634--64636856 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 39
64636624 TCCTCGTTCA
* * * *
64636634 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
64636673 AATGCCTTCGGGACATAACCCGGATTTA-TCAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGT-AACTCGCAC
*
64636712 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
64636752 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* ** * * * *
64636792 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
64636833 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
64636857 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 37 0.23
40 114 0.71
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:64636856 original size:120 final size:119
Alignment explanation
Indices: 64636634--64636856 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
64636624 TCCTCGTTCA
* * * *
64636634 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
64636699 TATCAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TATCAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
64636753 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
*
64636817 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-TCAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
64636857 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 43 0.49
121 7 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TATCAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:64636865 original size:41 final size:41
Alignment explanation
Indices: 64636788--64636865 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
64636778 TTAGTATCTC
* * *
64636788 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
64636829 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
64636866 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:64641686 original size:79 final size:82
Alignment explanation
Indices: 64641575--64641759 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
64641565 GCTACTCGTT
* * *
64641575 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64641638 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
64641655 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
64641718 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64641735 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64641760 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64641759 original size:40 final size:40
Alignment explanation
Indices: 64641556--64641759 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
64641546 CGGAATTTAA
** *
64641556 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
64641596 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64641636 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64641675 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64641715 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64641755 CCGGA
1 CCGGA
64641760 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64644867 original size:30 final size:30
Alignment explanation
Indices: 64644833--64644893 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
64644823 TCCTTAACTC
*
64644833 AAACTTTTGTAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
64644863 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
64644893 A
1 A
64644894 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:64648743 original size:43 final size:41
Alignment explanation
Indices: 64648611--64648765 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 41
64648601 TTTAGGCTAT
*
64648611 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
** * *
64648653 GTGTAAGACCATATCTGGGATATGAAATCGATGTGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
* * *
64648695 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-C
* *
64648738 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
64648766 TGGTATGGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 64 0.68
43 30 0.32
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTC
Found at i:64650872 original size:29 final size:29
Alignment explanation
Indices: 64650840--64651138 Score: 197
Period size: 29 Copynumber: 10.3 Consensus size: 29
64650830 CGCCACGTAA
* *
64650840 GCATCCTTTTAACAAAGATAGCCACAAGG
1 GCATCCTTTTAACAGAGATAGCCACAAAG
* *
64650869 GCATCCATTTAACTA-AGATAGCCAAAAAG
1 GCATCCTTTTAAC-AGAGATAGCCACAAAG
** * *
64650898 GCATCCTTTTAATTGAGATAGCCATAAAT
1 GCATCCTTTTAACAGAGATAGCCACAAAG
* * ** *
64650927 GAATCCTTTTAACAGAGGTTTCCACGAAG
1 GCATCCTTTTAACAGAGATAGCCACAAAG
* * * * *
64650956 GAATTCATTTAATAGAGATAGCCATAAAG
1 GCATCCTTTTAACAGAGATAGCCACAAAG
* * *
64650985 GCATCATTTTTAACAGAGATCGCCACAAGG
1 GCATC-CTTTTAACAGAGATAGCCACAAAG
* * * * * *
64651015 GCATTCATTGAATAAAGA-AGCCAGAAAG
1 GCATCCTTTTAACAGAGATAGCCACAAAG
** *
64651043 GCATCCTTTTTAACAGAGATTTCCATAAAG
1 GCATCC-TTTTAACAGAGATAGCCACAAAG
* * * * *
64651073 GCTTCCTTATAATAGAGATCGCCATAAAG
1 GCATCCTTTTAACAGAGATAGCCACAAAG
* * * *
64651102 GCTTCCTTATAATAGAGATAGCTACAAAG
1 GCATCCTTTTAACAGAGATAGCCACAAAG
*
64651131 GCTTCCTT
1 GCATCCTT
64651139 ATAATAGAAA
Statistics
Matches: 207, Mismatches: 58, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
28 12 0.06
29 160 0.77
30 35 0.17
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (29 bp):
GCATCCTTTTAACAGAGATAGCCACAAAG
Found at i:64651115 original size:146 final size:146
Alignment explanation
Indices: 64650846--64651132 Score: 319
Period size: 146 Copynumber: 2.0 Consensus size: 146
64650836 GTAAGCATCC
* *
64650846 TTTTAACAAAGATAGCCACAAGGGCATCCATTTAACTAAGATAGCCAAAAAGGCATCCTTTTAAT
1 TTTTAACAAAGATAGCCACAAGGGCATCCATTGAACTAAGATAGCCAAAAAGGCATCCTTTTAAC
* * * * ** *
64650911 TGAGATAGCCATAAATGAATCCTTTTAACAGAGGTTTCCACGAAGGAATTCATTTAATAGAGATA
66 AGAGATAGCCATAAAGGAATCCTTATAACAGAGATCGCCACAAAGGAATTCATTTAATAGAGATA
*
64650976 GCCATAAAGGCATCAT
131 GCCACAAAGGCATCAT
* * * *
64650992 TTTTAACAGAGATCGCCACAAGGGCATTCATTGAA-TAAAGA-AGCCAGAAAGGCATCCTTTTTA
1 TTTTAACAAAGATAGCCACAAGGGCATCCATTGAACT-AAGATAGCCAAAAAGGCATCC-TTTTA
** ** * * * *
64651055 ACAGAGATTTCCATAAAGGCTTCCTTATAATAGAGATCGCCATAAAGG-CTTCCTTATAATAGAG
64 ACAGAGATAGCCATAAAGGAATCCTTATAACAGAGATCGCCACAAAGGAATTCATT-TAATAGAG
*
64651119 ATAGCTACAAAGGC
128 ATAGCCACAAAGGC
64651133 TTCCTTATAA
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
145 21 0.18
146 94 0.82
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (146 bp):
TTTTAACAAAGATAGCCACAAGGGCATCCATTGAACTAAGATAGCCAAAAAGGCATCCTTTTAAC
AGAGATAGCCATAAAGGAATCCTTATAACAGAGATCGCCACAAAGGAATTCATTTAATAGAGATA
GCCACAAAGGCATCAT
Found at i:64651139 original size:29 final size:29
Alignment explanation
Indices: 64650855--64651174 Score: 155
Period size: 29 Copynumber: 11.0 Consensus size: 29
64650845 CTTTTAACAA
* *
64650855 AGATAGCCACAAGGGCATCCATT-TAACTA-
1 AGATAGCCACAAAGGCTTCC-TTATAA-TAG
* * * *
64650884 AGATAGCCAAAAAGGCATCCTTTTAATTG
1 AGATAGCCACAAAGGCTTCCTTATAATAG
* * ** * *
64650913 AGATAGCCATAAATGAATCCTTTTAACAG
1 AGATAGCCACAAAGGCTTCCTTATAATAG
* ** * * *
64650942 AGGTTTCCACGAAGGAATTCATT-TAATAG
1 AGATAGCCACAAAGG-CTTCCTTATAATAG
* * * * *
64650971 AGATAGCCATAAAGGCATCATTTTTAACAG
1 AGATAGCCACAAAGGCTTC-CTTATAATAG
* * * * *
64651001 AGATCGCCACAAGGGCATTCATT-GAATAA
1 AGATAGCCACAAAGGC-TTCCTTATAATAG
* * * *
64651030 AGA-AGCCAGAAAGGCATCCTTTTTAACAG
1 AGATAGCCACAAAGGCTTCC-TTATAATAG
** *
64651059 AGATTTCCATAAAGGCTTCCTTATAATAG
1 AGATAGCCACAAAGGCTTCCTTATAATAG
* *
64651088 AGATCGCCATAAAGGCTTCCTTATAATAG
1 AGATAGCCACAAAGGCTTCCTTATAATAG
*
64651117 AGATAGCTACAAAGGCTTCCTTATAATAG
1 AGATAGCCACAAAGGCTTCCTTATAATAG
* * * * * *
64651146 AAATTGCCATAAGGGGTTCTTTATAATAG
1 AGATAGCCACAAAGGCTTCCTTATAATAG
64651175 GGAGTACATT
Statistics
Matches: 222, Mismatches: 60, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
27 2 0.01
28 16 0.07
29 165 0.74
30 37 0.17
31 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (29 bp):
AGATAGCCACAAAGGCTTCCTTATAATAG
Found at i:64661359 original size:16 final size:17
Alignment explanation
Indices: 64661326--64661360 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
64661316 TTTAAATGTC
64661326 ATTATTAGATTGGTTTT
1 ATTATTAGATTGGTTTT
64661343 ATTATTAGATT-GTTTT
1 ATTATTAGATTGGTTTT
64661359 AT
1 AT
64661361 AATAGTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (17 bp):
ATTATTAGATTGGTTTT
Found at i:64661779 original size:19 final size:19
Alignment explanation
Indices: 64661755--64661792 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
64661745 ATATTAACTC
64661755 GTTTTAGTGGTCGTAATTA
1 GTTTTAGTGGTCGTAATTA
64661774 GTTTTAGTGGTCGTAATTA
1 GTTTTAGTGGTCGTAATTA
64661793 ACTTCAAAAT
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:0.21, C:0.05, G:0.26, T:0.47
Consensus pattern (19 bp):
GTTTTAGTGGTCGTAATTA
Found at i:64664210 original size:39 final size:39
Alignment explanation
Indices: 64664155--64664371 Score: 294
Period size: 39 Copynumber: 5.6 Consensus size: 39
64664145 TTCCAACCCA
* * *
64664155 AATGCCTTCGGAACTTAGCCTGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
64664194 AATGCCTTTGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
64664233 AATGTCTTCGGGACTTAGCCCGGATATAATAGCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
64664272 AACGCCTTCGAGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
64664311 AATGCCTTCGGGACTTAGCCCGGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
64664349 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
64664372 TTAAAATCCT
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
38 20 0.13
39 132 0.84
40 6 0.04
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:64665822 original size:6 final size:6
Alignment explanation
Indices: 64665811--64665836 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
64665801 GTAAATAAAT
64665811 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
64665837 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:64667235 original size:23 final size:22
Alignment explanation
Indices: 64667183--64667235 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
64667173 TCCACGTCTT
*
64667183 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
64667205 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
64667228 TTTCTTTT
1 TTTCTTTT
64667236 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:64671031 original size:23 final size:22
Alignment explanation
Indices: 64670979--64671031 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
64670969 TCCTCGTCTT
*
64670979 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
64671001 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
64671024 TTTCTTTT
1 TTTCTTTT
64671032 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:64688008 original size:39 final size:39
Alignment explanation
Indices: 64687963--64688050 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
64687953 ATTTCCAACC
* *
64687963 CAAATGCCTTTGGAACTTAGCCCGGATATAACATTAGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATATAACATCAGCA
*
64688002 CAAATGCCTTCGGAACTTAGCCCGGATATAATATCAGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATATAACATCAGCA
64688041 -AGAATGCCTT
1 CA-AATGCCTT
64688051 ATAATACCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.02
39 44 0.98
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGAACTTAGCCCGGATATAACATCAGCA
Found at i:64688056 original size:22 final size:22
Alignment explanation
Indices: 64688028--64688072 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
64688018 TTAGCCCGGA
*
64688028 TATAATATCAGCAAGAATGCCT
1 TATAATACCAGCAAGAATGCCT
*
64688050 TATAATACCAGCACGAATGCCT
1 TATAATACCAGCAAGAATGCCT
64688072 T
1 T
64688073 CGGGACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (22 bp):
TATAATACCAGCAAGAATGCCT
Found at i:64691587 original size:26 final size:26
Alignment explanation
Indices: 64691516--64691592 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
64691506 CCAATTTCCA
*
64691516 TAAAAGGACACCTTTATTGCTATCTC
1 TAAAAGGACACCTTTATGGCTATCTC
* ** * *
64691542 TGAAAGGATGCCTTTGTGGCCATCTC
1 TAAAAGGACACCTTTATGGCTATCTC
*
64691568 TAAAAGGACACATTTATGGCTATCT
1 TAAAAGGACACCTTTATGGCTATCT
64691593 TAGTTAAAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (26 bp):
TAAAAGGACACCTTTATGGCTATCTC
Found at i:64691738 original size:29 final size:29
Alignment explanation
Indices: 64691584--64691832 Score: 225
Period size: 29 Copynumber: 8.6 Consensus size: 29
64691574 GACACATTTA
** *
64691584 TGGCTATCT-TAGTTAAAAGTGAGCCTTTA
1 TGGCTATCTCT-GTTAAAAGAAAGCCTTTG
* **
64691613 TGGCTATCTCAGTTAAAAGTGAGCCTTTG
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTG
** *
64691642 TGGCTATCT-TAGTTAAAAGTGAGCCTTTT
1 TGGCTATCTCT-GTTAAAAGAAAGCCTTTG
* * **
64691671 TGGTTATCTCAGTTAAAAGTGAGCCTTTG
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTG
* *
64691700 TGGCGATCTCTGTTATAAGAAAGCCTTTG
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTG
*
64691729 TGGCTATCTCTGTTATAAGAAAGCCTTTG
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTG
* *
64691758 TAG-TGATCTCTGTTATAAGAAAGCCTTTG
1 TGGCT-ATCTCTGTTAAAAGAAAGCCTTTG
* * * * * *
64691787 TGGCGATCCCTGCTAAAAGGATGCCTTTT
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTG
*
64691816 TGTCTATCTCTGTTAAA
1 TGGCTATCTCTGTTAAA
64691833 GGAATGTCTG
Statistics
Matches: 188, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
28 1 0.01
29 187 0.99
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (29 bp):
TGGCTATCTCTGTTAAAAGAAAGCCTTTG
Found at i:64691754 original size:87 final size:87
Alignment explanation
Indices: 64691588--64691832 Score: 267
Period size: 87 Copynumber: 2.8 Consensus size: 87
64691578 CATTTATGGC
* * * * **
64691588 TATCTTAGTTAAAAGTGAGCCTTTATGGCTATCTCAGTTAAAAGTGAGCCTTTGTGGCTATCT-T
1 TATCTCAGTTAAAAGTGAGCCTTTGTGGCGATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTCT
** * *
64691652 AGTTAAAAGTGAGCCTTTTTGGT
66 -GTTAAAAGAAAGCCTTTGTAGT
*
64691675 TATCTCAGTTAAAAGTGAGCCTTTGTGGCGATCTCTGTTATAAGAAAGCCTTTGTGGCTATCTCT
1 TATCTCAGTTAAAAGTGAGCCTTTGTGGCGATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTCT
*
64691740 GTTATAAGAAAGCCTTTGTAGT
66 GTTAAAAGAAAGCCTTTGTAGT
* * * ** * * * * * *
64691762 GATCTCTGTTATAAGAAAGCCTTTGTGGCGATCCCTGCTAAAAGGATGCCTTTTTGTCTATCTCT
1 TATCTCAGTTAAAAGTGAGCCTTTGTGGCGATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTCT
64691827 GTTAAA
66 GTTAAA
64691833 GGAATGTCTG
Statistics
Matches: 132, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
87 131 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (87 bp):
TATCTCAGTTAAAAGTGAGCCTTTGTGGCGATCTCTGTTAAAAGAAAGCCTTTGTGGCTATCTCT
GTTAAAAGAAAGCCTTTGTAGT
Found at i:64692028 original size:22 final size:21
Alignment explanation
Indices: 64692002--64692047 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
64691992 AAGCAAGGAT
64692002 AAAAGT-TAAGATTAAGAATAGA
1 AAAAGTATAA-ATTAAGAA-AGA
64692024 AAAAGTACTAAATTAAGAAAGA
1 AAAAGTA-TAAATTAAGAAAGA
64692046 AA
1 AA
64692048 TGGAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.50
23 8 0.36
24 3 0.14
ACGTcount: A:0.63, C:0.02, G:0.15, T:0.20
Consensus pattern (21 bp):
AAAAGTATAAATTAAGAAAGA
Found at i:64692578 original size:53 final size:51
Alignment explanation
Indices: 64692448--64692580 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 51
64692438 ATCTGTTCTG
* * *
64692448 CATTTAATAAAGTCACGTATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATAAAGTCACGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* * * *
64692499 -AATAAATTATGAT-ATGCATTATGTAACTCCCATGTTAGTTTAAAGTTTGCAT
1 CATTAAATAAAG-TCACGCATTATGTAACTCCCATGTTAG-TT-AAGTTTGCAT
* *
64692551 CATTAAATCAAGTCACGCATTAAGTAACTC
1 CATTAAATAAAGTCACGCATTATGTAACTC
64692581 ATTTGTTCAT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
50 29 0.45
51 3 0.05
52 11 0.17
53 22 0.34
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATAAAGTCACGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:64699506 original size:38 final size:38
Alignment explanation
Indices: 64699464--64699657 Score: 300
Period size: 38 Copynumber: 5.1 Consensus size: 38
64699454 ATGCTAGAAT
*
64699464 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
64699502 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
64699540 TATATCCGGGTTAAATCCCGCAGGCTTCGTACT-GTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
64699577 TATATCCGGGTTAAATCCCACAGGCTTCGTGTTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * *
64699615 TATATCCGGGTTAAATCCAGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
64699653 TATAT
1 TATAT
64699658 TCGAGCCTTC
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
37 34 0.24
38 108 0.76
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:64699613 original size:75 final size:76
Alignment explanation
Indices: 64699464--64699657 Score: 291
Period size: 75 Copynumber: 2.6 Consensus size: 76
64699454 ATGCTAGAAT
* * *
64699464 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCAGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCCCACAGGCTT
64699529 CATGCTGGTAA
66 CATGCTGGTAA
*
64699540 TATATCCGGGTTAAATCCCGCAGGCTTCGTACT-GTAATATATCCGGGTTAAATCCCACAGGCTT
1 TATATCCGGGTTAAATCCAGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCCCACAGGCTT
* *
64699604 CGTGTTGGTAA
66 CATGCTGGTAA
* * * *
64699615 TATATCCGGGTTAAATCCAGCAGGCCTAGTGCTGGTATTATAT
1 TATATCCGGGTTAAATCCAGCAGGCTTCGTACTGGTAATATAT
64699658 TCGAGCCTTC
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 68 0.64
76 39 0.36
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCAGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCCCACAGGCTT
CATGCTGGTAA
Found at i:64699713 original size:43 final size:43
Alignment explanation
Indices: 64699633--64699808 Score: 257
Period size: 43 Copynumber: 4.1 Consensus size: 43
64699623 GGTTAAATCC
* * * *
64699633 AGCAGGCCTAGTGCTGGT-AT-TATATTCGAGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
64699674 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
* * *
64699717 AGCAGGCTTTGTGATGATGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
**
64699760 AGCAGGCTTCGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
64699803 AGCAGG
1 AGCAGG
64699809 TGTAATGCTG
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 16 0.13
42 2 0.02
43 103 0.85
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
AGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCT
Found at i:64701200 original size:20 final size:20
Alignment explanation
Indices: 64701154--64701207 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
64701144 AAGAGTTGAT
64701154 AATGAGAGAAAAATAAAAGA
1 AATGAGAGAAAAATAAAAGA
64701174 AATTGAGAGAAGAAA-AAAAGA
1 AA-TGAGAGAA-AAATAAAAGA
64701195 AATGAGAGAAAAA
1 AATGAGAGAAAAA
64701208 GAAATTGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.09
20 10 0.31
21 16 0.50
22 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (20 bp):
AATGAGAGAAAAATAAAAGA
Found at i:64701221 original size:15 final size:15
Alignment explanation
Indices: 64701184--64701222 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
64701174 AATTGAGAGA
64701184 AGAAAAAAAGAAATG
1 AGAAAAAAAGAAATG
*
64701199 AGAGAAAAAGAAATTG
1 AGAAAAAAAGAAA-TG
64701215 -GAAAAAAA
1 AGAAAAAAA
64701223 AAGAGAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (15 bp):
AGAAAAAAAGAAATG
Found at i:64704353 original size:27 final size:27
Alignment explanation
Indices: 64704319--64704373 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
64704309 TTTTCCAAGC
64704319 CTTTGGTCACCCTCTATCAACCAATCA
1 CTTTGGTCACCCTCTATCAACCAATCA
64704346 CTTTGGTCACCCTCTATCAACCAATCA
1 CTTTGGTCACCCTCTATCAACCAATCA
64704373 C
1 C
64704374 ACTTATAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.38, G:0.07, T:0.29
Consensus pattern (27 bp):
CTTTGGTCACCCTCTATCAACCAATCA
Found at i:64709428 original size:10 final size:10
Alignment explanation
Indices: 64709413--64709471 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
64709403 ACACGCCAAC
64709413 AAGAGCTCAA
1 AAGAGCTCAA
*
64709423 AAGAGCTTAA
1 AAGAGCTCAA
* *
64709433 TAGAAGCTGAA
1 AAG-AGCTCAA
*
64709444 AAGAGCTGAA
1 AAGAGCTCAA
*
64709454 CAGAAGCTCAA
1 AAG-AGCTCAA
64709465 AAGAGCT
1 AAGAGCT
64709472 AATCCACCCG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 24 0.60
11 16 0.40
ACGTcount: A:0.47, C:0.15, G:0.24, T:0.14
Consensus pattern (10 bp):
AAGAGCTCAA
Found at i:64709445 original size:21 final size:21
Alignment explanation
Indices: 64709416--64709471 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
64709406 CGCCAACAAG
* *
64709416 AGCTCAAAAGAGCTTAATAGA
1 AGCTCAAAAGAGCTGAACAGA
*
64709437 AGCTGAAAAGAGCTGAACAGA
1 AGCTCAAAAGAGCTGAACAGA
64709458 AGCTCAAAAGAGCT
1 AGCTCAAAAGAGCT
64709472 AATCCACCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.14
Consensus pattern (21 bp):
AGCTCAAAAGAGCTGAACAGA
Found at i:64714137 original size:46 final size:46
Alignment explanation
Indices: 64714087--64714353 Score: 489
Period size: 46 Copynumber: 5.8 Consensus size: 46
64714077 TGGTTGAGCA
64714087 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
64714133 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
64714179 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
64714225 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
64714271 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
64714317 CCCGAGCTCGTTGTGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64714354 GCGGGTTACA
Statistics
Matches: 216, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 216 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64721808 original size:46 final size:46
Alignment explanation
Indices: 64721758--64721933 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
64721748 TGGTTGAGCA
64721758 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64721804 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
64721849 CATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64721897 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64721934 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 6 0.05
43 5 0.05
45 3 0.03
46 58 0.53
47 26 0.24
48 2 0.02
50 4 0.04
51 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64721914 original size:93 final size:93
Alignment explanation
Indices: 64721755--64721924 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
64721745 GGATGGTTGA
* *
64721755 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
64721820 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
64721848 GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
64721912 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
64721925 CCCTTATGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:64732758 original size:62 final size:61
Alignment explanation
Indices: 64732656--64732780 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 61
64732646 CGTGCTCGTT
* *
64732656 TGGGCTGGGCGTCGGCTAAGAGTGCTCGGAGCGTGGATTAACTCCAGTCTCCTATCAGGTG
1 TGGGTTGGGCGTCGGCTAAGAGTGCTCAGAGCGTGGATTAACTCCAGTCTCCTATCAGGTG
64732717 TGNGGTTGGGCGTCGGCTAAGAGTGCTCAGAGCGTGGATTAACTCCAGTCTCCTATCAGGTG
1 TG-GGTTGGGCGTCGGCTAAGAGTGCTCAGAGCGTGGATTAACTCCAGTCTCCTATCAGGTG
64732779 TG
1 TG
64732781 TATTTTCTCG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 2 0.03
62 59 0.97
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (61 bp):
TGGGTTGGGCGTCGGCTAAGAGTGCTCAGAGCGTGGATTAACTCCAGTCTCCTATCAGGTG
Found at i:64733102 original size:27 final size:27
Alignment explanation
Indices: 64733083--64733239 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
64733073 ATTACCAAAG
*
64733083 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
64733110 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
64733137 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
64733164 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
64733191 TACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
64733218 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
64733240 TAAAATACCC
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:64733130 original size:54 final size:54
Alignment explanation
Indices: 64733072--64733268 Score: 205
Period size: 54 Copynumber: 3.6 Consensus size: 54
64733062 CAATTTGTAA
* * *
64733072 AATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
**** * *
64733126 AATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
*** * ** *
64733180 AATTACCGTTTTACCCTTGATTTACAGAATTATTATTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
* * * * *
64733234 AATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AATTACCAAATTACCCTCGATTTACAGAATTACCA
64733269 AAATACCCCT
Statistics
Matches: 118, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
Found at i:64733258 original size:81 final size:81
Alignment explanation
Indices: 64733070--64733267 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 81
64733060 CTCAATTTGT
* *
64733070 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTAT
*
64733135 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *
64733151 AGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTATTAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTAT
64733216 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
64733232 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACC
64733268 AAAATACCCC
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:64733276 original size:54 final size:54
Alignment explanation
Indices: 64733218--64733441 Score: 195
Period size: 54 Copynumber: 4.1 Consensus size: 54
64733208 ATTATTATTT
* *
64733218 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTT-CAAAATTACCAAAATACCCTTGGTTTACAAAATTACCGAAA
* * * * ****
64733272 TACCC-CTAGTTTGTAAAATTACCAAAATACTACTT-GTTCGTGAAATTACCGAAA
1 TACCCTCGACTTT-CAAAATTACCAAAATAC-CCTTGGTTTACAAAATTACCGAAA
* * * * *
64733326 TACCCTCAATTTTTAAAATTACCAAAATACCCTTGATTTACAAAATTACGGAAA
1 TACCCTCGACTTTCAAAATTACCAAAATACCCTTGGTTTACAAAATTACCGAAA
* * * *
64733380 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGACTTTC--AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCGAAA
64733436 TACCCT
1 TACCCT
64733442 TGGTTTGTAG
Statistics
Matches: 136, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
53 5 0.04
54 82 0.60
55 9 0.07
56 40 0.29
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCGACTTTCAAAATTACCAAAATACCCTTGGTTTACAAAATTACCGAAA
Found at i:64733276 original size:81 final size:81
Alignment explanation
Indices: 64733070--64733374 Score: 211
Period size: 81 Copynumber: 3.8 Consensus size: 81
64733060 CTCAATTTGT
* * * **** *
64733070 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTACTAT
*
64733135 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * **** *
64733151 AGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTATTAT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTACTAT
64733216 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *** * * *
64733232 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTA-A-AATTACC
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATA-CCCTTGATT-TACAGAATTACT
*** * * ***
64733295 AAAATACTACTTG-TTCGT
64 ATTTTAC-CCTCGATTTAC
* * ** *
64733313 GAAATTACCGAAATACCCTCAATTTTTAAAATTACCAAAATACCCTTGATTTACAAAATTAC
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTAC
64733375 GGAAATACCC
Statistics
Matches: 176, Mismatches: 43, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
79 2 0.01
80 8 0.05
81 153 0.87
82 11 0.06
83 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:64733386 original size:27 final size:27
Alignment explanation
Indices: 64733070--64733470 Score: 171
Period size: 27 Copynumber: 14.8 Consensus size: 27
64733060 CTCAATTTGT
* *
64733070 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
64733097 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ***** * *
64733124 AGAATTACTGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
* *** **
64733151 AGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
64733178 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ** *** *
64733205 AGAATTATTATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *
64733232 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **
64733259 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTAC
* ***
64733286 AAAATTACCAAAATACTACTTG-TTCGT
1 AAAATTACCAAAATAC-CCTTGATTTAC
* * ** **
64733313 GAAATTACCGAAATACCCTCAATTTTT
1 AAAATTACCAAAATACCCTTGATTTAC
64733340 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
**
64733367 AAAATTACGGAAATACCCTTGACTTT-C
1 AAAATTACCAAAATACCCTTGA-TTTAC
* * *
64733394 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACCA-AAATACCCTTGATTTAC
** * **
64733423 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
* * *
64733450 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
64733471 TAGGATGAAA
Statistics
Matches: 301, Mismatches: 63, Indels: 20
0.78 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 272 0.90
28 9 0.03
29 18 0.06
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:64733530 original size:27 final size:27
Alignment explanation
Indices: 64733500--64733561 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
64733490 TACCCCTAAT
64733500 AGGTAAAAAGACCGTAA-AGCCCCTGTA
1 AGGTAAAAAGACCGTAATA-CCCCTGTA
** *
64733527 AGGTAAAGTGACCGTAATACCCTTGTA
1 AGGTAAAAAGACCGTAATACCCCTGTA
*
64733554 TGGTAAAA
1 AGGTAAAA
64733562 TGATGAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAATACCCCTGTA
Found at i:64734447 original size:24 final size:25
Alignment explanation
Indices: 64734371--64734440 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
64734361 AGGAAGTGCT
* * *
64734371 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
64734396 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
64734421 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
64734441 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:64734453 original size:24 final size:25
Alignment explanation
Indices: 64734371--64734453 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
64734361 AGGAAGTGCT
* *
64734371 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
64734395 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
* *
64734420 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
64734444 AAAAGAGGCT
1 AAAAGAGGCT
64734454 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:64734695 original size:31 final size:31
Alignment explanation
Indices: 64734660--64734774 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
64734650 TGTTTATAGT
64734660 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
64734691 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
64734722 AAAGGCTTCGGCCTAGTGATACGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
64734753 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
64734775 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 4 0.05
31 76 0.95
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:64735744 original size:24 final size:24
Alignment explanation
Indices: 64735716--64735779 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
64735706 TCACCCGAAT
* * *
64735716 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAA-A
*
64735740 TCGCACACGTAGTGCCATACTAAA
1 TCGCACACATAGTGCCATACTAAA
64735764 TCGCACACATAGTGCC
1 TCGCACACATAGTGCC
64735780 TAAAATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATACTAAA
Found at i:64736543 original size:28 final size:27
Alignment explanation
Indices: 64736511--64736600 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 27
64736501 CACATACCTG
* *
64736511 TATATGACCCACTACGCCCAATCACATT
1 TATATGGCCCA-TAGGCCCAATCACATT
*
64736539 TATATGGCCCATTTGGCCCAAATCACATT
1 TATATGGCCCA-TAGGCCC-AATCACATT
*
64736568 TATACGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCAT-AGGCCCAA-TCACATT
64736597 TATA
1 TATA
64736601 GTCATGCTCG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 18 0.34
29 35 0.66
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.28
Consensus pattern (27 bp):
TATATGGCCCATAGGCCCAATCACATT
Found at i:64736576 original size:29 final size:29
Alignment explanation
Indices: 64736526--64736600 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
64736516 GACCCACTAC
* **
64736526 GCCC-AATCACATTTATATGGCCCATTTG
1 GCCCAAATCACATTTATACGGCCCATCAG
64736554 GCCCAAATCACATTTATACGGCCCATCAG
1 GCCCAAATCACATTTATACGGCCCATCAG
*
64736583 GCCCAATTCACATTTATA
1 GCCCAAATCACATTTATA
64736601 GTCATGCTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 4 0.10
29 38 0.90
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
GCCCAAATCACATTTATACGGCCCATCAG
Found at i:64739582 original size:27 final size:27
Alignment explanation
Indices: 64739552--64739647 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 27
64739542 TTAGTTTACC
* *
64739552 AAATTACTAAAATATCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
64739579 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
*
64739606 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
64739633 AAATTACTGAAATAC
1 AAATTACTAAAATAC
64739648 TCCTGTAAGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:64739661 original size:27 final size:28
Alignment explanation
Indices: 64739603--64739666 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
64739593 CCCCCGATTT
**
64739603 ATAAAATTACTGAAATACCCTCGATTTG
1 ATAAAATTACTGAAATACCCTCGATAAG
64739631 -TAAAATTACTGAAATACTCCT-G-TAAG
1 ATAAAATTACTGAAATAC-CCTCGATAAG
64739657 ATAAAATTAC
1 ATAAAATTAC
64739667 CGTTTTACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 2 0.06
27 27 0.84
28 3 0.09
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (28 bp):
ATAAAATTACTGAAATACCCTCGATAAG
Found at i:64739691 original size:27 final size:27
Alignment explanation
Indices: 64739661--64739870 Score: 262
Period size: 27 Copynumber: 7.8 Consensus size: 27
64739651 TGTAAGATAA
* *
64739661 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
64739688 AATTACTATTTTACTCTCGA-TTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
64739714 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
64739741 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
64739768 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
*
64739795 AATTACCATTTTACCCTC-AGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
64739822 AATTACCGTTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
* *
64739849 AATTATCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
64739871 GTAAAATTAC
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 24 0.15
27 139 0.85
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:64739736 original size:107 final size:108
Alignment explanation
Indices: 64739618--64739880 Score: 266
Period size: 107 Copynumber: 2.5 Consensus size: 108
64739608 ATTACTGAAA
* *
64739618 TACCCTCGATTTGTAAAATTA-CTGAAATACTCCT-G-TAAGATAAAATTACCGTTTTACCCTCG
1 TACCCTCGATTTATAAAATTATC-GAAATAC-CCTCGAT-AGATAAAATTACCATTTTACCCTCG
* * * * *
64739680 ATTTATAGAATTACTATTTTACTCTC-GATTACAGAATTACCATTT
63 ATTTACAAAATTACCATTTTACCCTCAGATTACAAAATTACCATTT
* *** ** *
64739725 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTATCGAAATACCCTCGATAGATAAAATTACCATTTTACCCTCGATT
* *
64739790 TACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTT
66 TACAAAATTACCATTTTACCCTCAGATTACAAAATTACCATTT
* * *** *
64739833 TACCCTCAATTTACAAAATTATCGTTTTACCCTCGATTG-TAAAATTAC
1 TACCCTCGATTTATAAAATTATCGAAATACCCTCGATAGATAAAATTAC
64739881 TGAAATACCC
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
106 3 0.02
107 75 0.57
108 53 0.40
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (108 bp):
TACCCTCGATTTATAAAATTATCGAAATACCCTCGATAGATAAAATTACCATTTTACCCTCGATT
TACAAAATTACCATTTTACCCTCAGATTACAAAATTACCATTT
Found at i:64739758 original size:80 final size:81
Alignment explanation
Indices: 64739659--64739870 Score: 302
Period size: 81 Copynumber: 2.6 Consensus size: 81
64739649 CCTGTAAGAT
* * *
64739659 AAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACTCTCGA-TTACAGAATTACCAT
1 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAT
*
64739723 TTTACCCTC-GATTTAT
66 TTTACCCTCAG-TTTAC
* *
64739739 AGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAT
1 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAT
64739804 TTTACCCTCAGTTTAC
66 TTTACCCTCAGTTTAC
* * * * *
64739820 AAAATTACCGTTTTACCCTCAATTTACAAAATTATCGTTTTACCCTCGATT
1 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
64739871 GTAAAATTAC
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 45 0.38
81 71 0.61
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (81 bp):
AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAT
TTTACCCTCAGTTTAC
Found at i:64740115 original size:27 final size:27
Alignment explanation
Indices: 64739869--64740138 Score: 182
Period size: 27 Copynumber: 9.9 Consensus size: 27
64739859 TTACCCTCGA
*
64739869 TTGTAAAATTACTGAAATACCCTT-GT
1 TTGTAAAATTACCGAAATACCCTTGGT
** * * * *
64739895 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCGAAATACCCTTGGT
* * *
64739923 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCTTGGT
*
64739950 TTGTAAAATTACCGAAATACCATTGGT
1 TTGTAAAATTACCGAAATACCCTTGGT
* ** ***
64739977 TTGTGAAATTACATAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCCTTGGT
* * *
64740004 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCGAAATACCCTTGGT
** * *
64740031 TTACAAAATTACAGAAATACCCTTGACT
1 TTGTAAAATTACCGAAATACCCTTG-GT
* ** * *
64740059 TTCTAAAAATTATAGAAATACCATTTGT
1 TTGT-AAAATTACCGAAATACCCTTGGT
** *
64740087 TTACAAAATTACTGAAATACCCTTGGT
1 TTGTAAAATTACCGAAATACCCTTGGT
* * * *
64740114 TTGTAGATTTACCAAAACACCCTTG
1 TTGTAAAATTACCGAAATACCCTTG
64740139 TAGGATGAAA
Statistics
Matches: 189, Mismatches: 51, Indels: 7
0.77 0.21 0.03
Matches are distributed among these distances:
26 1 0.01
27 161 0.85
28 9 0.05
29 18 0.10
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTTGGT
Found at i:64741078 original size:25 final size:25
Alignment explanation
Indices: 64741040--64741109 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
64741030 AGGAAGTGCT
* *
64741040 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
64741065 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
64741090 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
64741110 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:64741367 original size:31 final size:31
Alignment explanation
Indices: 64741329--64741400 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
64741319 CGTTTACAGT
64741329 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
64741360 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
64741391 AAAGGCTTCG
1 AAAGGCTTCG
64741401 ACCTAGTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:64744131 original size:43 final size:43
Alignment explanation
Indices: 64744083--64744239 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
64744073 AACTCAGACA
* *
64744083 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCCAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCCAATATCG
* * * *
64744126 ATGCCATTGTCCCAGA-GAGGGTCTTACATAAAATCAAATA-CG
1 ATGCCAATGTCCCAGACG-TGGTCTTACATGAAATCCAATATCG
*** * * *
64744168 ATGCCAATGTCGTGGACATGGTCTTACACGCAACTCTCAA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AAATC-CAATATCG
64744212 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
64744240 CAAAATCACA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 24 0.27
43 37 0.42
44 28 0.31
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCCAATATCG
Found at i:64747368 original size:28 final size:28
Alignment explanation
Indices: 64747337--64747471 Score: 207
Period size: 28 Copynumber: 4.8 Consensus size: 28
64747327 GACATCAAAT
*
64747337 ATGGCACTTTGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
64747365 ATGGCACTTAGTATGTGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
64747393 ATGGCACTTAGTGTACAAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
64747421 ATGACACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
64747449 ATGGCACTCAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
64747472 CAAATGATTC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 95 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:64765066 original size:42 final size:41
Alignment explanation
Indices: 64764966--64765121 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 41
64764956 CAATGCCAAC
* * * * *
64764966 GTCCCAAACGTGGTCTTACATGTAATCCAATATCGATGCCACT
1 GTCCCAAACATGGTCTTACACGAAATCAAATA-CGATG-CAAT
* * * * *
64765009 GTCCCAGAGAGGGTCTTACACGAAATCAAATAGGATGCTGAT
1 GTCCCAAACATGGTCTTACACGAAATCAAATACGATGC-AAT
64765051 GTCCCAAACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAT
1 GTCCCAAACATGGTCTTACACG-AAA--TCAAATACGATG-CAAT
*
64765095 GTCCC-AACGTGGTCTTACACGAAATCA
1 GTCCCAAACATGGTCTTACACGAAATCA
64765122 CATATCAGAA
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 27 0.29
43 43 0.47
44 11 0.12
45 7 0.08
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (41 bp):
GTCCCAAACATGGTCTTACACGAAATCAAATACGATGCAAT
Found at i:64765109 original size:85 final size:85
Alignment explanation
Indices: 64764966--64765121 Score: 228
Period size: 85 Copynumber: 1.8 Consensus size: 85
64764956 CAATGCCAAC
* * *
64764966 GTCCCAAACGTGGTCTTACATGTAATCCAATATCGATGCCACTGTCCCAGAGAGGGTCTTACACG
1 GTCCCAAACATGGTCTTACACGTAATCCAATATCGATGCCAATGTCCCAGAGAGGGTCTTACACG
64765031 AAATCAAATAGGATGCTGAT
66 AAATCAAATAGGATGCTGAT
*
64765051 GTCCCAAACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAATGTCCCA-ACG-TGGTCTTAC
1 GTCCCAAACATGGTCTTACACGT-AATC-CAATATCGATGCCAATGTCCCAGA-GAGGGTCTTAC
64765113 ACGAAATCA
63 ACGAAATCA
64765122 CATATCAGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
85 39 0.61
86 22 0.34
87 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (85 bp):
GTCCCAAACATGGTCTTACACGTAATCCAATATCGATGCCAATGTCCCAGAGAGGGTCTTACACG
AAATCAAATAGGATGCTGAT
Found at i:64765141 original size:44 final size:42
Alignment explanation
Indices: 64765020--64765141 Score: 108
Period size: 43 Copynumber: 2.8 Consensus size: 42
64765010 TCCCAGAGAG
*
64765020 GGTCTTACACGAAATCA-AAT-AGGATGCTGATGTCCCAAACAT
1 GGTCTTACACGAAATCACAATCA-GATCCT-ATGTCCCAAACAT
* * *
64765062 GGTCTTACACGTAAATCTCAAATC-GATGCCAATGTCCC-AACGT
1 GGTCTTACACG-AAATCAC-AATCAGAT-CCTATGTCCCAAACAT
64765105 GGTCTTACACGAAATCACATATCAGAAATCCTATGTC
1 GGTCTTACACGAAATCACA-ATCAG--ATCCTATGTC
64765142 ATGACATATG
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
41 1 0.02
42 20 0.31
43 21 0.32
44 17 0.26
45 6 0.09
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCACAATCAGATCCTATGTCCCAAACAT
Found at i:64766377 original size:22 final size:21
Alignment explanation
Indices: 64766335--64766386 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
64766325 CAATCAATTT
* *
64766335 CATACTCAATTTCATATCAAAG
1 CATAC-CAATTTAATACCAAAG
*
64766357 CATACCAATTTAACTACCAAAT
1 CATACCAATTTAA-TACCAAAG
64766379 CATACCAA
1 CATACCAA
64766387 GATGGACATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (21 bp):
CATACCAATTTAATACCAAAG
Found at i:64767081 original size:42 final size:41
Alignment explanation
Indices: 64767016--64767171 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
64767006 AACTCGCACA
* * *
64767016 ATGCCAACGTCTCAGAC-GTGGTCTTACATGTTATCAAAATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATC-AAATCG
* * * *
64767058 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAAT-CG
* * *
64767100 ATGCCAATGTCCCAAACATGGTCTTACATATAAATCTCAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGT-AA--TCAAATCG
64767144 ATGCCAATGTCCCAGAC-GCGGTCTTACA
1 ATGCCAATGTCCCAGACAG-GGTCTTACA
64767172 CGAAATCACA
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.03
42 54 0.59
43 3 0.03
44 27 0.29
45 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATCG
Found at i:64773701 original size:40 final size:40
Alignment explanation
Indices: 64773504--64773687 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
64773494 CGAATGATGT
* * * *
64773504 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
64773544 CCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
64773584 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
64773622 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
64773663 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64773688 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:64773709 original size:79 final size:79
Alignment explanation
Indices: 64773557--64773720 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 79
64773547 GACTAAGATT
* **
64773557 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
*
64773622 TCCGGGTTAAGTCC
66 TCCGGGTTAAATCC
* *
64773636 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
64773699 ATATCC-GGTTAAATTC
63 AAATCCGGGTTAAATCC
64773715 CGAAGG
1 CGAAGG
64773721 TACGTGATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATCC
Found at i:64775298 original size:33 final size:32
Alignment explanation
Indices: 64775243--64775340 Score: 81
Period size: 33 Copynumber: 3.0 Consensus size: 32
64775233 TAGTTCAACT
* *
64775243 ATGGTCTTACATATGCATTGCCATGACCCTGCC
1 ATGGTCTTACAT-TGCATTGCCATAACCCAGCC
**
64775276 ATGGTCTTACATT-CATAGTGCCATAACCCAGTT
1 ATGGTCTTACATTGCAT--TGCCATAACCCAGCC
** * *
64775309 ATGGTCTTATCATTAAAATGCCATAGCCCAGC
1 ATGGTCTTA-CATTGCATTGCCATAACCCAGC
64775341 TGTGGTATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
31 3 0.06
32 1 0.02
33 44 0.83
34 4 0.08
35 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (32 bp):
ATGGTCTTACATTGCATTGCCATAACCCAGCC
Found at i:64775396 original size:101 final size:101
Alignment explanation
Indices: 64775274--64775482 Score: 294
Period size: 101 Copynumber: 2.1 Consensus size: 101
64775264 CATGACCCTG
* * *
64775274 CCATGGTCTTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCCA
1 CCATGGTCTTACATTCATAGTGCCATAACCCAGTTATGATCTTATCATCAAAATGACATAGCCCA
* *
64775339 GCTGTGGTATTACATATAAACACTGTCAAGGTCCAA
66 GCTATGGTATTACATATAAACACTGCCAAGGTCCAA
* * * *
64775375 CCATGGTCTTAC-GTCTGTAGTGCCATAACCCAGTTATGATCTTATCATCAGAATGACATAGCCT
1 CCATGGTCTTACATTC-ATAGTGCCATAACCCAGTTATGATCTTATCATCAAAATGACATAGCCC
* * *
64775439 GGCTATGGTCTTACATATAAACACTGCCATGGTCCAA
65 AGCTATGGTATTACATATAAACACTGCCAAGGTCCAA
64775476 CCATGGT
1 CCATGGT
64775483 TTTTCATTTC
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 2 0.02
101 93 0.98
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (101 bp):
CCATGGTCTTACATTCATAGTGCCATAACCCAGTTATGATCTTATCATCAAAATGACATAGCCCA
GCTATGGTATTACATATAAACACTGCCAAGGTCCAA
Found at i:64793641 original size:27 final size:27
Alignment explanation
Indices: 64793611--64793701 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 27
64793601 CTCAACTTGT
*
64793611 AAAATTATCAAAGTACCCTCGATTTAA
1 AAAATTACCAAAGTACCCTCGATTTAA
**** *
64793638 AAAATTACCTTTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAA
* *** *
64793665 AAAATTACTATTTTACCCTCGATTTAT
1 AAAATTACCAAAGTACCCTCGATTTAA
*
64793692 AGAATTACCA
1 AAAATTACCA
64793702 TTTTGCCTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.36
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAA
Found at i:64793669 original size:54 final size:54
Alignment explanation
Indices: 64793624--64794110 Score: 650
Period size: 54 Copynumber: 9.0 Consensus size: 54
64793614 ATTATCAAAG
* *
64793624 TACCCTCGATTTAAAAAATTACCTTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * * *
64793678 TACCCTCGATTTATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
64793732 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * *
64793786 TACCCTCGATTTATAGAATTACCATTTTGCCTTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
64793840 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * * *
64793894 TACCCTCGATTTATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
64793948 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * *
64794002 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* *** * * *
64794056 TACCCTCGATTTAAAAAATTATTGTTTTACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
64794110 T
1 T
64794111 TCCCCTAGAG
Statistics
Matches: 370, Mismatches: 63, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 370 1.00
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
Found at i:64793704 original size:27 final size:27
Alignment explanation
Indices: 64793624--64794110 Score: 578
Period size: 27 Copynumber: 18.0 Consensus size: 27
64793614 ATTATCAAAG
* *
64793624 TACCCTCGATTTAAAAAATTACCTTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
64793651 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64793678 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * * *
64793705 TGCCTTCAATTTACAAAATCACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64793732 TACCCTCAATTTACAAATTTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
64793759 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64793786 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
64793813 TGCCTTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64793840 TACCCTCAATTTACAAATTTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
64793867 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64793894 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * * *
64793921 TGCCTTCAATTTACAAAATCACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64793948 TACCCTCAATTTACAAATTTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
64793975 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64794002 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* ***
64794029 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* ***
64794056 TACCCTCGATTTAAAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
64794083 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
64794110 T
1 T
64794111 TCCCCTAGAG
Statistics
Matches: 391, Mismatches: 69, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 391 1.00
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:64793754 original size:108 final size:108
Alignment explanation
Indices: 64793624--64794110 Score: 785
Period size: 108 Copynumber: 4.5 Consensus size: 108
64793614 ATTATCAAAG
* * * *
64793624 TACCCTCGATTTAAAAAATTACCTTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
64793689 TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
66 TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
64793732 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
*
64793797 TATAGAATTACCATTTTGCCTTCAATTTACAAAATTACTATTT
66 TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
64793840 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
64793905 TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
66 TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
64793948 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
* * * * * * *
64794013 TATAGAATTACCATTTTACCCTCGATTTACAGAATTATTGTTT
66 TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
* * * *** * * *
64794056 TACCCTCGATTTAAAAAATTATTGTTTTACCCTCAATTTATAAAATTACCATTTT
1 TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTT
64794111 TCCCCTAGAG
Statistics
Matches: 357, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 357 1.00
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.41
Consensus pattern (108 bp):
TACCCTCAATTTACAAATTTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
TATAGAATTACCATTTTGCCTTCAATTTACAAAATCACTATTT
Found at i:64794469 original size:26 final size:27
Alignment explanation
Indices: 64794440--64794499 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
64794430 CCACATATAT
*
64794440 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
64794466 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
64794493 ATATCTG
1 ATATCTG
64794500 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:64794653 original size:31 final size:31
Alignment explanation
Indices: 64794618--64794697 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
64794608 TTGCATTCAC
* * *
64794618 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTCTGATTTTGTCACCTAATACTG
* * *
64794649 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTTTGTCACCTAATACTG
*
64794680 ATTCTAATTCTGATTTTG
1 ATTCTGATTCTGATTTTG
64794698 ATTCTCATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTTTGTCACCTAATACTG
Found at i:64794657 original size:6 final size:6
Alignment explanation
Indices: 64794618--64794723 Score: 56
Period size: 6 Copynumber: 17.3 Consensus size: 6
64794608 TTGCATTCAC
* * * *
64794618 ATTCTG ATTTTG ATTTTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
64794667 -TCACCTA ATTCTG ATTCTA ATTCTG ATTTTG ATTCTC ATTTTG ATTCT-
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
64794715 AGTTCTG AT
1 A-TTCTG AT
64794724 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
5 4 0.05
6 63 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:64799329 original size:52 final size:51
Alignment explanation
Indices: 64799266--64799366 Score: 184
Period size: 52 Copynumber: 2.0 Consensus size: 51
64799256 TAAGTCCAAT
*
64799266 TTAGAAAAGGCCACTTTGGAGGGTTTCTAGGCATTCCAAAGCCTATAAAAA
1 TTAGAAAAGGCCACCTTGGAGGGTTTCTAGGCATTCCAAAGCCTATAAAAA
64799317 TTAGAAAAAGGCCACCTTGGAGGGTTTCTAGGCATTCCAAAGCCTATAAA
1 TTAG-AAAAGGCCACCTTGGAGGGTTTCTAGGCATTCCAAAGCCTATAAA
64799367 TACGCACTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 4 0.08
52 44 0.92
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (51 bp):
TTAGAAAAGGCCACCTTGGAGGGTTTCTAGGCATTCCAAAGCCTATAAAAA
Found at i:64800596 original size:34 final size:33
Alignment explanation
Indices: 64800540--64800610 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 33
64800530 TTTATGCATT
64800540 ACTGATAGTGTACTGAGTTGGGC-TAAGGCCCAC
1 ACTGATAGTGTACTGAGTTGGGCTTAA-GCCCAC
* *
64800573 ACTGATATTGCTACTGA-TATGGGCTTAAGCCCAG
1 ACTGATAGTG-TACTGAGT-TGGGCTTAAGCCCAC
64800607 ACTG
1 ACTG
64800611 TTCAACACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 10 0.30
34 20 0.61
35 3 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (33 bp):
ACTGATAGTGTACTGAGTTGGGCTTAAGCCCAC
Found at i:64812587 original size:33 final size:33
Alignment explanation
Indices: 64812550--64812615 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
64812540 TGACCTTCAT
64812550 GCATTACGATTTGGATAACTCCCTGCACAGAGC
1 GCATTACGATTTGGATAACTCCCTGCACAGAGC
64812583 GCATTACGATTTGGATAACTCCCTGCACAGAGC
1 GCATTACGATTTGGATAACTCCCTGCACAGAGC
64812616 TTCAATACCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (33 bp):
GCATTACGATTTGGATAACTCCCTGCACAGAGC
Found at i:64812805 original size:42 final size:42
Alignment explanation
Indices: 64812741--64812825 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
64812731 ACAGGGAATC
64812741 CAGAAACCGTTCTGGCCTTGTCTCACGAGAACCTGAATATCT
1 CAGAAACCGTTCTGGCCTTGTCTCACGAGAACCTGAATATCT
64812783 CAGAAACCGTTCTGGACC-TGTCTCACGAGAACCTGAATATCT
1 CAGAAACCGTTCTGG-CCTTGTCTCACGAGAACCTGAATATCT
64812825 C
1 C
64812826 TTAACATACT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
CAGAAACCGTTCTGGCCTTGTCTCACGAGAACCTGAATATCT
Found at i:64813946 original size:29 final size:29
Alignment explanation
Indices: 64813912--64813985 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
64813902 TAATCAACCA
*
64813912 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
64813941 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
64813970 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
64813986 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:64817046 original size:25 final size:26
Alignment explanation
Indices: 64816962--64817033 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
64816952 GAGGAAGTGC
*
64816962 AAAAGGGC-TTTG-CCTCAGTTTAC-CG
1 AAAAGGGCTTTTGCCCT-AGTTT-CTCA
*
64816987 AAAATGGCTTTTGCCCTAGTTTCTCA
1 AAAAGGGCTTTTGCCCTAGTTTCTCA
64817013 AAAAGGGCTTTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCTAGTT
64817034 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.20
26 30 0.73
27 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCTAGTTTCTCA
Found at i:64817291 original size:31 final size:31
Alignment explanation
Indices: 64817253--64817336 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
64817243 TTTTTATAGT
64817253 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
64817284 AAAGGCTTCGGCCTAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
64817315 AAAGGCTTAGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
64817337 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:64824976 original size:25 final size:26
Alignment explanation
Indices: 64824903--64824974 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
64824893 GAGGAAATGC
*
64824903 AAAAGGGC-TTTGCCCTAGTTTACCG-
1 AAAAGGGCTTTTGCCCTAGTTTA-TGA
*
64824928 AAAAGGGCTTTTACCCTAGTTTATGA
1 AAAAGGGCTTTTGCCCTAGTTTATGA
*
64824954 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCTAGTT
64824975 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 9 0.22
26 32 0.78
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCTAGTTTATGA
Found at i:64824987 original size:25 final size:26
Alignment explanation
Indices: 64824927--64824987 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
64824917 CTAGTTTACC
*
64824927 GAAAAG-GGCTTTTACCCTAGTTTAT
1 GAAAAGAGGCTTTTACCCCAGTTTAT
*
64824952 GAAAA-AGGGCTTTTGCCCCAG-TTAT
1 GAAAAGA-GGCTTTTACCCCAGTTTAT
*
64824977 TAAAAGAGGCT
1 GAAAAGAGGCT
64824988 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (26 bp):
GAAAAGAGGCTTTTACCCCAGTTTAT
Found at i:64825230 original size:31 final size:31
Alignment explanation
Indices: 64825192--64825275 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
64825182 TTGTTACAGT
64825192 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
64825223 AAAGGCTTTGGCCTAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
64825254 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
64825276 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:64834718 original size:44 final size:45
Alignment explanation
Indices: 64834634--64834719 Score: 147
Period size: 44 Copynumber: 1.9 Consensus size: 45
64834624 TATGAAATCT
64834634 GAACTCATTGAGTCATGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTCATGGTCTGAGTTCATGATATATGTGACATCC
* *
64834679 GAACTCATTGAGTTATGGTC-GAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTCATGGTCTGAGTTCATGATATATGTGACA
64834720 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
GAACTCATTGAGTCATGGTCTGAGTTCATGATATATGTGACATCC
Found at i:64845430 original size:94 final size:94
Alignment explanation
Indices: 64845267--64845625 Score: 294
Period size: 94 Copynumber: 3.8 Consensus size: 94
64845257 TGATTTGTGC
* * *
64845267 GCTACTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGCGAGTCAGTGTAAGACCATGTC
1 GCTACTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
64845332 TGGGACATGGCATCAGCATCCAGACGAGG
66 TGGGACATGGCATCAGCATCCAGACGAGG
* *
64845361 GCTACTGTAAGACATGTCTGGGGA-ATG-TATCAGCCATATTATGAGAGCCTGTGTAAGACCATG
1 GCTACTGTAAGACATGTCT-GGGACATGCT-TCAGCCACATTATGAGAGCCAGTGTAAGACCATG
* * * * *
64845424 TTTGGGACATGGCATCGGCA-CAAAGATGAGT
64 TCTGGGACATGGCATCAGCATC-CAGACGAGG
* ** * * * *
64845455 GCCAGAGTAAGACATGTCTGGGACATGCATCAGCCTCGACA-GA-GATAGCCAATGTAAGA-CAT
1 GCTACTGTAAGACATGTCTGGGACATGCTTCAG-C-C-ACATTATGAGAGCCAGTGTAAGACCAT
* * **
64845517 GTCTGGGGCA-CGCATTGGC-T--AG--GAGTTG
63 GTCTGGGACATGGCATCAGCATCCAGACGAG--G
* * * *
64845545 TGCTAGTGTAAGACATGTCTGCGACATGCATCAG-CACTTATATATGAGAGCCAGTGTAAGACGA
1 -GCTACTGTAAGACATGTCTGGGACATGCTTCAGCCAC--AT-TATGAGAGCCAGTGTAAGACCA
64845609 TGTCTGGGACATGGCAT
62 TGTCTGGGACATGGCAT
64845626 TGGCAATATA
Statistics
Matches: 213, Mismatches: 33, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
87 2 0.01
88 4 0.02
89 1 0.00
90 2 0.01
91 31 0.15
92 14 0.07
93 24 0.11
94 113 0.53
95 18 0.08
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTACTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCATCCAGACGAGG
Found at i:64845479 original size:47 final size:46
Alignment explanation
Indices: 64845272--64845630 Score: 194
Period size: 47 Copynumber: 7.7 Consensus size: 46
64845262 TGTGCGCTAC
* ** * *
64845272 TGTAAGACATGTCTGGGACATGCTTCGGC-CACATTATGCGAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCACA-AAGATGAGAGCCAG
* * * * * *
64845318 TGTAAGACCATGTCTGGGACATGGCATCAGCATC-CAGACGAGGGCTAC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CAAAGATGAGAGCCAG
* * ** *
64845366 TGTAAGACATGTCTGGGGA-ATGTATCAGC-CATATTATGAGAGCCTG
1 TGTAAGACATGTCT-GGGACATGCATCGGCACA-AAGATGAGAGCCAG
* *
64845412 TGTAAGACCATGTTTGGGACATGGCATCGGCACAAAGATGAGTGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCACAAAGATGAGAGCCAG
* * * * * *
64845460 AGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGA-GATAGCCAA
1 TGTAAGACATGTCTGGGACATGCATC-GGCAC-AAAGATGAGAGCCAG
* * * * * * * *
64845507 TGTAAGACATGTCTGGGGCACGCATTGG--CTAGGA-GTTGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCACAAAGATG-AGAGCCAG
* * * *
64845551 TGTAAGACATGTCTGCGACATGCATCAGCACTTATATATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCAC--AAAGATGAGAGCCAG
*
64845599 TGTAAGACGATGTCTGGGACATGGCATTGGCA
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCA
64845631 ATATATCCCA
Statistics
Matches: 229, Mismatches: 63, Indels: 38
0.69 0.19 0.12
Matches are distributed among these distances:
43 3 0.01
44 28 0.12
46 38 0.17
47 75 0.33
48 62 0.27
49 15 0.07
50 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCACAAAGATGAGAGCCAG
Found at i:64852449 original size:30 final size:29
Alignment explanation
Indices: 64852411--64852472 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
64852401 AATCAATTTT
* *
64852411 CAAGCATAGGGGTAAAATGGTCATTTTGC
1 CAAGCATAGGGGCAAAATGGTCATTTTAC
64852440 CAAGTCATAGGGGCAAAATGGTCATTTTAC
1 CAAG-CATAGGGGCAAAATGGTCATTTTAC
64852470 CAA
1 CAA
64852473 AGTTGTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (29 bp):
CAAGCATAGGGGCAAAATGGTCATTTTAC
Found at i:64852886 original size:47 final size:46
Alignment explanation
Indices: 64852817--64853173 Score: 208
Period size: 47 Copynumber: 7.6 Consensus size: 46
64852807 TTTGTGCGCT
* * * *
64852817 AGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* *
64852863 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATCCA-GACGAAGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACAT-TATGA-G-A-GCC
* * * * * *
64852911 AGTGTAGGACATGTTTGGGGCATGCATCATCCATATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* * ** *
64852957 AGTGTAAGACCATGTCTGGGACTTGGCATC-GGCACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACA-TTATGAGAGCC
* * ** * *
64853005 AGAGTAAGACATGTCTGGGACATGCATCAGCCTCGACAAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
* * * * * * * * *
64853052 AATGTAAGACATGTCTGGGGCACGCATCGGCTAGGAGT-T--GTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CATTATGAGAGCC
* *
64853096 AGTGTAAGACATGTCTGCGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCC
*
64853144 AGTGTAAGACCATGTCTTGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
64853174 GACAATATAT
Statistics
Matches: 230, Mismatches: 58, Indels: 42
0.70 0.18 0.13
Matches are distributed among these distances:
44 29 0.13
45 7 0.03
46 32 0.14
47 91 0.40
48 49 0.21
49 17 0.07
50 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
Found at i:64852975 original size:94 final size:94
Alignment explanation
Indices: 64852814--64853177 Score: 316
Period size: 94 Copynumber: 3.9 Consensus size: 94
64852804 TGATTTGTGC
* * * *
64852814 GCTAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGAGCTAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAAAGCCAGTGTAAGACCATGTC
64852879 TGGGACATGGCATCGACATCCAGACGAAG
66 TGGGACATGGCATCGACATCCAGACGAAG
* * * * * *
64852908 GCTAGTGTAGGACATGTTTGGGGCATGCATCATCCATATTATGAAAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAAAGCCAGTGTAAGACCATGTC
* *
64852973 TGGGACTTGGCATCGGCA--CAGA-GATGAG
66 TGGGACATGGCATCGACATCCAGACGA--AG
* * * * ** * * *
64853001 TGCCAGAGTAAGACATGTCTGGGACATGCATCAGCCTCGACAAAGATAGCCAATGTAAGA-CATG
1 -GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATTATGAAAGCCAGTGTAAGACCATG
* * * **
64853065 TCTGGGGCA-CGCATCGGC-T--AGGA-GTTG
64 TCTGGGACATGGCATCGACATCCA-GACGAAG
* *
64853092 TGCTAGTGTAAGACATGTCT-GCGACATGCATCAGCACGCATATATGAGAGCCAGTGTAAGACCA
1 -GCTAGTGTAAGACATGTCTAG-GACATGCATCAGC-CACAT-TATGAAAGCCAGTGTAAGACCA
*
64853156 TGTCTTGGACATGGCATCGACA
62 TGTCTGGGACATGGCATCGACA
64853178 ATATATCCCA
Statistics
Matches: 216, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
90 1 0.00
91 35 0.16
92 22 0.10
93 24 0.11
94 118 0.55
95 16 0.07
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAAAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATCCAGACGAAG
Found at i:64854894 original size:27 final size:26
Alignment explanation
Indices: 64854846--64854905 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
64854836 GCGAGGCTGC
*
64854846 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
64854873 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
64854899 CAGATAT
1 CAGATAT
64854906 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:64854950 original size:71 final size:67
Alignment explanation
Indices: 64854873--64855014 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 67
64854863 TCACCAGATA
* * * * *
64854873 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTACAGCGA
1 CAGATATTGTGACGAAGCCACCAGAAC--A-A-ATATATGTAGCGAAGCCACCAAATTACAGCGA
*
64854938 GGCTGC
62 GGCAGC
* * *
64854944 CAGATATTGTGACGAAGTCACCAGAACAAATATATGTAGCGAGGCCACCAAATTGCAGCGAGGCA
1 CAGATATTGTGACGAAGCCACCAGAACAAATATATGTAGCGAAGCCACCAAATTACAGCGAGGCA
64855009 GC
66 GC
64855011 CAGA
1 CAGA
64855015 ACGCTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 37 0.60
68 1 0.02
69 1 0.02
71 23 0.37
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAAATATATGTAGCGAAGCCACCAAATTACAGCGAGGCA
GC
Found at i:64867909 original size:98 final size:98
Alignment explanation
Indices: 64867740--64868003 Score: 460
Period size: 98 Copynumber: 2.7 Consensus size: 98
64867730 CACCACAGAA
64867740 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCATATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCATATACAGATATTGTGGCTAGGCCACC
64867805 AGAACATATATATATATGTGGCAAAGCCACCAG
66 AGAACATATATATATATGTGGCAAAGCCACCAG
64867838 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCATATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCATATACAGATATTGTGGCTAGGCCACC
64867903 AGAACATATATATATATGTGGCAAAGCCACCAG
66 AGAACATATATATATATGTGGCAAAGCCACCAG
* * * *
64867936 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCA-CCTGA-ACAGATATATGTAGCGAGGCCA
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCAT-ATACAGATAT-TGTGGCTAGGCCA
64867999 CCAGA
64 CCAGA
64868004 TTGTAGCGAT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
97 10 0.06
98 150 0.94
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (98 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTAGCATATACAGATATTGTGGCTAGGCCACC
AGAACATATATATATATGTGGCAAAGCCACCAG
Found at i:64882170 original size:137 final size:138
Alignment explanation
Indices: 64881962--64882242 Score: 465
Period size: 137 Copynumber: 2.0 Consensus size: 138
64881952 AAGAACATAC
* ** *
64881962 ATATAGTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATC
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATGTATC
* *
64882027 AATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAATTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
64882092 TGGAAGGA
131 TGGAAAGA
* *
64882100 ATATAATTAATTTATGAATTTGATTCATAC-AAATATTAATTGTATATATTTTACCAAATGTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATGTATC
*
64882164 AATATAAACAATTATAATAATTAATTTCGGTCAATATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAATTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
64882229 TGGAAAGA
131 TGGAAAGA
64882237 ATATAA
1 ATATAA
64882243 GTCATTTTTC
Statistics
Matches: 133, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
137 105 0.79
138 28 0.21
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATGTATC
AATATAAACAATTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TGGAAAGA
Found at i:64885541 original size:25 final size:25
Alignment explanation
Indices: 64885502--64885592 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
64885492 ATTCCGACTC
*
64885502 ACAGCTTGTGTGAGCATACCAATTT
1 ACAGCTCGTGTGAGCATACCAATTT
* * * * *
64885527 ATAGCTCGTGAGAGCATGCCGATCT
1 ACAGCTCGTGTGAGCATACCAATTT
** *
64885552 ACAGCTCAAGTGAGCATACTAATTT
1 ACAGCTCGTGTGAGCATACCAATTT
*
64885577 ACAGCTCGTATGAGCA
1 ACAGCTCGTGTGAGCA
64885593 AACATGTGCA
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCAATTT
Found at i:64888115 original size:29 final size:29
Alignment explanation
Indices: 64888077--64888155 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
64888067 ATATCTCTGA
* * *
64888077 AAGTAAGCCTTAGTGGCGATCTCTGTTAT
1 AAGTAAGCCTTTGTGGTGATCTCTGCTAT
* *
64888106 AATTAAGCCTTTGTGGTGATCTGTGCTAT
1 AAGTAAGCCTTTGTGGTGATCTCTGCTAT
*
64888135 CAGTAAGCCTTTGTGGTGATC
1 AAGTAAGCCTTTGTGGTGATC
64888156 CCCGTCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (29 bp):
AAGTAAGCCTTTGTGGTGATCTCTGCTAT
Found at i:64893537 original size:20 final size:19
Alignment explanation
Indices: 64893512--64893572 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
64893502 TTGTATGGGT
*
64893512 TTGCACTTCGGTGCCTCTG
1 TTGCACTTCAGTGCCTCTG
*
64893531 ATTGCACATT-TGTGCCTCTG
1 -TTGCAC-TTCAGTGCCTCTG
*
64893551 TATGCACTTCAGTGCCTTTG
1 T-TGCACTTCAGTGCCTCTG
64893571 TT
1 TT
64893573 ACGCATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.41
Consensus pattern (19 bp):
TTGCACTTCAGTGCCTCTG
Found at i:64902009 original size:46 final size:47
Alignment explanation
Indices: 64901958--64902088 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 47
64901948 ATGGTTGAGC
64901958 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* * *
64902005 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G
64902050 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
64902089 GCGGATTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
Done.