Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 148 of 240
Found at i:46444616 original size:14 final size:15
Alignment explanation
Indices: 46444567--46444618 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46444557 GTAAAATATA
46444567 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46444582 TATTAAATATATTAT
1 AATTAAATATATTAT
46444597 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46444610 AATTTAATA
1 AATTAAATA
46444619 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46444830 original size:24 final size:25
Alignment explanation
Indices: 46444784--46444831 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
46444774 TATGAATTTG
46444784 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
46444810 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
46444832 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:46444868 original size:90 final size:91
Alignment explanation
Indices: 46444774--46444965 Score: 248
Period size: 90 Copynumber: 2.1 Consensus size: 91
46444764 AATTATATTT
* * * *
46444774 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAATTAATAT-TAAATTT
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-AGTAATATAT-AATTT
* *
46444837 CATAAAATTC-T-TGATAAAATTTTCTTA
63 CATAAAATTCTTATAATAAAATGTTCTTA
* *
46444864 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATGGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCAT
46444929 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTT-ATAATAAAATGTTCTTA
46444956 TATGAATTTA
1 TATGAATTTA
46444966 CTAAAATCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
89 20 0.22
90 42 0.47
91 3 0.03
92 24 0.27
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCAT
AAAATTCTTATAATAAAATGTTCTTA
Found at i:46452427 original size:11 final size:11
Alignment explanation
Indices: 46452411--46452438 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
46452401 AATCGAGAGG
46452411 CGAAGGTAGAA
1 CGAAGGTAGAA
46452422 CGAAGGTAGAA
1 CGAAGGTAGAA
46452433 CGAAGG
1 CGAAGG
46452439 AAGAGACGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:46456476 original size:254 final size:253
Alignment explanation
Indices: 46456020--46456526 Score: 847
Period size: 254 Copynumber: 2.0 Consensus size: 253
46456010 TTTGATAAGT
*
46456020 GGTTCCAAGGCTTGATTTATGCTTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
1 GGTTCCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
*
46456085 AATTTGATCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAGC
66 AATTTGAGCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAGC
46456150 ATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTATT
131 ATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTATT
* * * *
46456215 TGGGCTTGGTGACCAGGCCA-AGTATGCTACATTTGGTGGTATCAGAGTCAGGTTCAATA
196 CGGGCTTGGCGACCAGGCCAGA-T-TGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
* * *
46456274 GGTTTCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAGCTTGACTGAACATT
1 GGTTCCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
* * *
46456339 AATTTGAGCTTGCATGACTTAATATTCGTATGAATGTTATAGTAATAAAAGAAAATAAAAGAGGT
66 AATTTGAGCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAG-
*
46456404 C-TGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTATTAT
130 CATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTAT
*
46456468 TCGGGCTTGGCGACCGGGCCAGATTGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
195 TCGGGCTTGGCGACCAGGCCAGATTGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
46456527 ACTCTTGAAC
Statistics
Matches: 237, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
253 33 0.14
254 202 0.85
255 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (253 bp):
GGTTCCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
AATTTGAGCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAGC
ATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTATT
CGGGCTTGGCGACCAGGCCAGATTGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
Found at i:46461454 original size:17 final size:17
Alignment explanation
Indices: 46461429--46461462 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46461419 TTTAATATAC
*
46461429 AAAGATAACTGCTAACT
1 AAAGATAACAGCTAACT
*
46461446 AAAGTTAACAGCTAACT
1 AAAGATAACAGCTAACT
46461463 GCCTACCGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAGATAACAGCTAACT
Found at i:46470400 original size:27 final size:28
Alignment explanation
Indices: 46470362--46470414 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
46470352 AATTGTATCA
46470362 TTGTTATTTTGG-TTTGGTTTAATGTCT
1 TTGTTATTTTGGTTTTGGTTTAATGTCT
46470389 TTGTTATTTTGGTTTTGGTTTAATGT
1 TTGTTATTTTGGTTTTGGTTTAATGT
46470415 GTAAGAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.11, C:0.02, G:0.23, T:0.64
Consensus pattern (28 bp):
TTGTTATTTTGGTTTTGGTTTAATGTCT
Found at i:46471718 original size:6 final size:7
Alignment explanation
Indices: 46471702--46471728 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46471692 TTGGAATACT
46471702 AAAATTA
1 AAAATTA
46471709 AAAATTA
1 AAAATTA
46471716 AAAATTA
1 AAAATTA
46471723 AAAATT
1 AAAATT
46471729 TTCATGTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATTA
Found at i:46474265 original size:9 final size:9
Alignment explanation
Indices: 46474249--46474294 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
46474239 AGTTGATTCA
46474249 AATAACTCG
1 AATAACTCG
*
46474258 ATTAACTCG
1 AATAACTCG
46474267 AATAACTCG
1 AATAACTCG
46474276 AATAACTCG
1 AATAACTCG
46474285 AATAACTCG
1 AATAACTCG
46474294 A
1 A
46474295 TTCGTTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (9 bp):
AATAACTCG
Found at i:46475154 original size:35 final size:35
Alignment explanation
Indices: 46475108--46475179 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46475098 ACTTACCAAA
46475108 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
1 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
46475143 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
1 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
46475178 TT
1 TT
46475180 CCCCTTGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
Found at i:46477203 original size:11 final size:10
Alignment explanation
Indices: 46477186--46477257 Score: 51
Period size: 11 Copynumber: 7.1 Consensus size: 10
46477176 TATTTTTTTA
46477186 ATTTTAAAAT
1 ATTTTAAAAT
46477196 ACTTTTAAAAT
1 A-TTTTAAAAT
**
46477207 ATTTTTTTAAT
1 A-TTTTAAAAT
**
46477218 -TTTT--TTT
1 ATTTTAAAAT
46477225 ATTTTAAAAT
1 ATTTTAAAAT
46477235 ATTTTTAAAAT
1 A-TTTTAAAAT
46477246 AATTTTAAAAT
1 -ATTTTAAAAT
46477257 A
1 A
46477258 CATTTTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
7 1 0.02
8 4 0.08
9 4 0.08
10 4 0.08
11 35 0.71
12 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:46477229 original size:39 final size:38
Alignment explanation
Indices: 46477172--46477251 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 38
46477162 GTAGAAAATA
*
46477172 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATATT
1 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATAAT
* *
46477210 TTTTTAATTTTTTTTATTTTAAAATATTTTTAAAATAAT
1 TTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATAAT
46477249 TTT
1 TTT
46477252 AAAATACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 5 0.13
39 33 0.87
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (38 bp):
TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATAAT
Found at i:46477251 original size:40 final size:40
Alignment explanation
Indices: 46477172--46477313 Score: 144
Period size: 51 Copynumber: 3.3 Consensus size: 40
46477162 GTAGAAAATA
* *
46477172 TTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAAT-ATT
1 TTTTTAATTTTTTTTATTTTAAAATATTTTTAAAATAATT
46477210 TTTTTAATTTTTTTTATTTTAAAATATTTTTAAAATAATTTTAAAAT
1 TTTTTAATTTTTTTTATTTTAAAATATTTTTAAAATAA---T----T
46477257 ACATTTTTAATTTTTTTTTATTTTAAAATATTTTTAAAATATATT
1 ---TTTTTAA-TTTTTTTTATTTTAAAATATTTTTAAAATA-ATT
46477302 TTTTTAATTTTT
1 TTTTTAATTTTT
46477314 AAAATAAATT
Statistics
Matches: 88, Mismatches: 2, Indels: 25
0.77 0.02 0.22
Matches are distributed among these distances:
38 5 0.06
39 28 0.32
40 1 0.01
41 5 0.06
42 7 0.08
43 1 0.01
45 1 0.01
47 1 0.01
49 1 0.01
50 7 0.08
51 30 0.34
52 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTAATTTTTTTTATTTTAAAATATTTTTAAAATAATT
Found at i:46477252 original size:50 final size:51
Alignment explanation
Indices: 46477187--46477303 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
46477177 ATTTTTTTAA
* **
46477187 TTTTAAAATACTTTTAAAATATTTTTTTAA-TTTTTTTTATTTTAAAATAT
1 TTTTAAAATAATTTTAAAATACATTTTTAATTTTTTTTTATTTTAAAATAT
46477237 TTTTAAAATAATTTTAAAATACATTTTTAATTTTTTTTTATTTTAAAATAT
1 TTTTAAAATAATTTTAAAATACATTTTTAATTTTTTTTTATTTTAAAATAT
46477288 TTTTAAAATATATTTT
1 TTTTAAAATA-ATTTT
46477304 TTTAATTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 27 0.44
51 30 0.48
52 5 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (51 bp):
TTTTAAAATAATTTTAAAATACATTTTTAATTTTTTTTTATTTTAAAATAT
Found at i:46477262 original size:12 final size:11
Alignment explanation
Indices: 46477225--46477263 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46477215 AATTTTTTTT
46477225 ATTTTAAAATA
1 ATTTTAAAATA
*
46477236 TTTTTAAAATA
1 ATTTTAAAATA
46477247 ATTTTAAAATA
1 ATTTTAAAATA
46477258 CATTTT
1 -ATTTT
46477264 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:46477291 original size:11 final size:12
Alignment explanation
Indices: 46477275--46477303 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
46477265 AATTTTTTTT
46477275 TATTTTAAAATA
1 TATTTTAAAATA
46477287 T-TTTTAAAATA
1 TATTTTAAAATA
46477298 TATTTT
1 TATTTT
46477304 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTTAAAATA
Found at i:46477333 original size:22 final size:21
Alignment explanation
Indices: 46477285--46477333 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
46477275 TATTTTAAAA
* *
46477285 TATTTTTAAAATATATTTTTT
1 TATTTTTAAAATAAATTTTTG
46477306 TAATTTTTAAAATAAATTTTTAG
1 T-ATTTTTAAAATAAATTTTT-G
46477329 TATTT
1 TATTT
46477334 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:46477765 original size:16 final size:16
Alignment explanation
Indices: 46477744--46477777 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
46477734 CAAAATATAA
*
46477744 TTTCTTTCTAAAAGAT
1 TTTCTTTATAAAAGAT
46477760 TTTCTTTATAAAAGAT
1 TTTCTTTATAAAAGAT
46477776 TT
1 TT
46477778 AGTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTCTTTATAAAAGAT
Found at i:46481991 original size:91 final size:90
Alignment explanation
Indices: 46481853--46482094 Score: 255
Period size: 91 Copynumber: 2.7 Consensus size: 90
46481843 GTGTAAAATG
* * * * * * *
46481853 CCCTC-AATTTTTTTAAAATAAAGCTATTAAGTCC-CTGTTTTTATTTTGCATTCACTTGGATA-
1 CCCTCAAACTTTTTCAAAA-AAAGCAATTAAG-CCTCTGCTTCTATTTTGCACTCAATTGGATAC
*
46481915 TTTGAACTTTCAAAATGCATCAAAAAAA
64 TTAG-ACTTTCAAAATGCATCAAAAAAA
*
46481943 TCCTCAAACTTTTTCAAAAAACAGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACT
1 CCCTCAAACTTTTTCAAAAAA-AGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACT
* ***
46482008 TAGACTTTTAAAATGCATCAAAATGG
65 TAGACTTTCAAAATGCATCAAAAAAA
* * *
46482034 CCCTCAAACTTTTTCAATAAAAGCAATTAAG-CTC--CTT-TTTTTTGCACTCAATTGGGTACTT
1 CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACTT
46482095 GAATTGCCCC
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
86 22 0.17
87 3 0.02
89 3 0.02
90 18 0.14
91 82 0.63
92 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (90 bp):
CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACTT
AGACTTTCAAAATGCATCAAAAAAA
Found at i:46482195 original size:19 final size:20
Alignment explanation
Indices: 46482170--46482216 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
46482160 AAATGATAAA
46482170 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
46482190 -ATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
46482209 AATAAAAA
1 AATAAAAA
46482217 ATATAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:46482196 original size:10 final size:10
Alignment explanation
Indices: 46482183--46482350 Score: 63
Period size: 10 Copynumber: 17.2 Consensus size: 10
46482173 AAAAATCAAT
46482183 AAAATTTATA
1 AAAATTTATA
*
46482193 AAAA-TTATT
1 AAAATTTATA
*
46482202 AAATTTTAATA
1 AAAATTT-ATA
*
46482213 AAAA-ATATA
1 AAAATTTATA
46482222 GAAAATATTA-A
1 -AAAAT-TTATA
46482233 AAAATTTATTA
1 AAAATTTA-TA
*
46482244 AAAA-TTAAA
1 AAAATTTATA
*
46482253 AAAAATTA-A
1 AAAATTTATA
* *
46482262 AAATTTTAAA
1 AAAATTTATA
46482272 AAAATTGTA-A
1 AAAATT-TATA
*
46482282 AAAA-AT-TA
1 AAAATTTATA
46482290 AAAATTGTA-A
1 AAAATT-TATA
*
46482300 AAAAATTATA
1 AAAATTTATA
46482310 AAACA--TATA
1 AAA-ATTTATA
* *
46482319 GAAATATA-A
1 AAAATTTATA
*
46482328 AAGAAATTATA
1 AA-AATTTATA
*
46482339 AAATTTTATA
1 AAAATTTATA
46482349 AA
1 AA
46482351 GTAGTAAGAA
Statistics
Matches: 119, Mismatches: 19, Indels: 40
0.67 0.11 0.22
Matches are distributed among these distances:
8 7 0.06
9 35 0.29
10 58 0.49
11 17 0.14
12 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAATTTATA
Found at i:46482212 original size:29 final size:28
Alignment explanation
Indices: 46482165--46482312 Score: 106
Period size: 29 Copynumber: 5.2 Consensus size: 28
46482155 GCAAAAAATG
*
46482165 ATAAAAA-TAAAAA--TCAATAAAATTT
1 ATAAAAATTAAAAATTTTAATAAAATTT
* *
46482190 ATAAAAATTATTAAATTTTAATAAAAAATAT
1 ATAAAAATTA-AAAATTTTAAT--AAAATTT
* * * *
46482221 AGAAAATATTAAAAAATTTATTAAAAATTA
1 ATAAAA-ATTAAAAATTTTAAT-AAAATTT
* *
46482251 AAAAAAATTAAAAATTTTAAAAAAATTGT
1 ATAAAAATTAAAAATTTTAATAAAATT-T
* * *
46482280 AAAAAAATTAAAAATTGTAA-AAAAATT
1 ATAAAAATTAAAAATTTTAATAAAATTT
46482307 ATAAAA
1 ATAAAA
46482313 CATATAGAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
25 7 0.07
26 2 0.02
27 9 0.09
28 11 0.11
29 35 0.36
30 11 0.11
31 19 0.19
32 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (28 bp):
ATAAAAATTAAAAATTTTAATAAAATTT
Found at i:46482260 original size:17 final size:18
Alignment explanation
Indices: 46482183--46482277 Score: 68
Period size: 21 Copynumber: 4.9 Consensus size: 18
46482173 AAAAATCAAT
*
46482183 AAAATTT-ATAAAAATTA
1 AAAATTTAAAAAAAATTA
*
46482200 TTAAATTTTAATAAAAAATATA
1 --AAAATTTAA-AAAAAAT-TA
*
46482222 GAAAATATTAAAAAATTTATTA
1 -AAAAT-TTAAAAAA--AATTA
46482244 AAAA-TTAAAAAAAATTA
1 AAAATTTAAAAAAAATTA
*
46482261 AAAATTTTAAAAAAATT
1 AAAATTTAAAAAAAATT
46482278 GTAAAAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
17 8 0.13
18 11 0.18
19 14 0.23
20 1 0.02
21 18 0.29
22 8 0.13
23 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTTAAAAAAAATTA
Found at i:46482274 original size:11 final size:11
Alignment explanation
Indices: 46482260--46482312 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
46482250 AAAAAAAATT
*
46482260 AAAAATTTTAA
1 AAAAATTGTAA
46482271 AAAAATTGTAA
1 AAAAATTGTAA
46482282 AAAAA-T-T--
1 AAAAATTGTAA
46482289 AAAAATTGTAA
1 AAAAATTGTAA
*
46482300 AAAAATTATAA
1 AAAAATTGTAA
46482311 AA
1 AA
46482313 CATATAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 5 0.14
8 1 0.03
9 2 0.06
10 1 0.03
11 27 0.75
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (11 bp):
AAAAATTGTAA
Found at i:46482294 original size:18 final size:18
Alignment explanation
Indices: 46482271--46482312 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
46482261 AAAATTTTAA
46482271 AAAAATTGTAAAAAAATT
1 AAAAATTGTAAAAAAATT
46482289 AAAAATTGTAAAAAAATT
1 AAAAATTGTAAAAAAATT
46482307 ATAAAA
1 A-AAAA
46482313 CATATAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATTGTAAAAAAATT
Found at i:46482323 original size:29 final size:28
Alignment explanation
Indices: 46482210--46482412 Score: 75
Period size: 29 Copynumber: 7.0 Consensus size: 28
46482200 TTAAATTTTA
* *
46482210 ATAAAAAATATAGAAAATATTA-AAAAATTT
1 ATAAAAATTATA-AAAAAATTATAAAAA--T
*
46482240 ATTAAAAATTA-AAAAAAATTA-AAAATTTT
1 A-TAAAAATTATAAAAAAATTATAAAA--AT
* * *
46482269 AAAAAAATTGTAAAAAAATTA-AAAATTGT
1 ATAAAAATTATAAAAAAATTATAAAA--AT
* *
46482298 AAAAAAATTAT-AAAACA-TATAGAAATAT
1 ATAAAAATTATAAAAAAATTATA-AAA-AT
* ** *
46482326 AAAAGAAATTAT-AAAATTTTAT-AAAGT
1 ATAA-AAATTATAAAAAAATTATAAAAAT
46482353 AGTAAGAAAATTATAAAAAAA-TATAAAGAA-
1 A-T-A-AAAATTATAAAAAAATTATAAA-AAT
46482383 ATATAAAATTCATAAAAAAATTATAAAAAT
1 ATA-AAAATT-ATAAAAAAATTATAAAAAT
46482413 TATCATACTA
Statistics
Matches: 139, Mismatches: 17, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.03
28 29 0.21
29 78 0.56
30 19 0.14
31 9 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (28 bp):
ATAAAAATTATAAAAAAATTATAAAAAT
Found at i:46482404 original size:12 final size:11
Alignment explanation
Indices: 46482359--46482411 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 11
46482349 AAGTAGTAAG
46482359 AAAATTATAAA
1 AAAATTATAAA
46482370 AAAA-TATAAA
1 AAAATTATAAA
*
46482380 GAAA-TAT---
1 AAAATTATAAA
46482387 AAAATTCATAAA
1 AAAATT-ATAAA
46482399 AAAATTATAAA
1 AAAATTATAAA
46482410 AA
1 AA
46482412 TTATCATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 2 0.06
10 12 0.34
11 11 0.31
12 6 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:46482408 original size:11 final size:11
Alignment explanation
Indices: 46482260--46482411 Score: 54
Period size: 11 Copynumber: 15.3 Consensus size: 11
46482250 AAAAAAAATT
*
46482260 AAAAATTTTAA
1 AAAAATTATAA
*
46482271 AAAAATTGTAA
1 AAAAATTATAA
46482282 AAAAA-T-T--
1 AAAAATTATAA
*
46482289 AAAAATTGTAA
1 AAAAATTATAA
46482300 AAAAATTAT-A
1 AAAAATTATAA
*
46482310 AAACA-TAT--
1 AAAAATTATAA
*
46482318 AGAAA-TATAA
1 AAAAATTATAA
46482328 AAGAAATTAT--
1 AA-AAATTATAA
*
46482338 -AAAATT-T-T
1 AAAAATTATAA
* *
46482346 ATAAAGTAGTAA
1 AAAAATTA-TAA
*
46482358 GAAAATTATAA
1 AAAAATTATAA
46482369 AAAAA-TATAA
1 AAAAATTATAA
*
46482379 AGAAA-TAT--
1 AAAAATTATAA
46482387 -AAAATTCATAA
1 AAAAATT-ATAA
46482398 AAAAATTATAA
1 AAAAATTATAA
46482409 AAA
1 AAA
46482412 TTATCATACT
Statistics
Matches: 108, Mismatches: 15, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
7 9 0.08
8 13 0.12
9 12 0.11
10 19 0.18
11 41 0.38
12 14 0.13
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:46482644 original size:11 final size:11
Alignment explanation
Indices: 46482607--46482636 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
46482597 TTTTATAAAT
46482607 ATTTTTTTCTA
1 ATTTTTTTCTA
46482618 ATTTTTTTCTA
1 ATTTTTTTCTA
46482629 ATTTTTTT
1 ATTTTTTT
46482637 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTTTTCTA
Found at i:46482653 original size:22 final size:23
Alignment explanation
Indices: 46482597--46482654 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
46482587 TTTTGATGCA
*
46482597 TTTTA-TAAATATTTTTTTCTAAT
1 TTTTATTAAA-ATTTTTTTATAAT
**
46482620 TTTT-TTCTAATTTTTTTAT-AT
1 TTTTATTAAAATTTTTTTATAAT
46482641 TTTTATTAAAATTT
1 TTTTATTAAAATTT
46482655 AAAATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 6 0.21
22 16 0.57
23 6 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATTAAAATTTTTTTATAAT
Found at i:46482669 original size:9 final size:9
Alignment explanation
Indices: 46482621--46482698 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
46482611 TTTTCTAATT
*
46482621 TTTTTCTAA
1 TTTTTATAA
*
46482630 TTTTTTTATA
1 TTTTTATA-A
46482640 TTTTTATTAA
1 TTTTTA-TAA
** *
46482650 AATTTAAAA
1 TTTTTATAA
46482659 TTTTTATAA
1 TTTTTATAA
46482668 TTTTTATAAA
1 TTTTTAT-AA
*
46482678 TTTTTGT--
1 TTTTTATAA
46482685 TTTTTATAA
1 TTTTTATAA
46482694 TTTTT
1 TTTTT
46482699 TTGCCACATG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
7 6 0.11
9 27 0.50
10 19 0.35
11 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46482923 original size:92 final size:89
Alignment explanation
Indices: 46482820--46483057 Score: 279
Period size: 90 Copynumber: 2.7 Consensus size: 89
46482810 TGTATTTGAC
46482820 AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAATTTGGGGACTTAATTGCTTTTTTTGAAAAAGT
1 AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAA--TGGGG-CTTAATTGCTTTTTTTGAAAAAGT
* *
46482885 TTGAGGGCATTTTTTATATATTTTAAA
63 TTGAGGGCATTTTTGATACATTTTAAA
* * * * *
46482912 AGTTCAAGTACCCAATTGAGTTCAAAATAAAAACA-GAGGTTTAATTGCTTTTTTTTAAAAAGTT
1 AGTTCAAGTACCCAACTGAGTGCAAAA-AAAAA-ATGGGGCTTAATTGCTTTTTTTGAAAAAGTT
* * *
46482976 TGAGGGCCTTTTTGATGCATTTTGAA
64 TGAGGGCATTTTTGATACATTTTAAA
* * *
46483002 AGTTCAAGTACCAAAGTGAGTG----AAAAAAATGGGGCTTAATTACTTTTTTTGAAAAA
1 AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAATGGGGCTTAATTGCTTTTTTTGAAAAA
46483058 ATTGAGGACT
Statistics
Matches: 126, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
84 1 0.01
85 27 0.21
86 1 0.01
90 63 0.50
91 3 0.02
92 25 0.20
93 5 0.04
94 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (89 bp):
AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAATGGGGCTTAATTGCTTTTTTTGAAAAAGTTTG
AGGGCATTTTTGATACATTTTAAA
Found at i:46490598 original size:42 final size:42
Alignment explanation
Indices: 46490551--46490637 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
46490541 CATCATTTAA
46490551 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
1 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
46490593 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
1 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
46490635 TTA
1 TTA
46490638 CATTCATGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (42 bp):
TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
Found at i:46491221 original size:18 final size:18
Alignment explanation
Indices: 46491179--46491221 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
46491169 CAGTTCTCAT
46491179 AAATAAGAAATGCACATA
1 AAATAAGAAATGCACATA
* * **
46491197 GACTAAGAAATTTACATA
1 AAATAAGAAATGCACATA
46491215 AAATAAG
1 AAATAAG
46491222 GATTTCTCGT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (18 bp):
AAATAAGAAATGCACATA
Found at i:46491611 original size:183 final size:183
Alignment explanation
Indices: 46491297--46491662 Score: 671
Period size: 183 Copynumber: 2.0 Consensus size: 183
46491287 ATCATACTTA
46491297 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCACC
1 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCACC
*
46491362 GCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGCTTTTG
66 GCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTTG
* *
46491427 ACTCAAAGAGCCCTACGCTATCTCTGATATAAGTGTATCATGAATGATAACAC
131 ACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATCATGAATGATAACAC
46491480 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCATC
1 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCA-C
46491545 C-CCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTT
65 CGCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTT
* *
46491609 GACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATTATGAATGCTAACAC
130 GACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATCATGAATGATAACAC
46491663 CTTGTGCTGT
Statistics
Matches: 177, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 175 0.99
184 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (183 bp):
TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCACC
GCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTTG
ACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATCATGAATGATAACAC
Found at i:46492060 original size:23 final size:23
Alignment explanation
Indices: 46491990--46492061 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
46491980 CATAATCACA
* ** *
46491990 GTTCGTATATCAAATTAGTATAG
1 GTTCGCATATCACTTTAGCATAG
*
46492013 GCTCGCATATCACTTTAGCATAG
1 GTTCGCATATCACTTTAGCATAG
46492036 GTTCGCATATCACTTTAGCATAG
1 GTTCGCATATCACTTTAGCATAG
46492059 GTT
1 GTT
46492062 TGCCATACGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (23 bp):
GTTCGCATATCACTTTAGCATAG
Found at i:46492125 original size:17 final size:17
Alignment explanation
Indices: 46492105--46492156 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
46492095 CAATCACACA
46492105 ACATAGATTCGCACATC
1 ACATAGATTCGCACATC
* * *
46492122 ACATATAGT--CACATA
1 ACATAGATTCGCACATC
*
46492137 ACATAGGTTCGCACATC
1 ACATAGATTCGCACATC
46492154 ACA
1 ACA
46492157 AGAAGTCACA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
15 11 0.42
17 15 0.58
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (17 bp):
ACATAGATTCGCACATC
Found at i:46492175 original size:32 final size:32
Alignment explanation
Indices: 46492098--46492186 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
46492088 TCATACACAA
* *
46492098 TCACACAACATAGATTCGCACATCACATATAG
1 TCACACAACATAGGTTCGCACATCACATAAAG
*
46492130 TCACATAACATAGGTTCGCACATCACA-AGAAG
1 TCACACAACATAGGTTCGCACATCACATA-AAG
* *
46492162 TCACACAACATAGGTTTGTACATCA
1 TCACACAACATAGGTTCGCACATCA
46492187 TAAATAGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 1 0.02
32 49 0.98
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.22
Consensus pattern (32 bp):
TCACACAACATAGGTTCGCACATCACATAAAG
Found at i:46492279 original size:24 final size:24
Alignment explanation
Indices: 46492224--46492531 Score: 190
Period size: 24 Copynumber: 12.8 Consensus size: 24
46492214 GTATGTACCA
* * * *
46492224 GGTGATAAGGGCTCACATGTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
* **
46492248 AGTGATAGGGGTTCATAGGTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
* * ** *
46492272 AGTGATAGGGGTTTGTTGCTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
**
46492296 GGTGATAGGGGTTCGCACATGA-CT
1 GGTGATAGGGGTTCGCAGGT-ATCT
* **
46492320 GGTGATAAGGGTTCGCACATGA-CT
1 GGTGATAGGGGTTCGCAGGT-ATCT
* * * *
46492344 AGTGATAAGGGTTCACAGGTATTT
1 GGTGATAGGGGTTCGCAGGTATCT
**
46492368 GGTGATAGGGGTTCGCACCTAAT-T
1 GGTGATAGGGGTTCGCAGGT-ATCT
* *
46492392 GGTGATAGGGGTTCGCAAGTTTCT
1 GGTGATAGGGGTTCGCAGGTATCT
* * *
46492416 AGTGATAGGGGTTCGTAGGTTTCT
1 GGTGATAGGGGTTCGCAGGTATCT
* *
46492440 GGTGATAGGGGTTTGTAGGTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
* * * * * *
46492464 GCTGATAAGTGTTCGTATGTATTT
1 GGTGATAGGGGTTCGCAGGTATCT
* * ** *
46492488 GGTGATAAGGGTTTGCACATGTCT
1 GGTGATAGGGGTTCGCAGGTATCT
*
46492512 GGTGATAGGGGTTCGTAGGT
1 GGTGATAGGGGTTCGCAGGT
46492532 TAATAAAACA
Statistics
Matches: 226, Mismatches: 54, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
23 2 0.01
24 221 0.98
25 3 0.01
ACGTcount: A:0.21, C:0.11, G:0.35, T:0.33
Consensus pattern (24 bp):
GGTGATAGGGGTTCGCAGGTATCT
Found at i:46492325 original size:72 final size:72
Alignment explanation
Indices: 46492249--46492452 Score: 223
Period size: 72 Copynumber: 2.8 Consensus size: 72
46492239 CATGTATCTA
* * * * *
46492249 GTGATAGGGGTTCATAGGTATCTAGTGATAGGGGTTTGTTGCTATCTGGTGATAGGGGTTCGCAC
1 GTGATAGGGGTTCACAAGTATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTTCGCAC
*
46492314 ATGACTG
66 ATAACTG
* * * ** *
46492321 GTGATAAGGGTTCGCACA-TGA-CTAGTGATAAGGGTTCACAGGTATTTGGTGATAGGGGTTCGC
1 GTGATAGGGGTTCACA-AGT-ATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTTCGC
* *
46492384 ACCTAATTG
64 ACATAACTG
* * *
46492393 GTGATAGGGGTTCGCAAGTTTCTAGTGATAGGGGTTCGTAGGTTTCTGGTGATAGGGGTT
1 GTGATAGGGGTTCACAAGTATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTT
46492453 TGTAGGTATC
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
71 1 0.01
72 105 0.98
73 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (72 bp):
GTGATAGGGGTTCACAAGTATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTTCGCAC
ATAACTG
Found at i:46492478 original size:72 final size:73
Alignment explanation
Indices: 46492293--46492526 Score: 210
Period size: 72 Copynumber: 3.2 Consensus size: 73
46492283 TTTGTTGCTA
* * **
46492293 TCTGGTGATAGGGGTTCGCACATGA-CTGGTGATAAGGGTTCGCACA-TGACTAGTGATAAGGGT
1 TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCA-AGTTTCTAGTGATAAGGGT
*
46492356 TCACAGGTAT
65 TCGCAGGT-T
* * *
46492366 T-TGGTGATAGGGGTTCGCACCTAAT-TGGTGATAGGGGTTCGCAAGTTTCTAGTGATAGGGGTT
1 TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCAAGTTTCTAGTGATAAGGGTT
*
46492429 CGTAGGTT
66 CGCAGGTT
* * * * * * * *
46492437 TCTGGTGATAGGGGTTTGTAGGT-ATCTGCTGATAAGTGTTCGTATGTATT-TGGTGATAAGGGT
1 TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCAAGT-TTCTAGTGATAAGGGT
* ** *
46492500 TTGCACATG
65 TCGCAGGTT
46492509 TCTGGTGATAGGGGTTCG
1 TCTGGTGATAGGGGTTCG
46492527 TAGGTTAATA
Statistics
Matches: 131, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
71 5 0.04
72 123 0.94
73 3 0.02
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (73 bp):
TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCAAGTTTCTAGTGATAAGGGTT
CGCAGGTT
Found at i:46493724 original size:15 final size:14
Alignment explanation
Indices: 46493703--46493758 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
46493693 TTTAACCCAA
46493703 AATT-TTTAATTTT
1 AATTATTTAATTTT
46493716 AATTATTTTAATATTT
1 AATTA-TTTAAT-TTT
* * *
46493732 ACTTAATTAATTCCT
1 AATTATTTAATT-TT
46493747 AATTATTTAATT
1 AATTATTTAATT
46493759 ATCTACCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 22 0.65
16 7 0.21
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATTTAATTTT
Found at i:46499212 original size:13 final size:13
Alignment explanation
Indices: 46499183--46499215 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46499173 ATGGACCATG
46499183 TTTTCTT-TTCCT
1 TTTTCTTCTTCCT
*
46499195 TTTTCTTCTTCTT
1 TTTTCTTCTTCCT
46499208 TTTTCTTC
1 TTTTCTTC
46499216 ACCTTTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTCTTCCT
Found at i:46505002 original size:44 final size:44
Alignment explanation
Indices: 46504939--46505071 Score: 178
Period size: 44 Copynumber: 3.0 Consensus size: 44
46504929 AAATCTATTC
* *
46504939 CATTCAACTAAACACAAGAATATTATTACAGTTTTATTTCATTT
1 CATTCAACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
*
46504983 CATTCTACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
1 CATTCAACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
* * *
46505027 CATTCAACCAAACA-ATTGAATTACTGATTACAGTTCTATTCCATT
1 CATTCAACCAAACACA-AGAA-TACT-ATTACAGTTTTATTTCATT
46505072 ACAGCTCTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.01
44 57 0.72
45 4 0.05
46 17 0.22
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
Found at i:46505074 original size:16 final size:16
Alignment explanation
Indices: 46505053--46505083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46505043 TGAATTACTG
*
46505053 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
46505069 ATTACAGCTCTATTC
1 ATTACAGCTCTATTC
46505084 TATTTCAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:46508547 original size:28 final size:28
Alignment explanation
Indices: 46508447--46508554 Score: 79
Period size: 28 Copynumber: 4.0 Consensus size: 28
46508437 TTTTTTTAAT
*
46508447 AATTAATAGAAATTAATTAAACAACATAA
1 AATTAATAGAAATTAATTAAA-ATCATAA
* * * *
46508476 AATT-TTATAAATTTATTAAAAACCAT-A
1 AATTAATAGAAATTAATT-AAAATCATAA
*
46508503 AA--AATAGAAA--AA-T-AAATTATAA
1 AATTAATAGAAATTAATTAAAATCATAA
46508525 AATTAATAGAAATTAATTAAAATCCATAA
1 AATTAATAGAAATTAATTAAAAT-CATAA
46508554 A
1 A
46508555 CTTTTATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
21 5 0.08
22 3 0.05
23 1 0.02
24 9 0.15
26 7 0.12
27 4 0.07
28 18 0.31
29 12 0.20
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (28 bp):
AATTAATAGAAATTAATTAAAATCATAA
Found at i:46508844 original size:21 final size:19
Alignment explanation
Indices: 46508770--46508857 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 19
46508760 TTTTTTATAA
*
46508770 ATTTTATAAAATTTTATG-
1 ATTTTATAATATTTTATGT
*
46508788 ATTTTAATTAAT-TTCTA-GT
1 ATTTT-A-TAATATTTTATGT
46508807 AATTATTATAA-ATTTTAATGAT
1 -ATT-TTATAATATTTT-ATG-T
46508829 ATTTTTATAATA-TTTATGT
1 A-TTTTATAATATTTTATGT
46508848 ATTTTATAAT
1 ATTTTATAAT
46508858 TCTAGAATGA
Statistics
Matches: 56, Mismatches: 3, Indels: 22
0.69 0.04 0.27
Matches are distributed among these distances:
18 15 0.27
19 13 0.23
20 11 0.20
21 13 0.23
22 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTTATAATATTTTATGT
Found at i:46508852 original size:30 final size:28
Alignment explanation
Indices: 46508771--46508853 Score: 69
Period size: 30 Copynumber: 2.8 Consensus size: 28
46508761 TTTTTATAAA
* *
46508771 TTTTATAAAATTTTATGATTTTAATTAAT
1 TTTTATAATA-TTTATGATTTTAATGAAT
* *
46508800 TTCTAGTAAT-TATTATAAATTTTAATGATAT
1 TTTTA-TAATAT-TTAT-GATTTTAATGA-AT
46508831 TTTTATAATATTTATGTATTTTA
1 TTTTATAATATTTATG-ATTTTA
46508854 TAATTCTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
28 1 0.02
29 8 0.19
30 26 0.62
31 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTATAATATTTATGATTTTAATGAAT
Found at i:46508972 original size:16 final size:15
Alignment explanation
Indices: 46508947--46508984 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
46508937 ATTTTAAAAA
46508947 TATTTTTAATTTTTT
1 TATTTTTAATTTTTT
46508962 TATTCTTTAATTTTTT
1 TATT-TTTAATTTTTT
46508978 TATTTTT
1 TATTTTT
46508985 TTGTTGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTAATTTTTT
Found at i:46516086 original size:16 final size:16
Alignment explanation
Indices: 46516065--46516097 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46516055 AGTATTGAAC
46516065 TTTAATTTGGTAATTT
1 TTTAATTTGGTAATTT
46516081 TTTAATTTGGTAATTT
1 TTTAATTTGGTAATTT
46516097 T
1 T
46516098 CGGAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTAATTTGGTAATTT
Found at i:46543942 original size:50 final size:53
Alignment explanation
Indices: 46543822--46543964 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 53
46543812 GGTAAAGAGA
* **
46543822 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCA-CGAG--TATGAGAAC
* *
46543878 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAAC
1 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCACGAGTATGAGAAC
* * *
46543928 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCA
46543965 GTACAAGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 39 0.50
53 3 0.04
55 1 0.01
56 35 0.45
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCACGAGTATGAGAAC
Found at i:46558577 original size:69 final size:69
Alignment explanation
Indices: 46558495--46558730 Score: 194
Period size: 69 Copynumber: 3.4 Consensus size: 69
46558485 AAGGTTGCGA
* * * ***
46558495 CTCTTCGCTTGCGAGCCTTACTA-GCAAAGCTAG-CAGCTTTGCACTCGCTAACTGTGTTGGAGG
1 CTCTTTGCCTGCGAGCCTTAATATG-AAAG-TAGACAGCTTTGCACTCGCTAACTACATTGGAGG
46558558 CTGTGG
64 CTGTGG
* * * * *
46558564 CTCTTTGCCTGCGAACCTTAATATGATAGTTGACAGCTTTGCTCTCTCTAACTACATTGGAGGCT
1 CTCTTTGCCTGCGAGCCTTAATATGAAAGTAGACAGCTTTGCACTCGCTAACTACATTGGAGGCT
46558629 GTGG
66 GTGG
* * * * * * ** *
46558633 CTTTTTGCCTACGAGCCTTAATATGACAACTA-AGAGTTTTGTC-CTCACTAACTATGTTGAAGG
1 CTCTTTGCCTGCGAGCCTTAATATGA-AAGTAGACAGCTTTG-CACTCGCTAACTACATTGGAGG
*
46558696 C-GTGA
64 CTGTGG
* *
46558701 CTATTCGCCTGCGAGCCTTAATATGAAAGT
1 CTCTTTGCCTGCGAGCCTTAATATGAAAGT
46558731 TGGGAACTTT
Statistics
Matches: 135, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
67 3 0.02
68 28 0.21
69 100 0.74
70 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (69 bp):
CTCTTTGCCTGCGAGCCTTAATATGAAAGTAGACAGCTTTGCACTCGCTAACTACATTGGAGGCT
GTGG
Found at i:46558748 original size:68 final size:69
Alignment explanation
Indices: 46558542--46558832 Score: 205
Period size: 69 Copynumber: 4.2 Consensus size: 69
46558532 TTTGCACTCG
* * * * * * *
46558542 CTAACTGTGTTGGAGGCTGTGGCTCTTTGCCTGCGAACCTTAATATGATAGTTGACAGCTTTGCT
1 CTAACTATGTTGGAGGCTGTGGCTATTTGCCTGCGAGCCTTAATATGAAAGTTGAGAACTTTGGT
*
46558607 CTCT
66 CTCA
** * * * * * *
46558611 CTAACTACATTGGAGGCTGTGGCTTTTTGCCTACGAGCCTTAATATGACAA-CTAAG-AGTTTTG
1 CTAACTATGTTGGAGGCTGTGGCTATTTGCCTGCGAGCCTTAATATGA-AAGTTGAGAACTTTGG
46558674 TCCTCA
65 T-CTCA
* * * *
46558680 CTAACTATGTTGAAGGC-GTGACTATTCGCCTGCGAGCCTTAATATGAAAGTTGGGAACTTTGGT
1 CTAACTATGTTGGAGGCTGTGGCTATTTGCCTGCGAGCCTTAATATGAAAGTTGAGAACTTTGGT
46558744 CTCA
66 CTCA
*** ** * * * * * * * *
46558748 CTAACGGCGTTGGAGGCTGCAGCTCTTCGCTTGCAAGCCTTGATATGACAGTTCG-GAGCTTTGC
1 CTAACTATGTTGGAGGCTGTGGCTATTTGCCTGCGAGCCTTAATATGAAAGTT-GAGAACTTTGG
46558812 TCTCTA
65 TCTC-A
*
46558818 -TAACTATTTTGGAGG
1 CTAACTATGTTGGAGG
46558833 TTACGACTCT
Statistics
Matches: 170, Mismatches: 45, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
67 2 0.01
68 49 0.29
69 116 0.68
70 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (69 bp):
CTAACTATGTTGGAGGCTGTGGCTATTTGCCTGCGAGCCTTAATATGAAAGTTGAGAACTTTGGT
CTCA
Found at i:46558787 original size:137 final size:138
Alignment explanation
Indices: 46558542--46558797 Score: 298
Period size: 137 Copynumber: 1.9 Consensus size: 138
46558532 TTTGCACTCG
* * * * * * *
46558542 CTAACTGTGTTGGAGGCTGTGGCTCTTTGCCTGCGAACCTTAATATGATAGTTGACAGCTTTGCT
1 CTAACTATGTTGAAGGCTGTGACTATTCGCCTGCGAACCTTAATATGAAAGTTGACAACTTTGCT
* * ** * * *
46558607 CTCTCTAACTACATTGGAGGCTGTGGCTTTTTGCCTACGAGCCTTAATATGACAACTAAGAGTTT
66 CTCACTAACGACATTGGAGGCTGCAGCTCTTCGCCTACAAGCCTTAATATGACAACTAAGAGTTT
46558672 TGTCCTCA
131 TGTCCTCA
* ** *
46558680 CTAACTATGTTGAAGGC-GTGACTATTCGCCTGCGAGCCTTAATATGAAAGTTGGGAACTTTGGT
1 CTAACTATGTTGAAGGCTGTGACTATTCGCCTGCGAACCTTAATATGAAAGTTGACAACTTTGCT
* * * * *
46558744 CTCACTAACGGCGTTGGAGGCTGCAGCTCTTCGCTTGCAAGCCTTGATATGACA
66 CTCACTAACGACATTGGAGGCTGCAGCTCTTCGCCTACAAGCCTTAATATGACA
46558798 GTTCGGAGCT
Statistics
Matches: 95, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
137 80 0.84
138 15 0.16
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (138 bp):
CTAACTATGTTGAAGGCTGTGACTATTCGCCTGCGAACCTTAATATGAAAGTTGACAACTTTGCT
CTCACTAACGACATTGGAGGCTGCAGCTCTTCGCCTACAAGCCTTAATATGACAACTAAGAGTTT
TGTCCTCA
Found at i:46558891 original size:69 final size:69
Alignment explanation
Indices: 46558783--46558913 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
46558773 TTCGCTTGCA
* * * * * *
46558783 AGCCTTGATATGACAGTTCGGAGCTTTGCTCTCTATAACTATTTTGGAGGTTACGACTCTTCACA
1 AGCCTTAATACGACAGCTAGGAGCTTTGCTCTCGATAACTATGTTGGAGGTTACGACTCTTCACA
46558848 TGCC
66 TGCC
* *
46558852 AGCCTTAATACGACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTC
1 AGCCTTAATACGACAGCTAGGAGCTTTGCTCTCGATAACTATGTTGGAGGTTACGACTCTTC
46558914 GCCTGTAAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (69 bp):
AGCCTTAATACGACAGCTAGGAGCTTTGCTCTCGATAACTATGTTGGAGGTTACGACTCTTCACA
TGCC
Found at i:46558970 original size:67 final size:68
Alignment explanation
Indices: 46558802--46558991 Score: 175
Period size: 67 Copynumber: 2.8 Consensus size: 68
46558792 ATGACAGTTC
** * * ** * ** *
46558802 GGAGCTTTGCTCTCTATAACTATTTTGGAGGTTACGACTCTTCACATGCCAGCCTTAATACGACA
1 GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCCCTAATA-GACA
*
46558867 GCTA
65 ACTA
* ** *
46558871 GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCCTGTAAGCCCTAAT-GACAA
1 GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCCCTAATAGACAA
*
46558935 CTG
66 CTA
* * * * *
46558938 GGAGCTTTGTTCTTGCTAACTGTATTCAAGGTTTCGGCTCTTCACCTGTGAGCC
1 GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCC
46558992 TGAATACGAC
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
67 51 0.50
69 50 0.50
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (68 bp):
GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCCCTAATAGACAA
CTA
Found at i:46565727 original size:24 final size:24
Alignment explanation
Indices: 46565700--46565748 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
46565690 TGGCGTGAAT
46565700 CACATGAGTGATACACTTGTAAAC
1 CACATGAGTGATACACTTGTAAAC
* *
46565724 CACATGAGTGATGCAGTTGTAAAC
1 CACATGAGTGATACACTTGTAAAC
46565748 C
1 C
46565749 TACTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
CACATGAGTGATACACTTGTAAAC
Found at i:46566618 original size:17 final size:16
Alignment explanation
Indices: 46566584--46566618 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
46566574 AGGAAAGTTA
*
46566584 ATTTTTCTCTATATTG
1 ATTTTTCTCTATACTG
46566600 ATTTTTCTCTATAACTG
1 ATTTTTCTCTAT-ACTG
46566617 AT
1 AT
46566619 AACTATGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (16 bp):
ATTTTTCTCTATACTG
Found at i:46578774 original size:40 final size:40
Alignment explanation
Indices: 46578663--46578860 Score: 218
Period size: 40 Copynumber: 4.9 Consensus size: 40
46578653 GAGGAAGTAA
* * * *
46578663 TGGCAGCTTGTTTGCAACACTGGTGGCTTGACCACATATTAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACA-A-TAT
* * * *
46578705 TGGCATCTTGTCT-CAATACTGGTGACTTGTCCATAATAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* * * *
46578744 TGGCAGCTTATCTGTAATATTGGTGGCTTGTCCACAGTAG
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
*
46578784 TGGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* * * *
46578824 TGGTAGTTTATTTGTAATACTGGTGGCTTGTCCACAA
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAA
46578861 ACTGGTGTGT
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 14 0.11
40 88 0.67
41 18 0.14
42 11 0.08
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
Found at i:46578812 original size:20 final size:20
Alignment explanation
Indices: 46578711--46578867 Score: 75
Period size: 20 Copynumber: 8.0 Consensus size: 20
46578701 TTATTGGCAT
*
46578711 CTTGTCT-CAATACTGGTGA
1 CTTGTCTACAATACTGGTGG
* * * **
46578730 CTTGTCCATAATATTGGCAG
1 CTTGTCTACAATACTGGTGG
* ** *
46578750 CTTATCTGTAATATTGGTGG
1 CTTGTCTACAATACTGGTGG
* * * **
46578770 CTTGTCCACAGTAGTGGCAG
1 CTTGTCTACAATACTGGTGG
*
46578790 CTTGTCTGCAATACTGGTGG
1 CTTGTCTACAATACTGGTGG
* * *
46578810 CTTGTCCACAATATTGGTAG
1 CTTGTCTACAATACTGGTGG
* * * **
46578830 TTTATTTGTAATACTGGTGG
1 CTTGTCTACAATACTGGTGG
*
46578850 CTTGTCCACAA-ACTGGTG
1 CTTGTCTACAATACTGGTG
46578868 TGTTATTGGT
Statistics
Matches: 94, Mismatches: 43, Indels: 2
0.68 0.31 0.01
Matches are distributed among these distances:
19 13 0.14
20 81 0.86
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (20 bp):
CTTGTCTACAATACTGGTGG
Found at i:46578823 original size:80 final size:79
Alignment explanation
Indices: 46578663--46578859 Score: 241
Period size: 80 Copynumber: 2.5 Consensus size: 79
46578653 GAGGAAGTAA
* * * * * * * *
46578663 TGGCAGCTTGTTTGCAACACTGGTGGCTTGACCACATATTATTGGCATCTTGTCTCAATACTGGT
1 TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCAC--AGTAGTGGCAGCTTGTCTCAATACTGGT
*
46578728 GACTTGTCCATAATAT
64 GACTTGTCCACAATAT
*
46578744 TGGCAGCTTATCTGTAATATTGGTGGCTTGTCCACAGTAGTGGCAGCTTGTCTGCAATACTGGTG
1 TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCACAGTAGTGGCAGCTTGTCT-CAATACTGGTG
*
46578809 GCTTGTCCACAATAT
65 ACTTGTCCACAATAT
* * *
46578824 TGGTAGTTTATTTGTAATACTGGTGGCTTGTCCACA
1 TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCACA
46578860 AACTGGTGTG
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 15 0.15
80 56 0.56
81 29 0.29
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (79 bp):
TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCACAGTAGTGGCAGCTTGTCTCAATACTGGTGA
CTTGTCCACAATAT
Found at i:46593360 original size:22 final size:22
Alignment explanation
Indices: 46593334--46593380 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
46593324 TATACTCGCA
46593334 TCTAACCAATTAATGATTTATT
1 TCTAACCAATTAATGATTTATT
46593356 TCTAACCAATTAATGATTTATT
1 TCTAACCAATTAATGATTTATT
46593378 TCT
1 TCT
46593381 TTACCACGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (22 bp):
TCTAACCAATTAATGATTTATT
Found at i:46596197 original size:15 final size:15
Alignment explanation
Indices: 46596177--46596206 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46596167 GAGTAAGTTG
46596177 ATAATTCGATCAATA
1 ATAATTCGATCAATA
*
46596192 ATAATTTGATCAATA
1 ATAATTCGATCAATA
46596207 CTCATAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (15 bp):
ATAATTCGATCAATA
Found at i:46598676 original size:30 final size:30
Alignment explanation
Indices: 46598621--46598713 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
46598611 TGAATTATTT
* *
46598621 TTAAAAATTTGGTTCCTCTTTTTTGTAAATA
1 TTAAAAATTAGGTGCCTC-TTTTTGTAAATA
*
46598652 TTAAAAATTAGATGCCTCTTTTTGTAAATA
1 TTAAAAATTAGGTGCCTCTTTTTGTAAATA
46598682 TTAAAAATTAGGTGCCTCTTTTTGTAAATA
1 TTAAAAATTAGGTGCCTCTTTTTGTAAATA
46598712 TT
1 TT
46598714 TTTAAAAAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 43 0.74
31 15 0.26
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (30 bp):
TTAAAAATTAGGTGCCTCTTTTTGTAAATA
Found at i:46598779 original size:8 final size:7
Alignment explanation
Indices: 46598751--46598776 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46598741 TTAGTTCAAT
46598751 AAAAAGA
1 AAAAAGA
46598758 AAAAAGA
1 AAAAAGA
46598765 AAAAAGA
1 AAAAAGA
46598772 AAAAA
1 AAAAA
46598777 AGATGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:46609882 original size:22 final size:22
Alignment explanation
Indices: 46609856--46609900 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46609846 ATTATATGTA
46609856 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
46609878 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
46609900 T
1 T
46609901 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:46618423 original size:26 final size:26
Alignment explanation
Indices: 46618390--46618443 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
46618380 AAGAACTAGT
46618390 AAAAATTTTGGCTCGAGAAGTCAACA
1 AAAAATTTTGGCTCGAGAAGTCAACA
46618416 AAAAATTTTGGCTCGAGAAGTCAACA
1 AAAAATTTTGGCTCGAGAAGTCAACA
46618442 AA
1 AA
46618444 CTTTGGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (26 bp):
AAAAATTTTGGCTCGAGAAGTCAACA
Found at i:46629725 original size:20 final size:21
Alignment explanation
Indices: 46629702--46629744 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
46629692 CAAAAAAATT
*
46629702 TATTTTAAATTTAA-AAAAAA
1 TATTTTAAACTTAATAAAAAA
*
46629722 TATTTTTAACTTAATAAAAAA
1 TATTTTAAACTTAATAAAAAA
46629743 TA
1 TA
46629745 ACGAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTTAAACTTAATAAAAAA
Found at i:46629728 original size:21 final size:21
Alignment explanation
Indices: 46629693--46629744 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
46629683 TTATAACAAC
* *
46629693 AAAAAAATTTATTTTAAATTTA
1 AAAAAAATATATTTT-AACTTA
46629715 AAAAAAATAT-TTTTAACTTA
1 AAAAAAATATATTTTAACTTA
46629735 ATAAAAAATA
1 A-AAAAAATA
46629745 ACGAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 12 0.44
22 9 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAAATATATTTTAACTTA
Found at i:46633360 original size:114 final size:113
Alignment explanation
Indices: 46633145--46633644 Score: 330
Period size: 114 Copynumber: 4.4 Consensus size: 113
46633135 ATTTTTTGAG
*
46633145 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGC
* * *
46633210 GCAAAGCGAACACGCCGCTAAGGCATACTATTAGCGGCGCTTTGGGGT
66 GCAAAGCGAAAACGCCGCTAACGCACACTATTAGCGGCGCTTTGGGGT
* * * * * *
46633258 AAGCGTCGCAAAATTTCTTAACCAAAACGCAGCGTTTCTGTCTTGATGTATACTATAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-GGTCTTGAGGTATACTAGAATTAGTGG
* * * * ***
46633323 CGTATA-CTGGAAAACGCCGCTAACTC-CAGTATTAGCGGCGCTTT-TAAT
65 CGCAAAGC--GAAAACGCCGCTAACGCACACTATTAGCGGCGCTTTGGGGT
** * * ** *
46633371 AAAATGCCGCAAAATATAC-TCACCAAAACGCAGAGTTTTGTCTTGAGGTATGTTAGTATTAGTG
1 -AAGCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTG
* * * ** * * * * * **
46633435 GCGCTTATGGGAGCATGCCGCTAAAGAATACTATTAACGGCGCGTTCT-TAG-
64 GCGC-AAAGCGAAAACGCCGCTAACGCACACTATTAGCGGCGC-TT-TGGGGT
* * * * * * * *
46633486 AAGCACCGCAAAATATATTAACCAAAACACAGCGTTTAGGTCTTGATGTATAGTGGAATTACTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-GGTCTTGAGGTATACTAGAATTAGTGG
* * * * * * * * * * * *
46633551 CGTCCACGAGAAATCGCCTCTAAAGCATAGTATTAACGGTGCTTTTTGAG-
65 CG-CAAAGCGAAAACGCCGCTAACGCACACTATTAGCGGCGC-TTTGGGGT
*
46633601 AAGCGCCGAAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTT
46633645 AACCATGCAT
Statistics
Matches: 297, Mismatches: 75, Indels: 28
0.74 0.19 0.07
Matches are distributed among these distances:
113 70 0.24
114 115 0.39
115 105 0.35
116 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (113 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGC
GCAAAGCGAAAACGCCGCTAACGCACACTATTAGCGGCGCTTTGGGGT
Found at i:46633758 original size:15 final size:15
Alignment explanation
Indices: 46633750--46633791 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
46633740 TTATGTGTTA
46633750 AGGGTTTATGATTTT
1 AGGGTTTATGATTTT
46633765 AGGGTTTATGATTTT
1 AGGGTTTATGATTTT
46633780 AGGGTTTA-GATT
1 AGGGTTTATGATT
46633792 AACTAGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (15 bp):
AGGGTTTATGATTTT
Found at i:46633774 original size:30 final size:29
Alignment explanation
Indices: 46633722--46633791 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
46633712 TTAAAGGCTG
* *
46633722 GGGTTTAAAGTTTAGAGGTTATG-TGTTAA
1 GGGTTTAGATTTTAGAGGTTATGAT-TTAA
*
46633751 GGGTTTATGATTTTAG-GGTTTATGATTTTA
1 GGGTTTA-GATTTTAGAGG-TTATGATTTAA
46633781 GGGTTTAGATT
1 GGGTTTAGATT
46633792 AACTAGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 13 0.37
30 21 0.60
31 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (29 bp):
GGGTTTAGATTTTAGAGGTTATGATTTAA
Found at i:46634603 original size:53 final size:53
Alignment explanation
Indices: 46634540--46634648 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
46634530 AACAATGCTT
*
46634540 GGTGGACACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTGGGGATTTTAG
1 GGTGGACACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTAG
* * *
46634593 GGTGGACACTTGTATGGATTTAGGGTTTGGGATTTAAGGTTTAGGGCTTTTGG
1 GGTGGACACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTAG
46634646 GGT
1 GGT
46634649 CAGATCAGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.18, C:0.05, G:0.38, T:0.39
Consensus pattern (53 bp):
GGTGGACACTTGTATGGATTTAGGGTTTGAGATTTAAGGTTTAGGGATTTTAG
Found at i:46637370 original size:7 final size:6
Alignment explanation
Indices: 46637344--46637368 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46637334 GAGAGAGAAG
46637344 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
46637369 TACGAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:46642674 original size:42 final size:42
Alignment explanation
Indices: 46642615--46642722 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 42
46642605 CAACAACTTA
* * * **
46642615 AAGCAACGGCTGTAGCGAGGGAAGCAGCAGCTTCAGTGAGGG
1 AAGCAGCGGCTGTAGCGAGAGAAGCAGCAGCTGCAGCAAGGG
* *
46642657 AAGCAGCGGCTGTAGCGAGAGAAGTAGTAGCTGCAGCAAGGG
1 AAGCAGCGGCTGTAGCGAGAGAAGCAGCAGCTGCAGCAAGGG
* *
46642699 AAGCAGAGGCTGCAGCGAGAGAAG
1 AAGCAGCGGCTGTAGCGAGAGAAG
46642723 TAGAGTAGAG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.41, T:0.10
Consensus pattern (42 bp):
AAGCAGCGGCTGTAGCGAGAGAAGCAGCAGCTGCAGCAAGGG
Found at i:46642680 original size:21 final size:21
Alignment explanation
Indices: 46642615--46642722 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
46642605 CAACAACTTA
*
46642615 AAGCAACGGCTGTAGCGAGGG
1 AAGCAGCGGCTGTAGCGAGGG
* *
46642636 AAGCAGCAGCT-TCAGTGAGGG
1 AAGCAGCGGCTGT-AGCGAGGG
*
46642657 AAGCAGCGGCTGTAGCGAGAG
1 AAGCAGCGGCTGTAGCGAGGG
* ** * *
46642678 AAGTAGTAGCTGCAGCAAGGG
1 AAGCAGCGGCTGTAGCGAGGG
* * *
46642699 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGCGGCTGTAGCGAGGG
46642720 AAG
1 AAG
46642723 TAGAGTAGAG
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.41, T:0.10
Consensus pattern (21 bp):
AAGCAGCGGCTGTAGCGAGGG
Found at i:46643098 original size:42 final size:41
Alignment explanation
Indices: 46643042--46643160 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 41
46643032 GTTTTTGTAT
*
46643042 AAAAACGTCGCTAAAGAACATAGTCTTTAGCGACGCTTAATA
1 AAAAACGCCGCTAAAGAACAT-GTCTTTAGCGACGCTTAATA
* * *
46643084 AAAAACGCCGCTAAAGAATATGATCTTTCGCGGCGCTTAATA
1 AAAAACGCCGCTAAAGAACATG-TCTTTAGCGACGCTTAATA
* *
46643126 AAAAATGCCACTAAAGAACATGGTCTTTAGCGACG
1 AAAAACGCCGCTAAAGAACAT-GTCTTTAGCGACG
46643161 TTTTTGTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAACATGTCTTTAGCGACGCTTAATA
Found at i:46649058 original size:22 final size:22
Alignment explanation
Indices: 46648995--46649061 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
46648985 GTCTCGACTT
46648995 TCATTTTCATATGCTTATCAAA
1 TCATTTTCATATGCTTATCAAA
*
46649017 T-ATAAGTATT-ATAT--TAATCAAA
1 TCAT---T-TTCATATGCTTATCAAA
46649039 TCATTTTCATATGCTTATCAAA
1 TCATTTTCATATGCTTATCAAA
46649061 T
1 T
46649062 ATAAGTATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 17 0.49
23 2 0.06
24 5 0.14
25 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
TCATTTTCATATGCTTATCAAA
Found at i:46649058 original size:44 final size:44
Alignment explanation
Indices: 46648995--46649088 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
46648985 GTCTCGACTT
*
46648995 TCATTTTCATATGCTTATCAAATATAAGTATTATATTAATCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTATATTAACCAAA
*
46649039 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTATATTAACCAAA
46649083 TCATTT
1 TCATTT
46649089 ATTGAATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTATATTAACCAAA
Found at i:46649092 original size:21 final size:22
Alignment explanation
Indices: 46649067--46649110 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
46649057 CAAATATAAG
*
46649067 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
46649088 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
46649110 T
1 T
46649111 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:46650803 original size:17 final size:16
Alignment explanation
Indices: 46650765--46650803 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
46650755 TCATTAATAT
*
46650765 TATAATATATGAATTA
1 TATAAAATATGAATTA
46650781 TA-AAAATATGAATTA
1 TATAAAATATGAATTA
46650796 TAATAAAA
1 T-ATAAAA
46650804 ATAATAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 13 0.65
16 3 0.15
17 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (16 bp):
TATAAAATATGAATTA
Found at i:46653211 original size:2 final size:2
Alignment explanation
Indices: 46653206--46653234 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46653196 TGTATGTATA
46653206 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
46653235 TTGTAACGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:46653968 original size:26 final size:22
Alignment explanation
Indices: 46653923--46653966 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46653913 GCTCGCCCAG
46653923 CTGGATGCATTTTTCCTTTCTT
1 CTGGATGCATTTTTCCTTTCTT
46653945 CTGGATGCATTTTTCCTTTCTT
1 CTGGATGCATTTTTCCTTTCTT
46653967 TCTCTTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.23, G:0.14, T:0.55
Consensus pattern (22 bp):
CTGGATGCATTTTTCCTTTCTT
Found at i:46654010 original size:18 final size:18
Alignment explanation
Indices: 46653987--46654042 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
46653977 TTAAGGTTTT
46653987 TTTTGTTAGGTTTAGGGG
1 TTTTGTTAGGTTTAGGGG
* *
46654005 TTTTGTTAGGGTTA-AGG
1 TTTTGTTAGGTTTAGGGG
46654022 TTTT-TTAAGGATTTAGGGG
1 TTTTGTT-AGG-TTTAGGGG
46654041 TT
1 TT
46654043 AAAGTGCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 2 0.06
17 9 0.29
18 16 0.52
19 4 0.13
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (18 bp):
TTTTGTTAGGTTTAGGGG
Found at i:46654037 original size:36 final size:37
Alignment explanation
Indices: 46653971--46654042 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 37
46653961 TTTCTTTCTC
*
46653971 TTAGGGTTAAGGTTTTTTTTGTTAGGTTTAGGGGTTTTG
1 TTAGGGTTAAGG--TTTTTTGTAAGGTTTAGGGGTTTTG
46654010 TTAGGGTTAAGG-TTTTT-TAAGGATTTAGGGGTT
1 TTAGGGTTAAGGTTTTTTGTAAGG-TTTAGGGGTT
46654043 AAAGTGCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 4 0.13
36 15 0.48
39 12 0.39
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (37 bp):
TTAGGGTTAAGGTTTTTTGTAAGGTTTAGGGGTTTTG
Found at i:46659357 original size:23 final size:23
Alignment explanation
Indices: 46659327--46659375 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
46659317 TGTGAATTAC
* *
46659327 ATGGAAAT-GTTGTTACATGGTAT
1 ATGGAAATGGATGATACAT-GTAT
46659350 ATGGAAATGGATGATACATGTAT
1 ATGGAAATGGATGATACATGTAT
46659373 ATG
1 ATG
46659376 AAACATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (23 bp):
ATGGAAATGGATGATACATGTAT
Found at i:46672761 original size:21 final size:21
Alignment explanation
Indices: 46672696--46672761 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46672686 TTAATTATTT
* *
46672696 CCTGAGTTGCACATATGTGCC
1 CCTGAATTGCACATACGTGCC
* * * *
46672717 CCTG-TTTGTAC-TTCGATACC
1 CCTGAATTGCACATACG-TGCC
46672737 CCTGAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTGCC
46672758 CCTG
1 CCTG
46672762 TTTACATTCC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.36
21 16 0.48
22 3 0.09
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.30
Consensus pattern (21 bp):
CCTGAATTGCACATACGTGCC
Found at i:46674586 original size:21 final size:20
Alignment explanation
Indices: 46674548--46674610 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
46674538 ATTCAATTTC
46674548 TCAATCC-AAT-ATA-CATT
1 TCAATCCAAATAATATCATT
46674565 TCAATACCACAATAAT-TCATT
1 TCAAT-CCA-AATAATATCATT
*
46674586 T-AATTCAAATAATATCATT
1 TCAATCCAAATAATATCATT
46674605 TGCAAT
1 T-CAAT
46674611 TTCCATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 8 0.22
20 6 0.16
21 10 0.27
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAATCCAAATAATATCATT
Found at i:46679189 original size:21 final size:20
Alignment explanation
Indices: 46679146--46679190 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
46679136 ACTTAAGTAC
46679146 ATTTTGTTGCATTTTTAGGAT
1 ATTTTGTTGCATTTTTA-GAT
46679167 ATTTTAGTTAGCATTTTTA-AT
1 ATTTT-GTT-GCATTTTTAGAT
46679188 ATT
1 ATT
46679191 GAATTGGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 3 0.14
23 9 0.41
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.58
Consensus pattern (20 bp):
ATTTTGTTGCATTTTTAGAT
Found at i:46681531 original size:42 final size:42
Alignment explanation
Indices: 46681404--46681684 Score: 232
Period size: 43 Copynumber: 6.6 Consensus size: 42
46681394 TTCAGTGATA
46681404 CGGGGAATCAGCACATAGCAACCCCTTTCACACTT-AAAGATT
1 CGGGGAATCAGCACATAGCAACCCCTTTCACA-TTCAAAGATT
* ** * * *
46681446 CGATGGAATCAGCAGTTAGAAACCACCTTT-ATATTCAATGATT
1 CG-GGGAATCAGCACATAGCAACC-CCTTTCACATTCAAAGATT
*
46681489 CGGGGAATTAGCACATAGCAACCCCTTTCACACTT-AAAGATT
1 CGGGGAATCAGCACATAGCAACCCCTTTCACA-TTCAAAGATT
* * *** *
46681531 CGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTCGGTGATA
1 CGG-GGAATCAGCACATAGCAACC-CCTTTCACATTCAAAGATT
* * *
46681574 CGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAAAATA
1 CGGGGAATCAGCACATAGCAACCCCTTTCACATTCAAAGATT
* * * *
46681616 CGGTGGGATCAGCACTTAGCAACCACCTTT-AGAGTCAATA-ATT
1 CGG-GGAATCAGCACATAGCAACC-CCTTTCACATTCAA-AGATT
* * *
46681659 CAGGGAATCAGCACTTAGAAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
46681685 CAGGTAATCA
Statistics
Matches: 192, Mismatches: 35, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
41 13 0.07
42 80 0.42
43 83 0.43
44 16 0.08
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
CGGGGAATCAGCACATAGCAACCCCTTTCACATTCAAAGATT
Found at i:46681538 original size:85 final size:85
Alignment explanation
Indices: 46681361--46681684 Score: 425
Period size: 85 Copynumber: 3.8 Consensus size: 85
46681351 TATTCGTTAC
* * * * *
46681361 TCGGTGGATTCAGCACTTAGCAACTA-CTATAAATTCAGTGATACGGGGAATCAGCACATAGCAA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACATAGCAA
46681425 CCCCTTTCACACTTAAAGAT
66 CCCCTTTCACACTTAAAGAT
* * * * *
46681445 TCGATGGAATCAGCAGTTAGAAACCACCTTTATATTCAATGATTCGGGGAATTAGCACATAGCAA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACATAGCAA
46681510 CCCCTTTCACACTTAAAGAT
66 CCCCTTTCACACTTAAAGAT
**
46681530 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCGGTGATACGGGGAATCAGCACATAGCAA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACATAGCAA
* * *
46681595 CCCCTTTCACAATCAAAAAT
66 CCCCTTTCACACTTAAAGAT
* * * * * * * * *
46681615 ACGGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGAAA
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACATAGCAA
46681680 CCCCT
66 CCCCT
46681685 CAGGTAATCA
Statistics
Matches: 208, Mismatches: 31, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
84 21 0.10
85 187 0.90
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (85 bp):
TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACATAGCAA
CCCCTTTCACACTTAAAGAT
Found at i:46681688 original size:26 final size:26
Alignment explanation
Indices: 46681658--46681710 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
46681648 AGTCAATAAT
*
46681658 TCAGGGAATCAGCACTTAGAAACCCC
1 TCAGGGAATCAACACTTAGAAACCCC
* *
46681684 TCAGGTAATCAACACTTAGCAACCCC
1 TCAGGGAATCAACACTTAGAAACCCC
46681710 T
1 T
46681711 TTTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (26 bp):
TCAGGGAATCAACACTTAGAAACCCC
Found at i:46682083 original size:12 final size:12
Alignment explanation
Indices: 46682066--46682104 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46682056 TTTAGCTTAT
46682066 TTAATATTCATA
1 TTAATATTCATA
*
46682078 TTAATATTCACA
1 TTAATATTCATA
*
46682090 TTTAATATGCATA
1 -TTAATATTCATA
46682103 TT
1 TT
46682105 TACATTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (12 bp):
TTAATATTCATA
Found at i:46682105 original size:13 final size:13
Alignment explanation
Indices: 46682063--46682106 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
46682053 AAATTTAGCT
46682063 TATTTAATATTCA
1 TATTTAATATTCA
46682076 TA-TTAATATTCA
1 TATTTAATATTCA
* *
46682088 CATTTAATATGCA
1 TATTTAATATTCA
46682101 TATTTA
1 TATTTA
46682107 CATTTTTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (13 bp):
TATTTAATATTCA
Found at i:46700530 original size:7 final size:7
Alignment explanation
Indices: 46700518--46700543 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46700508 TACATGCGTG
46700518 TGTGTGA
1 TGTGTGA
46700525 TGTGTGA
1 TGTGTGA
46700532 TGTGTGA
1 TGTGTGA
46700539 TGTGT
1 TGTGT
46700544 TTGGCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (7 bp):
TGTGTGA
Found at i:46706116 original size:28 final size:28
Alignment explanation
Indices: 46706084--46706145 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
46706074 TGTATCAGTG
46706084 TGTGGGCCACAGCCCAATACAGTAACAA
1 TGTGGGCCACAGCCCAATACAGTAACAA
** *
46706112 TGTGGGCCTTAGCCCAATACAGTAACAT
1 TGTGGGCCACAGCCCAATACAGTAACAA
46706140 TGTGGG
1 TGTGGG
46706146 ACTTAGCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (28 bp):
TGTGGGCCACAGCCCAATACAGTAACAA
Found at i:46706150 original size:28 final size:28
Alignment explanation
Indices: 46706094--46706166 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
46706084 TGTGGGCCAC
*
46706094 AGCCCAATACAGTAACAATGTGGGCCTT
1 AGCCCAATACAGTAACAATGTGGGACTT
*
46706122 AGCCCAATACAGTAACATTGTGGGACTT
1 AGCCCAATACAGTAACAATGTGGGACTT
* *
46706150 AGCCCAATTCAGAAACA
1 AGCCCAATACAGTAACA
46706167 GTGTTAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (28 bp):
AGCCCAATACAGTAACAATGTGGGACTT
Found at i:46706452 original size:32 final size:32
Alignment explanation
Indices: 46706397--46706634 Score: 248
Period size: 32 Copynumber: 7.5 Consensus size: 32
46706387 AAATGACCAT
*
46706397 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
* *
46706428 AAGCCATCAATAGCAGTGATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
* * *
46706460 CAA-CCATCATTAACGGTAATATGATTGGCACA
1 -AAGCCATCAGTAGCAGTAATATGATTGGCACA
* * * * *
46706492 AAGCCATCAGTAGAAATGATATGATCGGTACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
* * *
46706524 CAA-CCATCAGTAACGGTAATATGATCGGCACA
1 -AAGCCATCAGTAGCAGTAATATGATTGGCACA
* *
46706556 AAGCCATCAGTAGCAGTGATATGATTAGCACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
* * * * *
46706588 CAGCCATCAGTAACGGTAATATGATCGGCATA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
46706620 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
46706635 TCGCAGCAAA
Statistics
Matches: 166, Mismatches: 36, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
31 14 0.08
32 148 0.89
33 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATTGGCACA
Found at i:46706512 original size:64 final size:64
Alignment explanation
Indices: 46706411--46706634 Score: 349
Period size: 64 Copynumber: 3.5 Consensus size: 64
46706401 CATAAGTACA
* * *
46706411 GTAATATGATTGGCACAAAGCCATCAATAGCAGTGATATGATTGGCACACAACCATCATTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACG
* * * * *
46706475 GTAATATGATTGGCACAAAGCCATCAGTAGAAATGATATGATCGGTACACAACCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACG
* *
46706539 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTAGCACACAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACG
*
46706603 GTAATATGATCGGCATAAAGCCATCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAGCA
46706635 TCGCAGCAAA
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 146 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (64 bp):
GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACG
Found at i:46706684 original size:26 final size:26
Alignment explanation
Indices: 46706634--46706687 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
46706624 CATCAGTAGC
* * *
46706634 ATCGCAGCAAAGCTACTAGCGACAGT
1 ATCGCAACAAAGCTACCAGCAACAGT
*
46706660 ATCGCAACAAAGCTACCAGTAACAGT
1 ATCGCAACAAAGCTACCAGCAACAGT
46706686 AT
1 AT
46706688 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (26 bp):
ATCGCAACAAAGCTACCAGCAACAGT
Found at i:46706704 original size:27 final size:25
Alignment explanation
Indices: 46706669--46706739 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 25
46706659 TATCGCAACA
*
46706669 AAGCTACCAGTAACAGTATATGTGGCC
1 AAGCCACCAGTAACAGTAT-TGTGG-C
*
46706696 AAGCCACCAGTAACAGTGATTGTGGT
1 AAGCCACCAGTAACAGT-ATTGTGGC
46706722 AGAGCCACCAGT-ACAGTA
1 A-AGCCACCAGTAACAGTA
46706740 CTTCCTCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 1 0.03
26 6 0.15
27 31 0.77
28 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCCACCAGTAACAGTATTGTGGC
Found at i:46721354 original size:23 final size:21
Alignment explanation
Indices: 46721312--46721354 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
46721302 ATCCGTATAT
*
46721312 ATGTATGACATTTCATAACAC
1 ATGTATGACATTTCAAAACAC
*
46721333 ATGTATGATTCATTTGAAAACA
1 ATGTATGA--CATTTCAAAACA
46721355 AATGAACACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (21 bp):
ATGTATGACATTTCAAAACAC
Found at i:46730553 original size:16 final size:16
Alignment explanation
Indices: 46730532--46730564 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46730522 AGGGTGCTAT
*
46730532 AGCTTTATATGTGCAA
1 AGCTTTATATATGCAA
46730548 AGCTTTATATATGCAA
1 AGCTTTATATATGCAA
46730564 A
1 A
46730565 TGTGATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (16 bp):
AGCTTTATATATGCAA
Found at i:46737462 original size:17 final size:17
Alignment explanation
Indices: 46737437--46737469 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46737427 TCACGTGGAG
*
46737437 ATTCGAAGAAATATTCT
1 ATTCAAAGAAATATTCT
46737454 ATTCAAAGAAATATTC
1 ATTCAAAGAAATATTC
46737470 CATACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
ATTCAAAGAAATATTCT
Found at i:46737477 original size:17 final size:17
Alignment explanation
Indices: 46737442--46737477 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46737432 TGGAGATTCG
* *
46737442 AAGAAATATTCTATTCA
1 AAGAAATATTCCATACA
46737459 AAGAAATATTCCATACA
1 AAGAAATATTCCATACA
46737476 AA
1 AA
46737478 TACTACGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.28
Consensus pattern (17 bp):
AAGAAATATTCCATACA
Found at i:46739132 original size:183 final size:183
Alignment explanation
Indices: 46738782--46739136 Score: 548
Period size: 183 Copynumber: 1.9 Consensus size: 183
46738772 CCTCTAGTAA
*
46738782 GGCATGTGAATGCAAATCAATATTGGCAAATGAACCCGGCCTTACGAGAGAAAACTTATGTGTTC
1 GGCATGTGAATGCAAATCAATATTGGCAAATAAACCCGGCCTTACGAGAGAAAACTTATGTGTTC
* * * *
46738847 AAATTAACAAGGAGGATTTGCAGAGGTTTGGGCAAACTATATCAAAAATGAATATTAATGATAAT
66 AAATTAACAAGGAGGATTTGCAAAGGTTTGGGCAAACTAAATCAAAAATGAATATTAATAACAAT
* * * *
46738912 TAACTTTGCGGAGGATCGGACAAACTATATAGAGAAAAGTGCAAATCAATATT
131 TAACTTCGCAGAGGATCAGACAAACTATACAGAGAAAAGTGCAAATCAATATT
* * *
46738965 GGCATGTGAATGCAAATCAATATTGGCAAATAAACCCGGCCTTGCGGGAGAACACTTATGTGTTC
1 GGCATGTGAATGCAAATCAATATTGGCAAATAAACCCGGCCTTACGAGAGAAAACTTATGTGTTC
*
46739030 AAATTAACAAGGAGGATTTGCAAAGGTTTGGGCAAACTAAATCGAAAATGAATATTAATAACAAT
66 AAATTAACAAGGAGGATTTGCAAAGGTTTGGGCAAACTAAATCAAAAATGAATATTAATAACAAT
* * * * *
46739095 TGACTTCGCAGAGGTTCAGACAGACTGTACGGAGAAAAGTGC
131 TAACTTCGCAGAGGATCAGACAAACTATACAGAGAAAAGTGC
46739137 CCATGGTTGA
Statistics
Matches: 154, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
183 154 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (183 bp):
GGCATGTGAATGCAAATCAATATTGGCAAATAAACCCGGCCTTACGAGAGAAAACTTATGTGTTC
AAATTAACAAGGAGGATTTGCAAAGGTTTGGGCAAACTAAATCAAAAATGAATATTAATAACAAT
TAACTTCGCAGAGGATCAGACAAACTATACAGAGAAAAGTGCAAATCAATATT
Found at i:46741794 original size:13 final size:13
Alignment explanation
Indices: 46741768--46741803 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
46741758 GTATCCTGCA
46741768 GTTAGGGTTTTAGG
1 GTTAGGG-TTTAGG
*
46741782 TTTAGGGTTTAGG
1 GTTAGGGTTTAGG
46741795 GTTAGGGTT
1 GTTAGGGTT
46741804 AGAGTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (13 bp):
GTTAGGGTTTAGG
Found at i:46742276 original size:127 final size:126
Alignment explanation
Indices: 46742005--46742284 Score: 427
Period size: 126 Copynumber: 2.2 Consensus size: 126
46741995 ATTTTAAGGG
* * * *
46742005 AAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGTAGACG
1 AAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAAACG
* *
46742070 TTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGA
66 TTTCTGAGCAAATAGTGCAAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACTGA
* * * *
46742131 AAAAAGCTCCCACATGGACGTGGTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAAACG
1 AAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAAACG
* *
46742196 TTTCTGAGCAAATAGTGTAAAAAGAC-CTTTTAAGTAAGATGCATTGTCAGCAAAAGTACTGA
66 TTTCTGAGCAAATAGTGCAAAAA-ACGC-TTTAAGCAAGATGCATTGTCAGCAAAAGTACTGA
46742258 AAGAAGCTCCCACGTGGACGCGCTTTT
1 AAGAAGCTCCCACGTGGACGCGCTTTT
46742285 CTTACAATAG
Statistics
Matches: 136, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
126 79 0.58
127 57 0.42
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (126 bp):
AAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAAACG
TTTCTGAGCAAATAGTGCAAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGTACTGA
Found at i:46748938 original size:21 final size:22
Alignment explanation
Indices: 46748900--46748943 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
46748890 GAATCAAAAA
46748900 CTCCTTAACCCTAATACATACT
1 CTCCTTAACCCTAATACATACT
*
46748922 CTCCTTAA-CCTAGTACATACT
1 CTCCTTAACCCTAATACATACT
46748943 C
1 C
46748944 CTAATCAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (22 bp):
CTCCTTAACCCTAATACATACT
Found at i:46750434 original size:26 final size:28
Alignment explanation
Indices: 46750378--46750445 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
46750368 TGGTTATGCA
* * *
46750378 TATATTATATATATGGATGGCTTTATTT
1 TATATAATATATATGCATGGCTTTATAT
46750406 TATATAATATATATGCATGG-TTT-TAT
1 TATATAATATATATGCATGGCTTTATAT
*
46750432 TATATAGTATATAT
1 TATATAATATATAT
46750446 TAATGGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 15 0.42
27 3 0.08
28 18 0.50
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (28 bp):
TATATAATATATATGCATGGCTTTATAT
Found at i:46750451 original size:26 final size:27
Alignment explanation
Indices: 46750378--46750456 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
46750368 TGGTTATGCA
* * * *
46750378 TATATTATATATATGGATGGCTTTATTT
1 TATATAATATATATGAATGGATTT-TAT
*
46750406 TATATAATATATATGCATGG-TTTTAT
1 TATATAATATATATGAATGGATTTTAT
* *
46750432 TATATAGTATATATTAATGGATTTT
1 TATATAATATATATGAATGGATTTT
46750457 GGTGTCATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 19 0.43
27 7 0.16
28 18 0.41
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.52
Consensus pattern (27 bp):
TATATAATATATATGAATGGATTTTAT
Found at i:46750481 original size:5 final size:5
Alignment explanation
Indices: 46750463--46750496 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
46750453 TTTTGGTGTC
*
46750463 ATAT- ATATA ATATA TTATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
46750497 TATGGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:46750907 original size:18 final size:18
Alignment explanation
Indices: 46750886--46750942 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
46750876 CATGTTAACT
*
46750886 TGGTGACTTATATTATTA
1 TGGTGAATTATATTATTA
* *
46750904 TGGTGAATTGTGTTAATT-
1 TGGTGAATTATATT-ATTA
46750922 TGGTGAATTATATTATTA
1 TGGTGAATTATATTATTA
46750940 TGG
1 TGG
46750943 CAAACTGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (18 bp):
TGGTGAATTATATTATTA
Found at i:46758581 original size:24 final size:21
Alignment explanation
Indices: 46758554--46758609 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
46758544 CAAAATAGTG
46758554 AAAAAAAACAAGAAGAAAATAAGA
1 AAAAAAAACAAGAA-AAAA-AA-A
* * *
46758578 AAAAACAGCAAGAAAACAAAA
1 AAAAAAAACAAGAAAAAAAAA
46758599 AAAAAAAACAA
1 AAAAAAAACAA
46758610 ATTTTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 10 0.37
22 2 0.07
23 3 0.11
24 12 0.44
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (21 bp):
AAAAAAAACAAGAAAAAAAAA
Found at i:46758582 original size:21 final size:21
Alignment explanation
Indices: 46758554--46758603 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
46758544 CAAAATAGTG
*
46758554 AAAAAAAACAAG-AAGAAAATA
1 AAAAAAAAC-AGCAAGAAAACA
*
46758575 AGAAAAAACAGCAAGAAAACA
1 AAAAAAAACAGCAAGAAAACA
46758596 AAAAAAAA
1 AAAAAAAA
46758604 AAACAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.80, C:0.08, G:0.10, T:0.02
Consensus pattern (21 bp):
AAAAAAAACAGCAAGAAAACA
Found at i:46765857 original size:10 final size:10
Alignment explanation
Indices: 46765835--46765879 Score: 72
Period size: 10 Copynumber: 4.3 Consensus size: 10
46765825 AAAGTATAAC
46765835 AAATTATTTAA
1 AAATTA-TTAA
46765846 AAATTATTAA
1 AAATTATTAA
46765856 AAATTATTAAA
1 AAATTATT-AA
46765867 AAATTATTAA
1 AAATTATTAA
46765877 AAA
1 AAA
46765880 CAACATCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 17 0.52
11 16 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTATTAA
Found at i:46765859 original size:21 final size:21
Alignment explanation
Indices: 46765835--46765879 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
46765825 AAAGTATAAC
*
46765835 AAATTATTTAAAAATTATTAA
1 AAATTATTAAAAAATTATTAA
46765856 AAATTATTAAAAAATTATTAA
1 AAATTATTAAAAAATTATTAA
46765877 AAA
1 AAA
46765880 CAACATCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTATTAAAAAATTATTAA
Found at i:46765971 original size:11 final size:11
Alignment explanation
Indices: 46765955--46765988 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
46765945 GTGTAGTTTT
46765955 TTAAATAATTA
1 TTAAATAATTA
46765966 TTAAATAATTA
1 TTAAATAATTA
* *
46765977 TAAAATTATTA
1 TTAAATAATTA
46765988 T
1 T
46765989 ATATGCACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAATAATTA
Found at i:46766096 original size:18 final size:20
Alignment explanation
Indices: 46766061--46766097 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
46766051 ACGAGTTTTA
*
46766061 TTTTATTAATTTTTAATATT
1 TTTTATTAATTTTAAATATT
46766081 TTTTA-TAA-TTTAAATAT
1 TTTTATTAATTTTAAATAT
46766098 ATACACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATTAATTTTAAATATT
Found at i:46766653 original size:29 final size:28
Alignment explanation
Indices: 46766608--46766680 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
46766598 TGAATAATTT
*
46766608 TTTTAACA-GAAA-AATTAATTTAT-ATA
1 TTTTAACATAAAAGAATTAATTTATCA-A
46766634 GTTTTAACATAAAAGAATTAATTTATCAA
1 -TTTTAACATAAAAGAATTAATTTATCAA
*
46766663 TTTTAAAATAAATAGAAT
1 TTTTAACATAAA-AGAAT
46766681 AATATGCAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 8 0.20
28 14 0.35
29 17 0.43
30 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (28 bp):
TTTTAACATAAAAGAATTAATTTATCAA
Done.