Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 2 of 161
Found at i:414448 original size:21 final size:22
Alignment explanation
Indices: 414402--414451 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
414392 CTGAGCTTTA
*
414402 ATTTTCAACTTGCTATTTTTCT
1 ATTTTCAACTTGCTATTTTGCT
414424 ATTTTCAACTTGCTA-TTTGCT
1 ATTTTCAACTTGCTATTTTGCT
414445 ATTTTCA
1 ATTTTCA
414452 GTTGCTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.56
Consensus pattern (22 bp):
ATTTTCAACTTGCTATTTTGCT
Found at i:416321 original size:25 final size:24
Alignment explanation
Indices: 416288--416336 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
416278 CGGGAGATTT
416288 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
*
416312 TTATATTTATTTAGTATTAATATAA
1 TTAT-TTTATTTAATATTAATATAA
416337 AATTGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:418016 original size:9 final size:9
Alignment explanation
Indices: 418002--418074 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
417992 TATTTTTCAC
418002 ATAAAAAAT
1 ATAAAAAAT
*
418011 ATAAAATAT
1 ATAAAAAAT
*
418020 CAGAAAAAAATT
1 -A-TAAAAAA-T
418032 ATAAAAAAT
1 ATAAAAAAT
*
418041 AT-AAATAT
1 ATAAAAAAT
**
418049 -TATTAAAT
1 ATAAAAAAT
*
418057 ATAGAAAAT
1 ATAAAAAAT
418066 ATAAAAAAT
1 ATAAAAAAT
418075 CTATTAAACT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 1 0.02
8 8 0.17
9 25 0.52
10 7 0.15
11 6 0.12
12 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:418079 original size:27 final size:25
Alignment explanation
Indices: 418031--418112 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
418021 AGAAAAAAAT
*
418031 TATAAAAAATATAAATATTATTAAA
1 TATAAAAAATATAAAAATTATTAAA
*
418056 TATAGAAAATATAAAAAATCTATTAAA
1 TATAAAAAATAT-AAAAAT-TATTAAA
* * * *
418083 CTCTAATAAATTATAAAAATCATAAAA
1 -TATAA-AAAATATAAAAATTATTAAA
418110 TAT
1 TAT
418113 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
25 11 0.24
26 7 0.16
27 12 0.27
28 9 0.20
29 6 0.13
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (25 bp):
TATAAAAAATATAAAAATTATTAAA
Found at i:418139 original size:21 final size:19
Alignment explanation
Indices: 418104--418149 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
418094 TATAAAAATC
*
418104 ATAAAATATTTAAAATTTT
1 ATAAAATATTTAAAATTCT
418123 ATAAAAGTATATTAAAATTCT
1 ATAAAA-TAT-TTAAAATTCT
418144 ATAAAA
1 ATAAAA
418150 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 3 0.12
21 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAAATATTTAAAATTCT
Found at i:418917 original size:19 final size:20
Alignment explanation
Indices: 418895--418933 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
418885 TAAATTTTCT
*
418895 AAAATTTTAAATAT-ATTAA
1 AAAATGTTAAATATAATTAA
*
418914 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
418934 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAATGTTAAATATAATTAA
Found at i:418957 original size:17 final size:17
Alignment explanation
Indices: 418935--418973 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
418925 TATAATTAAT
418935 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
418952 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
418969 CTTAA
1 TTTAA
418974 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:418962 original size:70 final size:67
Alignment explanation
Indices: 418881--419161 Score: 233
Period size: 70 Copynumber: 4.0 Consensus size: 67
418871 AATGTGATTT
* * * *
418881 TTTTTAAATTTTCTAAAATTTTAAATATATTAAAAAATGTTAAGTATAATTAATTTTAAAAGTTT
1 TTTTAAAATTTT-TAAAAATTTAAATATATTAAAAAA-GTTAAGTATAACTAATTTTAAAATTTT
418946 AATA
64 AATA
* * * * * ** *
418950 TATTTAAAA-TTTTAATATACTTAATATATATTTTTAATAAGTAAAG-ATAAAAAAATTCTTAAT
1 T-TTTAAAATTTTTAA-AAATTTAA-ATATA--TTAAAAAAGTTAAGTAT-AACTAATT-TTAAA
*
419013 ATATTTAAAA
59 AT-TTTAATA
*** *
419023 TTTTAAAAAACTTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACTAATTTTAATATTTTA
1 TTTTAAAATTTTTAAAAATTTAAATATATTAAAAAA-GTTAAGTATAACTAATTTTAAAATTTTA
419088 ATA
65 ATA
** * *
419091 TTTTAAATATATTTTTAAAAAACTAAATATATTAAAAAAGTTAAGTACAACCAATTTTAAAATTT
1 TTTT-AA-A-ATTTTTAAAAATTTAAATATATTAAAAAAGTTAAGTATAACTAATTTTAAAATTT
419156 TAATA
63 TAATA
419161 T
1 T
419162 ATTCAATATA
Statistics
Matches: 168, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
68 13 0.08
69 24 0.14
70 54 0.32
71 42 0.25
72 24 0.14
73 11 0.07
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (67 bp):
TTTTAAAATTTTTAAAAATTTAAATATATTAAAAAAGTTAAGTATAACTAATTTTAAAATTTTAA
TA
Found at i:419054 original size:17 final size:17
Alignment explanation
Indices: 419000--419128 Score: 57
Period size: 17 Copynumber: 7.3 Consensus size: 17
418990 GTAAAGATAA
*
419000 AAAAATTCTTAATATATTT
1 AAAAATT-TAAATATA-TT
* *
419019 AAAATTTTAAA-AAACTT
1 AAAAATTTAAATATA-TT
419036 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
*
419053 AAAAAATGTTAAGTATA--
1 -AAAAAT-TTAAATATATT
** * *
419070 ACTAATTTTAATATTTT
1 AAAAATTTAAATATATT
* *
419087 AATATTTTAAATATATTTTT
1 AAAAATTTAAATATA---TT
**
419107 AAAAAACTAAATATATT
1 AAAAATTTAAATATATT
419124 AAAAA
1 AAAAA
419129 AGTTAAGTAC
Statistics
Matches: 82, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
15 6 0.07
16 4 0.05
17 34 0.41
18 11 0.13
19 14 0.17
20 13 0.16
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:419177 original size:71 final size:71
Alignment explanation
Indices: 419034--419176 Score: 216
Period size: 70 Copynumber: 2.0 Consensus size: 71
419024 TTTAAAAAAC
** * * * *
419034 TTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACTAATTTTAATATTTTAATATTTTAAAT
1 TTAAAAAACTAAATATATTAAAAAATGTTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
419099 ATATTT
66 ATATTT
*
419105 TTAAAAAACTAAATATATTAAAAAA-GTTAAGTACAACCAATTTTAAAATTTTAATATATTCAAT
1 TTAAAAAACTAAATATATTAAAAAATGTTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
419169 ATATTT
66 ATATTT
419175 TT
1 TT
419177 TTAAAATATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 42 0.65
71 23 0.35
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (71 bp):
TTAAAAAACTAAATATATTAAAAAATGTTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
ATATTT
Found at i:419295 original size:16 final size:17
Alignment explanation
Indices: 419243--419311 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
419233 AAAAATATTT
*
419243 TTTTATATAT-TTAAAA
1 TTTTAAATATATTAAAA
* *
419259 TTTTAAAAAAATTTAGAAAA
1 TTTTAAATATA-TT--AAAA
*
419279 ATTTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
419296 TTTTAAATATGTTAAA
1 TTTTAAATATATTAAA
419312 GAAAATGTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 7 0.17
17 18 0.44
18 2 0.05
19 2 0.05
20 12 0.29
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:419360 original size:18 final size:18
Alignment explanation
Indices: 419334--419394 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
419324 CATCATCAAT
419334 TTTAAATATTT-AATATA
1 TTTAAATATTTAAATATA
419351 TTTAATATATTTAAATATA
1 TTTAA-ATATTTAAATATA
* *
419370 TTAAAAT-TTTGAAACATA
1 TTTAAATATTT-AAATATA
*
419388 TTAAAAT
1 TTTAAAT
419395 TCTTTTAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.21
18 21 0.54
19 10 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTAAATATTTAAATATA
Found at i:419369 original size:10 final size:9
Alignment explanation
Indices: 419334--419371 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
419324 CATCATCAAT
419334 TTTAA-ATA
1 TTTAATATA
419342 TTTAATATA
1 TTTAATATA
419351 TTTAATATA
1 TTTAATATA
419360 TTTAAATATA
1 TTT-AATATA
419370 TT
1 TT
419372 AAAATTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 5 0.18
9 15 0.54
10 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTTAATATA
Found at i:419373 original size:9 final size:9
Alignment explanation
Indices: 419335--419392 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
419325 ATCATCAATT
419335 TTAAATAT-
1 TTAAATATA
419343 TT-AATATA
1 TTAAATATA
*
419351 TTTAATATA
1 TTAAATATA
419360 TTTAAATATA
1 -TTAAATATA
*
419370 TTAAA-ATT
1 TTAAATATA
*
419378 TTGAAACATA
1 TT-AAATATA
419388 TTAAA
1 TTAAA
419393 ATTCTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 5 0.12
8 8 0.19
9 17 0.40
10 12 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (9 bp):
TTAAATATA
Found at i:419403 original size:80 final size:79
Alignment explanation
Indices: 419279--419441 Score: 188
Period size: 80 Copynumber: 2.1 Consensus size: 79
419269 ATTTAGAAAA
* * * *
419279 ATTTAAATATATTAAAATTTTAAATATGTTAAAGAAAATGTTAAGCATCATC-AATTTTAAATAT
1 ATTTAAATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGCATAAGCAAATTTTAAAT-T
419343 TTAATATATT-TAATAT
65 TTAA-AT-TTCTAATAT
*** * *
419359 ATTTAAATATATTAAAATTTTGAAACATATTAAA-ATTCTTTTAAGTATAAGCAAATTTTAAATT
1 ATTTAAATATATTAAAATTTT-AAACATATTAAAGAAAATGTTAAGCATAAGCAAATTTTAAATT
419423 TTAAATTTCTAATAT
65 TTAAATTTCTAATAT
419438 ATTT
1 ATTT
419442 TTTAATAGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 12 0.17
80 37 0.52
81 20 0.28
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (79 bp):
ATTTAAATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGCATAAGCAAATTTTAAATTT
TAAATTTCTAATAT
Found at i:421210 original size:18 final size:17
Alignment explanation
Indices: 421174--421220 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
421164 AATACAACCC
421174 AAAAT-AAAAAATAAAA
1 AAAATAAAAAAATAAAA
*
421190 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAAT-AAAA
*
421208 AAAAGAAAAAAAT
1 AAAATAAAAAAAT
421221 TTAACCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 5 0.19
17 7 0.26
18 15 0.56
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:433245 original size:88 final size:88
Alignment explanation
Indices: 433096--434023 Score: 1768
Period size: 88 Copynumber: 10.6 Consensus size: 88
433086 AGCTGAATAT
* * * *
433096 ATCCAAGATGATTTGGCATTTCTTTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433161 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433184 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433249 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433272 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433337 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433360 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433425 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433448 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433513 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433536 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433601 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433624 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433689 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433712 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433777 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433800 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
433865 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
433888 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
433953 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTGAAGCAG
* * * *
433976 ATCCAAGATGATTTGGCGTCTCTGTAGCGA-CAGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGA
434024 TAACATATTT
Statistics
Matches: 831, Mismatches: 9, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
87 17 0.02
88 814 0.98
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAAGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAG
Found at i:434039 original size:44 final size:44
Alignment explanation
Indices: 433985--434353 Score: 585
Period size: 44 Copynumber: 8.4 Consensus size: 44
433975 AATCCAAGAT
* *
433985 GATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
434029 TATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
434073 GATTTGGCGTCTGTGTAGCGGCGGAGAGCAGGTCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
**
434117 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
434161 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
434205 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
434249 GATTTGGCGTCTCTGTAACGGCGGATAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
434293 GATTTGGCGTCTTTGTAACGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
434337 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
434354 TTAGATGGGG
Statistics
Matches: 299, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 299 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:434656 original size:7 final size:7
Alignment explanation
Indices: 434644--434668 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
434634 AATACAACCC
434644 AAAATAA
1 AAAATAA
434651 AAAATAA
1 AAAATAA
434658 AAAATAA
1 AAAATAA
434665 AAAA
1 AAAA
434669 ATGAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:435526 original size:19 final size:19
Alignment explanation
Indices: 435502--435539 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
435492 TTGAGATTGC
*
435502 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
435521 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
435540 TATTCGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:438629 original size:38 final size:39
Alignment explanation
Indices: 438587--438670 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
438577 GAAGGAAGAA
*
438587 AGAAAAAAAAGAGAAGCA-AGCTAGAGAGAG-AGGGGAAG
1 AGAAAAAAAAGAGAAGCAGA-CTAGAGAAAGAAGGGGAAG
*
438625 AGAAAAAAAAGAGGAGCAGACTAGAGAAAGAAGGGGAAG
1 AGAAAAAAAAGAGAAGCAGACTAGAGAAAGAAGGGGAAG
438664 A-AAAAAA
1 AGAAAAAA
438671 TAGAAGAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 32 0.76
39 10 0.24
ACGTcount: A:0.60, C:0.05, G:0.33, T:0.02
Consensus pattern (39 bp):
AGAAAAAAAAGAGAAGCAGACTAGAGAAAGAAGGGGAAG
Found at i:438689 original size:36 final size:39
Alignment explanation
Indices: 438617--438690 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 39
438607 CTAGAGAGAG
* * *
438617 AGGGGAAGAGAAAAAAAAGAGGAGCAGACTAGAGAAAGA
1 AGGGGAAGAGAAAAAAAAGAAGAGCAGACAAAAGAAAGA
*
438656 AGGGGAAGA-AAAAAATAGAAGAG-AGA-AAAAGAAAG
1 AGGGGAAGAGAAAAAAAAGAAGAGCAGACAAAAGAAAG
438691 GAGAAAGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 7 0.23
37 3 0.10
38 12 0.39
39 9 0.29
ACGTcount: A:0.61, C:0.03, G:0.34, T:0.03
Consensus pattern (39 bp):
AGGGGAAGAGAAAAAAAAGAAGAGCAGACAAAAGAAAGA
Found at i:438760 original size:31 final size:30
Alignment explanation
Indices: 438709--438770 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
438699 GGAGGAGAAG
*
438709 AGGGTTGTGTTTGAGATTTGAGAAAAGAATT
1 AGGGTTGTGTTTGAGATTTGA-AAAAAAATT
*
438740 AGGGTTGTGTTT-AGGGTTTGAAAAAAAATT
1 AGGGTTGTGTTTGA-GATTTGAAAAAAAATT
438770 A
1 A
438771 AGAGGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.35
Consensus pattern (30 bp):
AGGGTTGTGTTTGAGATTTGAAAAAAAATT
Found at i:442979 original size:226 final size:226
Alignment explanation
Indices: 442578--443042 Score: 835
Period size: 226 Copynumber: 2.1 Consensus size: 226
442568 CTCAATTAAG
442578 TTACAAA--CATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
1 TTACAAACCCATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
442641 TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
66 TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
*
442706 AGCAAACAAGTATAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
131 AGCAAACAAGTACAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
442771 GTGTTAACACATTGCACATGGATAAATAGGT
196 GTGTTAACACATTGCACATGGATAAATAGGT
* ** *
442802 TTACAAACCCATAACATTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTGGCCTTGTCTA
1 TTACAAACCCATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
* *
442867 TTATAATACCACTTATACTTTTATACCATGGTTATCATCATACTAATTAACTTCAACTTAATTAT
66 TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
*
442932 AGCAAACAAGTACAACTACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
131 AGCAAACAAGTACAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
*
442997 GTGTTAACACATTGCATATGGATAAATAGGT
196 GTGTTAACACATTGCACATGGATAAATAGGT
443028 TTACAAACCCATAAC
1 TTACAAACCCATAAC
443043 CAATATAAGC
Statistics
Matches: 230, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
224 7 0.03
226 223 0.97
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (226 bp):
TTACAAACCCATAACACTTGCATGTCATCATACTTGTGTTTCTCATACTCATTTAACCTTGTCAA
TTATAATACCACTTATACTTTTATACCACGATTATCATCATACTAATTAACTTCAACTTAATTAT
AGCAAACAAGTACAACCACATCACACAAGATCTTGGTACATATAAGCACATGATCACATTTCAAG
GTGTTAACACATTGCACATGGATAAATAGGT
Found at i:443137 original size:23 final size:23
Alignment explanation
Indices: 443111--443156 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
443101 GGCCAAACCA
443111 TTAAACACATAACACAAAGGACT
1 TTAAACACATAACACAAAGGACT
*
443134 TTAAACATATAACACAAAGGACT
1 TTAAACACATAACACAAAGGACT
443157 AAGTCTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.20
Consensus pattern (23 bp):
TTAAACACATAACACAAAGGACT
Found at i:444012 original size:14 final size:14
Alignment explanation
Indices: 443993--444019 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
443983 TATTAAAATA
443993 ATAATTAAGAACAC
1 ATAATTAAGAACAC
444007 ATAATTAAGAACA
1 ATAATTAAGAACA
444020 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:448734 original size:14 final size:14
Alignment explanation
Indices: 448715--448741 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
448705 TATTAAAATA
448715 ATAATTAAGAACAC
1 ATAATTAAGAACAC
448729 ATAATTAAGAACA
1 ATAATTAAGAACA
448742 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:449121 original size:13 final size:13
Alignment explanation
Indices: 449100--449139 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
449090 GCTCGATAGG
*
449100 GACATGCCCGTGT
1 GACACGCCCGTGT
449113 GACACGCCCGTGT
1 GACACGCCCGTGT
449126 GACACGCCCGTGT
1 GACACGCCCGTGT
449139 G
1 G
449140 CGATTTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.35, G:0.33, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:449258 original size:20 final size:20
Alignment explanation
Indices: 449233--449275 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
449223 ATTTCCTACG
449233 TTGGCCTGTTTTCTCCGTTT
1 TTGGCCTGTTTTCTCCGTTT
449253 TTGGCCTGTTTTCTCCGTTT
1 TTGGCCTGTTTTCTCCGTTT
449273 TTG
1 TTG
449276 CCCGTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.21, T:0.56
Consensus pattern (20 bp):
TTGGCCTGTTTTCTCCGTTT
Found at i:451179 original size:10 final size:10
Alignment explanation
Indices: 451164--451191 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
451154 GTACTTTAAG
451164 AAGATAAATA
1 AAGATAAATA
451174 AAGATAAATA
1 AAGATAAATA
451184 AAGATAAA
1 AAGATAAA
451192 AGTGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (10 bp):
AAGATAAATA
Found at i:453200 original size:93 final size:93
Alignment explanation
Indices: 453093--453636 Score: 1027
Period size: 93 Copynumber: 5.8 Consensus size: 93
453083 CGCCCATAAG
* * *
453093 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
453157 AATGAGCTCGGATGCCTAGTTACATCTCA
65 AATGAGCTCGGATGCCTAGTTACATCTCA
453186 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
453251 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ATGAGCTCGGATGCCTAGTTACATCTCA
453279 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
453344 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ATGAGCTCGGATGCCTAGTTACATCTCA
453372 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
453437 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ATGAGCTCGGATGCCTAGTTACATCTCA
453465 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
453530 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ATGAGCTCGGATGCCTAGTTACATCTCA
453558 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
453623 ACGAGTTCGGATGC
66 ATGAGCTCGGATGC
453637 TCAATCATCC
Statistics
Matches: 445, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
92 2 0.00
93 443 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ATGAGCTCGGATGCCTAGTTACATCTCA
Found at i:467713 original size:14 final size:14
Alignment explanation
Indices: 467694--467721 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
467684 CCTCACCCTA
467694 TTCAATGCCAGAAT
1 TTCAATGCCAGAAT
467708 TTCAATGCCAGAAT
1 TTCAATGCCAGAAT
467722 AGGGTTACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
TTCAATGCCAGAAT
Found at i:469262 original size:25 final size:25
Alignment explanation
Indices: 469208--469262 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
469198 TTTGTCTTTT
* *
469208 TTGAGCTATGAATAGTAAGCTCCTC
1 TTGAGCTATGAACAGTAAGCTCCTA
* *
469233 CTGAGCTGATGGACAGTAAGCT-CTA
1 TTGAGCT-ATGAACAGTAAGCTCCTA
469258 TTGAG
1 TTGAG
469263 TTGAAACGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (25 bp):
TTGAGCTATGAACAGTAAGCTCCTA
Found at i:469355 original size:24 final size:24
Alignment explanation
Indices: 469287--469358 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
469277 TTTGACAAGT
* *
469287 TAAAAATAGGAAGCTCTTATGAGC
1 TAAAAATAGTAAGCTCTTACGAGC
* * **
469311 T-GAAACAGTAAGCTCCAACGAGC
1 TAAAAATAGTAAGCTCTTACGAGC
*
469334 TAAAAATAGTAAACTCTTACGAGC
1 TAAAAATAGTAAGCTCTTACGAGC
469358 T
1 T
469359 GATATATCGG
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (24 bp):
TAAAAATAGTAAGCTCTTACGAGC
Found at i:470224 original size:22 final size:22
Alignment explanation
Indices: 470196--470240 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
470186 ATATTCAAAG
470196 CCCTAACAATGGCTTTCTTATT
1 CCCTAACAATGGCTTTCTTATT
470218 CCCTAACAATGGCTTTCTTATT
1 CCCTAACAATGGCTTTCTTATT
470240 C
1 C
470241 TCCAATTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.40
Consensus pattern (22 bp):
CCCTAACAATGGCTTTCTTATT
Found at i:471397 original size:27 final size:27
Alignment explanation
Indices: 471358--471414 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
471348 AAATTTAATA
*
471358 CACTGGTGTCGCCTACCAGATAAGGC-T
1 CACTGGTGCCGCCTACCAGAT-AGGCAT
*
471385 CACTGGTGCCGCCTATCAGATAGGCAT
1 CACTGGTGCCGCCTACCAGATAGGCAT
471412 CAC
1 CAC
471415 ACTCCTGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.21
Consensus pattern (27 bp):
CACTGGTGCCGCCTACCAGATAGGCAT
Found at i:471545 original size:45 final size:45
Alignment explanation
Indices: 471481--471570 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
471471 GGTGCCGTCT
471481 ATTAAGTAGGCACCACTATTAAAATAATATATATTTTAGTCAAGA
1 ATTAAGTAGGCACCACTATTAAAATAATATATATTTTAGTCAAGA
*
471526 ATTAAGTAGGCACTACTATTAAAATAATATATATTTTAGTCAAGA
1 ATTAAGTAGGCACCACTATTAAAATAATATATATTTTAGTCAAGA
471571 CTGTCAGAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (45 bp):
ATTAAGTAGGCACCACTATTAAAATAATATATATTTTAGTCAAGA
Found at i:471784 original size:13 final size:13
Alignment explanation
Indices: 471766--471791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
471756 ATTTTGTGAT
471766 TGGTTATTTAAGA
1 TGGTTATTTAAGA
471779 TGGTTATTTAAGA
1 TGGTTATTTAAGA
471792 AAATTTTTAT
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:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGGTTATTTAAGA
Found at i:472389 original size:11 final size:11
Alignment explanation
Indices: 472363--472404 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
472353 ATATCAGTTT
472363 TAATA-TTTTA
1 TAATATTTTTA
472373 -AATATTTTTA
1 TAATATTTTTA
472383 TAATATTTTTA
1 TAATATTTTTA
*
472394 CAA-ATTTTTA
1 TAATATTTTTA
472404 T
1 T
472405 TTTTTTAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 4 0.14
10 12 0.43
11 12 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TAATATTTTTA
Found at i:472392 original size:21 final size:20
Alignment explanation
Indices: 472363--472404 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
472353 ATATCAGTTT
472363 TAATATTTTA-AATATTTTTA
1 TAATATTTTACAA-ATTTTTA
472383 TAATATTTTTACAAATTTTTA
1 TAATA-TTTTACAAATTTTTA
472404 T
1 T
472405 TTTTTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 13 0.65
22 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATATTTTACAAATTTTTA
Found at i:473198 original size:41 final size:40
Alignment explanation
Indices: 473098--473206 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 40
473088 CCGATTTTAC
*
473098 GAAAACGCTTCCAACTGGAAGCGTTTTTAGCTGATTTGCA
1 GAAAACGCTTCCAACTGGAAGCGCTTTTAGCTGATTTGCA
* * *** * *
473138 AAAAAGCGATTCTGGCTGGAAGTGCTTTTAGC-GTATTTGTA
1 GAAAA-CGCTTCCAACTGGAAGCGCTTTTAGCTG-ATTTGCA
473179 GGAAAACGCTTCCAACTGGAAGCGCTTT
1 -GAAAACGCTTCCAACTGGAAGCGCTTT
473207 CGCCACATAA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
40 5 0.10
41 43 0.83
42 4 0.08
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
GAAAACGCTTCCAACTGGAAGCGCTTTTAGCTGATTTGCA
Found at i:477636 original size:64 final size:64
Alignment explanation
Indices: 477556--477685 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
477546 ACGAGCATCC
* * * *
477556 TGATCGATAGTGATCCTGCATGTGTTGCGGACATACCGTAGCTCTTTGTAAGCGTCCTGTTATA
1 TGATCGATAGTGATCCTGCATATGTTGCGGACATACCGCAGCTCTTTATAAGCATCCTGTTATA
* *
477620 TGATCGGTAGTGATCCTGCATATGTTGCGGACATACCGCAGCTCTTTATGAGCATCCTGTTATA
1 TGATCGATAGTGATCCTGCATATGTTGCGGACATACCGCAGCTCTTTATAAGCATCCTGTTATA
477684 TG
1 TG
477686 GATCTCTGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (64 bp):
TGATCGATAGTGATCCTGCATATGTTGCGGACATACCGCAGCTCTTTATAAGCATCCTGTTATA
Found at i:480637 original size:47 final size:47
Alignment explanation
Indices: 480578--480699 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
480568 GCATTGGCAC
480578 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
480625 TAAGACAAGGATACCATGTAAGACCATGTTTGGAGCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
480672 TAAGATAAGGATATCATATAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
480700 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:480803 original size:55 final size:54
Alignment explanation
Indices: 480678--480874 Score: 227
Period size: 55 Copynumber: 3.6 Consensus size: 54
480668 TTGGTAAGAT
* * * * *
480678 AAGGATATCATATAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
480732 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
480788 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
480840 AAGGATACCACGTAAGATCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
480875 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 40 0.33
55 42 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:481221 original size:17 final size:18
Alignment explanation
Indices: 481199--481232 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
481189 CATATTGAAG
481199 TGTTTT-AGCGAAAACCA
1 TGTTTTCAGCGAAAACCA
*
481216 TGTTTTCATCGAAAACC
1 TGTTTTCAGCGAAAACC
481233 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (18 bp):
TGTTTTCAGCGAAAACCA
Found at i:481402 original size:3 final size:3
Alignment explanation
Indices: 481396--481442 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
481386 TACAATGATG
481396 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
481443 TCAAGTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:482357 original size:28 final size:28
Alignment explanation
Indices: 482319--482433 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
482309 TTCACATACG
* *
482319 TGTATCTGGCCCATTAGGCCCAATCATA
1 TGTATATGGCCCATTAGGCCCAATCACA
* * *
482347 T-TCGTATGGCCTATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCC-AATCACA
*
482376 TGTATATGGCCCATTAGGCCCAAATTACA
1 TGTATATGGCCCATTAGGCCC-AATCACA
* * * *
482405 TTTATATGGTCCGTTAGGCCCAGTCACA
1 TGTATATGGCCCATTAGGCCCAATCACA
482433 T
1 T
482434 TCATATTCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
27 1 0.01
28 22 0.31
29 46 0.66
30 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (28 bp):
TGTATATGGCCCATTAGGCCCAATCACA
Found at i:482663 original size:8 final size:8
Alignment explanation
Indices: 482650--482699 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
482640 TAGCCAAACC
*
482650 TTCGGCTT
1 TTCGGCAT
482658 TTCGGCAT
1 TTCGGCAT
*
482666 TTCGGCTT
1 TTCGGCAT
*
482674 TTTGGCAT
1 TTCGGCAT
482682 TTCGGCAT
1 TTCGGCAT
482690 TTCGGCAT
1 TTCGGCAT
482698 TT
1 TT
482700 GTCGATTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.46
Consensus pattern (8 bp):
TTCGGCAT
Found at i:482671 original size:16 final size:16
Alignment explanation
Indices: 482650--482699 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
482640 TAGCCAAACC
482650 TTCGGCTTTTCGGCAT
1 TTCGGCTTTTCGGCAT
*
482666 TTCGGCTTTTTGGCAT
1 TTCGGCTTTTCGGCAT
*
482682 TTCGGCATTTCGGCAT
1 TTCGGCTTTTCGGCAT
482698 TT
1 TT
482700 GTCGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.46
Consensus pattern (16 bp):
TTCGGCTTTTCGGCAT
Found at i:488969 original size:3 final size:3
Alignment explanation
Indices: 488961--489020 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
488951 TTACAATGGA
* * *
488961 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT TAT AAT TAT AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
489009 AAT AAT AAT AAT
1 AAT AAT AAT AAT
489021 TATTATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:489021 original size:21 final size:21
Alignment explanation
Indices: 488965--489043 Score: 95
Period size: 21 Copynumber: 3.6 Consensus size: 21
488955 AATGGAAATA
* *
488965 ATAATAATAATAATAATAATA
1 ATAATAATAATAATTATAATT
*
488986 ATAATAATTATAATTATAATT
1 ATAATAATAATAATTATAATT
*
489007 ATAATAATAATAATTATTATT
1 ATAATAATAATAATTATAATT
489028 ATTCAAGTAATAATAA
1 A-T-AA-TAATAATAA
489044 CATAATGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 38 0.76
22 1 0.02
23 2 0.04
24 9 0.18
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (21 bp):
ATAATAATAATAATTATAATT
Found at i:489043 original size:27 final size:26
Alignment explanation
Indices: 488961--489029 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
488951 TTACAATGGA
* *
488961 AATAATAATAATAATAATAATAATAAT
1 AATAATTATAATTATAAT-ATAATAAT
488988 AATAATTATAATTATAATTATAATAAT
1 AATAATTATAATTATAA-TATAATAAT
*
489015 AATAATTATTATTAT
1 AATAATTATAATTAT
489030 TCAAGTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAATTATAATTATAATATAATAAT
Found at i:489954 original size:28 final size:28
Alignment explanation
Indices: 489917--489998 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
489907 TGTATTTGGC
* *
489917 CCATCAGGCCCAATCATATTCATAT-GG
1 CCATTAGGCCCAATCACATTCATATGGG
* *
489944 CTTATTAGGCCCAAATCACATTTATATGGG
1 C-CATTAGGCCC-AATCACATTCATATGGG
* *
489974 CCGTTAGGCCCAGTCACATTCATAT
1 CCATTAGGCCCAATCACATTCATAT
489999 TCATGCTCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.02
28 20 0.45
29 20 0.45
30 3 0.07
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
CCATTAGGCCCAATCACATTCATATGGG
Found at i:490235 original size:8 final size:8
Alignment explanation
Indices: 490210--490255 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
490200 TAGCCAAACC
*
490210 TTCGGCTT
1 TTCGGCAT
*
490218 TTCAGCAT
1 TTCGGCAT
*
490226 TTTGGCAT
1 TTCGGCAT
490234 TTCGGCAT
1 TTCGGCAT
*
490242 TTCGGTAT
1 TTCGGCAT
490250 TTCGGC
1 TTCGGC
490256 TTTTGCCAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.43
Consensus pattern (8 bp):
TTCGGCAT
Found at i:490241 original size:16 final size:16
Alignment explanation
Indices: 490217--490260 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
490207 ACCTTCGGCT
*
490217 TTTCAGCATTTTGGCA
1 TTTCGGCATTTTGGCA
* *
490233 TTTCGGCATTTCGGTA
1 TTTCGGCATTTTGGCA
490249 TTTCGGC-TTTTG
1 TTTCGGCATTTTG
490261 CCAATTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (16 bp):
TTTCGGCATTTTGGCA
Found at i:497074 original size:47 final size:47
Alignment explanation
Indices: 497016--497137 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
497006 GCATTGGAAC
* * *
497016 TAAGACAAGGATACCATGGAAGACCATGTTTGGAACGTGTCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
497063 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
497110 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
497138 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:497244 original size:55 final size:54
Alignment explanation
Indices: 497116--497312 Score: 245
Period size: 55 Copynumber: 3.6 Consensus size: 54
497106 TTGGTAAGAT
* * * *
497116 AAGGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
497170 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
497225 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
497278 AAGGATACCACGTAAGATCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
497313 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.33
55 43 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:497849 original size:12 final size:14
Alignment explanation
Indices: 497832--497868 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
497822 GATTACAATG
497832 ATAATAATAA-T-A
1 ATAATAATAATTCA
497844 ATAATAATAATTCA
1 ATAATAATAATTCA
497858 AGTAATAATAA
1 A-TAATAATAA
497869 CATAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 2 0.09
15 9 0.41
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (14 bp):
ATAATAATAATTCA
Found at i:501380 original size:42 final size:42
Alignment explanation
Indices: 501321--501403 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
501311 TTTCACTTTA
*
501321 AACATATTTGCTTACCATCCTGTATATAATATAAATTCTTAG
1 AACATATTTGCTTACCATCATGTATATAATATAAATTCTTAG
*
501363 AACATATTTGCTTACCATCATGTATATAATATACATTCTTA
1 AACATATTTGCTTACCATCATGTATATAATATAAATTCTTA
501404 TATTAACTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (42 bp):
AACATATTTGCTTACCATCATGTATATAATATAAATTCTTAG
Found at i:502838 original size:49 final size:49
Alignment explanation
Indices: 502777--503115 Score: 410
Period size: 49 Copynumber: 6.8 Consensus size: 49
502767 AGGCTATCTA
*
502777 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
* *
502826 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCG
** * *
502877 GTACGTATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
* * ** *
502926 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCG
* * * * *
502976 ATACACGTAGTAGCCTACACTTAGTACTACACACT-TGATCGAAGTTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACA-TGTGA-CCAA-TTATCCG
* * * *
503027 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
* *
503076 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
503116 TCACAATAGA
Statistics
Matches: 247, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
49 118 0.48
50 52 0.21
51 77 0.31
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
Found at i:502859 original size:26 final size:26
Alignment explanation
Indices: 502782--502859 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
502772 ATCTAGTACG
502782 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
* * *
502808 CAT-GT-GAC--CAATTA-TCCGGTACA
1 CATAGTAGCCTGCACTTAGTAC--TACA
502831 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
502857 CAT
1 CAT
502860 GTGATCGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 7 0.18
24 4 0.10
25 4 0.10
26 10 0.26
27 5 0.13
28 2 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (26 bp):
CATAGTAGCCTGCACTTAGTACTACA
Found at i:502911 original size:100 final size:98
Alignment explanation
Indices: 502771--503115 Score: 431
Period size: 100 Copynumber: 3.5 Consensus size: 98
502761 TAGACAAGGC
* *
502771 TATCTAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAG
*
502836 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* ** * * *
502871 TATCGGGTACGTATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAG
* *
502936 TAGCCTGCACTTAGTACTACACACGTGACCTAAC
66 TAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * * * *
502970 CATCTGATACACGTAGTAGCCTACACTTAGTACTACACACT-TGATCGAAGTTATCGGGTACGCA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA-TGTGA-CCAA-TTATCCGGTACACA
* *
503034 TAGTAGCCTACACTTAGTACTACACATGCGACCAAT
63 TAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
503070 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
503116 TCACAATAGA
Statistics
Matches: 209, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
99 35 0.17
100 133 0.64
101 41 0.20
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (98 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAG
TAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:503054 original size:150 final size:150
Alignment explanation
Indices: 502784--503116 Score: 544
Period size: 150 Copynumber: 2.2 Consensus size: 150
502774 CTAGTACGCA
* ** * *
502784 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACATAGTAGCCTACACTT
* * *
502848 AGTACTACACATGTGATCGAAGTTATCGGGTACGTATAGTAGCTTGCACTTAGTACTACACATGC
66 AGTACTACACATGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGC
502913 GACCAATTATCCGGTACACG
131 GACCAATTATCCGGTACACG
* *
502933 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACATAGTAGCCTACACTT
502998 AGTACTACACACT-TGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATG
66 AGTACTACACA-TGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATG
*
503062 CGACCAATTATCTGGTACACG
130 CGACCAATTATCCGGTACACG
503083 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
503117 CACAATAGAT
Statistics
Matches: 171, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
149 32 0.19
150 138 0.81
151 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (150 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACATAGTAGCCTACACTT
AGTACTACACATGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGC
GACCAATTATCCGGTACACG
Found at i:515936 original size:42 final size:42
Alignment explanation
Indices: 515827--515946 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 42
515817 CCGTACCAAG
* * *
515827 GCCATATCCTAGATATGGTCTTACATGTCATCTCGTATCGAT
1 GCCATATCCCAGATATGGTCTTACACGTCATCTCATATCGAT
* * *
515869 GCTAATAGCCCAGTTATGGTCTTACACGT-AGTCTCATATCGAT
1 GC-CATATCCCAGATATGGTCTTACACGTCA-TCTCATATCGAT
515912 GCCATATCCCAGATATGGTCTTACACG-CAATCTCA
1 GCCATATCCCAGATATGGTCTTACACGTC-ATCTCA
515947 GTAACCTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGTCATCTCATATCGAT
Found at i:520182 original size:22 final size:22
Alignment explanation
Indices: 520152--520193 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
520142 TTTGTTCATT
520152 AGGGACTAAAATGTCAAAATGTG
1 AGGGACTAAAATGT-AAAATGTG
*
520175 AGGG-CTAAATTGTAAAATG
1 AGGGACTAAAATGTAAAATG
520194 CCCTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (22 bp):
AGGGACTAAAATGTAAAATGTG
Found at i:521482 original size:42 final size:43
Alignment explanation
Indices: 521383--521503 Score: 147
Period size: 42 Copynumber: 2.8 Consensus size: 43
521373 GTGTTACACG
* * * * * *
521383 ATGCTACTGTCCCACATAGGGTCTTACACGAAATCATATAACG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCATATAACA
*
521426 ATGCCAATGTCCCAGACATGGTCTTACACGTAATACA-AT-ACA
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAT-CATATAACA
*
521468 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCA
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCA
521504 CATCTCAGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 34 0.50
43 30 0.44
44 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAATCATATAACA
Found at i:531107 original size:19 final size:22
Alignment explanation
Indices: 531073--531112 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
531063 CTTTAATAAG
531073 ACAAATCAACTAAGC-ACTTTA
1 ACAAATCAACTAAGCAACTTTA
531094 ACAAAT-AA-TAAGCAACTTT
1 ACAAATCAACTAAGCAACTTT
531113 TACATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 7 0.39
21 6 0.33
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (22 bp):
ACAAATCAACTAAGCAACTTTA
Found at i:532594 original size:56 final size:56
Alignment explanation
Indices: 532533--532724 Score: 285
Period size: 56 Copynumber: 3.4 Consensus size: 56
532523 TCCTAGACAG
* * * *
532533 GGTCTTACTCGCACATATAAATCGGAATCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAAAGTATTAAACGT
* * *
532589 TGTCTTATTCGCACATATATATCGGAATCACATATCGATGCCAAAGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAAAGTATTAAACGT
* * *
532645 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGTCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAAAGTATTAAACGT
*
532701 GGTCTTACTCACACACATATATCG
1 GGTCTTACTCGCACACATATATCG
532725 ATGCCATGGT
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 123 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAAAGTATTAAACGT
Found at i:537809 original size:12 final size:11
Alignment explanation
Indices: 537794--537837 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
537784 AATGGTCATT
537794 GAGGGATTGTAG
1 GAGGGATTG-AG
537806 GAGGGAGTTGAG
1 GAGGGA-TTGAG
*
537818 GAGAGATATGAG
1 GAGGGAT-TGAG
537830 GAGGGATT
1 GAGGGATT
537838 TTAGGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 23 0.82
13 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (11 bp):
GAGGGATTGAG
Found at i:537843 original size:12 final size:12
Alignment explanation
Indices: 537794--537844 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
537784 AATGGTCATT
537794 GAGGGA-TTGTAG
1 GAGGGATTTG-AG
*
537806 GAGGGAGTTGAG
1 GAGGGATTTGAG
* *
537818 GAGAGATATGAG
1 GAGGGATTTGAG
*
537830 GAGGGATTTTAG
1 GAGGGATTTGAG
537842 GAG
1 GAG
537845 AAAATCAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 29 0.91
13 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (12 bp):
GAGGGATTTGAG
Found at i:539234 original size:27 final size:26
Alignment explanation
Indices: 539204--539328 Score: 121
Period size: 27 Copynumber: 4.8 Consensus size: 26
539194 GACTGTTTTT
*
539204 CCCTTATAGGGTAAGATGATCGAAATA
1 CCCTCATAGGGTAAGATGA-CGAAATA
*
539231 CCCTCATAGGGTAAGATGACAAAATA
1 CCCTCATAGGGTAAGATGACGAAATA
* *
539257 TCCTCATAGGGTAAAATGACCGAAATA
1 CCCTCATAGGGTAAGATGA-CGAAATA
* *
539284 -CC-CAGAGGGTAA-ATTGAACGATATA
1 CCCTCATAGGGTAAGA-TG-ACGAAATA
* *
539309 CCCCCATAGGGTAAAATGAC
1 CCCTCATAGGGTAAGATGAC
539329 TGTAGTACCC
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
24 1 0.01
25 17 0.20
26 30 0.36
27 35 0.42
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (26 bp):
CCCTCATAGGGTAAGATGACGAAATA
Found at i:539337 original size:27 final size:26
Alignment explanation
Indices: 539228--539358 Score: 79
Period size: 27 Copynumber: 5.0 Consensus size: 26
539218 GATGATCGAA
* * ***
539228 ATACCCTCATAGGGTAAGATGACAAA
1 ATACCCCCATAGGGTAAAATGACTGT
* * * *
539254 ATATCCTCATAGGGTAAAATGACCGAA
1 ATACCCCCATAGGGTAAAATGACTG-T
* *
539281 ATA--CCCAGAGGGTAAATTGAAC-GAT
1 ATACCCCCATAGGGTAAAATG-ACTG-T
539306 ATACCCCCATAGGGTAAAATGACTGT
1 ATACCCCCATAGGGTAAAATGACTGT
** *
539332 AGTACCCCTGTAAGGTAAAATGACTGT
1 A-TACCCCCATAGGGTAAAATGACTGT
539359 TTTGCCCTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
25 18 0.21
26 27 0.31
27 41 0.48
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (26 bp):
ATACCCCCATAGGGTAAAATGACTGT
Found at i:539378 original size:27 final size:27
Alignment explanation
Indices: 539348--539553 Score: 192
Period size: 27 Copynumber: 7.6 Consensus size: 27
539338 CCTGTAAGGT
*
539348 AAAATGACTGTTTTGCCCTTATATGTG
1 AAAATGACTGTTTTGCCCTTATGTGTG
539375 AAAATGAC-GATTTTGCCCTTATGTGAT-
1 AAAATGACTG-TTTTGCCCTTATGTG-TG
*
539402 AAAATGGC-GATTTTGCCCTTATGTG-G
1 AAAATGACTG-TTTTGCCCTTATGTGTG
*
539428 CAAAATGACTGTTTTGCCCTTATGTGTT
1 -AAAATGACTGTTTTGCCCTTATGTGTG
* *
539456 AAATTGACTGTTTTGCCCTTATATG-G
1 AAAATGACTGTTTTGCCCTTATGTGTG
* * *
539482 TAAAATGACGGTTTTGTCCTTATGAG-G
1 -AAAATGACTGTTTTGCCCTTATGTGTG
* *
539509 TAAAATGACTATTTTACCCTTATGTG-G
1 -AAAATGACTGTTTTGCCCTTATGTGTG
**
539536 TAGGATGACTGTTTTGCC
1 -AAAATGACTGTTTTGCC
539554 ACTGAGTGAT
Statistics
Matches: 151, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 148 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (27 bp):
AAAATGACTGTTTTGCCCTTATGTGTG
Found at i:539470 original size:81 final size:80
Alignment explanation
Indices: 539348--539553 Score: 252
Period size: 81 Copynumber: 2.5 Consensus size: 80
539338 CCTGTAAGGT
* * * *
539348 AAAATGACTGTTTTGCCCTTATATGTGAAAATGAC-GATTTTGCCCTTATGTGATAAAATGGCGA
1 AAAATGACTGTTTTGCCCTTATGTGT-TAAATGACTG-TTTTGCCCTTATATGATAAAATGACGA
*
539412 TTTTGCCCTTATGTGGC
64 TTTTGCCCTTATGAGGC
* *
539429 AAAATGACTGTTTTGCCCTTATGTGTTAAATTGACTGTTTTGCCCTTATATGGTAAAATGACGGT
1 AAAATGACTGTTTTGCCCTTATGTGTTAAA-TGACTGTTTTGCCCTTATATGATAAAATGACGAT
* *
539494 TTTGTCCTTATGAGGT
65 TTTGCCCTTATGAGGC
* * * *
539510 AAAATGACTATTTTACCCTTATGTGGTAGGATGACTGTTTTGCC
1 AAAATGACTGTTTTGCCCTTATGTGTTA-AATGACTGTTTTGCC
539554 ACTGAGTGAT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.03
81 104 0.95
82 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (80 bp):
AAAATGACTGTTTTGCCCTTATGTGTTAAATGACTGTTTTGCCCTTATATGATAAAATGACGATT
TTGCCCTTATGAGGC
Found at i:539537 original size:54 final size:54
Alignment explanation
Indices: 539344--539553 Score: 233
Period size: 54 Copynumber: 3.9 Consensus size: 54
539334 TACCCCTGTA
* *
539344 AGGTAAAATGACTGTTTTGCCCTTATAT-GTGAAAATGACGATTTTGCCCTTATG
1 AGGTAAAATGACTATTTTGCCCTTATATGGT-AAAATGACGGTTTTGCCCTTATG
* * * * * * *
539398 TGATAAAATGGCGATTTTGCCCTTATGTGGCAAAATGACTGTTTTGCCCTTATG
1 AGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACGGTTTTGCCCTTATG
* * * * *
539452 TGTTAAATTGACTGTTTTGCCCTTATATGGTAAAATGACGGTTTTGTCCTTATG
1 AGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACGGTTTTGCCCTTATG
* * ** *
539506 AGGTAAAATGACTATTTTACCCTTATGTGGTAGGATGACTGTTTTGCC
1 AGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACGGTTTTGCC
539554 ACTGAGTGAT
Statistics
Matches: 127, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
54 126 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACGGTTTTGCCCTTATG
Found at i:539853 original size:23 final size:24
Alignment explanation
Indices: 539827--539871 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
539817 ATATCCCCAT
*
539827 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
539850 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
539872 GTATGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:539929 original size:18 final size:18
Alignment explanation
Indices: 539885--539939 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
539875 TGACTTGCAT
* **
539885 ACTGCTTACTGTTACTAA
1 ACTGATTACTGTTACTGC
539903 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
*
539921 ACT-ATTTACTGCTACTGC
1 ACTGA-TTACTGTTACTGC
539939 A
1 A
539940 ATGGGCCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:542223 original size:18 final size:19
Alignment explanation
Indices: 542196--542231 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
542186 GAATGTACTA
542196 TTCATATACA-CATATATT
1 TTCATATACATCATATATT
*
542214 TTCATTTACATCATATAT
1 TTCATATACATCATATAT
542232 AAATTGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCATATACATCATATATT
Found at i:542525 original size:56 final size:56
Alignment explanation
Indices: 542462--542651 Score: 265
Period size: 56 Copynumber: 3.4 Consensus size: 56
542452 TCCCAGACAG
* *
542462 GGTCTTACTCGCACACATAAATCGGAATCACATACCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
*
542518 GGTCTTACTCGCACACATATATAGGAATCACATATCGATGCCAA-AGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACA-TATTAAACGT
** * * * * *
542574 GGTCTTACTCGCACACATATATCCAAATCGCATATTGATGCCAACATTTTAAATGC
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
*
542630 GGTCTTACTCGCACATATATAT
1 GGTCTTACTCGCACACATATAT
542652 TGATGCCATG
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.01
56 118 0.98
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:542704 original size:31 final size:31
Alignment explanation
Indices: 542630--542705 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
542620 TTTTAAATGC
* * **
542630 GGTCTTACTCGCACATATATATTGATGCCAT
1 GGTCTTACTTGCACACATATATCAATGCCAT
542661 GGTCTTACTTGCACACATATATCAATGCCAT
1 GGTCTTACTTGCACACATATATCAATGCCAT
*
542692 GGTCTTAATTGCAC
1 GGTCTTACTTGCAC
542706 TTCACATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (31 bp):
GGTCTTACTTGCACACATATATCAATGCCAT
Found at i:544123 original size:29 final size:29
Alignment explanation
Indices: 544090--544332 Score: 237
Period size: 29 Copynumber: 8.4 Consensus size: 29
544080 CAATATAAGT
*
544090 AAGCCTTTGTGGCAATCTCTGTTACAA-GG
1 AAGCCTTTGTGGCGATCTCTGTTA-AATGG
* * *
544119 AAGCCCTTGTGGCTATCTCTGTTAAATGA
1 AAGCCTTTGTGGCGATCTCTGTTAAATGG
* *
544148 AAGCTTTTGTGGCTATCTCTGTTAAAT-G
1 AAGCCTTTGTGGCGATCTCTGTTAAATGG
*
544176 AATGCCTTTGTGGCGATCTTTGTTAAATGG
1 AA-GCCTTTGTGGCGATCTCTGTTAAATGG
* * * *
544206 AAGCCTCTGTGGTTG-TTTTTGTTAAA-GG
1 AAGCCTTTGTGG-CGATCTCTGTTAAATGG
* * *
544234 AATCCTTTGTGGTGATCTTTGTTAAATGG
1 AAGCCTTTGTGGCGATCTCTGTTAAATGG
* *
544263 AAGCCTTTGTGGCTGGT-TTTGTTAAA-GG
1 AAGCCTTTGTGGC-GATCTCTGTTAAATGG
* *
544291 AAGCCTTTGTGGTGATCTCTATTAAATGG
1 AAGCCTTTGTGGCGATCTCTGTTAAATGG
*
544320 AAGCCCTTGTGGC
1 AAGCCTTTGTGGC
544333 TGTTTCTAAA
Statistics
Matches: 181, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.02
28 47 0.26
29 124 0.69
30 6 0.03
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (29 bp):
AAGCCTTTGTGGCGATCTCTGTTAAATGG
Found at i:544187 original size:58 final size:57
Alignment explanation
Indices: 544090--544333 Score: 276
Period size: 57 Copynumber: 4.2 Consensus size: 57
544080 CAATATAAGT
* * *
544090 AAGCCTTTGTGGCAATCTCTGTTACAAGGAAGCCCTTGTGGCT-ATCTCTGTTAAATGA
1 AAGCCTTTGTGGCTATCTCTGTTA-AAGGAAGCCTTTGTGG-TGATCTCTGTTAAATGG
* * * *
544148 AAGCTTTTGTGGCTATCTCTGTTAAATGAATGCCTTTGTGGCGATCTTTGTTAAATGG
1 AAGCCTTTGTGGCTATCTCTGTTAAAGGAA-GCCTTTGTGGTGATCTCTGTTAAATGG
* * * * * * *
544206 AAGCCTCTGTGGTTGTTTTTGTTAAAGGAATCCTTTGTGGTGATCTTTGTTAAATGG
1 AAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGTGATCTCTGTTAAATGG
* * *
544263 AAGCCTTTGTGGCTGGT-TTTGTTAAAGGAAGCCTTTGTGGTGATCTCTATTAAATGG
1 AAGCCTTTGTGGCT-ATCTCTGTTAAAGGAAGCCTTTGTGGTGATCTCTGTTAAATGG
*
544320 AAGCCCTTGTGGCT
1 AAGCCTTTGTGGCT
544334 GTTTCTAAAG
Statistics
Matches: 161, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
57 92 0.57
58 69 0.43
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (57 bp):
AAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGTGATCTCTGTTAAATGG
Found at i:544330 original size:86 final size:87
Alignment explanation
Indices: 544092--544333 Score: 264
Period size: 86 Copynumber: 2.8 Consensus size: 87
544082 ATATAAGTAA
* * * * *
544092 GCCTTTGTGGCAATCTCTGTTACAAGGAAGCCCTTGTGGCT-ATCTCTGTTAAATGAAAGCTTTT
1 GCCTTTGTGGCGATCTTTGTTA-AAGGAAGCCTTTGTGGCTGATCTCTGTTAAATGGAAGCCTTT
544156 GTGGCTATCTCTGTTAAATGAAT
65 GTGGCTATCTCTGTTAAATGAAT
* * * * *
544179 GCCTTTGTGGCGATCTTTGTTAAATGGAAGCCTCTGTGGTTG-TTTTTGTTAAA-GGAATCCTTT
1 GCCTTTGTGGCGATCTTTGTTAAA-GGAAGCCTTTGTGGCTGATCTCTGTTAAATGGAAGCCTTT
*
544242 GTGG-TGATCTTTGTTAAATGGAA-
65 GTGGCT-ATCTCTGTTAAAT-GAAT
* * *
544265 GCCTTTGTGGCTGGT-TTTGTTAAAGGAAGCCTTTGTGG-TGATCTCTATTAAATGGAAGCCCTT
1 GCCTTTGTGGC-GATCTTTGTTAAAGGAAGCCTTTGTGGCTGATCTCTGTTAAATGGAAGCCTTT
544328 GTGGCT
65 GTGGCT
544334 GTTTCTAAAG
Statistics
Matches: 129, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
84 2 0.02
85 22 0.17
86 57 0.44
87 48 0.37
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (87 bp):
GCCTTTGTGGCGATCTTTGTTAAAGGAAGCCTTTGTGGCTGATCTCTGTTAAATGGAAGCCTTTG
TGGCTATCTCTGTTAAATGAAT
Found at i:555955 original size:46 final size:46
Alignment explanation
Indices: 555902--556123 Score: 286
Period size: 46 Copynumber: 4.8 Consensus size: 46
555892 TATTTGGGCA
555902 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
555948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
*** * * *
555994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAG-G
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAGTG
* * * **
556039 CATCCGAGCTCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
* *
556087 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
556124 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 19, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.01
46 117 0.77
47 33 0.22
48 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
Found at i:557850 original size:25 final size:25
Alignment explanation
Indices: 557822--557869 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
557812 GCCAATTCTC
557822 TTTTCATCTACTATTCTACCTAAGG
1 TTTTCATCTACTATTCTACCTAAGG
557847 TTTTCATCTACTATTCTACCTAA
1 TTTTCATCTACTATTCTACCTAA
557870 CGTGCCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTTCATCTACTATTCTACCTAAGG
Found at i:557879 original size:25 final size:25
Alignment explanation
Indices: 557826--557879 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
557816 ATTCTCTTTT
* ***
557826 CATCTACTATTCTACCTAAGGTTTT
1 CATCTACTATTCTACCTAACGTGCC
557851 CATCTACTATTCTACCTAACGTGCC
1 CATCTACTATTCTACCTAACGTGCC
557876 CATC
1 CATC
557880 CTTGTACCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.37
Consensus pattern (25 bp):
CATCTACTATTCTACCTAACGTGCC
Found at i:558764 original size:17 final size:18
Alignment explanation
Indices: 558736--558770 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
558726 GGGCCACATT
558736 GGGCTGTGTGGGCCCCAC
1 GGGCTGTGTGGGCCCCAC
558754 GGGCT-TGTGGGCCCCAC
1 GGGCTGTGTGGGCCCCAC
558771 ACAATAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.06, C:0.34, G:0.43, T:0.17
Consensus pattern (18 bp):
GGGCTGTGTGGGCCCCAC
Found at i:561925 original size:186 final size:187
Alignment explanation
Indices: 561611--561984 Score: 732
Period size: 186 Copynumber: 2.0 Consensus size: 187
561601 AAGGGGTGGA
561611 TAAGGCTGCTAAACGGTGGAAATGAGTTTGAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACA
1 TAAGGCTGCTAAACGGTGGAAATGAGTTTGAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACA
561676 AGGAATTTGCATTTGGGAAGGACGGTGGTGCCGAAATAGAACTCATTCGACTTTGGACAATTAGA
66 AGGAATTTGCATTTGGGAAGGACGGTGGTGCCGAAATAGAACTCATTCGACTTTGGACAATTAGA
561741 TGCCGAAATAGCTCTCAAATTTGGCTAGGATGAATTGTTTGTTTA-TTTTTTTCAGC
131 TGCCGAAATAGCTCTCAAATTTGGCTAGGATGAATTGTTTGTTTATTTTTTTTCAGC
561797 TAAGGCTGCTAAACGGTGGAAATGAGTTTGAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACA
1 TAAGGCTGCTAAACGGTGGAAATGAGTTTGAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACA
*
561862 AGGAATTTGCATTTGGGAAGGACGGTGGTGCCGAAATAGAACTCATTCGACTTTGGGCAATTAGA
66 AGGAATTTGCATTTGGGAAGGACGGTGGTGCCGAAATAGAACTCATTCGACTTTGGACAATTAGA
561927 TGCCGAAATAGCTCTCAAATTTGGCTAGGATGAATTGTTTGTTTATTTTTTTTCAGC
131 TGCCGAAATAGCTCTCAAATTTGGCTAGGATGAATTGTTTGTTTATTTTTTTTCAGC
561984 T
1 T
561985 CAAATTCTCT
Statistics
Matches: 186, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
186 174 0.94
187 12 0.06
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (187 bp):
TAAGGCTGCTAAACGGTGGAAATGAGTTTGAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACA
AGGAATTTGCATTTGGGAAGGACGGTGGTGCCGAAATAGAACTCATTCGACTTTGGACAATTAGA
TGCCGAAATAGCTCTCAAATTTGGCTAGGATGAATTGTTTGTTTATTTTTTTTCAGC
Found at i:564563 original size:40 final size:40
Alignment explanation
Indices: 564504--565095 Score: 1096
Period size: 40 Copynumber: 14.8 Consensus size: 40
564494 CATTTGAATG
* * *
564504 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
564544 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564584 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564624 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564664 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564704 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564744 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564784 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564824 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564864 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564904 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564944 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
564984 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
565024 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
565064 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
565096 TTGTGGTTAT
Statistics
Matches: 542, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
40 539 0.99
41 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:567373 original size:27 final size:26
Alignment explanation
Indices: 567301--567411 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
567291 GGAGGAAGCA
*
567301 TTCTGGTGGCTGTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
567328 TTTCTGGTGGCTAC-GCCACAAATATCTG
1 -TTCTGGTGGCT-CTGCCAC-AATATCTG
*
567356 TTCTGGTGGCTCTACCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* *
567382 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
567409 TTC
1 TTC
567412 AGGCAGCCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.16
27 38 0.51
28 25 0.33
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:570173 original size:42 final size:41
Alignment explanation
Indices: 570071--570235 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 41
570061 AGCTCGTACA
* * * * *
570071 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA--TCG
* *
570114 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAT-CG
* *
570156 ATGCCAATGTCCTAGACATGGTCTTACTCGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAA--TCAAATCG
* * **
570200 AGGCCAATGTCCCAAATGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
570236 CATATCATAA
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 4 0.04
42 28 0.28
43 37 0.37
44 26 0.26
45 6 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATCG
Found at i:570222 original size:44 final size:44
Alignment explanation
Indices: 570116--570234 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 44
570106 AAATGTCGAT
* * * *
570116 GCCACTGTCCCAGACAAGGTCTTACACGAAA--TCAAATACGAT
1 GCCAATGTCCCAAACATGGTCTTACACGAAATCTCAAATACGAG
* * *
570158 GCCAATGTCCTAGACATGGTCTTACTCGTAAATCTCAAAT-CGAG
1 GCCAATGTCCCAAACATGGTCTTACACG-AAATCTCAAATACGAG
**
570202 GCCAATGTCCCAAATGTGGTCTTACACGAAATC
1 GCCAATGTCCCAAACATGGTCTTACACGAAATC
570235 ACATATCATA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 24 0.38
43 8 0.12
44 26 0.41
45 6 0.09
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
GCCAATGTCCCAAACATGGTCTTACACGAAATCTCAAATACGAG
Found at i:572661 original size:40 final size:40
Alignment explanation
Indices: 572577--572924 Score: 429
Period size: 40 Copynumber: 8.7 Consensus size: 40
572567 TCGAATGATG
* * * *
572577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
572617 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
572657 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
572696 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGA-TATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTAAA
572736 TCCGGGCTAAGTCCCGAAGGCAATTGTTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGC-A-T-TT-GTGCGAGTTACTAAA
* * *
572780 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
572820 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
572859 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
572900 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
572925 AACGAGTAGC
Statistics
Matches: 267, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
39 68 0.25
40 147 0.55
41 14 0.05
42 2 0.01
43 4 0.01
44 32 0.12
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:572713 original size:79 final size:80
Alignment explanation
Indices: 572577--572922 Score: 454
Period size: 79 Copynumber: 4.3 Consensus size: 80
572567 TCGAATGATG
* * * * * **
572577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
572640 TTGTGCGAGATACTA-A
64 TTGTGCGAGATACTATA
572656 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
572720 TGTGCGAGTTGA-TATA
65 TGTGCGAGAT-ACTATA
572736 TCCGGGCTAAGTCCCGAAGGCAATTGTTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC-A---TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
572801 ATTTGTGCGAGATACTA-A
62 ATTTGTGCGAGATACTATA
*
572819 TTCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
572883 TGTGCGAGTTACTATA
65 TGTGCGAGATACTATA
* *
572899 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
572923 TGAACGAGTA
Statistics
Matches: 239, Mismatches: 14, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
78 1 0.00
79 121 0.51
80 41 0.17
81 1 0.00
82 1 0.00
83 11 0.05
84 63 0.26
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:583794 original size:68 final size:68
Alignment explanation
Indices: 583644--583801 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
583634 CTAGCCAATT
* * *
583644 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
583709 TTTA
65 CATA
* * *
583713 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
583775 CTACATA
63 C-ACATA
*
583782 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
583802 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:591945 original size:46 final size:46
Alignment explanation
Indices: 591875--592088 Score: 240
Period size: 46 Copynumber: 4.6 Consensus size: 46
591865 GCCGATAACC
*
591875 GAACTCGGACTCAACTCAATGAGCTCAGG-CATTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGT
* * *
591921 GAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACATCCATAAGT
* * *
591968 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGT
* * *
592014 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGT
*
592060 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
592089 TGCCCAAATA
Statistics
Matches: 148, Mismatches: 10, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 4 0.03
46 99 0.67
47 27 0.18
48 2 0.01
49 2 0.01
50 5 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGT
Found at i:592007 original size:93 final size:93
Alignment explanation
Indices: 591874--592042 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
591864 CGCCGATAAC
* *
591874 CGAACTCGGACTCAACTCAATGAGCTCAGGCATTCACATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
591939 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
591967 CGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCACATCCATAAGTGAACTCGGACTCAACTC
*
592031 AACGAGTTCGGA
65 AACGAGCTCGGA
592043 CGTTCGCATC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:595978 original size:40 final size:40
Alignment explanation
Indices: 595932--596116 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
595922 CTTGCACAAG
* * * *
595932 GCCTTCGGGTCTTAACCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
595972 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
596012 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
596052 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
596093 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
596117 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 90 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:596031 original size:80 final size:80
Alignment explanation
Indices: 595896--596116 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 80
595886 CTCAAGAAAT
* * * * * * *
595896 CTTCGGGATTTAGCCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAACCCGGATGTGGT
1 CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
595959 C-ACTAGCATAAATGC
65 CAACTAGCACAAATGC
* *
595974 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
* *
596038 CAACTCGCACGAATGC
65 CAACTAGCACAAATGC
* * * *
596054 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
596117 CATTCGAATA
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 12 0.10
79 20 0.17
80 56 0.46
81 33 0.27
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:598004 original size:42 final size:43
Alignment explanation
Indices: 597910--598007 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
597900 CACATCTCAT
* * * **
597910 ACATGGTCTTACATGTAATCAAATATCGATGCTATTGTCCCGG
1 ACATGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAA
* * * *
597953 ATAGGGTCTTACATGAAATCAAGTAT-GATGCCAATGTTCCAA
1 ACATGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAA
597995 ACATGGTCTTACA
1 ACATGGTCTTACA
598008 CATAAATCTC
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
42 22 0.50
43 22 0.50
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (43 bp):
ACATGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAA
Found at i:600230 original size:85 final size:85
Alignment explanation
Indices: 600086--600257 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 85
600076 CTCCTAGTTA
* * *
600086 TGGTGATAGAGGTGGACTAAAATGCTTATTAAACATGAGGAAAAATTATCATAATAATTAATTGA
1 TGGTGATAGAGATGGACAAAAATGCTTATTAAACATGAGGAAAAATTATCATAAGAATTAATTGA
600151 AAAGTGTGAACAATGAGGCT
66 AAAGTGTGAACAATGAGGCT
*
600171 TGGTGATAGAGATGGACAAAAATGCTTATTAAACATGAGGAAAAATTGTCATAAGAATTAATTGA
1 TGGTGATAGAGATGGACAAAAATGCTTATTAAACATGAGGAAAAATTATCATAAGAATTAATTGA
600236 AAAGTGTGAACAATGAGGCT
66 AAAGTGTGAACAATGAGGCT
600256 TG
1 TG
600258 AACCTTGGAC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.27
Consensus pattern (85 bp):
TGGTGATAGAGATGGACAAAAATGCTTATTAAACATGAGGAAAAATTATCATAAGAATTAATTGA
AAAGTGTGAACAATGAGGCT
Found at i:602016 original size:15 final size:16
Alignment explanation
Indices: 601996--602025 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
601986 AAGGTCTTAT
601996 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
602011 AATCATAACCTTACT
1 AATCATAACCTTACT
602026 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:602306 original size:42 final size:41
Alignment explanation
Indices: 602195--602348 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 41
602185 TTTCATACCA
* *** *
602195 ATGCCATATCCCAGA-GTGGTCTTACATGTAATCTCGTATG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATG
* *
602235 AATGCCAATAGCCCA-ACTATGGACTTACACAAAATCTCATATCG
1 -ATGCC-ATATCCCAGA-TATGGTCTTACACAAAATCTCATAT-G
*
602279 ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATA-TG
* *
602321 ATGTCATATTCC-GATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
602349 TAGTCTTAGT
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 22 0.23
42 47 0.49
43 25 0.26
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATG
Found at i:604915 original size:21 final size:19
Alignment explanation
Indices: 604881--604942 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
604871 TAAGTTATAT
604881 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
604903 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
604925 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
604943 GTAATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:604992 original size:21 final size:21
Alignment explanation
Indices: 604966--605007 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
604956 AAAATATAGT
*
604966 AAAATAAATAGTATAAAAAAA
1 AAAATAAATAATATAAAAAAA
*
604987 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
605008 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATAAATAATATAAAAAAA
Found at i:605358 original size:14 final size:14
Alignment explanation
Indices: 605328--605392 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
605318 CAATTTTATA
605328 AAAATATAT-AAA-
1 AAAATATATAAAAT
*
605340 GAAATATATAAAAT
1 AAAATATATAAAAT
*
605354 AAAATATATAATAT
1 AAAATATATAAAAT
* * *
605368 AATATAATTTATAGAT
1 AAAAT-ATATA-AAAT
605384 AAAATATAT
1 AAAATATAT
605393 GATAAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.20
13 3 0.07
14 16 0.39
15 7 0.17
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:613465 original size:12 final size:12
Alignment explanation
Indices: 613435--613466 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
613425 AATTCGAGTT
*
613435 AAAAAGGGCATG
1 AAAAAGTGCATG
613447 AAAAAGTGCATG
1 AAAAAGTGCATG
613459 AAAAAGTG
1 AAAAAGTG
613467 TGTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.28, T:0.12
Consensus pattern (12 bp):
AAAAAGTGCATG
Found at i:614162 original size:21 final size:23
Alignment explanation
Indices: 614118--614164 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
614108 ATCAAAACAT
614118 TTCACAAATAATTCACAAACATCA
1 TTCACAAATAATTCAC-AACATCA
*
614142 TTCACACATAA-TCAC-ACATCA
1 TTCACAAATAATTCACAACATCA
614163 TT
1 TT
614165 ACAGAGTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
23 4 0.18
24 10 0.45
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (23 bp):
TTCACAAATAATTCACAACATCA
Found at i:615643 original size:42 final size:43
Alignment explanation
Indices: 615560--615669 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
615550 CGACCCAGAC
*
615560 GTGGTCTTACATGTAATCAAATATCGATGACACTGTCCTAGATA
1 GTGGTCTTACATGAAATCAAATATCGATGACACTGTCCTAGA-A
* * *
615604 G-GGTCTTACATGAAATTAAATA-CGATGCCAAC-GTCCTAGAC
1 GTGGTCTTACATGAAATCAAATATCGATGAC-ACTGTCCTAGAA
* * *
615645 GTGGTCTTACACGAAAACACATATC
1 GTGGTCTTACATGAAATCAAATATC
615670 AGATCCTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 31 0.56
43 22 0.40
44 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (43 bp):
GTGGTCTTACATGAAATCAAATATCGATGACACTGTCCTAGAA
Found at i:621770 original size:55 final size:55
Alignment explanation
Indices: 621710--621821 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 55
621700 CAGACTAGGG
*
621710 TTAAGAGGCATTACTGGCCAAATCAAAACATTTCACAAATAATTCACAAACATCA
1 TTAAGAGGCATTACCGGCCAAATCAAAACATTTCACAAATAATTCACAAACATCA
*** *
621765 TTAAGAGGCATTACCGGCCAAATTGGAACATTTCACAAATAATTCATAAACATCA
1 TTAAGAGGCATTACCGGCCAAATCAAAACATTTCACAAATAATTCACAAACATCA
621820 TT
1 TT
621822 CACACATAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.26
Consensus pattern (55 bp):
TTAAGAGGCATTACCGGCCAAATCAAAACATTTCACAAATAATTCACAAACATCA
Found at i:624037 original size:28 final size:28
Alignment explanation
Indices: 623974--624152 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
623964 ATATTAAGTC
* *
623974 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
624001 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
624029 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
624057 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
624085 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
624113 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
624141 CGCACACTTAGT
1 CGCACACTTAGT
624153 CCTGTACAAT
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 122 0.85
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:635570 original size:48 final size:48
Alignment explanation
Indices: 635460--635788 Score: 417
Period size: 48 Copynumber: 6.8 Consensus size: 48
635450 TGAGATCCCA
* * * * * * * *
635460 TGTAAAACCATCTCTAGGACATGGCATTGGCATCCGAAATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGATATGTGTGCCAG
635509 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* * * *
635557 TGTAAGACAATGTCTGGGACATGGCATCGGTATTGATATGTATGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* **
635605 AGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* * *
635653 TGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATCTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* *
635701 TGTAAGACCATGTCTGGGACATGGCATCAGCGA-TGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGATATGTGTGCCAG
* * * *
635749 TGTAAGACCATGTTTGAGACATGGCATCGACACTGATATG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATG
635789 AGACTTCGTA
Statistics
Matches: 246, Mismatches: 32, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.00
48 215 0.87
49 30 0.12
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
Found at i:635803 original size:96 final size:93
Alignment explanation
Indices: 635502--635821 Score: 363
Period size: 96 Copynumber: 3.3 Consensus size: 93
635492 TCCGAAATGA
* *
635502 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGATATGTGTGCCAGTGTAAGACA
1 GAGCC-GTATAAGACCATGTCTGGGACATGGCATCGGCGA-TGATATGTGTGCCAGTGTAAGACC
* *
635566 ATGTCTGGGACATGGCATCGGTATTGATAT
64 ATGTTTGGGACATGGCATCGGCATTGATAT
** * *
635596 GTATGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCAGTGTAAGAC
1 G-A-GCCGTA-TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGAC
*
635661 CATGTTTGGGACATGGCATTGGCATTGATATCT
63 CATGTTTGGGACATGGCATCGGCATTGATA--T
* * * *
635694 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCTAGTGTAAGACCA
1 GAGCC-GTATAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGACCA
* * *
635759 TGTTTGAGACATGGCATCGACACTGATAT
65 TGTTTGGGACATGGCATCGGCATTGATAT
* * *
635788 GAGACTTCGTATAAGACCATATTTGGGATATGGC
1 GAG-C--CGTATAAGACCATGTCTGGGACATGGC
635822 GTCGATATGT
Statistics
Matches: 190, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
94 4 0.02
95 2 0.01
96 181 0.95
97 1 0.01
98 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (93 bp):
GAGCCGTATAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGACCAT
GTTTGGGACATGGCATCGGCATTGATAT
Found at i:635803 original size:144 final size:144
Alignment explanation
Indices: 635498--635821 Score: 395
Period size: 144 Copynumber: 2.2 Consensus size: 144
635488 GGCATCCGAA
* * * *
635498 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAG
1 ATGAGTGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCATTGATATCTGTGCCAGTGTAAG
*
635563 ACAATGTCTGGGACATGGCATCGGTATTGATATGTATGCCAAAGTAAGACCATGTCTGGGACATG
66 ACAATGTCTGGGACATGGCATCGGTATTGATATGTATGCCAAAGTAAGACCATGTCTGAGACATG
****
635628 GCATCGGTGTTGAT
131 GCATCGACACTGAT
* * *
635642 ATGTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATCTGTGCCAGTGTAAG
1 ATGAGTGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCATTGATATCTGTGCCAGTGTAAG
* * * ** *
635707 ACCATGTCTGGGACATGGCATCAGCG-A-TGATATGTGTGCTAGTGTAAGACCATGTTTGAGACA
66 ACAATGTCTGGGACATGGCATC-G-GTATTGATATGTATGCCAAAGTAAGACCATGTCTGAGACA
635770 TGGCATCGACACTGAT
129 TGGCATCGACACTGAT
* * *
635786 ATGAGACT-TC-GTATAAGACCATATTTGGGATATGGC
1 ATGAG--TGCCAGTATAAGACCATGTTTGGGACATGGC
635822 GTCGATATGT
Statistics
Matches: 155, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
144 150 0.97
145 3 0.02
146 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (144 bp):
ATGAGTGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCATTGATATCTGTGCCAGTGTAAG
ACAATGTCTGGGACATGGCATCGGTATTGATATGTATGCCAAAGTAAGACCATGTCTGAGACATG
GCATCGACACTGAT
Found at i:641773 original size:36 final size:35
Alignment explanation
Indices: 641722--641796 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 35
641712 ATACGTCTAG
641722 TTTAATCAAGATTATTTACAAGTGTATAATTGTGT
1 TTTAATCAAGATTATTTACAAGTGTATAATTGTGT
641757 TTTATATCAAGATTATTTACAAGTGTATAATTGTGT
1 TTTA-ATCAAGATTATTTACAAGTGTATAATTGTGT
641793 TTTA
1 TTTA
641797 CTTTGAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTAATCAAGATTATTTACAAGTGTATAATTGTGT
Found at i:642563 original size:53 final size:53
Alignment explanation
Indices: 642483--642586 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
642473 ATTTTTGGTC
*
642483 GGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGTT
1 GGGCCAATTAGTACAGTTTATTAGTCAAAATCTCCCATGTTACAGGGATCGTT
642536 GGGCCAATTAGTACAGTTTATTAGTCAAAATCTCCCATGTTACAGGGATCG
1 GGGCCAATTAGTACAGTTTATTAGTCAAAATCTCCCATGTTACAGGGATCG
642587 ACTACATAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (53 bp):
GGGCCAATTAGTACAGTTTATTAGTCAAAATCTCCCATGTTACAGGGATCGTT
Found at i:642821 original size:147 final size:147
Alignment explanation
Indices: 642554--642850 Score: 497
Period size: 147 Copynumber: 2.0 Consensus size: 147
642544 TAGTACAGTT
*
642554 TATTAGTCAAAATCTCCCATGTTACAGGGATCGACTACATAGACCTTTGTGCATTACGACTTGGA
1 TATTAGTCAAAATCTCCCATGTTACAGGGATCGACTACATAGACCTTTGCGCATTACGACTTGGA
* *
642619 TATCTCCCTGCACAGAGTTTCAACACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGG
66 TATCTCCCTGCACAGAGCTCCAACACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGG
642684 AATCTATCCATATATGG
131 AATCTATCCATATATGG
* *
642701 TATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCT-GACCTTTGCGCATTACGACTTGG
1 TATTAGTCAAAATCTCCCATGTTACAGGGATCGACTA-CATAGACCTTTGCGCATTACGACTTGG
* * * *
642765 ATATCTCCTTGTACAGGGCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAG
65 ATATCTCCCTGCACAGAGCTCCAACACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAG
642830 GAATCTATCCATATATGG
130 GAATCTATCCATATATGG
642848 TAT
1 TAT
642851 GACTCCTAAT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
147 138 0.99
148 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (147 bp):
TATTAGTCAAAATCTCCCATGTTACAGGGATCGACTACATAGACCTTTGCGCATTACGACTTGGA
TATCTCCCTGCACAGAGCTCCAACACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGG
AATCTATCCATATATGG
Found at i:643939 original size:39 final size:40
Alignment explanation
Indices: 643817--644040 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
643807 GCTCCTCGTT
* *
643817 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
643857 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
643897 CAAATGCCTTCGGG-CTTAGCCCGTAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
643936 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
643975 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
644016 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
644041 CATCATTCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 71 0.44
40 74 0.46
41 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:643983 original size:78 final size:80
Alignment explanation
Indices: 643817--644040 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
643807 GCTCCTCGTT
*
643817 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
643882 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
643897 CAAATGCCTTCGGG-CTTAGCCC-GTAATTAGT-ATCTCGTACAAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGACATAGCCCGGTAA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
*
643958 GGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCA
* * * * * *
643975 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CATAGCCCGGTA-ATAGT-AATTCGCACAAATGCCTTCGGGACTTAACC
644037 CGGA
63 CGGA
644041 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
77 2 0.02
78 38 0.31
79 49 0.40
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGTAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:644000 original size:118 final size:120
Alignment explanation
Indices: 643811--644038 Score: 297
Period size: 118 Copynumber: 1.9 Consensus size: 120
643801 GATATAGCTC
* *
643811 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTA
1 CTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTA
* *
643876 ACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGTAATTAGTAT
66 ACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGTAATTAGTAT
*
643930 CTCGTACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATC
1 CTCGTACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-C
** * *
643991 TTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
63 TTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
644039 GACATCATTC
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
117 6 0.06
118 53 0.56
119 36 0.38
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (120 bp):
CTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTA
ACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGTAATTAGTAT
Done.