Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 86 of 276
Found at i:26612908 original size:20 final size:20
Alignment explanation
Indices: 26612859--26612909 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
26612849 AAATTATAAT
*
26612859 TAAAATAAAATAAAAATTTA
1 TAAAATAAAATAAAAATATA
* *
26612879 TCAAATTAAATATAAAATATA
1 TAAAATAAAATA-AAAATATA
26612900 TAAAATAAAA
1 TAAAATAAAA
26612910 CAATCAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATAAAATAAAAATATA
Found at i:26617729 original size:5 final size:5
Alignment explanation
Indices: 26617719--26617754 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
26617709 AAAGAAAAAT
26617719 AATAA AAT-A AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
26617755 AAGATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:26619785 original size:27 final size:27
Alignment explanation
Indices: 26619755--26619813 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
26619745 AATAAGAATG
*
26619755 ATTTGAAATTTACAAGTTAAGTGGTAT
1 ATTTGAAATTTACAAGTTAAATGGTAT
*
26619782 ATTTGAGATTTACAAGTTAAATGGTAT
1 ATTTGAAATTTACAAGTTAAATGGTAT
*
26619809 GTTTG
1 ATTTG
26619814 GATATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTGAAATTTACAAGTTAAATGGTAT
Found at i:26623959 original size:106 final size:106
Alignment explanation
Indices: 26623799--26624122 Score: 465
Period size: 106 Copynumber: 3.1 Consensus size: 106
26623789 TTTAAATGCA
* * * * *
26623799 TGCACATATTTTAAATATGTGATTTTCATATACATACGCGTGTAATA-AATTTTCTAATAAATAT
1 TGCA-ATATTATAAATATGTGATTTTCACATACCTACGCATGTGATAGAA-TTTCTAATAAATAT
* * *
26623863 AAAGGGATAAATATTAAATTTATACATGAATTTTGTTTTAATG
64 AAAGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
* * *
26623906 TGCAATATTCTAAATATGTGATTTTCACATACCTACGTATGTGATAGAATTTCTAAGAAATATAA
1 TGCAATATTATAAATATGTGATTTTCACATACCTACGCATGTGATAGAATTTCTAATAAATATAA
*
26623971 A-GGAGTAAATATCAAATTCATACATGAACTTTGTTTCAATG
66 AGGGA-TAAATATCAAATTTATACATGAACTTTGTTTCAATG
* *
26624012 TGCAATACTATAAATATGTGATTTTCACATACCTACGCATGTGATAGAATTTCTAGTAAATATAA
1 TGCAATATTATAAATATGTGATTTTCACATACCTACGCATGTGATAGAATTTCTAATAAATATAA
*
26624077 AGAGATAAATATCAAATTTATACATGAACTTT-TTTCAATG
66 AGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
26624117 TGCAAT
1 TGCAAT
26624123 TTGATACATG
Statistics
Matches: 196, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
105 17 0.09
106 171 0.87
107 8 0.04
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (106 bp):
TGCAATATTATAAATATGTGATTTTCACATACCTACGCATGTGATAGAATTTCTAATAAATATAA
AGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
Found at i:26625500 original size:10 final size:10
Alignment explanation
Indices: 26625473--26625508 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
26625463 TACTCCATGC
26625473 TATTTTTTTA
1 TATTTTTTTA
26625483 TATCTTTTTTA
1 TAT-TTTTTTA
*
26625494 TATTTTTATA
1 TATTTTTTTA
26625504 TATTT
1 TATTT
26625509 GAATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:26631634 original size:13 final size:13
Alignment explanation
Indices: 26631616--26631640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26631606 AAATTAACTA
26631616 ATAATTATAATTT
1 ATAATTATAATTT
26631629 ATAATTATAATT
1 ATAATTATAATT
26631641 ATCATAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATTATAATTT
Found at i:26638410 original size:14 final size:13
Alignment explanation
Indices: 26638384--26638423 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
26638374 GTTTAAAGAC
*
26638384 TTTTATTTATTAT
1 TTTTATTTTTTAT
26638397 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
26638411 TTTTATCTTTTTA
1 TTTTAT-TTTTTA
26638424 AAACTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:26639477 original size:14 final size:14
Alignment explanation
Indices: 26639458--26639496 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
26639448 ATATTTGACT
26639458 TGTTCTTAATTATA
1 TGTTCTTAATTATA
*
26639472 TGTTCTTAATTATG
1 TGTTCTTAATTATA
26639486 TGTTCTTAATT
1 TGTTCTTAATT
26639497 TTTGTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATA
Found at i:26645561 original size:12 final size:13
Alignment explanation
Indices: 26645544--26645573 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26645534 TAAACACCTA
26645544 TTTTTAT-TTTAT
1 TTTTTATCTTTAT
26645556 TTTTTATCTTTAT
1 TTTTTATCTTTAT
26645569 TTTTT
1 TTTTT
26645574 TGAAACTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATCTTTAT
Found at i:26663976 original size:39 final size:39
Alignment explanation
Indices: 26663803--26663979 Score: 212
Period size: 39 Copynumber: 4.5 Consensus size: 39
26663793 ATTCACTATT
* * * * * *
26663803 AAGCATGTATCACATTACACATATAATCACATAACCTTT
1 AAGCATATATCGCAATACTCATATAATCACATAACATTC
* * *
26663842 AAGCATATA-CAACAATACTCATATAATTACATAACATTT
1 AAGCATATATC-GCAATACTCATATAATCACATAACATTC
*
26663881 AAGCACATATCGCAATACTCATATAATCACATAACATTC
1 AAGCATATATCGCAATACTCATATAATCACATAACATTC
* *
26663920 AAGCATTTATCGCAATACTCATTTAATCACATAACATTC
1 AAGCATATATCGCAATACTCATATAATCACATAACATTC
* *
26663959 AAGCATATGTCGTAATACTCA
1 AAGCATATATCGCAATACTCA
26663980 AAAAAATATT
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 119 0.98
40 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (39 bp):
AAGCATATATCGCAATACTCATATAATCACATAACATTC
Found at i:26664237 original size:50 final size:50
Alignment explanation
Indices: 26664162--26664269 Score: 189
Period size: 50 Copynumber: 2.2 Consensus size: 50
26664152 AGAGTCAAAA
* *
26664162 ATGTCTCAAAAGTGAAGCTTAAAGCTAACACTCTCCTTATTTCCCCTCAC
1 ATGTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCTTATTTCCCCTCAC
*
26664212 ATGTCCCAAAAGTGAAGCATAAAGCTAACACTCTCTTTATTTCCCCTCAC
1 ATGTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCTTATTTCCCCTCAC
26664262 ATGTCCCA
1 ATGTCCCA
26664270 TTGAATAAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.29
Consensus pattern (50 bp):
ATGTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCTTATTTCCCCTCAC
Found at i:26669081 original size:26 final size:26
Alignment explanation
Indices: 26669045--26669097 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26669035 TTCTTTTCTT
26669045 TTGTTTCTTATTTCGGTGGATGAACA
1 TTGTTTCTTATTTCGGTGGATGAACA
26669071 TTGTTTCTTATTTCGGTGGATGAACA
1 TTGTTTCTTATTTCGGTGGATGAACA
26669097 T
1 T
26669098 AATAATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (26 bp):
TTGTTTCTTATTTCGGTGGATGAACA
Found at i:26681068 original size:30 final size:31
Alignment explanation
Indices: 26681000--26681058 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
26680990 CACCCTTAAA
* * *
26681000 ATATTTTCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
26681031 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
26681059 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:26690521 original size:34 final size:34
Alignment explanation
Indices: 26690483--26690552 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
26690473 AGCTCAAATC
*
26690483 ATACTATTTCAATCATTTTAAGTGCCTAACCAAT
1 ATACTATTTCAATCATCTTAAGTGCCTAACCAAT
*
26690517 ATACTATTTCAATCATCTTAAGTGTCTAACCAAT
1 ATACTATTTCAATCATCTTAAGTGCCTAACCAAT
26690551 AT
1 AT
26690553 GCACACTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.39
Consensus pattern (34 bp):
ATACTATTTCAATCATCTTAAGTGCCTAACCAAT
Found at i:26707398 original size:29 final size:29
Alignment explanation
Indices: 26707357--26707421 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
26707347 TCTTGAACCT
26707357 GAAT-CCACCAGTCTGCAAATACCAACAG
1 GAATGCCACCAGTCTGCAAATACCAACAG
*
26707385 GAATGCCACCAGTCTGCAAATACCAACAT
1 GAATGCCACCAGTCTGCAAATACCAACAG
26707414 GAATGCCA
1 GAATGCCA
26707422 TAGGATCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (29 bp):
GAATGCCACCAGTCTGCAAATACCAACAG
Found at i:26708032 original size:16 final size:16
Alignment explanation
Indices: 26708011--26708046 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
26708001 TTTGGTTCGC
26708011 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26708027 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26708043 TGTA
1 TGTA
26708047 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26708111 original size:44 final size:45
Alignment explanation
Indices: 26708027--26708117 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26708017 GGATTAGAGG
* * *
26708027 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
26708072 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
26708116 TG
1 TG
26708118 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:26708299 original size:16 final size:16
Alignment explanation
Indices: 26708262--26708303 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26708252 TTAATCATAT
*
26708262 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
26708278 TT-AAATATATTATAA
1 TTAAAATATATTATAA
26708293 TTAAAATATAT
1 TTAAAATATAT
26708304 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:26708310 original size:14 final size:15
Alignment explanation
Indices: 26708271--26708312 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26708261 TTTAAACATA
*
26708271 ATTATTATTAAATAT
1 ATTATAATTAAATAT
26708286 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
26708300 A-TATAATTTAATA
1 ATTATAATTAAATA
26708313 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:26708362 original size:61 final size:61
Alignment explanation
Indices: 26708297--26708484 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
26708287 TTATAATTAA
26708297 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
26708358 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
26708416 A
61 T
26708417 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
26708478 AATATAT
1 AATATAT
26708485 GATACCATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.16
61 35 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:26708405 original size:120 final size:121
Alignment explanation
Indices: 26708265--26708557 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
26708255 ATCATATTTA
26708265 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
26708330 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAAATTG
26708385 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
26708450 TATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAAATTG
* * *
26708506 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
26708558 TAAAATAATT
Statistics
Matches: 166, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
120 164 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAAATTG
Found at i:26708430 original size:14 final size:15
Alignment explanation
Indices: 26708381--26708432 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
26708371 ATAAAATATA
26708381 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
26708396 TATTAAATATATTAT
1 AATTAAATATATTAT
26708411 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
26708424 AATTTAATA
1 AATTAAATA
26708433 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:26708627 original size:26 final size:28
Alignment explanation
Indices: 26708598--26708658 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
26708588 CATGAATTTG
*
26708598 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
26708624 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
26708652 TAAAATT
1 TATAATT
26708659 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:26715173 original size:20 final size:20
Alignment explanation
Indices: 26715148--26715194 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
26715138 GAGGTGGCCA
26715148 TTTTATTTCAATTTAATACG
1 TTTTATTTCAATTTAATACG
*
26715168 TTTTATTTCACTTTAATACG
1 TTTTATTTCAATTTAATACG
*
26715188 TTCTATT
1 TTTTATT
26715195 ACATTGCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTATTTCAATTTAATACG
Found at i:26718369 original size:23 final size:24
Alignment explanation
Indices: 26718336--26718380 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
26718326 TATTCAATTA
26718336 GTTCACAAACATGTTTT-TTTATT
1 GTTCACAAACATGTTTTGTTTATT
*
26718359 GTTCACTAACATGTTTTGTTTA
1 GTTCACAAACATGTTTTGTTTA
26718381 ACTTAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.51
Consensus pattern (24 bp):
GTTCACAAACATGTTTTGTTTATT
Found at i:26718988 original size:42 final size:42
Alignment explanation
Indices: 26718941--26719026 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
26718931 GCAATTCTTA
26718941 AAATTCACATAAACATTTGAATCAGAGTAAAGTATTTAGACT
1 AAATTCACATAAACATTTGAATCAGAGTAAAGTATTTAGACT
26718983 AAATTCACATAAACATTTGAATCAGAGTAAAGTATTTAGACT
1 AAATTCACATAAACATTTGAATCAGAGTAAAGTATTTAGACT
26719025 AA
1 AA
26719027 CTACTGGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (42 bp):
AAATTCACATAAACATTTGAATCAGAGTAAAGTATTTAGACT
Found at i:26719335 original size:23 final size:23
Alignment explanation
Indices: 26719304--26719347 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26719294 ATTGTATATT
* *
26719304 ATACAAAGTAAATATAACAATTA
1 ATACAAAGTAAAAACAACAATTA
*
26719327 ATACCAAGTAAAAACAACAAT
1 ATACAAAGTAAAAACAACAAT
26719348 ATATTGTAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.14, G:0.05, T:0.20
Consensus pattern (23 bp):
ATACAAAGTAAAAACAACAATTA
Found at i:26723747 original size:26 final size:24
Alignment explanation
Indices: 26723700--26723748 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
26723690 CTTTATTAAG
26723700 TATATTTGTTATATAAAATTGTTA
1 TATATTTGTTATATAAAATTGTTA
*
26723724 TATATTTGTATATAATAATATTGTT
1 TATATTTGT-TAT-ATAAAATTGTT
26723749 GATTGAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 3 0.14
26 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (24 bp):
TATATTTGTTATATAAAATTGTTA
Found at i:26726355 original size:14 final size:14
Alignment explanation
Indices: 26726338--26726368 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26726328 AGTAAAATAT
26726338 TTTCCGAAAAATGA
1 TTTCCGAAAAATGA
*
26726352 TTTCTGAAAAATGA
1 TTTCCGAAAAATGA
26726366 TTT
1 TTT
26726369 ACTTTTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (14 bp):
TTTCCGAAAAATGA
Found at i:26726716 original size:13 final size:13
Alignment explanation
Indices: 26726700--26726724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26726690 TATTTGTAAT
26726700 TGTTATTTACAAA
1 TGTTATTTACAAA
26726713 TGTTATTTACAA
1 TGTTATTTACAA
26726725 TTCCTGGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TGTTATTTACAAA
Found at i:26729824 original size:13 final size:13
Alignment explanation
Indices: 26729806--26729840 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
26729796 TTTATTTATG
26729806 TTTTATTATATTA
1 TTTTATTATATTA
26729819 TTTTATTATATTA
1 TTTTATTATATTA
*
26729832 ATTTATTAT
1 TTTTATTAT
26729841 TATATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTATATTA
Found at i:26732373 original size:16 final size:16
Alignment explanation
Indices: 26732352--26732383 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26732342 AAATCAAACA
26732352 GTCTTTAAAGGGTTGT
1 GTCTTTAAAGGGTTGT
26732368 GTCTTTAAAGGGTTGT
1 GTCTTTAAAGGGTTGT
26732384 AACAGGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.44
Consensus pattern (16 bp):
GTCTTTAAAGGGTTGT
Found at i:26733621 original size:12 final size:12
Alignment explanation
Indices: 26733585--26733628 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
26733575 TATAAAGATT
26733585 AAATAAACATAAA
1 AAATAAACAT-AA
*
26733598 AAATAAAAATAA
1 AAATAAACATAA
*
26733610 ACATAAACATAA
1 AAATAAACATAA
*
26733622 AGATAAA
1 AAATAAA
26733629 TGGACTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (12 bp):
AAATAAACATAA
Found at i:26739289 original size:61 final size:61
Alignment explanation
Indices: 26739198--26739369 Score: 169
Period size: 60 Copynumber: 2.8 Consensus size: 61
26739188 TCAAGCTTTA
* *
26739198 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAG-TATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAAT
* * *
26739260 GTGGGTCATAGCCCT-TTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
* * *
26739320 CTGGGCCGTAGCCCTATTACA--AGTC-GAGATATATTGGGCCTTGCCCATAT
1 CTGGGCCATAGCCCTATTACAGTA-TCAGAG-TATACTGGGCCTAGCCCATAT
26739370 TAACACAGTT
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
59 4 0.04
60 51 0.54
61 23 0.24
62 15 0.16
63 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:26740912 original size:25 final size:23
Alignment explanation
Indices: 26740857--26740912 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
26740847 TGTCGGCCAG
26740857 AGAAGAAAAGAAGGAGAAAAAGA
1 AGAAGAAAAGAAGGAGAAAAAGA
*
26740880 AAATAGAAGAAGAGAGGAG-AAAAGA
1 AGA-AGAA-AAGA-AGGAGAAAAAGA
26740905 AGGAAGAA
1 A-GAAGAA
26740913 TTCGACACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 4 0.15
25 15 0.56
26 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (23 bp):
AGAAGAAAAGAAGGAGAAAAAGA
Found at i:26749825 original size:8 final size:8
Alignment explanation
Indices: 26749814--26749848 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
26749804 TGTTTTATTA
26749814 TATTATAT
1 TATTATAT
26749822 TATTATAT
1 TATTATAT
26749830 TAATT-TAT
1 T-ATTATAT
26749838 TATTATAT
1 TATTATAT
26749846 TAT
1 TAT
26749849 ATACTTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 19 0.76
9 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:26749826 original size:13 final size:13
Alignment explanation
Indices: 26749808--26749850 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
26749798 TATTTATGTT
26749808 TTATTATATTATA
1 TTATTATATTATA
26749821 TTATTATATTAATTTA
1 TTATTATATT-A--TA
26749837 TTATTATATTATA
1 TTATTATATTATA
26749850 T
1 T
26749851 ACTTAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:26752438 original size:29 final size:29
Alignment explanation
Indices: 26752381--26752438 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
26752371 AATTAGAATC
* *
26752381 AGAAATATGACATGCTTAACATGCGAATT
1 AGAAATATGACATGCTTAACATACAAATT
* *
26752410 AGAAATATGGCATGCTTAACTTACAAATT
1 AGAAATATGACATGCTTAACATACAAATT
26752439 GGATCATCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (29 bp):
AGAAATATGACATGCTTAACATACAAATT
Found at i:26760343 original size:10 final size:10
Alignment explanation
Indices: 26760319--26760353 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
26760309 TATCGCAAGT
*
26760319 GAAGAGG-AT
1 GAAGAGGAAG
26760328 GAAGAGGAAG
1 GAAGAGGAAG
26760338 GAAGAGGAAG
1 GAAGAGGAAG
26760348 GAAGAG
1 GAAGAG
26760354 AACATACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (10 bp):
GAAGAGGAAG
Found at i:26764159 original size:30 final size:30
Alignment explanation
Indices: 26764094--26764157 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 30
26764084 AAAAGTTTAA
26764094 ATTA-ATTTTATTATATCTGAAATAATTTT
1 ATTATATTTTATTATATCTGAAATAATTTT
26764123 ATTATATTTTA-T-TATCT-AAATCAATTTT
1 ATTATATTTTATTATATCTGAAAT-AATTTT
26764151 ATTATAT
1 ATTATAT
26764158 ATGATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 4 0.12
28 18 0.55
29 5 0.15
30 6 0.18
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (30 bp):
ATTATATTTTATTATATCTGAAATAATTTT
Found at i:26764164 original size:28 final size:28
Alignment explanation
Indices: 26764107--26764165 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
26764097 AATTTTATTA
* *
26764107 TATCTGAAATAATTTTATTATATTTTAT
1 TATCTGAAATAATTTTATTATATATGAT
26764135 TATCT-AAATCAATTTTATTATATATGAT
1 TATCTGAAAT-AATTTTATTATATATGAT
26764163 TAT
1 TAT
26764166 TTTCTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (28 bp):
TATCTGAAATAATTTTATTATATATGAT
Found at i:26765501 original size:33 final size:33
Alignment explanation
Indices: 26765464--26765538 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
26765454 CATTACTTGC
* *
26765464 ATGTATTTATATTTAATGAATGT-TTTAGAGTAG
1 ATGTATCTA-ATTTAATGAATGTATTTAGAGAAG
*
26765497 ATGTATCTAGTTTAATGAATGTATTTAGAGAAG
1 ATGTATCTAATTTAATGAATGTATTTAGAGAAG
26765530 ATGTATCTA
1 ATGTATCTA
26765539 GTAGTCATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 12 0.32
33 26 0.68
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.44
Consensus pattern (33 bp):
ATGTATCTAATTTAATGAATGTATTTAGAGAAG
Found at i:26765512 original size:32 final size:33
Alignment explanation
Indices: 26765475--26765540 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
26765465 TGTATTTATA
*
26765475 TTTAATGAATGT-TTTAGAGTAGATGTATCTAG
1 TTTAATGAATGTATTTAGAGAAGATGTATCTAG
26765507 TTTAATGAATGTATTTAGAGAAGATGTATCTAG
1 TTTAATGAATGTATTTAGAGAAGATGTATCTAG
26765540 T
1 T
26765541 AGTCATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (33 bp):
TTTAATGAATGTATTTAGAGAAGATGTATCTAG
Found at i:26769857 original size:32 final size:33
Alignment explanation
Indices: 26769820--26769881 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
26769810 TGTATTTATT
*
26769820 TTTAATGAATGTA-TTAAAGTAGATGTATCCAG
1 TTTAATGAATGTATTTAAAGAAGATGTATCCAG
*
26769852 TTTAATGAATGTATTTAGAGAAGATGTATC
1 TTTAATGAATGTATTTAAAGAAGATGTATC
26769882 TAGTAGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (33 bp):
TTTAATGAATGTATTTAAAGAAGATGTATCCAG
Found at i:26774940 original size:16 final size:16
Alignment explanation
Indices: 26774921--26774951 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26774911 CTTCTTCACT
26774921 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
26774937 TACTTACTTACTTAA
1 TACTCACTTACTTAA
26774952 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:26774957 original size:20 final size:20
Alignment explanation
Indices: 26774918--26774957 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26774908 AAACTTCTTC
* *
26774918 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
26774938 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
26774958 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:26776010 original size:98 final size:98
Alignment explanation
Indices: 26775895--26776154 Score: 468
Period size: 98 Copynumber: 2.7 Consensus size: 98
26775885 CACCACAGAA
26775895 ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACT
1 ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACT
26775960 AGAACAGATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATGTGGCGAAGCCACCAG
26775993 ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACT
1 ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACT
26776058 AGAACAGATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATGTGGCGAAGCCACCAG
* * * *
26776091 ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACTA-AAATAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCCAC
26776155 CAGATTGCAG
Statistics
Matches: 157, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
97 8 0.05
98 149 0.95
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (98 bp):
ATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACT
AGAACAGATATATATATGTGGCGAAGCCACCAG
Found at i:26777732 original size:53 final size:55
Alignment explanation
Indices: 26777649--26777764 Score: 139
Period size: 53 Copynumber: 2.1 Consensus size: 55
26777639 TCCATGTCTC
*
26777649 GACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATGCCAGGCCTT
1 GACATGGTCTTACATGGGATCCTTGCCTTATAGTAACTCACCAATGCCAGGCCTT
* * * * * *
26777702 GGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAACTTATCAATGCCATGTCTT
1 GACATGGTCTTACATGGGATCC-TTGCCTTATAGTAACTCACCAATGCCAGGCCTT
26777757 GACATGGT
1 GACATGGT
26777765 ATCCTTACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
52 2 0.04
53 25 0.48
54 1 0.02
55 24 0.46
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (55 bp):
GACATGGTCTTACATGGGATCCTTGCCTTATAGTAACTCACCAATGCCAGGCCTT
Found at i:26787907 original size:46 final size:45
Alignment explanation
Indices: 26787854--26787941 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 45
26787844 AGCTTCCTGG
*
26787854 ATTACCTCCGAATCGGGAAGTTGAGTTTGGAATCAATTTGTTGCC
1 ATTACCTCCGAATCGAGAAGTTGAGTTTGGAATCAATTTGTTGCC
*
26787899 NATTACCTCCGAATCGAGAAGTTGAGTTTGGAATCGATTTGTT
1 -ATTACCTCCGAATCGAGAAGTTGAGTTTGGAATCAATTTGTT
26787942 ACCGGGAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ATTACCTCCGAATCGAGAAGTTGAGTTTGGAATCAATTTGTTGCC
Found at i:26801513 original size:20 final size:20
Alignment explanation
Indices: 26801458--26801513 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
26801448 AGTTCATGCT
* *
26801458 AAGTAAATGAAATGGAAAGA
1 AAGTAAATGGAATGGTAAGA
*
26801478 AAGTAAACGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
26801498 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
26801514 TCATAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.02, G:0.30, T:0.18
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:26808378 original size:24 final size:24
Alignment explanation
Indices: 26808342--26808400 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
26808332 GAGCCAACAT
* * * *
26808342 TGGCACTAAGTGTGCGTATTTGAA
1 TGGCACTATGTGTGCGAAATCGAA
*
26808366 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAAATCGAA
26808390 TGGCACTATGT
1 TGGCACTATGT
26808401 ATGATGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAAATCGAA
Found at i:26816919 original size:46 final size:46
Alignment explanation
Indices: 26816780--26817048 Score: 271
Period size: 46 Copynumber: 5.8 Consensus size: 46
26816770 TGTAACCCGC
* * *
26816780 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC-ATTTGCAT
* * *
26816830 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
26816873 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
26816919 CCACAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC-ATTTGCAT
* * *
26816969 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
26817012 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
26817049 TGCTCAACCA
Statistics
Matches: 179, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
43 12 0.07
44 6 0.03
45 4 0.02
46 94 0.53
47 52 0.29
48 3 0.02
49 4 0.02
50 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:26816954 original size:139 final size:139
Alignment explanation
Indices: 26816784--26817047 Score: 519
Period size: 139 Copynumber: 1.9 Consensus size: 139
26816774 ACCCGCCCAT
26816784 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCACGAACTCGGACTCAA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCACGAACTCGGACTCAA
26816849 CTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTT
66 CTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTT
26816914 CGCATCCAC
131 CGCATCCAC
26816923 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCACGAACTCGGACTCAA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCACGAACTCGGACTCAA
*
26816988 CTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
66 CTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
26817048 ATGCTCAACC
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 124 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (139 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCACGAACTCGGACTCAA
CTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTT
CGCATCCAC
Found at i:26816978 original size:93 final size:93
Alignment explanation
Indices: 26816881--26817051 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
26816871 ATCCATAAGT
* * *
26816881 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
26816946 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
26816974 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
*
26817039 CGAGTTCGGATGC
66 CGAGTTCGAATGC
26817052 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:26819502 original size:18 final size:18
Alignment explanation
Indices: 26819479--26819533 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
26819469 GGACTTGCAT
26819479 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
26819497 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
* *
26819515 TCTGTTTACTGTTACTGC
1 ACTGATTACTGTTACTGC
26819533 A
1 A
26819534 ATGGGCCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:26821448 original size:37 final size:37
Alignment explanation
Indices: 26821386--26821467 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
26821376 TTAGTGCTGA
* *
26821386 GGCGTGTTATCGGTTGTATTGGCTCTCATAAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTCATAAGCATTT
* * * *
26821423 GGTGTGTTATTGGTTGGATTAGCTCTTATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTCATAAGCATTT
26821460 GGCGTGTT
1 GGCGTGTT
26821468 TCAATTGGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.43
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTCATAAGCATTT
Found at i:26837209 original size:40 final size:40
Alignment explanation
Indices: 26837154--26837232 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
26837144 AAAAAGTGCT
*
26837154 ATGTGGTGGTATTTTAGTGATCCACATGTATTGCCACATG
1 ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCACATG
26837194 ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCACAT
1 ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCACAT
26837233 CATGCTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (40 bp):
ATGTGGTAGTATTTTAGTGATCCACATGTATTGCCACATG
Found at i:26837657 original size:21 final size:21
Alignment explanation
Indices: 26837631--26837683 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
26837621 AAACTATATT
26837631 TTAAATATTTA-AATATA-ATCA
1 TTAAATATTTATAAT-TAGAT-A
26837652 TTAAATATTTATAATTAGATA
1 TTAAATATTTATAATTAGATA
26837673 TTAACATATTT
1 TTAA-ATATTT
26837684 GCATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAAATATTTATAATTAGATA
Found at i:26839449 original size:18 final size:18
Alignment explanation
Indices: 26839426--26839468 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26839416 ATTTAAATTA
26839426 AAAATTTT-AAAAAAAAGT
1 AAAATTTTGAAAAAAAA-T
*
26839444 AAAATTTTGATAAAAAAT
1 AAAATTTTGAAAAAAAAT
26839462 AAAATTT
1 AAAATTT
26839469 CTTCCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATTTTGAAAAAAAAT
Found at i:26842806 original size:17 final size:17
Alignment explanation
Indices: 26842780--26842816 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26842770 AATATTAATT
*
26842780 AATTATATTAATTTCTC
1 AATTAAATTAATTTCTC
*
26842797 AATTAAATTATTTTCTC
1 AATTAAATTAATTTCTC
26842814 AAT
1 AAT
26842817 CCATATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:26842921 original size:23 final size:22
Alignment explanation
Indices: 26842869--26842921 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
26842859 TTCAAAAGGA
26842869 AATTAATTTAATTGTCTTATTC
1 AATTAATTTAATTGTCTTATTC
*
26842891 AATAAATTT-ATTGATACTTATT-
1 AATTAATTTAATTG-T-CTTATTC
26842913 AATTTAATT
1 AA-TTAATT
26842922 CTCACTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 11 0.42
23 11 0.42
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (22 bp):
AATTAATTTAATTGTCTTATTC
Found at i:26843396 original size:160 final size:160
Alignment explanation
Indices: 26843120--26843445 Score: 530
Period size: 160 Copynumber: 2.0 Consensus size: 160
26843110 ATACTCATAG
*
26843120 TTTTCAATTTATAGGGAGAATTAACTTTCTCATTGAAAATTAAGAAAAAAAAATATTTTGTGCAC
1 TTTTCAATTTATAGAGAGAATTAACTTTCTCATTGAAAATTAAG-AAAAAAAATATTTTGTGCAC
* * * *
26843185 TTGTTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTTGAGGATAACGAGTAAGATCG
65 TTGGTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTCGAGGATAACGAATAAAATCG
26843250 ACCAGTTGAAAGTTGGGAAATGACCTAGACCA
130 ACCAGTTGAAAGTTGGGAAATGACC-AGACCA
* * *
26843282 TTTTCAGTTTATAGAGAGAATTAACTTT-TCCGTTGAAAGTTAAG-AAAAAAATATTTTGTGCAC
1 TTTTCAATTTATAGAGAGAATTAACTTTCT-CATTGAAAATTAAGAAAAAAAATATTTTGTGCAC
*
26843345 TTGGTTCAATTTGTTTGAATCCCCACTCAAAGAAATTTGGGATTCGAGGATAACGAATAAAATCG
65 TTGGTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTCGAGGATAACGAATAAAATCG
26843410 ACCAGTTGAAAGTTGGGAAATGACCAGACCA
130 ACCAGTTGAAAGTTGGGAAATGACCAGACCA
26843441 TTTTC
1 TTTTC
26843446 TTACTAAACA
Statistics
Matches: 154, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
159 11 0.07
160 104 0.68
161 1 0.01
162 38 0.25
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (160 bp):
TTTTCAATTTATAGAGAGAATTAACTTTCTCATTGAAAATTAAGAAAAAAAATATTTTGTGCACT
TGGTTCAATTTGTTTGAATCCCCACTCAAAAAAATTTGGGATTCGAGGATAACGAATAAAATCGA
CCAGTTGAAAGTTGGGAAATGACCAGACCA
Found at i:26844251 original size:30 final size:30
Alignment explanation
Indices: 26844200--26844257 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
26844190 CTGGGCATTT
26844200 CCACACGGGCTAGCCACACGCCTGTGTGAG
1 CCACACGGGCTAGCCACACGCCTGTGTGAG
* * *
26844230 CCACGCGGGCTGGCCATACGCCTGTGTG
1 CCACACGGGCTAGCCACACGCCTGTGTG
26844258 CCTACCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.36, G:0.33, T:0.16
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACGCCTGTGTGAG
Found at i:26860545 original size:19 final size:19
Alignment explanation
Indices: 26860521--26860558 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26860511 GCTGTCAAAA
26860521 AGAATTTTGTTGGTTGAGT
1 AGAATTTTGTTGGTTGAGT
26860540 AGAATTTTGTTGGTTGAGT
1 AGAATTTTGTTGGTTGAGT
26860559 TTGGTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (19 bp):
AGAATTTTGTTGGTTGAGT
Found at i:26861351 original size:30 final size:30
Alignment explanation
Indices: 26861316--26861381 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
26861306 AATACATAGG
* *
26861316 ACACACGGCCATGTCACTTGGCCGTGTGTC
1 ACACACGGCCATGTCACCTGGCAGTGTGTC
26861346 ACACACGGCCATGTCACCTGGCAGTGTGTC
1 ACACACGGCCATGTCACCTGGCAGTGTGTC
26861376 ACACAC
1 ACACAC
26861382 AGCTGAGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.35, G:0.24, T:0.20
Consensus pattern (30 bp):
ACACACGGCCATGTCACCTGGCAGTGTGTC
Found at i:26862364 original size:25 final size:25
Alignment explanation
Indices: 26862313--26862398 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
26862303 ACTCATGTAT
* ** *
26862313 GCTCATACGAGCTGTA-AATAGTAA
1 GCTCATACGAGCTGAATAACGGGAA
* * *
26862337 GCTCTTCCGAGTTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
26862362 GCTCATACGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
*
26862387 GCTCATTCGAGC
1 GCTCATACGAGC
26862399 AATGGTGTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
24 12 0.24
25 38 0.76
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGGAA
Found at i:26864755 original size:31 final size:31
Alignment explanation
Indices: 26864689--26864761 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
26864679 ATGAGTTAAG
* * * *
26864689 AAACCATCATTGTTGGGTAATTCGGGGTGAT
1 AAACCATCATTGTTGAGCAATTCGGGATGAC
* *
26864720 AAACCATTATTGTTGAGCAATTCGGGATGGC
1 AAACCATCATTGTTGAGCAATTCGGGATGAC
26864751 AAACCATCATT
1 AAACCATCATT
26864762 TTCGGGTAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (31 bp):
AAACCATCATTGTTGAGCAATTCGGGATGAC
Found at i:26866950 original size:27 final size:27
Alignment explanation
Indices: 26866920--26866998 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 27
26866910 AGCAATGAAT
26866920 TTTGTACTTGGTGCATAAATTGATAGG
1 TTTGTACTTGGTGCATAAATTGATAGG
* * *
26866947 TTTG--GTTGGAG-AGT--ATTGA-A-T
1 TTTGTACTTGGTGCA-TAAATTGATAGG
*
26866968 TTTTTACTTGGTGCATAAATTGATAGG
1 TTTGTACTTGGTGCATAAATTGATAGG
26866995 TTTG
1 TTTG
26866999 GTTGGATAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 16
0.60 0.13 0.27
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 11 0.31
24 2 0.06
25 11 0.31
26 1 0.03
27 7 0.19
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (27 bp):
TTTGTACTTGGTGCATAAATTGATAGG
Found at i:26866970 original size:48 final size:48
Alignment explanation
Indices: 26866915--26867010 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
26866905 TTTTTAGCAA
26866915 TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
1 TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
* *
26866963 TGAATTTTTTACTTGGTGCATAAATTGATAGGTTTGGTTGGATAGTAT
1 TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
26867011 GAAATAGGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.44
Consensus pattern (48 bp):
TGAATTTTGTACTTGGTGCATAAATTGATAGGTTTGGTTGGAGAGTAT
Found at i:26867003 original size:25 final size:25
Alignment explanation
Indices: 26866927--26867003 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
26866917 AATTTTGTAC
26866927 TTGGTGCATAAATTGATAGGTTTGG
1 TTGGTGCATAAATTGATAGGTTTGG
* ** **
26866952 TTGGAG-AGT--ATTGA-ATTTTTTAC
1 TTGGTGCA-TAAATTGATA-GGTTTGG
26866975 TTGGTGCATAAATTGATAGGTTTGG
1 TTGGTGCATAAATTGATAGGTTTGG
26867000 TTGG
1 TTGG
26867004 ATAGTATGAA
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
22 1 0.03
23 14 0.39
24 2 0.06
25 18 0.50
26 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (25 bp):
TTGGTGCATAAATTGATAGGTTTGG
Found at i:26870102 original size:20 final size:21
Alignment explanation
Indices: 26870077--26870115 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26870067 GTATACCATG
26870077 CAATAC-TTTACATTTCAATC
1 CAATACTTTTACATTTCAATC
*
26870097 CAATACTTTTTCATTTCAA
1 CAATACTTTTACATTTCAA
26870116 ACTTACTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (21 bp):
CAATACTTTTACATTTCAATC
Found at i:26872428 original size:16 final size:17
Alignment explanation
Indices: 26872391--26872431 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
26872381 ATTAGCATAT
* *
26872391 AATTTAAACTTGTTTTA
1 AATTTAAAATTGTTTAA
26872408 AATTTAAAATT-TTTAA
1 AATTTAAAATTGTTTAA
26872424 AATTTAAA
1 AATTTAAA
26872432 TATAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTTAAAATTGTTTAA
Found at i:26873934 original size:43 final size:42
Alignment explanation
Indices: 26873837--26873946 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
26873827 GATTTGAGAT
* * *
26873837 TTACATGTAAGACCATATCTGGAACATTGGCATCATATATGA
1 TTACATGTAAGACCATATCTGGGACAGTGACATCATATATGA
* * * * * *
26873879 TTTCGTGTAAGACCCTGTCTGGGATAGTGACATCGATATTTGA
1 TTACATGTAAGACCATATCTGGGACAGTGACATC-ATATATGA
*
26873922 TTACATGTAAGACCTTATCTGGGAC
1 TTACATGTAAGACCATATCTGGGAC
26873947 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 26 0.49
43 27 0.51
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGGACAGTGACATCATATATGA
Found at i:26878091 original size:40 final size:40
Alignment explanation
Indices: 26878036--26878244 Score: 319
Period size: 40 Copynumber: 5.2 Consensus size: 40
26878026 TCACAAGCAC
* *
26878036 ATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATAT
1 ATTAATAGAAAACTGTATAATTTACCCGGATGAAGTATGT
* *
26878076 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATGAAGTATGT
* * *
26878116 ATTAACAGAAAACTATATAATTTATCCGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATGAAGTATGT
* *
26878156 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATGAAGTATGT
* *
26878196 ATTAACAGAAAATTGTATAATTTACCCGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATGAAGTATGT
26878236 ATTAATAGA
1 ATTAATAGA
26878245 TATACTTAAG
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 150 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (40 bp):
ATTAATAGAAAACTGTATAATTTACCCGGATGAAGTATGT
Found at i:26878169 original size:80 final size:80
Alignment explanation
Indices: 26878036--26878244 Score: 373
Period size: 80 Copynumber: 2.6 Consensus size: 80
26878026 TCACAAGCAC
* *
26878036 ATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATATATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAC
26878101 CCGGGTAAAGTATGT
66 CCGGGTAAAGTATGT
*
26878116 ATTAACAGAAAACTATATAATTTATCCGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAC
26878181 CCGGGTAAAGTATGT
66 CCGGGTAAAGTATGT
* *
26878196 ATTAACAGAAAATTGTATAATTTACCCGGATGAAGTATGTATTAATAGA
1 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATAGA
26878245 TATACTTAAG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 123 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (80 bp):
ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAC
CCGGGTAAAGTATGT
Found at i:26878271 original size:18 final size:18
Alignment explanation
Indices: 26878248--26878282 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26878238 TAATAGATAT
*
26878248 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
26878266 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
26878283 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:26878809 original size:17 final size:17
Alignment explanation
Indices: 26878787--26878819 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26878777 ATAATGAATG
26878787 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
26878804 TTATTAAATTATATTT
1 TTATTAAATTATATTT
26878820 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:26879046 original size:16 final size:16
Alignment explanation
Indices: 26879022--26879093 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
26879012 TGAATTACTT
26879022 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
26879038 ATTATAGTTCTATTCC
1 ATTACAGTTCTATTCC
* *
26879054 ATTACAGCTCTATTCA
1 ATTACAGTTCTATTCC
** *
26879070 ATTACAGCCCTATTCT
1 ATTACAGTTCTATTCC
26879086 ATTACAGT
1 ATTACAGT
26879094 GAACCAAACG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:26885893 original size:18 final size:18
Alignment explanation
Indices: 26885870--26885907 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
26885860 AAAAACAAAG
26885870 TAAATTCTTCTAACTTGA
1 TAAATTCTTCTAACTTGA
26885888 TAAATTCTTCTAACTTGA
1 TAAATTCTTCTAACTTGA
26885906 TA
1 TA
26885908 TGAACTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
TAAATTCTTCTAACTTGA
Found at i:26891258 original size:13 final size:12
Alignment explanation
Indices: 26891240--26891281 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
26891230 TTCATATCTG
26891240 ATTATTATTTTTC
1 ATTA-TATTTTTC
26891253 ATTAT-TTTTTC
1 ATTATATTTTTC
*
26891264 ATTATATGTTATC
1 ATTATAT-TTTTC
26891277 ATTAT
1 ATTAT
26891282 TTTGATTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 11 0.42
12 2 0.08
13 13 0.50
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (12 bp):
ATTATATTTTTC
Found at i:26891263 original size:11 final size:11
Alignment explanation
Indices: 26891243--26891284 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
26891233 ATATCTGATT
26891243 ATTA-TTTTTC
1 ATTATTTTTTC
26891253 ATTATTTTTTC
1 ATTATTTTTTC
*
26891264 ATTATATGTTATC
1 ATTAT-T-TTTTC
26891277 ATTATTTT
1 ATTATTTT
26891285 GATTAACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 4 0.14
11 13 0.46
12 2 0.07
13 9 0.32
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTATTTTTTC
Found at i:26894808 original size:35 final size:35
Alignment explanation
Indices: 26894768--26894976 Score: 193
Period size: 35 Copynumber: 5.9 Consensus size: 35
26894758 AGGTAAGTAT
*
26894768 ATGTGAGGTTATATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* **
26894803 ATGTGAGGTTATATTGAACTTGTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * *
26894838 ATGTGAGTTTATATTGAACTTGTATATCCGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * * *
26894873 ATGTGAGATTATATTGTATTTGTATATTTGGCCAT
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * * * *
26894908 ATGAGATGTTTTATTGAACTTGAACATTAGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * *
26894943 ATGTGATGATATATTGAACATATATATATTCGGC
1 ATGTGAGGTTATATTGAAC-T-TGTATATTCGGC
26894977 CATATGAAAT
Statistics
Matches: 136, Mismatches: 36, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
35 128 0.94
36 1 0.01
37 7 0.05
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:26894956 original size:105 final size:104
Alignment explanation
Indices: 26894768--26894961 Score: 230
Period size: 105 Copynumber: 1.8 Consensus size: 104
26894758 AGGTAAGTAT
* * *** *
26894768 ATGTGAGGTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATATTGAACTTGTGTATTCG
1 ATGTGAGATTATATTGAACTTGTATATTCGGC-GCATATGAGGTTATATTGAACTTGAACATTAG
*
26894833 ATTACATGTGAGTTTATATTGAACTTGTATATCCGGTTAC
65 ATTACATGTGAGTATATATTGAACTTGTATATCCGGTTAC
* * * *
26894873 ATGTGAGATTATATTGTATTTGTATATTTGGC-CATATGAGATGTTTTATTGAACTTGAACATTA
1 ATGTGAGATTATATTGAACTTGTATATTCGGCGCATATGAG--GTTATATTGAACTTGAACATTA
*
26894937 GGTTACATGTGA-TGATATATTGAAC
64 GATTACATGTGAGT-ATATATTGAAC
26894962 ATATATATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
103 7 0.09
104 1 0.01
105 66 0.89
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (104 bp):
ATGTGAGATTATATTGAACTTGTATATTCGGCGCATATGAGGTTATATTGAACTTGAACATTAGA
TTACATGTGAGTATATATTGAACTTGTATATCCGGTTAC
Found at i:26896379 original size:68 final size:67
Alignment explanation
Indices: 26896263--26896565 Score: 243
Period size: 68 Copynumber: 4.5 Consensus size: 67
26896253 GGGTATTACA
* * * * * * *
26896263 TCATATGCTGTCATAGCCCAATTATGGTCTTACACAATATAATCCCATGTTTACTATCATGGCAG
1 TCATATGCTGCCATAGCCCAACTATGATCTTACGCAATAT-ATTCCATGTTTACTGTCCTGGCAG
26896328 ACT
65 ACT
* * *
26896331 TCATATGCTGCCATAGCCCAACCATGATCTTACGCAATATAGTTCCATGTTTATTGGCCTGGCAG
1 TCATATGCTGCCATAGCCCAACTATGATCTTACGCAATATA-TTCCATGTTTACTGTCCTGGCAG
26896396 ACT
65 ACT
* ** * * * *
26896399 TCTTATAATGCCATAACCCAACTAT-AGTCTTATGCAATATAATCTCATGTTTACTGTCCTGGTA
1 TCATATGCTGCCATAGCCCAACTATGA-TCTTACGCAATATATTC-CATGTTTACTGTCCTGGCA
26896463 GACT
64 GACT
** * * * * * * ** * *
26896467 TCATATGCTG-CATAATCTAGCTATGGTCTTACGCAATGTAATCTGATGTTTACTGTTTTGACAA
1 TCATATGCTGCCATAGCCCAACTATGATCTTACGCAATATATTC-CATGTTTACTGTCCTGGCAG
26896531 ACT
65 ACT
* * * *
26896534 TTATATGCTACCATAACCCAGCTA-GATCTTAC
1 TCATATGCTGCCATAGCCCAACTATGATCTTAC
26896566 ACATTAAACC
Statistics
Matches: 190, Mismatches: 40, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
67 63 0.33
68 127 0.67
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (67 bp):
TCATATGCTGCCATAGCCCAACTATGATCTTACGCAATATATTCCATGTTTACTGTCCTGGCAGA
CT
Found at i:26899956 original size:13 final size:15
Alignment explanation
Indices: 26899925--26899957 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
26899915 AAGATCATCA
26899925 CATACTGAGTTTATT
1 CATACTGAGTTTATT
26899940 CATA-TGAGTTT-TT
1 CATACTGAGTTTATT
26899953 CATAC
1 CATAC
26899958 ATACCTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 7 0.41
15 4 0.24
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (15 bp):
CATACTGAGTTTATT
Found at i:26903524 original size:48 final size:48
Alignment explanation
Indices: 26903410--26903524 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
26903400 TATCGGCAAT
* * **
26903410 TATGTGGTGGTTTATCCACGATGTGCTATATGACCGTTCATTGGTATC
1 TATGTGGTGGCTTATCCACGATGTGCTATATGACCATTCATCAGTATC
* *
26903458 TATGTGCTGGCTCATCCACGATGTGCTATATGACCATTCATCAGTATC
1 TATGTGGTGGCTTATCCACGATGTGCTATATGACCATTCATCAGTATC
*
26903506 TATGTGGTGGCTTGTCCAC
1 TATGTGGTGGCTTATCCAC
26903525 AAACTGGTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (48 bp):
TATGTGGTGGCTTATCCACGATGTGCTATATGACCATTCATCAGTATC
Found at i:26907857 original size:16 final size:16
Alignment explanation
Indices: 26907838--26907888 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 16
26907828 TTAAACTTTT
*
26907838 TTTTGTAATTATATAA
1 TTTTATAATTATATAA
*
26907854 TTTTTTAATT-TATAA
1 TTTTATAATTATATAA
* *
26907869 ATTTATATTTATAT-A
1 TTTTATAATTATATAA
26907884 TTTTA
1 TTTTA
26907889 CTTATTTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTATAATTATATAA
Found at i:26907857 original size:17 final size:15
Alignment explanation
Indices: 26907815--26907887 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 15
26907805 TTTTAAAAGA
26907815 ATAATTTTTTAATTT
1 ATAATTTTTTAATTT
26907830 A-AACTTTTTTTTGTAATTAT
1 ATAA----TTTTT-TAATT-T
26907850 ATAATTTTTTAATTT
1 ATAATTTTTTAATTT
* *
26907865 ATAAATTTAT-ATTT
1 ATAATTTTTTAATTT
26907879 ATATATTTT
1 ATA-ATTTT
26907888 ACTTATTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
14 9 0.19
15 14 0.30
16 5 0.11
17 5 0.11
18 5 0.11
19 5 0.11
20 2 0.04
21 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (15 bp):
ATAATTTTTTAATTT
Found at i:26917185 original size:45 final size:44
Alignment explanation
Indices: 26917134--26917346 Score: 130
Period size: 45 Copynumber: 4.7 Consensus size: 44
26917124 TCTCATCCAC
*
26917134 GGTCTTATTAATCTTTGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTA-TCATCTTTGACATGATGCCATAGTGTCTTTCAACTAT
* * * * * * *
26917179 GGTCTTACTCATTTTCTGTCATGCTTCCATGGTATCTTTCAACCAT
1 GGTCTTA-TCATCTT-TGACATGATGCCATAGTGTCTTTCAACTAT
* * *
26917225 GGTCTTA-CA-CATTTGAATCTTGATGCCATAGCGTCTTTCAGCTAT
1 GGTCTTATCATC-TTTG-A-CATGATGCCATAGTGTCTTTCAACTAT
* * * *
26917270 GGTCTTA-C-TCGTCTGAATCGTGATGCCATAGCGTCTTTCAGCTAT
1 GGTCTTATCATC-TTTG-A-CATGATGCCATAGTGTCTTTCAACTAT
* **
26917315 GATCTTACTCAT-TTCTGGTATGATGCCATAGT
1 GGTCTTA-TCATCTT-TGACATGATGCCATAGT
26917347 CCAACTATGG
Statistics
Matches: 131, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.02
44 4 0.03
45 89 0.68
46 32 0.24
47 3 0.02
48 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (44 bp):
GGTCTTATCATCTTTGACATGATGCCATAGTGTCTTTCAACTAT
Found at i:26917390 original size:33 final size:33
Alignment explanation
Indices: 26917338--26917493 Score: 102
Period size: 33 Copynumber: 4.7 Consensus size: 33
26917328 TCTGGTATGA
* * *
26917338 TGCCATAGTCCAACTATGGTCTTACACATGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
* **
26917371 TGCCATGGCCCAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAGCCATGGTCTTACACAT-GTAT
* * *** *
26917404 TGTCATATCCCAAATATGGTCTTATCATCA-GGA-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-CATGTAT
* * * *
26917437 TGCCATAGCCTAGCTATCGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
* *
26917470 TGTCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
26917494 TCCGTCAATT
Statistics
Matches: 90, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
31 2 0.02
32 4 0.04
33 80 0.89
34 3 0.03
35 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACATGTAT
Found at i:26922447 original size:76 final size:76
Alignment explanation
Indices: 26922320--26922471 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
26922310 AAGCGATTTC
*
26922320 AGGACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATCGTCTAAAATATGTGATTA
1 AGGACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATCGTCTAAAATATATGATTA
26922385 TGAATGTGTGA
66 TGAATGTGTGA
*
26922396 AGGACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAAATATATGATTA
1 AGGACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATCGTCTAAAATATATGATTA
26922461 TGAATGTGTGA
66 TGAATGTGTGA
26922472 TAGTTTTAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (76 bp):
AGGACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATCGTCTAAAATATATGATTA
TGAATGTGTGA
Found at i:26922970 original size:74 final size:74
Alignment explanation
Indices: 26922862--26923004 Score: 277
Period size: 74 Copynumber: 1.9 Consensus size: 74
26922852 GTGATGAAAA
26922862 CAAGTTATGTTCTTTGATTATTCTTGGCCGAATTGAAAGGAGGAAGAAAGGAGTGAAGCAATCGG
1 CAAGTTATGTTCTTTGATTATTCTTGGCCGAATTGAAAGGAGGAAGAAAGGAGTGAAGCAATCGG
26922927 TCATCTTAG
66 TCATCTTAG
*
26922936 CAAGTTGTGTTCTTTGATTATTCTTGGCCGAATTGAAAGGAGGAAGAAAGGAGTGAAGCAATCGG
1 CAAGTTATGTTCTTTGATTATTCTTGGCCGAATTGAAAGGAGGAAGAAAGGAGTGAAGCAATCGG
26923001 TCAT
66 TCAT
26923005 TTTATGTCAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (74 bp):
CAAGTTATGTTCTTTGATTATTCTTGGCCGAATTGAAAGGAGGAAGAAAGGAGTGAAGCAATCGG
TCATCTTAG
Found at i:26924955 original size:79 final size:79
Alignment explanation
Indices: 26924824--26924981 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
26924814 ATCTAAGTCG
*
26924824 CAATGTAGGAAGGTCAGTGTAGTCAAACCCTGTAACAGGGGAGACTTTAACTAATAAACTGTACT
1 CAATGCAGGAAGGTCAGTGTAGTCAAACCCTGTAACAGGGGAGACTTTAACTAATAAACTGTACT
26924889 AATTGGCTCGACCA
66 AATTGGCTCGACCA
*
26924903 CAATGCAGGAAGGTCAGTGTAGTCGAACCCTGTAACAGGGGAGACTTTAACTAATAAACTGTACT
1 CAATGCAGGAAGGTCAGTGTAGTCAAACCCTGTAACAGGGGAGACTTTAACTAATAAACTGTACT
*
26924968 AATTGGCTTGACCA
66 AATTGGCTCGACCA
26924982 AAAATTCTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (79 bp):
CAATGCAGGAAGGTCAGTGTAGTCAAACCCTGTAACAGGGGAGACTTTAACTAATAAACTGTACT
AATTGGCTCGACCA
Found at i:26932450 original size:56 final size:56
Alignment explanation
Indices: 26932362--26932497 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
26932352 TCCCAGGCAG
**
26932362 GGTCTTACTCGTACACATATATCGGAGACACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCACACACATATATCGGAGACACATATCGATGCCAACGTATAAAACAT
* * *
26932418 GGTCTTACTTACACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCACACACATATATCGGAGACACATATCGATGCCAACGTATAAAACAT
* *
26932474 GGTCTTACTCGCACATATATATCG
1 GGTCTTACTCACACACATATATCG
26932498 ATGCCATGGT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGGAGACACATATCGATGCCAACGTATAAAACAT
Found at i:26936250 original size:49 final size:49
Alignment explanation
Indices: 26936183--26936420 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
26936173 TAGCCAAAGC
* * * * * *
26936183 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACATATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
26936232 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
26936281 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
26936331 CATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* ** *
26936382 TTTAGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
26936421 TGCGACCTCA
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 88 0.53
50 42 0.25
51 36 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:26936428 original size:101 final size:99
Alignment explanation
Indices: 26936188--26936428 Score: 331
Period size: 101 Copynumber: 2.4 Consensus size: 99
26936178 AAAGCTATCT
* * ** * *
26936188 GGTACGCATAGTAGCCTGCACATAGTACTACATATGCGACC-AATTATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATAGTAGC
*
26936252 CTGCACTTAGTACTACACACGTGACCAATTATCC
66 CTGCACTTAGTACTACACACGTGACCAATTATAC
* * * * *
26936286 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATAGTAGC
* *
26936351 CTGCACTTAGTACTACACACGTGATCACAATTTTAG
66 CTGCACTTAGTACTACACACGTGA-C-CAATTATAC
26936387 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
26936429 CACAATAGAT
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 35 0.29
99 42 0.34
100 1 0.01
101 44 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATAGTAGC
CTGCACTTAGTACTACACACGTGACCAATTATAC
Found at i:26938465 original size:21 final size:21
Alignment explanation
Indices: 26938441--26938505 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
26938431 AAGTCTAGCT
*
26938441 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
26938462 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
26938480 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
26938501 GAAGC
1 GAAGC
26938506 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:26938482 original size:39 final size:39
Alignment explanation
Indices: 26938423--26938523 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
26938413 ATCGTGATCT
* * *
26938423 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
26938462 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
26938501 GAAGCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
26938524 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:26940740 original size:26 final size:27
Alignment explanation
Indices: 26940711--26940761 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26940701 TGACCTAAAA
*
26940711 TAGTGACTA-CAGCTCGCCAAGCCCAT
1 TAGTGAATACCAGCTCGCCAAGCCCAT
* *
26940737 TAGTGAATACCAGCTTGCCTAGCCC
1 TAGTGAATACCAGCTCGCCAAGCCC
26940762 TTTGACGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGTGAATACCAGCTCGCCAAGCCCAT
Found at i:26972566 original size:19 final size:19
Alignment explanation
Indices: 26972523--26972571 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
26972513 AAATACATTT
* *
26972523 AAAAACATAAAAACAAATAT
1 AAAAACA-AGAAACAAATAA
*
26972543 TAAAACAAGAAACAAATAA
1 AAAAACAAGAAACAAATAA
*
26972562 AAAAATAAGA
1 AAAAACAAGA
26972572 CTAAAACAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (19 bp):
AAAAACAAGAAACAAATAA
Found at i:26972890 original size:25 final size:25
Alignment explanation
Indices: 26972862--26972909 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
26972852 CAGCTCTTAT
26972862 GAACATCCCGA-TATATGGCTCTTCG
1 GAACATCCCGATTA-ATGGCTCTTCG
* *
26972887 GAACTTCTCGATTAATGGCTCTT
1 GAACATCCCGATTAATGGCTCTT
26972910 TCATGAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (25 bp):
GAACATCCCGATTAATGGCTCTTCG
Found at i:26973066 original size:25 final size:23
Alignment explanation
Indices: 26973011--26973072 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
26973001 TATTAGCTCA
*
26973011 TATGAGCTTCCCGTTAATGGCTT
1 TATGAGCTTCCCCTTAATGGCTT
* *
26973034 TCTGGAGCTTCCCCTTTATGTGCTT
1 TAT-GAGCTTCCCCTTAATG-GCTT
26973059 GTATGAGCATTCCC
1 -TATGAGC-TTCCC
26973073 GAATATGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.45
25 8 0.26
26 7 0.23
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (23 bp):
TATGAGCTTCCCCTTAATGGCTT
Found at i:26980037 original size:35 final size:35
Alignment explanation
Indices: 26979979--26980049 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
26979969 TCTAGGATCA
*
26979979 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* ** *
26980014 CATATCTTTGAAGATTATTTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
26980049 C
1 C
26980050 TCCGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:26981830 original size:43 final size:41
Alignment explanation
Indices: 26981704--26981817 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 41
26981694 TAAAAACAGA
* * *
26981704 ATTTAGCCTGGACTGGTAATTCTGATCTTATGTTGAAATCAGG
1 ATTTAGCCTGGACTGGTAATCCTGATC-TATGTTGATAT-GGG
* * * *
26981747 ATTTAACTTGGACTGGTAATCTTGATTATATGTTGGATATGGG
1 ATTTAGCCTGGACTGGTAATCCTGA-TCTATGTT-GATATGGG
26981790 ATTTAGCCTGGACTGGTAATCCTGATCT
1 ATTTAGCCTGGACTGGTAATCCTGATCT
26981818 CACTGATTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 2 0.03
43 51 0.88
44 5 0.09
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (41 bp):
ATTTAGCCTGGACTGGTAATCCTGATCTATGTTGATATGGG
Found at i:26990076 original size:118 final size:118
Alignment explanation
Indices: 26989631--26990060 Score: 835
Period size: 118 Copynumber: 3.6 Consensus size: 118
26989621 TTTTACCCAA
*
26989631 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
26989696 TCAGTCACGATTTGAGCCATACTCATACACTCGGCTAGCAGAGTTTTACTTGT
66 TCAGTCACGATTTGAGCCATACTCATACACTCGGCTAGCAGAGTTTTACTTGT
26989749 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
26989814 TCAGTCACGATTTGAGCCATACTCATA-ACCTCGGCTAGCAGAGTTTTACTTGT
66 TCAGTCACGATTTGAGCCATACTCATACA-CTCGGCTAGCAGAGTTTTACTTGT
26989867 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
26989932 TCAGTCACGATTTGAGCCATACTCATACACTCGGCTAGCAGAGTTTTACTTGT
66 TCAGTCACGATTTGAGCCATACTCATACACTCGGCTAGCAGAGTTTTACTTGT
26989985 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
26990050 TCAGTCACGAT
66 TCAGTCACGAT
26990061 CTAAGCTGTA
Statistics
Matches: 309, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
117 1 0.00
118 307 0.99
119 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
CACGTCACACAACCTTTTAACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATTTGAGCCATACTCATACACTCGGCTAGCAGAGTTTTACTTGT
Found at i:26991027 original size:27 final size:26
Alignment explanation
Indices: 26990993--26991070 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 26
26990983 TATTTAACTA
26990993 AAATAAAATAAAATAATAAATAATAA-
1 AAATAAAATAAAATAA-AAATAATAAT
* * *
26991019 ATAATAAAAGAAAAGAAAGAAAAATAAT
1 A-AATAAAATAAAATAAA-AATAATAAT
26991047 AAATAAAAATCAAAATAAAAATAA
1 AAAT-AAAAT-AAAATAAAAATAA
26991071 AGATTGGGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 2 0.05
27 23 0.56
28 9 0.22
29 7 0.17
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (26 bp):
AAATAAAATAAAATAAAAATAATAAT
Found at i:26991061 original size:6 final size:6
Alignment explanation
Indices: 26990992--26991071 Score: 63
Period size: 7 Copynumber: 12.3 Consensus size: 6
26990982 ATATTTAACT
* *
26990992 AAAAT- AAAATAA AATAATA AATAATA AATAATA AAAGAAA AGAAAGA
1 AAAATA AAAAT-A AA-AATA AA-AATA AA-AATA AAA-ATA A-AAATA
*
26991039 AAAATA ATAAATA AAAATC AAAATA AAAATA AA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA AA
26991072 GATTGGGTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
5 5 0.08
6 23 0.36
7 31 0.48
8 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:27012667 original size:23 final size:23
Alignment explanation
Indices: 27012617--27012668 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
27012607 GTTAGGTGTC
* *
27012617 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
27012640 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
27012663 AGTATG
1 AGTATG
27012669 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:27017437 original size:20 final size:20
Alignment explanation
Indices: 27017414--27017481 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
27017404 AATCAAACAA
27017414 ATTGAAAGTAAAGGTATCAT
1 ATTGAAAGTAAAGGTATCAT
* *
27017434 ATTGTCAAATCTGTTAAA-ATA-CAA
1 ATTG--AAA---G-TAAAGGTATCAT
27017458 ATTGAAAGTAAAGGTATCAT
1 ATTGAAAGTAAAGGTATCAT
27017478 ATTG
1 ATTG
27017482 TCAAATCTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 10 0.28
22 6 0.17
24 6 0.17
25 3 0.08
26 4 0.11
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTGAAAGTAAAGGTATCAT
Found at i:27017473 original size:44 final size:44
Alignment explanation
Indices: 27017410--27017501 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
27017400 GCTAAATCAA
27017410 ACAAATTGAAAGTAAAGGTATCATATTGTCAAATCTGTTAAAAT
1 ACAAATTGAAAGTAAAGGTATCATATTGTCAAATCTGTTAAAAT
27017454 ACAAATTGAAAGTAAAGGTATCATATTGTCAAATCTGTTAAAAT
1 ACAAATTGAAAGTAAAGGTATCATATTGTCAAATCTGTTAAAAT
27017498 ACAA
1 ACAA
27017502 GGATAAATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (44 bp):
ACAAATTGAAAGTAAAGGTATCATATTGTCAAATCTGTTAAAAT
Found at i:27018961 original size:38 final size:38
Alignment explanation
Indices: 27018910--27018988 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
27018900 ATGGGAAGTT
*
27018910 AGAATATCAAGTTGGATTCAAGAAATGCAAGCTGAAGA
1 AGAATATCAAGTTGGATTCAAGAAATGAAAGCTGAAGA
*
27018948 AGAATATCAAGTTGGATTCAAGGAATGAAAGCTGAAGA
1 AGAATATCAAGTTGGATTCAAGAAATGAAAGCTGAAGA
27018986 AGA
1 AGA
27018989 GAGAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.20
Consensus pattern (38 bp):
AGAATATCAAGTTGGATTCAAGAAATGAAAGCTGAAGA
Found at i:27019301 original size:33 final size:33
Alignment explanation
Indices: 27019259--27019326 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
27019249 GTAGTCTAAC
27019259 TTTGAAAAATCACCAAAAATTATAGAAATCAAA
1 TTTGAAAAATCACCAAAAATTATAGAAATCAAA
* *
27019292 TTTGAAAAATCACCAAAAATTGTAGAAATCGAA
1 TTTGAAAAATCACCAAAAATTATAGAAATCAAA
27019325 TT
1 TT
27019327 ATAGGGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (33 bp):
TTTGAAAAATCACCAAAAATTATAGAAATCAAA
Found at i:27019320 original size:19 final size:19
Alignment explanation
Indices: 27019265--27019321 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
27019255 TAACTTTGAA
*
27019265 AAATCACCAAAAATTATAG
1 AAATCACCAAAAATTGTAG
* *
27019284 AAAT---C-AAATTTG-AA
1 AAATCACCAAAAATTGTAG
27019298 AAATCACCAAAAATTGTAG
1 AAATCACCAAAAATTGTAG
27019317 AAATC
1 AAATC
27019322 GAATTATAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 10
0.65 0.12 0.23
Matches are distributed among these distances:
14 5 0.18
15 5 0.18
16 1 0.04
17 1 0.04
18 6 0.21
19 10 0.36
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATCACCAAAAATTGTAG
Found at i:27020673 original size:40 final size:40
Alignment explanation
Indices: 27020588--27020710 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 40
27020578 CTCGAGAATA
* ** *
27020588 TAAAGTGGATAGGATTTGTTCCGGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
27020628 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
27020668 TAAAGTGAATGGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
27020708 TAA
1 TAA
27020711 GGCAGATAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:27020780 original size:78 final size:78
Alignment explanation
Indices: 27020690--27020841 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 78
27020680 GATTTATTCC
* * *
27020690 TGATTCACTATGGTAACTTAAGGCAGATAAGATTTGACCTGAAAAGGTAATCCTGATTCGCTATA
1 TGATTCACTATGGTAACCTAAGGCAGATAAGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
27020755 GTTACATGATATA
66 GTTACATGATATA
* ** *
27020768 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCAGATAAGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
27020833 GTTACATGA
66 GTTACATGA
27020842 GATGTGACTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCAGATAAGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:27028782 original size:18 final size:18
Alignment explanation
Indices: 27028759--27028794 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27028749 CTTGTACTTT
27028759 TTTATTTTTGAAATTTTA
1 TTTATTTTTGAAATTTTA
27028777 TTTATTTTTGAAATTTTA
1 TTTATTTTTGAAATTTTA
27028795 GTTTTGACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTATTTTTGAAATTTTA
Found at i:27033256 original size:19 final size:19
Alignment explanation
Indices: 27033231--27033321 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
27033221 ATAATCTTCA
27033231 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
27033250 GTGATATGCAATCTTAGGT
1 ATGATATGCAATCTTAGAT
27033269 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
27033286 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
27033304 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
27033322 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:27033301 original size:35 final size:37
Alignment explanation
Indices: 27033239--27033328 Score: 125
Period size: 35 Copynumber: 2.5 Consensus size: 37
27033229 CAATGATATG
* *
27033239 CAATCTTAGATGTGATATGCAATCTTAGGTATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
27033275 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
27033312 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
27033329 ATTTTGTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
35 18 0.37
36 18 0.37
37 13 0.27
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:27037685 original size:29 final size:28
Alignment explanation
Indices: 27037653--27037713 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
27037643 GTGTTTAGGA
27037653 TTTAAGGTTATGT-GTTTGAGGGTTTGGTG
1 TTTAAGGTTAT-TAGTTTGAGGGTTT-GTG
* *
27037682 TTTATGGTTATTAGTTTTAGGGTTTGTG
1 TTTAAGGTTATTAGTTTGAGGGTTTGTG
27037710 TTTA
1 TTTA
27037714 GCGTTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (28 bp):
TTTAAGGTTATTAGTTTGAGGGTTTGTG
Found at i:27037749 original size:20 final size:20
Alignment explanation
Indices: 27037724--27037773 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27037714 GCGTTTAAGG
* *
27037724 GTTTAGTGTTATGTGTTCGA
1 GTTTAGGGTTATGTATTCGA
*
27037744 GTTTAGGGTTATGTATTTGA
1 GTTTAGGGTTATGTATTCGA
*
27037764 GTTTAAGGTT
1 GTTTAGGGTT
27037774 TAGTGTAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (20 bp):
GTTTAGGGTTATGTATTCGA
Done.