Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 173 of 345
Found at i:48679077 original size:19 final size:19
Alignment explanation
Indices: 48679026--48679077 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
48679016 AAAATTACAA
* *
48679026 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTC
* *
48679045 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
48679065 AAAATTCAAAATA
1 AAAATTCAAAATA
48679078 TTTATAGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:48679118 original size:9 final size:8
Alignment explanation
Indices: 48679107--48679153 Score: 53
Period size: 7 Copynumber: 5.9 Consensus size: 8
48679097 TTATATTTTA
48679107 AAAAAATT
1 AAAAAATT
*
48679115 AAAAATTTT
1 AAAAA-ATT
48679124 AAAAAA-T
1 AAAAAATT
48679131 AAAAAATAT
1 AAAAAAT-T
48679140 AAAAAA-T
1 AAAAAATT
48679147 AAAAAAT
1 AAAAAAT
48679154 AATAATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 14 0.42
8 5 0.15
9 14 0.42
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:48679158 original size:17 final size:16
Alignment explanation
Indices: 48679107--48679154 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
48679097 TTATATTTTA
* *
48679107 AAAAAATTAAAAATTTT
1 AAAAAA-TAAAAAATAT
48679124 AAAAAATAAAAAATAT
1 AAAAAATAAAAAATAT
48679140 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
48679155 ATAATTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 23 0.79
17 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATAAAAAATAT
Found at i:48679478 original size:21 final size:21
Alignment explanation
Indices: 48679454--48679493 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48679444 ACATTTTTTA
*
48679454 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
*
48679475 AAGTTAAAAGGCCAAACTA
1 AAGTTAAAAGGCAAAACTA
48679494 CGTTATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:48681354 original size:2 final size:2
Alignment explanation
Indices: 48681342--48681382 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
48681332 AAAAACGTTG
*
48681342 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48681383 AATTCGTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:48689757 original size:28 final size:29
Alignment explanation
Indices: 48689659--48689757 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
48689649 TCATAAATTG
* *
48689659 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
48689688 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
48689716 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
48689744 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48689758 GGCTTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:48691568 original size:78 final size:78
Alignment explanation
Indices: 48691471--48691617 Score: 249
Period size: 78 Copynumber: 1.9 Consensus size: 78
48691461 GGCCCCATGA
* *
48691471 GCATATGGGCCCACACGGGTAAACCACATAGACGTGTAGATAAGATTGGGCTAGGCTGTGTAGTT
1 GCATATGGGCCCACACGGGTAAACCACATAGACGTGTAGAGAAGATTGGGCCAGGCTGTGTAGTT
48691536 CACACGACCACGG
66 CACACGACCACGG
* * *
48691549 GCATGTGGGCCTACACGGGTAAACCACATAGACGTGTGGAGAAGATTGGGCCAGGCTGTGTAGTT
1 GCATATGGGCCCACACGGGTAAACCACATAGACGTGTAGAGAAGATTGGGCCAGGCTGTGTAGTT
48691614 CACA
66 CACA
48691618 TGGCCAAGGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (78 bp):
GCATATGGGCCCACACGGGTAAACCACATAGACGTGTAGAGAAGATTGGGCCAGGCTGTGTAGTT
CACACGACCACGG
Found at i:48693084 original size:44 final size:43
Alignment explanation
Indices: 48693010--48693113 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
48693000 ATGACTGAAT
* * * * *
48693010 AAATGGTACTAAATGTGCGATACCAATATAAGTTCGGTTTAGTG
1 AAATGGCACTAAGTGTGCGATACCAATATAACTTCGG-CTAATG
** * *
48693054 AAATGGCACTAAGTGTGCGATATTATTATAACTTCGGCTAATT
1 AAATGGCACTAAGTGTGCGATACCAATATAACTTCGGCTAATG
*
48693097 AATTGGCACTAAGTGTG
1 AAATGGCACTAAGTGTG
48693114 TGAGTTCATA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 19 0.38
44 31 0.62
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (43 bp):
AAATGGCACTAAGTGTGCGATACCAATATAACTTCGGCTAATG
Found at i:48695362 original size:37 final size:37
Alignment explanation
Indices: 48695311--48695401 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
48695301 TTATTATGAA
*
48695311 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
48695348 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
48695385 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
48695402 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:48695499 original size:48 final size:48
Alignment explanation
Indices: 48695441--48695640 Score: 364
Period size: 48 Copynumber: 4.2 Consensus size: 48
48695431 TGTTACAACA
*
48695441 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
48695489 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
48695537 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
48695585 TTCACATTAGCCATTCAGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
48695633 TTCACATT
1 TTCACATT
48695641 CATCACATCG
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:48695688 original size:49 final size:49
Alignment explanation
Indices: 48695633--48695881 Score: 304
Period size: 49 Copynumber: 4.9 Consensus size: 49
48695623 ACACATATGT
*
48695633 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACC
1 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
** * * *
48695682 TTCACATTCATCACATCAGCCATTAGGCCTTATCAC--GTATATACTCT
1 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
48695729 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCAC
1 TTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATAT--A---T-ACA--C-C
*
48695789 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACT
1 -TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
*
48695839 TTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
48695882 CATCTCATAC
Statistics
Matches: 175, Mismatches: 11, Indels: 28
0.82 0.05 0.13
Matches are distributed among these distances:
47 42 0.24
49 77 0.44
51 4 0.02
53 4 0.02
54 1 0.01
56 1 0.01
57 3 0.02
59 6 0.03
61 37 0.21
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
Found at i:48695734 original size:157 final size:153
Alignment explanation
Indices: 48695586--48695882 Score: 402
Period size: 157 Copynumber: 1.9 Consensus size: 153
48695576 CACATATATT
* *
48695586 TCACATTAGCCATTCA-GCTTTACCACATATACATATCA-CACA-TATGTTTCACATTCATCACA
1 TCACATTAGCCATT-AGGCCTTACCACATATACATA-CATCACATTA-CTTTCACATTCATCACA
*
48695648 TCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCAGCCATTAGGCCTT
63 TCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCAGCCATTAGGCCGT
*
48695713 ATCACGTATATACTCTTTCACATTCA
128 ATCACATATATACTCTTTCACATTCA
* * * *
48695739 TCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCACTTTCACATTCATCAC
1 TCACATTAGCCATTAGGCCTTACCACATATACATACA---TCACATT-ACTTTCACATTCATCAC
* * **
48695804 ATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCG
62 ATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCAGCCATTAGGCCG
48695869 TATCACATATATAC
127 TATCACATATATAC
48695883 ATCTCATACA
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
152 3 0.02
153 28 0.22
156 4 0.03
157 89 0.71
158 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (153 bp):
TCACATTAGCCATTAGGCCTTACCACATATACATACATCACATTACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCAGCCATTAGGCCGTATC
ACATATATACTCTTTCACATTCA
Found at i:48695791 original size:12 final size:12
Alignment explanation
Indices: 48695774--48695799 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48695764 CATGTATATA
48695774 CACTTTCACATT
1 CACTTTCACATT
48695786 CACTTTCACATT
1 CACTTTCACATT
48695798 CA
1 CA
48695800 TCACATTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (12 bp):
CACTTTCACATT
Found at i:48695800 original size:61 final size:61
Alignment explanation
Indices: 48695727--48695848 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
48695717 CGTATATACT
*
48695727 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCA
1 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
48695788 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
48695849 TCACATTGGC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (61 bp):
CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
Found at i:48695826 original size:31 final size:31
Alignment explanation
Indices: 48695730--48695827 Score: 91
Period size: 31 Copynumber: 3.2 Consensus size: 31
48695720 ATATACTCTT
48695730 TCACATTCATCACATTGGCCATTAGGCCTTA
1 TCACATTCATCACATTGGCCATTAGGCCTTA
* *
48695761 TCACATGT-ATATACACTT-TCACATT---CACTT-
1 TCACAT-TCAT-CACA-TTGGC-CATTAGGC-CTTA
48695791 TCACATTCATCACATTGGCCATTAGGCCTTA
1 TCACATTCATCACATTGGCCATTAGGCCTTA
48695822 TCACAT
1 TCACAT
48695828 ATATATACAC
Statistics
Matches: 52, Mismatches: 4, Indels: 22
0.67 0.05 0.28
Matches are distributed among these distances:
28 6 0.12
29 5 0.10
30 12 0.23
31 18 0.35
32 5 0.10
33 6 0.12
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (31 bp):
TCACATTCATCACATTGGCCATTAGGCCTTA
Found at i:48695873 original size:110 final size:108
Alignment explanation
Indices: 48695682--48695881 Score: 328
Period size: 110 Copynumber: 1.8 Consensus size: 108
48695672 TATATACACC
* *
48695682 TTCACATTCATCACATCAGCCATTAGGCCTTATCACGTATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTG
* *
48695747 GCCATTAGGCCTTATCACATGTATATACACTTTCACATTCACT
66 GCCATTAGGCCGTATCACATATATATACACTTTCACATTCACT
**
48695790 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCAGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACAT
48695855 TGGCCATTAGGCCGTATCACATATATA
64 TGGCCATTAGGCCGTATCACATATATA
48695882 CATCTCATAC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
108 34 0.40
110 50 0.60
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (108 bp):
TTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTG
GCCATTAGGCCGTATCACATATATATACACTTTCACATTCACT
Found at i:48701124 original size:28 final size:27
Alignment explanation
Indices: 48701061--48701130 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48701051 ATAGTGAGTC
*
48701061 CGCACACTTAGAGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
48701088 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
48701116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48701131 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:48703380 original size:27 final size:27
Alignment explanation
Indices: 48703342--48703401 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
48703332 TGATCTCAAG
48703342 TATGAGAATCATATACATATTAATCAC
1 TATGAGAATCATATACATATTAATCAC
*
48703369 TATGAGGATCATATACATATTAATCAC
1 TATGAGAATCATATACATATTAATCAC
48703396 TATGAG
1 TATGAG
48703402 TAATGTTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (27 bp):
TATGAGAATCATATACATATTAATCAC
Found at i:48709996 original size:40 final size:40
Alignment explanation
Indices: 48709941--48710019 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
48709931 ACACACCATG
* *
48709941 TGGGGATACAATCGACCCACCCAGCCCTACATACCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
* *
48709981 TGGGGATAAAATCGACCCATCTAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
48710020 GGTACTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
Found at i:48717007 original size:25 final size:25
Alignment explanation
Indices: 48716979--48717071 Score: 150
Period size: 25 Copynumber: 3.7 Consensus size: 25
48716969 CTCTTTTAAT
* * *
48716979 AACTGGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48717004 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48717029 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
48717054 AACTGGGGCATAGCCCTT
1 AACTGGGGCAAAGCCCTT
48717072 ATAGCACTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:48717324 original size:26 final size:27
Alignment explanation
Indices: 48717278--48717415 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 27
48717268 GGCAAAATGG
* * * *
48717278 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
48717305 TAATTCTTCCTTAC-GGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
48717330 GTAATTCTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
48717358 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
48717385 TAATTCTACCCTACAGGGGTA-TTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
48717411 TAATT
1 TAATT
48717416 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.01
26 28 0.29
27 66 0.69
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:48717394 original size:54 final size:53
Alignment explanation
Indices: 48717276--48717415 Score: 183
Period size: 53 Copynumber: 2.6 Consensus size: 53
48717266 GGGGCAAAAT
* * * * *
48717276 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTTCCTTACGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGTATTTC
* *
48717329 AGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC-GGGGTATTTC
* *
48717383 GGTAATTCTACCCTACAGGGGTA-TTCAATAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATT
48717416 TTGTAAATCG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
53 44 0.59
54 31 0.41
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGTATTTC
Found at i:48717441 original size:27 final size:27
Alignment explanation
Indices: 48717411--48717741 Score: 156
Period size: 27 Copynumber: 12.2 Consensus size: 27
48717401 GGGTATTCAA
**
48717411 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAATTTGG
* * *
48717438 TAATTCTGTAAATCGAAGGTACTTTGG
1 TAATTTTGTAAATCGAGGGTAATTTGG
* *
48717465 TAATTTT-TACAAGTCGAGGGTATTTTAG
1 TAATTTTGTA-AA-TCGAGGGTAATTTGG
** * *
48717493 TAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTTGTAAATCGAGGGTAATTTGG
*
48717520 TAATTTT-TCAAATTGAGGGT-ATTTCGG
1 TAATTTTGT-AAATCGAGGGTAATTT-GG
*** *
48717547 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTGTAAATCGA-GGGTAATTTGG
** * *
48717574 TAATTTTACAAA-CTAGAGGTATTTTGG
1 TAATTTTGTAAATCGAG-GGTAATTTGG
* * * *
48717601 TAATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTGTAAATCGAGGGTAATTTGG
** * * * *
48717628 TAATTTTACAAGTCAAGGGTATTTTAG
1 TAATTTTGTAAATCGAGGGTAATTTGG
*** *
48717655 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTGTAAATCGA-GGGTAATTTGG
* * *
48717682 TAATTTTATAAGTCGAGGGT-ATTTCAG
1 TAATTTTGTAAATCGAGGGTAATTT-GG
*** *
48717709 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTGTAAATCGA-GGGTAATTTGG
48717736 TAATTT
1 TAATTT
48717742 CACAAACCAG
Statistics
Matches: 250, Mismatches: 38, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
26 13 0.05
27 205 0.82
28 31 0.12
29 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAATTTGG
Found at i:48717742 original size:27 final size:27
Alignment explanation
Indices: 48717455--48717829 Score: 420
Period size: 27 Copynumber: 13.9 Consensus size: 27
48717445 GTAAATCGAA
* *
48717455 GGTACTTTGGTAATTTTTACAAGTC-GAG
1 GGTATTTTGGTAA-TTTTACAAATCAG-G
*
48717483 GGTATTTTAGTAATTTTACAAATC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* * *
48717510 GGTATTTTAGTAATTTTTCAAAT-TGAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* *
48717537 GGTATTTCGGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
*
48717564 GGTATTTTGGTAATTTTACAAA-CTAGA
1 GGTATTTTGGTAATTTTACAAATC-AGG
* * *
48717591 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAGG
* *
48717618 GGTATTTTGGTAATTTTACAAGTCAAG
1 GGTATTTTGGTAATTTTACAAATCAGG
* *
48717645 GGTATTTTAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
* *
48717672 GGTATTTTGGTAATTTTATAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
** *
48717699 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
* *
48717726 GGTATTTTGGTAATTTCACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
48717753 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATC-AGG
*
48717780 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
*
48717807 GGTATTTTAGTAATTTTACAAAT
1 GGTATTTTGGTAATTTTACAAAT
48717830 TGAGGGCATT
Statistics
Matches: 302, Mismatches: 37, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.01
27 284 0.94
28 15 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAGG
Found at i:48721834 original size:40 final size:39
Alignment explanation
Indices: 48721748--48721931 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
48721738 AAATTGAATG
* * * * *
48721748 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
48721788 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
48721828 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
48721868 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
48721907 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48721932 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:48730614 original size:28 final size:28
Alignment explanation
Indices: 48730574--48730642 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
48730564 GGCCATGTAC
*
48730574 GACACTTAGTGTGCAAGATATTGAGTGT
1 GACACTTAGTGTGCAAGATATTGAGTAT
*
48730602 GACACTTAGTGTGCGAGATATTGAGTAT
1 GACACTTAGTGTGCAAGATATTGAGTAT
*
48730630 GGCACTTAGTGTG
1 GACACTTAGTGTG
48730643 TGAGGCATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCAAGATATTGAGTAT
Found at i:48730652 original size:28 final size:28
Alignment explanation
Indices: 48730574--48730657 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
48730564 GGCCATGTAC
* * *
48730574 GACACTTAGTGTGCAAGATATTGAGTGT
1 GACACTTAGTGTGCGAGACATTGAGTAT
*
48730602 GACACTTAGTGTGCGAGATATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
* * *
48730630 GGCACTTAGTGTGTGAGGCATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
48730658 TCAACGGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCGAGACATTGAGTAT
Found at i:48740274 original size:31 final size:31
Alignment explanation
Indices: 48740233--48740296 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
48740223 CCTTTTCATA
*
48740233 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
48740264 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
48740295 TT
1 TT
48740297 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:48740541 original size:23 final size:23
Alignment explanation
Indices: 48740511--48740582 Score: 144
Period size: 23 Copynumber: 3.1 Consensus size: 23
48740501 CCTAGCCTCT
48740511 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
48740534 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
48740557 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
48740580 TTT
1 TTT
48740583 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:48740657 original size:20 final size:20
Alignment explanation
Indices: 48740629--48740699 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
48740619 GCATTTATGA
*
48740629 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
48740649 ACATATCATGTGTATATCAT
1 ACATATCATGTGCATATCAT
*
48740669 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
48740689 ACATATCATGT
1 ACATATCATGT
48740700 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:48740764 original size:25 final size:25
Alignment explanation
Indices: 48740736--48740783 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48740726 ATATATAAAC
* *
48740736 CCTAAGGGTATAATGGTCATTTTTA
1 CCTAAGGGCAAAATGGTCATTTTTA
*
48740761 CCTAGGGGCAAAATGGTCATTTT
1 CCTAAGGGCAAAATGGTCATTTT
48740784 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAAGGGCAAAATGGTCATTTTTA
Found at i:48742004 original size:27 final size:27
Alignment explanation
Indices: 48741942--48742019 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
48741932 GGGCATATTC
48741942 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
48741969 GTCACTTTACCCTACAGGGGCT-TTATG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
48741996 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
48742020 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:48742090 original size:27 final size:27
Alignment explanation
Indices: 48742064--48742262 Score: 134
Period size: 27 Copynumber: 7.3 Consensus size: 27
48742054 ATCTACAAAC
*
48742064 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
48742091 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
48742120 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
48742147 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** *** *
48742174 TGAGGGTATTTC-GATAATTTCAAAAAC
1 CAAGGGTATTTCAG-TAATTTTGTAAAT
* *
48742201 CAAGGGTGTTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*** *
48742228 CAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
48742255 CAAAGGTA
1 CAAGGGTA
48742263 AAACAATAAT
Statistics
Matches: 131, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 8 0.06
29 17 0.13
30 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:48742272 original size:81 final size:82
Alignment explanation
Indices: 48742187--48742354 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 82
48742177 GGGTATTTCG
**** * *
48742187 ATAATTTC-AAAAACCAAGGGTGTTTTAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGT
1 ATAATTTCTAAAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGT
48742251 AAATCAAAGGTAAAACA
66 AAATCAAAGGTAAAACA
* * * * * *
48742268 ATAA-TTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
1 ATAATTTCTAAAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGT
* *
48742332 AAATCGAGGGTAAAACA
66 AAATCAAAGGTAAAACA
*
48742349 GTAATT
1 ATAATT
48742355 ATGTAAATCG
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
80 3 0.04
81 66 0.94
82 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (82 bp):
ATAATTTCTAAAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGT
AAATCAAAGGTAAAACA
Found at i:48742424 original size:27 final size:27
Alignment explanation
Indices: 48742214--48742416 Score: 264
Period size: 27 Copynumber: 7.5 Consensus size: 27
48742204 GGGTGTTTTA
* * *
48742214 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
48742241 GTAATTCTGTAAATCAAAGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
48742268 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
48742295 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
48742322 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
48742349 GTAATTATGTAAATCG-GGGTTAAAACG
1 GTAATTCTGTAAATCGAGGG-TAAAACG
* *
48742376 GTAATTATGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
48742403 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
48742417 TGGGGGTACT
Statistics
Matches: 158, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 3 0.02
27 152 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:48742451 original size:27 final size:27
Alignment explanation
Indices: 48742430--48742519 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
48742420 GGGTACTTTG
*
48742430 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
48742457 GTAATTTTACAAATCGAGGGTGTTTTA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
48742484 CTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
48742511 GTAATTTTA
1 GTAATTTTA
48742520 GTAAACTAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:48743032 original size:34 final size:34
Alignment explanation
Indices: 48742989--48743058 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
48742979 GTTTAAATTC
48742989 AACACCAACTCTTGTCGCCCCCTGTTAGCAAAAT
1 AACACCAACTCTTGTCGCCCCCTGTTAGCAAAAT
48743023 AACACCAACTCTTGTCGCCCCCTGTTAGCAAAAT
1 AACACCAACTCTTGTCGCCCCCTGTTAGCAAAAT
48743057 AA
1 AA
48743059 ATGCTCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.23
Consensus pattern (34 bp):
AACACCAACTCTTGTCGCCCCCTGTTAGCAAAAT
Found at i:48744766 original size:40 final size:40
Alignment explanation
Indices: 48744706--48744869 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
48744696 CGGGATTTAA
* ** *
48744706 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
48744746 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
*
48744786 CCGGATATAACAACTCGCACGAA-TGCCTTCGAGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
48744826 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
48744866 CCGG
1 CCGG
48744870 GTATCAATCA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:48744853 original size:80 final size:80
Alignment explanation
Indices: 48744692--48744869 Score: 198
Period size: 80 Copynumber: 2.2 Consensus size: 80
48744682 GAATCACGTA
* * * * * **
48744692 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGAGTCTTAACCCGGATATAA
* *
48744756 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
48744771 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGAGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGAGTCTTAACCCGGATATA
* *
48744835 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
48744851 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48744870 GTATCAATCA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 11 0.14
80 68 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGAGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:48752760 original size:40 final size:40
Alignment explanation
Indices: 48752700--48752863 Score: 154
Period size: 40 Copynumber: 4.1 Consensus size: 40
48752690 CGGGATTTAA
* ** *
48752700 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
48752740 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
*
48752780 CCGGATATAACAACTCACACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
48752820 CCGGATATAATC-ACTAGCATAAATGCGTTCGGGAT-TTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGG-TCTTAGC
48752860 CCGG
1 CCGG
48752864 GTATCATTCA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 96 0.94
41 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:48756305 original size:15 final size:15
Alignment explanation
Indices: 48756273--48756308 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48756263 TCAAGATAAG
*
48756273 GAAATCCATAATGGA
1 GAAATCCATAATAGA
*
48756288 GAAATCCATAATATA
1 GAAATCCATAATAGA
48756303 GAAATC
1 GAAATC
48756309 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (15 bp):
GAAATCCATAATAGA
Found at i:48762216 original size:43 final size:43
Alignment explanation
Indices: 48762058--48762224 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 43
48762048 GATTACCAAG
* * **
48762058 ATGTGATTACATGTATGACCATGTCTGGGACATTGGCAT-TGT
1 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATCAAT
* ** * *
48762100 ATTGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATT
1 A-TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATCAAT
* * * * * * *
48762144 ATATGA-ATTCGTATAAGACCCTGTTTGGGACAGTGGCATCAAT
1 ATGTGATA-ACATGTAAGACCATGTCTGGGACATTGGCATCAAT
* *
48762187 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCAT
48762225 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 7 0.07
43 87 0.90
44 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATCAAT
Found at i:48771302 original size:38 final size:39
Alignment explanation
Indices: 48771221--48771408 Score: 310
Period size: 38 Copynumber: 4.9 Consensus size: 39
48771211 TATGGTAACC
* * * *
48771221 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
48771261 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48771299 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48771337 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48771375 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
48771409 CTCGAACATT
Statistics
Matches: 141, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
37 12 0.09
38 86 0.61
39 26 0.18
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:48779510 original size:37 final size:39
Alignment explanation
Indices: 48779354--48779540 Score: 301
Period size: 38 Copynumber: 4.9 Consensus size: 39
48779344 TATGGTAACC
* * * *
48779354 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
48779394 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48779432 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48779470 CGCACAATTGCCTTCGGGCTTAG-CCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48779507 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
48779541 CTCGAACATT
Statistics
Matches: 139, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
37 45 0.32
38 56 0.40
39 21 0.15
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:48784526 original size:28 final size:27
Alignment explanation
Indices: 48784401--48784530 Score: 154
Period size: 28 Copynumber: 4.6 Consensus size: 27
48784391 ATAGTGAATC
*
48784401 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA--ATCAGCT
48784430 -GCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAA---TCAGCT
*
48784459 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA--ATCAGCT
*
48784488 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AGCT
48784516 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48784531 GTACAATTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 15
0.83 0.04 0.14
Matches are distributed among these distances:
27 2 0.02
28 37 0.41
29 32 0.36
30 19 0.21
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAGCT
Found at i:48784540 original size:58 final size:57
Alignment explanation
Indices: 48784401--48784559 Score: 214
Period size: 58 Copynumber: 2.8 Consensus size: 57
48784391 ATAGTGAATC
*
48784401 CGCACACTTAGTGCTATATATTTTCAGCT-GCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
48784459 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
* * * * *
48784516 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
48784560 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 50 0.54
59 20 0.22
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:48785889 original size:19 final size:18
Alignment explanation
Indices: 48785865--48785900 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48785855 CCCCCTTTTT
*
48785865 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
48785884 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
48785901 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:48792580 original size:28 final size:28
Alignment explanation
Indices: 48792511--48792611 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48792501 GACAAGATTG
* * * *
48792511 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48792541 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48792569 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48792598 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48792612 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48800531 original size:28 final size:28
Alignment explanation
Indices: 48800462--48800562 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48800452 GACAAGATTG
* * * *
48800462 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48800492 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48800520 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48800549 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48800563 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48810339 original size:50 final size:53
Alignment explanation
Indices: 48810231--48810341 Score: 192
Period size: 50 Copynumber: 2.2 Consensus size: 53
48810221 ATTGAAATGG
*
48810231 TGAAAATGGATAAATAGGAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAA
1 TGAAAATGGAGAAATAGGAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAA
48810284 TGAAAATGGAGAAAT-GGAAACATTTGGAAATG-AATGT-GTTTTCTCCAAAA
1 TGAAAATGGAGAAATAGGAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAA
48810334 TGAAAATG
1 TGAAAATG
48810342 AAAATGACAT
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 21 0.37
51 5 0.09
52 17 0.30
53 14 0.25
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (53 bp):
TGAAAATGGAGAAATAGGAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAA
Found at i:48813459 original size:193 final size:193
Alignment explanation
Indices: 48813130--48813515 Score: 684
Period size: 193 Copynumber: 2.0 Consensus size: 193
48813120 TATTACCTAT
*
48813130 TAATATACAATTTACAATTTTATCCATCCTTTATACAAAATAAAATCATTCATTTTAAATCCATA
1 TAATATACAATTTACAATTTTATCCATCCTTTATACAAAATAAAATCATTCATTTTAAACCCATA
* * * *
48813195 ACCGTCCATCCCATTTTTCAATGGCCAAATTTCATTTTAAGGACTTTAAAATTAAGAAACCATAG
66 ACCATCAATCCCATTTTTCAATGGCCAAATTCCATTTTAAGGACTTTAAAATTAAGAAACCATAA
*
48813260 CAAATAAGTACTTTAACAAATAGATAGCCTCTTTTACATTTTTC-CTGATTAAGTCCTTTTATC
131 CAAATAAGTACTTTAACAAATAGAAAGCCTCTTTTACATTTTTCAC-GATTAAGTCCTTTTATC
48813323 TAATATACAATTTACAATTTTATCCATCCTTTATACAAAATAAAATCATTCATTTTAAACCCATA
1 TAATATACAATTTACAATTTTATCCATCCTTTATACAAAATAAAATCATTCATTTTAAACCCATA
* *
48813388 ACCATCAATCTCGTTTTTCAATGGCCAAATTCCATTTTAAGGACTTTAAAATTAAGAAACCATAA
66 ACCATCAATCCCATTTTTCAATGGCCAAATTCCATTTTAAGGACTTTAAAATTAAGAAACCATAA
48813453 CAAATAAGTACTTTAACAAATAGAAAGCCTCTTTTACATTTTTCACGATTAAGTCCTTTTATC
131 CAAATAAGTACTTTAACAAATAGAAAGCCTCTTTTACATTTTTCACGATTAAGTCCTTTTATC
48813516 AAATTAGACA
Statistics
Matches: 184, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
193 183 0.99
194 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (193 bp):
TAATATACAATTTACAATTTTATCCATCCTTTATACAAAATAAAATCATTCATTTTAAACCCATA
ACCATCAATCCCATTTTTCAATGGCCAAATTCCATTTTAAGGACTTTAAAATTAAGAAACCATAA
CAAATAAGTACTTTAACAAATAGAAAGCCTCTTTTACATTTTTCACGATTAAGTCCTTTTATC
Found at i:48816203 original size:19 final size:16
Alignment explanation
Indices: 48816167--48816198 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
48816157 ATTGAAAAAC
48816167 AATTTTTAAAAAATTG
1 AATTTTTAAAAAATTG
48816183 AATTCTTTAAAAAATT
1 AATT-TTTAAAAAATT
48816199 TTGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
AATTTTTAAAAAATTG
Found at i:48818969 original size:134 final size:134
Alignment explanation
Indices: 48818723--48818997 Score: 412
Period size: 134 Copynumber: 2.1 Consensus size: 134
48818713 CGATTGTATC
* *
48818723 TTCTTT-TCCTCTCCATCTCATTTGATTTTGGCTTATGGTGATCGAGTTATTCTTTTTCTTTCTC
1 TTCTTTCTCCTCTCCATCTCATTCGATTTTGGCTTATGGTGATCGAGTCATTCTTTTTCTTTCTC
* *
48818787 CCCTCTCTTTAGTGCAATCTAATCCTTGTTGGTCGAATAGTGCTCCTGCATTAACCTTCTAGGAA
66 CCCTCTCTTTAGTGCAATCTAATCCTTGTTAGTCAAATAGTGCTCCTGCATTAACCTTCTAGGAA
*
48818852 CTGA
131 CCGA
* *
48818856 TTCTTTCTCCTCTCTATCTCATTCCG-TTTTGGCTTGTGGTGA-CTGAGTCATTCTTTTTCTTTC
1 TTCTTTCTCCTCTCCATCTCATT-CGATTTTGGCTTATGGTGATC-GAGTCATTCTTTTTCTTTC
* * * *
48818919 TCCCTTCTCTTTAGTGCAATCTAATCCTTGTTAGTCAAATTGTGCTCCTGCATTGAGCTTCTAGG
64 TCCCCTCTCTTTAGTGCAATCTAATCCTTGTTAGTCAAATAGTGCTCCTGCATTAACCTTCTAGG
48818984 AACCGA
129 AACCGA
48818990 TTCTTTCT
1 TTCTTTCT
48818998 GTTGTTCCTC
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
133 7 0.05
134 120 0.94
135 1 0.01
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (134 bp):
TTCTTTCTCCTCTCCATCTCATTCGATTTTGGCTTATGGTGATCGAGTCATTCTTTTTCTTTCTC
CCCTCTCTTTAGTGCAATCTAATCCTTGTTAGTCAAATAGTGCTCCTGCATTAACCTTCTAGGAA
CCGA
Found at i:48824978 original size:18 final size:18
Alignment explanation
Indices: 48824955--48824990 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48824945 CAATTCAGAA
48824955 AAGGCTAATTTTAAGGGT
1 AAGGCTAATTTTAAGGGT
48824973 AAGGCTAATTTTAAGGGT
1 AAGGCTAATTTTAAGGGT
48824991 TTTTAGGCAT
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:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (18 bp):
AAGGCTAATTTTAAGGGT
Found at i:48832171 original size:47 final size:45
Alignment explanation
Indices: 48832067--48832279 Score: 186
Period size: 47 Copynumber: 4.6 Consensus size: 45
48832057 TATGCGTGTT
** * *
48832067 GATGCATGTCCCAGACATGTCTTACACCAG-TACAACTCT-TA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT--ATCTCTGTAGGCC
* *
48832111 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCC
*
48832158 GATGCATGTCCCAGACATGTCTTATACTGGCACTTATCTCTGT--GCC
1 GATGCATGTCCCAGACATGTCTTACACTGG--C-TATCTCTGTAGGCC
* * *
48832204 GGTGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCC
*
48832252 AATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
48832280 AGCCCTTGTC
Statistics
Matches: 140, Mismatches: 15, Indels: 26
0.77 0.08 0.14
Matches are distributed among these distances:
43 5 0.04
44 27 0.19
45 7 0.05
46 19 0.14
47 57 0.41
48 15 0.11
49 1 0.01
50 9 0.06
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCC
Found at i:48832265 original size:94 final size:94
Alignment explanation
Indices: 48832017--48832373 Score: 300
Period size: 94 Copynumber: 3.8 Consensus size: 94
48832007 ATACATTGCT
* * ***
48832017 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TATGCGTGTTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTAT--G-GCCAATGCATGTCCCAG
* * * *
48832081 ACATGTCTTACACCAGTAC--AACTCT-TAGCT
63 ACATGTCTTACACTAGCACTTATCTCTGT-GCC
* * * *
48832111 GATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCAATGCATGTCCCAG
* *
48832172 ACATGTCTTATACTGGCACTTATCTCTGTGCC
63 ACATGTCTTACACTAGCACTTATCTCTGTGCC
* *
48832204 GGTGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCAATGCATGTCCCAGACA
* * * *
48832269 TGTCTTACACTAGCCCTTGTCT-GGATGTC
66 TGTCTTACACTAGCACTTATCTCTG-TGCC
* ** * * * * * *
48832298 GATGCCATGCCCCAGACATGGTCTTTTAGTGGCTCTCATAATGTGGCCAAAGCATGTTCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCAATGCATGTCCCAGACA
*
48832363 CGTCTTACACT
66 TGTCTTACACT
48832374 GGCGCGCAAA
Statistics
Matches: 214, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
91 31 0.14
92 17 0.08
93 24 0.11
94 121 0.57
95 20 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCAATGCATGTCCCAGACA
TGTCTTACACTAGCACTTATCTCTGTGCC
Found at i:48839699 original size:47 final size:46
Alignment explanation
Indices: 48839643--48839813 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
48839633 CTCTTAGCCG
*
48839643 ATGCATGTCCCAGACACGTCTTACACTAGCTATCTCTATCGAGGCTA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTA-CTCTATCGAGGCTA
* * * * **
48839690 ATGCATGTCCTAGACATGTCTTATACTAGC-ACTCATCTCTG-TGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTACTC-TATC-GAGGCTA
* * *
48839736 GTGCCATGTCCCAGACATGGTCTTACACTGGCTA-TC-ATAGTATGGCTA
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTACTCTATCG-A-GGCTA
*
48839784 ATGCATGTCCCAGACATGTCTTGCACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
48839814 CCTTGTCTGG
Statistics
Matches: 97, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
45 4 0.04
46 20 0.21
47 55 0.57
48 17 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTACTCTATCGAGGCTA
Found at i:48839783 original size:94 final size:94
Alignment explanation
Indices: 48839639--48839904 Score: 283
Period size: 94 Copynumber: 2.8 Consensus size: 94
48839629 ATAACTCTTA
* * *
48839639 GCCGATG-CATGTCCCAGACA-CGTCTTACACTAGCTATC-T-CTATCGAGGCTAATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATAT---GGCTAATGCATGTCC
* *
48839700 TAGACATGTCTTATACTAGCACTCATCTCT-G-T
63 CAGACATGTCTTACACTAGC-C-CATCTCTGGAT
* *
48839732 GCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTAATGCATGTCCCAG
* * *
48839797 ACATGTCTTGCACTAGCCCTTGTCTGGAT
66 ACATGTCTTACACTAGCCCATCTCTGGAT
* * * * * * *
48839826 GTCGATGCCATGCCCCAGACATGGTCTTACACTGCCTCTCATAATGTGGCCAAAGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTAATGCATGTCCCAG
*
48839891 ACACGTCTTACACT
66 ACATGTCTTACACT
48839905 GGCGCACAAA
Statistics
Matches: 147, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
92 5 0.03
93 8 0.05
94 114 0.78
95 16 0.11
96 1 0.01
97 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTAATGCATGTCCCAG
ACATGTCTTACACTAGCCCATCTCTGGAT
Found at i:48839890 original size:47 final size:47
Alignment explanation
Indices: 48839643--48839905 Score: 138
Period size: 47 Copynumber: 5.6 Consensus size: 47
48839633 CTCTTAGCCG
* * * *
48839643 ATGCATGTCCCAGACA-CGTCTTACACTAG-CTATC-TCTATCGAGGCTA
1 ATGCATGTCCCAGACATGGTCTTACACT-GCCTATCAT-AAT-GTGGCCA
* * * *
48839690 ATGCATGTCCTAGACAT-GTCTTATACTAGCACTCATC-T-CTGT-GCCG
1 ATGCATGTCCCAGACATGGTCTTACACT-GC-CT-ATCATAATGTGGCCA
* * * * *
48839736 GTGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTA
1 ATG-CATGTCCCAGACATGGTCTTACACTGCCTATCATAATGTGGCCA
* * * *
48839784 ATGCATGTCCCAGACAT-GTCTTGCACTAGCCCTTGTC-TGGATGT---CG
1 ATGCATGTCCCAGACATGGTCTTACACT-G-CC-TATCAT-AATGTGGCCA
* *
48839830 ATGCCATGCCCCAGACATGGTCTTACACTGCCTCTCATAATGTGGCCA
1 ATG-CATGTCCCAGACATGGTCTTACACTGCCTATCATAATGTGGCCA
* *
48839878 AAGCATGTCCCAGACA-CGTCTTACACTG
1 ATGCATGTCCCAGACATGGTCTTACACTG
48839906 GCGCACAAAT
Statistics
Matches: 166, Mismatches: 31, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
45 10 0.06
46 33 0.20
47 84 0.51
48 28 0.17
49 7 0.04
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGGTCTTACACTGCCTATCATAATGTGGCCA
Found at i:48857660 original size:48 final size:48
Alignment explanation
Indices: 48857589--48857891 Score: 507
Period size: 48 Copynumber: 6.3 Consensus size: 48
48857579 TGTACAAGAT
* *
48857589 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* *
48857637 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTA
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* * *
48857685 AAATATGCATGAGATTTGTATATGTGGTAAAGCTGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
48857733 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
48857781 AAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
48857829 AAATAGGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
48857877 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
48857892 GTGTGTATAT
Statistics
Matches: 236, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 236 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:48858082 original size:37 final size:37
Alignment explanation
Indices: 48858032--48858134 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
48858022 GGAAATATAT
48858032 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48858069 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
48858106 TCCAGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
48858135 GGACTATTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48859463 original size:40 final size:40
Alignment explanation
Indices: 48859410--48859650 Score: 374
Period size: 40 Copynumber: 6.0 Consensus size: 40
48859400 TTGAGAGTTA
* * *
48859410 TATAGCCGAGCTAACTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
48859450 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
48859490 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
48859530 TATATCCGGGCTAAGTCCCAAAGAGCATTTGAATGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCG--TGCTGGTGT
48859572 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
48859612 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
48859651 ATGTGCATTC
Statistics
Matches: 185, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 147 0.79
42 38 0.21
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:48859612 original size:82 final size:80
Alignment explanation
Indices: 48859410--48859647 Score: 368
Period size: 82 Copynumber: 3.0 Consensus size: 80
48859400 TTGAGAGTTA
* * * *
48859410 TATAGCCGAGCTAACTCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
48859475 CATTCGTGCTGATGT
66 CATTCGTGCTGATGT
*
48859490 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCAAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
* *
48859555 CATTTGAATGCTGGTGT
66 CATTCG--TGCTGATGT
*
48859572 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
* *
48859637 CAATCATGCTG
66 CATTCGTGCTG
48859648 GTGATGTGCA
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
80 70 0.49
82 74 0.51
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
CATTCGTGCTGATGT
Found at i:48859623 original size:122 final size:120
Alignment explanation
Indices: 48859410--48859650 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 120
48859400 TTGAGAGTTA
* *
48859410 TATAGCCGAGCTAACTCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAAGTCCCGAAGAG
1 TATAGCCGAGCTAACTCCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
* *
48859475 CATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
66 CATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTGGTGT
* * * *
48859530 TATATCCGGGCTAAGTCCCAAAGAGCATTTGAATGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 TATAGCCGAGCTAACTCCCAAAGAGCATTCG--TGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
* *
48859595 AGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
64 AGCATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTGGTG
48859651 ATGTGCATTC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 26 0.24
122 83 0.76
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (120 bp):
TATAGCCGAGCTAACTCCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAG
CATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTGGTGT
Found at i:48859864 original size:25 final size:25
Alignment explanation
Indices: 48859814--48859864 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
48859804 TGTATAACAA
* *
48859814 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
48859839 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
48859864 C
1 C
48859865 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:48863106 original size:47 final size:48
Alignment explanation
Indices: 48863015--48863171 Score: 289
Period size: 48 Copynumber: 3.3 Consensus size: 48
48863005 TGTACAAGAT
* *
48863015 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
48863063 AAATATGTATGAGATATGTATATG-GGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
48863110 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
48863158 AAATATGTATGAGA
1 AAATATGTATGAGA
48863172 GAATGGCTAG
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 47 0.44
48 59 0.56
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:48863177 original size:28 final size:28
Alignment explanation
Indices: 48863144--48863199 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48863134 TGGTAAAGCC
48863144 GAATGGCTAGTGTGAAATATGTATGAGA
1 GAATGGCTAGTGTGAAATATGTATGAGA
48863172 GAATGGCTAGTGTGAAATATGTATGAGA
1 GAATGGCTAGTGTGAAATATGTATGAGA
48863200 TATGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.32, T:0.29
Consensus pattern (28 bp):
GAATGGCTAGTGTGAAATATGTATGAGA
Found at i:48863187 original size:76 final size:76
Alignment explanation
Indices: 48863096--48863247 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
48863086 GGGTAAAGCC
*
48863096 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAA
48863161 TATGTATGAGA
66 TATGTATGAGA
48863172 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAA
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAA
48863237 TATGTATGAGA
66 TATGTATGAGA
48863248 TATGTATATG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (76 bp):
GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAA
TATGTATGAGA
Found at i:48863228 original size:48 final size:48
Alignment explanation
Indices: 48863172--48863632 Score: 814
Period size: 48 Copynumber: 9.6 Consensus size: 48
48863162 ATGTATGAGA
48863172 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863220 AAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
* **
48863268 GAATGGCTAATGTGAAATATGTATGACTTATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863316 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
* *
48863364 GAATGCCTAGTGTGAAATATGTATGAGATTTGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863412 GAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863460 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863508 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863556 GAATGGATAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
48863604 GAATGGCTAGTGTGAAATATGTAGGAGAT
1 GAATGGCTAGTGTGAAATATGTATGAGAT
48863633 GTGTGTATAT
Statistics
Matches: 394, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 394 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
Found at i:48863268 original size:124 final size:123
Alignment explanation
Indices: 48863049--48863293 Score: 463
Period size: 124 Copynumber: 2.0 Consensus size: 123
48863039 TGGTAAAGCC
*
48863049 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGGGTAAAGCCGAATGGCTAGTGTGAAAT
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGGGTAAAGCCAAATGGCTAGTGTGAAAT
*
48863114 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGA
66 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
48863172 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAA
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATG-GGTAAAGCCAAATGGCTAGTGTGAAA
48863237 TATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
65 TATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
48863294 CTTATGTATA
Statistics
Matches: 119, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
123 38 0.32
124 81 0.68
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (123 bp):
GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGGGTAAAGCCAAATGGCTAGTGTGAAAT
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
Found at i:48863512 original size:28 final size:27
Alignment explanation
Indices: 48863480--48863564 Score: 67
Period size: 28 Copynumber: 3.3 Consensus size: 27
48863470 TGTGAAATAT
48863480 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATG-GATATGTATATGTGGTAAAGCC
* ***
48863508 GAATGGCTA-G----TGT-G-AAATAT
1 GAATGGATATGTATATGTGGTAAAGCC
48863528 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATG-GATATGTATATGTGGTAAAGCC
48863556 GAATGGATA
1 GAATGGATA
48863565 GTGTGAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 17
0.62 0.12 0.26
Matches are distributed among these distances:
20 8 0.20
21 4 0.10
22 4 0.10
26 4 0.10
27 8 0.20
28 13 0.32
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.28
Consensus pattern (27 bp):
GAATGGATATGTATATGTGGTAAAGCC
Found at i:48863818 original size:37 final size:37
Alignment explanation
Indices: 48863777--48863875 Score: 153
Period size: 37 Copynumber: 2.7 Consensus size: 37
48863767 ATATATTCCG
*
48863777 GGTAAGACCCGATGACTACTTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACATGTGGAGATTATGTCCA
* *
48863814 GGTAAGACCCGATGACTACATGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACATGTGGAGATTATGTCCA
* *
48863851 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACATGTGG
48863876 GGACTATTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACATGTGGAGATTATGTCCA
Found at i:48865119 original size:21 final size:20
Alignment explanation
Indices: 48865093--48865138 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
48865083 ATGAGGGAAG
*
48865093 AAGAAAGAGA-AAGAATAAGGA
1 AAGAAAGA-ATAAGAA-AAAGA
48865114 AAGAAAGAATAAGAAAAAGA
1 AAGAAAGAATAAGAAAAAGA
48865134 AAGAA
1 AAGAA
48865139 GGAAAAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (20 bp):
AAGAAAGAATAAGAAAAAGA
Found at i:48865120 original size:15 final size:16
Alignment explanation
Indices: 48865093--48865138 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
48865083 ATGAGGGAAG
*
48865093 AAGAAAGAGAAAGAAT
1 AAGAAAAAGAAAGAAT
*
48865109 AAG-GAAAGAAAGAAT
1 AAGAAAAAGAAAGAAT
48865124 AAGAAAAAGAAAGAA
1 AAGAAAAAGAAAGAA
48865139 GGAAAAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (16 bp):
AAGAAAAAGAAAGAAT
Found at i:48870546 original size:22 final size:23
Alignment explanation
Indices: 48870507--48870549 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
48870497 GAAGTCCTGC
*
48870507 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
48870530 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
48870550 TGTGGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:48882460 original size:22 final size:22
Alignment explanation
Indices: 48882435--48882517 Score: 139
Period size: 22 Copynumber: 3.7 Consensus size: 22
48882425 TATCCCCACA
*
48882435 TGGAGTGTAGGGCTGGACAAAG
1 TGGAGTGTAGGGCTGGACAGAG
48882457 TGGAGTGTAGGGCTGGACAGAG
1 TGGAGTGTAGGGCTGGACAGAG
48882479 TGGAGTGTAGGGCTGGACAGAG
1 TGGAGTGTAGGGCTGGACAGAG
*
48882501 TGGAGTTTAGAGGCTGG
1 TGGAGTGTAG-GGCTGG
48882518 TTGGGTAGGA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
22 52 0.90
23 6 0.10
ACGTcount: A:0.23, C:0.08, G:0.48, T:0.20
Consensus pattern (22 bp):
TGGAGTGTAGGGCTGGACAGAG
Found at i:48885071 original size:11 final size:11
Alignment explanation
Indices: 48885032--48885114 Score: 53
Period size: 12 Copynumber: 7.2 Consensus size: 11
48885022 TATGTCTTTC
48885032 AAAATAAAATAA
1 AAAATAAAAT-A
* *
48885044 TAAAATTGAAATG
1 -AAAA-TAAAATA
48885057 AAAATAAAATCA
1 AAAATAAAAT-A
48885069 AAAGA-AAAATA
1 AAA-ATAAAATA
48885080 AAAATAAAATA
1 AAAATAAAATA
* *
48885091 AGAATGAGAATA
1 AAAAT-AAAATA
*
48885103 AGAAT-AAATA
1 AAAATAAAATA
48885113 AA
1 AA
48885115 TAAAAATAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
10 6 0.11
11 19 0.33
12 22 0.39
13 5 0.09
14 5 0.09
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:48887151 original size:40 final size:40
Alignment explanation
Indices: 48887085--48887251 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
48887075 AAATTGAATG
* * *
48887085 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
48887124 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
48887164 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
48887204 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
48887244 ATATCCGG
1 ATATCCGG
48887252 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:48895159 original size:40 final size:40
Alignment explanation
Indices: 48895093--48895259 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
48895083 AAATTGAATG
* * *
48895093 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
48895132 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
48895172 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
48895212 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
48895252 ATATCCGG
1 ATATCCGG
48895260 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:48900532 original size:49 final size:48
Alignment explanation
Indices: 48900421--48900642 Score: 266
Period size: 49 Copynumber: 4.5 Consensus size: 48
48900411 CTGGTACGCA
* * * *
48900421 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGTACACG
*
48900469 TAGTAGCCTGTACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CGGTACACG
* ** * *
48900518 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCGGTACACG
* * * *
48900567 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATC-GGTACACG
48900618 TAGTAGCCTGCACTTA-TACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
48900643 TGCGACCTCA
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
48 35 0.23
49 78 0.52
50 16 0.11
51 22 0.15
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGTACACG
Found at i:48902810 original size:15 final size:14
Alignment explanation
Indices: 48902788--48902835 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
48902778 AAGAAAACGA
48902788 ATAAAGAAATCCAAG
1 ATAAAGAAA-CCAAG
* *
48902803 ATAGAGAAACCCAG
1 ATAAAGAAACCAAG
48902817 AATAAAGAAACCCAAG
1 -ATAAAGAAA-CCAAG
48902833 ATA
1 ATA
48902836 CGATACTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (14 bp):
ATAAAGAAACCAAG
Found at i:48906001 original size:50 final size:49
Alignment explanation
Indices: 48905834--48906058 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
48905824 CTGGTACGCA
* * * *
48905834 TAGTAGCCTGCACATAGTACGACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
48905883 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
48905932 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
48905982 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
48906033 TAGTAGCCCGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
48906059 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 78 0.50
50 43 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:48906004 original size:99 final size:100
Alignment explanation
Indices: 48905821--48906065 Score: 323
Period size: 99 Copynumber: 2.5 Consensus size: 100
48905811 TAGCCAAAGC
* * * * * ** *
48905821 TATCTGGTACGCATAGTAGCCTGCACATAGTACGACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
48905886 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
48905919 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
48905984 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * *
48906020 TTTCGGGTACACATAGTAGCCCGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
48906066 TCACAATAGA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 39 0.31
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:48906066 original size:101 final size:99
Alignment explanation
Indices: 48905821--48906066 Score: 332
Period size: 101 Copynumber: 2.5 Consensus size: 99
48905811 TAGCCAAAGC
* * * * ** *
48905821 TATCTGGTACGCATAGTAGCCTGCACATAGTACGACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
48905885 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
48905919 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
48905984 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
48906020 TTTCGGGTACACATAGTAGCCCGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT
48906067 CACAATAGAT
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 39 0.31
99 43 0.34
100 1 0.01
101 44 0.35
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (99 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:48910298 original size:36 final size:36
Alignment explanation
Indices: 48910256--48910330 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
48910246 AAGCAAAGAG
48910256 AAAATTTGGAAAAAGACTTGAAGAAAAGCAATTGAT
1 AAAATTTGGAAAAAGACTTGAAGAAAAGCAATTGAT
48910292 AAAATTTGGAAAAAGACTTGAAGAAAAGCAATTGAT
1 AAAATTTGGAAAAAGACTTGAAGAAAAGCAATTGAT
48910328 AAA
1 AAA
48910331 GACGACACCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.55, C:0.05, G:0.19, T:0.21
Consensus pattern (36 bp):
AAAATTTGGAAAAAGACTTGAAGAAAAGCAATTGAT
Found at i:48917348 original size:37 final size:38
Alignment explanation
Indices: 48917304--48917378 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 38
48917294 GAGAGTTCAA
48917304 ATTAGTTGGTGGAGAGATTAGAAGAGAGG-TTAAGGAG
1 ATTAGTTGGTGGAGAGATTAGAAGAGAGGTTTAAGGAG
*
48917341 ATTAGTTGGTGGAGAGATTAGAGGAGAGGTTTAAGGAG
1 ATTAGTTGGTGGAGAGATTAGAAGAGAGGTTTAAGGAG
48917379 TGGATTATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 28 0.78
38 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.41, T:0.25
Consensus pattern (38 bp):
ATTAGTTGGTGGAGAGATTAGAAGAGAGGTTTAAGGAG
Found at i:48919354 original size:34 final size:34
Alignment explanation
Indices: 48919288--48919354 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
48919278 TGTTATTGTC
* * *
48919288 ACTGAAATAGGCTAAGGCCCGCACTGATACTGAT
1 ACTGAAATAGGCTAAGGCCCGAACTAAAACTGAT
* * *
48919322 ACTGTAATAGGCTTAGGCCCTAACTAAAACTGA
1 ACTGAAATAGGCTAAGGCCCGAACTAAAACTGA
48919355 ACTATTACTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (34 bp):
ACTGAAATAGGCTAAGGCCCGAACTAAAACTGAT
Found at i:48921172 original size:23 final size:23
Alignment explanation
Indices: 48921120--48921175 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
48921110 ATTTTTAAAG
*
48921120 AATAAAAATTAAGGTAAAAAAAT
1 AATAAAAATTAAGATAAAAAAAT
* **
48921143 AATTAAAAATTTAGATACCAAAAT
1 AA-TAAAAATTAAGATAAAAAAAT
48921167 AATAAAAAT
1 AATAAAAAT
48921176 AATTATAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.25
Consensus pattern (23 bp):
AATAAAAATTAAGATAAAAAAAT
Found at i:48927970 original size:43 final size:43
Alignment explanation
Indices: 48927867--48927974 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
48927857 TAGCTTAGCT
* * *
48927867 ATGGTCTTACTCGA-AATCAAATAACGATGCCAATATCCTAGAC
1 ATGGTCTTACAC-ATAATCACATAACGATGCCAATATCCCAGAC
* * * *
48927910 ATGGTCTTACACGTAATCACATAATGATGTCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATATCCCAGAC
48927953 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
48927975 CTCATTAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATATCCCAGAC
Found at i:48929959 original size:79 final size:79
Alignment explanation
Indices: 48929841--48930065 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 79
48929831 GCTACTCGTT
* * * *
48929841 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGG
48929906 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
48929921 CAAATGCCTTCGGGCTTAGCCCGGGAT-TAGTAACTCGCACAAATGCC-TTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCC-GGATATAGTAACTCGCACAAATGCCTTTGGGA-CTTAGCCCG
48929984 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * * *
48930000 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTTGGGACTTAGCCCG
48930064 GA
64 GA
48930066 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 5 0.04
79 66 0.52
80 43 0.34
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:48930025 original size:119 final size:120
Alignment explanation
Indices: 48929841--48930064 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
48929831 GCTACTCGTT
* *
48929841 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
* *
48929906 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
* * **
48929960 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCC-TTCGGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTCGGA-CTTAACC
*
48930022 CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
48930065 ACATCATTCG
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 8 0.09
119 63 0.69
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
Found at i:48930065 original size:40 final size:40
Alignment explanation
Indices: 48929822--48930065 Score: 284
Period size: 40 Copynumber: 6.1 Consensus size: 40
48929812 CGGAATTTAA
** *
48929822 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
48929862 CCGGTTATAGTAGCTCGCACAAATGCCTTTGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48929902 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48929941 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
48929981 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
48930021 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48930061 CCGGA
1 CCGGA
48930066 CATCATTCGA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 35 0.19
40 132 0.73
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48932266 original size:28 final size:28
Alignment explanation
Indices: 48932197--48932297 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48932187 GACAAGATTG
* * * *
48932197 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48932227 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48932255 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48932284 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48932298 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48932291 original size:29 final size:28
Alignment explanation
Indices: 48932226--48932297 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
48932216 AAAATTGTAC
*
48932226 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
48932254 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
48932283 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48932298 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:48941195 original size:39 final size:39
Alignment explanation
Indices: 48941058--48941279 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 39
48941048 GCTACTCGTT
* * *
48941058 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
48941098 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
48941138 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
48941176 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCG-A
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-TTAGTAACTCGCA
* * *
48941215 CAAATGCCTTC-GGATCTTAGTCC-GATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
48941255 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48941280 CATCATTCGA
Statistics
Matches: 164, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
37 3 0.02
38 32 0.20
39 59 0.36
40 69 0.42
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:48941201 original size:78 final size:78
Alignment explanation
Indices: 48941058--48941279 Score: 290
Period size: 78 Copynumber: 2.8 Consensus size: 78
48941048 GCTACTCGTT
* * * *
48941058 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
48941123 ATTTAGTAACTCGCA
65 ATTTAGTAACTCG-A
*
48941138 CAAATGCCTTCGGGCTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
48941201 ATTTAGTAACTCGA
65 ATTTAGTAACTCGA
* * * *
48941215 CAAATGCCTTCGGATCTTAGTCC-GATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
48941278 GA
64 GA
48941280 CATCATTCGA
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 20 0.16
78 72 0.57
79 21 0.17
80 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGA
Found at i:48949031 original size:49 final size:49
Alignment explanation
Indices: 48948954--48949412 Score: 693
Period size: 49 Copynumber: 9.4 Consensus size: 49
48948944 ATCAAGATTC
* * * *
48948954 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
48949003 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
48949052 GTGAAAGTATATGTATATGTGATAAGGCCAAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
48949101 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
48949150 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
48949199 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
48949248 GCGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
48949297 GCGAAAGTATATGTATATGTGATAAGGCCAAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
48949346 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
48949395 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
48949413 ATGTGGTAAA
Statistics
Matches: 381, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 381 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:48949536 original size:37 final size:36
Alignment explanation
Indices: 48949481--48949567 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
48949471 AACTTGGAAA
48949481 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
48949519 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
48949556 TATGTCCGGGTA
1 TATGTCCGGGTA
48949568 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:48956414 original size:29 final size:29
Alignment explanation
Indices: 48956381--48956540 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
48956371 GTGACGAGAT
48956381 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
48956410 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
48956439 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
48956468 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
48956497 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
48956526 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
48956541 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:48964464 original size:29 final size:29
Alignment explanation
Indices: 48964431--48964590 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
48964421 GTGACGAGAT
48964431 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
48964460 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
48964489 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
48964518 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
48964547 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
48964576 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
48964591 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:48966728 original size:30 final size:29
Alignment explanation
Indices: 48966694--48966753 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
48966684 TCCTTAACTC
48966694 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGG-AAAATTACAATTTTGCCCCT
* * * *
48966724 AAACTTTTGCAATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTACAATTTTGCCCCT
48966753 A
1 A
48966754 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (29 bp):
AAACTTTGGAAAATTACAATTTTGCCCCT
Found at i:48972631 original size:30 final size:30
Alignment explanation
Indices: 48972595--48972722 Score: 152
Period size: 30 Copynumber: 4.2 Consensus size: 30
48972585 AGAAACATTG
* *
48972595 TCAGAATT-GGAACCAAAATGAGAATCAGAA
1 TCAGAATTAGGAA-CAGAATCAGAATCAGAA
* *
48972625 TCAGAATCAGTAACAGAATCAGAATCAGAA
1 TCAGAATTAGGAACAGAATCAGAATCAGAA
* *
48972655 TCA-ATATTAGTAACAGAATCAGAACCAGAA
1 TCAGA-ATTAGGAACAGAATCAGAATCAGAA
*
48972685 TCAGAATTAGGTGACAGAATCAGAATCAGAA
1 TCAGAATTAGG-AACAGAATCAGAATCAGAA
48972716 TCAGAAT
1 TCAGAAT
48972723 CAGAATCAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
29 1 0.01
30 56 0.66
31 28 0.33
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
TCAGAATTAGGAACAGAATCAGAATCAGAA
Found at i:48972727 original size:43 final size:43
Alignment explanation
Indices: 48972668--48972759 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
48972658 ATATTAGTAA
* *
48972668 CAGAATCAGAACCAGAATCAGAATTAGGTGACAGAATCAGAAT
1 CAGAATCAGAACCAGAATCAGAATTACGTGACAGAATCAGAAC
*
48972711 CAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGAAC
1 CAGAATCAGAACCAGAATCAGAATTACGTGACAGAATCAGAAC
48972754 CAGAAT
1 CAGAAT
48972760 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (43 bp):
CAGAATCAGAACCAGAATCAGAATTACGTGACAGAATCAGAAC
Found at i:48972752 original size:6 final size:6
Alignment explanation
Indices: 48972615--48972734 Score: 131
Period size: 6 Copynumber: 19.8 Consensus size: 6
48972605 AACCAAAATG
*
48972615 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
48972663 AGTAA-C AGAATC AGAACC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
48972712 AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
48972735 TACGTGACAG
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
5 6 0.06
6 84 0.87
7 5 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:48972933 original size:27 final size:26
Alignment explanation
Indices: 48972891--48972992 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
48972881 GCTCAGTTAT
* *
48972891 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
48972918 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
48972944 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
48972972 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
48972993 TTAACAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:48973179 original size:22 final size:22
Alignment explanation
Indices: 48973151--48973215 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
48973141 GTAAATACGT
*
48973151 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
48973173 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
48973195 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
48973216 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:48973689 original size:27 final size:26
Alignment explanation
Indices: 48973632--48973719 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
48973622 AAGGGCAAAA
* *
48973632 TGGTAATTTTACCCTACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTAT-T
*
48973658 TGGTAATTCCACCCTACAGGGGTATT
1 TGGTAATTCTACCCTACAGGGGTATT
48973684 TCGGTAATTCTACCCTACAGGGGTATTT
1 T-GGTAATTCTACCCTACAGGGGTA-TT
48973712 TGGTAATT
1 TGGTAATT
48973720 TTATTGATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 18 0.33
27 34 0.62
28 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAGGGGTATT
Found at i:48973792 original size:54 final size:51
Alignment explanation
Indices: 48973703--48973853 Score: 140
Period size: 54 Copynumber: 2.8 Consensus size: 51
48973693 CTACCCTACA
** * * *
48973703 GGGGTATTTTGGTAATTTTATTGATTGAGGGTATTTCAGTAATTTTGCAAACT
1 GGGGTA-TTTGGTAATTTTA-CAAATGAGGGTATTTCAGTAATTTTACAAACC
* ** *
48973756 GAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACC
1 G-GGGTATTT-GGTAATTTTACAAAT-GAGGGTATTTCAGTAATTTTACAAACC
* * *
48973810 GGTGTACTTTGGTAATTTTACAACTGGGGGTATTTCAGTAATTT
1 GGGGTA-TTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTT
48973854 CATAATCGAG
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
52 15 0.19
53 24 0.30
54 40 0.51
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (51 bp):
GGGGTATTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTTTACAAACC
Found at i:48973850 original size:26 final size:26
Alignment explanation
Indices: 48973677--48973853 Score: 117
Period size: 27 Copynumber: 6.7 Consensus size: 26
48973667 CACCCTACAG
* * *
48973677 GGGTATTTCGGTAATTCTAC-CCTACA
1 GGGTATTTCGGTAATTTTACAACT-GA
* ** *
48973703 GGGGTATTTTGGTAATTTTATTGATTGA
1 -GGGTATTTCGGTAATTTTA-CAACTGA
* *
48973731 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTCGGTAATTTTAC-AACTGA
*
48973758 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAACT-GA
* * * *
48973785 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCGGTAATTTTA-CAACTGA
* *
48973811 GTGTACTTT-GGTAATTTTACAACTGG
1 GGGTA-TTTCGGTAATTTTACAACTGA
*
48973837 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
48973854 CATAATCGAG
Statistics
Matches: 116, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
25 7 0.06
26 27 0.23
27 78 0.67
28 3 0.03
29 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAACTGA
Found at i:48973866 original size:26 final size:24
Alignment explanation
Indices: 48973729--48973867 Score: 66
Period size: 27 Copynumber: 5.3 Consensus size: 24
48973719 TTTATTGATT
*
48973729 GAGGGTATTTCAGTAATTTTGCAAAC
1 GAGGGTATTTCGGTAA-TTT-CAAAC
48973755 TGAGGGTATTTCGGTAATTTTACAAATC
1 -GAGGGTATTTCGGTAA-TTT-CAAA-C
* * *
48973783 GAGGATATTTGGGTAATTTTATAAACC
1 GAGGGTATTTCGGTAA-TTT-CAAA-C
* *
48973810 G-GTGTACTTT-GGTAATTTTACAAC
1 GAGGGTA-TTTCGGTAATTTCA-AAC
* *
48973834 TGGGGGTATTTCAGTAATTTCATAATC
1 -GAGGGTATTTCGGTAATTTCA-AA-C
48973861 GAGGGTA
1 GAGGGTA
48973868 AAATGGTAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.03
25 9 0.10
26 28 0.30
27 51 0.55
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (24 bp):
GAGGGTATTTCGGTAATTTCAAAC
Found at i:48973898 original size:27 final size:27
Alignment explanation
Indices: 48973847--48974053 Score: 238
Period size: 27 Copynumber: 7.7 Consensus size: 27
48973837 GGGTATTTCA
*
48973847 GTAATTTCAT-AATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
48973873 GTAATTTTATAAA-CTGAGGGTAAAATG
1 GTAATTTTATAAATC-GAGGGTAAAATG
* **
48973900 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
48973927 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
48973954 GTAATTCTATAAATCGAAGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * *
48973981 GTAATTTTGTAAATCGAGGGTGAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* ***
48974008 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
48974035 GTAATTTTACAAATTGAGG
1 GTAATTTTATAAATCGAGG
48974054 ACATTTTAGT
Statistics
Matches: 154, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 10 0.06
27 143 0.93
28 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:48973952 original size:81 final size:80
Alignment explanation
Indices: 48973845--48974053 Score: 287
Period size: 81 Copynumber: 2.6 Consensus size: 80
48973835 GGGGGTATTT
48973845 CAGTAATT-TCAT-AATCGAGGGTAAAATGGTAATTTTATAAACTGAGGGTAAAATGGTAATTTT
1 CAGTAATTCT-ATAAATCGAGGGTAAAATGGTAATTTTATAAA-TGAGGGTAAAATGGTAATTTT
48973908 GTAAATCGAGGGTAAAA
64 GTAAATCGAGGGTAAAA
* * *
48973925 CAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAATGGTAATTTTG
1 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAAT-GAGGGTAAAATGGTAATTTTG
*
48973990 TAAATCGAGGGTGAAA
65 TAAATCGAGGGTAAAA
* *** *
48974006 CGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGG
1 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAA-TGAGG
48974054 ACATTTTAGT
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
80 10 0.09
81 102 0.90
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (80 bp):
CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATGAGGGTAAAATGGTAATTTTGT
AAATCGAGGGTAAAA
Found at i:48976052 original size:6 final size:6
Alignment explanation
Indices: 48976041--48976172 Score: 121
Period size: 6 Copynumber: 21.8 Consensus size: 6
48976031 AACCAAAATG
*
48976041 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
48976089 AGTAA-C AGAATC AGAACC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
48976138 AAAATC AGTAA-C AGAATC AGAATC AAAATC AGAAT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
48976173 TACGTGACAG
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.08
6 86 0.83
7 7 0.07
8 2 0.02
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:48976057 original size:30 final size:29
Alignment explanation
Indices: 48976021--48976197 Score: 150
Period size: 30 Copynumber: 6.0 Consensus size: 29
48976011 AGAAACATTG
* * *
48976021 TCAGAATTGGAACCAAAATGAGAATCAGAA
1 TCAGAATTGTAA-CAGAATCAGAATCAGAA
*
48976051 TCAGAATCAGTAACAGAATCAGAATCAGAA
1 TCAGAAT-TGTAACAGAATCAGAATCAGAA
*
48976081 TCA-ATATTAGTAACAGAATCAGAACCAGAA
1 TCAGA-ATT-GTAACAGAATCAGAATCAGAA
* *
48976111 TCAGAATTAGGTGACAGAATCAGAATCAAAA
1 TCAGAATT--GTAACAGAATCAGAATCAGAA
*
48976142 TC---A--GTAACAGAATCAGAATCAAAA
1 TCAGAATTGTAACAGAATCAGAATCAGAA
* *
48976166 TCAGAATTACGTGACAGAATCAGAACCAGAA
1 TCAGAATT--GTAACAGAATCAGAATCAGAA
48976197 T
1 T
48976198 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 23
0.77 0.09 0.15
Matches are distributed among these distances:
24 22 0.18
27 1 0.01
28 1 0.01
29 1 0.01
30 53 0.44
31 43 0.36
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (29 bp):
TCAGAATTGTAACAGAATCAGAATCAGAA
Found at i:48976148 original size:55 final size:55
Alignment explanation
Indices: 48976070--48976190 Score: 197
Period size: 55 Copynumber: 2.2 Consensus size: 55
48976060 GTAACAGAAT
* * * *
48976070 CAGAATCAGAATCAATATTAGTAACAGAATCAGAACCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGTAACAGAATCAGAACCAAAATCAGAATTACGTGA
*
48976125 CAGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAAAATCAGAATTACGTGA
1 CAGAATCAGAATCAAAATCAGTAACAGAATCAGAACCAAAATCAGAATTACGTGA
48976180 CAGAATCAGAA
1 CAGAATCAGAA
48976191 CCAGAATGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.18
Consensus pattern (55 bp):
CAGAATCAGAATCAAAATCAGTAACAGAATCAGAACCAAAATCAGAATTACGTGA
Found at i:48976371 original size:27 final size:26
Alignment explanation
Indices: 48976329--48976430 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
48976319 GCTCAGTTAT
* *
48976329 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
48976356 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
48976382 CAGATATTTGTGGCATAGCCACTAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
48976410 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
48976431 TTAACAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.79
28 7 0.11
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:48976617 original size:22 final size:22
Alignment explanation
Indices: 48976589--48976653 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
48976579 GTAAATACGT
*
48976589 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
48976611 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
48976633 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
48976654 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:48977127 original size:27 final size:26
Alignment explanation
Indices: 48977070--48977157 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
48977060 AAGGGCAAAA
* *
48977070 TGGTAATTTTACCCTACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTAT-T
*
48977096 TGGTAATTCCACCCTACAGGGGTATT
1 TGGTAATTCTACCCTACAGGGGTATT
48977122 TCGGTAATTCTACCCTACAGGGGTATTT
1 T-GGTAATTCTACCCTACAGGGGTA-TT
48977150 TGGTAATT
1 TGGTAATT
48977158 TTATTGATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 18 0.33
27 34 0.62
28 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAGGGGTATT
Found at i:48977230 original size:54 final size:51
Alignment explanation
Indices: 48977141--48977291 Score: 140
Period size: 54 Copynumber: 2.8 Consensus size: 51
48977131 CTACCCTACA
** * * *
48977141 GGGGTATTTTGGTAATTTTATTGATTGAGGGTATTTCAGTAATTTTGCAAACT
1 GGGGTA-TTTGGTAATTTTA-CAAATGAGGGTATTTCAGTAATTTTACAAACC
* ** *
48977194 GAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACC
1 G-GGGTATTT-GGTAATTTTACAAAT-GAGGGTATTTCAGTAATTTTACAAACC
* * *
48977248 GGTGTACTTTGGTAATTTTACAACTGGGGGTATTTCAGTAATTT
1 GGGGTA-TTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTT
48977292 CATAATCGAG
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
52 15 0.19
53 24 0.30
54 40 0.51
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (51 bp):
GGGGTATTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTTTACAAACC
Found at i:48977288 original size:26 final size:26
Alignment explanation
Indices: 48977115--48977291 Score: 117
Period size: 27 Copynumber: 6.7 Consensus size: 26
48977105 CACCCTACAG
* * *
48977115 GGGTATTTCGGTAATTCTAC-CCTACA
1 GGGTATTTCGGTAATTTTACAACT-GA
* ** *
48977141 GGGGTATTTTGGTAATTTTATTGATTGA
1 -GGGTATTTCGGTAATTTTA-CAACTGA
* *
48977169 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTCGGTAATTTTAC-AACTGA
*
48977196 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAACT-GA
* * * *
48977223 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCGGTAATTTTA-CAACTGA
* *
48977249 GTGTACTTT-GGTAATTTTACAACTGG
1 GGGTA-TTTCGGTAATTTTACAACTGA
*
48977275 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
48977292 CATAATCGAG
Statistics
Matches: 116, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
25 7 0.06
26 27 0.23
27 78 0.67
28 3 0.03
29 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAACTGA
Done.