Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 154 of 216
Found at i:48764018 original size:78 final size:80
Alignment explanation
Indices: 48763841--48764035 Score: 216
Period size: 78 Copynumber: 2.5 Consensus size: 80
48763831 CTTGTGATTT
* * **
48763841 ACCACAGAGGCTTTCTTTTCATGGTT-TGCCACAAAGGCTTTCAATTCATTTTACGCCACAAAAG
1 ACCACAAAGGCTTTC-TTTCAT-ATTATGCCACAAAGGCTTTCAATTCAAATTACGCCACAAAAG
* * * *
48763905 CTATTCTTTTATATTGC
64 ATATTCTTTCATACTAC
* * * *
48763922 ACTACAAAGGCTTTCTTTCATATTATGCCACAAAGGCTTTC-TTTCAAATTACGCCATAAAGGAT
1 ACCACAAAGGCTTTCTTTCATATTATGCCACAAAGGCTTTCAATTCAAATTACGCCACAAAAGAT
48763986 -TTCTTTCATACTAC
66 ATTCTTTCATACTAC
* * *
48764000 GCCACAAAGGCTTTCTTTCATACTACGCCACAAAGG
1 ACCACAAAGGCTTTCTTTCATATTATGCCACAAAGG
48764036 TTTTTCCTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 43 0.44
79 19 0.20
80 22 0.23
81 13 0.13
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (80 bp):
ACCACAAAGGCTTTCTTTCATATTATGCCACAAAGGCTTTCAATTCAAATTACGCCACAAAAGAT
ATTCTTTCATACTAC
Found at i:48765732 original size:9 final size:9
Alignment explanation
Indices: 48765718--48765749 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
48765708 TTTGGTTAAA
48765718 AATTAACCG
1 AATTAACCG
48765727 AATTAACCG
1 AATTAACCG
*
48765736 AATTACCCG
1 AATTAACCG
48765745 AATTA
1 AATTA
48765750 TATGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:48767009 original size:8 final size:8
Alignment explanation
Indices: 48766998--48767028 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
48766988 AGTTTAAAGA
48766998 TTAAATTG
1 TTAAATTG
48767006 TTAAATTG
1 TTAAATTG
*
48767014 TTAAGTTG
1 TTAAATTG
48767022 TTAAATT
1 TTAAATT
48767029 TGGCATGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (8 bp):
TTAAATTG
Found at i:48778472 original size:31 final size:29
Alignment explanation
Indices: 48778437--48778512 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
48778427 TAATGGCTCG
*
48778437 GTGACTAAAATGTTACAATACAATAACATAA
1 GTGACTAAAATGTAAC-ATACAA-AACATAA
* * * *
48778468 GTGACTAAAACGTAACATTCCAAATATAA
1 GTGACTAAAATGTAACATACAAAACATAA
48778497 GTGACTAAAATGTAAC
1 GTGACTAAAATGTAAC
48778513 CTGAGGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 21 0.54
30 4 0.10
31 14 0.36
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (29 bp):
GTGACTAAAATGTAACATACAAAACATAA
Found at i:48781425 original size:14 final size:15
Alignment explanation
Indices: 48781402--48781434 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
48781392 ACTCTAGAAA
48781402 TTTT-AAAAAAT-AT
1 TTTTAAAAAAATCAT
48781415 TTTTAAAAAAATCAT
1 TTTTAAAAAAATCAT
48781430 TTTTA
1 TTTTA
48781435 GCCATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 7 0.39
15 7 0.39
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTAAAAAAATCAT
Found at i:48783541 original size:14 final size:14
Alignment explanation
Indices: 48783522--48783548 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48783512 TCCTTATTGG
48783522 AAAAAAATTGTTTA
1 AAAAAAATTGTTTA
48783536 AAAAAAATTGTTT
1 AAAAAAATTGTTT
48783549 TCTTAGAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAAAAATTGTTTA
Found at i:48788535 original size:22 final size:22
Alignment explanation
Indices: 48788507--48788551 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
48788497 AGGTGACATG
48788507 ATATCCACTCCTTTGTGTCGCA
1 ATATCCACTCCTTTGTGTCGCA
48788529 ATATCCACTCCTTTGTGTCGCA
1 ATATCCACTCCTTTGTGTCGCA
48788551 A
1 A
48788552 CACCCACGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (22 bp):
ATATCCACTCCTTTGTGTCGCA
Found at i:48788558 original size:22 final size:22
Alignment explanation
Indices: 48788511--48788558 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
48788501 GACATGATAT
* *
48788511 CCACTCCTTTGTGTCGCAATAT
1 CCACTCCTTTGTGTCGCAACAC
48788533 CCACTCCTTTGTGTCGCAACAC
1 CCACTCCTTTGTGTCGCAACAC
48788555 CCAC
1 CCAC
48788559 GACAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.40, G:0.12, T:0.29
Consensus pattern (22 bp):
CCACTCCTTTGTGTCGCAACAC
Found at i:48789776 original size:26 final size:26
Alignment explanation
Indices: 48789690--48789882 Score: 224
Period size: 26 Copynumber: 7.3 Consensus size: 26
48789680 TCATGGTTTT
* * *
48789690 CCACAAAGGCTTTCAATTCATTTTATG
1 CCACAAAGGCTTTC-TTTCATATTACG
* * *
48789717 CCACAAAGGCTACTCTTTCATATTGCA
1 CCACAAAGGCT-TTCTTTCATATTACG
* * *
48789744 CCTCAAAGGCATTCTTTCATGTTACG
1 CCACAAAGGCTTTCTTTCATATTACG
* *
48789770 CCACAAAGGCTTTGTTTCATATTACA
1 CCACAAAGGCTTTCTTTCATATTACG
* *
48789796 CCACAAAGGCTTTGTTTCATATTACA
1 CCACAAAGGCTTTCTTTCATATTACG
*
48789822 CCACAAAGGCTTTCTTTCATACTACG
1 CCACAAAGGCTTTCTTTCATATTACG
* *
48789848 CCACAAAGGCTTCCTTTCATACTACG
1 CCACAAAGGCTTTCTTTCATATTACG
48789874 CCACAAAGG
1 CCACAAAGG
48789883 TTTTTCCTTA
Statistics
Matches: 144, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 115 0.80
27 27 0.19
28 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATATTACG
Found at i:48789837 original size:78 final size:79
Alignment explanation
Indices: 48789662--48789882 Score: 239
Period size: 78 Copynumber: 2.8 Consensus size: 79
48789652 CTCGTGATTT
* ** * * *
48789662 ACCACAGAGGCTTTCTTTTCATGGTT-TTCCACAAAGGCTTTCAATTCATTTTATGCCACAAAGG
1 ACCACAAAGGCTTTC-TTTCAT-GTTACGCCACAAAGGCTTT-ATTTCATATTACGCCACAAAGG
*
48789726 CTACTCTTTCATATTGC
63 CTACTCTTTCATATTAC
* * * *
48789743 ACCTCAAAGGCATTCTTTCATGTTACGCCACAAAGGCTTTGTTTCATATTACACCACAAAGGCT-
1 ACCACAAAGGCTTTCTTTCATGTTACGCCACAAAGGCTTTATTTCATATTACGCCACAAAGGCTA
* *
48789807 TTGTTTCATATTAC
66 CTCTTTCATATTAC
** ** *
48789821 ACCACAAAGGCTTTCTTTCATACTACGCCACAAAGGCTTCCTTTCATACTACGCCACAAAGG
1 ACCACAAAGGCTTTCTTTCATGTTACGCCACAAAGGCTTTATTTCATATTACGCCACAAAGG
48789883 TTTTTCCTTA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
78 65 0.55
79 22 0.19
80 19 0.16
81 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (79 bp):
ACCACAAAGGCTTTCTTTCATGTTACGCCACAAAGGCTTTATTTCATATTACGCCACAAAGGCTA
CTCTTTCATATTAC
Found at i:48794248 original size:21 final size:21
Alignment explanation
Indices: 48794213--48794267 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
48794203 CATGGTTTGC
* *
48794213 TCACATGGTCATGTGACCC-A
1 TCACACGGCCATGTGACCCAA
48794233 TCTACACGGCCATGTGACCCAA
1 TC-ACACGGCCATGTGACCCAA
*
48794255 TCACATGGCCATG
1 TCACACGGCCATG
48794268 GGGCCTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (21 bp):
TCACACGGCCATGTGACCCAA
Found at i:48796413 original size:28 final size:28
Alignment explanation
Indices: 48796348--48796470 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
48796338 GAGATTGGCG
* * * *
48796348 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
48796377 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
48796405 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
48796433 CGAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
48796460 CTGAGTGTGCG
1 CTAAGTGTGCG
48796471 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:48796481 original size:27 final size:27
Alignment explanation
Indices: 48796373--48796483 Score: 91
Period size: 28 Copynumber: 4.0 Consensus size: 27
48796363 TAAATTGTAC
* * * *
48796373 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACGAAGTGTGCGA-CTTGAATATAT
* * *
48796401 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACGAAGTGTGCGA-CTTGAATATAT
* *
48796429 AGCACGAAGTGTGCGAGTTGATTATAT
1 AGCACGAAGTGTGCGACTTGAATATAT
48796456 AGCACTG-AGTGTGCGGACTT-AATATAT
1 AGCAC-GAAGTGTGC-GACTTGAATATAT
48796483 A
1 A
48796484 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.38
28 47 0.62
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
AGCACGAAGTGTGCGACTTGAATATAT
Found at i:48800691 original size:27 final size:28
Alignment explanation
Indices: 48800661--48800751 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 28
48800651 ACAGAGTCTC
48800661 GCCACAAAAGC-ATCATTTAAGAGGTTT
1 GCCACAAAAGCTATCATTTAAGAGGTTT
* * * * *
48800688 GCCACGAAGGCTTAGCCTTCT-AGAGTTTT
1 GCCACAAAAGC-TATCATT-TAAGAGGTTT
* *
48800717 GCCACAAAAGCTATCATTTAACAGG-TC
1 GCCACAAAAGCTATCATTTAAGAGGTTT
48800744 GCCACAAA
1 GCCACAAA
48800752 GGCTTGCCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
27 19 0.40
28 8 0.17
29 20 0.42
30 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (28 bp):
GCCACAAAAGCTATCATTTAAGAGGTTT
Found at i:48800721 original size:56 final size:56
Alignment explanation
Indices: 48800661--48800793 Score: 155
Period size: 56 Copynumber: 2.4 Consensus size: 56
48800651 ACAGAGTCTC
* * * * *
48800661 GCCACAAAAGC-ATCATTTAAGAGGTTTGCCACGAAGGCTTAGCC-TTCTAGAGTTTT
1 GCCACAAAAGCTATCATTTAACAGG-TCGCCACAAAGGCTT-GCCTTTCTACAGTTCT
48800717 GCCACAAAAGCTATCATTTAACAGGTCGCCACAAAGGCTTGCCTTTCTACAGTTCT
1 GCCACAAAAGCTATCATTTAACAGGTCGCCACAAAGGCTTGCCTTTCTACAGTTCT
* *
48800773 GGCAC-AAAGACTGTCATTTAA
1 GCCACAAAAG-CTATCATTTAA
48800794 TAGTTGTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
55 7 0.10
56 48 0.72
57 12 0.18
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (56 bp):
GCCACAAAAGCTATCATTTAACAGGTCGCCACAAAGGCTTGCCTTTCTACAGTTCT
Found at i:48807907 original size:12 final size:12
Alignment explanation
Indices: 48807890--48807936 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
48807880 GGAAACTAGA
48807890 TTTTTTTCGAAT
1 TTTTTTTCGAAT
*
48807902 TTTTTTTTGAATT
1 TTTTTTTCGAA-T
*
48807915 TTTTTTTCGAGT
1 TTTTTTTCGAAT
48807927 TTTTTTTCGA
1 TTTTTTTCGA
48807937 GAAACTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.13, C:0.06, G:0.11, T:0.70
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:48807908 original size:13 final size:13
Alignment explanation
Indices: 48807890--48807933 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
48807880 GGAAACTAGA
48807890 TTTTTTTCGAATT
1 TTTTTTTCGAATT
48807903 TTTTTTT-GAATT
1 TTTTTTTCGAATT
*
48807915 TTTTTTTCGAGTT
1 TTTTTTTCGAATT
48807928 TTTTTT
1 TTTTTT
48807934 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (13 bp):
TTTTTTTCGAATT
Found at i:48808972 original size:21 final size:23
Alignment explanation
Indices: 48808927--48808973 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48808917 TCACCTGCAA
* *
48808927 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
48808950 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
48808971 TAA
1 TAA
48808974 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:48812573 original size:28 final size:29
Alignment explanation
Indices: 48812536--48812597 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
48812526 GGACTTATCT
48812536 TTTA-TTCTTGCTG-TTCAATTTCT-TTTC
1 TTTATTTCTTGCTGTTTC-ATTTCTATTTC
*
48812563 TTTATTTCTTGCTGTTTCATTTTTATTTC
1 TTTATTTCTTGCTGTTTCATTTCTATTTC
48812592 TTTATT
1 TTTATT
48812598 CCTACTTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 13 0.42
ACGTcount: A:0.11, C:0.15, G:0.06, T:0.68
Consensus pattern (29 bp):
TTTATTTCTTGCTGTTTCATTTCTATTTC
Found at i:48816976 original size:15 final size:15
Alignment explanation
Indices: 48816952--48816981 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48816942 TCCATGTAGT
*
48816952 AGGATTTGATTTATC
1 AGGATATGATTTATC
48816967 AGGATATGATTTATC
1 AGGATATGATTTATC
48816982 CCTCCTACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
AGGATATGATTTATC
Found at i:48819734 original size:38 final size:38
Alignment explanation
Indices: 48819657--48819762 Score: 139
Period size: 38 Copynumber: 2.8 Consensus size: 38
48819647 ATGGGTAAAA
*
48819657 AATCTCATTTCTAAATTTATTTGCT-GATATTTTATTTTT
1 AATCTCATTTCTAAATTTA-TTG-TAAATATTTTATTTTT
*
48819696 AATCTCGTTTCTAAATTTATTGTAAATATTTTATTTTT
1 AATCTCATTTCTAAATTTATTGTAAATATTTTATTTTT
*
48819734 AATCACATTTCT-AATTTA-T-TAAATATTTT
1 AATCTCATTTCTAAATTTATTGTAAATATTTT
48819763 GAAACACTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
35 10 0.16
36 1 0.02
37 7 0.11
38 26 0.42
39 18 0.29
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (38 bp):
AATCTCATTTCTAAATTTATTGTAAATATTTTATTTTT
Found at i:48822754 original size:25 final size:26
Alignment explanation
Indices: 48822720--48822771 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
48822710 TTGTTTGTGG
* *
48822720 TTTACGGGTTTAATATTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
48822746 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
48822771 T
1 T
48822772 GTTTACGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.21, T:0.48
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:48823083 original size:15 final size:16
Alignment explanation
Indices: 48823051--48823089 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
48823041 GAAATTCTAG
48823051 ATTAATATAAATGAAA
1 ATTAATATAAATGAAA
48823067 A-TAATATAAAT-ATAA
1 ATTAATATAAATGA-AA
48823082 ATTAATAT
1 ATTAATAT
48823090 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 13 0.62
16 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTAATATAAATGAAA
Found at i:48826400 original size:20 final size:20
Alignment explanation
Indices: 48826372--48826539 Score: 127
Period size: 20 Copynumber: 8.7 Consensus size: 20
48826362 TGGAAATAAC
*
48826372 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
48826392 ATAATATTAAGATTACTTAT
1 ATAATATTAAGATAACTTAT
* * *
48826412 ATAGTATTAAGACAAAATT-T
1 ATAATATTAAGA-TAACTTAT
* *
48826432 CT-A-ATT-ATATAACTTAT
1 ATAATATTAAGATAACTTAT
48826449 ATAAATATTAAGATAACTTAT
1 AT-AATATTAAGATAACTTAT
*
48826470 ATAATATTAAGATAAAATT-T
1 ATAATATTAAGAT-AACTTAT
* * *
48826490 CT-A-ATT-ACATAACTTCT
1 ATAATATTAAGATAACTTAT
*
48826507 ATAATATTAAGATAAGTTAT
1 ATAATATTAAGATAACTTAT
* *
48826527 ATTATTTTAAGAT
1 ATAATATTAAGAT
48826540 TAAATTTGGA
Statistics
Matches: 114, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
16 8 0.07
17 9 0.08
18 7 0.06
19 5 0.04
20 66 0.58
21 19 0.17
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:48826539 original size:57 final size:57
Alignment explanation
Indices: 48826383--48826573 Score: 258
Period size: 57 Copynumber: 3.3 Consensus size: 57
48826373 TAAAATTAAG
* * *
48826383 ATAACTTATATAATATTAAGATTACTTATA-TAGTATTAAGACAAAATTTCTAATTAT
1 ATAACTTATATAATATTAAGATAACTTATATTA-TATTAAGATAAAATTTCTAATTAC
*
48826440 ATAACTTATATAAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTAC
1 ATAACTTATAT-AATATTAAGATAACTTATATTATATTAAGATAAAATTTCTAATTAC
* * * * **
48826498 ATAACTTCTATAATATTAAGATAAGTTATATTATTTTAAGATTAAATTTGGAATTAC
1 ATAACTTATATAATATTAAGATAACTTATATTATATTAAGATAAAATTTCTAATTAC
*
48826555 ATAACTTATATAATGTTAA
1 ATAACTTATATAATATTAA
48826574 ATTGTAATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
57 68 0.57
58 50 0.42
59 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAACTTATATTATATTAAGATAAAATTTCTAATTAC
Found at i:48826567 original size:94 final size:90
Alignment explanation
Indices: 48826461--48826701 Score: 258
Period size: 94 Copynumber: 2.6 Consensus size: 90
48826451 AAATATTAAG
*
48826461 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTCTATAATATTAAGATAAGTTA
1 ATAACTTATATAATATTAA-AT--AATTTCTAATTACATAACTT-TATAATATTAAGATAACTTA
** * * *
48826526 TATTATTTTAAGATTAAATTTGGAATTAC
62 TACAATATTAAGATAAAATTTCGAATTAC
* * * *
48826555 ATAACTTATATAATGTTAAATTGTAATTTCTAAGTACACATAAATTTAT-ATATTTAGATAACTT
1 ATAACTTATATAATATTAAA---TAATTTCTAA-T-TACATAACTTTATAATATTAAGATAACTT
48826619 ATACAATATTAAGATAAAATTTCGAATTAC
61 ATACAATATTAAGATAAAATTTCGAATTAC
*
48826649 ATAACTTATATAATA-T---TAATTTCTCATTACATAACTTATATAATATTAAGATA
1 ATAACTTATATAATATTAAATAATTTCTAATTACATAACTT-TATAATATTAAGATA
48826702 CAATTTCTAA
Statistics
Matches: 125, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
85 8 0.06
86 4 0.03
87 19 0.15
93 2 0.02
94 79 0.63
95 4 0.03
96 9 0.07
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (90 bp):
ATAACTTATATAATATTAAATAATTTCTAATTACATAACTTTATAATATTAAGATAACTTATACA
ATATTAAGATAAAATTTCGAATTAC
Found at i:48826654 original size:37 final size:35
Alignment explanation
Indices: 48826612--48826718 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 35
48826602 ATATATTTAG
*
48826612 ATAACTTATACAATATTAAGATAAAATTTCGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTC-AATTAC
48826649 ATAACTTATATAATATT-A-AT---TTCTC-ATTAC
1 ATAACTTATATAATATTAAGATAAATT-TCAATTAC
48826679 ATAACTTATATAATATTAAGATACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATA-AATTTC-AATTAC
48826716 ATA
1 ATA
48826719 TCAGTTTCTA
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
30 22 0.37
31 3 0.05
32 4 0.07
35 4 0.07
36 3 0.05
37 24 0.40
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (35 bp):
ATAACTTATATAATATTAAGATAAATTTCAATTAC
Found at i:48826823 original size:9 final size:9
Alignment explanation
Indices: 48826807--48827168 Score: 130
Period size: 9 Copynumber: 43.3 Consensus size: 9
48826797 CACAACTTAA
48826807 TACATAACT
1 TACATAACT
*
48826816 TTCATAACT
1 TACATAACT
48826825 TAACATAA--
1 T-ACATAACT
48826833 TACATAACGT
1 TACATAAC-T
48826843 T-CATAACT
1 TACATAACT
*
48826851 TACATTA-T
1 TACATAACT
*
48826859 T-CACAACT
1 TACATAACT
48826867 TACATAA--
1 TACATAACT
*
48826874 TACACAACTT
1 TACATAAC-T
48826884 AATACATAACT
1 --TACATAACT
*
48826895 TTCATAACT
1 TACATAACT
*
48826904 TACATTA-T
1 TACATAACT
*
48826912 T-CACAACT
1 TACATAACT
* *
48826920 TACGTAGCT
1 TACATAACT
48826929 TA-AT-AC-
1 TACATAACT
*
48826935 -AAATTAACT
1 TACA-TAACT
48826944 TAGACATAACT
1 T--ACATAACT
48826955 TACAT-A--
1 TACATAACT
48826961 T--ATAACT
1 TACATAACT
*
48826968 CACATAACT
1 TACATAACT
*
48826977 TACATAGCT
1 TACATAACT
48826986 T--ATAACT
1 TACATAACT
* *
48826993 GA-ACAACT
1 TACATAACT
*
48827001 TACATAACA
1 TACATAACT
*
48827010 AACATAA--
1 TACATAACT
* *
48827017 TATATAACC
1 TACATAACT
*
48827026 GACATAACT
1 TACATAACT
*
48827035 AACATAA--
1 TACATAACT
*
48827042 TACATAGCT
1 TACATAACT
48827051 TACATAA--
1 TACATAACT
*
48827058 TACACAACT
1 TACATAACT
*
48827067 TACATAGCT
1 TACATAACT
48827076 TACAT-AC-
1 TACATAACT
*
48827083 TAAATAACT
1 TACATAACT
48827092 TACATAA--
1 TACATAACT
*
48827099 -ATATAACT
1 TACATAACT
*
48827107 TACATAGCT
1 TACATAACT
*
48827116 CACATAA--
1 TACATAACT
*
48827123 TACGTAACT
1 TACATAACT
48827132 TACATAACT
1 TACATAACT
*
48827141 TATATAA--
1 TACATAACT
48827148 TACATAACT
1 TACATAACT
*
48827157 TACATAATT
1 TACATAACT
48827166 TAC
1 TAC
48827169 TTAATACAGA
Statistics
Matches: 255, Mismatches: 55, Indels: 86
0.64 0.14 0.22
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 7 0.03
7 56 0.22
8 24 0.09
9 142 0.56
10 6 0.02
11 7 0.03
12 9 0.04
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:48826861 original size:16 final size:16
Alignment explanation
Indices: 48826842--48826922 Score: 72
Period size: 16 Copynumber: 4.8 Consensus size: 16
48826832 ATACATAACG
* *
48826842 TTCATAACTTACATTA
1 TTCACAACTTACATAA
48826858 TTCACAACTTACATAA
1 TTCACAACTTACATAA
*
48826874 TACACAACTTAATACATAA
1 TTCACAAC-T--TACATAA
* *
48826893 CTTTCATAACTTACATTA
1 --TTCACAACTTACATAA
48826911 TTCACAACTTAC
1 TTCACAACTTAC
48826923 GTAGCTTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
16 32 0.60
17 1 0.02
18 6 0.11
19 7 0.13
20 1 0.02
21 6 0.11
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (16 bp):
TTCACAACTTACATAA
Found at i:48827046 original size:16 final size:16
Alignment explanation
Indices: 48827027--48827164 Score: 80
Period size: 16 Copynumber: 9.0 Consensus size: 16
48827017 TATATAACCG
*
48827027 ACATAACTAACATAAT
1 ACATAACTTACATAAT
*
48827043 ACATAGCTTACATAAT
1 ACATAACTTACATAAT
*
48827059 AC---AC-AAC-T--T
1 ACATAACTTACATAAT
* *
48827068 ACATAGCTTACATACT
1 ACATAACTTACATAAT
*
48827084 AAATAACTTACATAA-
1 ACATAACTTACATAAT
* *
48827099 ATATAACTTACATAGCT
1 ACATAACTTACATA-AT
*
48827116 CACATAA--TACGTAACTT
1 -ACATAACTTACATAA--T
*
48827133 ACATAACTTATATAAT
1 ACATAACTTACATAAT
48827149 ACATAACTTACATAAT
1 ACATAACTTACATAAT
48827165 TTACTTAATA
Statistics
Matches: 91, Mismatches: 17, Indels: 28
0.67 0.12 0.21
Matches are distributed among these distances:
9 3 0.03
11 1 0.01
12 3 0.03
13 3 0.03
14 1 0.01
15 13 0.14
16 56 0.62
17 1 0.01
18 10 0.11
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:48827055 original size:25 final size:25
Alignment explanation
Indices: 48826999--48827089 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
48826989 AACTGAACAA
* * *
48826999 CTTACATAACAAACATAATATATAA
1 CTTACATAACTAACATAATACATAG
**
48827024 CCGACATAACTAACATAATACATAG
1 CTTACATAACTAACATAATACATAG
*
48827049 CTTACATAA-TACACA-ACTTACATAG
1 CTTACATAACTA-ACATA-ATACATAG
48827074 CTTACAT-ACTAA-ATAA
1 CTTACATAACTAACATAA
48827090 CTTACATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 6 0.11
25 46 0.87
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.26
Consensus pattern (25 bp):
CTTACATAACTAACATAATACATAG
Found at i:48827091 original size:25 final size:25
Alignment explanation
Indices: 48827042--48827097 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
48827032 ACTAACATAA
*
48827042 TACATAGCTTACATAATACACAACT
1 TACATAGCTTACATAATAAACAACT
* *
48827067 TACATAGCTTACATACTAAATAACT
1 TACATAGCTTACATAATAAACAACT
48827092 TACATA
1 TACATA
48827098 AATATAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (25 bp):
TACATAGCTTACATAATAAACAACT
Found at i:48827137 original size:65 final size:65
Alignment explanation
Indices: 48827042--48827163 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 65
48827032 ACTAACATAA
* * *
48827042 TACATAGCTTACATAATACACAACTTACATAGCTTACATACTAAATAACTTACATAAATATAACT
1 TACATAGCTCACATAATACACAACTTACATAACTTACATAATAAATAACTTACATAAATATAACT
** * *
48827107 TACATAGCTCACATAATACGTAACTTACATAACTTATATAATACATAACTTACATAA
1 TACATAGCTCACATAATACACAACTTACATAACTTACATAATAAATAACTTACATAA
48827164 TTTACTTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (65 bp):
TACATAGCTCACATAATACACAACTTACATAACTTACATAATAAATAACTTACATAAATATAACT
Found at i:48827173 original size:25 final size:25
Alignment explanation
Indices: 48827086--48827176 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
48827076 TACATACTAA
* *
48827086 ATAACTTACATAA-ATATAACTTAC
1 ATAACTTACTTAATACATAACTTAC
* * * *
48827110 ATAGCTCACATAATACGTAACTTAC
1 ATAACTTACTTAATACATAACTTAC
48827135 ATAACTTA-TATAATACATAACTTAC
1 ATAACTTACT-TAATACATAACTTAC
*
48827160 ATAATTTACTTAATACA
1 ATAACTTACTTAATACA
48827177 GAAATATATA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.20
25 43 0.78
26 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAACTTACTTAATACATAACTTAC
Found at i:48830087 original size:43 final size:43
Alignment explanation
Indices: 48830025--48830333 Score: 419
Period size: 43 Copynumber: 7.2 Consensus size: 43
48830015 TCTGCCAAAA
* *
48830025 TTAGCGGCGTTTGTGGGAGAAGCGCCGCTAACGGTCTTGGTCT
1 TTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTCT
* *
48830068 TTAGCGGCATTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTTT
1 TTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTCT
* **
48830111 TTAGTGGCGTTTGTAAAAGAAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTCT
* * *
48830154 TTAGCAGCGTTTGTGGGAGAAGCGCAGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTCT
*
48830197 TTAGCGGCGTTTGT-GGA-ATTAGCACCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTAGGAGA--AGCGCCGCTAAAGGTCTTGGTCT
* *
48830240 TTAGCAGCGTTTGTGTGGA-AAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGT-AGGAGAAGCGCCGCTAAAGGTCTTGGTCT
* *
48830283 TTAGCGGCGTTTGTGTGGA-AAGCGCCGCTAAAGGTCTTGATCT
1 TTAGCGGCGTTTGT-AGGAGAAGCGCCGCTAAAGGTCTTGGTCT
48830326 TTAGCGGC
1 TTAGCGGC
48830334 ATTTTTTTGT
Statistics
Matches: 240, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 232 0.97
45 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTCT
Found at i:48830432 original size:22 final size:22
Alignment explanation
Indices: 48830401--48830442 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48830391 CGGCGCTTTC
*
48830401 AAAGCACCGCTAAAGGCCTAAA
1 AAAGCACCGCTAAAAGCCTAAA
*
48830423 AAAGCGCCGCTAAAAGCCTA
1 AAAGCACCGCTAAAAGCCTA
48830443 TTTTGGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAGCACCGCTAAAAGCCTAAA
Found at i:48831092 original size:22 final size:21
Alignment explanation
Indices: 48831045--48831093 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
48831035 TTTCATTAAC
48831045 CTAGTTTCTTTATTTAAGATT
1 CTAGTTTCTTTATTTAAGATT
*
48831066 -TAGTTTCGTTT-TCTTAAGGTT
1 CTAGTTTC-TTTAT-TTAAGATT
48831087 CTAGTTT
1 CTAGTTT
48831094 TTAGTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.18, C:0.10, G:0.14, T:0.57
Consensus pattern (21 bp):
CTAGTTTCTTTATTTAAGATT
Found at i:48835721 original size:14 final size:14
Alignment explanation
Indices: 48835704--48835734 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48835694 ACATAAGCAG
48835704 TCACTAAGGTTCAC
1 TCACTAAGGTTCAC
48835718 TCACTAAGGTTCAC
1 TCACTAAGGTTCAC
48835732 TCA
1 TCA
48835735 AAGCATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (14 bp):
TCACTAAGGTTCAC
Found at i:48836991 original size:14 final size:14
Alignment explanation
Indices: 48836972--48837019 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
48836962 AAGTCTGAAA
48836972 AATAAAAAAATAAC
1 AATAAAAAAATAAC
48836986 AATAAAAAAACT-AC
1 AATAAAAAAA-TAAC
48837000 AAATAAAAAAA-AAC
1 -AATAAAAAAATAAC
48837014 -ATAAAA
1 AATAAAA
48837020 CATAAAACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.19
14 14 0.45
15 11 0.35
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.12
Consensus pattern (14 bp):
AATAAAAAAATAAC
Found at i:48836993 original size:15 final size:15
Alignment explanation
Indices: 48836971--48837011 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
48836961 TAAGTCTGAA
48836971 AAAT-AAAAAAATA-
1 AAATAAAAAAAATAC
*
48836984 ACAATAAAAAAACTAC
1 A-AATAAAAAAAATAC
48837000 AAATAAAAAAAA
1 AAATAAAAAAAA
48837012 ACATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 3 0.13
15 18 0.78
16 1 0.04
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (15 bp):
AAATAAAAAAAATAC
Found at i:48837032 original size:29 final size:28
Alignment explanation
Indices: 48836970--48837035 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
48836960 ATAAGTCTGA
*
48836970 AAAATAAAAAAATAACAATAAAAAAACT
1 AAAATAAAAAAATAACAAAAAAAAAACT
48836998 ACAAATAAAAAAA-AACATAAAACATAAAACT
1 A-AAATAAAAAAATAACA-AAAA-A-AAAACT
48837029 -AAATAAA
1 AAAATAAA
48837036 TTCACTGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 5 0.15
29 21 0.64
30 1 0.03
31 6 0.18
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (28 bp):
AAAATAAAAAAATAACAAAAAAAAAACT
Found at i:48853846 original size:20 final size:20
Alignment explanation
Indices: 48853821--48853859 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48853811 GCTACTCATA
48853821 TTTTTAAAA-ACTTATCAGAG
1 TTTTTAAAACACTTA-CAGAG
48853841 TTTTTAAAACACTTACAGA
1 TTTTTAAAACACTTACAGA
48853860 ATCGGTGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTTAAAACACTTACAGAG
Found at i:48857309 original size:29 final size:29
Alignment explanation
Indices: 48857251--48857315 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
48857241 TTAATTTCTT
*
48857251 TTTC-TTTTAATTTTTCTTTTTTTAGTTA
1 TTTCGTTTTAATTTTTATTTTTTTAGTTA
48857279 TTT-GTTTT-ATTTTTATTTTTTTAGACTTA
1 TTTCGTTTTAATTTTTATTTTTTTAG--TTA
48857308 TTTCGTTT
1 TTTCGTTT
48857316 ATTATCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 15 0.47
28 7 0.22
29 6 0.19
30 4 0.12
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (29 bp):
TTTCGTTTTAATTTTTATTTTTTTAGTTA
Found at i:48865460 original size:27 final size:27
Alignment explanation
Indices: 48865430--48865493 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
48865420 CCTCACGTGG
* *
48865430 TAAAATGATTGTTATACCCCTATGCTA
1 TAAAATGACTATTATACCCCTATGCTA
* *
48865457 TAAAATGACTATTATTCCCCTATGTTA
1 TAAAATGACTATTATACCCCTATGCTA
48865484 TAAAATGACT
1 TAAAATGACT
48865494 GTATGATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (27 bp):
TAAAATGACTATTATACCCCTATGCTA
Found at i:48872938 original size:27 final size:27
Alignment explanation
Indices: 48872905--48873054 Score: 200
Period size: 27 Copynumber: 5.6 Consensus size: 27
48872895 CCCTAAACTA
48872905 TTATAAAATGACTGTTATG-CCCTCACG
1 TTATAAAATGACTGTTATGCCCCT-ACG
48872932 -TAGTAAAATGACTGTTATG-CCCTCACG
1 TTA-TAAAATGACTGTTATGCCCCT-ACG
* *
48872959 -TAGTAAAATGACTGTTAAGCCCCTATG
1 TTA-TAAAATGACTGTTATGCCCCTACG
*
48872986 TTATAAAATGACTGTTATGCCCCTATG
1 TTATAAAATGACTGTTATGCCCCTACG
*
48873013 TTATAAAATGACTGTTATGCCCCTATG
1 TTATAAAATGACTGTTATGCCCCTACG
48873040 TTATAAAATGACTGT
1 TTATAAAATGACTGT
48873055 ATGATTTATG
Statistics
Matches: 117, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
26 2 0.02
27 109 0.93
28 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (27 bp):
TTATAAAATGACTGTTATGCCCCTACG
Found at i:48875320 original size:24 final size:26
Alignment explanation
Indices: 48875287--48875339 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
48875277 TTTAATTATA
48875287 ATTTAATATAAACACAT-ATAATATT
1 ATTTAATATAAACACATAATAATATT
*
48875312 ATTT-ATATAAACATATAAATAATATT
1 ATTTAATATAAACACAT-AATAATATT
48875338 AT
1 AT
48875340 ACTTTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 11 0.44
25 4 0.16
26 10 0.40
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTTAATATAAACACATAATAATATT
Found at i:48877390 original size:353 final size:353
Alignment explanation
Indices: 48876744--48877449 Score: 1385
Period size: 353 Copynumber: 2.0 Consensus size: 353
48876734 TTTTTCTTTT
*
48876744 TTATGATTACTATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
1 TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
48876809 ACGATCTAGTTCAGAAACCAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
66 ACGATCTAGTTCAGAAACCAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
48876874 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
131 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
48876939 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCGCAGAGGCCATGGTTGG
196 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCGCAGAGGCCATGGTTGG
48877004 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
261 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
48877069 TCGAGCCATCCCTCAGAATTGGATCTAC
326 TCGAGCCATCCCTCAGAATTGGATCTAC
48877097 TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
1 TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
48877162 ACGATCTAGTTCAGAAACCAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
66 ACGATCTAGTTCAGAAACCAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
48877227 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
131 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
**
48877292 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGATTCGCAGAGGCCATGGTTGG
196 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCGCAGAGGCCATGGTTGG
48877357 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
261 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
48877422 TCGAGCCATCCCTCAGAATTGGATCTAC
326 TCGAGCCATCCCTCAGAATTGGATCTAC
48877450 AACTTCCAAA
Statistics
Matches: 350, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
353 350 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (353 bp):
TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
ACGATCTAGTTCAGAAACCAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCGCAGAGGCCATGGTTGG
TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
TCGAGCCATCCCTCAGAATTGGATCTAC
Found at i:48880419 original size:29 final size:28
Alignment explanation
Indices: 48880387--48880447 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 28
48880377 AATATTTTAA
48880387 TTTTTTAATTTGTTT-AATTTTAAAATATT
1 TTTTTTAATTT-TTTAAATTTTAAAAT-TT
48880416 TTTTTTAATTTTTTAAATTTTAAAATTT
1 TTTTTTAATTTTTTAAATTTTAAAATTT
48880444 TTTT
1 TTTT
48880448 AAAATACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTTTAATTTTTTAAATTTTAAAATTT
Found at i:48880445 original size:18 final size:18
Alignment explanation
Indices: 48880424--48880490 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 18
48880414 TTTTTTTTAA
48880424 TTTTTTAAATTTTAAAAT
1 TTTTTTAAATTTTAAAAT
**
48880442 TTTTTTAAAATACTTTTTTAAT
1 TTTTTT--AA-A-TTTTAAAAT
48880464 TTTTTTAAATTTTAAAAT
1 TTTTTTAAATTTTAAAAT
*
48880482 ATTTTTAAA
1 TTTTTTAAA
48880491 ATACTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
18 21 0.52
19 1 0.03
20 4 0.10
21 1 0.03
22 13 0.32
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTTAAATTTTAAAAT
Found at i:48880458 original size:29 final size:29
Alignment explanation
Indices: 48880402--48880458 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
48880392 TAATTTGTTT
** *
48880402 AATTTTAAAATATTTTTTTTAATTTTTTA
1 AATTTTAAAATATTTTTTAAAATCTTTTA
48880431 AATTTTAAAAT-TTTTTTAAAATACTTTT
1 AATTTTAAAATATTTTTTAAAAT-CTTTT
48880459 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
AATTTTAAAATATTTTTTAAAATCTTTTA
Found at i:48880459 original size:40 final size:40
Alignment explanation
Indices: 48880404--48880508 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
48880394 ATTTGTTTAA
* *
48880404 TTTTAAAATATTTTTTTTAATTTTTTAAATTTTAAAATTT
1 TTTTAAAATACTTTTTTTAATTTTTTAAATTTTAAAATAT
48880444 TTTTAAAATAC-TTTTTTAATTTTTTTAAATTTTAAAATAT
1 TTTTAAAATACTTTTTTTAA-TTTTTTAAATTTTAAAATAT
48880484 TTTTAAAATACTTTTTTTAATTTTT
1 TTTTAAAATACTTTTTTTAATTTTT
48880509 GTTTTAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
39 8 0.13
40 45 0.74
41 8 0.13
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTTAATTTTTTAAATTTTAAAATAT
Found at i:48880493 original size:11 final size:11
Alignment explanation
Indices: 48880433--48880499 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
48880423 ATTTTTTAAA
*
48880433 TTTTAAAATTT
1 TTTTAAAATAT
48880444 TTTTAAAATACT
1 TTTTAAAATA-T
*
48880456 TTTT-TAAT-T
1 TTTTAAAATAT
*
48880465 TTTT-TAA-A-
1 TTTTAAAATAT
48880473 TTTTAAAATAT
1 TTTTAAAATAT
48880484 TTTTAAAATACT
1 TTTTAAAATA-T
48880496 TTTT
1 TTTT
48880500 TTAATTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
8 4 0.09
9 10 0.21
10 1 0.02
11 22 0.47
12 10 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:48880974 original size:48 final size:48
Alignment explanation
Indices: 48880922--48881019 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 48
48880912 TTTTTTTTGG
*
48880922 AGGCA-CAACTTTCAATGAATTATTTTTTAGTGTTAA-TTCTAGATGTGA
1 AGGCACCAACTTTCAATGAATTA-CTTTTAGTGTTAACTT-TAGATGTGA
*
48880970 AGGCACCAACTTTCAATGGATTACTTTTAGTGTTAACTTTAGATGTGA
1 AGGCACCAACTTTCAATGAATTACTTTTAGTGTTAACTTTAGATGTGA
48881018 AG
1 AG
48881020 ACACTAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 28 0.61
49 18 0.39
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (48 bp):
AGGCACCAACTTTCAATGAATTACTTTTAGTGTTAACTTTAGATGTGA
Found at i:48883589 original size:26 final size:27
Alignment explanation
Indices: 48883537--48883617 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
48883527 AGACTATCCA
*
48883537 TTCATAATTCACCATAAAAGCTTTTCT
1 TTCATAATTCACCACAAAAGCTTTTCT
*
48883564 TTCATGATTCACCAC-AAAGAC-TTTCTT
1 TTCATAATTCACCACAAAAG-CTTTTC-T
* * * *
48883591 TTCATATTTCGCTACAAAGGCTTTTCT
1 TTCATAATTCACCACAAAAGCTTTTCT
48883618 CTTGTATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 8 0.19
27 28 0.65
28 7 0.16
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TTCATAATTCACCACAAAAGCTTTTCT
Found at i:48883652 original size:27 final size:26
Alignment explanation
Indices: 48883576--48883654 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
48883566 CATGATTCAC
* *
48883576 CACAAAGACTTTCTTTTCATATTTCG
1 CACAAAGGCTTTCCTTTCATATTTCG
* * *
48883602 CTACAAAGGCTTTTCTCTT-GTATTTTG
1 C-ACAAAGGCTTTCCT-TTCATATTTCG
48883629 TCACAAAGGCTTTCCTTTCATATTTC
1 -CACAAAGGCTTTCCTTTCATATTTC
48883655 ACCAAAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
26 3 0.07
27 35 0.85
28 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (26 bp):
CACAAAGGCTTTCCTTTCATATTTCG
Found at i:48884421 original size:15 final size:16
Alignment explanation
Indices: 48884401--48884430 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48884391 GTCCCATAAA
48884401 TTAAAAAT-ATATATC
1 TTAAAAATAATATATC
48884416 TTAAAAATAATATAT
1 TTAAAAATAATATAT
48884431 ATATATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAAATAATATATC
Found at i:48885154 original size:30 final size:30
Alignment explanation
Indices: 48885082--48885154 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
48885072 TGCAACTAAG
* **
48885082 TTAGGGGCTTAATTAAATTTTTTAAAAATT
1 TTAGGGGCTTAATTAAAATCCTTAAAAATT
** * * *
48885112 TTAATGGTTTAATTAAAATCCTTAGAACTT
1 TTAGGGGCTTAATTAAAATCCTTAAAAATT
48885142 TTAGGGGCTTAAT
1 TTAGGGGCTTAAT
48885155 GAGGATCTCC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (30 bp):
TTAGGGGCTTAATTAAAATCCTTAAAAATT
Found at i:48885232 original size:63 final size:61
Alignment explanation
Indices: 48885147--48885280 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 61
48885137 AACTTTTAGG
* *
48885147 GGCTTAATGAGGATCTCCAAAAAATTTGGAGAGTCTAATTAAAATTATTTTAAAAATT-TTAGAA
1 GGCTTAATGAGAATCTCCAAAAAAATTGG-GAGTCTAATTAAAA--ATTTTAAAAATTATTA-AA
* * *
48885211 GGC-TAATGAGAATTTCTAAAAAAATTGGGGGTCTAATTAAAAATTTTAAAAATTATTAAA
1 GGCTTAATGAGAATCTCCAAAAAAATTGGGAGTCTAATTAAAAATTTTAAAAATTATTAAA
48885271 GGCTTAATGA
1 GGCTTAATGA
48885281 TAACTTTTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 17 0.27
61 9 0.14
62 13 0.21
63 21 0.33
64 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (61 bp):
GGCTTAATGAGAATCTCCAAAAAAATTGGGAGTCTAATTAAAAATTTTAAAAATTATTAAA
Found at i:48888753 original size:20 final size:20
Alignment explanation
Indices: 48888728--48888768 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
48888718 GTATTTAGCA
*
48888728 AAGTTACGGTTTTCCAACAC
1 AAGTTACGGTTTTCAAACAC
*
48888748 AAGTTATGGTTTTCAAACAC
1 AAGTTACGGTTTTCAAACAC
48888768 A
1 A
48888769 CTACCATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (20 bp):
AAGTTACGGTTTTCAAACAC
Found at i:48889478 original size:26 final size:26
Alignment explanation
Indices: 48889434--48889483 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
48889424 TTTAAATAAA
*
48889434 AATTAATAGAACCAATTGATCAAATC
1 AATTAATAGAACCAATTGAACAAATC
* *
48889460 AATTAATAGAATCAGTTGAACAAA
1 AATTAATAGAACCAATTGAACAAA
48889484 CTAGCCACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (26 bp):
AATTAATAGAACCAATTGAACAAATC
Found at i:48891642 original size:34 final size:34
Alignment explanation
Indices: 48891603--48891696 Score: 131
Period size: 34 Copynumber: 2.8 Consensus size: 34
48891593 ATTTAAAAAA
*
48891603 TAATTAAATTAAGTTTTAGAGGTTTTAAGTAAA-T
1 TAATTAAATTAAGGTTTAGAGGTTTTAAG-AAAGT
*
48891637 TAATTAAATTAAGGTTTAGAGTTTTTAAGAAAGT
1 TAATTAAATTAAGGTTTAGAGGTTTTAAGAAAGT
*
48891671 TAATTAAATTAGGGTTT--AGGTTTTAA
1 TAATTAAATTAAGGTTTAGAGGTTTTAA
48891697 AAAAATAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
32 8 0.15
33 3 0.05
34 44 0.80
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (34 bp):
TAATTAAATTAAGGTTTAGAGGTTTTAAGAAAGT
Found at i:48892015 original size:126 final size:126
Alignment explanation
Indices: 48891790--48892183 Score: 540
Period size: 126 Copynumber: 3.1 Consensus size: 126
48891780 GGATTTTATT
* * * * * *
48891790 TTTTTCTACAGTAGTT-TCTGAAAAATTAATTTTGAGAAGATGGTTATGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTTAAA
* *
48891854 AACGCTTCAAACAGGATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
48891916 TTTTTCTACATTAATTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTTAAAA
* * * *
48891981 ATGCTTCAAGCATGATACATTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
48892042 TTTTTTTACAGTAGTTCTTGAAAAAATAATTTTGCGAAGACGGTTCTGAAAAACTAGTG-TCAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTTAAAA
* * * * *
48892106 ACGCTTCAAGCAGGAGGCACTATCAGCAACATTACTGAAAAAATCTCCCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
48892167 CTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
48892184 CTGCTTGGCC
Statistics
Matches: 235, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 70 0.30
126 164 0.70
127 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTTAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:48895728 original size:18 final size:18
Alignment explanation
Indices: 48895702--48895751 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
48895692 GACTAGAAAA
*
48895702 AGGAAACATATAAGAGTT
1 AGGATACATATAAGAGTT
48895720 AGGATACATATAAGAGTT
1 AGGATACATATAAGAGTT
48895738 AGGATACATATAAG
1 AGGATACATATAAG
48895752 TTTTGGAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.24
Consensus pattern (18 bp):
AGGATACATATAAGAGTT
Found at i:48900527 original size:26 final size:26
Alignment explanation
Indices: 48900456--48900527 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
48900446 ATGTTCGTAT
*
48900456 AAAAGAAATTATAATT-TGAATAAATTG
1 AAAATAAA-TATAATTAT-AATAAATTG
* *
48900483 AAAATAAATATTATATATAATAATTTG
1 AAAATAAATATAAT-TATAATAAATTG
48900510 -AAATAAATCATAATTATA
1 AAAATAAAT-ATAATTATA
48900528 GTTAAAAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 17 0.45
27 20 0.53
28 1 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (26 bp):
AAAATAAATATAATTATAATAAATTG
Found at i:48902600 original size:16 final size:16
Alignment explanation
Indices: 48902575--48902656 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 16
48902565 TTTTAAAATA
*
48902575 AATTACATAAATATTT
1 AATTATATAAATATTT
48902591 AATTATATAATTATAATTTCT
1 AATTATATAA--AT-A-TT-T
48902612 AAAATCTATATAAATATTT
1 --AAT-TATATAAATATTT
* *
48902631 AATTAAATAAAAATTT
1 AATTATATAAATATTT
*
48902647 AATTAGATAA
1 AATTATATAA
48902657 TGTATCCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
16 29 0.54
17 3 0.06
18 2 0.04
19 2 0.04
20 4 0.07
21 2 0.04
22 2 0.04
23 3 0.06
24 7 0.13
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (16 bp):
AATTATATAAATATTT
Found at i:48902615 original size:43 final size:39
Alignment explanation
Indices: 48902549--48902640 Score: 94
Period size: 40 Copynumber: 2.2 Consensus size: 39
48902539 ATTAGATTAT
* *
48902549 ATTATATAGATAATATTTTTAAAATAAATTACATAAATATTTA
1 ATTATATA-ATAATATTTCTAAAAT---CTACATAAATATTTA
* *
48902592 ATTATATAATTATAATTTCTAAAATCTATATAAATATTTA
1 ATTATATAATAAT-ATTTCTAAAATCTACATAAATATTTA
*
48902632 ATTAAATAA
1 ATTATATAA
48902641 AAATTTAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 21 0.49
42 4 0.09
43 18 0.42
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (39 bp):
ATTATATAATAATATTTCTAAAATCTACATAAATATTTA
Found at i:48908642 original size:38 final size:38
Alignment explanation
Indices: 48908564--48908644 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
48908554 TGAAAAATGT
* * *
48908564 CAAAAATCATAATTAACCCCAGTGCCAATGGGTCGAAA
1 CAAAAACCACAATTAACCCCAATGCCAATGGGTCGAAA
* * * *
48908602 CAAAAACCACAATTAACCCCAATGGCAATTGGTTGGAA
1 CAAAAACCACAATTAACCCCAATGCCAATGGGTCGAAA
48908640 CAAAA
1 CAAAA
48908645 TTATTAAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (38 bp):
CAAAAACCACAATTAACCCCAATGCCAATGGGTCGAAA
Found at i:48909214 original size:339 final size:341
Alignment explanation
Indices: 48908298--48909323 Score: 1589
Period size: 338 Copynumber: 3.0 Consensus size: 341
48908288 CAAAACCTGT
* *
48908298 AAAAATATTTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAAGTAGCATTTCCCTTGGTTGG
1 AAAAATA-TTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGA
* *
48908363 GTTAAGCAAGCACAAAAGCATTTAGGCTAAATATCTAGTAAAAAATCCATAATTTTAAAATTTAT
65 GTTAAGCAAGCACAAAAGCA-TTAGGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTAT
48908428 GATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAAT
129 GATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAAT
* * *
48908493 AATTTCTGAAATACTGATAGATAAAAAAATAACAACTCCATTTTTTCTCCCTTAACCTCGATGAA
194 AATTTCTAAAATACTGATAGATAAAAAAATAACAACTCCTTTTTTTATCCCTTAACCTCGATGAA
* *
48908558 AAATGTCAAAAATCATAATTAACCCCAGTGCCAATGGGTCGAAACAAAAACCACAATTAACCCCA
259 AAATGTCAAAAACCATAATTAACCCCAGTGACAATGGGTCGAAACAAAAACCACAATTAACCCCA
*
48908623 ATGGCAATTGGTTGGAAC
324 ATGACAATTGGTTGGAAC
* * *
48908641 AAAATTATTAAAAGATAGAGTGAGTTTAACT--ACA--AAGTAACTAGCATTTCCCTTAGTTGAG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
*
48908702 TTAAGCAAGCACAAAAGCATTTAGGCTAAATATTTAGTAAAAAATCCATAGTTGTAAAATTTATG
66 TTAAGCAAGCACAAAAGCA-TTAGGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATG
* *
48908767 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGATAATTCAATA
130 ATTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATA
* * * * *
48908832 ATTTCTTAAATACTAATAGATAAAAAAATAACAACTCCCTTTTTTATCCTTTAACCTCGATGATA
195 ATTTCTAAAATACTGATAGATAAAAAAATAACAACTCCTTTTTTTATCCCTTAACCTCGATGAAA
* * *
48908897 AATATCAAAAACCATAATTAACCCCAGTGGCAATGAGTCGAAACAAAAACCACAATTAACCCCAA
260 AATGTCAAAAACCATAATTAACCCCAGTGACAATGGGTCGAAACAAAAACCACAATTAACCCCAA
48908962 TGACAATTGGTTGGAAC
325 TGACAATTGGTTGGAAC
* * * * *
48908979 AAAAATATTAAAAGATGGAGTTAGTTTTACTACACAGTAAGTAACTAGAATTTCCTTTGGTTTAG
1 AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
48909044 TTAAGCAAGCACAAAAGCA-TAGGCTAAATATTTAG-AAAAAATCCATAATTGTAAAATTTATGA
66 TTAAGCAAGCACAAAAGCATTAGGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATGA
* * * *
48909107 TTATACCACAATAAATAATTCAAATCATATTCTGTGTCAAAACTATGATAAAGACAAAGCAATAA
131 TTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATAA
* * *
48909172 TTTCTAAAATATTGATAGATAAAAAAAATAACAACTCCTTTTTTTTATCCCTTAACCCCGATGAC
196 TTTCTAAAATACTGATAGAT-AAAAAAATAACAACTCC-TTTTTTTATCCCTTAACCTCGATGAA
* * *
48909237 AAATGTC-AAAACCACAATTAACCCCAGTGACAATGGGTCGAAACATAAACCGCAATTAACCCCA
259 AAATGTCAAAAACCATAATTAACCCCAGTGACAATGGGTCGAAACAAAAACCACAATTAACCCCA
* *
48909301 ATGATAATTGGTTGGAAT
324 ATGACAATTGGTTGGAAC
48909319 AAAAA
1 AAAAA
48909324 CCACAATTCA
Statistics
Matches: 626, Mismatches: 51, Indels: 15
0.90 0.07 0.02
Matches are distributed among these distances:
338 312 0.50
339 103 0.16
340 112 0.18
341 28 0.04
342 65 0.10
343 6 0.01
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (341 bp):
AAAAATATTAAAAGATGGAGTGAGTTTAACTACACAGTAAGTAACTAGCATTTCCCTTGGTTGAG
TTAAGCAAGCACAAAAGCATTAGGCTAAATATTTAGTAAAAAATCCATAATTGTAAAATTTATGA
TTATACCACAATAAATAATTCAAAGCATATTCCGTGTCAAAACTGTGATAAAGACAAATCAATAA
TTTCTAAAATACTGATAGATAAAAAAATAACAACTCCTTTTTTTATCCCTTAACCTCGATGAAAA
ATGTCAAAAACCATAATTAACCCCAGTGACAATGGGTCGAAACAAAAACCACAATTAACCCCAAT
GACAATTGGTTGGAAC
Found at i:48909325 original size:38 final size:38
Alignment explanation
Indices: 48909244--48909337 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
48909234 GACAAATGTC
*
48909244 AAAACCACAATTAACCCCAGTGACAATGGGTCGAAACA
1 AAAACCACAATTAACCCCAATGACAATGGGTCGAAACA
* * * * * * *
48909282 TAAACCGCAATTAACCCCAATGATAATTGGTTGGAATA
1 AAAACCACAATTAACCCCAATGACAATGGGTCGAAACA
48909320 AAAACCACAATTCAACCC
1 AAAACCACAATT-AACCC
48909338 AGTGCCAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 40 0.89
39 5 0.11
ACGTcount: A:0.44, C:0.26, G:0.13, T:0.18
Consensus pattern (38 bp):
AAAACCACAATTAACCCCAATGACAATGGGTCGAAACA
Found at i:48914209 original size:22 final size:24
Alignment explanation
Indices: 48914179--48914228 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
48914169 GAGTTTCGCA
*
48914179 TGATTTATAAAATGTG-AAATAT-
1 TGATATATAAAATGTGTAAATATG
* *
48914201 TGATATATATATTGTGTAAATATG
1 TGATATATAAAATGTGTAAATATG
48914225 TGAT
1 TGAT
48914229 TAGCATGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 6 0.26
24 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (24 bp):
TGATATATAAAATGTGTAAATATG
Found at i:48916928 original size:32 final size:32
Alignment explanation
Indices: 48916887--48916950 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
48916877 ATGAAAGACG
48916887 TTAGGCCATTTTTTTAGAGCACTTACTAGTAT
1 TTAGGCCATTTTTTTAGAGCACTTACTAGTAT
48916919 TTAGGCCATTTTTTTAGAGCACTTACTAGTAT
1 TTAGGCCATTTTTTTAGAGCACTTACTAGTAT
48916951 CTCGAGGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (32 bp):
TTAGGCCATTTTTTTAGAGCACTTACTAGTAT
Found at i:48920941 original size:28 final size:28
Alignment explanation
Indices: 48920893--48920946 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
48920883 ATACGGGTTG
* *
48920893 GCGTGTGTTAGGCCGTGGGGCCACACGA
1 GCGTGTGTTAGGCCATAGGGCCACACGA
*
48920921 GCGTGTGTTAGGCCATAGGGCTACAC
1 GCGTGTGTTAGGCCATAGGGCCACAC
48920947 TAGCATATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.39, T:0.20
Consensus pattern (28 bp):
GCGTGTGTTAGGCCATAGGGCCACACGA
Found at i:48924533 original size:14 final size:14
Alignment explanation
Indices: 48924509--48924573 Score: 85
Period size: 14 Copynumber: 4.4 Consensus size: 14
48924499 TTCAAGTATT
*
48924509 TAAAGATGAAAATAA
1 TAAA-ATGAAAATAG
48924524 TAAAATGAAAATAG
1 TAAAATGAAAATAG
*
48924538 TAAAATAATAAAATAG
1 TAAAAT--GAAAATAG
48924554 TAAAATGAAAATAG
1 TAAAATGAAAATAG
48924568 TAAAAT
1 TAAAAT
48924574 AATTGAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 28 0.62
15 4 0.09
16 13 0.29
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (14 bp):
TAAAATGAAAATAG
Found at i:48924542 original size:8 final size:8
Alignment explanation
Indices: 48924517--48924574 Score: 70
Period size: 8 Copynumber: 7.8 Consensus size: 8
48924507 TTTAAAGATG
*
48924517 AAAATAAT
1 AAAATAGT
48924525 AAAAT-G-
1 AAAATAGT
48924531 AAAATAGT
1 AAAATAGT
*
48924539 AAAATAAT
1 AAAATAGT
48924547 AAAATAGT
1 AAAATAGT
48924555 AAAAT-G-
1 AAAATAGT
48924561 AAAATAGT
1 AAAATAGT
48924569 AAAATA
1 AAAATA
48924575 ATTGAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
6 10 0.23
7 3 0.07
8 30 0.70
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (8 bp):
AAAATAGT
Found at i:48924542 original size:22 final size:22
Alignment explanation
Indices: 48924509--48924574 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
48924499 TTCAAGTATT
48924509 TAAAGATGAAAATAATAAAAT-G
1 TAAA-ATGAAAATAATAAAATAG
48924531 -AAAATAGTAAAATAATAAAATAG
1 TAAAAT-G-AAAATAATAAAATAG
*
48924554 TAAAATGAAAATAGTAAAATA
1 TAAAATGAAAATAATAAAATA
48924575 ATTGAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 26 0.67
23 2 0.05
24 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.23
Consensus pattern (22 bp):
TAAAATGAAAATAATAAAATAG
Found at i:48924551 original size:30 final size:30
Alignment explanation
Indices: 48924517--48924576 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
48924507 TTTAAAGATG
48924517 AAAATAATAAAATGAAAATAGTAAAATAAT
1 AAAATAATAAAATGAAAATAGTAAAATAAT
*
48924547 AAAATAGTAAAATGAAAATAGTAAAATAAT
1 AAAATAATAAAATGAAAATAGTAAAATAAT
48924577 TGAATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (30 bp):
AAAATAATAAAATGAAAATAGTAAAATAAT
Found at i:48932895 original size:21 final size:21
Alignment explanation
Indices: 48932871--48932922 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
48932861 CATCTTAAAC
*
48932871 TTAAATTAAATAATAAAAATG
1 TTAAATTAAATAACAAAAATG
*
48932892 TTAAGA-TAAATAACATAAATG
1 TTAA-ATTAAATAACAAAAATG
48932913 TTAAAATTAA
1 TT-AAATTAA
48932923 TCAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (21 bp):
TTAAATTAAATAACAAAAATG
Found at i:48952772 original size:30 final size:30
Alignment explanation
Indices: 48952707--48952773 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
48952697 ATAACTGGGT
* * *
48952707 TATGGAAATAGTGTAAGACCATGGTAGGGC
1 TATGGCAATAGTGTAAGACCATAGTAGGAC
* * *
48952737 CATGGCAATTGTGTAAGACCATAGTTGGAC
1 TATGGCAATAGTGTAAGACCATAGTAGGAC
48952767 TATGGCA
1 TATGGCA
48952774 TCAAGAAAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (30 bp):
TATGGCAATAGTGTAAGACCATAGTAGGAC
Found at i:48954132 original size:9 final size:9
Alignment explanation
Indices: 48954118--48954145 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48954108 TTACAAACAT
48954118 AACCAATTC
1 AACCAATTC
48954127 AACCAATTC
1 AACCAATTC
48954136 AACCAATTC
1 AACCAATTC
48954145 A
1 A
48954146 TTTCATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (9 bp):
AACCAATTC
Found at i:48954882 original size:23 final size:21
Alignment explanation
Indices: 48954809--48954873 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
48954799 CCTGATCAGT
* *
48954809 ATACGACACA-TAAGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
48954829 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
48954850 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
48954871 ATA
1 ATA
48954874 TATGACACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 9 0.22
21 31 0.77
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:48956057 original size:3 final size:3
Alignment explanation
Indices: 48956049--48956086 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
48956039 TATTCCTAGT
48956049 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48956087 TATTTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48956229 original size:11 final size:11
Alignment explanation
Indices: 48956213--48956254 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
48956203 ATTTAAAATA
48956213 TAATAATAATT
1 TAATAATAATT
48956224 TAATAATACTAATT
1 TAAT-A-A-TAATT
48956238 TAATAATAATT
1 TAATAATAATT
48956249 TAATAA
1 TAATAA
48956255 CAGTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 15 0.54
12 2 0.07
13 2 0.07
14 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATAATT
Found at i:48956231 original size:14 final size:14
Alignment explanation
Indices: 48956212--48956247 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
48956202 TATTTAAAAT
48956212 ATAATAATAATTTA
1 ATAATAATAATTTA
*
48956226 ATAATACTAATTTA
1 ATAATAATAATTTA
48956240 ATAATAAT
1 ATAATAAT
48956248 TTAATAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:48962332 original size:23 final size:22
Alignment explanation
Indices: 48962265--48962338 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
48962255 CCTGATCAGT
* *
48962265 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
*
48962286 A-ACGACACACGAGGTGTCTG-
1 ATACGACACACGAGGTGCCTGA
48962306 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
48962328 TATACGACACA
1 -ATACGACACA
48962339 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.20
21 26 0.58
23 10 0.22
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:48962346 original size:23 final size:23
Alignment explanation
Indices: 48962264--48962351 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 23
48962254 ACCTGATCAG
*
48962264 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
* *
48962286 -A-ACGACACACGAGGTGTCTG-
1 TATACGACACACGAAGTGCCTGA
*
48962306 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
48962328 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
48962351 T
1 T
48962352 CGGCAAAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.16
21 26 0.47
23 20 0.36
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:48962351 original size:44 final size:41
Alignment explanation
Indices: 48962265--48962351 Score: 93
Period size: 44 Copynumber: 2.0 Consensus size: 41
48962255 CCTGATCAGT
* * * *
48962265 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGTCTG
1 ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
48962306 ATACGACACACGAGGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTGA-A-ACGACACACAAAGTGCCTG
48962350 AT
1 AT
48962352 CGGCAAAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
41 10 0.27
42 9 0.24
43 1 0.03
44 17 0.46
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:48963518 original size:3 final size:3
Alignment explanation
Indices: 48963510--48963541 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48963500 TATTCCTAGT
48963510 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48963542 TATTTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48963692 original size:11 final size:11
Alignment explanation
Indices: 48963676--48963717 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
48963666 ATTTAAAATA
48963676 TAATAATAATT
1 TAATAATAATT
48963687 TAATAATACTAATT
1 TAAT-A-A-TAATT
48963701 TAATAATAATT
1 TAATAATAATT
48963712 TAATAA
1 TAATAA
48963718 CATTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 15 0.54
12 2 0.07
13 2 0.07
14 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATAATAATT
Found at i:48963694 original size:14 final size:14
Alignment explanation
Indices: 48963675--48963710 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
48963665 TATTTAAAAT
48963675 ATAATAATAATTTA
1 ATAATAATAATTTA
*
48963689 ATAATACTAATTTA
1 ATAATAATAATTTA
48963703 ATAATAAT
1 ATAATAAT
48963711 TTAATAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:48964355 original size:23 final size:24
Alignment explanation
Indices: 48964319--48964374 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
48964309 AGATAATCAC
48964319 TTTAATATTAAATTAATAAAAT-AA
1 TTTAATA-TAAATTAATAAAATAAA
* *
48964343 TGTTAATAT-AATTATTAAATTAAA
1 T-TTAATATAAATTAATAAAATAAA
48964367 TTTAATAT
1 TTTAATAT
48964375 TAAGCTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 17 0.61
24 5 0.18
25 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TTTAATATAAATTAATAAAATAAA
Found at i:48965699 original size:30 final size:30
Alignment explanation
Indices: 48965663--48965765 Score: 118
Period size: 30 Copynumber: 3.5 Consensus size: 30
48965653 GTGTTTTTAA
*
48965663 AAAATTACATTTTGACCCCTAAACTTTTTT
1 AAAATTACATTTTGACCCCTAAACTTTCTT
*
48965693 AAAATTACATTTTAACCCCTAAACTTTCTT
1 AAAATTACATTTTGACCCCTAAACTTTCTT
* * * * **
48965723 AAAATTATAATTTGACCTC-AAATTTTCCC
1 AAAATTACATTTTGACCCCTAAACTTTCTT
*
48965752 AAAATTACACTTTG
1 AAAATTACATTTTG
48965766 TCCCTAGAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 19 0.31
30 43 0.69
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTCTT
Found at i:48966134 original size:21 final size:21
Alignment explanation
Indices: 48966103--48966143 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
48966093 TGGGGTTTTT
48966103 GAAAATAGAAGAGAAAAAAAGG
1 GAAAATAGAAGA-AAAAAAAGG
*
48966125 GAAAA-AGAAGAAAAGAAAG
1 GAAAATAGAAGAAAAAAAAG
48966144 AAATGAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (21 bp):
GAAAATAGAAGAAAAAAAAGG
Found at i:48966146 original size:18 final size:19
Alignment explanation
Indices: 48966125--48966171 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
48966115 GAAAAAAAGG
48966125 GAAAAAGAAGAAAAGA-AA
1 GAAAAAGAAGAAAAGAGAA
*
48966143 G-AAATGAGAGAAAAGAGAA
1 GAAAAAGA-AGAAAAGAGAA
48966162 GAAAAA-AAGA
1 GAAAAAGAAGA
48966172 GAGAAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 4 0.17
20 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (19 bp):
GAAAAAGAAGAAAAGAGAA
Found at i:48966178 original size:10 final size:10
Alignment explanation
Indices: 48966112--48966184 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
48966102 TGAAAATAGA
*
48966112 AGAGAAAAAA
1 AGAGAAAAAG
*
48966122 AGGGAAAAAG
1 AGAGAAAAAG
48966132 A-AG-AAAAG
1 AGAGAAAAAG
* *
48966140 AAAG-AAATG
1 AGAGAAAAAG
48966149 AGAGAAAAGAG
1 AGAGAAAA-AG
*
48966160 AAGAAAAAAAG
1 -AGAGAAAAAG
*
48966171 AGAGAAAAGG
1 AGAGAAAAAG
48966181 AGAG
1 AGAG
48966185 GAAGAAAAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 6 0.12
9 10 0.20
10 24 0.48
11 3 0.06
12 7 0.14
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
AGAGAAAAAG
Found at i:48966183 original size:23 final size:23
Alignment explanation
Indices: 48966114--48966193 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
48966104 AAAATAGAAG
* *
48966114 AGAAAAAAAGGGA-AAAAGAAGAAA
1 AGAAAAAAAGAGAGAAAAG--GAGA
*
48966138 AGAAAGAAATGAGAGAAAA-GAGA
1 AGAAA-AAAAGAGAGAAAAGGAGA
48966161 AGAAAAAAAGAGAGAAAAGGAGA
1 AGAAAAAAAGAGAGAAAAGGAGA
* *
48966184 GGAAGAAAAG
1 AGAAAAAAAG
48966194 GAAAGTGCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 12 0.26
23 20 0.43
24 5 0.11
25 6 0.13
26 4 0.09
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (23 bp):
AGAAAAAAAGAGAGAAAAGGAGA
Found at i:48966286 original size:21 final size:19
Alignment explanation
Indices: 48966262--48966301 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
48966252 GCCCTGAAGT
48966262 GAAGAAGAAGAAGAAAGAAAG
1 GAAGAAGAAGAA-AAA-AAAG
48966283 GAAGAAGAAGAAAAAAAAG
1 GAAGAAGAAGAAAAAAAAG
48966302 AAATATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
GAAGAAGAAGAAAAAAAAG
Found at i:48966302 original size:15 final size:17
Alignment explanation
Indices: 48966263--48966303 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
48966253 CCCTGAAGTG
48966263 AAGAAGAAGAAGAAAGA
1 AAGAAGAAGAAGAAAGA
48966280 AAGGAAGAAGAAGAAA-A
1 AA-GAAGAAGAAGAAAGA
48966297 AA-AAGAA
1 AAGAAGAA
48966304 ATATGGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
17 5 0.22
18 13 0.57
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAGAAAGA
Found at i:48966344 original size:18 final size:18
Alignment explanation
Indices: 48966263--48966369 Score: 58
Period size: 18 Copynumber: 5.8 Consensus size: 18
48966253 CCCTGAAGTG
* *
48966263 AAGAAGAAGAAGAAAGAA
1 AAGAAAAAGAAAAAAGAA
* *
48966281 AGGAAGAAGAAGAAAA-AA
1 AAGAAAAAGAA-AAAAGAA
* *
48966299 AAGAAATATGGGAAATAAG-A
1 AAGAAA-A--AGAAAAAAGAA
48966319 AAGTAAAAAGAAAGAAA-AA
1 AAG-AAAAAGAAA-AAAGAA
* *
48966338 AAGAAAAGGAAAAAAGGA
1 AAGAAAAAGAAAAAAGAA
*
48966356 AAGAAAAATAAAAA
1 AAGAAAAAGAAAAA
48966370 CAGTTGGGTC
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
17 3 0.04
18 41 0.60
19 10 0.15
20 8 0.12
21 6 0.09
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (18 bp):
AAGAAAAAGAAAAAAGAA
Found at i:48966345 original size:13 final size:12
Alignment explanation
Indices: 48966323--48966363 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
48966313 ATAAGAAAGT
48966323 AAAAAGAAAGAA
1 AAAAAGAAAGAA
48966335 AAAAAGAAAAGGAA
1 AAAAAG-AAA-GAA
*
48966349 AAAAGGAAAGAA
1 AAAAAGAAAGAA
48966361 AAA
1 AAA
48966364 TAAAAACAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 12 0.46
13 6 0.23
14 8 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:48966349 original size:36 final size:37
Alignment explanation
Indices: 48966275--48966363 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 37
48966265 GAAGAAGAAG
*
48966275 AAAGAAAGGAAGAAGAAGAAAAAAAAGAAATATGGGAAA
1 AAAGAAA-GAAAAAGAAGAAAAAAAAGAAATA-GGGAAA
*
48966314 TAAGAAAGTAAAAAGAA-AGAAAAAAAGAAA-A-GGAAA
1 AAAGAAAG-AAAAAGAAGA-AAAAAAAGAAATAGGGAAA
48966350 AAAGGAAAGAAAAA
1 AAA-GAAAGAAAAA
48966364 TAAAAACAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
36 12 0.27
37 5 0.11
38 3 0.07
39 24 0.55
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (37 bp):
AAAGAAAGAAAAAGAAGAAAAAAAAGAAATAGGGAAA
Found at i:48966970 original size:24 final size:25
Alignment explanation
Indices: 48966924--48966971 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
48966914 AAGCATTTTT
*
48966924 TTATTTTGTATTTATATTTTTAATG
1 TTATTTTATATTTATATTTTTAATG
48966949 TTATTTTAT-TTTAT-TTTATTAAT
1 TTATTTTATATTTATATTT-TTAAT
48966972 TTAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 10 0.48
25 8 0.38
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TTATTTTATATTTATATTTTTAATG
Found at i:48976689 original size:50 final size:50
Alignment explanation
Indices: 48976631--48976762 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 50
48976621 TATTGAGGTT
*
48976631 ATGAGAGGTCCCATGTAAGACCA-ATTCTGGGACACGACATTGGAACCGAG
1 ATGAGAGGTCCCATGTAAGACCATA-TCTGGGACACGACATGGGAACCGAG
* * * * ** * *
48976681 ATGAGAGGTCACC-CGTAAGACCATGTCTCGGACATGGGATGGGCACCGAT
1 ATGAGAGGTC-CCATGTAAGACCATATCTGGGACACGACATGGGAACCGAG
**
48976731 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCATGTAAGACCATATCTGGGA
48976763 TATGGCATTG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
49 2 0.03
50 61 0.94
51 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATATCTGGGACACGACATGGGAACCGAG
Found at i:48976797 original size:49 final size:50
Alignment explanation
Indices: 48976695--48976825 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 50
48976685 GAGGTCACCC
* * * * * *
48976695 GTAAGACCATGTCTCGGACATGGGATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGATATGGCATTGGCAACGATAGGAGAACTCCCAT
*
48976745 GTAAGACCATATCTGGGATATGGCATTGGCAAC-ATAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGATATGGCATTGGCAACGATAGGAGAAC-TCCCAT
* * *
48976794 GTAAGACCTTGTCTGGCATATGGCTTTGGCAA
1 GTAAGACCATGTCTGGGATATGGCATTGGCAA
48976826 GTTATTATCA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.04
49 39 0.57
50 27 0.39
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGATATGGCATTGGCAACGATAGGAGAACTCCCAT
Found at i:48976984 original size:20 final size:20
Alignment explanation
Indices: 48976947--48976984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48976937 TAAGTAAGCA
*
48976947 AGTAAGTAAACAATTAAGTG
1 AGTAAGTAAACAAGTAAGTG
*
48976967 AGTAAGTAAAGAAGTAAG
1 AGTAAGTAAACAAGTAAG
48976985 CAAAGACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (20 bp):
AGTAAGTAAACAAGTAAGTG
Found at i:48977082 original size:24 final size:24
Alignment explanation
Indices: 48977055--48977103 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48977045 TTTATTTGCT
48977055 TCTAAACTTATTAAGCTTTAATGC
1 TCTAAACTTATTAAGCTTTAATGC
48977079 TCTAAACTTATTAAGCTTTAATGC
1 TCTAAACTTATTAAGCTTTAATGC
48977103 T
1 T
48977104 TACTCCCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (24 bp):
TCTAAACTTATTAAGCTTTAATGC
Found at i:48983980 original size:50 final size:49
Alignment explanation
Indices: 48983922--48984108 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
48983912 TATTGAGGTT
* *
48983922 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
* * * *
48983972 ATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGACATGGGCATCGAT
1 ATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
** * *
48984022 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AC
* ** *
48984071 ATGAAACATCCCATGTAAGACCATGTCTGGGACTTGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
48984109 TTTCGCATGT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 34 0.30
50 78 0.68
51 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGAC
Found at i:48984343 original size:20 final size:20
Alignment explanation
Indices: 48984318--48984370 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
48984308 TGAGTTTTTT
*
48984318 AAGTAAGCAAATAGGTAAAC
1 AAGTAAGCAAATAAGTAAAC
* *
48984338 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AATAAGTAAAC
48984358 AAGTAAGCAAATA
1 AAGTAAGCAAATA
48984371 CCATGATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGCAAATAAGTAAAC
Found at i:48985738 original size:76 final size:76
Alignment explanation
Indices: 48985527--48986740 Score: 1197
Period size: 76 Copynumber: 15.9 Consensus size: 76
48985517 ACACGCCGAT
* * * *
48985527 GTATTTTTCAATTTCTATTTTTTCAAAAGTCAACTTATAATCCGAGAGGTGAGTTGAGCCTCGGG
1 GTATTTTTCAATTTCT-GTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
** *
48985592 TCGCATGCCGAG
65 TCGCACACTGAG
48985604 GTA-TTTTCAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
1 GTATTTTTCAATTTCTG-----TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
*
48985668 CGGGTCGTACACTGAG
61 CGGGTCGCACACTGAG
* * * **
48985684 GTATTTTTCAGTTTCTGGTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCAAG-
1 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
* * * *
48985748 CACACGCCGAT
66 CGCACACTGAG
* * ** *
48985759 GTATTTTTCAATTTCTATTTTTTTCAAAAATCAACTCATAGTTTGAGAGGTGAGTTGAGTCTCGG
1 GTATTTTTCAATTTC--TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
* ** *
48985824 GTCACATGCCGAG
64 GTCGCACACTGAG
* * * * * * * *
48985837 GCATTTTTCAATTTCTATTTTTTTTCAAAAATAAACTCTTAATACAAGAGGTGAGTTGAGCCCCA
1 GTATTTTTCAATTTC---TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
*
48985902 GGTCGCACGCTGAG
63 GGTCGCACACTGAG
*
48985916 GTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGG
1 GTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* **
48985981 CACGTGC-C-GAG
65 -TCGCACACTGAG
* * ** * *
48985992 GTATTTTTTAATTTATGTTTTTTTAAAATCAACTCATAATGCCAGAGGTGAGTTGAGCCTTGGG-
1 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
* ** *
48986056 CACATGCCGAG
66 CGCACACTGAG
* * * * *
48986067 GTACTTTTCAAATTCTGTTTTTTCAAAAATTAACTCATAATACGAGAGGTGAGTTGAGCCTCAGG
1 GTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* **
48986132 -CACATGCTGAG
65 TCGCACACTGAG
* *
48986143 GTACTTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 GTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* * *
48986208 -CACATGAC-GAT
65 TCGCA-CACTGAG
* * * *
48986219 GTATTTTTTTAATTTCTATTTTTCAAAAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGG
1 GTA-TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* ** *
48986284 -CACATGCCGAG
65 TCGCACACTGAG
* **
48986295 GTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGG
1 GTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* * **
48986360 TCACACGCCCAG
65 TCGCACACTGAG
* * *
48986372 GTATTTTTCAAATTC--TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCACGA
1 GTATTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
* *
48986435 GTCGCACGCTGTG
64 GTCGCACACTGAG
*
48986448 GTA-TTTTCAATTTCTGTTTTTCAAATATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GG-
1 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
*
48986510 -GCACATGTCGAG
66 CGCACA-CT-GAG
* **
48986522 GTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGG
1 GTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* *
48986587 TCACACGCCT-AG
65 TCGCAC-ACTGAG
* *
48986599 GTATTTTTCAAATTC-G-TTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCACGG
1 GTATTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
48986662 GTCGCACGCTGAG
64 GTCGCACACTGAG
* * * *
48986675 GTA-TTTTCAATTTCTGTTTTTCAAATATCAACTCATAATCCGATAGGTGAGTTGAGCTTCGGGT
1 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
48986739 CG
66 CG
48986741 TCGACCGAGC
Statistics
Matches: 963, Mismatches: 137, Indels: 76
0.82 0.12 0.06
Matches are distributed among these distances:
72 4 0.00
73 2 0.00
74 18 0.02
75 202 0.21
76 426 0.44
77 151 0.16
78 26 0.03
79 67 0.07
80 55 0.06
81 12 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (76 bp):
GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
CGCACACTGAG
Found at i:48986193 original size:227 final size:227
Alignment explanation
Indices: 48985513--48986737 Score: 1491
Period size: 227 Copynumber: 5.3 Consensus size: 227
48985503 TGTTACACTT
* *
48985513 GGGCACACGCCGATGTATTTTTCAATTTCTATTTTTTCAAAAGTCAACTTATAATCCGAGAGGTG
1 GGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAA-TCAACTCATAATCC-AGAGGTG
*
48985578 AGTTGAGCCTCGGGTCGCATGCCGAGGTA-TTTTCAATTTCTGTTTTTTTTTTCAAAAATCAACT
64 AGTTGAGCCTCGGG-CACATGCCGAGGTATTTTTCAATTTCTG----TTTTTTCAAAAATCAACT
* * ** * * *
48985642 CATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGTACACTGAGGTATTTTTCAGTTTCTG-GTTTT
124 CATAATGCAAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTGTTTTTT
*
48985706 CAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTC
189 CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
** * * **
48985745 AAGCACACGCCGATGTATTTTTCAATTTCTATTTTTTTCAAAAATCAACTCATAGTTTGAGAGGT
1 GGGCACACGCCGAGGTATTTTTCAATTTCTA-TTTTTTC-AAAATCAACTCATA-ATCCAGAGGT
* * * *
48985810 GAGTTGAGTCTCGGGTCACATGCCGAGGCATTTTTCAATTTCTATTTTTTTTCAAAAATAAACTC
63 GAGTTGAGCCTCGGG-CACATGCCGAGGTATTTTTCAATTTC--TGTTTTTTCAAAAATCAACTC
* * * * *
48985875 TTAATACAAGAGGTGAGTTGAGCCCCAGGTCGCACGCTGAGGTATTTTTCAATTTCTGATTTTTC
125 ATAATGCAAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTGTTTTTTC
*
48985940 AAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTC
190 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
** * * * *
48985978 GGGCACGTGCCGAGGTATTTTTTAATTTATGTTTTTTTAAAATCAACTCATAATGCCAGAGGTGA
1 GGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAATCAACTCATAAT-CCAGAGGTGA
* * * *
48986043 GTTGAGCCTTGGGCACATGCCGAGGTACTTTTCAAATTCTGTTTTTTCAAAAATTAACTCATAAT
65 GTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAAT
* * * * *
48986108 ACGAGAGGTGAGTTGAGCCTCAGG-CACATGCTGAGGTACTTTTCAATTTTTGTTTTTTCAAAAA
130 GCAAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAA
48986172 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
195 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
* * * * * *
48986205 GGGCACATGACGATGTATTTTTTTAATTTCTA-TTTTTCAAAAATCAACTCATAATACGATAGGT
1 GGGCACACGCCGAGGTA-TTTTTCAATTTCTATTTTTTC-AAAATCAACTCATAAT-CCAGAGGT
48986269 GAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATA
63 GAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATA
* ** * ***
48986334 ATGCAAGAGGTGAGTTGAGCCTTAGGTCACACGCCCAGGTATTTTTCAAATTCT-TTTTCAAAAA
128 ATGCAAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAA
*
48986398 AATCAACTCATAATGCGAGAGGTGAGTTGAGCCAC
193 AATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
* * * * * *
48986433 GAGTCGCACGCTGTGGTA-TTTTCAATTTCT-GTTTTTCAAATATCAACTCATAATGCGAGAGGT
1 G-GGCACACGCCGAGGTATTTTTCAATTTCTATTTTTTCAAA-ATCAACTCATAAT-CCAGAGGT
*
48986496 GAGTTGAGCCTCGGGCACATGTCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATA
63 GAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATA
* * ***
48986561 ATGCAAGAGGTGAGTTGAGCCTTAGGTCACACGCCT-AGGTATTTTTCAAATTC-GTTTTCAAAA
128 ATGCAAGAGGTGAGTTGAGCCTCAGGTCACACG-CTGAGGTATTTTTCAATTTCTGTTTTTTCAA
*
48986624 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCAC
192 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
* * * *
48986660 GGGTCGCACGCTGAGGTA-TTTTCAATTTCT-GTTTTTCAAATATCAACTCATAATCCGATAGGT
1 GGG-CACACGCCGAGGTATTTTTCAATTTCTATTTTTTCAAA-ATCAACTCATAATCC-AGAGGT
*
48986723 GAGTTGAGCTTCGGG
63 GAGTTGAGCCTCGGG
48986738 TCGTCGACCG
Statistics
Matches: 882, Mismatches: 93, Indels: 41
0.87 0.09 0.04
Matches are distributed among these distances:
226 5 0.01
227 351 0.40
228 206 0.23
229 30 0.03
230 24 0.03
231 33 0.04
232 103 0.12
233 113 0.13
234 16 0.02
236 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (227 bp):
GGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTTCAAAATCAACTCATAATCCAGAGGTGAG
TTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATG
CAAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAAT
CAACTCATAATGCGAGAGGTGAGTTGAGCCTC
Found at i:48986247 original size:152 final size:151
Alignment explanation
Indices: 48985513--48986737 Score: 1367
Period size: 152 Copynumber: 8.0 Consensus size: 151
48985503 TGTTACACTT
* * * * * * *
48985513 GGGCACACGCCGATGTATTTTTCAATTTCTATTTTTTCAAAAGTCAACTTATAATCCGAGAGGTG
1 GGGCACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTG
* * *
48985578 AGTTGAGCCTCGGGTCGCATGCCGAGGTA-TTTTCAATTTCTGTTTTTTTTTTCAAAAATCAACT
66 AGTTGAGCCTCGGG-CACACGCCGAGGTATTTTTCAATTTC-----TATTTTTCAAAAATCAACT
48985642 CATAATGCGAGAGGTGAGTTGAGCCTC
125 CATAATGCGAGAGGTGAGTTGAGCCTC
* * *
48985669 GGGTCGTACA--CTGAGGTATTTTTCAGTTTCTG-GTTTTCAAAAATCAACTCATAATGTGAGAG
1 GGG-C--ACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAG
** *
48985731 GTGAGTTGAGCCTCAAGCACACGCCGATGTATTTTTCAATTTCTATTTTTTTCAAAAATCAACTC
63 GTGAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATTTCTA--TTTTTCAAAAATCAACTC
* ** *
48985796 ATAGTTTGAGAGGTGAGTTGAGTCTC
126 ATAATGCGAGAGGTGAGTTGAGCCTC
* * * * * * *
48985822 GGGTCACATGCCGAGGCATTTTTCAATTTCTATTTTTTTTCAAAAATAAACTCTTAATACAAGAG
1 GGG-CACATGCTGAGGTATTTTTCAATTTC--TGTTTTTTCAAAAATCAACTCATAATGCGAGAG
* * * *
48985887 GTGAGTTGAGCCCCAGGTCGCACGCTGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTC
63 GTGAGTTGAGCCTC-GGGCACACGCCGAGGTATTTTTCAATTTCT-ATTTTTCAAAAATCAACTC
*
48985952 ATAATGCAAGAGGTGAGTTGAGCCTC
126 ATAATGCGAGAGGTGAGTTGAGCCTC
* * * * * *
48985978 GGGCACGTGCCGAGGTATTTTTTAATTTATGTTTTTT-TAAAATCAACTCATAATGCCAGAGGTG
1 GGGCACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTG
* * * * * *
48986042 AGTTGAGCCTTGGGCACATGCCGAGGTACTTTTCAAATTCTGTTTTTTCAAAAATTAACTCATAA
66 AGTTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATTTCT-ATTTTTCAAAAATCAACTCATAA
*
48986107 TACGAGAGGTGAGTTGAGCCTC
130 TGCGAGAGGTGAGTTGAGCCTC
* * *
48986129 AGGCACATGCTGAGGTACTTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTG
1 GGGCACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTG
* * * *
48986194 AGTTGAGCCTCGGGCACATGACGATGTATTTTTTTAATTTCTATTTTTCAAAAATCAACTCATAA
66 AGTTGAGCCTCGGGCACACGCCGAGGTA-TTTTTCAATTTCTATTTTTCAAAAATCAACTCATAA
* *
48986259 TACGATAGGTGAGTTGAGCCTC
130 TGCGAGAGGTGAGTTGAGCCTC
* *
48986281 GGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCAAGAGGTG
1 GGGCACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTG
* * * *
48986346 AGTTGAGCCTTAGGTCACACGCCCAGGTATTTTTCAAATTC--TTTTTCAAAAAAATCAACTCAT
66 AGTTGAGCC-TCGGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTC--AAAAATCAACTCAT
*
48986409 AATGCGAGAGGTGAGTTGAGCCAC
128 AATGCGAGAGGTGAGTTGAGCCTC
* * * * *
48986433 GAGTCGCACGCTGTGGTA-TTTTCAATTTCTG-TTTTTCAAATATCAACTCATAATGCGAGAGGT
1 G-GGCACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGT
* * *
48986496 GAGTTGAGCCTCGGGCACATGTCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATA
65 GAGTTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATTTCT-ATTTTTCAAAAATCAACTCATA
* *
48986561 ATGCAAGAGGTGAGTTGAGCCTTA
129 ATGCGAGAGGTGAGTTGAGCC-TC
* * * ***
48986585 GGTCACACGCCT-AGGTATTTTTCAAATTC-GTTTTCAAAAAAATCAACTCATAATGCGAGAGGT
1 GGGCACATG-CTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGT
* * * * *
48986648 GAGTTGAGCCACGGGTCGCACGCTGAGGTA-TTTTCAATTTCTGTTTTTCAAATATCAACTCATA
65 GAGTTGAGCCTCGGG-CACACGCCGAGGTATTTTTCAATTTCTATTTTTCAAAAATCAACTCATA
* * *
48986712 ATCCGATAGGTGAGTTGAGCTTC
129 ATGCGAGAGGTGAGTTGAGCCTC
48986735 GGG
1 GGG
48986738 TCGTCGACCG
Statistics
Matches: 910, Mismatches: 132, Indels: 60
0.83 0.12 0.05
Matches are distributed among these distances:
150 34 0.04
151 225 0.25
152 318 0.35
153 119 0.13
155 34 0.04
156 133 0.15
157 43 0.05
158 1 0.00
159 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (151 bp):
GGGCACATGCTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTG
AGTTGAGCCTCGGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTCAAAAATCAACTCATAAT
GCGAGAGGTGAGTTGAGCCTC
Found at i:48986970 original size:31 final size:30
Alignment explanation
Indices: 48986916--48987049 Score: 171
Period size: 30 Copynumber: 4.4 Consensus size: 30
48986906 TATTTTTAAA
* * * *
48986916 AAAATTACATTTTTACCCTTAAATTTTCTT
1 AAAATTATATTTTAACCCCTAAACTTTCTT
* *
48986946 AAAATTATATTTTAAACCCCTAAATTTTCCT
1 AAAATTATATTTT-AACCCCTAAACTTTCTT
48986977 AAAATTATATTTTAACCCAC-AAACTTTCTT
1 AAAATTATATTTTAACCC-CTAAACTTTCTT
* *
48987007 AAAATTACATTTTAACCCCTAAACATTCTT
1 AAAATTATATTTTAACCCCTAAACTTTCTT
48987037 AAAATTATATTTT
1 AAAATTATATTTT
48987050 GACATCAAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.01
30 63 0.68
31 28 0.30
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAATTATATTTTAACCCCTAAACTTTCTT
Found at i:48987005 original size:61 final size:60
Alignment explanation
Indices: 48986916--48987049 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 60
48986906 TATTTTTAAA
* * ** * * **
48986916 AAAATTACATTTTTACCCTTAAATTTTCTTAAAATTATATTTTAAACCCCTAAATTTTCCT
1 AAAATTATATTTTAACCCACAAACTTTCTTAAAATTACATTTT-AACCCCTAAACATTCCT
*
48986977 AAAATTATATTTTAACCCACAAACTTTCTTAAAATTACATTTTAACCCCTAAACATTCTT
1 AAAATTATATTTTAACCCACAAACTTTCTTAAAATTACATTTTAACCCCTAAACATTCCT
48987037 AAAATTATATTTT
1 AAAATTATATTTT
48987050 GACATCAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
60 27 0.42
61 37 0.58
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (60 bp):
AAAATTATATTTTAACCCACAAACTTTCTTAAAATTACATTTTAACCCCTAAACATTCCT
Found at i:48987483 original size:26 final size:27
Alignment explanation
Indices: 48987436--48987508 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 27
48987426 TAGAAGAGAA
48987436 AAAAGAGAGAGAAAGAAGAGAAAAAAG
1 AAAAGAGAGAGAAAGAAGAGAAAAAAG
* *
48987463 AAAATAGAGAAAAGAGAAGA-AAAAATAG
1 AAAAGAGAGAGAA-AGAAGAGAAAAA-AG
* *
48987491 ACAAGAGGAGAGGAAGAA
1 AAAAGA-GAGAGAAAGAA
48987509 AAGGAAAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 16 0.43
28 16 0.43
29 5 0.14
ACGTcount: A:0.67, C:0.01, G:0.29, T:0.03
Consensus pattern (27 bp):
AAAAGAGAGAGAAAGAAGAGAAAAAAG
Found at i:48987496 original size:19 final size:19
Alignment explanation
Indices: 48987436--48987497 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
48987426 TAGAAGAGAA
*
48987436 AAAAGAGAGAGAAAGAAGAG
1 AAAAGAGA-AGAAAAAAGAG
*
48987456 -AAA-A-AAGAAAATAGAG
1 AAAAGAGAAGAAAAAAGAG
*
48987472 AAAAGAGAAGAAAAAATAG
1 AAAAGAGAAGAAAAAAGAG
*
48987491 ACAAGAG
1 AAAAGAG
48987498 GAGAGGAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.26
17 4 0.12
18 2 0.06
19 19 0.56
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.03
Consensus pattern (19 bp):
AAAAGAGAAGAAAAAAGAG
Found at i:48987586 original size:3 final size:3
Alignment explanation
Indices: 48987580--48987659 Score: 69
Period size: 3 Copynumber: 27.0 Consensus size: 3
48987570 GCTTTAAAGT
* *
48987580 GAA GAA GAA GAA GAAA GAA -AG GAA AAA GAA GAA GAA -AA -AA GAAA
1 GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
* *
48987624 GAA GAA AAA GAAA GAA -AG GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA
48987660 AAAAGAAAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
2 6 0.10
3 48 0.76
4 9 0.14
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:48987653 original size:44 final size:43
Alignment explanation
Indices: 48987581--48987728 Score: 177
Period size: 44 Copynumber: 3.6 Consensus size: 43
48987571 CTTTAAAGTG
*
48987581 AAGAAGAAGAAGAAAGAAAGG-AAA-AAGAAGAAGAAAAAAGA
1 AAGAAGAAAAAGAAAGAAAGGAAAAGAAGAAGAAGAAAAAAGA
48987622 AAGAAGAAAAAGAAAGAAAGGAAGAAGAAGAAGAAGAAAAAAGA
1 AAGAAGAAAAAGAAAGAAAGGAA-AAGAAGAAGAAGAAAAAAGA
* *
48987666 AAGAA-AAAAGGGAAAGAAA--AAAGGAA-AA-AAGAAAAAAGA
1 AAGAAGAAAA-AGAAAGAAAGGAAAAGAAGAAGAAGAAAAAAGA
* *
48987705 AAAAAGAAAAA-AAAGAAAGAAAAA
1 AAGAAGAAAAAGAAAGAAAGGAAAA
48987729 ATAATAAAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
38 7 0.07
39 15 0.16
40 9 0.10
41 24 0.26
42 3 0.03
43 6 0.06
44 30 0.32
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (43 bp):
AAGAAGAAAAAGAAAGAAAGGAAAAGAAGAAGAAGAAAAAAGA
Found at i:48987674 original size:13 final size:13
Alignment explanation
Indices: 48987590--48987729 Score: 120
Period size: 13 Copynumber: 10.0 Consensus size: 13
48987580 GAAGAAGAAG
48987590 AAGAAAGAAAGGAAA
1 AAGAAAGAAA--AAA
48987605 AAG-AAGAAGAAAA
1 AAGAAAGAA-AAAA
*
48987618 AAGAAAGAAGAAA
1 AAGAAAGAAAAAA
*
48987631 AAGAAAGAAAGGAAG
1 AAGAAAGAAA--AAA
48987646 AAGAAGAAGAAGAAAA
1 AAG-A-AAGAA-AAAA
48987662 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
**
48987675 GGGAAAGAAAAAA
1 AAGAAAGAAAAAA
*
48987688 GGAAAAAAGAAAAAA
1 --AAGAAAGAAAAAA
*
48987703 GAAAAAAGAAAAAA
1 -AAGAAAGAAAAAA
48987717 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
48987730 TAATAAAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
13 45 0.42
14 29 0.27
15 20 0.19
16 6 0.06
17 5 0.05
18 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:48987674 original size:68 final size:67
Alignment explanation
Indices: 48987580--48987729 Score: 184
Period size: 68 Copynumber: 2.2 Consensus size: 67
48987570 GCTTTAAAGT
* * *
48987580 GAAGAAGAAGAAGAAAGAAAGGAAAAAGA-AGAAGAAAAAA-GAAAGAAG-AAAAAGAAAGAAAG
1 GAAGAAGAAGAAAAAAGAAAGAAAAAAGAGA-AAGAAAAAAGGAAAAAAGAAAAAAGAAA-AAA-
48987642 GAAGAA
63 GAA-AA
*
48987648 GAAGAAGAAGAAAAAAGAAAGAAAAAAGGGAAAGAAAAAAGGAAAAAAGAAAAAAGAAAAAAGAA
1 GAAGAAGAAGAAAAAAGAAAGAAAAAAGAGAAAGAAAAAAGGAAAAAAGAAAAAAGAAAAAAGAA
48987713 AA
66 AA
48987715 -AA-AAGAAAGAAAAAA
1 GAAGAAG-AAGAAAAAA
48987730 TAATAAAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
65 3 0.04
66 11 0.15
67 2 0.03
68 38 0.51
69 11 0.15
70 9 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (67 bp):
GAAGAAGAAGAAAAAAGAAAGAAAAAAGAGAAAGAAAAAAGGAAAAAAGAAAAAAGAAAAAAGAA
AA
Found at i:48987694 original size:8 final size:7
Alignment explanation
Indices: 48987590--48987729 Score: 117
Period size: 7 Copynumber: 19.3 Consensus size: 7
48987580 GAAGAAGAAG
48987590 AAGAAAGA
1 AAGAAA-A
*
48987598 AAGGAAA
1 AAGAAAA
*
48987605 AAG-AAG
1 AAGAAAA
48987611 AAGAAAA
1 AAGAAAA
*
48987618 AAGAAAG
1 AAGAAAA
48987625 AAG-AAA
1 AAGAAAA
48987631 AAGAAAGA
1 AAGAAA-A
* *
48987639 AAGGAAG
1 AAGAAAA
48987646 AAGAAGAA
1 AAGAA-AA
48987654 GAAGAAAA
1 -AAGAAAA
48987662 AAGAAAGA
1 AAGAAA-A
48987670 AA-AAAGGGA
1 AAGAAA---A
48987679 AAGAAAA
1 AAGAAAA
48987686 AAGGAAAA
1 AA-GAAAA
48987694 AAGAAAA
1 AAGAAAA
48987701 AAGAAAA
1 AAGAAAA
48987708 AAGAAAA
1 AAGAAAA
*
48987715 AA-AAGA
1 AAGAAAA
48987721 AAGAAAA
1 AAGAAAA
48987728 AA
1 AA
48987730 TAATAAAAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
6 15 0.14
7 59 0.54
8 24 0.22
9 9 0.08
10 3 0.03
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:48987737 original size:23 final size:23
Alignment explanation
Indices: 48987611--48987739 Score: 88
Period size: 25 Copynumber: 5.4 Consensus size: 23
48987601 GAAAAAGAAG
*
48987611 AAGAAAAAAGAAAGAAGAAAAAGA
1 AAGAAAAAAGAAAAAAGAAAAA-A
*
48987635 AAGAAAGGAAGAAGAAGAAGAAGAAAA
1 AAGAAA-AAAGAA-AA-AAGAA-AAAA
48987662 AAGAAAGAAA-AAAGGGAAAG-AAAAA
1 AAGAAA-AAAGAAA---AAAGAAAAAA
*
48987687 AGGAAAAAAGAAAAAAG--AAAA
1 AAGAAAAAAGAAAAAAGAAAAAA
*
48987708 AAGAAAAAA-AAGAAAGAAAAAA
1 AAGAAAAAAGAAAAAAGAAAAAA
*
48987730 TAATAAAAAA
1 -AAGAAAAAA
48987740 TATAAACAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
20 6 0.07
21 12 0.14
22 8 0.09
23 8 0.09
24 9 0.10
25 18 0.21
26 4 0.05
27 18 0.21
28 4 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (23 bp):
AAGAAAAAAGAAAAAAGAAAAAA
Done.