Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 141 of 322
Found at i:46096771 original size:93 final size:93
Alignment explanation
Indices: 46096664--46096836 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
46096654 CGCCCATAAG
* * *
46096664 CGAACCCGAACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTAAACTCGGACTCAACTCA
1 CGAACCCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCA
*
46096729 ATGAGCTCGGATGCCTAGTTACATCTTA
66 ACGAGCTCGGATGCCTAGTTACATCTTA
* * * *
46096757 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACCCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCA
*
46096822 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
46096837 CAAATATCCC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACCCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTTA
Found at i:46096832 original size:46 final size:46
Alignment explanation
Indices: 46096657--46096832 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
46096647 TGTAACCCGC
* * * * *
46096657 CCATAAGCGAACCCGAACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
** * *
46096703 CCATAAGTAAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAG---CAT
* * *
46096753 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* *
46096796 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
46096833 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 64 0.61
47 29 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:46099174 original size:27 final size:27
Alignment explanation
Indices: 46099138--46099301 Score: 170
Period size: 27 Copynumber: 6.1 Consensus size: 27
46099128 GGCCGAAATG
46099138 ATGACCAAAATACCCCCATAAGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
*
46099165 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
* *
46099192 ATGATCGAAATACCCCCAT-AGGATAAA
1 ATGACCAAAATACCCCCATAAGG-TAAA
*
46099219 ATGACCAAAATACCCCTAT-AGGATAAA
1 ATGACCAAAATACCCCCATAAGG-TAAA
* * ** * *
46099246 ATCATCTTAATACCCTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
** * *
46099273 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
46099300 AT
1 AT
46099302 AATGGAGTAG
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 110 0.96
28 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (27 bp):
ATGACCAAAATACCCCCATAAGGTAAA
Found at i:46099219 original size:54 final size:53
Alignment explanation
Indices: 46099145--46099301 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 53
46099135 ATGATGACCA
* *
46099145 AAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCAT-AGGTAAAATGACCAAAATACCCCTATAGGGTAAAATCATCG
* *
46099199 AAATACCCCCATAGGATAAAATGACCAAAATACCCCTATAGGATAAAATCATCT
1 AAATACCCCCATAGG-TAAAATGACCAAAATACCCCTATAGGGTAAAATCATCG
* * **
46099253 TAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAAT
1 AAATACCCCCATA-GGTAAAATGACCAAAATACCCCTATAGGGTAAAAT
46099302 AATGGAGTAG
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
53 3 0.03
54 87 0.95
55 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (53 bp):
AAATACCCCCATAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATCATCG
Found at i:46099273 original size:81 final size:81
Alignment explanation
Indices: 46099138--46099301 Score: 224
Period size: 81 Copynumber: 2.0 Consensus size: 81
46099128 GGCCGAAATG
*
46099138 ATGACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA-TCGAAA
1 ATGACCAAAATACCCCCATAAGGTAAAATCACCAAAATACCCCCATAGGGTAAAATGACT-GAAA
46099202 TACCCCCATAGGATAAA
65 TACCCCCATAGGATAAA
* * ** *
46099219 ATGACCAAAATACCCCTAT-AGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACTGAAA
1 ATGACCAAAATACCCCCATAAGG-TAAAATCACCAAAATACCCCCATAGGGTAAAATGACTGAAA
* *
46099283 TACCCCTATAGGGTAAA
65 TACCCCCATAGGATAAA
46099300 AT
1 AT
46099302 AATGGAGTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.04
81 69 0.95
82 1 0.01
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (81 bp):
ATGACCAAAATACCCCCATAAGGTAAAATCACCAAAATACCCCCATAGGGTAAAATGACTGAAAT
ACCCCCATAGGATAAA
Found at i:46099586 original size:27 final size:27
Alignment explanation
Indices: 46099550--46099713 Score: 170
Period size: 27 Copynumber: 6.1 Consensus size: 27
46099540 GGCCGAAATG
46099550 ATGACCAAAATACCCCCATAAGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
*
46099577 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
* *
46099604 ATGATCGAAATACCCCCAT-AGGATAAA
1 ATGACCAAAATACCCCCATAAGG-TAAA
*
46099631 ATGACCAAAATACCCCTAT-AGGATAAA
1 ATGACCAAAATACCCCCATAAGG-TAAA
* * ** * *
46099658 ATCATCTTAATACCCTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
** * *
46099685 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACCAAAATACCCCCATAAGGTAAA
46099712 AT
1 AT
46099714 AATGGAGTAG
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 110 0.96
28 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (27 bp):
ATGACCAAAATACCCCCATAAGGTAAA
Found at i:46099631 original size:54 final size:53
Alignment explanation
Indices: 46099557--46099713 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 53
46099547 ATGATGACCA
* *
46099557 AAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCAT-AGGTAAAATGACCAAAATACCCCTATAGGGTAAAATCATCG
* *
46099611 AAATACCCCCATAGGATAAAATGACCAAAATACCCCTATAGGATAAAATCATCT
1 AAATACCCCCATAGG-TAAAATGACCAAAATACCCCTATAGGGTAAAATCATCG
* * **
46099665 TAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAAT
1 AAATACCCCCATA-GGTAAAATGACCAAAATACCCCTATAGGGTAAAAT
46099714 AATGGAGTAG
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
53 3 0.03
54 87 0.95
55 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (53 bp):
AAATACCCCCATAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATCATCG
Found at i:46099653 original size:412 final size:412
Alignment explanation
Indices: 46098889--46100125 Score: 2402
Period size: 412 Copynumber: 3.0 Consensus size: 412
46098879 ATCAGTTGAT
*
46098889 TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCACAAACAA
1 TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCGCAAACAA
46098954 GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
66 GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
46099019 ACGAGCGTGCGCTCGCTCGTGTGGTAAACCGAATACATAAACATGGGCATTTAATCGTAGAGGCC
131 ACGAGCGTGCGCTCGCTCGTGTGGTAAACCGAATACATAAACATGGGCATTTAATCGTAGAGGCC
46099084 GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
196 GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
46099149 ACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
261 ACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
46099214 ATAAAATGACCAAAATACCCCTATAGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACT
326 ATAAAATGACCAAAATACCCCTATAGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACT
46099279 GAAATACCCCTATAGGGTAAAA
391 GAAATACCCCTATAGGGTAAAA
46099301 TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCGCAAACAA
1 TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCGCAAACAA
46099366 GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
66 GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
46099431 ACGAGCGTGCGCTCGCTCGTGTGGTAAACCGAATACATAAACATGGGCATTTAATCGTAGAGGCC
131 ACGAGCGTGCGCTCGCTCGTGTGGTAAACCGAATACATAAACATGGGCATTTAATCGTAGAGGCC
46099496 GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
196 GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
46099561 ACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
261 ACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
46099626 ATAAAATGACCAAAATACCCCTATAGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACT
326 ATAAAATGACCAAAATACCCCTATAGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACT
46099691 GAAATACCCCTATAGGGTAAAA
391 GAAATACCCCTATAGGGTAAAA
46099713 TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCGCAAACAA
1 TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCGCAAACAA
46099778 GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
66 GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
* * *
46099843 ACGAGCGTGCGCTCGCTCGTGTGGTAAACTGAATACATAAACGTGGGAATTTAATCGTAGAGGCC
131 ACGAGCGTGCGCTCGCTCGTGTGGTAAACCGAATACATAAACATGGGCATTTAATCGTAGAGGCC
46099908 GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
196 GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
*
46099973 ACCCCCATAAGGTAAAATGACCAAAATACTCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
261 ACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
* **
46100038 ATAAAATGACCAAAATACCCCTATAGGATAAAATGATCGAAATACCCTCATAGGGTAAAATGACT
326 ATAAAATGACCAAAATACCCCTATAGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACT
46100103 GAAATACCCCTATAGGGTAAAA
391 GAAATACCCCTATAGGGTAAAA
46100125 T
1 T
46100126 GATTGAAATA
Statistics
Matches: 817, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
412 817 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (412 bp):
TAATGGAGTAGTTTGATCGAATGTAGGTTTTGGTGTTCGTGGGTTGCGCGCTCTTTCGCAAACAA
GTGTGTAATCACACTGCCATTATCGTAAATCGACAAAAGCCGGATTAGGTGACCATCGACACTAC
ACGAGCGTGCGCTCGCTCGTGTGGTAAACCGAATACATAAACATGGGCATTTAATCGTAGAGGCC
GCCATGAGCGATCTCATGGGTTTAGGCCATTTTGGGATATGTTGGGCCGAAATGATGACCAAAAT
ACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGG
ATAAAATGACCAAAATACCCCTATAGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACT
GAAATACCCCTATAGGGTAAAA
Found at i:46099685 original size:81 final size:81
Alignment explanation
Indices: 46099550--46099713 Score: 224
Period size: 81 Copynumber: 2.0 Consensus size: 81
46099540 GGCCGAAATG
*
46099550 ATGACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA-TCGAAA
1 ATGACCAAAATACCCCCATAAGGTAAAATCACCAAAATACCCCCATAGGGTAAAATGACT-GAAA
46099614 TACCCCCATAGGATAAA
65 TACCCCCATAGGATAAA
* * ** *
46099631 ATGACCAAAATACCCCTAT-AGGATAAAATCATCTTAATACCCTCATAGGGTAAAATGACTGAAA
1 ATGACCAAAATACCCCCATAAGG-TAAAATCACCAAAATACCCCCATAGGGTAAAATGACTGAAA
* *
46099695 TACCCCTATAGGGTAAA
65 TACCCCCATAGGATAAA
46099712 AT
1 AT
46099714 AATGGAGTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.04
81 69 0.95
82 1 0.01
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (81 bp):
ATGACCAAAATACCCCCATAAGGTAAAATCACCAAAATACCCCCATAGGGTAAAATGACTGAAAT
ACCCCCATAGGATAAA
Found at i:46099998 original size:27 final size:27
Alignment explanation
Indices: 46099969--46100318 Score: 365
Period size: 27 Copynumber: 13.0 Consensus size: 27
46099959 ATGATGACCA
* **
46099969 AAATACCCCCATAAGGTAAAATGACCA
1 AAATACCCCTATAAGGTAAAATGACTG
*
46099996 AAATACTCCC-ATAGGGTAAAATGA-TCG
1 AAATAC-CCCTATAAGGTAAAATGACT-G
* **
46100023 AAATACCCCCAT-AGGATAAAATGACCA
1 AAATACCCCTATAAGG-TAAAATGACTG
46100050 AAATACCCCTAT-AGGATAAAATGA-TCG
1 AAATACCCCTATAAGG-TAAAATGACT-G
*
46100077 AAATA-CCCTCATAGGGTAAAATGACTG
1 AAATACCCCT-ATAAGGTAAAATGACTG
* *
46100104 AAATACCCCTATAGGGTAAAATGATTG
1 AAATACCCCTATAAGGTAAAATGACTG
* * * **
46100131 AAATACCCCCATAAGATAACATGACCA
1 AAATACCCCTATAAGGTAAAATGACTG
*
46100158 AAATACCCCTATCAGGTAAAATGACTG
1 AAATACCCCTATAAGGTAAAATGACTG
46100185 AAATACCCCTATAAGGTAAAATGACTG
1 AAATACCCCTATAAGGTAAAATGACTG
* *
46100212 TAATACCCCTATAGGGTAAAATGACTG
1 AAATACCCCTATAAGGTAAAATGACTG
* * *
46100239 TAATACCCCTGTAGGGTAAAATGACT-
1 AAATACCCCTATAAGGTAAAATGACTG
46100265 ATAATACCCCTATAAGGTAAAATGACT-
1 A-AATACCCCTATAAGGTAAAATGACTG
* *
46100292 ATAATACCTCTGTAAGGTAAAATGACT
1 A-AATACCCCTATAAGGTAAAATGACT
46100319 AATTTGCCCT
Statistics
Matches: 279, Mismatches: 33, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
26 9 0.03
27 260 0.93
28 10 0.04
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
AAATACCCCTATAAGGTAAAATGACTG
Found at i:46100739 original size:18 final size:18
Alignment explanation
Indices: 46100716--46100755 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46100706 TTACTGCTAT
* *
46100716 TGCACTGTTTGCTGTTAC
1 TGCACTGTATACTGTTAC
46100734 TGCACTGTATACTGTTAC
1 TGCACTGTATACTGTTAC
46100752 TGCA
1 TGCA
46100756 AAGGGCCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (18 bp):
TGCACTGTATACTGTTAC
Found at i:46103038 original size:21 final size:21
Alignment explanation
Indices: 46103014--46103083 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
46103004 CGATCTGCAC
46103014 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* *
46103035 TCA-TGATATATGTGGCATCTGAACT
1 TCATTGA-GT-TGTGG--TCTG-AGT
*
46103060 T-ATTGAGTTGTGCTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
46103080 TCAT
1 TCAT
46103084 GACATATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
20 6 0.16
21 10 0.27
22 5 0.14
23 4 0.11
24 6 0.16
25 6 0.16
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:46103070 original size:45 final size:45
Alignment explanation
Indices: 46103006--46103093 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
46102996 GAACTATCCG
* * *
46103006 ATCTGCACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTGGC
*
46103051 ATCTGAACTTATTGAGTTGTGCTCTGAGTTCATGACATATGTG
1 ATCTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTG
46103094 ACACATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTGGC
Found at i:46107828 original size:21 final size:21
Alignment explanation
Indices: 46107804--46107873 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
46107794 TGATATGAAC
46107804 TCATTGAGTTATGGTCTGAGT
1 TCATTGAGTTATGGTCTGAGT
**
46107825 TCA-TGA-TATATGTGGCATCTGAAC
1 TCATTGAGT-TA--TGG--TCTGAGT
*
46107849 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTATGGTCTGAGT
46107870 TCAT
1 TCAT
46107874 GATATATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 12 0.32
22 3 0.08
23 3 0.08
24 8 0.22
25 4 0.11
26 1 0.03
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTATGGTCTGAGT
Found at i:46107845 original size:24 final size:22
Alignment explanation
Indices: 46107815--46107883 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
46107805 CATTGAGTTA
46107815 TGGTCTGAGTTCATGATATATG
1 TGGTCTGAGTTCATGATATATG
** *
46107837 TGGCATCTGAACTCATTGA-GT-TG
1 TGG--TCTGAGTTCA-TGATATATG
46107860 TGGTCTGAGTTCATGATATATG
1 TGGTCTGAGTTCATGATATATG
46107882 TG
1 TG
46107884 ACACATGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 3 0.08
21 9 0.25
22 7 0.19
23 5 0.14
24 9 0.25
25 3 0.08
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.39
Consensus pattern (22 bp):
TGGTCTGAGTTCATGATATATG
Found at i:46110985 original size:39 final size:39
Alignment explanation
Indices: 46110929--46111122 Score: 171
Period size: 39 Copynumber: 5.0 Consensus size: 39
46110919 TAGTGATGTT
* *
46110929 TATCCAGACTTAGGGTCCGCAAGG-TATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGC-AGGCTATGTGCTGGAATTA
*
46110968 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTAGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
46111007 TAACCGGGCTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * * * *
46111046 TGTCCGGGC-TAAAGTCCCGCAGGCTTTGAGCTGGTATTA
1 TATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGGAATTA
** **
46111085 TA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAATT
1 TATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AATT
46111123 GGTTTCAAGT
Statistics
Matches: 130, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 20 0.15
39 110 0.85
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:46126176 original size:45 final size:45
Alignment explanation
Indices: 46126109--46126196 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
46126099 GAATTATGCG
*
46126109 ATCTGAACTCATTAAGTTATGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTAAGTCATGGTCTGAGTTCATGATATATGTGGC
*
46126154 ATCTGAACTCATTGAGTCATGGTCTGAGTTCATGATATATGTG
1 ATCTGAACTCATTAAGTCATGGTCTGAGTTCATGATATATGTG
46126197 ACACATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTCATGGTCTGAGTTCATGATATATGTGGC
Found at i:46133201 original size:21 final size:21
Alignment explanation
Indices: 46133177--46133246 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
46133167 CGATCTGAAC
46133177 TCATTAAGTTGTGGTCTGAGT
1 TCATTAAGTTGTGGTCTGAGT
* **
46133198 TCATGATA-TATGTGGCATCTGAAC
1 TCATTA-AGT-TGTGG--TCTGAGT
* *
46133222 TCATTGAGTTGTAGTCTGAGT
1 TCATTAAGTTGTGGTCTGAGT
46133243 TCAT
1 TCAT
46133247 GATATATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 5 0.14
24 10 0.28
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TCATTAAGTTGTGGTCTGAGT
Found at i:46133219 original size:24 final size:22
Alignment explanation
Indices: 46133186--46133256 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
46133176 CTCATTAAGT
46133186 TGTGGTCTGAGTTCATGATATA
1 TGTGGTCTGAGTTCATGATATA
** *
46133208 TGTGGCATCTGAACTCATTGA-GT-
1 TGTGG--TCTGAGTTCA-TGATATA
*
46133231 TGTAGTCTGAGTTCATGATATA
1 TGTGGTCTGAGTTCATGATATA
46133253 TGTG
1 TGTG
46133257 ACACATGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 9 0.25
22 8 0.22
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (22 bp):
TGTGGTCTGAGTTCATGATATA
Found at i:46133233 original size:45 final size:45
Alignment explanation
Indices: 46133169--46133256 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
46133159 GAACTATGCG
*
46133169 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTAAGTTGTAGTCTGAGTTCATGATATATGTGGC
*
46133214 ATCTGAACTCATTGAGTTGTAGTCTGAGTTCATGATATATGTG
1 ATCTGAACTCATTAAGTTGTAGTCTGAGTTCATGATATATGTG
46133257 ACACATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTGTAGTCTGAGTTCATGATATATGTGGC
Found at i:46135254 original size:14 final size:14
Alignment explanation
Indices: 46135235--46135265 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46135225 TGTATGCTTG
46135235 TTTCTTCTATTTTA
1 TTTCTTCTATTTTA
46135249 TTTCTTCTATTTTA
1 TTTCTTCTATTTTA
46135263 TTT
1 TTT
46135266 ATTATCTCGT
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:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTCTATTTTA
Found at i:46136640 original size:18 final size:18
Alignment explanation
Indices: 46136589--46136641 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
46136579 TATGAAAGTA
46136589 AGACAACGTATATGAATT
1 AGACAACGTATATGAATT
* * *
46136607 AGAGAA--AATATTAATT
1 AGACAACGTATATGAATT
46136623 AGACAACGTATATGAATT
1 AGACAACGTATATGAATT
46136641 A
1 A
46136642 TAAAACTGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 13 0.48
18 14 0.52
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (18 bp):
AGACAACGTATATGAATT
Found at i:46141077 original size:45 final size:45
Alignment explanation
Indices: 46141013--46141100 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
46141003 GAACTATGCG
*
46141013 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
46141058 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTG
1 ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTG
46141101 ACACATGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCACTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
Found at i:46153755 original size:45 final size:45
Alignment explanation
Indices: 46153679--46153765 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
46153669 AACTATGCGA
* * *
46153679 TCTGAACTCATTGAGTTGTAGTCTGAGTTCATGATATATGTGGCT
1 TCTGAACTCATTGAGCTATAGTATGAGTTCATGATATATGTGGCT
* * *
46153724 TCTGAACTCATTGAGCTATGGTATGATTTCATGATGTATGTG
1 TCTGAACTCATTGAGCTATAGTATGAGTTCATGATATATGTG
46153766 ACACGTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (45 bp):
TCTGAACTCATTGAGCTATAGTATGAGTTCATGATATATGTGGCT
Found at i:46158331 original size:40 final size:40
Alignment explanation
Indices: 46158264--46159200 Score: 1754
Period size: 40 Copynumber: 23.4 Consensus size: 40
46158254 ACCCAAGTAT
*
46158264 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158303 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158343 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158383 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158423 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158463 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158503 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158543 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158583 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158623 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158663 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158703 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158743 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158783 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158823 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158863 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158903 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158943 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46158983 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46159023 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46159063 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
46159103 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
46159143 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
46159183 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
46159201 TTATCATCCG
Statistics
Matches: 880, Mismatches: 14, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
38 1 0.00
39 13 0.01
40 864 0.98
41 2 0.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:46163355 original size:40 final size:40
Alignment explanation
Indices: 46163288--46163624 Score: 545
Period size: 40 Copynumber: 8.4 Consensus size: 40
46163278 ACCCAAGTAT
*
46163288 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
46163327 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46163367 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46163407 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46163447 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
46163487 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
46163527 CTTCGGGTCTTAGCCCAGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
46163567 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
46163607 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
46163625 TTATGATCCG
Statistics
Matches: 278, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
38 1 0.00
39 13 0.05
40 262 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:46167558 original size:33 final size:34
Alignment explanation
Indices: 46167542--46167608 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
46167532 TTATCAGTGG
46167542 CAATATCAGTGT-GGCCTTAGCCCATTACAGTAA
1 CAATATCAGTGTGGGCCTTAGCCCATTACAGTAA
* *
46167575 CAGTATCAGTGTGGGCCTTAGCCCAATTTCAGTA
1 CAATATCAGTGTGGGCCTTAGCCC-ATTACAGTA
46167609 TAGTATCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 11 0.37
34 11 0.37
35 8 0.27
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (34 bp):
CAATATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:46167597 original size:34 final size:33
Alignment explanation
Indices: 46167545--46167617 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
46167535 TCAGTGGCAA
46167545 TATCAGTGTGGCCTTAGCCC-ATTACAGTAACAG
1 TATCAGTGTGGCCTTAGCCCAATTACAGT-ACAG
* *
46167578 TATCAGTGTGGGCCTTAGCCCAATTTCAGTATAG
1 TATCAGTGT-GGCCTTAGCCCAATTACAGTACAG
46167612 TATCAG
1 TATCAG
46167618 AGATGCATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 9 0.25
34 20 0.56
35 7 0.19
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (33 bp):
TATCAGTGTGGCCTTAGCCCAATTACAGTACAG
Found at i:46169733 original size:45 final size:45
Alignment explanation
Indices: 46169669--46169756 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
46169659 TACATTTACG
46169669 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
* *
46169714 ATCTGAACTCATTGAGTTGTGGTTTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTG
46169757 ACACATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
Found at i:46172534 original size:50 final size:50
Alignment explanation
Indices: 46172480--46172706 Score: 235
Period size: 50 Copynumber: 4.5 Consensus size: 50
46172470 GGTATGCATG
*
46172480 GTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACATA
* ** * *
46172530 GTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGT-TATC-GAGTACGCATA
1 GTAGCCTGCACTTAGTACTACACA--TGCAACCTA-TCAATCTG-GTACACATA
* * *
46172581 TTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACATA
** * * ***
46172631 GTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTTAAACACATA
1 GTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACATA
* *
46172681 GTAGCCTGCACATAGTACTTCACATG
1 GTAGCCTGCACTTAGTACTACACATG
46172707 TGTTCTCACA
Statistics
Matches: 146, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.02
50 103 0.71
51 37 0.25
52 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACATA
Found at i:46179358 original size:50 final size:50
Alignment explanation
Indices: 46179283--46179520 Score: 223
Period size: 50 Copynumber: 4.7 Consensus size: 50
46179273 CGAAGCTTTC
* *
46179283 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATT
* * *
46179333 TGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGATC-A--AAGTTT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAA--TT
* * * * *
46179382 TCGGGTACACATACTAGCTTGCACTTAGTACTACACATGCGACCTATCAATC
1 T--GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATT
* * * * * *
46179434 TAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAAT-T
** * *
46179485 T-AAACACATAGTAGCCTGCACATAGTACTACACATG
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATG
46179521 TGTTCTCACA
Statistics
Matches: 153, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
47 2 0.01
49 4 0.03
50 107 0.70
51 35 0.23
52 3 0.02
54 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATT
Found at i:46179459 original size:101 final size:101
Alignment explanation
Indices: 46179279--46179473 Score: 318
Period size: 101 Copynumber: 1.9 Consensus size: 101
46179269 TAACCGAAGC
* * * * * * *
46179279 TTTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATTTGGTACATGTA
1 TTTCGGGTACACATACTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
46179344 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
*
46179380 TTTCGGGTACACATACTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
1 TTTCGGGTACACATACTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
46179445 GTAGCCTGCACTTAGTACTACACACGTGA
66 GTAGCCTGCACTTAGTACTACACACGTGA
46179474 CCTAACCATC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (101 bp):
TTTCGGGTACACATACTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
Found at i:46179901 original size:19 final size:20
Alignment explanation
Indices: 46179873--46179919 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
46179863 AAGAACATGT
46179873 TATATCATCAAAATATTCACA
1 TATAT-ATCAAAATATTCACA
*
46179894 TA-ATATCAAATTATTCACA
1 TATATATCAAAATATTCACA
46179913 TATATAT
1 TATATAT
46179920 ACTTACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 16 0.67
20 6 0.25
21 2 0.08
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATATCAAAATATTCACA
Found at i:46182357 original size:27 final size:26
Alignment explanation
Indices: 46182305--46182363 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
46182295 CCACATATAT
*
46182305 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
46182331 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
46182358 ATATCT
1 ATATCT
46182364 AGCAACCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:46187033 original size:17 final size:18
Alignment explanation
Indices: 46187005--46187043 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
46186995 TTAAGGACTA
46187005 AATTGAATATGGATTATT
1 AATTGAATATGGATTATT
46187023 AATTG-ATATGGATTATT
1 AATTGAATATGGATTATT
46187040 AATT
1 AATT
46187044 AGAGGTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (18 bp):
AATTGAATATGGATTATT
Found at i:46192308 original size:40 final size:41
Alignment explanation
Indices: 46192246--46192503 Score: 309
Period size: 40 Copynumber: 6.5 Consensus size: 41
46192236 AAACCAAGTA
* * * *
46192246 CCTTCGGGATTTA-ACCGGATA-TAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATTAG-TAACTCGCACAAATG
**
46192285 CCTTCGGGACTTAGCCCGGATA-TAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
**
46192325 CCTTCGGGACTTAGCCCGGA-ATTAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
46192365 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
*
46192405 CCTTCGGGACTTAGCCC-GAAATTAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACA-AATG
* * * * *
46192445 CCTTTGGGACTTAGCCC-GAAATTTGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
46192485 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46192504 TTATCATCCA
Statistics
Matches: 197, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
39 18 0.09
40 176 0.89
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
Found at i:46200483 original size:40 final size:39
Alignment explanation
Indices: 46200439--46200616 Score: 214
Period size: 39 Copynumber: 4.5 Consensus size: 39
46200429 CATATCCAGA
46200439 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAG-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* * *
46200479 CTAAGCCCGAAGGCATTTGTGCGAGATACAAATTCTGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* * *
46200518 CTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* * * *
46200557 TTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGG
1 CTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGG
*
46200597 CTATGTCCCGAAGGCATTTG
1 CTAAGT-CCGAAGGCATTTG
46200617 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 71 0.59
40 50 0.41
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
Found at i:46200541 original size:78 final size:80
Alignment explanation
Indices: 46200393--46200616 Score: 237
Period size: 79 Copynumber: 2.8 Consensus size: 80
46200383 TTGAATGATG
* * * * * *
46200393 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCAGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
46200455 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
* *
46200473 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATAC-A-AATTCTGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTATAA--CCGGGCTAAGTCCCGAAGGCAT
*
46200534 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* * *
46200551 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
46200616 G
66 G
46200617 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
77 1 0.01
78 36 0.29
79 48 0.39
80 35 0.28
81 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:46200623 original size:40 final size:39
Alignment explanation
Indices: 46200393--46200616 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
46200383 TTGAATGATG
* * * *
46200393 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
46200433 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
46200473 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46200511 TTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46200551 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46200592 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
46200617 AACGAGTAGC
Statistics
Matches: 157, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 65 0.41
40 81 0.52
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46200647 original size:79 final size:78
Alignment explanation
Indices: 46200446--46200649 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 78
46200436 AGACTAAGAT
** * * * * *
46200446 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACAA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACAA
*
46200510 ATTCTGGGCTAAGC
66 A-TCCGGGCTAAGC
** * *
46200524 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATAC-A
*
46200589 TAA-CCGGGCTATGTC
65 -AATCCGGGCTAAG-C
* *
46200604 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
46200650 TACGTGATTT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
78 32 0.30
79 47 0.44
80 26 0.24
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACAA
ATCCGGGCTAAGC
Found at i:46213256 original size:27 final size:27
Alignment explanation
Indices: 46213223--46213293 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
46213213 CCAAAGTATG
* * *
46213223 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTATTTTAAC
* *
46213250 CTTGATTTACATAATTACTATTTTAAC
1 CTCGATTTACAGAATTACTATTTTAAC
*
46213277 CTCGATTTACAAAATTA
1 CTCGATTTACAGAATTA
46213294 TCGTTTAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTATTTTAAC
Found at i:46213306 original size:27 final size:27
Alignment explanation
Indices: 46213223--46213306 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
46213213 CCAAAGTATG
* * *
46213223 CTCGATTTATAGAATTA-CTGTTTTACC
1 CTCGATTTACAAAATTATC-GTTTAACC
* * **
46213250 CTTGATTTACATAATTACTATTTTAA-C
1 CTCGATTTACAAAATTA-TCGTTTAACC
46213277 CTCGATTTACAAAATTATCGTTTAACC
1 CTCGATTTACAAAATTATCGTTTAACC
46213304 CTC
1 CTC
46213307 AATTGTGAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
26 6 0.14
27 34 0.77
28 4 0.09
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (27 bp):
CTCGATTTACAAAATTATCGTTTAACC
Found at i:46213332 original size:27 final size:27
Alignment explanation
Indices: 46213308--46213437 Score: 120
Period size: 27 Copynumber: 4.9 Consensus size: 27
46213298 TTAACCCTCA
* ** *
46213308 ATTGTGAAATTACTGAAATACCCCTAT
1 ATTGTAAAATTACCAAAATACCCCTAG
* *
46213335 ATGGTAGAATTACCAAAATACCCCTAG
1 ATTGTAAAATTACCAAAATACCCCTAG
* *
46213362 TTTGTAAAATTACCAAAATACCACTAG
1 ATTGTAAAATTACCAAAATACCCCTAG
* * * *
46213389 TTTGTGAAATTACCGAAATA-CCTTCA-
1 ATTGTAAAATTACCAAAATACCCCT-AG
*
46213415 ATTTTAAAATTACCAAAATACCC
1 ATTGTAAAATTACCAAAATACCC
46213438 TTGATTTACA
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 18 0.22
27 65 0.78
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTGTAAAATTACCAAAATACCCCTAG
Found at i:46213381 original size:54 final size:54
Alignment explanation
Indices: 46213301--46213437 Score: 140
Period size: 54 Copynumber: 2.6 Consensus size: 54
46213291 TTATCGTTTA
* **
46213301 ACCCTCAA-TTGTGAAATTACTGAAATACCCCTA-TATGGT-AGAATTACCAAAAT
1 ACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-TGGTGA-AATTACCAAAAT
* * * *
46213354 ACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAAT
1 ACCCTC-AATTTGTAAAATTACCAAAATACCCCTAGTTGGTGAAATTACCAAAAT
*
46213408 ACCTTCAATTT-TAAAATTACCAAAATACCC
1 ACCCTCAATTTGTAAAATTACCAAAATACCC
46213438 TTGATTTACA
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
52 1 0.01
53 23 0.33
54 42 0.61
55 3 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
ACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTGGTGAAATTACCAAAAT
Found at i:46213450 original size:27 final size:27
Alignment explanation
Indices: 46213342--46213550 Score: 142
Period size: 27 Copynumber: 7.7 Consensus size: 27
46213332 TATATGGTAG
*
46213342 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
46213369 AATTACCAAAATACCACTAG-TTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
* *
46213396 AATTACCGAAATA-CCTTCAATTT-TAA
1 AATTACCAAAATACCCTT-GATTTGTAA
**
46213422 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
46213449 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * * **
46213478 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** * *
46213505 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
46213532 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
46213551 TAGGATGAAA
Statistics
Matches: 146, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
25 2 0.01
26 21 0.14
27 96 0.66
28 8 0.05
29 19 0.13
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:46213452 original size:53 final size:53
Alignment explanation
Indices: 46213366--46213519 Score: 150
Period size: 56 Copynumber: 2.8 Consensus size: 53
46213356 CCCTAGTTTG
* *** *
46213366 TAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCTTCAATTT-
1 TAAAATTACCAAAATACC-CTTGTTTACAAAATTACAGAAATACCTTCAATTTC
* *
46213419 TAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCCTTG-TTTACAAAATTACAGAAATA-CCTTCAATTTC
* * *
46213474 TAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 T-AAAATTACCA-AAATACCCTT-GTTTACAAAATTACAGAAATACC
46213520 CTTGGTTTGT
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
52 3 0.04
53 34 0.40
54 8 0.09
55 4 0.05
56 35 0.41
57 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (53 bp):
TAAAATTACCAAAATACCCTTGTTTACAAAATTACAGAAATACCTTCAATTTC
Found at i:46213645 original size:27 final size:27
Alignment explanation
Indices: 46213568--46213645 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
46213558 AAATGACTAA
* *
46213568 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
46213595 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
46213622 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
46213646 GATTATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:46214476 original size:26 final size:26
Alignment explanation
Indices: 46214447--46214595 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
46214437 GAGGAAGTGC
* *
46214447 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
46214473 AAAAGGGCCTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
46214499 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
46214525 AAAATGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
46214551 AGAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
46214576 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
46214596 ATTAAAGAGG
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 31 0.29
26 77 0.71
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:46214799 original size:42 final size:42
Alignment explanation
Indices: 46214740--46214828 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
46214730 TAGTCTCCCC
* ** *
46214740 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46214782 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46214824 AAATG
1 AAATG
46214829 AGTCTAAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:46214932 original size:31 final size:31
Alignment explanation
Indices: 46214855--46214933 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
46214845 CATTTACAGT
* *
46214855 AAAGGGTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46214886 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46214917 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
46214934 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:46217279 original size:27 final size:27
Alignment explanation
Indices: 46217249--46217333 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
46217239 AAGTACGCTC
* * *
46217249 GATTTATAGAATTACTATTTTACCCTT
1 GATTTACAAAATTACTGTTTTACCCTT
*
46217276 GATTTACAAAATTACTGTTTTACCCTC
1 GATTTACAAAATTACTGTTTTACCCTT
46217303 GATTTACAAAATTA-TCGTTTTACCCTT
1 GATTTACAAAATTACT-GTTTTACCCTT
46217330 GATT
1 GATT
46217334 GTGAAATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (27 bp):
GATTTACAAAATTACTGTTTTACCCTT
Found at i:46217355 original size:27 final size:27
Alignment explanation
Indices: 46217325--46217460 Score: 109
Period size: 27 Copynumber: 5.1 Consensus size: 27
46217315 TATCGTTTTA
* **
46217325 CCCTTGATTGTGAAATTACTGAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* *
46217352 CCCT--ATAGGGCAGAATTACCAAAATAC
1 CCCTAGATTGTG-A-AATTACCAAAATAC
* *
46217379 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* * *
46217406 CACTAGTTTGTGAAATTACCGAAATA-
1 CCCTAGATTGTGAAATTACCAAAATAC
* *
46217432 CCCTCA-ATTTTAAAATTACCAAAATAC
1 CCCT-AGATTGTGAAATTACCAAAATAC
46217459 CC
1 CC
46217461 TTGATTTACA
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
25 4 0.05
26 20 0.23
27 60 0.69
28 1 0.01
29 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (27 bp):
CCCTAGATTGTGAAATTACCAAAATAC
Found at i:46217406 original size:54 final size:53
Alignment explanation
Indices: 46217332--46217460 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 53
46217322 TTACCCTTGA
* ** *
46217332 TTGTGAAATTACTGAAATACCCCTA-TAGGGCAGAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCCTAGTAGGG-A-AATTACCAAAATACCCTC-AAT
* * * *
46217386 TTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCCCTAG-TAGGGAAATTACCAAAATACCCTCAAT
46217440 TT-TAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
46217461 TTGATTTACA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
53 18 0.29
54 40 0.63
55 2 0.03
56 3 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTAGTAGGGAAATTACCAAAATACCCTCAAT
Found at i:46217475 original size:53 final size:53
Alignment explanation
Indices: 46217365--46217574 Score: 183
Period size: 53 Copynumber: 3.9 Consensus size: 53
46217355 TATAGGGCAG
* * ***
46217365 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGA
1 AATTACCGAAATACCCTC-AGTTTGTAAAATTACCAAAATACC-CTTGTTTACAA
*
46217419 AATTACCGAAATACCCTCAATTT-TAAAATTACCAAAATACCCTTGATTTACAA
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTG-TTTACAA
* * * * * *
46217472 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCC-TCAGTTTGT-AAAATTACCA-AAATACCCTT-GTTTACAA
* * * * *
46217528 AATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAACACCCTTGT
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTGT
46217575 AGGAAGAAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
52 3 0.02
53 39 0.30
54 37 0.29
55 10 0.08
56 38 0.30
57 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AATTACCGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTTGTTTACAA
Found at i:46217511 original size:29 final size:27
Alignment explanation
Indices: 46217418--46217545 Score: 127
Period size: 27 Copynumber: 4.7 Consensus size: 27
46217408 CTAGTTTGTG
* ** *
46217418 AAATTACCGAAATACCCTCAATTT-TA
1 AAATTACAGAAATACCCTTGATTTACA
46217444 AAATTACCA-AAATACCCTTGATTTACA
1 AAATTA-CAGAAATACCCTTGATTTACA
46217471 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACAGAAATACCCTTGA-TTTAC--A
* * *
46217500 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGATTTACA
*
46217527 AAATTACTGAAATACCCTT
1 AAATTACAGAAATACCCTT
46217546 AGTTTGTAGA
Statistics
Matches: 85, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
26 21 0.25
27 38 0.45
28 6 0.07
29 20 0.24
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:46217550 original size:27 final size:26
Alignment explanation
Indices: 46217365--46217550 Score: 124
Period size: 27 Copynumber: 6.9 Consensus size: 26
46217355 TATAGGGCAG
* * *
46217365 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTT-CAA
* **
46217392 AATTACCAAAATACCAC-TAGTTTGTGA
1 AATTACCGAAATACC-CTTAGTTT-CAA
* * *
46217419 AATTACCGAAATACCCTCAATTTTAA
1 AATTACCGAAATACCCTTAGTTTCAA
*
46217445 AATTACCAAAATACCCTT-GATTTACAA
1 AATTACCGAAATACCCTTAG-TTT-CAA
* *
46217472 AATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCGAAATACCCTT-AGTTTC--AA
** * *
46217501 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTAGTTT-CAA
*
46217528 AATTACTGAAATACCCTTAGTTT
1 AATTACCGAAATACCCTTAGTTT
46217551 GTAGATTTAC
Statistics
Matches: 130, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
26 22 0.17
27 82 0.63
28 7 0.05
29 19 0.15
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (26 bp):
AATTACCGAAATACCCTTAGTTTCAA
Found at i:46218498 original size:26 final size:26
Alignment explanation
Indices: 46218469--46218643 Score: 228
Period size: 26 Copynumber: 6.8 Consensus size: 26
46218459 GAGGAAGTGC
**
46218469 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
46218495 AAAAGGGATTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
** **
46218521 AAAAGGGCTTATATCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
46218547 AAAAGGTCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
46218573 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
46218599 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
46218624 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
46218644 ATTAAAGAGG
Statistics
Matches: 128, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 31 0.24
26 97 0.76
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:46218547 original size:52 final size:51
Alignment explanation
Indices: 46218469--46218633 Score: 260
Period size: 52 Copynumber: 3.2 Consensus size: 51
46218459 GAGGAAGTGC
*
46218469 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCG
1 AAAAGGGCTTAT-CCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
46218521 AAAAGGGCTTATATCCCAGTTTATTGAAAAGGTCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTAT-CCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
46218573 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTAT-CCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
46218624 AAAAGGGCTT
1 AAAAGGGCTT
46218634 TGCCCTAGTT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 25 0.24
52 80 0.76
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:46218847 original size:42 final size:42
Alignment explanation
Indices: 46218788--46218879 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
46218778 TAGTCTCCCC
* ** *
46218788 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46218830 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46218872 AAATGGGC
1 AAATGGGC
46218880 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:46218938 original size:31 final size:31
Alignment explanation
Indices: 46218903--46219012 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
46218893 CGTTTACAGT
*
46218903 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46218934 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
46218965 AAAGGCTTCGGCCCAGTGATATAATTAATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
46218996 AAAGGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
46219013 AACCGTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:46222850 original size:34 final size:34
Alignment explanation
Indices: 46222770--46222851 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
46222760 TATACTGAAT
* **
46222770 TGGGCTAAGGCCTACACAGATACTGGTACTGTAA
1 TGGGCTAAGGCCCACACAGATACTGCCACTGTAA
* * * *
46222804 TAGGCTAGGGCCCACACTGATATTGCCACTG-ATA
1 TGGGCTAAGGCCCACACAGATACTGCCACTGTA-A
46222838 TGGGCTAAGGCCCA
1 TGGGCTAAGGCCCA
46222852 GACCATTTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACAGATACTGCCACTGTAA
Found at i:46223668 original size:14 final size:15
Alignment explanation
Indices: 46223651--46223679 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46223641 TCACAAAAAT
46223651 TTCACACAT-ATAAA
1 TTCACACATAATAAA
46223665 TTCACACATAATAAA
1 TTCACACATAATAAA
46223680 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:46226728 original size:42 final size:43
Alignment explanation
Indices: 46226620--46226784 Score: 135
Period size: 43 Copynumber: 3.8 Consensus size: 43
46226610 TATTGATCTA
* * * *
46226620 AATTATCGTGTAAGACCGTATTTGGGACA-CTGGCATCGGT-TTG
1 AATT-TCGTGTAAGACCCTGTCTGGGACATC-GGCATCGATATTG
* *
46226663 AAATTTACGTGTAAGACCATGTCTAGGACATCGGCATC-ATATCT-
1 -AATTT-CGTGTAAGACCCTGTCTGGGACATCGGCATCGATAT-TG
* *
46226707 AATTTCGTGTAAGACCCTGTCTGGGATAGT-GGCTTCGATATTG
1 AATTTCGTGTAAGACCCTGTCTGGGACA-TCGGCATCGATATTG
* *
46226750 AATTACATGTAAGACCAC-GTCTGGGACATCGGCAT
1 AATTTCGTGTAAGACC-CTGTCTGGGACATCGGCAT
46226785 TGTACTTGTC
Statistics
Matches: 99, Mismatches: 13, Indels: 19
0.76 0.10 0.15
Matches are distributed among these distances:
42 27 0.27
43 39 0.39
44 31 0.31
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
AATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCGATATTG
Found at i:46240375 original size:30 final size:30
Alignment explanation
Indices: 46240341--46240411 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
46240331 CTTGTGCCCG
* *
46240341 TGTGAGCCACACGACCTAGTCATACAGGCA
1 TGTGAGCCACACGACCTAGTCACACAGACA
46240371 TGTGAGCCACACGACCTAGTCACACAGACA
1 TGTGAGCCACACGACCTAGTCACACAGACA
*
46240401 TGTGAACCACA
1 TGTGAGCCACA
46240412 TGGGTCAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.15
Consensus pattern (30 bp):
TGTGAGCCACACGACCTAGTCACACAGACA
Found at i:46242441 original size:17 final size:17
Alignment explanation
Indices: 46242421--46242454 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46242411 ATGATGGGAT
*
46242421 AATTCGAATTGAGTCTA
1 AATTCGAAATGAGTCTA
46242438 AATTCGAAATGAGTCTA
1 AATTCGAAATGAGTCTA
46242455 GTGATCTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
AATTCGAAATGAGTCTA
Found at i:46246656 original size:44 final size:43
Alignment explanation
Indices: 46246569--46246702 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 43
46246559 CGTTGGTATT
* *
46246569 GATTTAAATTATCGTATAAGACCGTGTCTGGGACACTAGCATC
1 GATTTAAATTATCGTATAAGACCATGTCTGGGACACGAGCATC
* *
46246612 GATTTGAAATT-TACGTGTAAGACCATGTCTGGGAGATCGA-CATC
1 GATTT-AAATTAT-CGTATAAGACCATGTCTGGGACA-CGAGCATC
* * * * *
46246656 GTATCT--GTTTTCGTATAAGACCCTGTCGGGGACA-GAGGCATC
1 G-ATTTAAATTATCGTATAAGACCATGTCTGGGACACGA-GCATC
46246698 GATTT
1 GATTT
46246703 TGGATTACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
40 2 0.03
41 3 0.04
42 26 0.36
43 7 0.10
44 30 0.41
45 5 0.07
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTAAATTATCGTATAAGACCATGTCTGGGACACGAGCATC
Found at i:46253390 original size:13 final size:13
Alignment explanation
Indices: 46253372--46253399 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46253362 ATGTATTTAT
46253372 GTAGTGGACGGTG
1 GTAGTGGACGGTG
46253385 GTAGTGGACGGTG
1 GTAGTGGACGGTG
46253398 GT
1 GT
46253400 GGGGGCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.54, T:0.25
Consensus pattern (13 bp):
GTAGTGGACGGTG
Found at i:46254155 original size:25 final size:25
Alignment explanation
Indices: 46254121--46254172 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
46254111 TTCGAATGCG
46254121 TGCTAGAAATTAATATCTAAAGGCA
1 TGCTAGAAATTAATATCTAAAGGCA
46254146 TGCTAGAAATTAATATCTAAAGGCA
1 TGCTAGAAATTAATATCTAAAGGCA
46254171 TG
1 TG
46254173 AATATGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (25 bp):
TGCTAGAAATTAATATCTAAAGGCA
Found at i:46258061 original size:18 final size:18
Alignment explanation
Indices: 46258020--46258171 Score: 126
Period size: 18 Copynumber: 8.4 Consensus size: 18
46258010 TATCAATATC
46258020 ATTCAGTAAC-GATCAATT
1 ATTCAGTAACAG-TCAATT
** * *
46258038 GCTCAGTAACAATCAGTT
1 ATTCAGTAACAGTCAATT
* *
46258056 ATTCAGTAACAGCCATTT
1 ATTCAGTAACAGTCAATT
* *
46258074 ATTCATTAATAGTCAATT
1 ATTCAGTAACAGTCAATT
* * *
46258092 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAGTCAATT
* *
46258110 ATTCAGTAACAGTTATTT
1 ATTCAGTAACAGTCAATT
* *
46258128 ATTCACTAACAGTTAATT
1 ATTCAGTAACAGTCAATT
* * *
46258146 ATTCACTAGCAGTCAGTT
1 ATTCAGTAACAGTCAATT
46258164 ATTCAGTA
1 ATTCAGTA
46258172 CCTTTATTTA
Statistics
Matches: 107, Mismatches: 26, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
18 107 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
ATTCAGTAACAGTCAATT
Found at i:46258106 original size:54 final size:54
Alignment explanation
Indices: 46258040--46258171 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
46258030 GATCAATTGC
* *
46258040 TCAGTAACAATCAGTTATTCAGTAACAGCCATTTATTCATTAATAGTCAATTAT
1 TCAGTAACAATCAGTTATTCAGTAACAGCCATTTATTCACTAACAGTCAATTAT
* ** *
46258094 TCAGTAATAATCAGTTATTCAGTAACAGTTATTTATTCACTAACAGTTAATTAT
1 TCAGTAACAATCAGTTATTCAGTAACAGCCATTTATTCACTAACAGTCAATTAT
* * *
46258148 TCACTAGCAGTCAGTTATTCAGTA
1 TCAGTAACAATCAGTTATTCAGTA
46258172 CCTTTATTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (54 bp):
TCAGTAACAATCAGTTATTCAGTAACAGCCATTTATTCACTAACAGTCAATTAT
Found at i:46258416 original size:44 final size:44
Alignment explanation
Indices: 46258317--46258416 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
46258307 GGATTAAACT
*
46258317 AAAGT-AACAGTAATAGTACGACACACGAAGTGCCTCATTGACAC
1 AAAGTCAA-AGTAATAGTACGACACACGAAGTGCCTCATCGACAC
* ** *
46258361 AAAGTCGAAGTAATAGTACGACACTA-TTAGTGCCTCATCGACCC
1 AAAGTCAAAGTAATAGTACGACAC-ACGAAGTGCCTCATCGACAC
**
46258405 ATGGTCAAAGTA
1 AAAGTCAAAGTA
46258417 TCCCTGTACA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (44 bp):
AAAGTCAAAGTAATAGTACGACACACGAAGTGCCTCATCGACAC
Found at i:46258532 original size:20 final size:20
Alignment explanation
Indices: 46258507--46258544 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46258497 TCCAGTTTTC
46258507 AATCAGTATATATT-TCAAAT
1 AATCAG-ATATATTCTCAAAT
46258527 AATCAGATATATTCTCAA
1 AATCAGATATATTCTCAA
46258545 TTCAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (20 bp):
AATCAGATATATTCTCAAAT
Found at i:46258554 original size:16 final size:15
Alignment explanation
Indices: 46258514--46258563 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 15
46258504 TTCAATCAGT
46258514 ATATATTTCAAATAATCA
1 ATATATTTC-AAT--TCA
46258532 GATATATTCTCAATTCA
1 -ATATATT-TCAATTCA
46258549 ATATATTTCAATTCA
1 ATATATTTCAATTCA
46258564 CTTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 10 0.33
20 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATATTTCAATTCA
Found at i:46259696 original size:14 final size:15
Alignment explanation
Indices: 46259669--46259701 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
46259659 TATTTATTTA
46259669 ATTAATATAAAATAAT
1 ATTAATAT-AAATAAT
46259685 ATTAATAT-AATAAT
1 ATTAATATAAATAAT
46259699 ATT
1 ATT
46259702 TGCTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAATATAAATAAT
Found at i:46260094 original size:21 final size:21
Alignment explanation
Indices: 46260070--46260139 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
46260060 GGATCTGAAC
46260070 TCATTGAGTTGTGGACTGAGT
1 TCATTGAGTTGTGGACTGAGT
* * **
46260091 TCA-TGATATATGTGGCATCTAAAC
1 TCATTGA-GT-TGTGG-A-CTGAGT
*
46260115 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGACTGAGT
46260136 TCAT
1 TCAT
46260140 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 3 0.09
21 11 0.31
22 5 0.14
23 6 0.17
24 7 0.20
25 3 0.09
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (21 bp):
TCATTGAGTTGTGGACTGAGT
Found at i:46260134 original size:45 final size:45
Alignment explanation
Indices: 46260062--46260149 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
46260052 GAACTATGGG
*
46260062 ATCTGAACTCATTGAGTTGTGGACTGAGTTCATGATATATGTGGC
1 ATCTAAACTCATTGAGTTGTGGACTGAGTTCATGATATATGTGGC
* *
46260107 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAGTTGTGGACTGAGTTCATGATATATGTG
46260150 ACACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGACTGAGTTCATGATATATGTGGC
Found at i:46263796 original size:69 final size:69
Alignment explanation
Indices: 46263685--46263820 Score: 245
Period size: 69 Copynumber: 2.0 Consensus size: 69
46263675 TGCTAGCAGT
* *
46263685 AGGATGCGGGTTTTCAAAAAGGTAAATTTTTTTCAAAACACCACATTTAAGCAACATGTTTTAAA
1 AGGATGCAGGTTTTCAAAAAGGTAAATGTTTTTCAAAACACCACATTTAAGCAACATGTTTTAAA
46263750 GCGC
66 GCGC
*
46263754 AGGATGCAGGTTTTCAAAAAGGTAAATGTTTTTCAAAACACCACGTTTAAGCAACATGTTTTAAA
1 AGGATGCAGGTTTTCAAAAAGGTAAATGTTTTTCAAAACACCACATTTAAGCAACATGTTTTAAA
46263819 GC
66 GC
46263821 TTCCACAAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (69 bp):
AGGATGCAGGTTTTCAAAAAGGTAAATGTTTTTCAAAACACCACATTTAAGCAACATGTTTTAAA
GCGC
Found at i:46267451 original size:46 final size:47
Alignment explanation
Indices: 46267285--46267454 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
46267275 TGTAACCCGC
* * * *
46267285 CCATAAGCGAACTTGGACTCAACTCGATGAGCTC-GAGCGTTCGCAA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCGCAT
* * * *
46267331 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-G-C--GTTCGCAT
*
46267381 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGA-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCGCAT
*
46267424 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
46267455 TTCATATGCC
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.52
47 29 0.28
48 3 0.03
49 2 0.02
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCGCAT
Found at i:46267464 original size:93 final size:93
Alignment explanation
Indices: 46267292--46267464 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
46267282 CGCCCATAAG
* * *
46267292 CGAACTTGGACTCAACTCGATGAGCTCGAGCGTTCGCAACCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAACCATAAGTGAACTCGGACTCAACTCA
* *
46267357 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
46267385 CGAACTCGGACTCAACTCAACGAGCTCG-GACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCAACCATAAGTGAACTCGGACTCAACTC
*
46267449 AACGAGTTCATATGCC
65 AACGAGTTCAGATGCC
46267465 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAACCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:46285831 original size:37 final size:37
Alignment explanation
Indices: 46285723--46285831 Score: 166
Period size: 37 Copynumber: 2.9 Consensus size: 37
46285713 NNNNNNNNNN
*
46285723 TCCGGGTAAGACCCGATGACTAT-GTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACT-TCGTGTGGAGATTTTG
* *
46285760 TCGGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
*
46285797 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTT
46285832 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
Found at i:46288164 original size:41 final size:40
Alignment explanation
Indices: 46288119--46288244 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
46288109 ATAAGTGTGT
*
46288119 GCATTAGAATTGAGAGTTATATCCGAGCTAAGTCCCGAAGA
1 GCATTAGAACTG-GAGTTATATCCGAGCTAAGTCCCGAAGA
* ** * * *
46288160 GCATTCGTGCTGGTGTTATATTCGGGCTAAGTCCCGAAGA
1 GCATTAGAACTGGAGTTATATCCGAGCTAAGTCCCGAAGA
* ** * * * * *
46288200 GCATTCGTGCTGGTGTTACATCCGGGCTAAGTCCTGAAGG
1 GCATTAGAACTGGAGTTATATCCGAGCTAAGTCCCGAAGA
46288240 GCATT
1 GCATT
46288245 CGTGCCGATG
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 66 0.89
41 8 0.11
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
GCATTAGAACTGGAGTTATATCCGAGCTAAGTCCCGAAGA
Found at i:46288178 original size:40 final size:40
Alignment explanation
Indices: 46288134--46288249 Score: 187
Period size: 40 Copynumber: 2.9 Consensus size: 40
46288124 AGAATTGAGA
*
46288134 GTTATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
46288174 GTTATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
46288214 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGC
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
46288250 CGATGATGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:46288383 original size:43 final size:43
Alignment explanation
Indices: 46288246--46288385 Score: 163
Period size: 43 Copynumber: 3.3 Consensus size: 43
46288236 AAGGGCATTC
* * * * * *
46288246 GTGCCGATGATGTGAAATCAGGCCTTCATGCCTAGCAGGCTTT
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
* * *
46288289 GTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGCAGGCTTC
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
* * *
46288332 GTGTCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGCTTA
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
*
46288375 ATGCCGGTGAT
1 GTGCCGGTGAT
46288386 TCGAGCAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (43 bp):
GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
Found at i:46288543 original size:25 final size:25
Alignment explanation
Indices: 46288504--46288554 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
46288494 TGTGTAATAA
46288504 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
46288529 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
46288554 C
1 C
46288555 AAATTCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:46289872 original size:24 final size:24
Alignment explanation
Indices: 46289845--46289923 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
46289835 GTGTGCTAGC
46289845 AAATTTGGTATATTGTATAGTTGT
1 AAATTTGGTATATTGTATAGTTGT
* * * * *
46289869 AAA-TTGCCTTTATTATGTGT-GCTAGC
1 AAATTTG-GTATA-T-TGTATAG-TTGT
46289895 AAATTTGGTATATTGTATAGTTGT
1 AAATTTGGTATATTGTATAGTTGT
46289919 AAATT
1 AAATT
46289924 GCCTTGTATT
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
23 3 0.08
24 17 0.44
25 4 0.10
26 12 0.31
27 3 0.08
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (24 bp):
AAATTTGGTATATTGTATAGTTGT
Found at i:46289904 original size:50 final size:51
Alignment explanation
Indices: 46289828--46289934 Score: 207
Period size: 50 Copynumber: 2.1 Consensus size: 51
46289818 ATTCAGTTAA
46289828 GTATTATGTGTGCTAGCAAATTTGGTATATTGTATAGTTGTAAATTGCCTT
1 GTATTATGTGTGCTAGCAAATTTGGTATATTGTATAGTTGTAAATTGCCTT
46289879 -TATTATGTGTGCTAGCAAATTTGGTATATTGTATAGTTGTAAATTGCCTT
1 GTATTATGTGTGCTAGCAAATTTGGTATATTGTATAGTTGTAAATTGCCTT
46289929 GTATTA
1 GTATTA
46289935 GATGCTTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 50 0.91
51 5 0.09
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (51 bp):
GTATTATGTGTGCTAGCAAATTTGGTATATTGTATAGTTGTAAATTGCCTT
Found at i:46289908 original size:26 final size:26
Alignment explanation
Indices: 46289829--46289908 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
46289819 TTCAGTTAAG
46289829 TATTATGTGTGCTAGCAAATTTGGTA
1 TATTATGTGTGCTAGCAAATTTGGTA
* * * * *
46289855 TA-T-TGTATAG-TTGTAAA-TTGCCTT
1 TATTATGTGT-GCTAGCAAATTTG-GTA
46289879 TATTATGTGTGCTAGCAAATTTGGTA
1 TATTATGTGTGCTAGCAAATTTGGTA
46289905 TATT
1 TATT
46289909 GTATAGTTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
23 3 0.08
24 12 0.32
25 4 0.11
26 16 0.42
27 3 0.08
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (26 bp):
TATTATGTGTGCTAGCAAATTTGGTA
Found at i:46293041 original size:39 final size:39
Alignment explanation
Indices: 46292987--46293116 Score: 215
Period size: 39 Copynumber: 3.3 Consensus size: 39
46292977 AGGTGTTACA
*
46292987 CTATGTGCTGGAATTATATCCGGACTTTGGGTCCGCAGG
1 CTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGG
*
46293026 CTATGTGCTGGAATTATATCCGAACTTAGGGTCCGCAGG
1 CTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGG
* *
46293065 CTATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGG
1 CTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGG
*
46293104 CTACGTGCTGGAA
1 CTATGTGCTGGAA
46293117 ATATGTCTGG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
CTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGG
Found at i:46293144 original size:39 final size:39
Alignment explanation
Indices: 46292991--46293153 Score: 148
Period size: 39 Copynumber: 4.2 Consensus size: 39
46292981 GTTACACTAT
* *** *
46292991 GTGCTGGAATTATATCCGGACTTTGGGTCCGCAGGCTAT
1 GTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTAC
* * ** *
46293030 GTGCTGGAATTATATCCGAACTTAGGGTCCGCAGGCTAT
1 GTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTAC
* * *
46293069 GTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTAC
1 GTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTAC
* * * *
46293108 GTGCTGGAAATATGTCTGGGC-TAAAGTCCCGCAGGCTTC
1 GTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTAC
*
46293147 GAGCTGG
1 GTGCTGG
46293154 TATTATACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.05
39 104 0.95
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (39 bp):
GTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTAC
Found at i:46293153 original size:78 final size:78
Alignment explanation
Indices: 46292987--46293160 Score: 190
Period size: 78 Copynumber: 2.2 Consensus size: 78
46292977 AGGTGTTACA
* ** * *
46292987 CTATGTGCTGGAATTATATCCGGACTTTGGGTCCGCAGGCTATGTGCTGGAATTATATCCGAACT
1 CTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACT
**
46293052 TAGGGTCCGCAGG
66 TAAAGTCCGCAGG
* * * * **
46293065 CTATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATGTCTGGGC-
1 CTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACT
46293129 TAAAGTCCCGCAGG
66 TAAAGT-CCGCAGG
*
46293143 CT-TCGAGCTGGTATTATA
1 CTAT-GAGCTGGAATTATA
46293161 CCAGGTTTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
77 5 0.06
78 76 0.94
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (78 bp):
CTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACT
TAAAGTCCGCAGG
Found at i:46299908 original size:39 final size:39
Alignment explanation
Indices: 46299854--46299977 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
46299844 ATTTGATGTG
46299854 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
46299893 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * * * *
46299932 TATCTGGACTGAAGGTCCGTAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
46299971 TGTCCGG
1 TATCCGG
46299978 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:46301244 original size:15 final size:15
Alignment explanation
Indices: 46301226--46301264 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
46301216 TCCAAGATTG
46301226 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
46301241 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
46301256 AGAAACCCA
1 AGAAACCCA
46301265 AGATACGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:46301260 original size:30 final size:30
Alignment explanation
Indices: 46301205--46301264 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
46301195 CGGGAAAACC
**
46301205 GAATAAAGAAATCCAAGATTGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
46301235 GAATAAAGAAATCC-AGAATAAAGAAACCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
46301265 AGATACGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:46302310 original size:27 final size:27
Alignment explanation
Indices: 46302291--46302402 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
46302281 ATTACCAAAG
46302291 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
46302318 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
**
46302345 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
** * * *
46302372 TACCCTTAATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
46302399 TACC
1 TACC
46302403 TGCCCTTATG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:46302349 original size:54 final size:54
Alignment explanation
Indices: 46302291--46302402 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
46302281 ATTACCAAAG
* *
46302291 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTT
* * *
46302345 TACCCTCGATTTATAGAATTACTATTTTACCCTTAATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTT
46302399 TACC
1 TACC
46302403 TGCCCTTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTT
Found at i:46302910 original size:27 final size:26
Alignment explanation
Indices: 46302878--46302982 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
46302868 ATTAGGGGTT
46302878 AATACCCCTGTAGGGTAAAATTATCGA
1 AATACCCCTGTAGGGTAAAATTA-CGA
* * *
46302905 AATACCCCTATAGGGTAGAATTACTAA
1 AATACCCCTGTAGGGTAAAATTAC-GA
* * *
46302932 AATACTCCTGTAAGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAAAATTA-CGA
* * *
46302959 GATACCCTTGTGGGGTAAAATTAC
1 AATACCCCTGTAGGGTAAAATTAC
46302983 CATTTTACCT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.03
27 60 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (26 bp):
AATACCCCTGTAGGGTAAAATTACGA
Found at i:46302975 original size:54 final size:54
Alignment explanation
Indices: 46302878--46302982 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
46302868 ATTAGGGGTT
* * *
46302878 AATACCCCTGTAGGGTAAAATTATCGAAATACCCCTATAGGGTAGAATTACTAA
1 AATACCCCTGTAAGGTAAAATTACCGAAATACCCCTATAGGGTAAAATTACTAA
* * * * * *
46302932 AATACTCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATACCCCTGTAAGGTAAAATTACCGAAATACCCCTATAGGGTAAAATTAC
46302983 CATTTTACCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATACCCCTGTAAGGTAAAATTACCGAAATACCCCTATAGGGTAAAATTACTAA
Found at i:46303266 original size:52 final size:51
Alignment explanation
Indices: 46303188--46303310 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
46303178 GGGGAAGTGC
* *
46303188 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
46303240 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
46303291 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
46303311 ATTAAAGAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 10 0.14
51 24 0.35
52 35 0.51
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
Found at i:46303287 original size:25 final size:26
Alignment explanation
Indices: 46303188--46303310 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
46303178 GGGGAAGTGC
* **
46303188 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
46303214 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
46303240 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
46303266 AAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
46303291 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
46303311 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.35
26 57 0.65
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:46303514 original size:42 final size:42
Alignment explanation
Indices: 46303455--46303546 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
46303445 TAGTCTCCCC
* ** *
46303455 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46303497 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46303539 AAATGGGC
1 AAATGGGC
46303547 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:46303605 original size:31 final size:31
Alignment explanation
Indices: 46303570--46303648 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
46303560 CGTTTACAGT
46303570 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46303601 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46303632 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
46303649 AACCGTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:46306734 original size:42 final size:42
Alignment explanation
Indices: 46306594--46306757 Score: 123
Period size: 42 Copynumber: 3.7 Consensus size: 42
46306584 GCCTATAAGC
* * *
46306594 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC---A-T
* ** * * *
46306640 GAACTCAGACTCAACTCAACGAATTTGGATGCTTAGTT-ACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGA--C--A-TTCGCATC-CAT
*
46306687 AAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
* *
46306729 GAACTCGGACTCAACTCAACAAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
46306758 TGCCCAAATA
Statistics
Matches: 92, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 30 0.33
43 5 0.05
45 1 0.01
46 23 0.25
47 24 0.26
48 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (42 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
Found at i:46314408 original size:143 final size:143
Alignment explanation
Indices: 46314150--46314435 Score: 554
Period size: 143 Copynumber: 2.0 Consensus size: 143
46314140 TGGAACTTGA
* *
46314150 CGGTTTTTTCCCAGTCCTGGGTAGCTAATTGTTGTCGCATTTGCGCCCTCTTCCATCACCATTGA
1 CGGTTTTTTCCCAGTCCTGGGTAGCTAATTGGTGTCGCATTTGCACCCTCTTCCATCACCATTGA
46314215 GCTTATCACCATTGCACAAATCCACAACACCATGATCCTCTTCTCCACTCCCATTTTCTTCCAAG
66 GCTTATCACCATTGCACAAATCCACAACACCATGATCCTCTTCTCCACTCCCATTTTCTTCCAAG
46314280 AAATATACATTTC
131 AAATATACATTTC
46314293 CGGTTTTTTCCCAGTCCTGGGTAGCTAATTGGTGTCGCATTTGCACCCTCTTCCATCACCATTGA
1 CGGTTTTTTCCCAGTCCTGGGTAGCTAATTGGTGTCGCATTTGCACCCTCTTCCATCACCATTGA
46314358 GCTTATCACCATTGCACAAATCCACAACACCATGATCCTCTTCTCCACTCCCATTTTCTTCCAAG
66 GCTTATCACCATTGCACAAATCCACAACACCATGATCCTCTTCTCCACTCCCATTTTCTTCCAAG
46314423 AAATATACATTTC
131 AAATATACATTTC
46314436 TTTATTTAAT
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 141 1.00
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (143 bp):
CGGTTTTTTCCCAGTCCTGGGTAGCTAATTGGTGTCGCATTTGCACCCTCTTCCATCACCATTGA
GCTTATCACCATTGCACAAATCCACAACACCATGATCCTCTTCTCCACTCCCATTTTCTTCCAAG
AAATATACATTTC
Found at i:46316449 original size:45 final size:45
Alignment explanation
Indices: 46316385--46316472 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
46316375 GAACTATGCG
*
46316385 ATCTGAACTCATGAAGTTGTGGTTTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATGAAGTTGTGGTATGAGTTCATGATATATGTGGC
*
46316430 ATCTGAACTCATTG-AGTTGTGGTATGAGTTCATGATGTATGTG
1 ATCTGAACTCA-TGAAGTTGTGGTATGAGTTCATGATATATGTG
46316473 ACACATGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATGAAGTTGTGGTATGAGTTCATGATATATGTGGC
Found at i:46324753 original size:54 final size:54
Alignment explanation
Indices: 46324689--46324799 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
46324679 ATTTATACAA
*
46324689 ACATTCAATTAATAAAACTATTGAATGCAATATAAGTGGAAGAATAAAGGGACG
1 ACATTCAATTAATAAAACTATTGAATACAATATAAGTGGAAGAATAAAGGGACG
* *
46324743 ACATTCAATTAATAAAATTATTGAATACAATATAAGTGGAAGAATAAAGGGATG
1 ACATTCAATTAATAAAACTATTGAATACAATATAAGTGGAAGAATAAAGGGACG
46324797 ACA
1 ACA
46324800 ATGCTCAAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (54 bp):
ACATTCAATTAATAAAACTATTGAATACAATATAAGTGGAAGAATAAAGGGACG
Found at i:46335724 original size:13 final size:13
Alignment explanation
Indices: 46335706--46335745 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
46335696 GCTTGACAGG
46335706 GACATGCCCATGT
1 GACATGCCCATGT
46335719 GACATGCCCATGT
1 GACATGCCCATGT
*
46335732 GACATGCCCGTGT
1 GACATGCCCATGT
46335745 G
1 G
46335746 CTATTGCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.23
Consensus pattern (13 bp):
GACATGCCCATGT
Found at i:46354406 original size:40 final size:40
Alignment explanation
Indices: 46354344--46354681 Score: 479
Period size: 40 Copynumber: 8.5 Consensus size: 40
46354334 AAACCAAGTA
* * *
46354344 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
46354383 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46354423 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46354463 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46354503 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46354543 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46354583 CCTTCGGGACTTAGCCCGGA-ATTACTAACTCGCA-ACAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATG
* * * *
46354623 CCTTCGGGACTTAGCCC-GAAATTTGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
46354663 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46354682 TTATCATCCG
Statistics
Matches: 279, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.06
40 260 0.93
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46360018 original size:27 final size:26
Alignment explanation
Indices: 46359970--46360021 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46359960 GCGAGGCTGC
*
46359970 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
46359996 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
46360022 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46360853 original size:30 final size:31
Alignment explanation
Indices: 46360783--46360865 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
46360773 TCAATCTCAA
46360783 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* * *
46360813 CATGTCACTGGGCCGAAGGCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
46360843 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
46360866 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 26 0.55
31 21 0.45
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:46361132 original size:25 final size:23
Alignment explanation
Indices: 46361073--46361132 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
46361063 CTAGAGGCCT
*
46361073 AGCCTCTTTTAATAACTGCGGCAA
1 AGCC-CTTTTGATAACTGCGGCAA
*
46361097 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGAT-AACTGCGGC-AA
46361123 AGCCCTTTTG
1 AGCCCTTTTG
46361133 CACTTCCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 1 0.03
24 10 0.32
25 13 0.42
26 7 0.23
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
AGCCCTTTTGATAACTGCGGCAA
Found at i:46368752 original size:8 final size:8
Alignment explanation
Indices: 46368739--46368773 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
46368729 ATGAATCGGC
*
46368739 AAAAGCTG
1 AAAAGCCG
46368747 AAAAGCCG
1 AAAAGCCG
*
46368755 AAATGCCG
1 AAAAGCCG
46368763 AAAAGCCG
1 AAAAGCCG
46368771 AAA
1 AAA
46368774 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.23, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:46369049 original size:29 final size:29
Alignment explanation
Indices: 46369017--46369108 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
46369007 GGGCCTAACA
46369017 GGCCATATAAATGTGATTTGGGCCAAATG
1 GGCCATATAAATGTGATTTGGGCCAAATG
* * *
46369046 GGCCATATACAGGTGATTTGGGCCTAAAAG
1 GGCCATATAAATGTGATTTGGGCC-AAATG
* * **
46369076 GGCCATATGAATATGA-TTGGGCTTAATG
1 GGCCATATAAATGTGATTTGGGCCAAATG
46369104 GGCCA
1 GGCCA
46369109 GATACAGGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 8 0.15
29 28 0.54
30 16 0.31
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
GGCCATATAAATGTGATTTGGGCCAAATG
Found at i:46369093 original size:30 final size:29
Alignment explanation
Indices: 46368993--46369097 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 29
46368983 GTGAGCATGA
* *
46368993 ATATGAATGTGACTGGGCCTAACA-GGCC
1 ATATGAATGTGATTGGGCCTAAAAGGGCC
* *
46369021 ATATAAATGTGATTTGGGCC-AAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAAAAGGGCC
*
46369050 ATAT-ACAGGTGATTTGGGCCTAAAAGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAAAAGGGCC
*
46369080 ATATGAATATGATTGGGC
1 ATATGAATGTGATTGGGC
46369098 TTAATGGGCC
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
28 14 0.22
29 33 0.52
30 16 0.25
31 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGATTGGGCCTAAAAGGGCC
Found at i:46369096 original size:58 final size:58
Alignment explanation
Indices: 46369006--46369117 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
46368996 TGAATGTGAC
* * *
46369006 TGGGCCTAACAGGCCATATAAATGTGATTTGGGCCAAATGGGCCATATACAGGTGATT
1 TGGGCCTAAAAGGCCATATAAATATGATTTGGGCCAAATGGGCCAGATACAGGTGATT
* **
46369064 TGGGCCTAAAAGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAAAA-GGCCATATAAATATGATTTGGGCCAAATGGGCCAGATACAGGT
46369118 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 33 0.70
59 14 0.30
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (58 bp):
TGGGCCTAAAAGGCCATATAAATATGATTTGGGCCAAATGGGCCAGATACAGGTGATT
Found at i:46375574 original size:68 final size:66
Alignment explanation
Indices: 46375502--46375673 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
46375492 CATCATGTGT
* * * *
46375502 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
46375565 TGTAG
62 TGTAG
** * *
46375570 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
46375635 AG
65 AG
* * * *
46375637 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
46375674 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:46375607 original size:64 final size:64
Alignment explanation
Indices: 46375526--46375709 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
46375516 AGACATTATG
* * *
46375526 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
46375590 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
46375655 AA
63 AA
* * *
46375657 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
46375710 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:46391632 original size:29 final size:25
Alignment explanation
Indices: 46391577--46391628 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
46391567 CATTAATCGA
46391577 TCAACTAAGACCCAAACAACATCTT
1 TCAACTAAGACCCAAACAACATCTT
46391602 TCAACTAAGACCCAAACAACATCTT
1 TCAACTAAGACCCAAACAACATCTT
46391627 TC
1 TC
46391629 TTTCTTGGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.33, G:0.04, T:0.21
Consensus pattern (25 bp):
TCAACTAAGACCCAAACAACATCTT
Found at i:46392635 original size:15 final size:14
Alignment explanation
Indices: 46392614--46392652 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
46392604 TTTTCCCCCA
*
46392614 TTTTTTGTTTCTTT
1 TTTTTTGTTTCTTC
*
46392628 TCTTTTTGGTTCTTC
1 T-TTTTTGTTTCTTC
46392643 TTTTTTGTTT
1 TTTTTTGTTT
46392653 TAATTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.79
Consensus pattern (14 bp):
TTTTTTGTTTCTTC
Found at i:46407408 original size:26 final size:26
Alignment explanation
Indices: 46407350--46407433 Score: 113
Period size: 26 Copynumber: 3.3 Consensus size: 26
46407340 CTGGAGGCCT
46407350 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
46407374 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
46407400 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
46407425 AGCCCTTTT
1 AGCCCTTTT
46407434 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 5 0.09
25 19 0.36
26 24 0.45
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:46407514 original size:11 final size:11
Alignment explanation
Indices: 46407483--46407538 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46407473 TTATGATTAC
46407483 ATCATGTGCAT
1 ATCATGTGCAT
* *
46407494 TTCA--TACAT
1 ATCATGTGCAT
46407503 ATCATGTGCAT
1 ATCATGTGCAT
*
46407514 ATCA--TACAT
1 ATCATGTGCAT
46407523 ATCATGTGCAT
1 ATCATGTGCAT
46407534 ATCAT
1 ATCAT
46407539 ATCAATCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Done.