Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 50 of 279
Found at i:16710484 original size:39 final size:40
Alignment explanation
Indices: 16710441--16710611 Score: 242
Period size: 39 Copynumber: 4.3 Consensus size: 40
16710431 GAACTAAGAT
16710441 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
16710480 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
* * * *
16710519 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
* *
16710559 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAGTC
16710599 CCGAAGGCATTTG
1 CCGAAGGCATTTG
16710612 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 74 0.62
40 45 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
Found at i:16710633 original size:79 final size:79
Alignment explanation
Indices: 16710441--16710644 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 79
16710431 GAACTAAGAT
** * *
16710441 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
16710504 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
*** *
16710519 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
16710583 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
16710599 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
16710645 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 47 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:16716880 original size:39 final size:39
Alignment explanation
Indices: 16716820--16717191 Score: 573
Period size: 39 Copynumber: 9.5 Consensus size: 39
16716810 ACAAAGCATG
* **
16716820 CGGGACTTTAAGCACGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAGCACCAGCACGAATGCCTT
16716861 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
16716900 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
**
16716939 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
**
16716978 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
16717017 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
* *
16717056 CAGGACTTAGCCCGGATATAGCCCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
* * ** *
16717095 CGGGCCTTACCCCGGATATAATACCAGCCCGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
* *
16717134 CAGGACTTAGCCCGGATATAGCCCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
*
16717173 CGGGACTTAGCCTGGATAT
1 CGGGACTTAGCCCGGATAT
16717192 TTTTCCAATT
Statistics
Matches: 306, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 298 0.97
40 2 0.01
41 6 0.02
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
Found at i:16721532 original size:40 final size:40
Alignment explanation
Indices: 16721454--16721532 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
16721444 ATGATTACAT
*
16721454 GTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTA
1 GTAAGACCATGTCTGGGACATTGGCATTGTAATGTGATTA
16721494 GTAAGACCATGTCTGGGACATTGGCATTGTTAAT-TGATT
1 GTAAGACCATGTCTGGGACATTGGCATTG-TAATGTGATT
16721533 TCGTGCAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (40 bp):
GTAAGACCATGTCTGGGACATTGGCATTGTAATGTGATTA
Found at i:16722705 original size:14 final size:14
Alignment explanation
Indices: 16722686--16722713 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16722676 GTAGATATGT
16722686 GAGATTGATGATTG
1 GAGATTGATGATTG
16722700 GAGATTGATGATTG
1 GAGATTGATGATTG
16722714 TGGCATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
GAGATTGATGATTG
Found at i:16728804 original size:28 final size:29
Alignment explanation
Indices: 16728717--16728794 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 29
16728707 AGCATGGCTG
* * * *
16728717 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
*
16728744 CCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
16728773 CCAGA-ACAGATAATTTGTGGCA
1 CCAGATACAGATAATTTGTGGCA
16728795 TAGCTACCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 11 0.26
28 17 0.40
29 15 0.35
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCAGTGCCA
Found at i:16728957 original size:28 final size:28
Alignment explanation
Indices: 16728910--16728974 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
16728900 AAATTAACCT
*
16728910 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
16728938 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
16728966 TAGGGGTAT
1 TAGGGGTAT
16728975 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:16735466 original size:28 final size:28
Alignment explanation
Indices: 16735426--16735537 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
16735416 GGCTATGTAC
* *
16735426 GACACTTAATGTGTAAGATATCGAGTAT
1 GACACTTAGTGTGCAAGATATCGAGTAT
* * *
16735454 GACACTTAGTGTGCGAGATATGGAGTGT
1 GACACTTAGTGTGCAAGATATCGAGTAT
16735482 -AGCACTTAGTGTGCAAGATATCGAGTAT
1 GA-CACTTAGTGTGCAAGATATCGAGTAT
* * * *
16735510 GGCACTTAGTGTGCGAGACATTGAGTAT
1 GACACTTAGTGTGCAAGATATCGAGTAT
16735538 TCAACGACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.01
28 69 0.99
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (28 bp):
GACACTTAGTGTGCAAGATATCGAGTAT
Found at i:16741319 original size:37 final size:37
Alignment explanation
Indices: 16741269--16741347 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
16741259 TTATTACGAA
* * *
16741269 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16741306 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16741343 GTCTT
1 GTCTT
16741348 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16741586 original size:49 final size:49
Alignment explanation
Indices: 16741466--16741951 Score: 756
Period size: 49 Copynumber: 10.1 Consensus size: 49
16741456 CCCTTCGGGA
* * * *
16741466 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
16741513 CCTGT--CATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
16741560 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
16741609 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
16741658 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
16741707 CTTATCAC--ACATACACA-TGTTCACATTCATCAGATTGGCCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* *
16741754 CTTATCACATATATATACACTTTCACATTCATCAGATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
16741803 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
16741852 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
16741901 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
16741948 CTTA
1 CTTA
16741952 CTATCATTTC
Statistics
Matches: 412, Mismatches: 19, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
45 3 0.01
46 2 0.00
47 122 0.30
49 284 0.69
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:16741747 original size:145 final size:146
Alignment explanation
Indices: 16741466--16741951 Score: 745
Period size: 145 Copynumber: 3.4 Consensus size: 146
16741456 CCCTTCGGGA
* * * * * * *
16741466 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGT--CATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
16741527 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
*
16741592 CACATCGGCCATTAGGC
130 CACATTGGCCATTAGGC
16741609 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* * *
16741674 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACACA-TGTTCACATTCAT
66 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATACACT-TTCACATTCAT
* *
16741737 CAGATTGGCCATTCGGC
130 CACATTGGCCATTAGGC
* * *
16741754 CTTATCACATATATATACACTTTCACATTCATCAGATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
16741819 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
16741884 CACATTGGCCATTAGGC
130 CACATTGGCCATTAGGC
16741901 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
16741952 CTATCATTTC
Statistics
Matches: 311, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
143 10 0.03
144 2 0.01
145 208 0.67
147 90 0.29
148 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (146 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
ACATTGGCCATTAGGC
Found at i:16741806 original size:194 final size:194
Alignment explanation
Indices: 16741466--16741951 Score: 798
Period size: 194 Copynumber: 2.5 Consensus size: 194
16741456 CCCTTCGGGA
* * * * * *
16741466 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCATATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
16741529 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
16741594 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16741658 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
16741723 A-TGTTCACATTCATCAGATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATC
66 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* * * *
16741787 AGATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
130 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16741852 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
16741917 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTA
16741952 CTATCATTTC
Statistics
Matches: 270, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
192 10 0.04
193 2 0.01
194 257 0.95
195 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (194 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16746066 original size:42 final size:40
Alignment explanation
Indices: 16745967--16746069 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 40
16745957 CTATTACACG
16745967 GCCTGGCACACGGCGTGTGAGGTTATTTCAAAGGGTACAA
1 GCCTGGCACACGGCGTGTGAGGTTATTTCAAAGGGTACAA
* * *
16746007 GCCCTAGTACACGGGCGTGT-AGGGTTATTTCAAAGGGTACATT
1 G-CCTGGCACAC-GGCGTGTGA-GGTTATTTCAAAGGGTACA-A
16746050 GCCTGGCACACAGGCGTGTG
1 GCCTGGCACAC-GGCGTGTG
16746070 GCTTGACTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 1 0.02
41 9 0.17
42 41 0.79
43 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (40 bp):
GCCTGGCACACGGCGTGTGAGGTTATTTCAAAGGGTACAA
Found at i:16748310 original size:19 final size:20
Alignment explanation
Indices: 16748284--16748326 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
16748274 ATTGATATTT
*
16748284 TAAAAAATAGTGATACTTAA
1 TAAAAAGTAGTGATACTTAA
*
16748304 TAAAAATGTATTGATACTTAA
1 TAAAAA-GTAGTGATACTTAA
16748325 TA
1 TA
16748327 TGTAATGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (20 bp):
TAAAAAGTAGTGATACTTAA
Found at i:16762471 original size:18 final size:19
Alignment explanation
Indices: 16762448--16762483 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16762438 AATTTGGCAC
*
16762448 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
16762466 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
16762484 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:16762813 original size:30 final size:30
Alignment explanation
Indices: 16762779--16762839 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16762769 TCCTTAACTC
16762779 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
16762809 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
16762839 A
1 A
16762840 GTCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:16767597 original size:45 final size:45
Alignment explanation
Indices: 16767547--16767797 Score: 423
Period size: 45 Copynumber: 5.6 Consensus size: 45
16767537 CTGGCACTTC
*
16767547 GCCTGCTAGGCTTGAAA-GCCCGAATAGTATTTCACCAGCATTGTA
1 GCCTGCTAGGC-TCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
* * *
16767592 GCCTGCTAGGCTCAAAGGCCCAAATAGTATTTCATCGGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
16767637 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
* * *
16767682 GCCTGCTAGGCTCAAAGGCCCAAATAGTATTTCATCGGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
16767727 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
16767772 GCCTGCTAGGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
16767798 TTACTATACA
Statistics
Matches: 192, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 4 0.02
45 188 0.98
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
Found at i:16767658 original size:90 final size:90
Alignment explanation
Indices: 16767547--16767797 Score: 468
Period size: 90 Copynumber: 2.8 Consensus size: 90
16767537 CTGGCACTTC
*
16767547 GCCTGCTAGGCTTGAAA-GCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGC
1 GCCTGCTAGGC-TCAAAGGCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGC
16767611 CCAAATAGTATTTCATCGGCATTGTA
65 CCAAATAGTATTTCATCGGCATTGTA
16767637 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGCC
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGCC
16767702 CAAATAGTATTTCATCGGCATTGTA
66 CAAATAGTATTTCATCGGCATTGTA
16767727 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGCC
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGCC
*
16767792 CGAATA
66 CAAATA
16767798 TTACTATACA
Statistics
Matches: 158, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
89 4 0.03
90 154 0.97
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (90 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAGGCC
CAAATAGTATTTCATCGGCATTGTA
Found at i:16778596 original size:20 final size:20
Alignment explanation
Indices: 16778552--16778598 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
16778542 GTAAGCTCGG
*
16778552 TTGAGCTCAAACGAGCTAAA
1 TTGAGCTCAAACGAACTAAA
* * *
16778572 CTGAGCTCAAATGAACTGAA
1 TTGAGCTCAAACGAACTAAA
16778592 TTGAGCT
1 TTGAGCT
16778599 GGATGGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
TTGAGCTCAAACGAACTAAA
Found at i:16780290 original size:17 final size:17
Alignment explanation
Indices: 16780262--16780320 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
16780252 TATTCATGTG
*
16780262 GGGCCCACGAGCCCATT
1 GGGCCTACGAGCCCATT
* *
16780279 GGGTCTACGAGCCTATT
1 GGGCCTACGAGCCCATT
*
16780296 GGGCCTAAGAGCCCATT
1 GGGCCTACGAGCCCATT
16780313 GGGCCTAC
1 GGGCCTAC
16780321 ATGACCCATC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.19
Consensus pattern (17 bp):
GGGCCTACGAGCCCATT
Found at i:16785882 original size:47 final size:47
Alignment explanation
Indices: 16785804--16786209 Score: 659
Period size: 47 Copynumber: 8.6 Consensus size: 47
16785794 CCCTTCGGGA
* * * * * *
16785804 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16785851 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16785898 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16785945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
16785992 CTTATCACATATATATACACTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16786039 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16786086 CTTATCACATATATACACTTTCACATTCATCACAACGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16786133 CTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16786180 CTTATCACATATATATACACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
16786210 CACATATACT
Statistics
Matches: 334, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 315 0.94
49 19 0.06
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16789663 original size:64 final size:64
Alignment explanation
Indices: 16789497--16789669 Score: 179
Period size: 68 Copynumber: 2.6 Consensus size: 64
16789487 TGGATGATAC
* * * *
16789497 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
16789562 AG
63 AG
* * * *
16789564 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
16789628 C-G
62 CAG
*
16789630 GGATATATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
16789670 GGCTACTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
64 29 0.33
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:16789765 original size:101 final size:99
Alignment explanation
Indices: 16789643--16789843 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
16789633 TATATGTAGC
* * *
16789643 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCGGATAA-TT-GATCACATGTGT
* *
16789708 AGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
64 AGTACTAAGTGCAGGCTACTACGCGTACCAGATAGT
* ** * * *
16789744 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTGG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCGGATAATTGATCACATGTGTAG
* *
16789809 TACTAAGTGTAGGCTACTATGCGTACCAGATAGT
66 TACTAAGTGCAGGCTACTACGCGTACCAGATAGT
16789843 T
1 T
16789844 TGGCTACATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 41 0.47
100 2 0.02
101 44 0.51
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (99 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCGGATAATTGATCACATGTGTAG
TACTAAGTGCAGGCTACTACGCGTACCAGATAGT
Found at i:16791722 original size:33 final size:33
Alignment explanation
Indices: 16791665--16791743 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
16791655 CAGTATTTAT
* **
16791665 ATGTAAGACCAT-AGTTGGGCTATGAC-ATTCTG
1 ATGTAAGACCATGA-CTGGGCTATGACAATTCAA
*
16791697 ATGATAAGACCATGACTGGGTTATGACAATTCAA
1 ATG-TAAGACCATGACTGGGCTATGACAATTCAA
16791731 ATGTAAGACCATG
1 ATGTAAGACCATG
16791744 GTAGGGTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 3 0.08
33 29 0.73
34 8 0.20
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (33 bp):
ATGTAAGACCATGACTGGGCTATGACAATTCAA
Found at i:16798656 original size:24 final size:24
Alignment explanation
Indices: 16798629--16798713 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
16798619 CTAGAGGCCT
*
16798629 AGCCTCTTTTAATAATC-GGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
16798653 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** *
16798678 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
16798703 AGCCCCTTTTA
1 AG-CCCTTTTA
16798714 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 17 0.33
25 27 0.52
26 7 0.13
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:16798680 original size:25 final size:25
Alignment explanation
Indices: 16798646--16798712 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
16798636 TTTAATAATC
16798646 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
* *
16798671 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
* *
16798696 GGGGCATAGCCCCTTTT
1 GGGGCAAAGCCCTTTTT
16798713 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTTGATAAACT
Found at i:16798986 original size:53 final size:53
Alignment explanation
Indices: 16798919--16799031 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 53
16798909 CAAAATGGTA
*
16798919 ATTTTACCCCACAAGGATATCTCAGTAATTTTACCCTATAGGAG-ATTTCGAT
1 ATTTTACCCCACAAGGATATCTCAGTAATTCTACCCTATAGGAGTATTTCGAT
* * * * *
16798971 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGAT
1 ATTT-TACCCCACAAGGATATCTCAGTAATTCTACCCTATAGGAGTATTTCGAT
16799025 ATTTTAC
1 ATTTTAC
16799032 AAATCGAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.08
53 38 0.72
54 11 0.21
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (53 bp):
ATTTTACCCCACAAGGATATCTCAGTAATTCTACCCTATAGGAGTATTTCGAT
Found at i:16799003 original size:27 final size:27
Alignment explanation
Indices: 16798916--16799020 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
16798906 GGGCAAAATG
* * * *
16798916 GTAATTTTACCCCACAAGGATATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
16798943 GTAATTTTACCCTA-TAGGAG-ATTTC-
1 GTAATTCTACCCTACAAGG-GTATTTCA
*
16798968 GATATTTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
16798996 GTAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
16799021 TGATATTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.02
26 19 0.30
27 42 0.67
28 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:16799045 original size:53 final size:53
Alignment explanation
Indices: 16798940--16799055 Score: 121
Period size: 53 Copynumber: 2.2 Consensus size: 53
16798930 CAAGGATATC
* ** *
16798940 TCAGTAATTTTACCCTATAGGAGATTTCGATATTTCTACCCTACAAGGGTATT
1 TCAGTAATTCTACCCTATAGGAGATTTCGATATTTCTACAATACAAGAGTATT
* * *
16798993 TCAGTAATTCTACCCTATAGGGGTATTTTGATATTT-TACAA-ATCGAGAGTATT
1 TCAGTAATTCTACCCTATAGGAG-ATTTCGATATTTCTACAATA-CAAGAGTATT
16799046 TC-GATAATTC
1 TCAG-TAATTC
16799056 CACAAATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.04
53 40 0.75
54 11 0.21
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (53 bp):
TCAGTAATTCTACCCTATAGGAGATTTCGATATTTCTACAATACAAGAGTATT
Found at i:16799121 original size:27 final size:27
Alignment explanation
Indices: 16799010--16799218 Score: 176
Period size: 27 Copynumber: 7.8 Consensus size: 27
16799000 TTCTACCCTA
*
16799010 TAGGGGTATTTTGAT-ATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * * **
16799035 TCGAGAGTATTTCGATAATTCCACAAA-
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
16799062 TCAGGTGG-ATTTTGCTAATTTTATAAGC
1 T-AGG-GGTATTTTGGTAATTTTACAAAC
*
16799090 CAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
16799117 TAGGGGTATTTTAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
**
16799144 TAGGGGTATTTTGGTAATTTTACTGA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
16799170 TTGAGGGTATTTTGGTAATTTTTTAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
16799198 TAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
16799219 GTAAATCGAG
Statistics
Matches: 146, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 14 0.10
27 127 0.87
28 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:16799135 original size:81 final size:82
Alignment explanation
Indices: 16799011--16799216 Score: 201
Period size: 81 Copynumber: 2.5 Consensus size: 82
16799001 TCTACCCTAT
* * * *
16799011 AGGGGTATTTTGAT-ATTTTACAAA-TCGAGAGTA-TTTCGATAATTCCACAAA-TCAGGTGG-A
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAG-TAATTCCACAAACT-AGG-GGTA
16799071 TTTTGCTAATTTTA-TAAGCC
62 TTTTGCTAATTTTACTAAGCC
**
16799091 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCCACAAACTAGGGGTATTTT
* * ***
16799156 GGTAATTTTACTGATTG
66 GCTAATTTTACTAAGCC
** *
16799173 A-GGGTATTTTGGTAATTTTTTAAACTAAGGGTATTTTAGTAATT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATT
16799217 TTGTAAATCG
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
80 15 0.14
81 81 0.76
82 10 0.09
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (82 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCCACAAACTAGGGGTATTTT
GCTAATTTTACTAAGCC
Found at i:16799243 original size:81 final size:81
Alignment explanation
Indices: 16799093--16799243 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
16799083 TATAAGCCAG
* * *** *
16799093 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAATGA
16799158 TAATTTTACTGATTGA
66 TAATTTTACTGATTGA
** **
16799174 GGGTATTTTGGTAATTTTTTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGA-GGGTAAAATG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAA-CGAGGGGTAAAATG
16799238 ATAATT
65 ATAATT
16799244 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 57 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAATGA
TAATTTTACTGATTGA
Found at i:16799353 original size:27 final size:27
Alignment explanation
Indices: 16799070--16799378 Score: 159
Period size: 27 Copynumber: 11.5 Consensus size: 27
16799060 AATCAGGTGG
* * *
16799070 ATTTTGCTAATTTTATAAGC-CAGGGGT
1 ATTTTGGTAATTTTATAAACTGA-GGGT
*
16799097 ATTTTGGTAATTTTACAAACT-AGGGGT
1 ATTTTGGTAATTTTATAAACTGA-GGGT
* *
16799124 ATTTTAGTAATTTTACAAACT-AGGGGT
1 ATTTTGGTAATTTTATAAACTGA-GGGT
* *
16799151 ATTTTGGTAATTTTACT-GATTGAGGGT
1 ATTTTGGTAATTTTA-TAAACTGAGGGT
* *
16799178 ATTTTGGTAATTTTTTAAACTAAGGGT
1 ATTTTGGTAATTTTATAAACTGAGGGT
* *
16799205 ATTTTAGTAATTTTGTAAA-TCGAGGGT
1 ATTTTGGTAATTTTATAAACT-GAGGGT
*** * * *
16799232 AAAATGATAATTCTGTAAA-TCGAGGGT
1 ATTTTGGTAATTTTATAAACT-GAGGGT
**** * *
16799259 AAAACGATAATTTTGTAAA-TCGAGGGT
1 ATTTTGGTAATTTTATAAACT-GAGGGT
**** * * *
16799286 AAAACGGTAATTCTATAAATTGAGGAT
1 ATTTTGGTAATTTTATAAACTGAGGGT
* *
16799313 ATTTGGGTAGTTTTATAAACTGAGGGT
1 ATTTTGGTAATTTTATAAACTGAGGGT
* *
16799340 ACTTTGGTAATTTTA-CAACTG-GAGGT
1 ATTTTGGTAATTTTATAAACTGAG-GGT
*
16799366 ATTTTAGTAATTT
1 ATTTTGGTAATTT
16799379 CGTAAACTAA
Statistics
Matches: 234, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 210 0.90
28 2 0.01
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAATTTTATAAACTGAGGGT
Found at i:16804119 original size:61 final size:61
Alignment explanation
Indices: 16804045--16804164 Score: 240
Period size: 61 Copynumber: 2.0 Consensus size: 61
16804035 TACAAAACTC
16804045 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
1 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
16804106 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTC
1 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTC
16804165 ATTAATAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (61 bp):
GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
Found at i:16804148 original size:30 final size:30
Alignment explanation
Indices: 16804053--16804153 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 30
16804043 TCGCATAATT
*
16804053 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
* * * *
16804083 CATAAAAAATCATACATATTCT-TGCAT-AATT
1 CATAAAAAAT-ATTCACAATCTAT-CATCAA-A
*
16804114 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
16804144 CATAAAAAAT
1 CATAAAAAAT
16804154 CATACATATT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
30 32 0.58
31 23 0.42
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (30 bp):
CATAAAAAATATTCACAATCTATCATCAAA
Found at i:16805770 original size:43 final size:42
Alignment explanation
Indices: 16805680--16805787 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
16805670 CATCTATCTG
* * * * * *
16805680 AGATATCGTGTAAGACCGTGTCTGGGACATTGGCCTCGATTG
1 AGATTTCGTATAAGACCATGTCTGGGACATCGGCATCGATTC
*
16805722 AGATTTATGTATAAGACCATGTCTGGGACATCGGCATC-ATATC
1 AGATTT-CGTATAAGACCATGTCTGGGACATCGGCATCGAT-TC
* *
16805765 TGATTTCGTATAAGACCCTGTCT
1 AGATTTCGTATAAGACCATGTCT
16805788 AGGATAGAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 22 0.41
43 32 0.59
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
AGATTTCGTATAAGACCATGTCTGGGACATCGGCATCGATTC
Found at i:16812761 original size:40 final size:40
Alignment explanation
Indices: 16812706--16812967 Score: 449
Period size: 40 Copynumber: 6.6 Consensus size: 40
16812696 TATTCGGATG
*
16812706 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
16812746 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
16812786 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
16812826 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
16812866 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
16812906 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
16812946 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
16812968 TACTTGGGTT
Statistics
Matches: 215, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
39 16 0.07
40 197 0.92
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:16820954 original size:40 final size:40
Alignment explanation
Indices: 16820899--16821122 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
16820889 TATTCGGATG
16820899 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
16820939 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
16820982 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
16821022 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
16821062 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
16821102 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
16821123 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:16821042 original size:83 final size:80
Alignment explanation
Indices: 16820903--16821122 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
16820893 CGGATGATAT
* **
16820903 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
16820968 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
16820986 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
16821051 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
16821066 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
16821123 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:16829118 original size:40 final size:40
Alignment explanation
Indices: 16829063--16829367 Score: 400
Period size: 40 Copynumber: 7.6 Consensus size: 40
16829053 TATTCGGATG
*
16829063 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
16829103 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTTGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * **
16829143 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
16829183 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
16829223 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
16829266 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
** * *
16829306 GCATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
16829346 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
16829368 TACTTGGGTT
Statistics
Matches: 234, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
39 16 0.07
40 181 0.77
41 2 0.01
43 33 0.14
44 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:16829198 original size:80 final size:80
Alignment explanation
Indices: 16829063--16829367 Score: 443
Period size: 80 Copynumber: 3.8 Consensus size: 80
16829053 TATTCGGATG
* ** *
16829063 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTG-TGACTATATCCGGGCGAAGTCCCGAAGGC
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
16829127 ATTTGTGCTTGTGACT
65 ATTTGTGCTTGTGACT
*
16829143 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
16829208 TTTGTGCTTGTGACT
66 TTTGTGCTTGTGACT
* *
16829223 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCAGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
*
16829288 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTTGTGACT
** * * *
16829306 GCATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
16829368 TACTTGGGTT
Statistics
Matches: 206, Mismatches: 15, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
79 15 0.07
80 117 0.57
81 2 0.01
82 1 0.00
83 71 0.34
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTTGTGACT
Found at i:16829330 original size:163 final size:159
Alignment explanation
Indices: 16829063--16829367 Score: 450
Period size: 163 Copynumber: 1.9 Consensus size: 159
16829053 TATTCGGATG
* * * *
16829063 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTTGTGACTATATCCGGGCGAAGTCCCGAAGGCA
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCAGGCGAAGTCCCGAAGGCA
* * *
16829128 TTTGTGCTTGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGC
66 TTTGTGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTGTGCGAGTTCCTATATCC-GGC
*
16829193 TAAGTCCCGAAGGCATTTGTGCTTGTGACT
130 TAAATCCCGAAGGCATTTGTGCTTGTGACT
*
16829223 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CTATACCCAGGCTAAGTCCCGAA
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGC---TAG-TGACTATACCCAGGCGAAGTCCCGAA
* * *
16829287 GGCATTTGTGCTAGTGACTGCATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
62 GGCATTTGTGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTGTGCGAGTTCCTATATCC
16829352 GGCTAAATCCCGAAGG
127 GGCTAAATCCCGAAGG
16829368 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
160 31 0.24
162 15 0.12
163 81 0.63
164 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (159 bp):
ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCAGGCGAAGTCCCGAAGGCA
TTTGTGCTAGTGACTACATCCGGGCGAAGACCCGAAGGCATTTGTGCGAGTTCCTATATCCGGCT
AAATCCCGAAGGCATTTGTGCTTGTGACT
Found at i:16829980 original size:47 final size:47
Alignment explanation
Indices: 16829911--16830003 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
16829901 TGAGCATAGT
16829911 ATTAAAATCATTTTGTATATATATGGTTATTGAGAGGTGTGAAAATG
1 ATTAAAATCATTTTGTATATATATGGTTATTGAGAGGTGTGAAAATG
*
16829958 ATTAAAATCATTTTGTATATATATGGTTATTGAGAGGTGTGGAAAT
1 ATTAAAATCATTTTGTATATATATGGTTATTGAGAGGTGTGAAAAT
16830004 TCTTGGCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (47 bp):
ATTAAAATCATTTTGTATATATATGGTTATTGAGAGGTGTGAAAATG
Found at i:16834181 original size:27 final size:27
Alignment explanation
Indices: 16834137--16834202 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
16834127 TGGATAAGTT
*
16834137 GTAGAATTACTAAAATACCAC-TGTAGG
1 GTAGAATTACCAAAATACC-CTTGTAGG
* *
16834164 GTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCAAAATACCCTTGTAGG
*
16834191 GTAAAATTACCA
1 GTAGAATTACCA
16834203 TTTTCCCCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCTTGTAGG
Found at i:16841614 original size:24 final size:24
Alignment explanation
Indices: 16841587--16841633 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
16841577 TGAACCACAG
16841587 CTATAACAAGCTCGATTATTACTA
1 CTATAACAAGCTCGATTATTACTA
*
16841611 CTATAACAAGCTCGGTTATTACT
1 CTATAACAAGCTCGATTATTACT
16841634 TTTTTCCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (24 bp):
CTATAACAAGCTCGATTATTACTA
Found at i:16844062 original size:40 final size:41
Alignment explanation
Indices: 16844009--16844103 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
16843999 AAGTCGATAT
*
16844009 CGCACACTTAGTGCCT-TATATAGCCGAAGCTATGCC-AAC
1 CGCACACTTAGTGCCTATATATAGCCGAAGCTATACCAAAC
* * **
16844048 ACGCACACTTAGTG-CTATTTATAGCCGAAGTTATATTAAAC
1 -CGCACACTTAGTGCCTATATATAGCCGAAGCTATACCAAAC
16844089 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
16844104 AATCATACTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.04
40 41 0.87
41 4 0.09
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (41 bp):
CGCACACTTAGTGCCTATATATAGCCGAAGCTATACCAAAC
Found at i:16844674 original size:32 final size:32
Alignment explanation
Indices: 16844638--16844701 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
16844628 CTAACATCAC
* *
16844638 AAAAC-TCACATATTCAACAAATTCATCTCATG
1 AAAACATCACAAATTCAACAAATT-ATCACATG
* *
16844670 AAAACATCATAAATTCCACAAATTATCACATG
1 AAAACATCACAAATTCAACAAATTATCACATG
16844702 GGCTTGATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (32 bp):
AAAACATCACAAATTCAACAAATTATCACATG
Found at i:16853098 original size:27 final size:27
Alignment explanation
Indices: 16852939--16853117 Score: 250
Period size: 27 Copynumber: 6.6 Consensus size: 27
16852929 TTAGTTTACC
*
16852939 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
16852966 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
16852993 AAATTACCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
16853020 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
16853047 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
16853074 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
16853101 GAATTACTGAAATACCC
1 AAATTACCAAAATACCC
16853118 TCCACCTATA
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:16853130 original size:81 final size:81
Alignment explanation
Indices: 16852964--16853144 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
16852954 CCCTAGTTTG
* * *
16852964 TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
1 TAAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
**** *
16853029 AAATACCCCTGGTTTG
66 AAATACCCCTCACCTA
* * * ** **
16853045 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGGAATTACTG
1 TAAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
16853110 AAATA-CCCTCCACCTA
66 AAATACCCCT-CACCTA
16853126 TAAAATTACTAAAATACCC
1 TAAAATTACTAAAATACCC
16853145 TCAACTAGCA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 4 0.05
81 79 0.95
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (81 bp):
TAAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
AAATACCCCTCACCTA
Found at i:16853224 original size:27 final size:27
Alignment explanation
Indices: 16852939--16853226 Score: 183
Period size: 27 Copynumber: 10.7 Consensus size: 27
16852929 TTAGTTTACC
* * *
16852939 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
16852966 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
*
16852993 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTATA
* *
16853020 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* *
16853047 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
16853074 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
* ** * **
16853101 GAATTACTGAAATACCCTCCACCTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ** *
16853128 AAATTACTAAAATACCCTC-AACTAGCA
1 AAATTACCAAAATACCCTCGATTTA-TA
* * *
16853155 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
16853182 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
**
16853209 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
16853227 TATAGGGTAG
Statistics
Matches: 207, Mismatches: 46, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.02
27 198 0.96
28 5 0.02
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:16853247 original size:27 final size:27
Alignment explanation
Indices: 16853210--16853496 Score: 353
Period size: 27 Copynumber: 10.6 Consensus size: 27
16853200 CGATTTATAA
16853210 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* *
16853237 AAATACCGAAATA-CCTCTATAGGGTAG
1 AATTACTGAAATACCCT-TATAGGGTAG
* * *
16853264 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
*
16853291 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* *
16853318 AAATACCGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* * *
16853345 AAATA-TCGAAATACCCCTATAGTGTAG
1 AATTACT-GAAATACCCTTATAGGGTAG
*
16853372 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* *
16853399 AATTACTGAAATACCCTTGTATGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* * *
16853426 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* *
16853453 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAG
* *
16853480 AATTACCGAGATACCCT
1 AATTACTGAAATACCCT
16853497 AGGGTGTTAA
Statistics
Matches: 229, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.01
27 223 0.97
28 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCTTATAGGGTAG
Found at i:16853749 original size:28 final size:28
Alignment explanation
Indices: 16853709--16853795 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
16853699 GGAGGAAGCG
*
16853709 TTCTAGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
16853737 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * *
16853764 CTCTGGTGGTTTTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
16853791 ATCTG
1 TTCTG
16853796 ATGACTCTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.15
27 19 0.36
28 26 0.49
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:16853956 original size:78 final size:78
Alignment explanation
Indices: 16853824--16853989 Score: 242
Period size: 78 Copynumber: 2.1 Consensus size: 78
16853814 CTATTGACCG
* * * * * * *
16853824 ATCGATGGCTGAGTGCCGGTCATGTTATCGAAGGCTGTGTGCTGTTATTGTGGGCTTTGTGTCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCAAAGGCTGTGTACCGTTATTGTGGGCTTCGTGCCGA
16853889 TTATAGACCCGTT
66 TTATAGACCCGTT
* *
16853902 ATTGATGGCTGAGTGTCGATCATGTTACCAAAGGCTGTGTACCGTTATTGTGGGCTTCGTGCCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCAAAGGCTGTGTACCGTTATTGTGGGCTTCGTGCCGA
*
16853967 TTATAGACTCGTT
66 TTATAGACCCGTT
16853980 ATCGATGGCT
1 ATCGATGGCT
16853990 TTGTGCCACG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.35
Consensus pattern (78 bp):
ATCGATGGCTGAGTGCCGATCATGTTACCAAAGGCTGTGTACCGTTATTGTGGGCTTCGTGCCGA
TTATAGACCCGTT
Found at i:16854041 original size:27 final size:26
Alignment explanation
Indices: 16854011--16854091 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
16854001 ATTTTGTTAA
*
16854011 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
16854038 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* * *
16854065 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
16854091 G
1 G
16854092 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 43 0.88
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:16854240 original size:6 final size:6
Alignment explanation
Indices: 16854209--16854361 Score: 98
Period size: 6 Copynumber: 24.8 Consensus size: 6
16854199 TTGCATTCAC
* *
16854209 ATTCTG ATTTTG ATTCT- ATTAGCTG ATACTG ATTCTG ATTCTG -TTAACTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
16854259 ATTTTG ATTCTA ATTCTG -TTACTTG ATACTG ATTCTG ATTTTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
16854308 -TTACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCTA ATTCTC ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
16854357 ATTCT
1 ATTCT
16854362 AGTTCTAATA
Statistics
Matches: 113, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
5 9 0.08
6 88 0.78
7 9 0.08
8 7 0.06
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:16854240 original size:25 final size:24
Alignment explanation
Indices: 16854212--16854349 Score: 109
Period size: 25 Copynumber: 5.6 Consensus size: 24
16854202 CATTCACATT
* *
16854212 CTGATTTTGATTCTATTAGCTGATA
1 CTGATTCTGATTCTGTTA-CTGATA
*
16854237 CTGATTCTGATTCTGTTAACTGATT
1 CTGATTCTGATTCTGTT-ACTGATA
* *
16854262 TTGATTCTAATTCTGTTACTTGATA
1 CTGATTCTGATTCTGTTAC-TGATA
* *
16854287 CTGATTCTGATTTTGATTA-TGTTA
1 CTGATTCTGATTCTG-TTACTGATA
* *
16854311 CCTAATTCTGATTCTGATT-CTGATT
1 -CTGATTCTGATTCTG-TTACTGATA
* *
16854336 TTGATTCTAATTCT
1 CTGATTCTGATTCT
16854350 CATTTTGATT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
24 17 0.19
25 70 0.77
26 4 0.04
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (24 bp):
CTGATTCTGATTCTGTTACTGATA
Found at i:16854297 original size:37 final size:36
Alignment explanation
Indices: 16854256--16854358 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 36
16854246 ATTCTGTTAA
*
16854256 CTGATTTTGATTCTAATTCT-GTTACTTGATACTGATT
1 CTGATTTTGATTCTAATTCTAATT-C-TGATACTGATT
* * *
16854293 CTGATTTTGATTAT-GTTACCTAATTCTGATTCTGATT
1 CTGATTTTGATTCTAATT--CTAATTCTGATACTGATT
* *
16854330 CTGATTTTGATTCTAATTCTCATTTTGAT
1 CTGATTTTGATTCTAATTCTAATTCTGAT
16854359 TCTAGTTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
36 11 0.20
37 36 0.67
38 5 0.09
39 2 0.04
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (36 bp):
CTGATTTTGATTCTAATTCTAATTCTGATACTGATT
Found at i:16854335 original size:31 final size:31
Alignment explanation
Indices: 16854256--16854361 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 31
16854246 ATTCTGTTAA
* * * * * *
16854256 CTGATTTTGATTCTAATTCTGTTACTTGATA
1 CTGATTCTGATTCTGATTATGTTACCTAATT
*
16854287 CTGATTCTGATTTTGATTATGTTACCTAATT
1 CTGATTCTGATTCTGATTATGTTACCTAATT
*
16854318 CTGATTCTGATTCTGATTTTGATT--CTAATT
1 CTGATTCTGATTCTGATTATG-TTACCTAATT
* *
16854348 CTCATTTTGATTCT
1 CTGATTCTGATTCT
16854362 AGTTCTAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.29
31 43 0.68
32 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTATGTTACCTAATT
Found at i:16854362 original size:18 final size:18
Alignment explanation
Indices: 16854319--16854367 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
16854309 TACCTAATTC
* *
16854319 TGATTCTGATTCTGATTT
1 TGATTCTAATTCTCATTT
16854337 TGATTCTAATTCTCATTT
1 TGATTCTAATTCTCATTT
*
16854355 TGATTCTAGTTCT
1 TGATTCTAATTCT
16854368 AATAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.55
Consensus pattern (18 bp):
TGATTCTAATTCTCATTT
Found at i:16861443 original size:33 final size:33
Alignment explanation
Indices: 16861406--16861471 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
16861396 ACATCCTAAG
*
16861406 CCATTTCGAGAAGCATCACTATACACCACAAAT
1 CCATTTAGAGAAGCATCACTATACACCACAAAT
16861439 CCATTTAGAGAAGCATCACTATACACCACAAAT
1 CCATTTAGAGAAGCATCACTATACACCACAAAT
16861472 TCTTTACCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (33 bp):
CCATTTAGAGAAGCATCACTATACACCACAAAT
Found at i:16864014 original size:21 final size:21
Alignment explanation
Indices: 16863990--16864031 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16863980 TCATCAGATT
* *
16863990 TACATCTTGAGGCATCGGGGG
1 TACAGCTTGAGGAATCGGGGG
*
16864011 TACAGGTTGAGGAATCGGGGG
1 TACAGCTTGAGGAATCGGGGG
16864032 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.14, G:0.43, T:0.21
Consensus pattern (21 bp):
TACAGCTTGAGGAATCGGGGG
Found at i:16870754 original size:24 final size:24
Alignment explanation
Indices: 16870726--16870780 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
16870716 AAAGGCTGTC
*
16870726 AGGAGAAGATTTGGGAGCTGA-TA
1 AGGAGAAGATTTAGGAGCTGATTA
*
16870749 AGGGAGAGGATTTAGGAGCTGATTA
1 A-GGAGAAGATTTAGGAGCTGATTA
16870774 AGGAGAA
1 AGGAGAA
16870781 CGGTGTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 23 0.85
25 3 0.11
ACGTcount: A:0.36, C:0.04, G:0.40, T:0.20
Consensus pattern (24 bp):
AGGAGAAGATTTAGGAGCTGATTA
Found at i:16872267 original size:54 final size:53
Alignment explanation
Indices: 16872184--16872293 Score: 166
Period size: 54 Copynumber: 2.1 Consensus size: 53
16872174 GGAAGCGTCT
*
16872184 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTACCACATATATCTATTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACAT-TATCTATTC
* * **
16872238 TGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCTATTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACATTATCTATTC
16872291 TGG
1 TGG
16872294 CAGCCGTGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACATTATCTATTC
Found at i:16872291 original size:26 final size:26
Alignment explanation
Indices: 16872184--16872293 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 26
16872174 GGAAGCGTCT
16872184 TGGTGGCTA-TGCCACAATTATCTGA-TC
1 TGGTGGC-ACTGCCAC-ATTATCT-ATTC
*
16872211 TGGTGGCACTACCACATATATCTATTC
1 TGGTGGCACTGCCACAT-TATCTATTC
* *
16872238 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCACTGCCAC-ATTATCTATTC
* *
16872265 TGGTGACACTGTCACATTATCTATTC
1 TGGTGGCACTGCCACATTATCTATTC
16872291 TGG
1 TGG
16872294 CAGCCGTGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 17 0.24
27 52 0.73
28 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TGGTGGCACTGCCACATTATCTATTC
Found at i:16875071 original size:24 final size:24
Alignment explanation
Indices: 16875038--16875114 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
16875028 AAGGCTGTTA
* * *
16875038 GGAGAAGATTTGGGAACTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
16875062 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
16875086 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
16875110 GGAGA
1 GGAGA
16875115 ACGGTGTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.34, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:16876586 original size:27 final size:26
Alignment explanation
Indices: 16876546--16876656 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
16876536 AGGAAGCGTC
16876546 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGAT
* **
16876573 CTGGTGGCACTGCCACATATACCTCTT
1 CTGGTGGCACTGCCACAT-TATCTGAT
* *
16876600 CTGGTGTCTCTGCCACAATTATCT-ATT
1 CTGGTGGCACTGCCAC-ATTATCTGA-T
* * *
16876627 CTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCACTGCCACATTATCTGAT
16876653 CTGG
1 CTGG
16876657 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
26 15 0.22
27 51 0.75
28 2 0.03
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGAT
Found at i:16878372 original size:50 final size:49
Alignment explanation
Indices: 16878256--16878478 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 49
16878246 TGGGATAAAG
* * * * *
16878256 GGCCGATGCCATGTCCCAGTCATGGTCTTACACTGGTTATCATCTTCGA
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTTAGCATATCCGA
*
16878305 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCCG-
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCT-TAGCATATCCGA
* * *
16878355 TGCCGATACCATGTCCCAGACATGGTCTTACACTGAC--A-CATCTCAC-A
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTTAGCATATC-CGA
* * * *
16878402 -ACCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGT-CCCGA
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTTAGCATATCCGA
*
16878447 GGCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACT
16878479 AGCACTCATC
Statistics
Matches: 146, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 40 0.27
47 1 0.01
49 34 0.23
50 35 0.24
51 7 0.05
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (49 bp):
GGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTTAGCATATCCGA
Found at i:16878524 original size:94 final size:92
Alignment explanation
Indices: 16878364--16878580 Score: 230
Period size: 94 Copynumber: 2.3 Consensus size: 92
16878354 GTGCCGATAC
* *
16878364 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTCACAACCAATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCACAACCAATCCATGTCCCAAACATGTCT
* *
16878427 TACACTGGCTTACGTC-CCG-A-GGCTGATG
65 TACACTGG-TT-C-TCACAGTATGACTGATG
* * *
16878455 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCA-AAGCCGATACCATGTCCTAAACATAGT
1 CATGTCCCAGACATGTCTTACACTAGCACACATCTCACAA-CCAAT-CCATGTCCCAAACAT-GT
* *
16878519 TTTACACTGGTTCTCATAGTATGACTGATG
63 CTTACACTGGTTCTCACAGTATGACTGATG
* *
16878549 CATGTCCTAGACATGTCTTACACTAGCTCACA
1 CATGTCCCAGACATGTCTTACACTAGCACACA
16878581 CCAATGACCC
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
90 10 0.09
91 19 0.18
92 15 0.14
93 15 0.14
94 47 0.44
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACACATCTCACAACCAATCCATGTCCCAAACATGTCTT
ACACTGGTTCTCACAGTATGACTGATG
Found at i:16878524 original size:138 final size:143
Alignment explanation
Indices: 16878265--16878527 Score: 349
Period size: 138 Copynumber: 1.9 Consensus size: 143
16878255 GGGCCGATGC
* *
16878265 CATGTCCCAGTCATGGTCTTACACTGGTTATCATCTTCGAGGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTGGTTATCATCTCCGAGGCCGATGCCATGTCCCAGACATGG
* *** * *
16878330 TCTTACACTAGCTCTCGCATATCCGTGCCGATACCATGTCCCAGACATGGTCTTACACTGACACA
66 TCTTACACTAGCACTC-CATATCAAAGCCGATACCATGTCCCAAACATAGTCTTACACTGACACA
16878395 TCTCACAACCAATG
130 TCTCACAACCAATG
* *
16878409 CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTC-CCGAGGCTGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACATGGTCTTACACTGG-TTATCATCTCCGAGGCCGATGCCATGTCCCAGACATG
* * *
16878469 GTCTTACACTAGCACT-CATCTCAAAGCCGATACCATGTCCTAAACATAGTTTTACACTG
65 GTCTTACACTAGCACTCCATATCAAAGCCGATACCATGTCCCAAACATAGTCTTACACTG
16878528 GTTCTCATAG
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
138 35 0.33
140 15 0.14
141 14 0.13
142 10 0.10
143 15 0.14
144 16 0.15
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (143 bp):
CATGTCCCAGACATGGTCTTACACTGGTTATCATCTCCGAGGCCGATGCCATGTCCCAGACATGG
TCTTACACTAGCACTCCATATCAAAGCCGATACCATGTCCCAAACATAGTCTTACACTGACACAT
CTCACAACCAATG
Found at i:16885791 original size:46 final size:45
Alignment explanation
Indices: 16885701--16885905 Score: 164
Period size: 46 Copynumber: 4.4 Consensus size: 45
16885691 CAATGCCATC
* *
16885701 TCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATGCATG
* *
16885746 TCCCAGACATGTCTTACACTGGCTTACGTCCCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATGCATG
* * * * * * * *
16885792 GCCCAAACATCTCTTACACTAGCACTCGTCTCAATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG-CATG
* * * * *
16885839 TCCCAGGCATGGTCTTACACTGGCTCTCATAGT-GTGACCGATTCATG
1 TCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATGCATG
16885886 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
16885906 AGCTCACAGT
Statistics
Matches: 126, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
44 12 0.10
45 11 0.09
46 58 0.46
47 25 0.20
48 19 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATGCATG
Found at i:16885880 original size:94 final size:92
Alignment explanation
Indices: 16885735--16885908 Score: 215
Period size: 94 Copynumber: 1.9 Consensus size: 92
16885725 ACATCTCGTA
* * *
16885735 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCCGAGGCCGATGCATGGCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATACCGAGACCGATGCATGGCCCAAAC
16885800 ATCTCTTACACTAGCACTCGTCTCAAT
66 ATCTCTTACACTAGCACTCGTCTCAAT
* ** * * *
16885827 GCCGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCT-CATAGTGTGACCGATTCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATACCGAGACCGATGCATGGCCCA
* *
16885891 GACATGTCTTACACTAGC
63 AACATCTCTTACACTAGC
16885909 TCACAGTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 47 0.69
95 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATACCGAGACCGATGCATGGCCCAAAC
ATCTCTTACACTAGCACTCGTCTCAAT
Found at i:16889024 original size:43 final size:43
Alignment explanation
Indices: 16888976--16889141 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
16888966 GTTATCAAGA
* *
16888976 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCTTTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
16889019 TGTGATTACGTGTAAGACCATGTCTGAGG-CATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTG-GGACATTGGCATCGTAT
* * * * * * *
16889062 TATGATTCCATGTAAGACCCTATCTGGGATAGTGGCATC-CAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** * *
16889104 ATGTGAAAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
16889142 TGTGCGAGCT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 10 0.10
43 92 0.88
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:16899082 original size:23 final size:22
Alignment explanation
Indices: 16899031--16899082 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
16899021 CCTCGTCTTT
*
16899031 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
16899053 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
16899076 TTCTTTT
1 TTCTTTT
16899083 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:16900989 original size:110 final size:110
Alignment explanation
Indices: 16900796--16901015 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
16900786 TTGCAGCACA
16900796 AAACGCTCACATTCAAACCCAAGTTTCTTCGGAATTTAGCCGGATATAACCACAAGCTCAATTGC
1 AAACGCTCACATTCAAACCCAAGTTTCTTCGGAATTTAGCCGGATATAACCACAAGCTCAATTGC
16900861 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCG
66 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCG
16900906 AAACGCTCACATTCAAACCCAAGTTTCTTCGGAATTTAGCCGGATATAACCACAAGCTCAATTGC
1 AAACGCTCACATTCAAACCCAAGTTTCTTCGGAATTTAGCCGGATATAACCACAAGCTCAATTGC
16900971 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCG
66 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCG
16901016 GGTCTTAGCC
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (110 bp):
AAACGCTCACATTCAAACCCAAGTTTCTTCGGAATTTAGCCGGATATAACCACAAGCTCAATTGC
CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCG
Found at i:16901013 original size:40 final size:40
Alignment explanation
Indices: 16900968--16901632 Score: 1093
Period size: 40 Copynumber: 16.6 Consensus size: 40
16900958 CAAGCTCAAT
* * * * *
16900968 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16901008 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
16901048 CGCCGTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
16901088 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16901128 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
16901168 TGCCTTCAGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
16901208 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
16901248 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
16901288 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16901328 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16901368 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16901408 TGCCTTCGGGTCTTATCCCGGATATATCCAA-TCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAT-CAATTCGCACAAA
16901448 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16901488 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
16901528 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16901568 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
16901608 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
16901633 CATTCAAATG
Statistics
Matches: 592, Mismatches: 29, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
39 5 0.01
40 582 0.98
41 5 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:16904844 original size:9 final size:9
Alignment explanation
Indices: 16904830--16904855 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16904820 AAATTTCGTA
16904830 TTTTTTGAT
1 TTTTTTGAT
16904839 TTTTTTGAT
1 TTTTTTGAT
16904848 TTTTTTGA
1 TTTTTTGA
16904856 CTGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.77
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:16906088 original size:20 final size:20
Alignment explanation
Indices: 16906060--16906114 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
16906050 ATGGGATTGG
*
16906060 ACTTCGGTGCCTCTGTTTTC
1 ACTTTGGTGCCTCTGTTTTC
*
16906080 ACTTTGGTGTCTCTGTTTTC
1 ACTTTGGTGCCTCTGTTTTC
16906100 ACTTTGGTGCCTCTG
1 ACTTTGGTGCCTCTG
16906115 ATTGCACAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.05, C:0.25, G:0.22, T:0.47
Consensus pattern (20 bp):
ACTTTGGTGCCTCTGTTTTC
Found at i:16915366 original size:47 final size:47
Alignment explanation
Indices: 16915288--16915741 Score: 728
Period size: 47 Copynumber: 9.6 Consensus size: 47
16915278 CCCTTCGGGA
* * * * * *
16915288 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16915335 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16915382 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16915429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16915476 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16915523 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16915572 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16915621 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16915668 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16915715 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
16915742 TTGATTACAT
Statistics
Matches: 392, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 298 0.76
49 94 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16915677 original size:22 final size:22
Alignment explanation
Indices: 16915649--16915724 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
16915639 TTTCACATTC
16915649 ATCACATTGGCCACTCGGCCTT
1 ATCACATTGGCCACTCGGCCTT
*** * *
16915671 ATCACATATATACACTTTC-ACATT
1 ATCACAT-TGGCCAC--TCGGCCTT
16915695 CATCACATTGGCCACTCGGCCTT
1 -ATCACATTGGCCACTCGGCCTT
16915718 ATCACAT
1 ATCACAT
16915725 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.41
23 7 0.18
24 7 0.18
25 9 0.23
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCACTCGGCCTT
Found at i:16915718 original size:239 final size:235
Alignment explanation
Indices: 16915288--16915741 Score: 737
Period size: 239 Copynumber: 1.9 Consensus size: 235
16915278 CCCTTCGGGA
* * * *
16915288 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
16915353 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
16915418 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCA
16915483 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16915523 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATAT
* *
16915588 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* * * *
16915653 CATTGGCCACTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTT
127 CATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTT
16915718 ATCACATATATACACTTTCACATT
192 ATCACATATATACACTTTCACATT
16915742 TTGATTACAT
Statistics
Matches: 200, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
235 10 0.05
236 1 0.00
237 37 0.19
239 152 0.76
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (235 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16923068 original size:19 final size:19
Alignment explanation
Indices: 16923044--16923081 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16923034 AAAGTTAATA
16923044 AAAAATTTGATTACGGTGG
1 AAAAATTTGATTACGGTGG
*
16923063 AAAAATTTTATTACGGTGG
1 AAAAATTTGATTACGGTGG
16923082 GTGATAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (19 bp):
AAAAATTTGATTACGGTGG
Found at i:16925397 original size:2 final size:2
Alignment explanation
Indices: 16925390--16925419 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16925380 TAATATGCAT
16925390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16925420 GGCTACTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16928603 original size:16 final size:17
Alignment explanation
Indices: 16928568--16928603 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
16928558 TTAACTAACC
16928568 AAACAAATCAATTTTCA
1 AAACAAATCAATTTTCA
*
16928585 AAACCAATCAA-TTTCA
1 AAACAAATCAATTTTCA
16928601 AAA
1 AAA
16928604 GTGAATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (17 bp):
AAACAAATCAATTTTCA
Found at i:16934696 original size:43 final size:43
Alignment explanation
Indices: 16934635--16934766 Score: 255
Period size: 43 Copynumber: 3.1 Consensus size: 43
16934625 CAACAATCCA
*
16934635 TTATTTTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
1 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
16934678 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
1 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
16934721 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
1 TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
16934764 TTA
1 TTA
16934767 CTTAACCATT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (43 bp):
TTATTGTTGGTTCATTCTCGGTCTTAGCCAATTATCCATTATT
Found at i:16937693 original size:41 final size:41
Alignment explanation
Indices: 16937633--16937715 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
16937623 TTGCTCAGAT
* *
16937633 AATGGATAGGTGCTTGAATTAATTAACAACAAGTCAACAAA
1 AATGGATAGGTGATTGAATTAATTAACAACAAATCAACAAA
16937674 AATGGATAGGT-ATTAGAATTAATTAACAACAAATCAACAAA
1 AATGGATAGGTGATT-GAATTAATTAACAACAAATCAACAAA
16937715 A
1 A
16937716 TAAAAAGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (41 bp):
AATGGATAGGTGATTGAATTAATTAACAACAAATCAACAAA
Found at i:16942665 original size:20 final size:18
Alignment explanation
Indices: 16942640--16942679 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
16942630 ACTTCAAAAT
16942640 CTTGCATTGCAAAAATTTTC
1 CTTGCATT--AAAAATTTTC
*
16942660 CTTGCATTAGAAATTTTC
1 CTTGCATTAAAAATTTTC
16942678 CT
1 CT
16942680 ATTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (18 bp):
CTTGCATTAAAAATTTTC
Found at i:16942687 original size:3 final size:3
Alignment explanation
Indices: 16942679--16942724 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
16942669 GAAATTTTCC
16942679 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16942725 TTCCTTCTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16943491 original size:15 final size:17
Alignment explanation
Indices: 16943457--16943494 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
16943447 TAATTTATTT
16943457 ATTTTTATTATTTTAGA
1 ATTTTTATTATTTTAGA
*
16943474 ATTTTTA-TA-TTTATA
1 ATTTTTATTATTTTAGA
16943489 ATTTTT
1 ATTTTT
16943495 TTTCCTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTATTATTTTAGA
Found at i:16943966 original size:14 final size:14
Alignment explanation
Indices: 16943947--16943973 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16943937 TGGAGTTTTT
16943947 ACAGCGTTGAAATA
1 ACAGCGTTGAAATA
16943961 ACAGCGTTGAAAT
1 ACAGCGTTGAAAT
16943974 GTTATCATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (14 bp):
ACAGCGTTGAAATA
Found at i:16944860 original size:43 final size:43
Alignment explanation
Indices: 16944807--16944928 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
16944797 TTTTTGTGAG
* * * * *
16944807 AAGCGTCGCTAAAAGT-TTTTTCTATAGTGGCGTTTGTGATAAA
1 AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTTGTG-GAAA
*
16944850 AAGCGCCGCTAAAAGTCATTGTCTTTAGCGGCGTTTGTGGAAA
1 AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTTGTGGAAA
* * *
16944893 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTT
16944929 ATTTCGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 52 0.74
44 18 0.26
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATTGTCTATAGCGGCGTTTGTGGAAA
Found at i:16946863 original size:26 final size:27
Alignment explanation
Indices: 16946572--16946860 Score: 332
Period size: 27 Copynumber: 10.8 Consensus size: 27
16946562 TCATCTCTTA
** * *
16946572 GGGGTATAACGGTCATCTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
16946599 GGGGTATTTCGATAATTTTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
16946626 GGGGTATTTTGGTTATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
16946653 GGGGTATTTCGGTCATTTTATCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
*
16946679 GGGGTATTTCGATCATTTTACCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
16946705 AGGGTATTTTGGTCATTTTACCTTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
*
16946731 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
16946758 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
16946785 AGGGTATTTCGATTATTTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
16946812 GGGGTATTTTGGCCACTTTATCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
16946839 GGGGTATTTCGGTTATTTTACC
1 GGGGTATTTCGGTCATTTTACC
16946861 TATTTTGGGG
Statistics
Matches: 217, Mismatches: 44, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
26 68 0.31
27 149 0.69
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:16950204 original size:41 final size:41
Alignment explanation
Indices: 16950153--16950257 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
16950143 CCCGATTCAA
* ** * *
16950153 TTCACCGGCAATTAGCCTGCTAGACTTATCGTCTGAATTAT
1 TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
** *
16950194 TTCACCGGCAAAAAACCTGCTAGACATAAAGTCTGAATAAC
1 TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
*
16950235 TTCACCGGC-CTTAGGCCTGCTAG
1 TTCACCGGCAATTA-GCCTGCTAG
16950258 GTTTTAAACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCAATTAGCCTGCTAGACATAAAGTCTGAATAAC
Found at i:16951944 original size:13 final size:13
Alignment explanation
Indices: 16951926--16951950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16951916 TCAAACTATC
16951926 AAATTTTCACACG
1 AAATTTTCACACG
16951939 AAATTTTCACAC
1 AAATTTTCACAC
16951951 ATATAAGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:16975021 original size:42 final size:42
Alignment explanation
Indices: 16974962--16975068 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
16974952 GCCAAGCCAC
* * *
16974962 ACGCCCGTGTGCCAGGCCGTGTACCCTTCGGAATAACCCTAT
1 ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
* *
16975004 ACGCCCATGTACTAGGCCGTGTACCCTTTGGAATAACCCCAT
1 ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
*
16975046 ACGCCCATGTGCCAGGCCGTGTA
1 ACGCCCATGTACCAGGCCGTGTA
16975069 ATAGCCTAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (42 bp):
ACGCCCATGTACCAGGCCGTGTACCCTTCGGAATAACCCCAT
Found at i:16975204 original size:43 final size:43
Alignment explanation
Indices: 16975105--16975196 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
16975095 GCTACAGGGG
*
16975105 CACACGACCGTATCACCTAGCCGTGTGTCACACACGGCTGAGA
1 CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
16975148 CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
1 CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
16975191 CACACG
1 CACACG
16975197 TCTGTGTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.36, G:0.24, T:0.15
Consensus pattern (43 bp):
CACACGACCGTGTCACCTAGCCGTGTGTCACACACGGCTGAGA
Found at i:16981717 original size:4 final size:4
Alignment explanation
Indices: 16981708--16981743 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
16981698 AGGATTCCAT
16981708 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
16981744 GGGAATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:16985817 original size:50 final size:50
Alignment explanation
Indices: 16985689--16985979 Score: 334
Period size: 50 Copynumber: 5.8 Consensus size: 50
16985679 GATAATAACA
* ** * *
16985689 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
16985738 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
16985788 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCTTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
16985838 TGCCAACGCCATGTCCTAGATATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
16985888 TGCCAACGCCATGTCCCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
16985938 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16985980 TTACCCAAAT
Statistics
Matches: 204, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 164 0.80
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16987497 original size:40 final size:40
Alignment explanation
Indices: 16987460--16987725 Score: 403
Period size: 40 Copynumber: 6.7 Consensus size: 40
16987450 GCTACTCGTT
* *
16987460 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16987500 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16987540 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16987580 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16987620 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
16987660 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16987701 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16987726 CATCATTCGA
Statistics
Matches: 213, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
39 3 0.01
40 197 0.92
41 13 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17008467 original size:29 final size:29
Alignment explanation
Indices: 17008404--17008471 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
17008394 TAATCAACCG
*
17008404 CGCACACGTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
17008433 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17008462 CGCACACTTA
1 CGCACACTTA
17008472 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17008583 original size:174 final size:174
Alignment explanation
Indices: 17008293--17008620 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
17008283 AACTCAAGGT
* * *
17008293 ACTTACCTTTTCCGTTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
17008358 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
17008423 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
17008467 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
17008532 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
17008597 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
17008621 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17008614 original size:29 final size:30
Alignment explanation
Indices: 17008580--17008651 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
17008570 ATCAACTGCG
*
17008580 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
17008609 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
17008638 CACACTTAGTGCCA
1 CACACTTAGTGCCA
17008652 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:17012423 original size:46 final size:46
Alignment explanation
Indices: 17012345--17012481 Score: 204
Period size: 46 Copynumber: 2.9 Consensus size: 46
17012335 GTAAAGCCGT
*
17012345 TCTCAAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACA
1 TCTC-AATGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACA
* *
17012392 TCTCGAA-GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTTCG
1 TCTC-AATGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACA
17012438 TCTCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 TCTCAATGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
17012482 CTCATAATGT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
45 2 0.02
46 47 0.57
47 20 0.24
48 14 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
TCTCAATGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACA
Found at i:17012505 original size:94 final size:93
Alignment explanation
Indices: 17012345--17012523 Score: 238
Period size: 94 Copynumber: 1.9 Consensus size: 93
17012335 GTAAAGCCGT
* *
17012345 TCTCAAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCTGATGCATG
1 TCTCAAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATG
17012410 TCCCAGACATGTCTTACACTGGCTTTCG
66 TCCCAGACATGTCTTACACTGGCTTTCG
* ** *
17012438 TCTC-AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGGTG
1 TCTCAAATGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAAGCCGATG
*
17012500 CATGTCCCAGACATGTTTTACACT
62 CATGTCCCAGACATGTCTTACACT
17012524 AGAACACAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
92 9 0.12
93 18 0.24
94 46 0.61
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (93 bp):
TCTCAAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATG
TCCCAGACATGTCTTACACTGGCTTTCG
Found at i:17012904 original size:29 final size:30
Alignment explanation
Indices: 17012861--17012942 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
17012851 CATAATTGGG
* *
17012861 CAAAATGACCATTTTGTCCTTAGA-TTCCA
1 CAAAATGACCATTTTGCCCCTAGACTTCCA
*
17012890 TAAAATGACCATTTTGCCCCTAGACTTCCA
1 CAAAATGACCATTTTGCCCCTAGACTTCCA
* *
17012920 CAAAATGACAATTTTACCCCTAG
1 CAAAATGACCATTTTGCCCCTAG
17012943 GTCTGAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 21 0.46
30 25 0.54
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (30 bp):
CAAAATGACCATTTTGCCCCTAGACTTCCA
Found at i:17016662 original size:22 final size:22
Alignment explanation
Indices: 17016636--17016684 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
17016626 TCATGTTTCA
*
17016636 AGACAAATGAGTGTATGTCTTG
1 AGACAAAGGAGTGTATGTCTTG
* *
17016658 GGACAAAGGAGTTTATGTCTTG
1 AGACAAAGGAGTGTATGTCTTG
17016680 AGACA
1 AGACA
17016685 TGACCTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (22 bp):
AGACAAAGGAGTGTATGTCTTG
Found at i:17018139 original size:26 final size:27
Alignment explanation
Indices: 17018036--17018145 Score: 83
Period size: 26 Copynumber: 4.3 Consensus size: 27
17018026 AGCATCCTGA
*
17018036 TATATGGCTCTTTGTGAGCTTCCCAAT
1 TATATGGCTATTTGTGAGCTTCCCAAT
* *
17018063 TA-AAGGCTCTTTGTGAGCTTCCCAA-
1 TATATGGCTATTTGTGAGCTTCCCAAT
* * * *
17018088 TAT-TAGCTCA-CT-TGAACTT-CCTAT
1 TATATGGCT-ATTTGTGAGCTTCCCAAT
*
17018112 TATATGGCTATTT-AGAGCTTCCCAAT
1 TATATGGCTATTTGTGAGCTTCCCAAT
17018138 TA-ATGGCT
1 TATATGGCT
17018146 CTTCGAAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
23 3 0.05
24 10 0.15
25 22 0.34
26 28 0.43
27 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (27 bp):
TATATGGCTATTTGTGAGCTTCCCAAT
Found at i:17028711 original size:27 final size:27
Alignment explanation
Indices: 17028680--17028732 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
17028670 AGTGTGTTTT
*
17028680 AGCAGGAAGCACCCATTCTGTTTGATC
1 AGCAGGAAGCACCAATTCTGTTTGATC
17028707 AGCAGGAAGCACCAATTCTGTTTGAT
1 AGCAGGAAGCACCAATTCTGTTTGAT
17028733 AAGAAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (27 bp):
AGCAGGAAGCACCAATTCTGTTTGATC
Found at i:17034897 original size:47 final size:48
Alignment explanation
Indices: 17034828--17035141 Score: 196
Period size: 47 Copynumber: 6.7 Consensus size: 48
17034818 GTATAATGCT
*
17034828 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGT-TAAGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTCTAAGCA
* * ** *
17034875 GATGCCATGTCCCAAACATGGTCTTACACTAACTCTCACGTATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACG--TCTAAGCA
* * * *
17034925 GATGCCATGTCCCAGATATGGTCTTAAACT-GACACATCA--TGT-AGTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCACGTCTAAG-CA
** * * *
17034971 GATG-CATGTCTTAGACAT-GTCTTACACTAGCT-TACATC-TCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CA-CGTCTAAGCA
* *
17035017 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTAT--CGTCTCAATGCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTCT-AA-G-CA
* ** * * *
17035064 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CGTCTAAGCA
17035111 GATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
17035142 ACACAAATAT
Statistics
Matches: 208, Mismatches: 36, Indels: 47
0.71 0.12 0.16
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 12 0.06
45 15 0.07
46 51 0.25
47 70 0.34
48 18 0.09
49 1 0.00
50 32 0.15
51 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTCTAAGCA
Found at i:17035008 original size:46 final size:46
Alignment explanation
Indices: 17034828--17035141 Score: 195
Period size: 46 Copynumber: 6.7 Consensus size: 46
17034818 GTATAATGCT
* * *
17034828 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA-C-GTTAAGCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTG-TAGGCC
* *
17034875 GATGCCATGTCCCAAACATGGTCTTACACTAACTCTCACGTATCTGT--GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-T-AC--ATCTGTAGGCC
* * *
17034925 GATGCCATGTCCCAGATATGGTCTTAAACT-GAC--ACATCATGTA-GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATC-TGTAGGCC
**
17034971 GATGCATGTCTTAGACATGTCTTACACTAGCTTACATCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCT-GTAGGCC
* * ** *
17035017 GATGCATGTCCCAAACATGTCTTACACTAGC-TATCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTA-CATCTGTAGGCC
* * *
17035063 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTGTAGGCC
17035111 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
17035142 ACACAAATAT
Statistics
Matches: 216, Mismatches: 30, Indels: 43
0.75 0.10 0.15
Matches are distributed among these distances:
44 13 0.06
45 19 0.09
46 67 0.31
47 60 0.28
48 20 0.09
49 2 0.01
50 31 0.14
51 1 0.00
52 2 0.01
53 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTGTAGGCC
Found at i:17037313 original size:19 final size:19
Alignment explanation
Indices: 17037289--17037325 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17037279 AATTTATGGA
17037289 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
17037308 AAATGATTTACTTTTCTG
1 AAATGATTTACTTTTCTG
17037326 TTGTTTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:17038707 original size:30 final size:30
Alignment explanation
Indices: 17038671--17038728 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
17038661 CACGGGCTAG
17038671 CACATGGGCGTGTGGC-CAGCCCGTGTGGAT
1 CACATGGGCGT-TGGCTCAGCCCGTGTGGAT
*
17038701 CACATGGGCGTTTGCTCAGCCCGTGTGG
1 CACATGGGCGTTGGCTCAGCCCGTGTGG
17038729 GAAAAGGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGGCGTTGGCTCAGCCCGTGTGGAT
Found at i:17040577 original size:32 final size:32
Alignment explanation
Indices: 17040540--17040608 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
17040530 TAAAAGAAGT
*
17040540 CTAAAAA-AATAACAATAAAATTAGAAA-TAAAA
1 CTAAAAATAAGAA-AATAAAATT-GAAATTAAAA
17040572 CTAAAAATAAGAAAATAAAATTGAAATTAAAA
1 CTAAAAATAAGAAAATAAAATTGAAATTAAAA
*
17040604 ATAAA
1 CTAAA
17040609 TGATAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 4 0.12
32 25 0.76
33 4 0.12
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (32 bp):
CTAAAAATAAGAAAATAAAATTGAAATTAAAA
Found at i:17041760 original size:75 final size:75
Alignment explanation
Indices: 17041632--17041781 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
17041622 CTAGAGTAGG
* *
17041632 GTTACGAGGTATTACCGAACAATTCACAGCATTAAGCATACATTTATCAAGCATAAGGCATTCAT
1 GTTACGAGGTATTACCGAACAATTCACAACATTAAGCATACATTTATCAAGCATAAAGCATTCAT
17041697 TCTCATAAAT
66 TCTCATAAAT
* * *
17041707 GTTATGAGGTATTACTGAACAATTCACAATATTAAGCATACATTTATCAAGCATAAAGCATTCAT
1 GTTACGAGGTATTACCGAACAATTCACAACATTAAGCATACATTTATCAAGCATAAAGCATTCAT
17041772 TCTCATAAAT
66 TCTCATAAAT
17041782 CATTCAACAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (75 bp):
GTTACGAGGTATTACCGAACAATTCACAACATTAAGCATACATTTATCAAGCATAAAGCATTCAT
TCTCATAAAT
Found at i:17050730 original size:8 final size:8
Alignment explanation
Indices: 17050717--17050745 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17050707 TTATGTTTAG
17050717 TATATTAT
1 TATATTAT
17050725 TATATTAT
1 TATATTAT
17050733 TATATTAT
1 TATATTAT
17050741 TATAT
1 TATAT
17050746 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:17050778 original size:5 final size:5
Alignment explanation
Indices: 17050768--17050799 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
17050758 TTATGTTTTA
17050768 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
17050800 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:17052090 original size:15 final size:15
Alignment explanation
Indices: 17052070--17052126 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
17052060 CGATGAATTT
*
17052070 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
17052085 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
17052100 ATTGAAATTATATTG
1 ATTGAAATTATATTG
17052115 ATTG-AATTATAT
1 ATTGAAATTATAT
17052127 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:17052546 original size:21 final size:21
Alignment explanation
Indices: 17052498--17052606 Score: 119
Period size: 21 Copynumber: 5.1 Consensus size: 21
17052488 GGCTTTATCG
* *
17052498 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
17052519 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
* *
17052542 ATCAGGCCCCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
17052563 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
17052584 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
17052605 AT
1 AT
17052607 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
21 57 0.76
23 18 0.24
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:17052601 original size:42 final size:42
Alignment explanation
Indices: 17052498--17052606 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
17052488 GGCTTTATCG
*
17052498 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCATGTGTCGT
* * **
17052542 ATCAGGCCCCTCGTGTGTCGTATCAGGCACCTCATGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCATGTGTCGT
* *
17052584 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
17052607 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.36
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCATGTGTCGT
Found at i:17054856 original size:32 final size:31
Alignment explanation
Indices: 17054784--17054857 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
17054774 TTATTTCATT
* **
17054784 ATCCAACAAGCTTAAAACATAATAAATTCACT
1 ATCCAACAA-ATTAAAACATAATAAATTCAAA
* *
17054816 ATCTAACAAATTAAAGACATAATAATTTCAAA
1 ATCCAACAAATTAAA-ACATAATAAATTCAAA
17054848 ATCCAACAAA
1 ATCCAACAAA
17054858 CTAATTTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 5 0.14
32 30 0.86
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (31 bp):
ATCCAACAAATTAAAACATAATAAATTCAAA
Found at i:17055346 original size:19 final size:19
Alignment explanation
Indices: 17055310--17055346 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17055300 TTCAGGCCTC
*
17055310 TGAGCACTAAACTTTTTTT
1 TGAGCACTAAACTCTTTTT
*
17055329 TGAGCACTAACCTCTTTT
1 TGAGCACTAAACTCTTTT
17055347 AAATGATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (19 bp):
TGAGCACTAAACTCTTTTT
Done.