Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 59 of 253
Found at i:16495677 original size:19 final size:20
Alignment explanation
Indices: 16495653--16495695 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16495643 TGTTTTGTTG
16495653 TGGG-CCAACTGTATTGAAA
1 TGGGCCCAACTGTATTGAAA
* *
16495672 TGGGCCCAACTGTGTTGATA
1 TGGGCCCAACTGTATTGAAA
16495692 TGGG
1 TGGG
16495696 TAAGGCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (20 bp):
TGGGCCCAACTGTATTGAAA
Found at i:16499062 original size:27 final size:27
Alignment explanation
Indices: 16499032--16499087 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16499022 TGGAGGTTTA
*
16499032 ATTTCTCTTCTAGTTCTATTTTTGGCG
1 ATTTCTCTTCTAGTTCTATTTTTAGCG
16499059 ATTTCTCTTCTAGTTCTATTTTTAGCG
1 ATTTCTCTTCTAGTTCTATTTTTAGCG
16499086 AT
1 AT
16499088 AGAGTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.12, T:0.55
Consensus pattern (27 bp):
ATTTCTCTTCTAGTTCTATTTTTAGCG
Found at i:16501999 original size:17 final size:17
Alignment explanation
Indices: 16501977--16502012 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16501967 TAAAAAAGGG
16501977 TTTTATTTTTATTATCT
1 TTTTATTTTTATTATCT
16501994 TTTTATTTTTATTATCT
1 TTTTATTTTTATTATCT
16502011 TT
1 TT
16502013 CCTCTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTATTATCT
Found at i:16507111 original size:33 final size:32
Alignment explanation
Indices: 16507074--16507150 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
16507064 TGGCCTTACC
* * *
16507074 ATGGTCTTACATTCATAATGCCATAACTCAGTT
1 ATGGTCTTACA-TCAGAATGCCATAACCCAGCT
* *
16507107 ATGGTCTTATCATCAGGATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
16507140 ATGGTCTTACA
1 ATGGTCTTACA
16507151 CGTATACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 34 0.89
34 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:16509726 original size:27 final size:27
Alignment explanation
Indices: 16509696--16509750 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
16509686 ATCTTCTATC
* * * *
16509696 TGTAGGCTAGTATTACTGAAATGCCCT
1 TGTAGGATAGAATCACTGAAATACCCT
16509723 TGTAGGATAGAATCACTGAAATACCCT
1 TGTAGGATAGAATCACTGAAATACCCT
16509750 T
1 T
16509751 CGTTTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (27 bp):
TGTAGGATAGAATCACTGAAATACCCT
Found at i:16509968 original size:27 final size:27
Alignment explanation
Indices: 16509741--16509993 Score: 155
Period size: 27 Copynumber: 9.4 Consensus size: 27
16509731 AGAATCACTG
*
16509741 AAATACCCTTCG-TTTACAAAATTA-TA
1 AAATACCCTT-GATTTGCAAAATTACTA
** * *
16509767 GAAATACCCTTGACCTGTAAAATTA-TCG
1 -AAATACCCTTGATTTGCAAAATTACT-A
* * * *
16509795 AAATACCCCTAACTTGTAAAATTACTA
1 AAATACCCTTGATTTGCAAAATTACTA
* * * *
16509822 AAATACCCTCGATTTGTAAAGTTACCA
1 AAATACCCTTGATTTGCAAAATTACTA
*
16509849 AAATACCATTGATTTAG-AAAATTAC-A
1 AAATACCCTTGATTT-GCAAAATTACTA
* *
16509875 GAAATACCCCTGATTTACAAAATTA-TA
1 -AAATACCCTTGATTTGCAAAATTACTA
16509902 GAAATA-CCTTGACTTT-CAAAAATTA-TA
1 -AAATACCCTTGA-TTTGC-AAAATTACTA
* *
16509929 GAAATACCATTGGTTTGCAAAATTACTA
1 -AAATACCCTTGATTTGCAAAATTACTA
* * * * *
16509957 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTTGATTTGCAAAATTACTA
16509984 AAATACCCTT
1 AAATACCCTT
16509994 ATAGGGTGAA
Statistics
Matches: 185, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.04
27 168 0.91
28 9 0.05
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTGCAAAATTACTA
Found at i:16510093 original size:27 final size:27
Alignment explanation
Indices: 16510025--16510115 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
16510015 ACCCCTAATA
* *
16510025 GGTAAAAAGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
16510052 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
16510079 GG-AAGAGTGATCGTAATA-CCCTTGTAT
1 GGTAA-AATGACCGTAA-AGCCCCTGTAG
16510106 GGTAAAATGA
1 GGTAAAATGA
16510116 AAATTATGCC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.04
27 49 0.91
28 3 0.06
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:16510343 original size:27 final size:27
Alignment explanation
Indices: 16510284--16510336 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16510274 CATTCGCCGT
16510284 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGA
* * *
16510311 TACTGGTGGCTTTGCGACATTTACTG
1 TACTGGTGGCTATGCCACAATTACTG
16510337 TTTCTGGCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGA
Found at i:16510540 original size:33 final size:33
Alignment explanation
Indices: 16510497--16510573 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
16510487 ACATCTACTG
*
16510497 TATTGTTACTGAATAGGGCTTTGGCCCAAACTA
1 TATTGATACTGAATAGGGCTTTGGCCCAAACTA
*
16510530 TATTGATACTGAATAGGGCTTTGGCCCAGACTA
1 TATTGATACTGAATAGGGCTTTGGCCCAAACTA
*
16510563 TACTGATACTG
1 TATTGATACTG
16510574 TGTTATTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (33 bp):
TATTGATACTGAATAGGGCTTTGGCCCAAACTA
Found at i:16512054 original size:10 final size:10
Alignment explanation
Indices: 16511997--16512045 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
16511987 TTAAATTCTA
16511997 AAAGATAAAT
1 AAAGATAAAT
*
16512007 ACAGATAAAT
1 AAAGATAAAT
**
16512017 AAAGA-ATTT
1 AAAGATAAAT
16512026 AAAGATAAAT
1 AAAGATAAAT
16512036 AAAGATAAAT
1 AAAGATAAAT
16512046 GGAGATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:16512080 original size:14 final size:13
Alignment explanation
Indices: 16512050--16512090 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
16512040 ATAAATGGAG
*
16512050 ATAAAAGCTAA-A
1 ATAAAATCTAATA
16512062 ATAAAATCTAAATA
1 ATAAAATCT-AATA
16512076 ATAAAATCTAATA
1 ATAAAATCTAATA
16512089 AT
1 AT
16512091 TATCCTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 8 0.31
14 10 0.38
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAATCTAATA
Found at i:16513874 original size:29 final size:29
Alignment explanation
Indices: 16513832--16513932 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
16513822 CATGAAATTG
16513832 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
16513861 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
16513890 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
16513918 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
16513933 ACTTATTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:16518961 original size:47 final size:47
Alignment explanation
Indices: 16518892--16519195 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
16518882 CCCTTCAGGA
* * *
16518892 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
16518939 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
16518986 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
16519033 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
16519080 CCTATCACATATATTCACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
16519127 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
16519176 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
16519196 GTACATCAAT
Statistics
Matches: 236, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 44 0.19
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:16526339 original size:29 final size:29
Alignment explanation
Indices: 16526297--16526397 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
16526287 CATGAAATTG
16526297 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
16526326 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
16526355 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
16526383 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
16526398 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:16528447 original size:96 final size:97
Alignment explanation
Indices: 16528285--16528466 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 97
16528275 TATTTATTTA
* * * *
16528285 TTTATTTTTACTTAAGAATATGTTAAACCTTTTGATGCGAAGAGAGATAACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCTCA
* * *
16528350 CCTCGGTTAGTCAGCCCAACATACTCCTAATT
66 CCCCAGTTACTCAGCCCAACATACTCCTAATT
** *
16528382 TTTATTTTT-CTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGGCAGCCATGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCTCA
*
16528446 CCCCAGTTACTTAGCCCAACA
66 CCCCAGTTACTCAGCCCAACA
16528467 CATTCTTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 65 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCTCA
CCCCAGTTACTCAGCCCAACATACTCCTAATT
Found at i:16541365 original size:19 final size:17
Alignment explanation
Indices: 16541341--16541376 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
16541331 TTTTGGGCTT
16541341 AATGGGCCGAAAATGGGCC
1 AATGGGCC--AAATGGGCC
16541360 AATGGGCCAAATGGGCC
1 AATGGGCCAAATGGGCC
16541377 CACTTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.31, C:0.22, G:0.36, T:0.11
Consensus pattern (17 bp):
AATGGGCCAAATGGGCC
Found at i:16543980 original size:49 final size:49
Alignment explanation
Indices: 16543919--16544093 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
16543909 CTGGTCCGCA
* * *
16543919 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * ** *
16543968 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACG
16544019 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
16544068 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
16544094 CGTGACCTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 65 0.61
50 2 0.02
51 39 0.37
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:16544031 original size:100 final size:100
Alignment explanation
Indices: 16543916--16544098 Score: 339
Period size: 100 Copynumber: 1.8 Consensus size: 100
16543906 TATCTGGTCC
* *
16543916 GCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCAC
16543981 TTAGTACTACACACGTGATCACAGTTTTCGGGTAT
66 TTAGTACTACACACGTGATCACAGTTTTCGGGTAT
*
16544016 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCAC
16544081 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
16544099 CCTCACAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCACAGTTTTCGGGTAT
Found at i:16546524 original size:5 final size:6
Alignment explanation
Indices: 16546499--16546538 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
16546489 CAAACAAAGT
*
16546499 AATAAA AATAAA AAGCAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AA-TAAA AATAAA AATAAA AATAAA AAT
16546539 TGGGTTGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:16546537 original size:19 final size:19
Alignment explanation
Indices: 16546499--16546537 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16546489 CAAACAAAGT
*
16546499 AATAAAAATAAAAAGCAAA
1 AATAAAAATAAAAAGAAAA
*
16546518 AATAAAAATAAAAATAAAA
1 AATAAAAATAAAAAGAAAA
16546537 A
1 A
16546538 TTGGGTTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (19 bp):
AATAAAAATAAAAAGAAAA
Found at i:16549093 original size:23 final size:23
Alignment explanation
Indices: 16549042--16549093 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
16549032 AAATTTCATT
*
16549042 GAATTGGTATAAACATGAGGATG
1 GAATTGGTATAAACATGAAGATG
*
16549065 GTATTGGTATAAA-ATGGATAGA-G
1 GAATTGGTATAAACAT-GA-AGATG
16549088 GAATTG
1 GAATTG
16549094 AGAATGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 2 0.08
23 20 0.83
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (23 bp):
GAATTGGTATAAACATGAAGATG
Found at i:16555647 original size:41 final size:40
Alignment explanation
Indices: 16555501--16555660 Score: 152
Period size: 41 Copynumber: 4.0 Consensus size: 40
16555491 GCTAATCGGG
*
16555501 GTCTAAAT-CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
16555541 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTAGAG-CAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
16555581 GTCATAA-CCG-GACTTAGT-TCCAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCTCGAAGGGCTTTTGAGCCAGT
*
16555620 GGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
16555661 ACTAAGAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
38 16 0.16
39 18 0.19
40 17 0.18
41 43 0.44
42 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:16563285 original size:41 final size:41
Alignment explanation
Indices: 16563227--16563374 Score: 151
Period size: 41 Copynumber: 3.6 Consensus size: 41
16563217 GAGCTTGGTC
16563227 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
16563268 TCGAAGGGCTTTAGAGCCAGTG--ACATAACCGGACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTA-ATAACCGAACTTAGTT
* * * * * *
16563308 CCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
* *
16563349 TGGAAGGGCTTTTGAGCCAGTACTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
16563375 GAATCGGGCT
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 5 0.06
40 33 0.38
41 47 0.53
43 2 0.02
44 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:16563307 original size:40 final size:40
Alignment explanation
Indices: 16563227--16563329 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 40
16563217 GAGCTTGGTC
*
16563227 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGC-AATAACCGAACTTAGTT
*
16563268 TCGAAGGGCTTTAGAGCCAGTG-ACATAACCGGACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGCA-ATAACCGAACTTAGTT
* * *
16563308 CCGAAGGGCCTTCGAGCCAGTG
1 TCGAAGGGCTTTAGAGCCAGTG
16563330 GTCTAATCCG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 34 0.61
41 21 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCGAAGGGCTTTAGAGCCAGTGCAATAACCGAACTTAGTT
Found at i:16580761 original size:14 final size:13
Alignment explanation
Indices: 16580736--16580760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16580726 ACCTGGGAAA
16580736 AAAATAAAAAAAC
1 AAAATAAAAAAAC
16580749 AAAATAAAAAAA
1 AAAATAAAAAAA
16580761 AGACAGAATT
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:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAATAAAAAAAC
Found at i:16580803 original size:17 final size:18
Alignment explanation
Indices: 16580783--16580816 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16580773 AAGTTGATTG
16580783 AAATTGC-AAAATTAAAT
1 AAATTGCAAAAATTAAAT
16580800 AAATTGCAAAAATTAAA
1 AAATTGCAAAAATTAAA
16580817 ATAGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTGCAAAAATTAAAT
Found at i:16581419 original size:67 final size:67
Alignment explanation
Indices: 16581311--16581444 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
16581301 TGAACCTTTT
16581311 TTGGGAATTTTTGACAACCTTTGGCTAGATGGATTTAGTGGCTCATGCTTTTGGGAAA-AGAAAT
1 TTGGGAATTTTTGACAACCTTTGGCTAGATGGATTTAGTGGCTCATGCTTTT-GGAAATAGAAAT
16581375 AGA
65 AGA
16581378 TTGGGAATTTTTGACAACCTTTGGCTAGATGGATTTAGTGGCTCATGCTTTTGGAAATAGAAATA
1 TTGGGAATTTTTGACAACCTTTGGCTAGATGGATTTAGTGGCTCATGCTTTTGGAAATAGAAATA
16581443 GA
66 GA
16581445 CTTAATAAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 5 0.08
67 61 0.92
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.35
Consensus pattern (67 bp):
TTGGGAATTTTTGACAACCTTTGGCTAGATGGATTTAGTGGCTCATGCTTTTGGAAATAGAAATA
GA
Found at i:16581659 original size:10 final size:10
Alignment explanation
Indices: 16581601--16581650 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
16581591 TTAACTTCTA
16581601 AAAGATAAA-
1 AAAGATAAAT
16581610 AATAGATAAAT
1 AA-AGATAAAT
**
16581621 AAAGATATTT
1 AAAGATAAAT
16581631 AAAGATAAAT
1 AAAGATAAAT
16581641 AAAGATAAAT
1 AAAGATAAAT
16581651 GGAGATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:16581685 original size:14 final size:14
Alignment explanation
Indices: 16581666--16581692 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16581656 TAAAAGCTAA
16581666 AATAAAATCTAAAT
1 AATAAAATCTAAAT
16581680 AATAAAATCTAAA
1 AATAAAATCTAAA
16581693 AATTATCCTA
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:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATCTAAAT
Found at i:16590084 original size:46 final size:46
Alignment explanation
Indices: 16590017--16590131 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
16590007 TGTAACCCGC
* * *
16590017 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
16590063 CCATAAGTGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
16590109 CCATAAGTGAACTCGGACTCAAC
1 CCATAAGTGAACTCGGACTCAAC
16590132 GAGTTCGGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:16596757 original size:42 final size:42
Alignment explanation
Indices: 16596646--16596799 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
16596636 TACCATACCA
* * **
16596646 ATGCCATATCCTAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTTATATCG
* * *
16596688 ATGCTAATAGCCCAGCTATGGTCTTACACGAAGTCTTATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAGTCTTATATCG
*
16596731 ATGCCATATCCCAGATATGGTCTTACACGAAGCCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATCG
*
16596773 ATGCCATATCCCAGATATGGTCATACA
1 ATGCCATATCCCAGATATGGTCTTACA
16596800 TGTAATCTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATCG
Found at i:16602292 original size:50 final size:50
Alignment explanation
Indices: 16602217--16602393 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
16602207 CCATGGCAAC
*
16602217 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
16602267 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGAACAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
16602317 AAGTGACAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
16602367 CAAGTGAAAAATGGTAGCTTCGACTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
16602394 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 91 0.81
51 22 0.19
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:16602407 original size:31 final size:31
Alignment explanation
Indices: 16602369--16602517 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
16602359 ACAAATGACA
* *
16602369 AGTGAAAAATGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
16602400 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
16602431 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
16602462 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
16602493 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
16602518 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:16602589 original size:46 final size:48
Alignment explanation
Indices: 16602539--16602703 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 48
16602529 GATTTCCGTA
* * * *
16602539 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGAGATATATGATTACGTG
* *
16602585 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATATGCTTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGAGATATATGATTACGTG
* *
16602634 TAAGACCATAGCTGGGCTATGGCATC-----A-ATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGAGATATATGATTACGTG
* *
16602676 TAAGACCATAGCTGGCCTATGGGATCAT
1 TAAGACCATAGCTGGGCTATGGCATCAT
16602704 TATGTGAAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
42 36 0.35
46 24 0.24
47 1 0.01
48 11 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGAGATATATGATTACGTG
Found at i:16602643 original size:49 final size:47
Alignment explanation
Indices: 16602539--16602710 Score: 178
Period size: 49 Copynumber: 3.7 Consensus size: 47
16602529 GATTTCCGTA
* * * * *
16602539 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGATTCGTG
*
16602585 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATATGCTTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATATGATT-CGTG
*
16602634 TAAGACCATAGCTGGGCTATGGCATCA-ATAT-ATGA-AT-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGAT-ATATGATTCGTG
* *
16602676 TAAGACCATAGCTGGCCTATGGGATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
16602711 AGATGTGTAA
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
42 28 0.26
44 4 0.04
45 1 0.01
46 28 0.26
47 5 0.05
48 12 0.11
49 30 0.28
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGATTCGTG
Found at i:16602678 original size:42 final size:42
Alignment explanation
Indices: 16602631--16602743 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
16602621 ATATGCTTAC
*
16602631 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
* * * *
16602673 GTGTAAGACCATAGCTGGCCTATGGGATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
** *
16602715 GTGTAAGACCATATTTGAGCTATGGCATC
1 GTGTAAGACCATAGCTGGGCTATGGCATC
16602744 GAGAAAACGA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
Found at i:16607590 original size:50 final size:50
Alignment explanation
Indices: 16607515--16607691 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
16607505 CCATGGCAAC
16607515 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
16607565 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTAAACAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
16607615 AAGTGACAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
16607665 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
16607692 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 88 0.79
51 23 0.21
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:16607705 original size:31 final size:31
Alignment explanation
Indices: 16607667--16607815 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
16607657 ACAAATGACA
16607667 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
16607698 AGTGAAAAGTGGTAGCTTCTGCTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
16607729 AGTGAAAAGTGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* * *
16607760 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
16607791 AGTGAATAGTGATAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
16607816 AAGTGACAAG
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 2 0.02
31 101 0.97
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:16607989 original size:49 final size:46
Alignment explanation
Indices: 16607926--16608073 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 46
16607916 ATTTGTGATT
*
16607926 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTTATTA
1 CGTGTAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATG--AATA
* *
16607975 CGTGTAAGATCATAGATGGGCTATGGCATCA-A--T-ATATGAATA
1 CGTGTAAGACCATAGCTGGGCTATGGCATCATATGTGATATGAATA
*
16608017 TGTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGA-A-G-AT-
1 CGTGTAAGACCATAGCTGGGCTATGGCATCA-TATGTGATATGAATA
16608060 -GTGTAAGACCATAG
1 CGTGTAAGACCATAG
16608074 TTGAACTATG
Statistics
Matches: 88, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
42 45 0.51
44 8 0.09
45 2 0.02
46 2 0.02
47 2 0.02
48 1 0.01
49 28 0.32
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATCATATGTGATATGAATA
Found at i:16620698 original size:18 final size:18
Alignment explanation
Indices: 16620675--16620716 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16620665 GAACAATTAT
*
16620675 TTATTCAGAATCAGTCTG
1 TTATTCAGAATCAGTCAG
* *
16620693 TTATTCGGTATCAGTCAG
1 TTATTCAGAATCAGTCAG
16620711 TTATTC
1 TTATTC
16620717 GGTAACAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (18 bp):
TTATTCAGAATCAGTCAG
Found at i:16620717 original size:18 final size:18
Alignment explanation
Indices: 16620684--16620734 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
16620674 TTTATTCAGA
*
16620684 ATCAGTCTGTTATTCGGT
1 ATCAGTCAGTTATTCGGT
16620702 ATCAGTCAGTTATTCGGT
1 ATCAGTCAGTTATTCGGT
* * *
16620720 AACAATCAATTATTC
1 ATCAGTCAGTTATTC
16620735 AATACTAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (18 bp):
ATCAGTCAGTTATTCGGT
Found at i:16620744 original size:18 final size:18
Alignment explanation
Indices: 16620722--16620766 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16620712 TATTCGGTAA
16620722 CAATCAATTATTCAATA-
1 CAATCAATTATTCAATAT
* *
16620739 CTAATCATTTATTCAGTAT
1 C-AATCAATTATTCAATAT
16620758 CAATCAATT
1 CAATCAATT
16620767 GATCGGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (18 bp):
CAATCAATTATTCAATAT
Found at i:16620799 original size:18 final size:18
Alignment explanation
Indices: 16620773--16620846 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
16620763 AATTGATCGG
*
16620773 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
*
16620791 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* * *
16620810 -TATACAGTGACAATTAAA
1 TTATTCAGTAACAA-TCAA
*
16620828 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
16620846 T
1 T
16620847 CTTTCCAGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
18 30 0.70
19 13 0.30
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:16621081 original size:53 final size:53
Alignment explanation
Indices: 16620962--16621086 Score: 142
Period size: 53 Copynumber: 2.4 Consensus size: 53
16620952 CTGGAACAAT
* * * * *
16620962 AACAGTAACAGTAGCAATATGGTACACAGAGTACCTCATCAGAATAAATCCGG
1 AACAGTAACAGTAACAATACGGTACACAAAGTACCTCATCAGAACAAATCCGA
** * ** *
16621015 AATGGTAACAGTAACAGTACGGTACACAAAGTACCTCATTGGAACAAATTCGA
1 AACAGTAACAGTAACAATACGGTACACAAAGTACCTCATCAGAACAAATCCGA
*
16621068 AACAGTAATAGTAACAATA
1 AACAGTAACAGTAACAATA
16621087 TCCGACACAC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (53 bp):
AACAGTAACAGTAACAATACGGTACACAAAGTACCTCATCAGAACAAATCCGA
Found at i:16623096 original size:25 final size:25
Alignment explanation
Indices: 16623067--16623114 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16623057 TTATAATGTG
* * *
16623067 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
16623092 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
16623115 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:16623175 original size:20 final size:20
Alignment explanation
Indices: 16623141--16623216 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
16623131 GATACGTGGG
16623141 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
16623158 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
16623179 GTATGATATGCACATGATAA
1 GTATGATATGCACATGATAT
* *
16623199 GTACGAAATGCACATGAT
1 GTATGATATGCACATGAT
16623217 GAATTCATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 41 0.79
21 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:16623177 original size:11 final size:11
Alignment explanation
Indices: 16623161--16623197 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
16623151 CATGATTGAT
16623161 ATGATATGCAC
1 ATGATATGCAC
*
16623172 ATGATATG--T
1 ATGATATGCAC
16623181 ATGATATGCAC
1 ATGATATGCAC
16623192 ATGATA
1 ATGATA
16623198 AGTACGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:16623357 original size:25 final size:26
Alignment explanation
Indices: 16623266--16623388 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
16623256 GAGGAAGTGC
*
16623266 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
16623292 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
**
16623318 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCA
* * *
16623344 AAAAGGG-TTTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
16623369 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
16623389 ATTAAAGAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
25 29 0.33
26 58 0.67
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:16623591 original size:42 final size:42
Alignment explanation
Indices: 16623532--16623624 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
16623522 GTAGTCTCCC
*
16623532 CAAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATT
1 CAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
*
16623574 CAAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATT
1 CAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
*
16623616 GAAATGGGC
1 CAAATGGGC
16623625 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (42 bp):
CAAATGGGCTTGCATACATTCATTGATATTTCATGTGATATT
Found at i:16623719 original size:31 final size:31
Alignment explanation
Indices: 16623648--16623726 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
16623638 CATTTACAAT
**
16623648 AAAGGCTTTAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
16623679 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
16623710 AAAGGCTTCGGTCCAGT
1 AAAGGCTTCGGCCCAGT
16623727 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:16629285 original size:18 final size:18
Alignment explanation
Indices: 16629216--16629332 Score: 76
Period size: 18 Copynumber: 6.4 Consensus size: 18
16629206 ATAGATATTA
*
16629216 ATCAATCAGTAATATTCATT
1 ATCAATCAGT--TATTCAGT
* * *
16629236 AACAATCAGTCAATCAG-
1 ATCAATCAGTTATTCAGT
* * *
16629253 AACAATTATTTATTCAGT
1 ATCAATCAGTTATTCAGT
* *
16629271 ATCAGTCAGTTATTCGGT
1 ATCAATCAGTTATTCAGT
* * *
16629289 AACAATCAATTATTCAAT
1 ATCAATCAGTTATTCAGT
16629307 AAT-AATCAGTTATTCAGT
1 -ATCAATCAGTTATTCAGT
*
16629325 ATTAATCA
1 ATCAATCA
16629333 ATTGATCGGT
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
17 15 0.21
18 48 0.66
19 1 0.01
20 9 0.12
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (18 bp):
ATCAATCAGTTATTCAGT
Found at i:16629302 original size:36 final size:36
Alignment explanation
Indices: 16629228--16629335 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 36
16629218 CAATCAGTAA
* * * * * *
16629228 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
* * *
16629263 TATTCAGT-ATCAGTCAGTTATTCGGTAACAATCAAT
1 TATTCAATAAT-AATCAGTTATTCAGTAACAATCAAT
**
16629299 TATTCAATAATAATCAGTTATTCAGTATTAATCAAT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
16629335 T
1 T
16629336 GATCGGTTAT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
34 1 0.02
35 17 0.30
36 37 0.65
37 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (36 bp):
TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
Found at i:16629368 original size:18 final size:18
Alignment explanation
Indices: 16629342--16629415 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
16629332 AATTGATCGG
*
16629342 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
*
16629360 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* * *
16629379 -TATACGGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
*
16629397 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
16629415 T
1 T
16629416 CTTTCCAGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
18 30 0.70
19 13 0.30
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:16629585 original size:59 final size:59
Alignment explanation
Indices: 16629521--16629655 Score: 147
Period size: 53 Copynumber: 2.4 Consensus size: 59
16629511 TCGGCCGAAG
* * * * *
16629521 CTGGAACAGTAACAGTAACAATAGCAGTACAGTACACAGAGCACCTCATTATAATAAAT
1 CTGGAACAGTAACAGTAACAATAACAGTACAGTACACAAAGCACCTCATCAGAACAAAT
* *
16629580 CTGGAAC-G-----GTAACAATAACAGTACGGTACACAAAGTACCTCATCAGAACAAAT
1 CTGGAACAGTAACAGTAACAATAACAGTACAGTACACAAAGCACCTCATCAGAACAAAT
* *
16629633 CCGAAACAGTAACAGTAACAATA
1 CTGGAACAGTAACAGTAACAATA
16629656 TCCGACACAC
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
53 43 0.70
54 1 0.02
58 1 0.02
59 16 0.26
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.18
Consensus pattern (59 bp):
CTGGAACAGTAACAGTAACAATAACAGTACAGTACACAAAGCACCTCATCAGAACAAAT
Found at i:16629851 original size:16 final size:16
Alignment explanation
Indices: 16629822--16629855 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16629812 TAATTCACTT
16629822 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
16629838 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
16629854 TT
1 TT
16629856 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:16630741 original size:30 final size:28
Alignment explanation
Indices: 16630683--16630741 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
16630673 TAATTTAATG
*
16630683 ATAATAAATACATTAATTTTACTTAAATA
1 ATAATAAATACATCAATTTTAC-TAAATA
16630712 ATAAGTAAATACATACATATTTTAC-AAATA
1 ATAA-TAAATACAT-CA-ATTTTACTAAATA
16630742 TATGTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 4 0.15
30 14 0.54
31 1 0.04
32 7 0.27
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (28 bp):
ATAATAAATACATCAATTTTACTAAATA
Found at i:16634166 original size:32 final size:32
Alignment explanation
Indices: 16634123--16634192 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
16634113 AACCTTACTA
*
16634123 GGAAAATCCAATAGGACAAAACCTCGGTTAAG
1 GGAAAACCCAATAGGACAAAACCTCGGTTAAG
*
16634155 GGAAAACCCAATGGGACAAAACCTCGGTTAAG
1 GGAAAACCCAATAGGACAAAACCTCGGTTAAG
16634187 GGAAAA
1 GGAAAA
16634193 AGAGTACAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (32 bp):
GGAAAACCCAATAGGACAAAACCTCGGTTAAG
Found at i:16636035 original size:15 final size:15
Alignment explanation
Indices: 16636015--16636045 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16636005 GTAGCTAGTG
16636015 AGTTTCTAATAATCA
1 AGTTTCTAATAATCA
16636030 AGTTTCTAATAATCA
1 AGTTTCTAATAATCA
16636045 A
1 A
16636046 CTGTAGCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AGTTTCTAATAATCA
Found at i:16636186 original size:18 final size:18
Alignment explanation
Indices: 16636163--16636204 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
16636153 ATGCCAAGTG
16636163 GTAAACGCATTTGTATTA
1 GTAAACGCATTTGTATTA
16636181 GTAAACGCATTTGTATTA
1 GTAAACGCATTTGTATTA
16636199 GTAAAC
1 GTAAAC
16636205 TTCTAGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (18 bp):
GTAAACGCATTTGTATTA
Found at i:16638043 original size:33 final size:33
Alignment explanation
Indices: 16638006--16638071 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
16637996 TAGTTTTAGG
*
16638006 TTAATTTTTTTATCTGATTTTTCAAAATCGTGA
1 TTAATTTTTTTATCTAATTTTTCAAAATCGTGA
16638039 TTAATTTTTTTATCTAATTTTTCAAAATCGTGA
1 TTAATTTTTTTATCTAATTTTTCAAAATCGTGA
16638072 AACTAAAAAT
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:0.29, C:0.09, G:0.08, T:0.55
Consensus pattern (33 bp):
TTAATTTTTTTATCTAATTTTTCAAAATCGTGA
Found at i:16638639 original size:27 final size:27
Alignment explanation
Indices: 16638608--16638662 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
16638598 ATTCAATTTA
*
16638608 ATTTTGATTCTAACT-TTTTTACTTTT
1 ATTTTTATTCTAACTATTTTTACTTTT
* *
16638634 ATTTTTATTTTAATTATTTTTACTTTT
1 ATTTTTATTCTAACTATTTTTACTTTT
16638661 AT
1 AT
16638663 CAAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTTATTCTAACTATTTTTACTTTT
Found at i:16638652 original size:15 final size:16
Alignment explanation
Indices: 16638632--16638661 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16638622 TTTTTTACTT
16638632 TTATTTTTA-TTTTAA
1 TTATTTTTACTTTTAA
16638647 TTATTTTTACTTTTA
1 TTATTTTTACTTTTA
16638662 TCAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTACTTTTAA
Found at i:16639118 original size:24 final size:24
Alignment explanation
Indices: 16639080--16639126 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
16639070 ACAAAAATTG
* *
16639080 TTTTAAAAATTAAAAGTTTTTTTTA
1 TTTTAAAAA-TAAAAATATTTTTTA
16639105 TTTT-AAAATAAAAATATTTTTT
1 TTTTAAAAATAAAAATATTTTTT
16639127 GAACAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 4 0.20
25 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAAATAAAAATATTTTTTA
Found at i:16642942 original size:43 final size:42
Alignment explanation
Indices: 16642885--16643047 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
16642875 CAATGCCAAC
* * * *
16642885 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGTTGCCATT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCA-T
16642928 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCC-AT
* * *
16642970 GTCCCAAACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATC-AAATATCGATGCC-AT
* * *
16643014 ATCCCAGACGTGGTCTTACACGAAATCACATATC
1 GTCCCAGACATGGTCTTACACGAAATCAAATATC
16643048 AAAAATCCTA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.28
43 44 0.43
44 29 0.28
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAT
Found at i:16645152 original size:19 final size:20
Alignment explanation
Indices: 16645117--16645157 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
16645107 GGTTAATTTC
16645117 ATCTAAAATCGATTAAAAATA
1 ATCTAAAATC-ATTAAAAATA
16645138 ATCTAAAAT-ATTAAAAATA
1 ATCTAAAATCATTAAAAATA
16645157 A
1 A
16645158 ATAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
ATCTAAAATCATTAAAAATA
Found at i:16645165 original size:17 final size:19
Alignment explanation
Indices: 16645128--16645166 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16645118 TCTAAAATCG
*
16645128 ATTAAAAATAATCTAAAAT
1 ATTAAAAATAATATAAAAT
16645147 ATTAAAAATAA-AT-AAAT
1 ATTAAAAATAATATAAAAT
16645164 ATT
1 ATT
16645167 TTCAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAATAATATAAAAT
Found at i:16646730 original size:13 final size:14
Alignment explanation
Indices: 16646701--16646733 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16646691 CGAAATAGGG
*
16646701 AGAAAAAAAAGGAA
1 AGAAAGAAAAGGAA
16646715 AGAAAGAAAA-GAA
1 AGAAAGAAAAGGAA
16646728 AGAAAG
1 AGAAAG
16646734 GAGAAACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAGGAA
Found at i:16649475 original size:26 final size:26
Alignment explanation
Indices: 16649446--16649553 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
16649436 TGGTACAAAT
*
16649446 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
16649472 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16649498 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16649524 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16649550 TGAT
1 TGAT
16649554 GGTCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16651197 original size:27 final size:27
Alignment explanation
Indices: 16651155--16651241 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
16651145 AGGAAGCGTC
*
16651155 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTAAT
* **
16651182 CTGGTGGCTCTACCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTAAT
*
16651209 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCT-AAT
16651236 CTGGTG
1 CTGGTG
16651242 ACTTCGTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.14
27 42 0.84
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTAAT
Found at i:16651252 original size:27 final size:26
Alignment explanation
Indices: 16651155--16651259 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 26
16651145 AGGAAGCGTC
* * **
16651155 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
16651182 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
16651209 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
16651236 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
16651260 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.13
27 58 0.85
28 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:16653706 original size:17 final size:17
Alignment explanation
Indices: 16653684--16653719 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16653674 TTCATCTCAT
16653684 AATTCTATCATCATGCC
1 AATTCTATCATCATGCC
16653701 AATTCTATCATCATGCC
1 AATTCTATCATCATGCC
16653718 AA
1 AA
16653720 AGAGTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (17 bp):
AATTCTATCATCATGCC
Found at i:16667530 original size:14 final size:14
Alignment explanation
Indices: 16667511--16667537 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16667501 AGAAATGTGA
16667511 AATTTAAATTTTTG
1 AATTTAAATTTTTG
16667525 AATTTAAATTTTT
1 AATTTAAATTTTT
16667538 AAAAAGAAAA
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:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTAAATTTTTG
Found at i:16674420 original size:22 final size:18
Alignment explanation
Indices: 16674378--16674413 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16674368 CACAAATCAA
16674378 AATTGGATTGAGTCTCTC
1 AATTGGATTGAGTCTCTC
16674396 AATTGGATTGAGTCTCTC
1 AATTGGATTGAGTCTCTC
16674414 TTTCAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (18 bp):
AATTGGATTGAGTCTCTC
Found at i:16677082 original size:20 final size:20
Alignment explanation
Indices: 16677043--16677083 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16677033 AAGCAACTAT
* *
16677043 AAAAAAGCAACGAGAGAACA
1 AAAAAAGCAACAAGAAAACA
*
16677063 AAAAAAGCCACAAGAAAACA
1 AAAAAAGCAACAAGAAAACA
16677083 A
1 A
16677084 CCCTCACAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAGCAACAAGAAAACA
Found at i:16678493 original size:25 final size:25
Alignment explanation
Indices: 16678459--16678509 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
16678449 TTCCTTATAA
**
16678459 ACTTTAAATTAAGAATTCTATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
*
16678484 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
16678509 A
1 A
16678510 TTTTCCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAAGAATTAGATTAGG
Found at i:16681366 original size:40 final size:40
Alignment explanation
Indices: 16681308--16681489 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
16681298 TATTCGGATG
* *
16681308 ATATCCGGGCTAAATCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
16681348 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
16681388 ATATCTGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
16681428 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
16681468 ATATCC-GGCTAATTCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
16681490 TACTTGGATT
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 114 0.88
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:16688286 original size:40 final size:40
Alignment explanation
Indices: 16688225--16688402 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
16688215 TATTCGGATG
* *
16688225 ATATTCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
16688265 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
16688305 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
16688345 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
16688385 ATATCC-GGCTAATTCCCG
1 ATATCCGGGCTAAGTCCCG
16688403 GAGGTACTTG
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.08
40 112 0.90
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:16693159 original size:25 final size:25
Alignment explanation
Indices: 16693125--16693173 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
16693115 CCTTATAAAT
* **
16693125 TTTAAATTAGGAATTCTATTAGGAC
1 TTTAAATTAGAAATTAGATTAGGAC
16693150 TTTAAATTAGAAATTAGATTAGGA
1 TTTAAATTAGAAATTAGATTAGGA
16693174 TTTTCCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (25 bp):
TTTAAATTAGAAATTAGATTAGGAC
Found at i:16695401 original size:26 final size:26
Alignment explanation
Indices: 16695349--16695401 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16695339 AAAATAATTT
* *
16695349 TTTTAAAATATATAAAAATACATAAA
1 TTTTAAAAAATATAAAAATACAAAAA
16695375 TTTTAAAAAATATGAAAAATA-AAAAA
1 TTTTAAAAAATAT-AAAAATACAAAAA
16695401 T
1 T
16695402 AAGTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TTTTAAAAAATATAAAAATACAAAAA
Found at i:16695409 original size:16 final size:16
Alignment explanation
Indices: 16695378--16695411 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16695368 ACATAAATTT
*
16695378 TAAAAAATATGAAAAA
1 TAAAAAATAAGAAAAA
*
16695394 TAAAAAATAAGTAAAA
1 TAAAAAATAAGAAAAA
16695410 TA
1 TA
16695412 TTTCAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAAAATAAGAAAAA
Found at i:16700162 original size:30 final size:30
Alignment explanation
Indices: 16700118--16700186 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
16700108 TAAAGATAAC
*
16700118 AAGAAAACC-GAATAAAGAAATCCAAG-ATA
1 AAGAAACCCAGAATAAAGAAAT-CAAGAATA
* *
16700147 GAGAAACCCAGAATAAAGAAATCTAGAATA
1 AAGAAACCCAGAATAAAGAAATCAAGAATA
16700177 AAGAAACCCA
1 AAGAAACCCA
16700187 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCAAGAATA
Found at i:16700166 original size:15 final size:15
Alignment explanation
Indices: 16700118--16700186 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
16700108 TAAAGATAAC
*
16700118 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
16700132 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
16700147 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
16700162 AAGAAATCTAGAATA
1 AAGAAACCCAGAATA
16700177 AAGAAACCCA
1 AAGAAACCCA
16700187 AGATACGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:16707035 original size:49 final size:49
Alignment explanation
Indices: 16706962--16707149 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
16706952 TGAGGTCACG
* *
16706962 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * ** * *
16707011 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGATAACTTCTATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GGTCGCA
16707062 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* *
16707111 TGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
16707150 GCCTTGTCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 76 0.63
50 4 0.03
51 40 0.33
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:16707135 original size:100 final size:100
Alignment explanation
Indices: 16706957--16707149 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
16706947 TATTGTGAGG
*
16706957 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
16707022 AAGTGCAGACTACTATGCGTACCCGATAACTTCTA
66 AAGTGCAGACTACTATGCGTACCAGATAACTTCTA
* *
16707057 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTATTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
16707122 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGACTACTATGCGTACCAGATA
16707150 GCCTTGTCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGACTACTATGCGTACCAGATAACTTCTA
Found at i:16714109 original size:39 final size:40
Alignment explanation
Indices: 16714008--16714232 Score: 210
Period size: 40 Copynumber: 5.7 Consensus size: 40
16713998 TCGAATGATG
* * * *
16714008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
16714047 ATCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
16714088 TCCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
16714127 TCCGGGTTAAGTCCCAAAGGCATTTGTGCAAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
16714166 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
16714206 AACCGGGCTATGTCCCAAAGGCATTTG
1 -TCCGGGTTAAGTCCCGAAGGCATTTG
16714233 AACGAGTAGC
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 35 0.22
40 112 0.71
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:16714151 original size:79 final size:81
Alignment explanation
Indices: 16714009--16714232 Score: 239
Period size: 79 Copynumber: 2.8 Consensus size: 81
16713999 CGAATGATGT
* * * * *
16714009 CCGGGCTAAGTCCCGAAGGCTTTGTGCTA--AGTGACCAT-ATCCGGATTAAGAT-CCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCATTG-G-TACGAGTTACTATAATCCGGGTTAAG-TCCCAAAGGCA
* *
16714070 TTTGTGCGAGATACTA-ATT
63 TTTGTGCAAGATACTATA-A
*
16714089 CCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AATCCGGGTTAAGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAATCCGGGTTAAGTCCCAAAGGCATTT
*
16714152 GTGCAAGTTACTATAA
66 GTGCAAGATACTATAA
* * * *
16714168 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAATCCGGGTTAAGTCCCAAAGGCATTT
16714232 G
66 G
16714233 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
77 2 0.02
78 2 0.02
79 60 0.49
80 57 0.46
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAATCCGGGTTAAGTCCCAAAGGCATTT
GTGCAAGATACTATAA
Found at i:16714221 original size:80 final size:80
Alignment explanation
Indices: 16714009--16714232 Score: 251
Period size: 80 Copynumber: 2.8 Consensus size: 80
16713999 CGAATGATGT
* * * * * *
16714009 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGTTAAG-TCCCAAAGGCATT
* *
16714072 TGTGCGAGATACTAATT
64 TGTGCAAGATACTAATA
* * *
16714089 CCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AATCCGGGTTAAGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGTTAAGTCCCAAAGGCATTT
*
16714152 GTGCAAGTTACT-ATAA
65 GTGCAAGATACTAAT-A
* *
16714168 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGTTAAGTCCCAAAGGCATTTG
16714233 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 54 0.45
80 61 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGTTAAGTCCCAAAGGCATTTG
TGCAAGATACTAATA
Found at i:16714254 original size:119 final size:119
Alignment explanation
Indices: 16714008--16714255 Score: 281
Period size: 119 Copynumber: 2.1 Consensus size: 119
16713998 TCGAATGATG
* * * *
16714008 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCAAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * * *
16714073 GTGCGAGATACTAATTCCGGGTTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
* * *
16714127 TCCGGGTTAAGTCCCAAAGGCATTTGTGC-AAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * * *
16714190 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CTAAA
16714247 TCC-GGTTAA
1 TCCGGGTTAA
16714256 ATTCTGAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 75 0.69
120 31 0.28
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCAAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
Found at i:16720495 original size:39 final size:40
Alignment explanation
Indices: 16720381--16720564 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
16720371 GCTACTCGTT
*
16720381 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
16720421 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
16720461 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
16720500 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
16720541 CAAA-GCCTT-GGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16720565 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 43 0.34
40 71 0.56
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16720549 original size:79 final size:81
Alignment explanation
Indices: 16720381--16720564 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
16720371 GCTACTCGTT
* *
16720381 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
16720445 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
16720462 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
16720524 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
16720541 CAAAGCCTT-GGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
16720565 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 6 0.07
79 66 0.74
80 14 0.16
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:16721860 original size:85 final size:85
Alignment explanation
Indices: 16721731--16721909 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
16721721 TATTTTATTG
16721731 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16721796 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16721816 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16721881 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16721901 CCCATGCTC
1 CCCATGCTC
16721910 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:16727512 original size:14 final size:14
Alignment explanation
Indices: 16727493--16727519 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16727483 ACTGGGGAAA
16727493 ATGAAATTGAAAAG
1 ATGAAATTGAAAAG
16727507 ATGAAATTGAAAA
1 ATGAAATTGAAAA
16727520 TCATAATAGA
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:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
ATGAAATTGAAAAG
Found at i:16737679 original size:27 final size:27
Alignment explanation
Indices: 16737648--16737825 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16737638 TAAATTGTAC
16737648 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16737675 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16737701 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16737729 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16737757 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16737784 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16737811 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16737826 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16737762 original size:82 final size:81
Alignment explanation
Indices: 16737649--16737804 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16737639 AAATTGTACA
* *
16737649 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16737713 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16737730 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16737795 TGCGAGTTGA
65 TGCGAATTGA
16737805 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16737816 original size:82 final size:81
Alignment explanation
Indices: 16737645--16737825 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
16737635 GATTAAATTG
* *
16737645 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16737710 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16737726 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16737790 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16737808 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16737826 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16747782 original size:34 final size:35
Alignment explanation
Indices: 16747724--16747790 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
16747714 CAAACAGCAG
*
16747724 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
16747759 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
16747791 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16752807 original size:41 final size:40
Alignment explanation
Indices: 16752672--16752816 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
16752662 CTCGCACAAG
* * * * *
16752672 GCCTTCAGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCAAAAAT
*
16752712 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCAAAAAT
* * *
16752752 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCAAAAAA
1 GCCTTCAGGA-CTTAGCCCGGATATAGTCGC-TAGCAAAAAT
16752793 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCAGGACTTAGCCCGGATAT
16752817 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCAAAAAT
Found at i:16754045 original size:38 final size:38
Alignment explanation
Indices: 16754003--16754078 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
16753993 CAAGAACTCC
*
16754003 TTCCTCCTTCCTTAGAATTTTTGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
16754041 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
16754079 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:16756348 original size:46 final size:46
Alignment explanation
Indices: 16756253--16756424 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
16756243 CTCGTAGCCA
* * * * * * *
16756253 ATGCATGTCCCAGACATGTCTTACATTGGCT-TACATCTCGAGGCTG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCG
16756299 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCG
*** *
16756345 ATGCCATGTCTTGAACATGGTCTTACACTGGCTCTCG--T-AATGTGGCCG
1 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAA--T-GCCG
* *
16756393 ATGCATGTCCTAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAAACATGTCTTACACTAGCTC
16756425 ACAATAGTCC
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 55 0.52
47 24 0.23
48 24 0.23
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (46 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCG
Found at i:16761533 original size:38 final size:38
Alignment explanation
Indices: 16761491--16761674 Score: 260
Period size: 38 Copynumber: 4.8 Consensus size: 38
16761481 TTTGGGCTAA
**
16761491 ATCCCGCAGGCTTAATGCTGGTATTATATTCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTTT
* * *
16761529 ATCCCGTAGGCTTCGTGCTGGTATTATATCCGAGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTTT
* *
16761567 ATCCCACAGGCTTCGTGCTAGTATTATATTCGGGTTTT
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTTT
* * **
16761605 ATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTTT
*
16761643 ATCCCGCAGGCTTAGTGCTGGTATTATATTCG
1 ATCCCGCAGGCTTCGTGCTGGTATTATATTCG
16761675 AGCTTAAAGT
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 127 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (38 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTTT
Found at i:16761603 original size:76 final size:76
Alignment explanation
Indices: 16761488--16761674 Score: 293
Period size: 76 Copynumber: 2.5 Consensus size: 76
16761478 ATATTTGGGC
* *
16761488 TAAATCCCGCAGGCTTAATGCTGGTATTATATTCGGGTTTTATCCCGTAGGCTTCGTGCTGGTAT
1 TAAATCCCGCAGGCTTAGTGCTGGTATTATATTCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
16761553 TATATCCGAGT
66 TATATCCGAGT
** * * * *
16761564 TTTATCCCACAGGCTTCGTGCTAGTATTATATTCGGGTTTTATCCTGCAGGCTTCGTGCTGGTAT
1 TAAATCCCGCAGGCTTAGTGCTGGTATTATATTCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
*
16761629 TATATCCGGGT
66 TATATCCGAGT
16761640 TAAATCCCGCAGGCTTAGTGCTGGTATTATATTCG
1 TAAATCCCGCAGGCTTAGTGCTGGTATTATATTCG
16761675 AGCTTAAAGT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 97 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (76 bp):
TAAATCCCGCAGGCTTAGTGCTGGTATTATATTCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
TATATCCGAGT
Found at i:16761701 original size:40 final size:38
Alignment explanation
Indices: 16761488--16761704 Score: 204
Period size: 38 Copynumber: 5.7 Consensus size: 38
16761478 ATATTTGGGC
** * *
16761488 TAAATCCCGCAGGCTTAATGCTGGTATTATATTCGGGT
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGCT
** *
16761526 TTTATCCCGTAGGCTTCGTGCTGGTATTATATCCGAG-T
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG-GCT
** * * * *
16761564 TTTATCCCACAGGCTTCGTGCTAGTATTATATTCGGGT
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGCT
** * *
16761602 TTTATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGT
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGCT
* *
16761640 TAAATCCCGCAGGCTTAGTGCTGGTATTATATTCGAGCT
1 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG-GCT
*
16761679 TAAAGTTCCGCAGG-TTCTGTGCTGGT
1 TAAA-TCCCGCAGGCTTC-GTGCTGGT
16761705 GACTGGATTC
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 126 0.83
39 9 0.06
40 16 0.11
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.37
Consensus pattern (38 bp):
TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGCT
Found at i:16767207 original size:38 final size:37
Alignment explanation
Indices: 16767146--16767340 Score: 219
Period size: 38 Copynumber: 5.1 Consensus size: 37
16767136 ATATTTGATG
** *
16767146 TATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTAT
1 TATATCC-GGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
16767184 TATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCC-GGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* *
16767222 TATATCCGAGTTTTATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCG-GTTTTATCCCGCAGGCTTAGTGCTGGTAT
****
16767260 TATATCCGGGTTTTATCTTATAGGCTTAGTGCTGGTAT
1 TATATCC-GGTTTTATCCCGCAGGCTTAGTGCTGGTAT
** * *
16767298 TATATCCGAGTTAAATCCCACAGGCTTAGTGTTGGTAT
1 TATATCCG-GTTTTATCCCGCAGGCTTAGTGCTGGTAT
16767336 TATAT
1 TATAT
16767341 TCGAGCTTAA
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 2 0.01
38 135 0.98
39 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (37 bp):
TATATCCGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
Found at i:16767272 original size:76 final size:76
Alignment explanation
Indices: 16767146--16767340 Score: 264
Period size: 76 Copynumber: 2.6 Consensus size: 76
16767136 ATATTTGATG
* * *
16767146 TATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTATTATATCCAGGTTTTATCCCGCAGGCTT
1 TATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCAGGTTTTATCCCACAGGCTT
*
16767211 CGTGCTGGTAT
66 AGTGCTGGTAT
** * * * ** *
16767222 TATATCCGAGTTTTATCTCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCTTATAGGCTT
1 TATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCAGGTTTTATCCCACAGGCTT
16767287 AGTGCTGGTAT
66 AGTGCTGGTAT
* *
16767298 TATATCCGAGTTAAATCCCACAGGCTTAGTGTTGGTATTATAT
1 TATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
16767341 TCGAGCTTAA
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 101 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (76 bp):
TATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCAGGTTTTATCCCACAGGCTT
AGTGCTGGTAT
Found at i:16774399 original size:40 final size:40
Alignment explanation
Indices: 16774328--16774526 Score: 219
Period size: 40 Copynumber: 5.0 Consensus size: 40
16774318 AATGATGTCT
* *
16774328 GGGCTAAGTACCGAAGGC-TTTGTGCTAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCC
* * *
16774368 GGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
16774408 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
16774447 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
16774487 GGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
16774527 AGTTAAATTC
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
39 35 0.26
40 93 0.69
41 7 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:16774461 original size:79 final size:81
Alignment explanation
Indices: 16774325--16774507 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
16774315 TCGAATGATG
* * *
16774325 TCTGGGCTAAGTACCGAAGGC-TTTGTGCTAAGTTACTATATCCGGACTAAGATCCGAAGGCATT
1 TCTGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
16774389 TGTGTGAGTTACTA-A
66 TGTGCGAGTTACTATA
* **
16774404 TTCTGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCTGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCA
16774466 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
16774484 ACCGGGCTATGTCCCGAAGGCATT
1 TCTGGGCTAAGTCCCGAAGGCATT
16774508 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (81 bp):
TCTGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:16774532 original size:79 final size:79
Alignment explanation
Indices: 16774378--16774532 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
16774368 GGACTAAGAT
* * * **
16774378 CCGAAGGCATTTGTGTGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
16774443 ATCCGGGTTAAGTC
66 ATCCGAGTTAAGTC
* *
16774457 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
16774520 TATATCC-AGTTAA
63 TAAATCCGAGTTAA
16774533 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:16781127 original size:78 final size:80
Alignment explanation
Indices: 16781008--16781188 Score: 228
Period size: 78 Copynumber: 2.3 Consensus size: 80
16780998 TACTCGATCA
* *
16781008 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAAACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCG-AACTTAACCCGGA
*
16781072 TTTAGT-AATCA-CACC
65 TATAGTCAATCAGCA-C
** *
16781087 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAACTTAACCCGGAT
* *
16781150 ATAGTCACTTAGCAC
66 ATAGTCAATCAGCAC
*
16781165 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
16781189 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
77 15 0.17
78 48 0.54
79 26 0.29
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAACTTAACCCGGAT
ATAGTCAATCAGCAC
Found at i:16781188 original size:40 final size:40
Alignment explanation
Indices: 16781006--16781188 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
16780996 GCTACTCGAT
* * *
16781006 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
** * *
16781046 CAAATGCCTTCGAAACTTAACCCGGATTTAGTAA-TCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* *
16781085 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
*
16781124 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAAC-TAGCA
16781164 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16781189 CATCATTCGA
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 16 0.13
39 56 0.47
40 48 0.40
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:16783437 original size:56 final size:57
Alignment explanation
Indices: 16783249--16783444 Score: 204
Period size: 56 Copynumber: 3.5 Consensus size: 57
16783239 TCCCAGACGG
* *
16783249 GGTCTTACTCGCACA-CACATATAACAGAG-TCACATATCGATGCCAACATATTAAATGT
1 GGTCTTACTCGCACATCACATAT--CAG-GTTCACATATCGATGCCAACGTATTAAACGT
* * * * * *
16783307 GGTCTTACTCG--CATGCATATATCTGATTCTCGTATCGATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACAT-CACATATCAGGTTCACATATCGATGCCAACGTATTAAACGT
* * * *
16783363 GGTCTTACTTGTAAATCACATATC-GGTTCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACATCACATATCAGGTTCACATATCGATGCCAACGTATTAAACGT
*
16783419 GGTCTTACTCGCACATCACGTATCAG
1 GGTCTTACTCGCACATCACATATCAG
16783445 AATCCTATGT
Statistics
Matches: 112, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
56 85 0.76
57 8 0.07
58 19 0.17
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (57 bp):
GGTCTTACTCGCACATCACATATCAGGTTCACATATCGATGCCAACGTATTAAACGT
Found at i:16784587 original size:14 final size:15
Alignment explanation
Indices: 16784570--16784598 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16784560 TCACGAAAAT
16784570 TTCACACAT-ATAAA
1 TTCACACATAATAAA
16784584 TTCACACATAATAAA
1 TTCACACATAATAAA
16784599 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:16790100 original size:39 final size:40
Alignment explanation
Indices: 16790034--16790223 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
16790024 ATAACCACAA
* * * *
16790034 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
16790074 GCACAAATGCCTT-GGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
16790113 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
16790153 GCACAAATGCCTTCGGGTCTTAG-CCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
16790192 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
16790224 CATTCAAATG
Statistics
Matches: 138, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
39 67 0.49
40 71 0.51
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:16790151 original size:79 final size:79
Alignment explanation
Indices: 16790014--16790223 Score: 289
Period size: 79 Copynumber: 2.7 Consensus size: 79
16790004 TCTTCGGAAT
* * * * * *
16790014 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
16790079 AATGCCTT-GGGTC
66 AATGCCTTCGGGTC
* * *
16790092 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
1 TTAG-CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCA
16790156 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* *
16790172 TTAGCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
16790224 CATTCAAATG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 6 0.05
79 96 0.83
80 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:16800674 original size:12 final size:12
Alignment explanation
Indices: 16800657--16800682 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16800647 ATAGAGTTAC
16800657 GATACCAGTGAT
1 GATACCAGTGAT
16800669 GATACCAGTGAT
1 GATACCAGTGAT
16800681 GA
1 GA
16800683 ACATTAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (12 bp):
GATACCAGTGAT
Found at i:16809463 original size:104 final size:104
Alignment explanation
Indices: 16809341--16809564 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
16809331 AATGGATATC
16809341 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
16809406 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
16809445 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
16809510 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
16809549 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
16809565 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:16809926 original size:29 final size:29
Alignment explanation
Indices: 16809893--16809956 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
16809883 TAATCCACCA
16809893 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
16809922 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
16809952 CCCAA
1 CCCAA
16809957 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:16809930 original size:30 final size:30
Alignment explanation
Indices: 16809900--16809956 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
16809890 CCACCCAACT
16809900 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
16809929 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
16809957 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:16816903 original size:71 final size:72
Alignment explanation
Indices: 16816813--16816947 Score: 218
Period size: 72 Copynumber: 1.9 Consensus size: 72
16816803 CCACTGAATC
* *
16816813 GGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATGGATATCGCACTTAGCAA
1 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGGATATCGCACTTAGCAA
16816877 CCCCTCG
66 CCCCTCG
***
16816884 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATATCGCACTTAGCA
1 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGGATATCGCACTTAGCA
16816948 CCACCAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
71 28 0.48
72 30 0.52
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (72 bp):
GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGGATATCGCACTTAGCAA
CCCCTCG
Found at i:16817051 original size:104 final size:104
Alignment explanation
Indices: 16816866--16817089 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
16816856 AATGGATATC
16816866 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
16816931 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
16816970 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
16817035 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
16817074 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
16817090 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:16817451 original size:29 final size:29
Alignment explanation
Indices: 16817418--16817481 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
16817408 TAATCCACCA
16817418 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
16817447 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
16817477 CCCAA
1 CCCAA
16817482 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Done.