Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2779
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: 87651
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:4344 original size:48 final size:48
Alignment explanation
Indices: 4285--4548 Score: 222
Period size: 48 Copynumber: 5.5 Consensus size: 48
4275 ATTGTCGATA
* * * * * *
4285 CCATGTTCCAAACATGGTCTTACACTGGCTTACATGTCGAGGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCTGATG
* * *
4333 CCATGTCCCAAACATGGTCTTCCACTAGC-T-CTTGTTTCAATGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTTACATG--TCAATGCTGATG
* * *** *
4381 GCATGTCCCAGACATGGTCTTAGACTAGGACACATGTCAATG-TCGATA
1 CCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCT-GATG
4429 CCATGTCCCAGACATGGTCTTACACTAGCTCT-CA--T-AATTGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCT-TACATGTCAA-T-GCTGATG
** * *
4476 CCATGTGCCCAGACAT-GTCTTACACTAGCACACATGTCAATGCCGATT
1 CCATGT-CCCAGACATGGTCTTACACTAGCTTACATGTCAATGCTGATG
*
4524 CCA-GTCCCATACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
4549 GGCTCTCACC
Statistics
Matches: 175, Mismatches: 26, Indels: 31
0.75 0.11 0.13
Matches are distributed among these distances:
45 2 0.01
46 13 0.07
47 39 0.22
48 114 0.65
49 2 0.01
50 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCTGATG
Found at i:4543 original size:47 final size:48
Alignment explanation
Indices: 4280--4652 Score: 215
Period size: 48 Copynumber: 7.8 Consensus size: 48
4270 GGTGAATTGT
* * * ** * * *
4280 CGATACCATGTTCCAAACATGGTCTTACACTGGCTTACATGTCGAGGT
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGC
* * * * * *** *
4328 TGATGCCATGTCCCAAACATGGTCTTCCACTAGCTCTTGTTTCAATGC
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGC
* ** * * *
4376 TGATGGCATGTCCCAGACATGGTCTTAGACTAGGACACATGTCAATGT
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGC
* *
4424 CGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATTGGC
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAA-T-GC
* *
4471 TGATGCCATGTGCCCAGACAT-GTCTTACACTAGCACACATGTCAATGC
1 CGATACCATGT-CCCAGACATGGTCTTACACTAGCACACATGTCAATGC
* * * * * * **
4519 CGATTCCA-GTCCCATACATGGTCTTACACTGGCTCTCA--CCATATTTT
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCA-A-TGC
* ** * * * * * *
4566 CGATGCCATGTTTCA-ACATGATCTTACACTGGCTCTCATAT-TATGGC
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAAT-GC
* *
4613 CGACACCATGTCCCAGACATGGTCTTACGCTAGCACACAT
1 CGATACCATGTCCCAGACATGGTCTTACACTAGCACACAT
4653 ATCACCCAAA
Statistics
Matches: 249, Mismatches: 62, Indels: 28
0.73 0.18 0.08
Matches are distributed among these distances:
45 4 0.02
46 12 0.05
47 85 0.34
48 144 0.58
49 2 0.01
50 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATACCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGC
Found at i:4571 original size:95 final size:95
Alignment explanation
Indices: 4285--4646 Score: 306
Period size: 96 Copynumber: 3.8 Consensus size: 95
4275 ATTGTCGATA
* * * ** * * ** * *
4285 CCATGTTCCAAACATGGTCTTACACTGGCTTACATGTCGAGGTTGATGCCATGTCCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGCCGATACCATGTCCCAGACATGG
* **
4350 TCTTCCACTAGCTCTTGTTTCAA-T-GCTGATG
66 TCTTACACTAGCTC---TCACAATTGGCTGATG
* * * *
4381 GCATGTCCCAGACATGGTCTTAGACTAGGACACATGTCAATGTCGATACCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGCCGATACCATGTCCCAGACATGG
*
4446 TCTTACACTAGCTCTCATAATTGGCTGATG
66 TCTTACACTAGCTCTCACAATTGGCTGATG
* *
4476 CCATGTGCCCAGACAT-GTCTTACACTAGCACACATGTCAATGCCGATTCCA-GTCCCATACATG
1 CCATGT-CCCAGACATGGTCTTACACTAGCACACATGTCAATGCCGATACCATGTCCCAGACATG
* **
4539 GTCTTACACTGGCTCTCACCATATTTTC-GATG
65 GTCTTACACTAGCTCTCA-CA-ATTGGCTGATG
** * * * * * * *
4571 CCATGTTTCA-ACATGATCTTACACTGGCTCTCATAT-TATGGCCGACACCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAAT-GCCGATACCATGTCCCAGACATG
*
4634 GTCTTACGCTAGC
65 GTCTTACACTAGC
4647 ACACATATCA
Statistics
Matches: 218, Mismatches: 40, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
93 9 0.04
94 55 0.25
95 76 0.35
96 78 0.36
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (95 bp):
CCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGCCGATACCATGTCCCAGACATGG
TCTTACACTAGCTCTCACAATTGGCTGATG
Found at i:4592 original size:94 final size:95
Alignment explanation
Indices: 4333--4646 Score: 293
Period size: 95 Copynumber: 3.3 Consensus size: 95
4323 GAGGTTGATG
* * ** *
4333 CCATGTCCCAAACATGGTCTTCCACTAGCTCTTGTTTCAA-T-GCTGATGGCATGT-CCCAGACA
1 CCATGTCCCAGACATGGTCTTACACTAGCTC---TCACAATTGGCTGATGCCATGTGCCCAGACA
* * *
4395 TGGTCTTAGACTAGGACACATGTCAATGTCGATA
63 T-GTCTTACACTAGCACACATGTCAATGCCGATA
*
4429 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATTGGCTGATGCCATGTGCCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATTGGCTGATGCCATGTGCCCAGACATGT
*
4494 CTTACACTAGCACACATGTCAATGCCGATT
66 CTTACACTAGCACACATGTCAATGCCGATA
* * ** **
4524 CCA-GTCCCATACATGGTCTTACACTGGCTCTCACCATATTTTC-GATGCCATGT-TTCA-ACAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CA-ATTGGCTGATGCCATGTGCCCAGACAT
* * * * * *
4585 GATCTTACACTGGCTCTCATAT-TATGGCCGACA
64 G-TCTTACACTAGCACACATGTCAAT-GCCGATA
*
4618 CCATGTCCCAGACATGGTCTTACGCTAGC
1 CCATGTCCCAGACATGGTCTTACACTAGC
4647 ACACATATCA
Statistics
Matches: 183, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
93 10 0.05
94 55 0.30
95 76 0.42
96 42 0.23
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (95 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATTGGCTGATGCCATGTGCCCAGACATGT
CTTACACTAGCACACATGTCAATGCCGATA
Found at i:7509 original size:36 final size:37
Alignment explanation
Indices: 7437--7514 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
7427 TTATTACGAA
* *
7437 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
7474 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
7510 GTCTT
1 GTCTT
7515 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:7745 original size:47 final size:46
Alignment explanation
Indices: 7632--7895 Score: 469
Period size: 47 Copynumber: 5.7 Consensus size: 46
7622 GCCCTTCGGG
7632 ACTTATCACATTCATCACATCGGCCATTAGGCCTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTATCACATATATAC
7679 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATTAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATA-TAC
7726 ACTTTCACATTCATCACATCGGCCATTAGG-C-ATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATAC
*
7770 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGC-CTATCACATATATAC
7817 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
7864 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
7896 ATACTATCAT
Statistics
Matches: 210, Mismatches: 2, Indels: 10
0.95 0.01 0.05
Matches are distributed among these distances:
44 33 0.16
45 10 0.05
46 40 0.19
47 127 0.60
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (46 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATAC
Found at i:7794 original size:91 final size:92
Alignment explanation
Indices: 7632--7895 Score: 469
Period size: 91 Copynumber: 2.8 Consensus size: 92
7622 GCCCTTCGGG
7632 ACTTATCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
7697 TCGGCCATTAGGCCTATCACATATATTAC
65 TCGGCCATTAGGCCTATCACATATA-TAC
7726 ACTTTCACATTCATCACATCGGCCATTAGG-C-ATCACATATATACACTTTCACATTCATCACAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACAT
*
7789 CGGCCATTAGGCATTATCACATATATAC
66 CGGCCATTAGGC-CTATCACATATATAC
7817 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACACTTTCACATTCATCACA
7882 TCGGCCATTAGGCC
65 TCGGCCATTAGGCC
7896 ATACTATCAT
Statistics
Matches: 164, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
91 77 0.47
92 13 0.08
93 26 0.16
94 48 0.29
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (92 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTATCACATATATAC
Found at i:7833 original size:25 final size:25
Alignment explanation
Indices: 7756--7835 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
7746 GGCCATTAGG
7756 CATCACATATATACACTTTCACATT
1 CATCACATATATACACTTTCACATT
**** ***
7781 CATCACAT-CGGCCA-TTAGGCATT
1 CATCACATATATACACTTTCACATT
7804 -ATCACATATATACACTTTCACATT
1 CATCACATATATACACTTTCACATT
7828 CATCACAT
1 CATCACAT
7836 CGGCCATTAG
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
22 7 0.18
23 8 0.21
24 8 0.21
25 15 0.39
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
CATCACATATATACACTTTCACATT
Found at i:7884 original size:138 final size:138
Alignment explanation
Indices: 7632--7894 Score: 485
Period size: 138 Copynumber: 1.9 Consensus size: 138
7622 GCCCTTCGGG
7632 ACTTATCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
1 ACTTATCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
7697 TCGGCCATTAGGCCTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGCATCAC
66 TCGGCCATTAGGCCTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGCATCAC
7762 ATATATAC
131 ATATATAC
*
7770 ACTT-TCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATCAC
1 ACTTATCACATTCATCACATCGGCCATTAGGC-CTATCACATATATACACTTTCACATTCATCAC
7834 ATCGGCCATTAGGCCTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
65 ATCGGCCATTAGGCC-TATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
7895 CATACTATCA
Statistics
Matches: 122, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
137 27 0.22
138 84 0.69
139 11 0.09
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (138 bp):
ACTTATCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGCATCAC
ATATATAC
Found at i:11619 original size:40 final size:40
Alignment explanation
Indices: 11373--11673 Score: 322
Period size: 40 Copynumber: 7.5 Consensus size: 40
11363 AGCATGATTA
* * * * *
11373 CTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
11413 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * * * *
11453 CTCCTCGGAACTTAGCCCGGATATATTACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
11493 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
11533 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
11573 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** *
11614 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
11654 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
11674 CATCATTCGA
Statistics
Matches: 226, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.01
40 204 0.90
41 19 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:12018 original size:29 final size:29
Alignment explanation
Indices: 11979--12057 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
11969 CTTAATAATC
*
11979 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
12009 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
12038 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12058 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:13777 original size:37 final size:37
Alignment explanation
Indices: 13727--13805 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13717 TTATTACGAA
* * *
13727 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
13764 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
13801 GTCTT
1 GTCTT
13806 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:14034 original size:47 final size:47
Alignment explanation
Indices: 13923--14098 Score: 307
Period size: 47 Copynumber: 3.7 Consensus size: 47
13913 GCCCTTCGGG
*
13923 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
13973 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
14020 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
14067 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
14099 ATACTATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
47 86 0.70
49 33 0.27
50 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:20177 original size:48 final size:47
Alignment explanation
Indices: 20122--20635 Score: 314
Period size: 48 Copynumber: 10.7 Consensus size: 47
20112 AGTGAATTGC
* * *
20122 TGATGCCATGTTCCAAACATGGTCTTACACCAGCTTACATGTCGAGGG
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATGTC-AAGG
* * * * *
20170 TGATGCCATGTCCCAGACATGATCTTACACTAGCTCT-CGTCTCAATG
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACATGTCAAGG
* ** *
20217 TCGATGCCATGTCCCAAACACGGTCTTACACTAGCACACATGTCAATGC
1 T-GATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATGTCAA-GG
* ** * *
20266 CGATGCCATGTCAAAAACATGGTCTTACACTGGCTCT-CGTAATGTC-A-C
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TAC---ATGTCAAGG
* ** * ** * *
20314 CGATGTTATGTCCCAGACATGGTCTTACACTAGCTCT-TTTCTCAATGC
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACATGTCAA-GG
* ** *
20362 CGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATGTCAATGC
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATGTCAA-GG
* * *
20410 CGATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCATAATGT---GG
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCT-T-A-CATGTCAAGG
* ** *
20457 CTGATGTCATGTCCCAAACATGGTCTTACACTAGCACACATGTCAATG
1 -TGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATGTCAAGG
* * ** *
20505 TCGATGCCAGGTCCCAAACATGGTCTTCCACTAGCTCTCACCACATC--GC
1 T-GATGCCATGTCCCAAACATGGTCTTACACTAGCT-T-A-CATGTCAAGG
* * * **
20554 CGATGCCATGTTCCAAACATGGTCTTACACTAGC-T-CTTGTATCGTGG
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATG--TCAAGG
* *
20601 CTGACGCCATGTCCCAAACATAGTCTTACACTAGC
1 -TGATGCCATGTCCCAAACATGGTCTTACACTAGC
20636 ACACATATCA
Statistics
Matches: 364, Mismatches: 74, Indels: 56
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.00
45 9 0.02
46 3 0.01
47 6 0.02
48 328 0.90
49 1 0.00
50 3 0.01
51 13 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATGTCAAGG
Found at i:20292 original size:96 final size:95
Alignment explanation
Indices: 20123--20641 Score: 485
Period size: 96 Copynumber: 5.4 Consensus size: 95
20113 GTGAATTGCT
* * * * * ** *
20123 GATGCCATGTTCCAAACATGGTCTTACACCAGCTTACATGTCGAGGGTGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-TCAATGCCGATGCCATGTCCCAAAC
* *
20188 ATGATCTTACACTAGCTCTCGTCTCAATGTC
65 ATGGTCTTACACTAGCTCTCGTGTCAATGTC
* * **
20219 GATGCCATGTCCCAAACACGGTCTTACACTAGCACACATGTCAATGCCGATGCCATGTCAAAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-TCAATGCCGATGCCATGTCCCAAAC
*
20284 ATGGTCTTACACTGGCTCTC--GT-AATGTCACC
65 ATGGTCTTACACTAGCTCTCGTGTCAATGT---C
** * ***
20315 GATGTTATGTCCCAGACATGGTCTTACACTAGCTCTTTTCTCAATGCCGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-TCAATGCCGATGCCATGTCCCAAAC
* * * *
20380 ATGGTCTTACACTAGCACACATGTCAATGCC
65 ATGGTCTTACACTAGCTCTCGTGTCAATGTC
* * * *
20411 GATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCA-T-AATGTGGCTGATGTCATGTCCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATTCAA--T-GCCGATGCCATGTCCCAA
* * *
20474 ACATGGTCTTACACTAGCACACATGTCAATGTC
63 ACATGGTCTTACACTAGCTCTCGTGTCAATGTC
* * * * *
20507 GATGCCAGGTCCCAAACATGGTCTTCCACTAGCTCTCA-CCACATCGCCGATGCCATGTTCCAAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATTCA-AT-GCCGATGCCATGTCCCAAA
* * * *
20571 CATGGTCTTACACTAGCTCTTGTATC-GTGGC
64 CATGGTCTTACACTAGCTCTCGTGTCAATGTC
* * *
20602 TGACGCCATGTCCCAAACATAGTCTTACACTAGCACACAT
1 -GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT
20642 ATCATCCAAA
Statistics
Matches: 350, Mismatches: 60, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
93 7 0.02
94 2 0.01
95 4 0.01
96 329 0.94
97 1 0.00
98 3 0.01
99 4 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATTCAATGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCTCGTGTCAATGTC
Found at i:20601 original size:144 final size:142
Alignment explanation
Indices: 20123--20641 Score: 596
Period size: 144 Copynumber: 3.6 Consensus size: 142
20113 GTGAATTGCT
* * * * * *
20123 GATGCCATGTTCCAAACATGGTCTTACACCAGCT-TACAT-GTCGAGGGTGATGCCATGTCCCAG
1 GATGCCATG-TCCAAACATGGTCTTACACTAGCTCT-CGTAAT-GTGGCTGATGCCATGTCCCAA
* * * * *
20186 ACATGATCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAACACGGTCTTACACTAG
63 ACATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGGTCTTACACTAG
20251 CACACATGTCAATGCC
128 CACACA-GTCAATGCC
* * ** * ** *
20267 GATGCCATGTCAAAAACATGGTCTTACACTGGCTCTCGTAATGTCACCGATGTTATGTCCCAGAC
1 GATGCCATGTC-CAAACATGGTCTTACACTAGCTCTCGTAATGTGGCTGATGCCATGTCCCAAAC
* *** *
20332 ATGGTCTTACACTAGCTCTTTTCTCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCA
65 ATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCA
20397 CACATGTCAATGCC
130 CACA-GTCAATGCC
* *
20411 GATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCATAATGTGGCTGATGTCATGTCCCAAAC
1 GATGCCATGTCC-AAACATGGTCTTACACTAGCTCTCGTAATGTGGCTGATGCCATGTCCCAAAC
* * * *
20476 ATGGTCTTACACTAGCACACATGTCAATGTCGATGCCAGGTCCCAAACATGGTCTTCCACTAGCT
65 ATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCA
* *
20541 CTCA-CCACATCGCC
130 CACAGTCA-AT-GCC
* *
20555 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTTGT-ATCGTGGCTGACGCCATGTCCCAAA
1 GATGCCATG-TCCAAACATGGTCTTACACTAGCTCTCGTAAT-GTGGCTGATGCCATGTCCCAAA
*
20619 CATAGTCTTACACTAGCACACAT
64 CATGGTCTTACACTAGCACACAT
20642 ATCATCCAAA
Statistics
Matches: 326, Mismatches: 41, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
142 2 0.01
143 6 0.02
144 313 0.96
145 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (142 bp):
GATGCCATGTCCAAACATGGTCTTACACTAGCTCTCGTAATGTGGCTGATGCCATGTCCCAAACA
TGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC
ACAGTCAATGCC
Found at i:22189 original size:43 final size:43
Alignment explanation
Indices: 22105--22216 Score: 102
Period size: 43 Copynumber: 2.6 Consensus size: 43
22095 CTTTAGGTGT
* * **
22105 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATATGA
1 GATTACGTGAAAGACCATGTCTGGGACAGAGGCATCAATATGA
* * *
22148 GATTACGTGAAAGACCCTGTTTGGGACAGAGGCAT-AGATATGT
1 GATTACGTGAAAGACCATGTCTGGGACAGAGGCATCA-ATATGA
* * *
22191 G-TTAACATGTAAGACCATATCTGGGA
1 GATT-ACGTGAAAGACCATGTCTGGGA
22217 TATGGCATTG
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.05
43 52 0.95
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GATTACGTGAAAGACCATGTCTGGGACAGAGGCATCAATATGA
Found at i:25975 original size:48 final size:48
Alignment explanation
Indices: 25864--26147 Score: 198
Period size: 48 Copynumber: 5.9 Consensus size: 48
25854 TGGCATTTGG
* * * * * ** *
25864 TTGATATGTGTGCCAGTGTAAGACCATATTTGCAACATGGCATCGGCGA
1 TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-A
* * *
25913 -TGTTGTGAGAGCTAGTCTAAGACCATGTCTGGGACATGGCATCGACA
1 TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
* * * * *
25960 TTGATATGTGTGCTAGTGTAAAACCATGTCTGAGACATGGCA-CGGCCA
1 TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACA
** * * * * *
26008 -CAACATGAGAGCCATTGTAAGACCATGTCTAGGACATGGCATC-AGCC
1 TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CA
* * * * * * * *
26055 TTAACATGTGAGCTAGTGTAAGACCATATTTGGCATATGGCATCGGCA
1 TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
** * *
26103 TTGGGATGAGAGCTAGTGTAAGGCCATGTCTGGGATATGGCATCG
1 TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
26148 GCCTCGACAT
Statistics
Matches: 179, Mismatches: 50, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
47 34 0.19
48 145 0.81
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
TTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
Found at i:26118 original size:143 final size:144
Alignment explanation
Indices: 25921--26194 Score: 338
Period size: 143 Copynumber: 1.9 Consensus size: 144
25911 GATGTTGTGA
* * * * *
25921 GAGCTAGTCTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCTAGTGTAAAACCA
1 GAGCTAGTCTAAGACCATATCTGGCACATGGCATCGACATTGAGATGAGAGCTAGTGTAAAACCA
*
25986 TGTCTGAGACATGGCA-CGGCCACAACATGAGAG-CCATTGTAAGACCATGTCTAGG-ACATGGC
66 TGTCTGAGACATGGCATCGGCCACAACATGAGAGCCCA-TGTAAGACCAAGT-TAGGAACATGGC
26048 ATCAGCCTTAACATGT
129 ATCAGCCTTAACATGT
* * * * * **
26064 GAGCTAGTGTAAGACCATATTTGGCATATGGCATCGGCATTGGGATGAGAGCTAGTGTAAGGCCA
1 GAGCTAGTCTAAGACCATATCTGGCACATGGCATCGACATTGAGATGAGAGCTAGTGTAAAACCA
* * * * * *
26129 TGTCTGGGATATGGCATCGGCCTCGACATGTGAGCCCATGTAAGACCAAGTTTGGAACATGGCAT
66 TGTCTGAGACATGGCATCGGCCACAACATGAGAGCCCATGTAAGACCAAGTTAGGAACATGGCAT
26194 C
131 C
26195 GGCAATTCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
143 70 0.64
144 36 0.33
145 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (144 bp):
GAGCTAGTCTAAGACCATATCTGGCACATGGCATCGACATTGAGATGAGAGCTAGTGTAAAACCA
TGTCTGAGACATGGCATCGGCCACAACATGAGAGCCCATGTAAGACCAAGTTAGGAACATGGCAT
CAGCCTTAACATGT
Found at i:26145 original size:96 final size:94
Alignment explanation
Indices: 25864--26198 Score: 304
Period size: 96 Copynumber: 3.5 Consensus size: 94
25854 TGGCATTTGG
* * *
25864 TTGATATGTGTGCCAGTGTAAGACCATATTT-GCAACATGGCATCGGCGATGTTG-TGAGAGCTA
1 TTGACATGTGAGCCAGTGTAAGACCATATTTGGC-ACATGGCATCGGC-ATG-AGATGAGAGCTA
* *
25927 GTCTAAGACCATGTCTGGGACATGGCATCGACA
63 GTGTAAGACCATGTCTGGGACATGGCATCG-CC
* * * * * * ** * * *
25960 TTGATATGTGTGCTAGTGTAAAACCATGTCTGAG-ACATGGCA-CGGCCACAACATGAGAGCCAT
1 TTGACATGTGAGCCAGTGTAAGACCATATTTG-GCACATGGCATCGG-CATGAGATGAGAGCTAG
*
26023 TGTAAGACCATGTCTAGGACATGGCATCAGCC
64 TGTAAGACCATGTCTGGGACATGGCATC-GCC
* * * *
26055 TTAACATGTGAGCTAGTGTAAGACCATATTTGGCATATGGCATCGGCATTGGGATGAGAGCTAGT
1 TTGACATGTGAGCCAGTGTAAGACCATATTTGGCACATGGCATCGGCA-TGAGATGAGAGCTAGT
* *
26120 GTAAGGCCATGTCTGGGATATGGCATCGGCC
65 GTAAGACCATGTCTGGGACATGGCATC-GCC
* *
26151 TCGACATGTGAGCCCA-TGTAAGACCA-AGTTTGGAACATGGCATCGGCA
1 TTGACATGTGAG-CCAGTGTAAGACCATA-TTTGGCACATGGCATCGGCA
26199 ATTCACCCTC
Statistics
Matches: 194, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
94 1 0.01
95 75 0.39
96 115 0.59
97 2 0.01
98 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (94 bp):
TTGACATGTGAGCCAGTGTAAGACCATATTTGGCACATGGCATCGGCATGAGATGAGAGCTAGTG
TAAGACCATGTCTGGGACATGGCATCGCC
Found at i:26148 original size:48 final size:48
Alignment explanation
Indices: 25918--26198 Score: 235
Period size: 48 Copynumber: 5.9 Consensus size: 48
25908 GGCGATGTTG
* * * *
25918 TGAGAGCTAGTCTAAGACCATGTCTGGGACATGGCATCGACATTGATA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAACA
* * * * *
25966 TGTGTGCTAGTGTAAAACCATGTCTGAGACATGGCA-CGGCCA-CAACA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTAACA
* * * * *
26013 TGAGAGCCATTGTAAGACCATGTCTAGGACATGGCATCAGCCTTAACA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAACA
* * * * * ***
26061 TGTGAGCTAGTGTAAGACCATATTTGGCATATGGCATCGGCATTGGGA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAACA
* * * **
26109 TGAGAGCTAGTGTAAGGCCATGTCTGGGATATGGCATCGGCCTCGACA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAACA
* * * * *
26157 TGTGAGCCCA-TGTAAGACCAAGTTTGGAACATGGCATCGGCA
1 TGAGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
26199 ATTCACCCTC
Statistics
Matches: 180, Mismatches: 49, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
47 34 0.19
48 144 0.80
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAACA
Found at i:29270 original size:39 final size:40
Alignment explanation
Indices: 29113--29337 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
29103 GCTCCTCGTT
* *
29113 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
29153 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
29193 CTAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
29233 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * *
29272 CGAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
29313 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29338 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 114 0.72
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36884 original size:48 final size:48
Alignment explanation
Indices: 36800--37176 Score: 208
Period size: 48 Copynumber: 7.9 Consensus size: 48
36790 ACATTTGGGT
* * * * * **
36800 GATATGTGTGCCAGTGTAAGACAATGTCTAGGACATGGCGCCAGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCAC
* * * *
36848 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCTGCGAT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCAC
* * * ** * *
36896 GTTTTGAAAGCCAGTGTAAGACCAT-TTCTGGGACATGGTGTC-GGCATT
1 GATATGAGAGCCAGTGTAAGACCATGTT-TGGGACATGGCATCAGCCA-C
* * * * * * *
36944 GATATGTGTGCTAGTGTAAGACTATGTCTGGGGCATGGCATTAGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCAC
* * * *
36992 -ACATGAGAGCCAGTGTAAGACGATGTATGGGACATGGCATCAACTCA-
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGC-CAC
* * ** **** ** *
37039 GACATGTGAGTGAGTGTAAGACCATGTCCAAGACATGGCATC-GATATT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCA-C
* * * * * **
37087 GAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATC-GACCTT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAG-CCAC
* * * *
37135 GACATGTGAGCCAGTGTAAGACCATGATTGGAACATGGCATC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
37177 GACAATTCAC
Statistics
Matches: 247, Mismatches: 73, Indels: 18
0.73 0.22 0.05
Matches are distributed among these distances:
46 1 0.00
47 39 0.16
48 203 0.82
49 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCAC
Found at i:37061 original size:143 final size:144
Alignment explanation
Indices: 36799--37176 Score: 332
Period size: 143 Copynumber: 2.6 Consensus size: 144
36789 GACATTTGGG
* *
36799 TGATATGTGTGCCAGTGTAAGACAATGTCTAGGACATGGCGCCAGCCACGATATGAGAGCCAGTG
1 TGATATGTGTGCCAGTGTAAGACAATGTCTAGGACATGGCACCAGCCACGACATGAGAGCCAGTG
* ** * ***
36864 TAAGACCATGTTTGGAACATGGCATCTGCGATGTTTTGAAAGCCAGTGTAAGACCATTTCTGGGA
66 TAAGACCATGTATGGAACATGGCATCAACCATGACATGAAAGCCAGTGTAAGACCATTTCTGGGA
36929 CATGGTGTCGGCAT
131 CATGGTGTCGGCAT
* * * * **
36943 TGATATGTGTGCTAGTGTAAGACTATGTCTGGGGCATGGCATTAGCCAC-ACATGAGAGCCAGTG
1 TGATATGTGTGCCAGTGTAAGACAATGTCTAGGACATGGCACCAGCCACGACATGAGAGCCAGTG
* * ** ** * ***
37007 TAAGACGATGTATGGGACATGGCATCAACTCA-GACATGTGAGTGAGTGTAAGACCATGTCCAAG
66 TAAGACCATGTATGGAACATGGCATCAAC-CATGACATGAAAGCCAGTGTAAGACCATTTCTGGG
** **
37071 ACATGGCATCGATAT
130 ACATGGTGTCGGCAT
* * * * * * * * * ** *
37086 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATC-GACCTTGACATGTGAGCCAGT
1 TGATATGTGTGCCAGTGTAAGACAATGTCTAGGACATGGCACCAG-CCACGACATGAGAGCCAGT
37150 GTAAGACCATG-ATTGGAACATGGCATC
65 GTAAGACCATGTA-TGGAACATGGCATC
37177 GACAATTCAC
Statistics
Matches: 188, Mismatches: 42, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
142 1 0.01
143 108 0.57
144 79 0.42
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (144 bp):
TGATATGTGTGCCAGTGTAAGACAATGTCTAGGACATGGCACCAGCCACGACATGAGAGCCAGTG
TAAGACCATGTATGGAACATGGCATCAACCATGACATGAAAGCCAGTGTAAGACCATTTCTGGGA
CATGGTGTCGGCAT
Found at i:39638 original size:13 final size:13
Alignment explanation
Indices: 39620--39644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39610 CTCGGCAGGA
39620 ACACACCCGTGTG
1 ACACACCCGTGTG
39633 ACACACCCGTGT
1 ACACACCCGTGT
39645 TACATGCCCG
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:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (13 bp):
ACACACCCGTGTG
Found at i:44309 original size:48 final size:48
Alignment explanation
Indices: 44255--44524 Score: 257
Period size: 48 Copynumber: 5.6 Consensus size: 48
44245 GTGAATTGTC
* * * * * *
44255 GATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATGTCGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCT
* * *
44303 GATGCCATGTCCCAAACATGGTCTTCCACTAGC-T-CTTGTTTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATG--TCAATGCT
* ***
44351 GATGCCATGTCCCAGACATGGTCTTAGACTAGGACACATGTCAATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCT
*
44398 CGATACCATGTCCCAGACATGGTCTTACACTAGCTCT-CA--T-AATGTGGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATGTCAA--T-GCT
** *
44447 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCT
* *
44495 GATTCCATGTCCCATACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
44525 GGCTCTCACC
Statistics
Matches: 184, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.01
46 4 0.02
47 3 0.02
48 167 0.91
49 2 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATGTCAATGCT
Found at i:44514 original size:144 final size:143
Alignment explanation
Indices: 44249--44628 Score: 401
Period size: 144 Copynumber: 2.6 Consensus size: 143
44239 CAAGCGGTGA
* * *
44249 ATTGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCT-TACAT-GTCGAGGTTGATGCCATG
1 ATTGTCGATGCCATGTTCC-AACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATGCCATG
* * *** * *
44312 TCCCAAACATGGTCTTCCACTAGCTCTTGTTTCAATGCTGATGCCATGTCCCAGACATGGTCTTA
63 TCCCAAACATGGTCTTACACTAGCACACATGTCAATGCCGATGCCATGTCCCAGACATGGTCTTA
* **
44377 GACTAGGACACAT-GTCA-
128 CACT-GG-CAC-TCACCAT
* * *
44394 A-TGTCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCTGATGCCATGTC
1 ATTGTCGATGCCATGTTCCA-ACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTC
* * *
44458 CCAGACATGGTCTTACACTAGCACACATGTCAATGCCGATTCCATGTCCCATACATGGTCTTACA
65 CCAAACATGGTCTTACACTAGCACACATGTCAATGCCGATGCCATGTCCCAGACATGGTCTTACA
*
44523 CTGGCTCTCACCAT
130 CTGGCACTCACCAT
* * * * * * **
44537 ATTTTCGATGCCATGTTTCAACATGATCTTACACTGGCTCTCATATTATGGCCGACACCATGTCC
1 ATTGTCGATGCCATGTTCCAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCC
*
44602 CAAACATGGTCTTACGCTAGCACACAT
66 CAAACATGGTCTTACACTAGCACACAT
44629 ATCACCCAAA
Statistics
Matches: 196, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
141 1 0.01
142 4 0.02
143 67 0.34
144 121 0.62
145 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (143 bp):
ATTGTCGATGCCATGTTCCAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCC
CAAACATGGTCTTACACTAGCACACATGTCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
TGGCACTCACCAT
Found at i:44531 original size:96 final size:94
Alignment explanation
Indices: 44255--44622 Score: 346
Period size: 96 Copynumber: 3.9 Consensus size: 94
44245 GTGAATTGTC
* * * ** * * * *
44255 GATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATGTCGAGGTTGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGTCGATACCATGTCCCAAAC
* **
44320 ATGGTCTTCCACTAGCTCTTGTTTCAATGCT
66 ATGGTCTTACACTAGCTC-T-CATCAATGCT
* * *
44351 GATGCCATGTCCCAGACATGGTCTTAGACTAGGACACATGTCAATGTCGATACCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGTCGATACCATGTCCCAAAC
44416 ATGGTCTTACACTAGCTCTCAT-AATGTGGCT
66 ATGGTCTTACACTAGCTCTCATCAA--T-GCT
* * *
44447 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGCCGATTCCATGTCCCATAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGTCGATACCATGTCCCAAAC
* * **
44512 ATGGTCTTACACTGGCTCTCACCATATTTT
66 ATGGTCTTACACTAGCTCTCATCA-ATGCT
** * * * * * * * *
44542 CGATGCCATGTTTCA-ACATGATCTTACACTGGCTCTCATAT-TATGGCCGACACCATGTCCCAA
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAAT-GTCGATACCATGTCCCAA
*
44605 ACATGGTCTTACGCTAGC
64 ACATGGTCTTACACTAGC
44623 ACACATATCA
Statistics
Matches: 228, Mismatches: 37, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
93 2 0.01
94 3 0.01
95 55 0.24
96 166 0.73
97 1 0.00
98 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCAATGTCGATACCATGTCCCAAAC
ATGGTCTTACACTAGCTCTCATCAATGCT
Found at i:44551 original size:48 final size:46
Alignment explanation
Indices: 44248--44622 Score: 208
Period size: 48 Copynumber: 7.9 Consensus size: 46
44238 ACAAGCGGTG
* * *
44248 AATTGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCT-T-AC
1 AATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAC
* * * **
44292 -ATGTCGAGGTTGATGCCATGTCCCAAACATGGTCTTCCACTAGCTCTTGTTTC
1 AAT-T----GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC---TCAC
* * **
44345 AA-TG-CTGATGCCATGTCCCAGACATGGTCTTAGACTAGGACACATGTC
1 AATTGTC-GATGCCATGTCCCAGACATGGTCTTACACTA-G-CTC-TCAC
* *
44393 AA-TGTCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
1 AATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAC
* * *
44438 AATGTGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTC
1 AAT-TGTC-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA---C
* * * *
44489 AA-TGCCGATTCCATGTCCCATACATGGTCTTACACTGGCTCTCACC
1 AATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-C
* ** * * *
44535 ATATTTTCGATGCCATGTTTCA-ACATGATCTTACACTGGCTCTCAT
1 A-ATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAC
* * ** * *
44581 ATTATGGCCGACACCATGTCCCAAACATGGTCTTACGCTAGC
1 A--ATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
44623 ACACATATCA
Statistics
Matches: 259, Mismatches: 47, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 3 0.01
46 5 0.02
47 41 0.16
48 194 0.75
49 5 0.02
50 2 0.01
51 2 0.01
52 2 0.01
53 1 0.00
54 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
AATTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAC
Found at i:44630 original size:48 final size:47
Alignment explanation
Indices: 44346--44630 Score: 216
Period size: 48 Copynumber: 6.0 Consensus size: 47
44336 TCTTGTTTCA
* * * * * *
44346 ATGCTGATGCCATGTCCCAGACATGGTCTTAGACTAGGACACATGTCA
1 ATGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACACATAT-T
* * * *
44394 ATGTCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT
1 ATGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACACATATT
* * * * *
44441 GTGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATGTCA
1 AT-GCCGATACCATGTCCCAGACATGGTCTTACACTAGCACACATAT-T
* * * *
44490 ATGCCGATTCCATGTCCCATACATGGTCTTACACTGGCTCTCACCATATT
1 ATGCCGATACCATGTCCCAGACATGGTCTTACACTAG--CACA-CATATT
* * ** * * * *
44540 -T-TCGATGCCATGTTTCA-ACATGATCTTACACTGGCTCTCATATT
1 ATGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACACATATT
* * *
44584 ATGGCCGACACCATGTCCCAAACATGGTCTTACGCTAGCACACATAT
1 AT-GCCGATACCATGTCCCAGACATGGTCTTACACTAGCACACATAT
44631 CACCCAAATG
Statistics
Matches: 185, Mismatches: 43, Indels: 18
0.75 0.17 0.07
Matches are distributed among these distances:
44 6 0.03
45 4 0.02
47 28 0.15
48 138 0.75
49 2 0.01
50 3 0.02
51 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACACATATT
Found at i:49673 original size:48 final size:48
Alignment explanation
Indices: 49573--50085 Score: 425
Period size: 48 Copynumber: 10.7 Consensus size: 48
49563 GTGATTTGCT
* * * * * * **
49573 GATGCCATGTTCCAAACATGGTCTTACACCAGCT-TACATGTCGAGGGA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CGTCTCAATGTC
*
49621 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
* * * * * **
49669 GATGCCATGTCCCAAACACGGTCTTACACTAGCACACATGTCAATACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
* * *
49717 GATGCCATGTCACAGACATGGTCTTACACTGGCTCTCG--T-AATGTCACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGT---C
* * *
49765 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTTGTCTCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
* * * * *
49813 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATGTCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
* * * *
49861 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC--AT-AATGTGGC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGT--C
** * * * * *
49908 TGATTTCATGTCCCAAACATGGTCTTACAATAGCACACATGTCAATGTC
1 -GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
* * *
49957 GATGCCAGGTCCCAAACATGGTCTTCCACTAGCTCTC-AC-CACATCGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCA-AT-GTC
* * * * *
50005 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTTGTATC-GTGGC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
* * *
50052 TGACGCCATATCCCAAACATAGTCTTACACTAGC
1 -GATGCCATGTCCCAAACATGGTCTTACACTAGC
50086 ACACATATCA
Statistics
Matches: 372, Mismatches: 75, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
45 7 0.02
46 4 0.01
47 5 0.01
48 342 0.92
49 2 0.01
50 3 0.01
51 9 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTC
Found at i:49836 original size:144 final size:144
Alignment explanation
Indices: 49621--49989 Score: 544
Period size: 144 Copynumber: 2.6 Consensus size: 144
49611 TGTCGAGGGA
* *
49621 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAAC
1 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAAC
*
49686 ACGGTCTTACACTAGCACACATGTCAATACCGATGCCATGTCAC-AGACATGGTCTTACACTGGC
66 ATGGTCTTACACTAGCACACATGTCAATACCGATGCCATGTC-CTAGACATGGTCTTACACTGGC
*
49750 TCTCGTAATGTCACC
130 TCTCATAATGTCACC
* *
49765 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTTGTCTCAATGCCGATGCCATGTCCCAAAC
1 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAAC
*
49830 ATGGTCTTACACTAGCACACATGTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
66 ATGGTCTTACACTAGCACACATGTCAATACCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
** *
49895 CTCATAATGTGGCT
131 CTCATAATGTCACC
* * * * * * *
49909 GAT-TTCATGTCCCAAACATGGTCTTACAATAGCACACATGTCAATGTCGATGCCAGGTCCCAAA
1 GATGCT-ATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAA
*
49973 CATGGTCTTCCACTAGC
65 CATGGTCTTACACTAGC
49990 TCTCACCACA
Statistics
Matches: 203, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
143 2 0.01
144 201 0.99
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (144 bp):
GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCACACATGTCAATACCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
CTCATAATGTCACC
Found at i:50008 original size:144 final size:141
Alignment explanation
Indices: 49625--50091 Score: 528
Period size: 144 Copynumber: 3.2 Consensus size: 141
49615 GAGGGAGATG
* * * * *
49625 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAACACGG
1 CCATGTCCCAAACATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGG
49690 TCTTACACTAGCACACATGTCAATAC-CGATGCCATGTCACAGACATGGTCTTACACTGGCTCTC
66 TCTTACACTAGCACACA-GTCAAT-CGCGATGCCATGTC-CAGACATGGTCTTACACTGGCTCTC
** *
49754 GTAATGTCACCGAT
128 GTAATGTGGCTGAT
* * *** *
49768 GCTATGTCCCAAACATGGTCTTACACTAGCTCTTGTCTCAATGCCGATGCCATGTCCCAAACATG
1 -CCATGTCCCAAACATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATG
49833 GTCTTACACTAGCACACATGTCAAT-GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT
65 GTCTTACACTAGCACACA-GTCAATCG-CGATGCCATGTCC-AGACATGGTCTTACACTGGCTCT
*
49897 CATAATGTGGCTGATT
127 CGTAATGTGGCTGA-T
* * * *
49913 TCATGTCCCAAACATGGTCTTACAATAGCACACATGTCAATGTCGATGCCAGGTCCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGG
* * * * * * *
49978 TCTTCCACTAGCTCTCA-CCACATCGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTT
66 TCTTACACTAGCACACAGTCA-ATCG-CGATGCCATG-TCCAGACATGGTCTTACACTGGCTCTC
*
50042 GT-ATCGTGGCTGACG
128 GTAAT-GTGGCTGA-T
* *
50057 CCATATCCCAAACATAGTCTTACACTAGCACACAT
1 CCATGTCCCAAACATGGTCTTACACTAGCACACAT
50092 ATCATCAAAA
Statistics
Matches: 281, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
142 2 0.01
143 5 0.02
144 270 0.96
145 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (141 bp):
CCATGTCCCAAACATGGTCTTACACTAGCACACATCTCAATGTCGATGCCATGTCCCAAACATGG
TCTTACACTAGCACACAGTCAATCGCGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCGTA
ATGTGGCTGAT
Found at i:51047 original size:18 final size:16
Alignment explanation
Indices: 51015--51048 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
51005 CCAAAATTTC
51015 CATGCACAAATATAAA
1 CATGCACAAATATAAA
51031 CATGCTACAACATATAAA
1 CATGC-ACAA-ATATAAA
51049 ATAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.21
Consensus pattern (16 bp):
CATGCACAAATATAAA
Found at i:55021 original size:42 final size:42
Alignment explanation
Indices: 54958--55081 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
54948 GTGTTACAAT
* *
54958 TATGAGATTTTGTGTATGACCATATCTGGGATATGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* * * *
55000 TATGACATTTCGTGTAAGACCATAGT-TGTGCTATTGGCGTCGA
1 TATGAGATTTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGA
* * *
55043 CATGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
55082 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:63043 original size:21 final size:20
Alignment explanation
Indices: 63017--63056 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
63007 TGAAATGTGT
63017 GAATAT-ATATAAGCTATGGCC
1 GAATATGAT-TAAGCT-TGGCC
63038 GAATATGATTAAGCTTGGC
1 GAATATGATTAAGCTTGGC
63057 TATTATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GAATATGATTAAGCTTGGCC
Found at i:70898 original size:47 final size:47
Alignment explanation
Indices: 70820--71319 Score: 738
Period size: 47 Copynumber: 10.6 Consensus size: 47
70810 CCCTTCGGGA
* * * * * *
70820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70866 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
70914 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70961 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71057 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71104 CTTATCACATATATATACACTTT-ACATTCATCACAT-GGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
71151 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71198 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71247 CTTATCACATATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71294 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
71320 CACAATTATC
Statistics
Matches: 417, Mismatches: 25, Indels: 23
0.90 0.05 0.05
Matches are distributed among these distances:
45 13 0.03
46 16 0.04
47 269 0.65
48 15 0.04
49 104 0.25
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71076 original size:143 final size:140
Alignment explanation
Indices: 70820--71319 Score: 729
Period size: 143 Copynumber: 3.5 Consensus size: 140
70810 CCCTTCGGGA
* * * * * * *
70820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATAACATATATACACTTTCACATTCATCAC-ATGGCCATTAGGCCT-TATCACATATATACA
*
70884 CTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACAT
64 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
70949 CGGCTATTAGGC
129 TGGCTATTCGGC
70961 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATAACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCAC--ATATATAC
71026 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
71091 TTGGCCATTCGGC
128 TTGGCTATTCGGC
*
71104 CTTATCACATATATATACACTTT-ACATTCATCACATGGCCATTCA-GCCTTATCACATATATAC
1 CTTAT-A-ACATATATACACTTTCACATTCATCACATGGCCATT-AGGCCTTATCACATATATAC
71167 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
71232 CATTGG-TCATTCGGC
126 CATTGGCT-ATTCGGC
* *
71247 CTTATCACATATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATAC
1 CTTATAACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCACATATATACAC
*
71312 ATTCACAT
65 TTTCACAT
71320 CACAATTATC
Statistics
Matches: 329, Mismatches: 17, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
140 1 0.00
141 104 0.32
142 16 0.05
143 179 0.54
144 15 0.05
145 14 0.04
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (140 bp):
CTTATAACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTG
GCTATTCGGC
Found at i:71155 original size:190 final size:192
Alignment explanation
Indices: 70820--71319 Score: 795
Period size: 190 Copynumber: 2.6 Consensus size: 192
70810 CCCTTCGGGA
* * * *
70820 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT-TATCACATATATA
*
70882 CACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
*
70945 ACATCGGCTATTAGGCCTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 ACATCGGCCATTAGGCCTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71008 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
71073 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTT-ACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
71137 CAT-GGCCATTCA-GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATT-AGGCCTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71198 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
71263 ACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
71320 CACAATTATC
Statistics
Matches: 289, Mismatches: 16, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
188 12 0.04
189 5 0.02
190 243 0.84
191 16 0.06
192 13 0.04
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77183 original size:40 final size:40
Alignment explanation
Indices: 77139--77254 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
77129 GGACTAAGAT
77139 CCGAAGGCAATT-GTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
77179 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTAAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
77219 CCGAAGGCATTCGTGCGGGTTATTATAACTGGGTTA
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
77255 TGTAACGTCC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 3 0.04
40 69 0.96
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:86533 original size:40 final size:40
Alignment explanation
Indices: 86489--86603 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
86479 GGACTAAGAT
86489 CCGAAGGCAATT-GTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
86529 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTAAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
86569 CCGAAGGCATTCGTGC-GGTTATTATAACCGGGTTA
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTA
86604 TGTAACGTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
39 21 0.29
40 51 0.71
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Done.