Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 169 of 204
Found at i:50540934 original size:124 final size:124
Alignment explanation
Indices: 50540713--50541077 Score: 536
Period size: 124 Copynumber: 2.9 Consensus size: 124
50540703 CCGAAACATG
* * *
50540713 CTACTGTAGCAAAAGCGTGTCCACGAGGGTGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTT-ACAAATTATTCTCAAATAGCATTCTG
* *
50540778 CTAGAAGCGATTTTATACTATTTGCTCAAAAACGT-AAAAAAAATTTATTTTATCCATGAT
65 CTAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAA-TTATTTCATCCATGAC
* *
50540838 CTACTGTAGTAAAAGCGCGTCCACGAGGGTGTGATTTTACAAATTATTCTCAAATAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTATTCTCAAATAGCATTCTGC
50540903 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCATCCATGAC
* * *
50540962 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCAATTTCACAAATTATTCTCTAATAGCA-TCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTATTCTCAAATAGCATTC-TG
* * * * **
50541026 CTAGAAGTGATTTTATACTATTTGATTAGAAACGTCAACTCAAAATTATTTC
65 CTAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAA-AAAAAATTATTTC
50541078 TTCCCGGATC
Statistics
Matches: 219, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
123 2 0.01
124 163 0.74
125 54 0.25
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTATTCTCAAATAGCATTCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCATCCATGAC
Found at i:50546846 original size:3 final size:3
Alignment explanation
Indices: 50546838--50546866 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50546828 GAAAACCAGT
50546838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50546867 TACATTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50554083 original size:50 final size:50
Alignment explanation
Indices: 50554020--50554300 Score: 328
Period size: 50 Copynumber: 5.6 Consensus size: 50
50554010 GTGAGCCAGT
*
50554020 GTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * * * * *
50554070 GTAAGTCTATGTCTGGGACATAGCGTTGGCACTGAAATGAGAGGTTCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * *
50554120 GTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGGTGAAAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * *
50554170 GTAAGACCATGTCTGGGATATGGCGTTCGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * * *** *
50554220 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACCCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* * *
50554270 GTAAGACCATATCTGGGACATAGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCGTTGGCA
50554301 TGTTATATTC
Statistics
Matches: 191, Mismatches: 40, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 191 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
Found at i:50554290 original size:150 final size:150
Alignment explanation
Indices: 50554019--50554300 Score: 384
Period size: 150 Copynumber: 1.9 Consensus size: 150
50554009 TGTGAGCCAG
* * *
50554019 TGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGTCTATGTCT
1 TGTAAGACCATGTCTGGAACATGGCGTTCGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCT
* * * **** * *
50554084 GGGACATAGCGTTGGCACTGAAATGAGAGGTTCCATGTAAGACCATGTCTAGGACATGGCGTTGG
66 GGGACATAGCATGGGCACCGAAATGAGAACCCCCATGTAAGACCATATCTAGGACATAGCGTTGG
50554149 CACCGAGGTGAAAGGTCCCA
131 CACCGAGGTGAAAGGTCCCA
* * * *
50554169 TGTAAGACCATGTCTGGGATATGGCGTTCGCATCGAGATGAGAGGTCCCCCGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGAACATGGCGTTCGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCT
* * * *
50554234 GGGACATGGCATGGGCACCGATATGAGAACCCCCATGTAAGACCATATCTGGGACATAGCTTTGG
66 GGGACATAGCATGGGCACCGAAATGAGAACCCCCATGTAAGACCATATCTAGGACATAGCGTTGG
50554299 CA
131 CA
50554301 TGTTATATTC
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
150 112 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (150 bp):
TGTAAGACCATGTCTGGAACATGGCGTTCGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCT
GGGACATAGCATGGGCACCGAAATGAGAACCCCCATGTAAGACCATATCTAGGACATAGCGTTGG
CACCGAGGTGAAAGGTCCCA
Found at i:50561250 original size:3 final size:3
Alignment explanation
Indices: 50561235--50561315 Score: 99
Period size: 3 Copynumber: 27.0 Consensus size: 3
50561225 TTTAAGATTT
* * **
50561235 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
50561283 TTA CCA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50561316 AATTGTTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:50561276 original size:24 final size:24
Alignment explanation
Indices: 50561244--50561306 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
50561234 TTTATTATTG
50561244 TTATTATTATTATTAATACCATTA
1 TTATTATTATTATTAATACCATTA
*
50561268 TTATTATTATTATTATTACCATTA
1 TTATTATTATTATTAATACCATTA
50561292 TTATTATTATTATTA
1 TTATTATTATTATTA
50561307 CTATTATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTATTATTATTAATACCATTA
Found at i:50562118 original size:14 final size:14
Alignment explanation
Indices: 50562099--50562127 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50562089 GAACAAGTAA
50562099 ATCTATCCCAGGTG
1 ATCTATCCCAGGTG
50562113 ATCTATCCCAGGTG
1 ATCTATCCCAGGTG
50562127 A
1 A
50562128 GTCTGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (14 bp):
ATCTATCCCAGGTG
Found at i:50564567 original size:12 final size:11
Alignment explanation
Indices: 50564552--50564581 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
50564542 TAAAAAATAA
50564552 AAAAAGTATTTT
1 AAAAA-TATTTT
50564564 AAAAATATTTT
1 AAAAATATTTT
50564575 AAAAATA
1 AAAAATA
50564582 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:50571109 original size:22 final size:22
Alignment explanation
Indices: 50571084--50571127 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
50571074 TTTAACAATA
*
50571084 AATTCTTATAAT-TTTATTATTT
1 AATTCTTAAAATATTT-TTATTT
*
50571106 AATTTTTAAAATATTTTTATTT
1 AATTCTTAAAATATTTTTATTT
50571128 TAATCATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
AATTCTTAAAATATTTTTATTT
Found at i:50579650 original size:19 final size:20
Alignment explanation
Indices: 50579626--50579663 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50579616 TAGCATATCA
50579626 TAATAAAACA-AAATTTTAG
1 TAATAAAACATAAATTTTAG
*
50579645 TAATAATACATAAATTTTA
1 TAATAAAACATAAATTTTA
50579664 AAACAAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TAATAAAACATAAATTTTAG
Found at i:50579909 original size:26 final size:26
Alignment explanation
Indices: 50579873--50579931 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
50579863 GTCCTCAAGG
50579873 GCGCGCTTTGTCGACGTGGACATAAA
1 GCGCGCTTTGTCGACGTGGACATAAA
50579899 GCGCGCTTTGTCGACGTGGACATAAA
1 GCGCGCTTTGTCGACGTGGACATAAA
50579925 GCGCGCT
1 GCGCGCT
50579932 GACGTGGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.22
Consensus pattern (26 bp):
GCGCGCTTTGTCGACGTGGACATAAA
Found at i:50579935 original size:21 final size:23
Alignment explanation
Indices: 50579883--50579940 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 23
50579873 GCGCGCTTTG
50579883 TCGACGTGGACATAAAGCGCGCTTT
1 TCGACGTGGACATAAAGCGCGC--T
50579908 GTCGACGTGGACATAAAGCGCGC-
1 -TCGACGTGGACATAAAGCGCGCT
50579931 T-GACGTGGAC
1 TCGACGTGGAC
50579941 GCGTTTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.28
22 1 0.03
26 22 0.69
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (23 bp):
TCGACGTGGACATAAAGCGCGCT
Found at i:50580960 original size:6 final size:6
Alignment explanation
Indices: 50580940--50580977 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
50580930 ACTTAAAAAC
*
50580940 ACCCTAA ACCCTA ACCTTA ACCCTA ACCCTA ACCCTA A
1 ACCCT-A ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA A
50580978 TCTATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (6 bp):
ACCCTA
Found at i:50581578 original size:7 final size:7
Alignment explanation
Indices: 50581568--50581637 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
50581558 TTTAATTTTT
50581568 AACCCTA
1 AACCCTA
50581575 AACCCTA
1 AACCCTA
50581582 AACCCTAA
1 AACCCT-A
*
50581590 AACCTTA
1 AACCCTA
**
50581597 AACTATAA
1 AACCCT-A
*
50581605 AACCATA
1 AACCCTA
*
50581612 AACCATA
1 AACCCTA
*
50581619 AACCTTAA
1 AACCCT-A
50581627 AACCCATA
1 AACCC-TA
50581635 AAC
1 AAC
50581638 GGGCAAAACG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
7 31 0.58
8 21 0.40
9 1 0.02
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:50581598 original size:15 final size:14
Alignment explanation
Indices: 50581568--50581637 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
50581558 TTTAATTTTT
* *
50581568 AACCCTAAACCCTA
1 AACCATAAACCTTA
*
50581582 AACCCTAAAACCTTA
1 AACCAT-AAACCTTA
* *
50581597 AACTATAAAACCATA
1 AACCAT-AAACCTTA
50581612 AACCATAAACCTTAA
1 AACCATAAACCTT-A
50581627 AACCCATAAAC
1 AA-CCATAAAC
50581638 GGGCAAAACG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.26
15 27 0.57
16 8 0.17
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCATAAACCTTA
Found at i:50581963 original size:12 final size:12
Alignment explanation
Indices: 50581946--50581975 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50581936 CAATATAAAG
*
50581946 ATAATAGGAATA
1 ATAATAGCAATA
50581958 ATAATAGCAATA
1 ATAATAGCAATA
50581970 ATAATA
1 ATAATA
50581976 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (12 bp):
ATAATAGCAATA
Found at i:50581984 original size:12 final size:12
Alignment explanation
Indices: 50581969--50582036 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
50581959 TAATAGCAAT
50581969 AATAATATTAAA
1 AATAATATTAAA
50581981 AATATATATATATTAA
1 AATA-ATAT-TA--AA
*
50581997 AATAATAATAAA
1 AATAATATTAAA
* *
50582009 GATAACTA-AAAA
1 AATAA-TATTAAA
50582021 AATAAT-TTAAA
1 AATAATATTAAA
50582032 AATAA
1 AATAA
50582037 AATAATAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
11 9 0.20
12 17 0.38
13 6 0.13
14 4 0.09
15 3 0.07
16 6 0.13
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (12 bp):
AATAATATTAAA
Found at i:50583569 original size:143 final size:143
Alignment explanation
Indices: 50583370--50583967 Score: 910
Period size: 143 Copynumber: 4.2 Consensus size: 143
50583360 TTTTAATCCA
* * * *
50583370 CTCCACTACAACTTCAGGGAGAT-AGGATTGGTGGCTTCAATCTGCTTCACTACAACTTTAGGAA
1 CTCCACTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAA
* *
50583434 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTG
65 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCG
50583499 CTGTCTTCAGTCTG
130 CTGTCTTCAGTCTG
* ** * *
50583513 CTCCACTACAACTTCAAAGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
** * *
50583578 ATAAGATTTGTCATAACTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGC
66 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGC
50583643 TGTCTTCAGTCTG
131 TGTCTTCAGTCTG
*
50583656 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
* * ** * *
50583721 ATAAGATCTGCCATAATTTGTAGCTTTAATTTGTTCCACTGCAATGCCAGAGAAATAAGATTCAC
66 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGC
*
50583786 TGTCTTTAGTCTG
131 TGTCTTCAGTCTG
* *
50583799 CTCCACTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAA
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
* * * *
50583864 ATAAGATTCGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAAAACTAGGGAAATAAGATTCGC
66 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGC
50583929 TGTCTTCAGTCTG
131 TGTCTTCAGTCTG
*
50583942 CTCCGCTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
50583968 ACTTGTATCT
Statistics
Matches: 412, Mismatches: 42, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
143 409 0.99
144 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (143 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGC
TGTCTTCAGTCTG
Found at i:50583709 original size:44 final size:44
Alignment explanation
Indices: 50583600--50583860 Score: 164
Period size: 44 Copynumber: 5.7 Consensus size: 44
50583590 ATAACTTGTA
* * ** * * *
50583600 GCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGCTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-GGTG
* * *
50583645 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
* * *
50583689 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G------TTGGTG
* * * * * * * **
50583743 GCTTTAATTTGTTCCACTGCAA-TGCCAGAGAAATAAGATTCACTG
1 GCTTCAATCTGCTCCACTGCAACT-TCAGGGAGATAAGGTT-GGTG
* * *
50583788 TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
*
50583832 GCTTCAATCTGCTCCACTACAACTTCAGG
1 GCTTCAATCTGCTCCACTGCAACTTCAGG
50583861 AAAATAAGAT
Statistics
Matches: 162, Mismatches: 41, Indels: 27
0.70 0.18 0.12
Matches are distributed among these distances:
44 66 0.41
45 62 0.38
46 1 0.01
48 1 0.01
53 1 0.01
54 31 0.19
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTG
Found at i:50585941 original size:45 final size:45
Alignment explanation
Indices: 50585864--50585949 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
50585854 AGATACTCAA
* * * *
50585864 TGGATTCAGCACATAGTAACCATCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
50585909 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
50585950 TCGGTTCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
Found at i:50586025 original size:51 final size:50
Alignment explanation
Indices: 50585960--50586137 Score: 173
Period size: 51 Copynumber: 3.5 Consensus size: 50
50585950 TCGGTTCACA
* * *
50585960 TAGTAGCTTGCACATAGTACTACACATATGGCCATTACCATCCAATACACG
1 TAGTAGCCTGCACATAGTACTACACA-ATGGCGATTACCATCCGATACACG
* * * * * * * *
50586011 TAGTAGCCTACACATAGTACTACACACGTGATCGA-AACTATCTGATACGCA
1 TAGTAGCCTGCACATAGTACTACACA-ATG-GCGATTACCATCCGATACACG
* *
50586062 TAGTAGCCTGCACATAGTACTACAC-AT-GCGATCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACAATGGCGAT-TACCA-TCCGATACACG
50586112 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
50586138 CGTGACCATC
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
47 3 0.03
49 3 0.03
50 32 0.32
51 60 0.60
52 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACAATGGCGATTACCATCCGATACACG
Found at i:50586134 original size:101 final size:101
Alignment explanation
Indices: 50585958--50586142 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
50585948 GTTCGGTTCA
*
50585958 CATAGTAGCTTGCACATAGTACTACACATATGGCCATTACCATCCAATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACA-ATGGCCATTACCATCCAATACACGTAGTAGCCTACA
50586023 CATAGTACTACACACGTGATCGAAACTATCTGATACG
65 CATAGTACTACACACGTGATCGAAACTATCTGATACG
* * ** *
50586060 CATAGTAGCCTGCACATAGTACTACAC-AT-GCGATCTATCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACAATGGCCAT-TACCA-TCCAATACACGTAGTAGCCTAC
50586123 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
50586143 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
99 4 0.05
100 6 0.08
101 39 0.52
102 26 0.35
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACAATGGCCATTACCATCCAATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTATCTGATACG
Found at i:50587299 original size:45 final size:44
Alignment explanation
Indices: 50587229--50587402 Score: 204
Period size: 45 Copynumber: 3.9 Consensus size: 44
50587219 GCGGCTTTAG
* * *
50587229 TCCGCTTCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTGAA
1 TCCGCTCCATTGCAACTTCA-GGAGATAAGATTTGCTATCTTCAA
* *
50587274 TCCACTCCATTGCAACTTCAAGGAGATAGGATTTGCTATCTTCAA
1 TCCGCTCCATTGCAACTTC-AGGAGATAAGATTTGCTATCTTCAA
* * * *
50587319 TGCGCTCCACTGTAACTTCAGGAAGATAAGATTTGCTATCTTCAG
1 TCCGCTCCATTGCAACTTCAGG-AGATAAGATTTGCTATCTTCAA
* * *
50587364 TCTGCTCCGTTGCAACTTCAGTGAGATAAGACTTGCTAT
1 TCCGCTCCATTGCAACTTCAG-GAGATAAGATTTGCTAT
50587403 ATTCGATCTG
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
44 3 0.03
45 104 0.95
46 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCGCTCCATTGCAACTTCAGGAGATAAGATTTGCTATCTTCAA
Found at i:50587348 original size:90 final size:90
Alignment explanation
Indices: 50587231--50587402 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 90
50587221 GGCTTTAGTC
* * *
50587231 CGCTTCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTGAATCCACTCCATTGCAACTTCAAG
1 CGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTATCTTCAATCCACTCCATTGCAACTTC-AG
* *
50587296 -GAGATAGGATTTGCTATCTTCAATG
65 TGAGATAAGACTTGCTATCTTCAATG
* * ** *
50587321 CGCTCCACTGTAACTTCAGGAAGATAAGATTTGCTATCTTCAGTCTGCTCCGTTGCAACTTCAGT
1 CGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTATCTTCAATCCACTCCATTGCAACTTCAGT
50587386 GAGATAAGACTTGCTAT
66 GAGATAAGACTTGCTAT
50587403 ATTCGATCTG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 2 0.03
90 69 0.97
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (90 bp):
CGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTATCTTCAATCCACTCCATTGCAACTTCAGT
GAGATAAGACTTGCTATCTTCAATG
Found at i:50589686 original size:14 final size:14
Alignment explanation
Indices: 50589617--50589686 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
50589607 GGCCTCTCCT
* *
50589617 TTTTTTCCTTTTTC
1 TTTTTTCATTTTTA
* *
50589631 TTTTCTT-TTTTTTC
1 TTTT-TTCATTTTTA
*
50589645 TTTTTATCATTTTCA
1 TTTTT-TCATTTTTA
*
50589660 TTTTTTTATTTTTA
1 TTTTTTCATTTTTA
50589674 TTTTTTCATTTTT
1 TTTTTTCATTTTT
50589687 TTGAAATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.02
14 34 0.74
15 11 0.24
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTCATTTTTA
Found at i:50589687 original size:22 final size:23
Alignment explanation
Indices: 50589631--50589688 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
50589621 TTCCTTTTTC
* *
50589631 TTTTCTTTTTTTTCTTTTTATCA
1 TTTTCATTTTTTTATTTTTATCA
*
50589654 TTTTCATTTTTTTATTTTTAT-T
1 TTTTCATTTTTTTATTTTTATCA
50589676 TTTTCATTTTTTT
1 TTTTCATTTTTTT
50589689 GAAATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.10, C:0.09, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTCATTTTTTTATTTTTATCA
Found at i:50589700 original size:29 final size:28
Alignment explanation
Indices: 50589668--50589730 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
50589658 CATTTTTTTA
50589668 TTTTTATTT-TTTCATTTTTTTGAAATATT
1 TTTTTATTTATTT--TTTTTTTGAAATATT
*
50589697 TTTTGATTTGATTTTTTTTTTGAAATATT
1 TTTTTATTT-ATTTTTTTTTTGAAATATT
50589726 TTTTT
1 TTTTT
50589731 GGATTTGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 27 0.90
31 3 0.10
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (28 bp):
TTTTTATTTATTTTTTTTTTGAAATATT
Found at i:50591237 original size:25 final size:25
Alignment explanation
Indices: 50591203--50591250 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50591193 CTCGCCCTCA
*
50591203 TACTCCAAGAAACAACGTCAATCAG
1 TACTCCAAGAAACAACATCAATCAG
50591228 TACTCCAAGAAACAACATCAATC
1 TACTCCAAGAAACAACATCAATC
50591251 TTTCCTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.29, G:0.08, T:0.17
Consensus pattern (25 bp):
TACTCCAAGAAACAACATCAATCAG
Found at i:50593492 original size:19 final size:20
Alignment explanation
Indices: 50593468--50593505 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50593458 CAGCATATCA
50593468 TAATAAAACA-AAATTTTAG
1 TAATAAAACATAAATTTTAG
*
50593487 TAATAATACATAAATTTTA
1 TAATAAAACATAAATTTTA
50593506 AAAAAAGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TAATAAAACATAAATTTTAG
Found at i:50593706 original size:15 final size:14
Alignment explanation
Indices: 50593688--50593726 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
50593678 TAATAATAGC
50593688 AATAATAATATTAA
1 AATAATAATATTAA
50593702 AA-ATATATATATTAA
1 AATA-ATA-ATATTAA
50593717 AATAATAATA
1 AATAATAATA
50593727 AATATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.05
14 8 0.36
15 12 0.55
16 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATAATATTAA
Found at i:50593747 original size:22 final size:22
Alignment explanation
Indices: 50593706--50593747 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
50593696 TATTAAAAAT
*
50593706 ATATATATTAAAATAATAATAA
1 ATATATATTAAAAAAATAATAA
50593728 ATATA-ATTAAAAAAACTAAT
1 ATATATATTAAAAAAA-TAAT
50593748 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATATATTAAAAAAATAATAA
Found at i:50594822 original size:11 final size:11
Alignment explanation
Indices: 50594802--50594831 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
50594792 TTATATATAT
50594802 TTTTTGTTTTTG
1 TTTTT-TTTTTG
50594814 TTTTTTTTTTG
1 TTTTTTTTTTG
50594825 TTTTTTT
1 TTTTTTT
50594832 GAACATATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:50597653 original size:55 final size:55
Alignment explanation
Indices: 50597530--50597656 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 55
50597520 TTAATGAAAG
* * ** * *
50597530 CAAGTCAGTGACTTACATGGGCTAGTCACACGGGCGTGTGGTTAGCCGCGTGACC
1 CAAGTCAGTGAGTTACATGGACTAGTCACACAAGCATGTGGCTAGCCGCGTGACC
** * *
50597585 CAAGTCAACGAGTTACATGGACTAGTCACACAAGCATGTGGCTGGCCGTGTGACC
1 CAAGTCAGTGAGTTACATGGACTAGTCACACAAGCATGTGGCTAGCCGCGTGACC
*
50597640 CAAGTTAGTGAGTTACA
1 CAAGTCAGTGAGTTACA
50597657 CGGGTGGGGA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (55 bp):
CAAGTCAGTGAGTTACATGGACTAGTCACACAAGCATGTGGCTAGCCGCGTGACC
Found at i:50604312 original size:55 final size:55
Alignment explanation
Indices: 50604228--50604351 Score: 176
Period size: 55 Copynumber: 2.3 Consensus size: 55
50604218 TTAATGAAAG
* * *
50604228 TAAGTCAGTAAGTTGCATGGGCTAGTCACATAGGCGTGTGGTTGGCCATGTGACC
1 TAAGTCAGTGAGTTCCACGGGCTAGTCACATAGGCGTGTGGTTGGCCATGTGACC
* * *
50604283 TAAGTCAGTGAGTTCCACGGGCTAGTCACATGGGTGTGTGGTTGGCCGTGTGACC
1 TAAGTCAGTGAGTTCCACGGGCTAGTCACATAGGCGTGTGGTTGGCCATGTGACC
* *
50604338 CAATTCAGTGAGTT
1 TAAGTCAGTGAGTT
50604352 ACATGGGGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (55 bp):
TAAGTCAGTGAGTTCCACGGGCTAGTCACATAGGCGTGTGGTTGGCCATGTGACC
Found at i:50604506 original size:43 final size:43
Alignment explanation
Indices: 50604429--50604513 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
50604419 ACACGGATGT
** *
50604429 GTCTCTTGGCCGTGTAAGACACACGGTTTGGCCACACAGACGC
1 GTCTCTTGGCCGTGTAAGACACACGGCCTAGCCACACAGACGC
* *
50604472 GTCTCTTGGCCGTGTGAGACACACGGCCTAGCCACATAGACG
1 GTCTCTTGGCCGTGTAAGACACACGGCCTAGCCACACAGACG
50604514 TTTGTCCCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.20
Consensus pattern (43 bp):
GTCTCTTGGCCGTGTAAGACACACGGCCTAGCCACACAGACGC
Found at i:50608403 original size:12 final size:12
Alignment explanation
Indices: 50608388--50608435 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
50608378 GAAATTTGAT
50608388 TTTTTTTCTCTC
1 TTTTTTTCTCTC
*
50608400 TTTTTTT-TCAC
1 TTTTTTTCTCTC
*
50608411 TTTCTTTTTTACTC
1 TTT-TTTTCT-CTC
50608425 TTTTTTTCTCT
1 TTTTTTTCTCT
50608436 TATAATTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.20
12 13 0.43
13 6 0.20
14 5 0.17
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:50609167 original size:21 final size:21
Alignment explanation
Indices: 50609134--50609175 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50609124 TGTTAACAAA
* *
50609134 ACAATAATGTTAGCGGTGTTG
1 ACAAAAATATTAGCGGTGTTG
*
50609155 ACAAAAATATTAGGGGTGTTG
1 ACAAAAATATTAGCGGTGTTG
50609176 TTAGGATGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (21 bp):
ACAAAAATATTAGCGGTGTTG
Found at i:50615410 original size:18 final size:18
Alignment explanation
Indices: 50615387--50615425 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50615377 TAGATAGTAT
* *
50615387 ATTAATTTTTTTATATTC
1 ATTAATTGTGTTATATTC
*
50615405 ATTAATTGTGTTATTTTC
1 ATTAATTGTGTTATATTC
50615423 ATT
1 ATT
50615426 CTCAATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTAATTGTGTTATATTC
Found at i:50616802 original size:27 final size:26
Alignment explanation
Indices: 50616756--50616808 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
50616746 CACCAATGAT
*
50616756 TTGGGGAATCAGCACATAGCAACCCC
1 TTGGGGAATCAACACATAGCAACCCC
*
50616782 TTGGGAGAATCAACACTTAGCAACCCC
1 TTGGG-GAATCAACACATAGCAACCCC
50616809 CTTCACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (26 bp):
TTGGGGAATCAACACATAGCAACCCC
Found at i:50616878 original size:102 final size:98
Alignment explanation
Indices: 50616690--50616883 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 98
50616680 GTGATTCGGG
* *
50616690 GAATCAACACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACAACCACCAATGA
1 GAATCAACACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACAACCACCAATGA
*
50616755 TTTGGGGAATCAGCACATAGCAACCCCTTGGGA
66 ATTGGGGAATCAGCACATAGCAACCCCTTGGGA
* *
50616788 GAATCAACACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAACCACC
1 GAATCAACACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAG--C--A-CAACCACC
*
50616852 AATGAATTGGGGAATCAGCACTTAGCAACCCC
61 AATGAATTGGGGAATCAGCACATAGCAACCCC
50616884 CTTCACATTT
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
97 13 0.15
98 32 0.38
99 1 0.01
101 1 0.01
102 38 0.45
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (98 bp):
GAATCAACACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACAACCACCAATGA
ATTGGGGAATCAGCACATAGCAACCCCTTGGGA
Found at i:50617975 original size:11 final size:12
Alignment explanation
Indices: 50617947--50617980 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
50617937 GCCCAAACGT
50617947 CGAAATTTTTGAA
1 CGAAATTTTT-AA
50617960 CGAAATTTTT-A
1 CGAAATTTTTAA
50617971 CGAAATTTTT
1 CGAAATTTTT
50617981 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:50619769 original size:22 final size:20
Alignment explanation
Indices: 50619721--50619772 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
50619711 TATTGATATG
*
50619721 AGATAAATTGATTATGTTTT
1 AGATAAATTGATTAGGTTTT
50619741 AGATAAATTGATTAGGTTACTT
1 AGATAAATTGATTAGGTT--TT
*
50619763 AGTTAAATTG
1 AGATAAATTG
50619773 CATAATAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 17 0.61
22 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (20 bp):
AGATAAATTGATTAGGTTTT
Found at i:50625209 original size:75 final size:75
Alignment explanation
Indices: 50625111--50625728 Score: 699
Period size: 75 Copynumber: 8.2 Consensus size: 75
50625101 ACCACTTCTT
* * *
50625111 TTTCTGTTTTTCAAAAATCAACTCATAATCTAATAGGTGAGTTGAGCATCGGGTCGCACGCTGAT
1 TTTCTGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA-
50625176 G-TATTTTCAA
65 GATATTTTCAA
* * * * *
50625186 TTTCAGTTTTTCAAAAATGAACTCATAATCTGATAGGTGAGTTGAGCCTCAGGTCGCAAGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
* *
50625251 GTGTTTTCAA
66 ATATTTTCAA
* * * * * *
50625261 TTTCTGTTTTTC-AAAATCAACTCATAATCCGATAGGTGAATTGAGCATCAGGTCGCACGTTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
50625325 ATATTTTCAA
66 ATATTTTCAA
** *
50625335 TTTCTAATTTTCAAAAATCAACTCATAAT-TCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCTGA
1 TTTCTGTTTTTCAAAAATCAACTCATAATCT-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA
*
50625399 GATATTTTTAA
65 GATATTTTCAA
* * *
50625410 TTTCTTTTTTTTCAAAAATCAACTTATAAT-TCGAGAGGTGAGTTAAGCCTCGGGTCGCACGCTG
1 TTTC-TGTTTTTCAAAAATCAACTCATAATCT-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
50625474 ATG-TATTTTCAA
64 A-GATATTTTCAA
* * * * * **
50625486 TTTCTAG-TTTTCAAAAATCAACTCGTAATCCGAGAGGTGAGTTAAGCCTTGGGTCACACAATGA
1 TTTCT-GTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA
*
50625550 GCTATTTTCAA
65 GATATTTTCAA
* * * * *
50625561 TTTTTGTTTTTCCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCTGA
1 TTTCTGTTTTT-CAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGA
*
50625626 GGTATTTTCAA
65 GATATTTTCAA
* * * * * * * * *
50625637 ATTCTATTTTTCAAAGATCAATTCATAATCTGAGATGTGAGTTGAACTTTGGATCGCACGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
* *
50625702 TTATTTTCGA
66 ATATTTTCAA
50625712 TTTCTGTTTTTCAAAAA
1 TTTCTGTTTTTCAAAAA
50625729 AAATAGACAA
Statistics
Matches: 467, Mismatches: 66, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
74 67 0.14
75 268 0.57
76 131 0.28
77 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (75 bp):
TTTCTGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
ATATTTTCAA
Found at i:50625501 original size:151 final size:150
Alignment explanation
Indices: 50625111--50625728 Score: 749
Period size: 151 Copynumber: 4.1 Consensus size: 150
50625101 ACCACTTCTT
** *
50625111 TTTCTGTTTTTCAAAAATCAACTCATAATCTAATAGGTGAGTTGAGCATCGGGTCGCACGCTGAT
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGTCGCACGCTGAT
* * *
50625176 GTATTTTCAATTTC-AGTTTTTCAAAAATGAACTCATAATCTGATAGGTGAGTTGAGCCTCAGGT
66 GTATTTTCAATTTCTAG-TTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGT
* * *
50625240 CGCAAGCTGAGGTGTTTTCAA
130 CGCACGCTGAGATATTTTCAA
* * * *
50625261 TTTCTGTTTTTC-AAAATCAACTCATAATCCGATAGGTGAATTGAGCATCAGGTCGCACGTTGA-
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGTCGCACGCTGAT
*
50625324 GATATTTTCAATTTCTAATTTTCAAAAATCAACTCATAAT-TCGAGAGGTGAGTTGAGCCTCGGG
66 G-TATTTTCAATTTCTAGTTTTCAAAAATCAACTCATAATCT-GAGAGGTGAGTTGAGCCTCGGG
* *
50625388 TCGTACGCTGAGATATTTTTAA
129 TCGCACGCTGAGATATTTTCAA
* * * * *
50625410 TTTCTTTTTTTTCAAAAATCAACTTATAATTCGAGAGGTGAGTTAAGCCTCGGGTCGCACGCTGA
1 TTTC-TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGTCGCACGCTGA
* * * *
50625475 TGTATTTTCAATTTCTAGTTTTCAAAAATCAACTCGTAATCCGAGAGGTGAGTTAAGCCTTGGGT
65 TGTATTTTCAATTTCTAGTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGT
* ** *
50625540 CACACAATGAGCTATTTTCAA
130 CGCACGCTGAGATATTTTCAA
* * * * *
50625561 TTTTTGTTTTTCCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCTGA
1 TTTCTGTTTTT-CAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGTCGCACGCTGA
* * * * * * * * * *
50625626 GGTATTTTCAAATTCTATTTTTCAAAGATCAATTCATAATCTGAGATGTGAGTTGAACTTTGGAT
65 TGTATTTTCAATTTCTAGTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGT
* *
50625691 CGCACGCTGAGTTATTTTCGA
130 CGCACGCTGAGATATTTTCAA
50625712 TTTCTGTTTTTCAAAAA
1 TTTCTGTTTTTCAAAAA
50625729 AAATAGACAA
Statistics
Matches: 400, Mismatches: 60, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
148 2 0.00
149 121 0.30
150 32 0.08
151 244 0.61
152 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (150 bp):
TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCATCGGGTCGCACGCTGAT
GTATTTTCAATTTCTAGTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTC
GCACGCTGAGATATTTTCAA
Found at i:50626104 original size:30 final size:31
Alignment explanation
Indices: 50626035--50626114 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
50626025 ATACAAAAAT
50626035 TTAAAATTTACATTTTGACCCCTAAATATTTC
1 TTAAAA-TTACATTTTGACCCCTAAATATTTC
* * * * *
50626067 CTAAAATTACATTTTG-GCTCTCAATTTTTC
1 TTAAAATTACATTTTGACCCCTAAATATTTC
50626097 TTAAAATTACATTTTGAC
1 TTAAAATTACATTTTGAC
50626115 TCCTTAACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 25 0.62
31 10 0.25
32 5 0.12
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (31 bp):
TTAAAATTACATTTTGACCCCTAAATATTTC
Found at i:50626874 original size:4 final size:4
Alignment explanation
Indices: 50626861--50626926 Score: 63
Period size: 4 Copynumber: 18.0 Consensus size: 4
50626851 TTGAGAAGAT
* *
50626861 GAAA -AAA GAAA GAAA GGAA G-AA GAAG GAAA -AAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
50626904 GAAA GAAG GAAA -AAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA
50626927 AAGAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
3 16 0.31
4 35 0.69
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:50626881 original size:8 final size:8
Alignment explanation
Indices: 50626861--50626926 Score: 63
Period size: 7 Copynumber: 9.0 Consensus size: 8
50626851 TTGAGAAGAT
50626861 GAAA-AAA
1 GAAAGAAA
50626868 GAAAGAAA
1 GAAAGAAA
*
50626876 GGAAG-AA
1 GAAAGAAA
*
50626883 GAAGGAAA
1 GAAAGAAA
50626891 -AAAGAAA
1 GAAAGAAA
50626898 G-AA-AAA
1 GAAAGAAA
*
50626904 GAAAGAAG
1 GAAAGAAA
50626912 GAAA-AAA
1 GAAAGAAA
50626919 GAAAGAAA
1 GAAAGAAA
50626927 AAGAAAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
6 4 0.09
7 25 0.53
8 18 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (8 bp):
GAAAGAAA
Found at i:50626887 original size:10 final size:10
Alignment explanation
Indices: 50626854--50626937 Score: 53
Period size: 11 Copynumber: 8.0 Consensus size: 10
50626844 CTAAGGTTTG
*
50626854 AGAAGATGAA
1 AGAAGAAGAA
*
50626864 AAAAGAAAGAA
1 AGAAG-AAGAA
50626875 AGGAAGAAGAA
1 A-GAAGAAGAA
* *
50626886 GGAAAAAAGAA
1 AG-AAGAAGAA
*
50626897 AGAAAAAGAA
1 AGAAGAAGAA
*
50626907 AGAAGGAAAAA
1 AGAA-GAAGAA
50626918 AGAAAGAA-AA
1 AG-AAGAAGAA
*
50626928 AGAAAAAGAA
1 AGAAGAAGAA
50626938 TTAGTTGGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
9 4 0.07
10 23 0.39
11 27 0.46
12 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (10 bp):
AGAAGAAGAA
Found at i:50626899 original size:15 final size:15
Alignment explanation
Indices: 50626881--50626925 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
50626871 AGAAAGGAAG
50626881 AAGAAGGAAAAAAG-
1 AAGAAGGAAAAAAGA
50626895 -A-AA-G-AAAAAGA
1 AAGAAGGAAAAAAGA
50626906 AAGAAGGAAAAAAGA
1 AAGAAGGAAAAAAGA
50626921 AAGAA
1 AAGAA
50626926 AAAGAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
10 6 0.23
11 1 0.04
12 3 0.12
13 3 0.12
14 1 0.04
15 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAGAAGGAAAAAAGA
Found at i:50626904 original size:6 final size:6
Alignment explanation
Indices: 50626895--50626937 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
50626885 AGGAAAAAAG
*
50626895 AAAGAA AAAGAA AGAAGGAA AAA-AG AAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA A-AA-GAA AAAGAA AAAGAA AAAGAA AAAGAA
50626938 TTAGTTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.12
6 20 0.62
7 4 0.12
8 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:50626909 original size:36 final size:31
Alignment explanation
Indices: 50626863--50626937 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 31
50626853 GAGAAGATGA
50626863 AAAAAGAAAGAAAGGAAGAAGAAGGAAAAAAGAAAG
1 AAAAAGAAAG-AAGGAA-AA-AA-GAAAAAA-AAAG
*
50626899 AAAAAGAAAGAAGGAAAAAAGAAAGAAAAAG
1 AAAAAGAAAGAAGGAAAAAAGAAAAAAAAAG
50626930 AAAAAGAA
1 AAAAAGAA
50626938 TTAGTTGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
31 12 0.32
32 6 0.16
33 2 0.05
34 2 0.05
35 6 0.16
36 10 0.26
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (31 bp):
AAAAAGAAAGAAGGAAAAAAGAAAAAAAAAG
Found at i:50626932 original size:25 final size:25
Alignment explanation
Indices: 50626861--50626932 Score: 119
Period size: 25 Copynumber: 2.8 Consensus size: 25
50626851 TTGAGAAGAT
50626861 GAAAAAAGAAAGAAAGGAAG-AAGAAG
1 GAAAAAAGAAAGAAA--AAGAAAGAAG
50626887 GAAAAAAGAAAGAAAAAGAAAGAAG
1 GAAAAAAGAAAGAAAAAGAAAGAAG
50626912 GAAAAAAGAAAGAAAAAGAAA
1 GAAAAAAGAAAGAAAAAGAAA
50626933 AAGAATTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 3 0.07
25 27 0.60
26 15 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
GAAAAAAGAAAGAAAAAGAAAGAAG
Found at i:50629185 original size:12 final size:13
Alignment explanation
Indices: 50629164--50629195 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50629154 CGCGGATTTC
50629164 AAAA-AAATAAAT
1 AAAATAAATAAAT
50629176 -AAATAAATAAAT
1 AAAATAAATAAAT
50629188 AAAATAAA
1 AAAATAAA
50629196 AAGGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 8 0.44
13 7 0.39
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:50630883 original size:44 final size:43
Alignment explanation
Indices: 50630835--50631058 Score: 135
Period size: 45 Copynumber: 4.9 Consensus size: 43
50630825 TACCTTTGAT
* *
50630835 CTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGAC
1 CTACTTCACACCAGTACATGAAGACAAGATCTG-TTTCTTCGAC
* * * * * *
50630879 CTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTTGAT
1 CTACTTCA-CACCAGTACATGAAGACAAGATCTGTTTCTTCGAC
* * * * *
50630923 CTATTTCACTCCGGTACATGAAGACAAGATCTGCTTTCTTTGAT
1 CTACTTCACACCAGTACATGAAGACAAGATCTG-TTTCTTCGAC
* * * * *
50630967 CTGCTTCGCCACCAGTATGA-GAAGGCAAGATCTGCTTTTTCCGATCTCTGAT
1 CTACTTC-ACACCAGTA-CATGAAGACAAGATCTG---TTT-C--T-TC-GAC
* *
50631019 CTACTTCACGCCAGTACATAAAGACAAGATCTGTTATCTT
1 CTACTTCACACCAGTACATGAAGACAAGATCTGTT-TCTT
50631059 TCAACCTGCT
Statistics
Matches: 137, Mismatches: 30, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
43 20 0.15
44 36 0.26
45 40 0.29
46 2 0.01
47 3 0.02
48 4 0.03
49 1 0.01
50 2 0.01
51 20 0.15
52 9 0.07
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (43 bp):
CTACTTCACACCAGTACATGAAGACAAGATCTGTTTCTTCGAC
Found at i:50630931 original size:88 final size:90
Alignment explanation
Indices: 50630827--50631073 Score: 266
Period size: 88 Copynumber: 2.7 Consensus size: 90
50630817 GGACCTACTA
* *
50630827 CCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGACCTGCTCCACCACC
*
50630892 AGTAT-AGGGAGACAAGATCTG-TTT
66 AGTATGA-GAAGACAAGATCTGTTTT
* * * * * * * *
50630916 -CTTTGATCTATTTCACTCCGGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACC
1 CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGACCTGCTCCACCACC
*
50630980 AGTATGAGAAGGCAAGATCTGCTTTTT
66 AGTATGAGAAGACAAGATCTG--TTTT
* * *
50631007 CCGATCTCTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGTTATCTTTCAACCTGCTCCA
1 CC--T-T-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTC-TTCGACCTGCTCCA
50631072 CC
61 CC
50631074 GCTGCTTAGG
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
88 71 0.57
89 1 0.01
91 3 0.02
92 1 0.01
94 1 0.01
95 1 0.01
96 36 0.29
97 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (90 bp):
CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGACCTGCTCCACCACC
AGTATGAGAAGACAAGATCTGTTTT
Found at i:50639087 original size:20 final size:20
Alignment explanation
Indices: 50639062--50639099 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
50639052 TAAAGGTCTT
50639062 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
50639082 TAATGCATATGATGCGAT
1 TAATGCATATGATGCGAT
50639100 ACATGAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:50642930 original size:28 final size:27
Alignment explanation
Indices: 50642882--50642942 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
50642872 CGCATACTGA
*
50642882 ATAAAAGAATGCCTATATATATATATT
1 ATAAAAGAATGCCTATATATATATATC
* * * *
50642909 ATAAAAGCCATGCGTATGTATATGTATC
1 ATAAAAG-AATGCCTATATATATATATC
50642937 ATAAAA
1 ATAAAA
50642943 AAACAATGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (27 bp):
ATAAAAGAATGCCTATATATATATATC
Found at i:50648441 original size:41 final size:39
Alignment explanation
Indices: 50648396--50648472 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 39
50648386 GTTACTTGAC
** *
50648396 AGCTTGTGTGAGTAGCACTGTGTAGCTACGTTCTGATCAAT
1 AGCTTGTGTGAGTAG-ACTG-ACAGCTACGTTCCGATCAAT
50648437 AGCTTGTGTGAGTAGACTGACAGCTACGTTCCGATC
1 AGCTTGTGTGAGTAGACTGACAGCTACGTTCCGATC
50648473 GACAGCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 14 0.42
40 4 0.12
41 15 0.45
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (39 bp):
AGCTTGTGTGAGTAGACTGACAGCTACGTTCCGATCAAT
Found at i:50656029 original size:24 final size:24
Alignment explanation
Indices: 50655983--50656084 Score: 107
Period size: 24 Copynumber: 4.2 Consensus size: 24
50655973 TCCAGGCTTA
50655983 ATAACGGGAAGCTCACAAAGAGCCT
1 ATAACGGGAAGCT-ACAAAGAGCCT
* * *
50656008 ATATCGGGTAGCTTCAAAGAGCACT
1 ATAACGGGAAGCTACAAAGAGC-CT
* * *
50656033 -TAACGGGAAGCTCCGAGGAGCCT
1 ATAACGGGAAGCTACAAAGAGCCT
*
50656056 TTAACGGGAAGCTCACAAAGAGCCT
1 ATAACGGGAAGCT-ACAAAGAGCCT
50656081 ATAA
1 ATAA
50656085 ATAGAACGCT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
23 2 0.03
24 36 0.58
25 24 0.39
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
ATAACGGGAAGCTACAAAGAGCCT
Found at i:50656075 original size:49 final size:49
Alignment explanation
Indices: 50655984--50656078 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
50655974 CCAGGCTTAA
* * *
50655984 TAACGGGAAGCTCACAAAGAGCCTATATCGGGTAGCTTCAAAGAGCACT
1 TAACGGGAAGCTCACAAAGAGCCTATAACGGGAAGCTACAAAGAGCACT
* * *
50656033 TAACGGGAAGCTC-CGAGGAGCCTTTAACGGGAAGCTCACAAAGAGC
1 TAACGGGAAGCTCACAAAGAGCCTATAACGGGAAGCT-ACAAAGAGC
50656079 CTATAAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 18 0.46
49 21 0.54
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (49 bp):
TAACGGGAAGCTCACAAAGAGCCTATAACGGGAAGCTACAAAGAGCACT
Found at i:50661866 original size:22 final size:20
Alignment explanation
Indices: 50661830--50661870 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
50661820 AGTGAATAAA
50661830 GGAGAAGGAAAAGAAAGAAG
1 GGAGAAGGAAAAGAAAGAAG
50661850 GGAGAAAGGAAAAAGAAAGAA
1 GGAG-AAGG-AAAAGAAAGAA
50661871 AATCTCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GGAGAAGGAAAAGAAAGAAG
Found at i:50674636 original size:9 final size:10
Alignment explanation
Indices: 50674617--50674676 Score: 61
Period size: 10 Copynumber: 6.2 Consensus size: 10
50674607 TCGACTTTAT
*
50674617 AAAATTGTAA
1 AAAATTATAA
50674627 AAAA-TATAA
1 AAAATTATAA
50674636 AAAATTATAA
1 AAAATTATAA
***
50674646 ATTTTTAT-A
1 AAAATTATAA
*
50674655 AAAATCATAA
1 AAAATTATAA
50674665 AAAATTATAA
1 AAAATTATAA
50674675 AA
1 AA
50674677 TTTTATAAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 13 0.33
10 26 0.67
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:50674665 original size:29 final size:28
Alignment explanation
Indices: 50674613--50674702 Score: 110
Period size: 29 Copynumber: 3.2 Consensus size: 28
50674603 CGTTTCGACT
* *
50674613 TTATAAAATTGTAAAAAAT-ATAAAAAA
1 TTATAAAATTTTATAAAATCATAAAAAA
*
50674640 TTATAAATTTTTATAAAAATCATAAAAAA
1 TTATAAAATTTTAT-AAAATCATAAAAAA
* *
50674669 TTATAAAATTTTATAAAGTCAAAAGAAAA
1 TTATAAAATTTTATAAAATCATAA-AAAA
50674698 TTATA
1 TTATA
50674703 CAAAATGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
27 11 0.20
28 13 0.24
29 30 0.56
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (28 bp):
TTATAAAATTTTATAAAATCATAAAAAA
Found at i:50674979 original size:11 final size:11
Alignment explanation
Indices: 50674965--50674996 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50674955 TTTTATAAAA
50674965 TTTTACAATTT
1 TTTTACAATTT
50674976 TTTTAC--TTT
1 TTTTACAATTT
50674985 TTTTACAATTT
1 TTTTACAATTT
50674996 T
1 T
50674997 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTACAATTT
Found at i:50675048 original size:19 final size:18
Alignment explanation
Indices: 50675015--50675073 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
50675005 AATTCTAATT
*
50675015 TTTAATAAATT-TTAAAA
1 TTTAATAATTTATTAAAA
* *
50675032 TTTTATATTTTTATTAAAA
1 TTTAATA-ATTTATTAAAA
50675051 TTTAATAATTTATCTAAAA
1 TTTAATAATTTAT-TAAAA
50675070 TTTA
1 TTTA
50675074 TTTGTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
19 21 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAATAATTTATTAAAA
Found at i:50675063 original size:26 final size:26
Alignment explanation
Indices: 50675003--50675061 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
50674993 TTTTATAAAA
* *
50675003 AAAATTCTA-ATTTTTAATAAATTTT
1 AAAATTTTATATTTTTAATAAAATTT
*
50675028 AAAATTTTATATTTTTATTAAAATTT
1 AAAATTTTATATTTTTAATAAAATTT
50675054 AATAATTT
1 AA-AATTT
50675062 ATCTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 16 0.55
27 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
AAAATTTTATATTTTTAATAAAATTT
Found at i:50676493 original size:29 final size:32
Alignment explanation
Indices: 50676461--50676520 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
50676451 TTTTTGCTTC
50676461 TTTCTTCAATCTAG-CCC-AATTGT-TTCCTT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
* *
50676490 TTTCTTCTATTTAGCCCCAAATTGTATTCCT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCT
50676521 GCACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 6 0.23
32 5 0.19
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (32 bp):
TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
Found at i:50677367 original size:18 final size:20
Alignment explanation
Indices: 50677327--50677369 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50677317 CAAAAATTAA
*
50677327 AAAAATTAAAAGTAATTTTT
1 AAAAATTAAAAGTAATTTAT
*
50677347 AAAATTTAAAA-T-ATTTAT
1 AAAAATTAAAAGTAATTTAT
50677365 AAAAA
1 AAAAA
50677370 ATTCAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATTAAAAGTAATTTAT
Found at i:50678385 original size:58 final size:58
Alignment explanation
Indices: 50678319--50678440 Score: 210
Period size: 58 Copynumber: 2.1 Consensus size: 58
50678309 AAGAACAATT
50678319 AAAC-ATTCATAATTAAAAACAAAGAAACTAATGTTTTATTGCATAAAAATATAAACC
1 AAACAATTCATAATTAAAAACAAAGAAACTAATGTTTTATTGCATAAAAATATAAACC
* * *
50678376 AAACAATTCATAATTGAAAACAAAGAAACTAATGTTTTATTGCATAAAAGTATAAATC
1 AAACAATTCATAATTAAAAACAAAGAAACTAATGTTTTATTGCATAAAAATATAAACC
50678434 AAACAAT
1 AAACAAT
50678441 AGAATACATC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (58 bp):
AAACAATTCATAATTAAAAACAAAGAAACTAATGTTTTATTGCATAAAAATATAAACC
Found at i:50678951 original size:27 final size:27
Alignment explanation
Indices: 50678913--50678967 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
50678903 ATAAAGAATT
50678913 AAGAGTATATAATTCACAATTAATACC
1 AAGAGTATATAATTCACAATTAATACC
50678940 AAGAGTATATAATTCACAATTAATACC
1 AAGAGTATATAATTCACAATTAATACC
50678967 A
1 A
50678968 CATAATCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (27 bp):
AAGAGTATATAATTCACAATTAATACC
Found at i:50680746 original size:41 final size:41
Alignment explanation
Indices: 50680689--50680950 Score: 194
Period size: 41 Copynumber: 6.4 Consensus size: 41
50680679 ATTTTTAAAC
* **
50680689 CTTTAGCGGCGTTTTTACT-TTAGCGCTGCTAATTCTCTGAT
1 CTTTAGCGGCGTTTTT-CTCTGAGCGCCACTAATTCTCTGAT
* **
50680730 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGC
1 CTTTAGCGGCGTTTTTCTCTGAGCGCCACTAAT-TCTCTGAT
* * * *
50680771 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTAT
1 CTTTAGCGGCGTTTTTCTCTGAGCGCCACTAATTCTCTG-AT
* * * *
50680812 CATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCT-ATT
1 CTTTAGCGGCGTTTTTCTCTGAGCGCCACTAATTCTCTGA-T
* * * *
50680853 CTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGTTC-GTG-T
1 CTTTAGCGGCG-TTTTTCTCTGAGCGCCACT-AA-TTCTCTGAT
* * * * **
50680895 TTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTCTCTGAGCGCCACTAATTCTCTGAT
*
50680936 CTTTGGCGGCGTTTT
1 CTTTAGCGGCGTTTT
50680951 ATATGTAAGC
Statistics
Matches: 173, Mismatches: 36, Indels: 24
0.74 0.15 0.10
Matches are distributed among these distances:
39 2 0.01
40 7 0.04
41 132 0.76
42 26 0.15
43 3 0.02
44 3 0.02
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTCTCTGAGCGCCACTAATTCTCTGAT
Found at i:50680916 original size:83 final size:83
Alignment explanation
Indices: 50680688--50680968 Score: 311
Period size: 83 Copynumber: 3.4 Consensus size: 83
50680678 GATTTTTAAA
* * ** *
50680688 CCTTTAGCGGCG-TTTTTA-CTTTAGCGCTGCTAATTCTC-TGATCTTTAGCGGCGTTTTTATCT
1 CCTTTAGCGGCGTTTTTTATC-TAAGCGCCGCTAAAGCTCGT-ATCTTTAGTGGCGTTTTTATCT
50680750 GAGCGCCACTAATGT-TCTGG
64 GAGCGCCACTAAT-TCTCTGG
* * * * *
50680770 CCTTTAGCGGCG-TTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGA
1 CCTTTAGCGGCGTTTTTTATCTAAGCGCCGCTAAAGCTCGTATCTTTAGTGGCGTTTTTATCTGA
**
50680834 GCGCCACTAATTCTCTAT
66 GCGCCACTAATTCTCTGG
* * * * *
50680852 TCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGTTCGTGTTTTTAGTGGCGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTTATCTAAGCGCCGCTAAAGCTCGTATCTTTAGTGGCGTTTTTATCTGA
*
50680917 GCGCCACTAATACTCTGG
66 GCGCCACTAATTCTCTGG
* * *
50680935 CCTTTGGCGGCGTTTTATATGTAAGCGCCGCTAA
1 CCTTTAGCGGCGTTTTTTATCTAAGCGCCGCTAA
50680969 TGCTACCTTT
Statistics
Matches: 168, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
81 1 0.01
82 77 0.46
83 90 0.54
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (83 bp):
CCTTTAGCGGCGTTTTTTATCTAAGCGCCGCTAAAGCTCGTATCTTTAGTGGCGTTTTTATCTGA
GCGCCACTAATTCTCTGG
Found at i:50681542 original size:15 final size:15
Alignment explanation
Indices: 50681521--50681558 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
50681511 TTTAAGGTTA
50681521 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
50681536 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
50681551 ATTTAGGG
1 ATTTAGGG
50681559 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:50681561 original size:14 final size:14
Alignment explanation
Indices: 50681494--50681561 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
50681484 GACTGGGTAT
*
50681494 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
50681508 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
50681520 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
50681534 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
50681549 AGATTTAGGGTTT
1 AGATTTAGGGTTT
50681562 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:50683306 original size:8 final size:10
Alignment explanation
Indices: 50683284--50683320 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
50683274 TATTTTTACT
50683284 TATATATGGA
1 TATATATGGA
*
50683294 TATATATGAA
1 TATATATGGA
50683304 TATATATGGA
1 TATATATGGA
50683314 TATATAT
1 TATATAT
50683321 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:50685910 original size:16 final size:16
Alignment explanation
Indices: 50685851--50685930 Score: 67
Period size: 16 Copynumber: 5.0 Consensus size: 16
50685841 ACACATAGCC
* *
50685851 TACATGACTTATATAA
1 TACATAACTTACATAA
* *
50685867 TACACAACTTAAATAA
1 TACATAACTTACATAA
*
50685883 TTTAAAATAACTTACATAA
1 --T-ACATAACTTACATAA
50685902 TACATAACTTACAT--
1 TACATAACTTACATAA
50685916 T-CATAACTTACATAA
1 TACATAACTTACATAA
50685931 ACTTATATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 25 0.48
17 1 0.02
18 1 0.02
19 12 0.23
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:50685922 original size:13 final size:15
Alignment explanation
Indices: 50685889--50685929 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
50685879 ATAATTTAAA
50685889 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
50685905 ATAACTTACAT-T-C
1 ATAACTTACATATAC
50685918 ATAACTTACATA
1 ATAACTTACATA
50685930 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:50686036 original size:34 final size:32
Alignment explanation
Indices: 50685993--50686198 Score: 111
Period size: 34 Copynumber: 6.7 Consensus size: 32
50685983 GGGTGATGTG
50685993 ATATTATACATAAATTACATAACTTAATTAATT
1 ATATTATACATAAATTACATAA-TTAATTAATT
*
50686026 AATATTATACATAACTTAC---ATTAA-T-ATT
1 -ATATTATACATAAATTACATAATTAATTAATT
* * * * *
50686054 ATA-CATAAATTACATAACTTAATTAATT-A--
1 ATATTATACA-TAAATTACATAATTAATTAATT
* * *
50686083 ATATTATACATAACTTACATTAA-TATTATACATA
1 ATATTATACATAAATTACA-TAATTAAT-TA-ATT
* *
50686117 ATATTATACATAAATTACAT-A--ACTTAGTT
1 ATATTATACATAAATTACATAATTAATTAATT
*
50686146 A-ATTATACAT-AA-TACATAACTTAGTTAATT
1 ATATTATACATAAATTACATAA-TTAATTAATT
*
50686176 AATATTATACATAACTTACATAA
1 -ATATTATACATAAATTACATAA
50686199 GATTTTAACA
Statistics
Matches: 132, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
26 9 0.07
27 11 0.08
28 12 0.09
29 14 0.11
30 25 0.19
31 6 0.05
32 11 0.08
33 2 0.02
34 42 0.32
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (32 bp):
ATATTATACATAAATTACATAATTAATTAATT
Found at i:50686051 original size:22 final size:22
Alignment explanation
Indices: 50686018--50686068 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
50686008 TACATAACTT
50686018 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
50686039 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
50686061 AATTACAT
1 AATTACAT
50686069 AACTTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:50686055 original size:56 final size:56
Alignment explanation
Indices: 50685993--50686122 Score: 251
Period size: 56 Copynumber: 2.3 Consensus size: 56
50685983 GGGTGATGTG
50685993 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
50686049 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
50686105 ATATTATACATAATATTA
1 ATATTATACATAA-ATTA
50686123 TACATAAATT
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
56 69 0.95
57 4 0.05
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (56 bp):
ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
Found at i:50686126 original size:68 final size:70
Alignment explanation
Indices: 50686042--50686189 Score: 219
Period size: 68 Copynumber: 2.1 Consensus size: 70
50686032 ATACATAACT
* * *
50686042 TACATTAATATTATACATAAATTACATAACTTAATTAATTA-ATATTATACATAACTTA-CATTA
1 TACA-TAATATTATACATAAATTACATAACTTAATTAATTATACATAATACATAACTTATAATTA
50686105 ATATTA
65 ATATTA
*
50686111 TACATAATATTATACATAAATTACATAACTTAGTTAATTATACATAATACATAACTTAGTTAATT
1 TACATAATATTATACATAAATTACATAACTTAATTAATTATACATAATACATAACTTA--TAATT
50686176 AATATTA
64 AATATTA
50686183 TACATAA
1 TACATAA
50686190 CTTACATAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
68 35 0.49
69 19 0.27
72 17 0.24
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (70 bp):
TACATAATATTATACATAAATTACATAACTTAATTAATTATACATAATACATAACTTATAATTAA
TATTA
Found at i:50686168 original size:26 final size:26
Alignment explanation
Indices: 50686119--50686193 Score: 107
Period size: 26 Copynumber: 2.8 Consensus size: 26
50686109 TATACATAAT
50686119 ATTATACATAAATTACATAACTTAGTTA
1 ATTATACAT-AA-TACATAACTTAGTTA
50686147 ATTATACATAATACATAACTTAGTTA
1 ATTATACATAATACATAACTTAGTTA
* *
50686173 ATTA-ATATTATACATAACTTA
1 ATTATACATAATACATAACTTA
50686194 CATAAGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 15 0.33
26 19 0.42
27 2 0.04
28 9 0.20
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.40
Consensus pattern (26 bp):
ATTATACATAATACATAACTTAGTTA
Found at i:50686236 original size:9 final size:9
Alignment explanation
Indices: 50686222--50686276 Score: 69
Period size: 9 Copynumber: 6.3 Consensus size: 9
50686212 TGCATAATAA
50686222 ATAACTTAC
1 ATAACTTAC
50686231 ATAACTTAC
1 ATAACTTAC
50686240 ATAA--TAC
1 ATAACTTAC
*
50686247 ATAACTTAT
1 ATAACTTAC
* *
50686256 ATGACTTAT
1 ATAACTTAC
50686265 ATAACTTAC
1 ATAACTTAC
50686274 ATA
1 ATA
50686277 GTATAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
7 7 0.17
9 33 0.82
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50686242 original size:25 final size:25
Alignment explanation
Indices: 50686214--50686268 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50686204 TAACAATTTG
50686214 CATAATAAATAACTTACATAACTTA
1 CATAATAAATAACTTACATAACTTA
* * *
50686239 CATAATACATAACTTATATGACTTA
1 CATAATAAATAACTTACATAACTTA
*
50686264 TATAA
1 CATAA
50686269 CTTACATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.35
Consensus pattern (25 bp):
CATAATAAATAACTTACATAACTTA
Found at i:50686247 original size:16 final size:16
Alignment explanation
Indices: 50686228--50686347 Score: 69
Period size: 16 Copynumber: 7.9 Consensus size: 16
50686218 ATAAATAACT
50686228 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
50686244 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
* *
50686262 TATATAACTTACATAG
1 TACATAACTTACATAA
* *
50686278 T--ATAATTTTCATAA
1 TACATAACTTACATAA
* * *
50686292 TACACAACTCACATAG
1 TACATAACTTACATAA
50686308 T---T---TT-CATAA
1 TACATAACTTACATAA
*
50686317 TAAATAACTTACATAA
1 TACATAACTTACATAA
50686333 TACATAACTTACATA
1 TACATAACTTACATA
50686348 GCTTAATTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 1 0.01
12 1 0.01
14 11 0.14
15 2 0.03
16 42 0.55
17 2 0.03
18 12 0.16
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:50686325 original size:25 final size:25
Alignment explanation
Indices: 50686283--50686331 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50686273 CATAGTATAA
*
50686283 TTTTCATAATACACAACTCACATAG
1 TTTTCATAATAAACAACTCACATAG
* *
50686308 TTTTCATAATAAATAACTTACATA
1 TTTTCATAATAAACAACTCACATA
50686332 ATACATAACT
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:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (25 bp):
TTTTCATAATAAACAACTCACATAG
Found at i:50691878 original size:66 final size:65
Alignment explanation
Indices: 50691771--50691941 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
50691761 GAGCAAATTA
* * * *
50691771 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAATATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAA-ATATGAAGAACTCCA
50691835 G
65 G
* * *
50691836 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAATATGAAGAACTCCA
50691901 G
65 G
* * * *
50691902 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
50691942 CGGCAGCTAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.95
67 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAATATGAAGAACTCCAG
Found at i:50691938 original size:21 final size:21
Alignment explanation
Indices: 50691912--50691957 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
50691902 CAGCAGCTTA
*
50691912 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
50691933 AAGCAGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCAAGAG
50691954 AAGC
1 AAGC
50691958 TGCAGCGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.39, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:50691985 original size:21 final size:21
Alignment explanation
Indices: 50691961--50692018 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
50691951 GAGAAGCTGC
50691961 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
** *
50691982 AGCGAGGGAAATAGAGGCTAC
1 AGCGAGGGAAGCAGAGGCTAA
50692003 AGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
50692019 CAGCGTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.43, T:0.05
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTAA
Found at i:50692387 original size:43 final size:43
Alignment explanation
Indices: 50692321--50692675 Score: 277
Period size: 43 Copynumber: 8.2 Consensus size: 43
50692311 ATCTGCCAAA
* * ** *
50692321 TTTAGTGGCGTTTTTGGTTAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
* * *
50692364 TTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
* ** ** *
50692407 TTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTTGGTTC
1 TTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
* * * * * *
50692450 TTTAGTGGCGTTTTGTGGTCGAAGTGCCACTATAGATCAGGGTC
1 TTTAGCGGCG-TTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
** * *
50692494 TATT-GCGGCGTTT-TAGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 T-TTAGCGGCGTTTGT-GGACAAAGCGCCGCTAAAGATCAGGGTC
* * *
50692537 TTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
* * * * * * ** *
50692580 TATT-GTGGCGTTTGAGAAAAAAACGCCGCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
* * * *
50692623 TATAGCGGCGCTTCTAGCACAAA-CGCCGCTAAAGATCAGGGTC
1 TTTAGCGGCGTTTGT-GGACAAAGCGCCGCTAAAGATCAGGGTC
50692666 TTTAGCGGCG
1 TTTAGCGGCG
50692676 CTTCCACTAA
Statistics
Matches: 241, Mismatches: 63, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
42 4 0.02
43 198 0.82
44 37 0.15
45 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGACAAAGCGCCGCTAAAGATCAGGGTC
Found at i:50692591 original size:130 final size:129
Alignment explanation
Indices: 50692321--50692592 Score: 309
Period size: 130 Copynumber: 2.1 Consensus size: 129
50692311 ATCTGCCAAA
* *
50692321 TTTAGTGGCGTTTTTGGTTAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCACTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAA
* * ** *
50692386 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTTGGTTC
66 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTC
* * * * **
50692450 TTTAGTGGCGTTTTGTGGTCGAAGTGCCACTATAGATCAGGGTCTATT-GCGGCGTTT-TAGGGG
1 TTTAGTGGCGTTTT-TGGTCAAAGCGCCACTAAAGATAAGGGTCT-TTAGCGGCGTTTGT-GGAA
* * * * *
50692513 AAAGCGCCGCTAAAGATTA-GGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGG
63 AAAGCGCCACTAAAGATCATGG-TCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGG
50692577 GTC
127 GTC
50692580 TATT-GTGGCGTTT
1 T-TTAGTGGCGTTT
50692593 GAGAAAAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
129 17 0.14
130 99 0.82
131 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (129 bp):
TTTAGTGGCGTTTTTGGTCAAAGCGCCACTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAA
GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTC
Found at i:50692614 original size:86 final size:86
Alignment explanation
Indices: 50692340--50692592 Score: 364
Period size: 87 Copynumber: 2.9 Consensus size: 86
50692330 GTTTTTGGTT
* * * ** * *
50692340 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTATAGATCAGGG
*
50692405 TCT-TTAGCGGCGTTTTTGGGG
66 TCTATT-GCGGCGTTTTAGGGG
* * *
50692426 AAAGCGCCGCTAAAGATTTGGTTCTTTAGTGGCGTTTTGTGGTCGAAGTGCCACTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCACTATAGATCAGG
50692491 GTCTATTGCGGCGTTTTAGGGG
65 GTCTATTGCGGCGTTTTAGGGG
*
50692513 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTATAGATCAGGG
*
50692578 TCTATTGTGGCGTTT
66 TCTATTGCGGCGTTT
50692593 GAGAAAAAAA
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
86 72 0.48
87 75 0.50
88 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCACTATAGATCAGGG
TCTATTGCGGCGTTTTAGGGG
Found at i:50692852 original size:22 final size:22
Alignment explanation
Indices: 50692824--50692866 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50692814 TTGCGGCGCT
* *
50692824 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
50692846 AAAAAGCACCGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
50692867 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:50697548 original size:15 final size:14
Alignment explanation
Indices: 50697527--50697562 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
50697517 ATGATCCTTA
*
50697527 ATAATTATCTTAAT
1 ATAATTATCCTAAT
50697541 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
50697556 ATAATTA
1 ATAATTA
50697563 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:50697887 original size:3 final size:3
Alignment explanation
Indices: 50697881--50697924 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
50697871 TTTTTTAATT
50697881 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
50697925 TATTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:50706343 original size:44 final size:43
Alignment explanation
Indices: 50706280--50706630 Score: 204
Period size: 44 Copynumber: 7.9 Consensus size: 43
50706270 CATTATGGTG
*
50706280 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCAC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * * * *
50706323 TAATCTTATCCCCCTAAAGTTGTAGTGGGGCAGA-TAGAAGTTAC
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTA-AAGCTAC
* * * * *
50706367 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGC
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA-C
* * * * *
50706412 GAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTGT
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGC--T--A---C
* * * * * * *
50706463 AGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCATATC-A-
1 A-ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * * * * * * **
50706505 AACCTTATCTCCCTGAAGTTGTAGTAGAGCAGGTTGAATATAC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * * *
50706548 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTGC
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTAC
* *
50706592 AAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA
1 -AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAA
50706631 ACAATGAGTC
Statistics
Matches: 245, Mismatches: 47, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
41 30 0.12
42 2 0.01
43 4 0.02
44 137 0.56
45 35 0.14
46 3 0.01
47 1 0.00
49 1 0.00
50 1 0.00
51 31 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTAC
Found at i:50708260 original size:39 final size:41
Alignment explanation
Indices: 50708200--50708286 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 41
50708190 ATCTTTCAAA
50708200 TTTTTACATATATATATTTTAAAACTG-TTTTATATGTTATT
1 TTTTTACATATATATATTTTAAAACTGTTTTTAT-TGTTATT
* *
50708241 TTTTTATAT-TATATA-TTTAAAATTGTTTTTATTGTTATT
1 TTTTTACATATATATATTTTAAAACTGTTTTTATTGTTATT
50708280 TATTTTA
1 T-TTTTA
50708287 GTTTTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
39 17 0.40
40 17 0.40
41 8 0.19
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (41 bp):
TTTTTACATATATATATTTTAAAACTGTTTTTATTGTTATT
Found at i:50711000 original size:19 final size:19
Alignment explanation
Indices: 50710976--50711019 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
50710966 TAAAAGTAAC
50710976 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
50710995 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
50711014 ACAACA
1 ACAACA
50711020 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:50713133 original size:27 final size:29
Alignment explanation
Indices: 50713076--50713134 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
50713066 TTTGTTTTAA
*
50713076 ATGTAGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTATATTTTAAAAATAAAAAATAT
50713105 ATGTAGTATATTTTAAAAATAAAAAATAT
1 ATGTAGTATATTTTAAAAATAAAAAATAT
50713134 A
1 A
50713135 GTTTTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.37
Consensus pattern (29 bp):
ATGTAGTATATTTTAAAAATAAAAAATAT
Found at i:50713153 original size:9 final size:9
Alignment explanation
Indices: 50713139--50713176 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
50713129 AATATAGTTT
50713139 TTATTCGAA
1 TTATTCGAA
50713148 TTATTCGAA
1 TTATTCGAA
50713157 TTATTCGAA
1 TTATTCGAA
50713166 TTATTCGAA
1 TTATTCGAA
50713175 TT
1 TT
50713177 TGAAAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:50715456 original size:3 final size:3
Alignment explanation
Indices: 50715448--50715490 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
50715438 ATATGTAGGT
*
50715448 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
50715491 CAAAATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50715490 original size:12 final size:12
Alignment explanation
Indices: 50715448--50715504 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
50715438 ATATGTAGGT
*
50715448 ATAATAATAATA
1 ATAATAAAAATA
*
50715460 AT-ATATAATATA
1 ATAATA-AAAATA
50715472 ATAATAAAAATA
1 ATAATAAAAATA
50715484 ATAATAACAAA-A
1 ATAATAA-AAATA
*
50715496 TTAATAAAA
1 ATAATAAAA
50715505 TAGATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 5 0.13
12 27 0.71
13 6 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAAAAATA
Found at i:50715490 original size:15 final size:15
Alignment explanation
Indices: 50715450--50715506 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
50715440 ATGTAGGTAT
*
50715450 AATAATAATAATATAT
1 AATAATAATAATA-AA
50715466 AAT-ATAATAATAAA
1 AATAATAATAATAAA
*
50715480 AATAATAATAACAAA
1 AATAATAATAATAAA
*
50715495 ATTAATAA-AATA
1 AATAATAATAATA
50715507 GATTAAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.19
15 26 0.72
16 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:50715747 original size:19 final size:21
Alignment explanation
Indices: 50715709--50715747 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
50715699 CTTTTTTTAA
*
50715709 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
50715730 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
50715748 GAAAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:50715975 original size:21 final size:21
Alignment explanation
Indices: 50715949--50716024 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
50715939 AATCATATCT
50715949 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
50715970 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
50715991 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
50716010 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
50716025 CCTCGAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.35
21 33 0.65
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:50719571 original size:22 final size:19
Alignment explanation
Indices: 50719537--50719586 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
50719527 TTAACCTAAC
50719537 TATTAAGTTATAATAATAAATA
1 TATTAA-TTATAA-AATAAA-A
50719559 TATTAATTAATAAAATAAAA
1 TATTAATT-ATAAAATAAAA
*
50719579 TTTTAATT
1 TATTAATT
50719587 TACTTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTAATTATAAAATAAAA
Found at i:50722477 original size:51 final size:52
Alignment explanation
Indices: 50722380--50722478 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 52
50722370 AACATGGATC
* *
50722380 TATATAGCAAATTAAGACGTCAAGTTGGTAGGTGGAAGTACATAAAACGAAT
1 TATATAGCAAATTAAGACGTCAAGTTGGTAAGTGGAAGTAAATAAAACGAAT
* * *
50722432 TATATAGCAACA-TAAGAGGT-AGGTTGTTAAGTGGAAGTAAATAAAAC
1 TATATAGCAA-ATTAAGACGTCAAGTTGGTAAGTGGAAGTAAATAAAAC
50722479 CTCAAATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 23 0.56
52 17 0.41
53 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.25
Consensus pattern (52 bp):
TATATAGCAAATTAAGACGTCAAGTTGGTAAGTGGAAGTAAATAAAACGAAT
Found at i:50722624 original size:7 final size:7
Alignment explanation
Indices: 50722612--50722636 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50722602 AAACCTTGGA
50722612 GTTTAAG
1 GTTTAAG
50722619 GTTTAAG
1 GTTTAAG
50722626 GTTTAAG
1 GTTTAAG
50722633 GTTT
1 GTTT
50722637 GAGTTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:50726943 original size:43 final size:43
Alignment explanation
Indices: 50726764--50726943 Score: 157
Period size: 43 Copynumber: 4.2 Consensus size: 43
50726754 TTACAAACAA
* ** **** *
50726764 AAACGCCACTAAAGACCATGTTCTTTAGCGGCGC-TTAAAGAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAT
** * *
50726806 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTCTCTT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAT
** * * *
50726849 AAGTGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAT
* * *
50726892 AAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTT-TCAT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT-TTCTCAT
50726935 AAACGCCGC
1 AAACGCCGC
50726944 AAACAAACAA
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
42 32 0.29
43 78 0.70
44 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAT
Found at i:50731123 original size:92 final size:88
Alignment explanation
Indices: 50731017--50731193 Score: 243
Period size: 92 Copynumber: 2.0 Consensus size: 88
50731007 CGCAAAAAAA
*
50731017 TTCATGTTGAACAAAACT-ACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTGTTTTTTA-TAA
1 TTCATGTTGAACAAAA-TAACGCCGTTTTGCTATGCT-AAATTTTTTTA-----TTTTTTAGTAA
50731080 ATTGATTTA-TTTTTGCGGCGTTTTTAAAT
59 ATTGATTTATTTTTTGCGGCGTTTTTAAAT
*
50731109 TTCATTTTGAACAAAATAACGCCGTTTTGCTATGCTAAATTTTTTTATTTTTTAGTAAATTGATT
1 TTCATGTTGAACAAAATAACGCCGTTTTGCTATGCTAAATTTTTTTATTTTTTAGTAAATTGATT
*
50731174 TATTTTTTGTGGCGTTTTTA
66 TATTTTTTGCGGCGTTTTTA
50731194 TAAAAAAATG
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
86 7 0.09
87 12 0.15
88 16 0.20
91 12 0.15
92 32 0.41
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (88 bp):
TTCATGTTGAACAAAATAACGCCGTTTTGCTATGCTAAATTTTTTTATTTTTTAGTAAATTGATT
TATTTTTTGCGGCGTTTTTAAAT
Found at i:50731225 original size:102 final size:104
Alignment explanation
Indices: 50731107--50731315 Score: 325
Period size: 104 Copynumber: 2.0 Consensus size: 104
50731097 GCGTTTTTAA
*
50731107 ATTTCATTTTGAACAAAATAACGCCGTTTTGCTATGCTAAA-TTTTTTT-ATTTTTTAGT-AAAT
1 ATTTCATTTTGAACAAAATAACGCCGTTTTGCTATGCCAAATTTTTTTTGATTTTTT-GTAAAAT
* * *
50731169 TGATTTATTTTTTGTGGCGTTTTTATAAAAAAATGGCGCT
65 TGATTTATTTTTTGCGGCGTTTTTATAAAAAAACGCCGCT
* *
50731209 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCCAAATTTTTTTTGATTTTTTTTAAAATT
1 ATTTCATTTTGAACAAAATAACGCCGTTTTGCTATGCCAAATTTTTTTTGATTTTTTGTAAAATT
*
50731274 GATTTATTTTTTGCGGCGTTTTTATTAAAAAACGCCGCT
66 GATTTATTTTTTGCGGCGTTTTTATAAAAAAACGCCGCT
50731313 ATT
1 ATT
50731316 GCTTATCTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
102 39 0.40
103 8 0.08
104 50 0.52
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.48
Consensus pattern (104 bp):
ATTTCATTTTGAACAAAATAACGCCGTTTTGCTATGCCAAATTTTTTTTGATTTTTTGTAAAATT
GATTTATTTTTTGCGGCGTTTTTATAAAAAAACGCCGCT
Found at i:50732133 original size:15 final size:14
Alignment explanation
Indices: 50732113--50732146 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
50732103 ATCCCTAACT
50732113 CTTAACCCCTAAACC
1 CTTAACCCCTAAA-C
50732128 CTTAACCCCTAAAC
1 CTTAACCCCTAAAC
50732142 CTTAA
1 CTTAA
50732147 ATCCCAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
CTTAACCCCTAAAC
Found at i:50732463 original size:14 final size:14
Alignment explanation
Indices: 50732444--50732470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50732434 AAAACCCAAC
50732444 CCCTAATCCATAAT
1 CCCTAATCCATAAT
50732458 CCCTAATCCATAA
1 CCCTAATCCATAA
50732471 ACTCTAAACC
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:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:50732477 original size:14 final size:14
Alignment explanation
Indices: 50732444--50732477 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50732434 AAAACCCAAC
*
50732444 CCCTAATCCATAAT
1 CCCTAATCCATAAA
50732458 CCCTAATCCATAAA
1 CCCTAATCCATAAA
*
50732472 CTCTAA
1 CCCTAA
50732478 ACCCATACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAATCCATAAA
Found at i:50732622 original size:275 final size:269
Alignment explanation
Indices: 50732005--50732573 Score: 774
Period size: 275 Copynumber: 2.1 Consensus size: 269
50731995 AATATATTTG
50732005 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
* *
50732070 AATCTAAACTCAAAACCTTAACTCGACCCCTAAATCCCTAACTCTTAACCCCTAAACCCTTAACC
66 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTCTTAACCCCTAAACCCTTAACC
* * * * * * **
50732135 CCTAAACCTTAAATCCCAACACTTAAACCATAATCCCTAATTCATAATTCCTAAATCCATACTCC
131 CCTAAACCTCAAATCCAAACACTTAAACCACAACCCCTAATCCATAATCCCTAAATCCATAAACC
* * * *
50732200 CTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATTAATCACATACCTTAAACT
196 CTAAACC-----ACAT-AACTCCTAAACCGGCCTTAAATATTAAATAAATCACATACCCTAAACC
50732265 AAAAACCCTAAACAA
255 AAAAACCCTAAACAA
50732280 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
* * *
50732345 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTTTTAACCCC--AGCACATCTAA
66 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTCTTAACCCCTAAAC-CCT-TAA
*
50732408 CCCCTAAACCTCAACTCCTAAAC-CTTAAAACC-CAACCCCTAATCCATAATCCCT-AATCCATA
129 CCCCTAAACCTCAAATCC-AAACACTT-AAACCACAACCCCTAATCCATAATCCCTAAATCCATA
* * * * *
50732470 AACTCTAAACC-CAT-ACTCCTTAAATCGGCCTTAAATCTTAGATAAATCATATACCCTAAACCA
192 AACCCTAAACCACATAACTCC-TAAACCGGCCTTAAATATTAAATAAATCACATACCCTAAACCA
50732533 AAAACCCTAAACAA
256 AAAACCCTAAACAA
*
50732547 ATTTATTATTATCTCTTTTTCAATTAT
1 ATTTATTATTATCTCTTTTACAATTAT
50732574 TTTAAATAAT
Statistics
Matches: 265, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
266 5 0.02
267 76 0.29
268 2 0.01
273 2 0.01
274 18 0.07
275 154 0.58
276 8 0.03
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (269 bp):
ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTCTTAACCCCTAAACCCTTAACC
CCTAAACCTCAAATCCAAACACTTAAACCACAACCCCTAATCCATAATCCCTAAATCCATAAACC
CTAAACCACATAACTCCTAAACCGGCCTTAAATATTAAATAAATCACATACCCTAAACCAAAAAC
CCTAAACAA
Found at i:50732768 original size:73 final size:73
Alignment explanation
Indices: 50732645--50732799 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 73
50732635 TATTTTTTTG
* * * * * *
50732645 GCCGCTAAATCCCCGAAAGCTCACAAAATGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCGGCGCTTAC
*
50732710 TTAAAAAC
66 TCAAAAAC
50732718 GCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCGGCGCTTAC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCGGCGCTTAC
50732783 TCAAAAAC
66 TCAAAAAC
*
50732791 GCCGATAAA
1 GCCGCTAAA
50732800 GCCCTAAGCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (73 bp):
GCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCGGCGCTTAC
TCAAAAAC
Found at i:50732901 original size:73 final size:73
Alignment explanation
Indices: 50732813--50732986 Score: 267
Period size: 73 Copynumber: 2.4 Consensus size: 73
50732803 CTAAGCATTA
* * * * *
50732813 GCGGCGCCTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTAT
50732878 GTTTTTTT
66 GTTTTTTT
*
50732886 GCGGCGCTTTCTTAAAAACGCCACTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTAT
*
50732951 TTTTTTTT
66 GTTTTTTT
* *
50732959 GCGGCACTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
50732987 GCACTAAGCA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 91 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (73 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTAT
GTTTTTTT
Found at i:50732903 original size:114 final size:114
Alignment explanation
Indices: 50732699--50732907 Score: 355
Period size: 114 Copynumber: 1.8 Consensus size: 114
50732689 ATGTTTTTTT
*
50732699 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAG
1 GCGGCGCCTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAG
50732764 GTTTTTTTGCGGCGCTTACTCAAAAACGCCGATAAAGCCCTAAGCATTA
66 GTTTTTTTGCGGCGCTTACTCAAAAACGCCGATAAAGCCCTAAGCATTA
* * * *
50732813 GCGGCGCCTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTAT
1 GCGGCGCCTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAG
* *
50732878 GTTTTTTTGCGGCGCTTTCTTAAAAACGCC
66 GTTTTTTTGCGGCGCTTACTCAAAAACGCC
50732908 ACTAAATCCC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 88 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCCTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAG
GTTTTTTTGCGGCGCTTACTCAAAAACGCCGATAAAGCCCTAAGCATTA
Found at i:50732960 original size:187 final size:187
Alignment explanation
Indices: 50732645--50733100 Score: 743
Period size: 187 Copynumber: 2.4 Consensus size: 187
50732635 TATTTTTTTG
*
50732645 GCCGCTAAATCCCCGAAAGCTCACAAAATGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
* *
50732710 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCG
66 TTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCG
* *
50732775 GCGCTTACTCAAAAACGCCGATAAAGCCCTAAGCATTAGCGGCGCCTTCTTAAAAAC
131 GCACTTACTCAAAAACGCCGATAAAGCACTAAGCATTAGCGGCGCCTTCTTAAAAAC
50732832 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
* * **
50732897 TTAAAAACGCCACTAAATCCCCAAAAGCCCACAAAAC-AGCGTCGTTGGGCTTATTTTTTTTTGC
66 TTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGA-CGTCGTTGGGATTAGGTTTTTTTGC
* * * *
50732961 GGCACTTTCTCAAAAACGCCGCTAAAGCACTAAGCATTAGTGGCGCTTTCTTAAAAAC
130 GGCACTTACTCAAAAACGCCGATAAAGCACTAAGCATTAGCGGCGCCTTCTTAAAAAC
* * *
50733019 GCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
*
50733084 TCAAAAACGCCGCTAAA
66 TTAAAAACGCCGCTAAA
50733101 GCCCTGAGCA
Statistics
Matches: 250, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
186 1 0.00
187 249 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (187 bp):
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
TTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGACGTCGTTGGGATTAGGTTTTTTTGCG
GCACTTACTCAAAAACGCCGATAAAGCACTAAGCATTAGCGGCGCCTTCTTAAAAAC
Found at i:50733088 original size:114 final size:114
Alignment explanation
Indices: 50732888--50733186 Score: 535
Period size: 114 Copynumber: 2.6 Consensus size: 114
50732878 GTTTTTTTGC
* * *
50732888 GGCGCTTTCTTAAAAACGCCACTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTATTT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGT
50732953 TTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAAGCACTAAGCATTAGT
66 TTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAAGCACTAAGCATTAGT
50733002 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGT
* * *
50733067 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGT
66 TTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAAGCACTAAGCATTAGT
*
50733116 GGCGCTTTCTTAAAAACGCCGTTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGT
50733181 TTTTTT
66 TTTTTT
50733187 TACGCCGCTA
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (114 bp):
GGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGT
TTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAAGCACTAAGCATTAGT
Done.