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 177 of 204
Found at i:52341080 original size:26 final size:25
Alignment explanation
Indices: 52341041--52341090 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
52341031 TCACAGATAG
52341041 TTAAATACTTTATTAAAAAAATTTA
1 TTAAATACTTTATTAAAAAAATTTA
* * *
52341066 TTAAATTATTTTATTTAAAACATTT
1 TTAAA-TACTTTATTAAAAAAATTT
52341091 TACTCCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAATACTTTATTAAAAAAATTTA
Found at i:52343607 original size:3 final size:3
Alignment explanation
Indices: 52343599--52343631 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
52343589 TTGTTTTGAC
52343599 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52343632 GAATGCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:52353682 original size:22 final size:22
Alignment explanation
Indices: 52353634--52353682 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
52353624 CGAAAAATCG
*
52353634 ATTTAATTTAACATATATTTTA
1 ATTTATTTTAACATATATTTTA
52353656 A-TTATTTTAA-ATATATTTTTA
1 ATTTATTTTAACATATA-TTTTA
52353677 ATTTAT
1 ATTTAT
52353683 AATATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATTTTAACATATATTTTA
Found at i:52353880 original size:90 final size:88
Alignment explanation
Indices: 52353735--52353925 Score: 213
Period size: 90 Copynumber: 2.2 Consensus size: 88
52353725 AAAAAAGAAG
* * * * *
52353735 AAGCAATTAAG-TCTTCTTTTTTTTTGCGCTCAATCGAGCACTTAAATTTTTAAAATACATAAAA
1 AAGCAATTAAGCCCTTATTTTTTTTTGCACTCAATCGAGCACTTAAACTTTCAAAATACATAAAA
* * * *
52353799 AAGGCTTTCAAACTTTTTCAAAAA
66 AAGACTCTCAAAATTCTTC-AAAA
* * * * * * *
52353823 AATCAATTAAGCCCTTATTTTTTTGTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAA
1 AAGCAATTAAGCCCTTATTTTTTT-TTGCACTCAATCGAGCACTTAAACTTTCAAAATACATAAA
52353888 AAAGACTCTCAAAATTCTTCAAAA
65 AAAGACTCTCAAAATTCTTCAAAA
52353912 AAGCAATTAAGCCC
1 AAGCAATTAAGCCC
52353926 CTGCTCTTAT
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
88 10 0.12
89 27 0.32
90 47 0.56
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (88 bp):
AAGCAATTAAGCCCTTATTTTTTTTTGCACTCAATCGAGCACTTAAACTTTCAAAATACATAAAA
AAGACTCTCAAAATTCTTCAAAA
Found at i:52354005 original size:18 final size:19
Alignment explanation
Indices: 52353957--52354005 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
52353947 AAAAATAATT
52353957 ATAAAAA-ATAAATTTTAG
1 ATAAAAATATAAATTTTAG
*
52353975 AT-AAATTATTAAATTTTA-
1 ATAAAAATA-TAAATTTTAG
52353993 ATAAAAATATAAA
1 ATAAAAATATAAA
52354006 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.12
18 9 0.35
19 14 0.54
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAATATAAATTTTAG
Found at i:52354015 original size:18 final size:18
Alignment explanation
Indices: 52353993--52354061 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
52353983 TTAAATTTTA
52353993 ATAAAAATATAAAAAAATT
1 ATAAAAATAT-AAAAAATT
* *
52354012 -TAAAATTATTAAAAATT
1 ATAAAAATATAAAAAATT
52354029 ATAAAAA-ACGTAAAAAA-T
1 ATAAAAATA--TAAAAAATT
*
52354047 AAAAAAATTATAAAA
1 ATAAAAA-TATAAAA
52354062 TGCATCAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 8 0.20
18 25 0.62
19 6 0.15
20 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (18 bp):
ATAAAAATATAAAAAATT
Found at i:52354016 original size:9 final size:10
Alignment explanation
Indices: 52354013--52354061 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
52354003 AAAAAAATTT
*
52354013 AAAATTATTA
1 AAAATTATAA
52354023 AAAATTATAA
1 AAAATTATAA
**
52354033 AAAA-CGTAA
1 AAAATTATAA
52354042 AAAA-TA-AA
1 AAAATTATAA
52354050 AAAATTATAA
1 AAAATTATAA
52354060 AA
1 AA
52354062 TGCATCAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 6 0.19
9 9 0.28
10 17 0.53
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:52354327 original size:10 final size:10
Alignment explanation
Indices: 52354314--52354395 Score: 62
Period size: 10 Copynumber: 8.3 Consensus size: 10
52354304 CTTTATAAAA
52354314 TTTTATAATT
1 TTTTATAATT
* *
52354324 TTTTTTCATAT
1 TTTTATAAT-T
* *
52354335 TTCTAT-ATA
1 TTTTATAATT
52354344 TTTTA-AATT
1 TTTTATAATT
52354353 TTTTATAA-T
1 TTTTATAATT
*
52354362 TTTTATATTT
1 TTTTATAATT
*
52354372 TTTTATGATT
1 TTTTATAATT
*
52354382 TTTTCCTAATT
1 TTTT-ATAATT
52354393 TTT
1 TTT
52354396 AATATTTTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
9 19 0.35
10 24 0.44
11 12 0.22
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:52354359 original size:18 final size:18
Alignment explanation
Indices: 52354338--52354383 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
52354328 TTCATATTTC
52354338 TATATATTTTAAATTTTT
1 TATATATTTTAAATTTTT
*
52354356 TATA-ATTTTTATATTTTT
1 TATATA-TTTTAAATTTTT
52354374 T-TATGATTTT
1 TATAT-ATTTT
52354384 TTCCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 20 0.83
19 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TATATATTTTAAATTTTT
Found at i:52359288 original size:33 final size:33
Alignment explanation
Indices: 52359246--52359319 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
52359236 AATATTAAGG
* ** *
52359246 CAAATATTTCTAGAGCTACTAATGAATCATTTA
1 CAAATATTTCTAAAGCTACTAACAAAACATTTA
52359279 CAAATATTTCTAAAGCTACTAACAAAACATTTA
1 CAAATATTTCTAAAGCTACTAACAAAACATTTA
52359312 CAAA-ATTT
1 CAAATATTT
52359320 GTTCTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (33 bp):
CAAATATTTCTAAAGCTACTAACAAAACATTTA
Found at i:52362787 original size:22 final size:20
Alignment explanation
Indices: 52362762--52362802 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
52362752 TTCATGAAAT
52362762 ATAATTTAATTATCATAAAAAA
1 ATAATTT-ATTA-CATAAAAAA
*
52362784 ATAATTTTTTACATAAAAA
1 ATAATTTATTACATAAAAA
52362803 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATTTATTACATAAAAAA
Found at i:52378352 original size:28 final size:29
Alignment explanation
Indices: 52378302--52378362 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
52378292 ACCATATTTT
* * *
52378302 AAATAAAGACATAAAGTTAAAATAATCTA
1 AAATAAAGAAATAAAGTAAAAATAATATA
* *
52378331 AAATAATGAAATAAA-TAAAAATTATATA
1 AAATAAAGAAATAAAGTAAAAATAATATA
52378359 AAAT
1 AAAT
52378363 TCAATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (29 bp):
AAATAAAGAAATAAAGTAAAAATAATATA
Found at i:52396345 original size:13 final size:13
Alignment explanation
Indices: 52396327--52396358 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52396317 TTTCCAGCAA
52396327 TTATGAATTTATT
1 TTATGAATTTATT
52396340 TTATGAATTTATT
1 TTATGAATTTATT
*
52396353 TGATGA
1 TTATGA
52396359 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:52396636 original size:98 final size:99
Alignment explanation
Indices: 52396449--52396690 Score: 307
Period size: 98 Copynumber: 2.4 Consensus size: 99
52396439 ACATGGGTAA
52396449 AGAGATCCCATGTAAGACCATGTCTGGGA-ATGGCATTGGCATCTTAAGATCATGAGAGGTCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCATC-T-AGATCATGAGAGGTCCCT
* *
52396513 GTAACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 ATAACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * * *
52396550 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCA-C-CGA-GATGA-AGGTCCCTAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCATCTAGATCATGAGAGGTCCCTAT
52396611 AAGACCATGTCTGGGACATGGCATGGGCACCATCACG
65 -A-ACCATGTCTGGGACATGGCATGGGCACCATCACG
*
52396648 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCTTGGCAT
52396691 GTTATTATCA
Statistics
Matches: 125, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
96 9 0.07
97 6 0.05
98 41 0.33
99 30 0.24
101 28 0.22
102 11 0.09
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (99 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCTTGGCATCTAGATCATGAGAGGTCCCTATA
ACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:52396640 original size:48 final size:50
Alignment explanation
Indices: 52396449--52396683 Score: 241
Period size: 48 Copynumber: 4.7 Consensus size: 50
52396439 ACATGGGTAA
* * * *
52396449 AGAGATCCCATGTAAGACCATGTCTGGGA-ATGGCATTGGCATCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C---CGA-GATG
*
52396503 AGAGGTCCC-TGT-A-ACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
52396550 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
52396600 A-AGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GATG
**
52396648 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
52396684 TTGGCATGTT
Statistics
Matches: 155, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
47 12 0.08
48 38 0.25
49 8 0.05
50 36 0.23
51 38 0.25
52 12 0.08
53 3 0.02
54 8 0.05
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:52396680 original size:51 final size:49
Alignment explanation
Indices: 52396449--52396683 Score: 221
Period size: 51 Copynumber: 4.7 Consensus size: 49
52396439 ACATGGGTAA
* * * *
52396449 AGAGATCCCATGTAAGACCATGTCTGGGA-ATGGCATTGGCATCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C----CA-CACG
*
52396503 AGAGGTCCC-TGT-A-ACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC-ACACG
* * * * *
52396550 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC-ACACG
*
52396600 A-AGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCA-CACG
**
52396648 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
52396684 TTGGCATGTT
Statistics
Matches: 154, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
47 12 0.08
48 37 0.24
49 8 0.05
50 36 0.23
51 38 0.25
52 12 0.08
53 3 0.02
54 8 0.05
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCACACG
Found at i:52403670 original size:29 final size:30
Alignment explanation
Indices: 52403611--52403668 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
52403601 TCCGAGCCTT
*
52403611 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
52403641 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
52403669 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:52403898 original size:13 final size:13
Alignment explanation
Indices: 52403880--52403911 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52403870 TTTCCAGCAA
52403880 TTATGAATTTATT
1 TTATGAATTTATT
52403893 TTATGAATTTATT
1 TTATGAATTTATT
*
52403906 TGATGA
1 TTATGA
52403912 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:52404119 original size:50 final size:50
Alignment explanation
Indices: 52404006--52404247 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
52403996 ATTTGGGTAA
* * *
52404006 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
52404062 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
52404112 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
52404162 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
52404212 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
52404248 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:52404195 original size:100 final size:103
Alignment explanation
Indices: 52404006--52404255 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
52403996 ATTTGGGTAA
52404006 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
52404071 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
52404112 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
52404174 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
52404212 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
52404256 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:52405764 original size:109 final size:107
Alignment explanation
Indices: 52405570--52405769 Score: 258
Period size: 109 Copynumber: 1.9 Consensus size: 107
52405560 CAATTTGGCT
* *
52405570 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGTACGTTCCTCAAATTTCCAAACGCAA
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCAAATTTCCAAACGCAA
* *
52405635 AACATTGCCTTATTTTG-AAAATTTTAAAAGGATATTAAGTC
66 AACATTGCCTCATTTAGAAAAATTTTAAAAGGATATTAAGTC
* * * * * *
52405676 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACATTATGGCACGTTTTCTCGAATTTCCAAATG
1 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCAAATTTCCAAACG
* *
52405741 CTAAATATTGCCTCATTTAGAAAAATTTT
63 CAAAACATTGCCTCATTTAGAAAAATTTT
52405770 CTTTTTTGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 14 0.18
108 24 0.31
109 32 0.41
110 8 0.10
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (107 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCAAATTTCCAAACGCAA
AACATTGCCTCATTTAGAAAAATTTTAAAAGGATATTAAGTC
Found at i:52406042 original size:4 final size:4
Alignment explanation
Indices: 52406033--52406079 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
52406023 TATGAAAATA
52406033 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
52406080 ATTTTTAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:52406359 original size:26 final size:24
Alignment explanation
Indices: 52406329--52406385 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
52406319 ATGTATATAC
52406329 ATATATATATATGAAAATAAAAAAAA
1 ATATATAT-TAT-AAAATAAAAAAAA
* * * *
52406355 ATATAGATTATAGAATATAAAAAT
1 ATATATATTATAAAATAAAAAAAA
52406379 ATATATA
1 ATATATA
52406386 AGTAGGTGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 16 0.62
25 3 0.12
26 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (24 bp):
ATATATATTATAAAATAAAAAAAA
Found at i:52408276 original size:44 final size:44
Alignment explanation
Indices: 52408219--52409311 Score: 574
Period size: 44 Copynumber: 24.8 Consensus size: 44
52408209 GACTTGATGT
* *
52408219 GATCTGCTCCACTGTAATCTCAGGAAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
52408263 AATCTACTCCACTGTAACCTCAGGGAGATAAG-T-TCTGAAATTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTG----GCTTC
* * * *
52408309 GATCTACTCCACTGTAACCTCAAGGAGATAAGA-C-CT-GATGC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * *** *
52408350 GATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TGGCTTC
* * * * ** *
52408394 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* ** *
52408437 GATCTGTTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *
52408481 AATCTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* * * *
52408527 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * * ** *
52408568 GATCTACTCTACTATAACTTCAGAGAGATAAGAT-AGTGTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
52408611 GATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *** *
52408655 AAGCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *
52408699 AATCCGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* *
52408745 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTC
* * * * * * *
52408789 AACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * *
52408833 GATCTGCTCCTCTGTAATCTTAGGGAGATAAGATCTGAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* *
52408879 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTC
* * * * * * *
52408923 AATCTGCCCCGCTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * *
52408967 GATCTACTCCTCTGTAATCTCAGGGAGATAAGA-C-CTGAAATTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTG----GCTTC
* * *
52409013 GGTATACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGC---TTC
* * * * * * *
52409057 AACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
52409101 GATCTGCTCCACTGTAACATCAGGGAGATAAGATCTAAAAT-TCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTC
* * * * *
52409147 GGTCTACTCCACTGTAACCTCAAGGAGATAAGA-C-CT-GATGC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * * * *** *
52409188 GATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TGGCTTC
* * * * * *** *
52409232 AAT-TCGCTCCACTGTAACTTTAGGGAGATAGGATCTTTTATTTT
1 GATCT-GCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
* * *
52409276 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATCT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
52409312 GAAATTCTTC
Statistics
Matches: 806, Mismatches: 187, Indels: 112
0.73 0.17 0.10
Matches are distributed among these distances:
41 98 0.12
42 11 0.01
43 63 0.08
44 412 0.51
45 9 0.01
46 203 0.25
47 10 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
Found at i:52408440 original size:87 final size:86
Alignment explanation
Indices: 52408199--52409309 Score: 394
Period size: 90 Copynumber: 12.7 Consensus size: 86
52408189 ACTACTGCTT
* * ** *
52408199 AGGGAGATAAGA--CTTGATGT-GATCTGCTCCACTGTAA-TCTCAGGAAGATAAGATCTCTGGC
1 AGGGAGATAAGATCCTTGAT-TCAATCTGCTCCACTGTAACT-TCAGGGAGATAAGAT-AGTGTC
* * *
52408260 TTCAATCTACTCCACTGTAACCTC
63 TTCGATCTACTCTACTGTAACTTC
* * * * * **
52408284 AGGGAGATAAG-TTC-TGAAATTCTTCGATCTACTCCACTGTAACCTCAAGGAGATAAGA-CCTG
1 AGGGAGATAAGATCCTTG--A---TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTG
* *
52408346 -ATGCGATCTACTCTACTGTAACTTC
61 TCTTCGATCTACTCTACTGTAACTTC
* * * * *
52408371 AGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTT
1 AGGGAGATAAGATCCTTGA-TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTT
** *
52408436 CGATCTGTTCTGCTGTAA-TCTC
65 CGATCTACTCTACTGTAACT-TC
* * * * *
52408458 AGGGAGATAAGATCTCTGGCTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAAT
1 AGGGAGATAAGATC-CTTGATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTG----
* * *
52408522 TCTTCGGTCTACTCCACTGTAACCTC
61 TCTTCGATCTACTCTACTGTAACTTC
* * * * * *
52408548 AGGGAGATAAGA-CC-TGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATAGTGTCTTC
1 AGGGAGATAAGATCCTTGATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTC
* ** *
52408611 GATCTGCTCCGCTATAA-TCTC
66 GATCTACTCTACTGTAACT-TC
* * * * ** * *
52408632 AGGGAGATAAGATCTCTGGCTTCAAGCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTTATT
1 AGGGAGATAAGATC-CTTGATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGT-CT
** ** * *
52408697 TTAATCCGCTCCACTGTAACCTC
64 TCGATCTACTCTACTGTAACTTC
** * * * *
52408720 AGGGAGATAAGAT-C-TGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGC
1 AGGGAGATAAGATCCTTG--A---TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-TAGT
* * * * * * *
52408783 ATATTCAACCTGCCCCACTGTAACTTC
60 GTCTTCGATCTACTCTACTGTAACTTC
* * * * * *
52408810 AGGGAGATAAGGT-TTGTGGCTTCGATCTGCTCCTCTGTAATCTT-AGGGAGATAAGAT-CTGAA
1 AGGGAGATAAGATCCT-T-GATTCAATCTGCTCCACTGTAA-CTTCAGGGAGATAAGATAGTG--
* * *
52408872 ATTCTTCGGTCTACTCCACTGTAACCTC
61 --TCTTCGATCTACTCTACTGTAACTTC
* * * * *
52408900 AGGGAGATAAGA--CTTGCATATTCAATCTGCCCCGCTGTAACTTCAGGGAGATAAGGTTTGTGG
1 AGGGAGATAAGATCCTTG---ATTCAATCTGCTCCACTGTAACTTCAGGGAGATAA-GATAGTGT
52408963 CTTCGATCTACTCCT-CTGTAA-TCTC
62 CTTCGATCTACT-CTACTGTAACT-TC
* * * *
52408988 AGGGAGATAAGA-CC-TGAAATTC-TTCGGTATACTCCACTGTAACCTCAGGGAGATAAGACTTG
1 AGGGAGATAAGATCCTTG--ATTCAATC----TGCTCCACTGTAACTTCAGGGAGATAAGA-TAG
** * * * * * *
52409050 CATATTCAACCTGCCCCACTGTAACTTC
59 TGTCTTCGATCTACTCTACTGTAACTTC
* * * * * *
52409078 AGGGAGATAAGGT-TTGTGGCTTCGATCTGCTCCACTGTAACATCAGGGAGATAAGATCTAAAAT
1 AGGGAGATAAGATCCT-T-GATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA--T--AGT
* * *
52409142 -TCTTCGGTCTACTCCACTGTAACCTC
60 GTCTTCGATCTACTCTACTGTAACTTC
* * * * * * ** * *
52409168 AAGGAGATAAGA-CC-TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
1 AGGGAGATAAGATCCTTGATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGT-CTT
** * * *
52409231 TAAT-TCGCTCCACTGTAACTTT
65 CGATCT-ACTCTACTGTAACTTC
* * * * *
52409253 AGGGAGATAGGATCTTTTATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAAGAT
1 AGGGAGATAAGATCCTTGA-TTCAATCTGCTCCACTGTAACT-TCAGGGAGATAAGAT
52409310 CTGAAATTCT
Statistics
Matches: 767, Mismatches: 186, Indels: 143
0.70 0.17 0.13
Matches are distributed among these distances:
83 1 0.00
84 34 0.04
85 71 0.09
86 11 0.01
87 199 0.26
88 159 0.21
89 15 0.02
90 261 0.34
91 8 0.01
92 6 0.01
93 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (86 bp):
AGGGAGATAAGATCCTTGATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTCTTC
GATCTACTCTACTGTAACTTC
Found at i:52408468 original size:218 final size:218
Alignment explanation
Indices: 52408222--52409004 Score: 796
Period size: 218 Copynumber: 3.6 Consensus size: 218
52408212 TTGATGTGAT
* *
52408222 CTGCTCCACTGTAATCTCAGGAAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGG
1 CTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
* * *
52408287 GAGATAAGTTCTGAAATTCTTCGATCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGA
66 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
* * * * * *
52408352 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCA
131 TCTACTCTACTATAACTTCAGAGAGATAAGATACTGT-CTTCAATCCGCTCCACTATAATC-TCA
* * * * *
52408416 GGGAGATAGGAT-AGTGTCTTCGAT
194 GGGAGATAAGATCACTGGCTTCAAG
* ** *
52408440 CTGTTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGTTCCACTGTAACCTCAGG
1 CTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
52408505 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
66 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
* * * *
52408570 TCTACTCTACTATAACTTCAGAGAGATAAGATAGTGTCTTCGATCTGCTCCGCTATAATCTCAGG
131 TCTACTCTACTATAACTTCAGAGAGATAAGATACTGTCTTCAATCCGCTCCACTATAATCTCAGG
*
52408635 GAGATAAGATCTCTGGCTTCAAG
196 GAGATAAGATCACTGGCTTCAAG
* * *** * *
52408658 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACCTCAGG
1 CTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
* *
52408723 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATT
66 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG---ATG
* * * * * * * * * * * * *
52408788 CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGT-TTGTGGCTTCGATCTGCTCCTCTGTAATC
128 CGATCTACTCTACTATAACTTCAGAGAGATAAGATACTGT--CTTCAATCCGCTCCACTATAATC
* * * *
52408852 TTAGGGAGATAAGATCTGAAAT-TCTTC-GG
191 TCAGGGAGATAAGATC---ACTGGCTTCAAG
* * * * *
52408881 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTCAATCTGCCCCGCTGTAACTT
1 -CTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC---TTCAATCTGCTCCACTGTAACCT
* * * * * *
52408943 CAGGGAGATAAGGTTTG---TGGCTTCGATCTACTCCTCTGTAATCTCAGGGAGATAAGACCTGA
62 CAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
52409005 AATTCTTCGG
Statistics
Matches: 481, Mismatches: 69, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
217 29 0.06
218 274 0.57
219 1 0.00
220 3 0.01
221 30 0.06
222 74 0.15
223 3 0.01
224 66 0.14
225 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
CTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
TCTACTCTACTATAACTTCAGAGAGATAAGATACTGTCTTCAATCCGCTCCACTATAATCTCAGG
GAGATAAGATCACTGGCTTCAAG
Found at i:52408801 original size:134 final size:134
Alignment explanation
Indices: 52408271--52409180 Score: 841
Period size: 134 Copynumber: 6.9 Consensus size: 134
52408261 TCAATCTACT
* * * *
52408271 CCACTGTAACCTCAGGGAGATAA-GTTCTGAAAT-TCTTCGATCTACTCCACTGTAACCTCAAGG
1 CCACTGTAACTTCAGGGAGATAAGGTT-TG---TGGCTTCGATCTGCTCCACTGTAACCTCAGGG
* * * * * * *
52408334 AGATAAGACCTG--A---TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT-TAT-T
62 AGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA--CTTGCATAT
* *
52408392 TTAATCC-GCT
125 TCAA-CCTGCC
* * * * ** *
52408402 CCACTGTAACTTCAGGGAGAT-AGGATAGTGTCTTCGATCTGTTCTGCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGAT
* * ** ** * **
52408466 AAGATCT---CTGGCTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGA-TCTG-AAATTCTT
66 AAGATCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACT-TGCATATTCAA
* *
52408526 CGGTCTACT
129 C---CTGCC
* *** * * * * *
52408535 CCACTGTAACCTCAGGGAGATAAGACCTGAT-G---CGATCTACTCTACTATAACTTCAGAGAGA
1 CCACTGTAACTTCAGGGAGATAAGGTTTG-TGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGA
* * * * * *
52408596 TAAGA--T--AGTGTCTTCGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTCTGGC---TT
65 TAAGATCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATT
* *
52408654 CAAGCTGCT
126 CAACCTGCC
* * *** ** *
52408663 CCACTGTAACCTCAGGGAGATAAGATCTT-TTATTTTAATCCGCTCCACTGTAACCTCAGGGAGA
1 CCACTGTAACTTCAGGGAGATAAGGT-TTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGA
52408727 TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC
65 TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC
52408792 CTGCC
130 CTGCC
* * *
52408797 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTTAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGAT
*
52408862 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAATC
66 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
52408927 TGCC
131 TGCC
* * * *
52408931 CCGCTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTACTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGAT
* *
52408996 AAGACCTGAAATTCTTCGGTATACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
52409061 TGCC
131 TGCC
*
52409065 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAACATCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGAT
* *
52409130 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGAC
66 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
52409181 CTGATGCGAT
Statistics
Matches: 653, Mismatches: 93, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
127 2 0.00
128 64 0.10
129 5 0.01
130 38 0.06
131 109 0.17
132 5 0.01
133 28 0.04
134 399 0.61
135 3 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (134 bp):
CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCACTGTAACCTCAGGGAGAT
AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
TGCC
Found at i:52410592 original size:7 final size:7
Alignment explanation
Indices: 52410580--52410641 Score: 124
Period size: 7 Copynumber: 8.9 Consensus size: 7
52410570 TAGCCTCTCT
52410580 ATTTTTC
1 ATTTTTC
52410587 ATTTTTC
1 ATTTTTC
52410594 ATTTTTC
1 ATTTTTC
52410601 ATTTTTC
1 ATTTTTC
52410608 ATTTTTC
1 ATTTTTC
52410615 ATTTTTC
1 ATTTTTC
52410622 ATTTTTC
1 ATTTTTC
52410629 ATTTTTC
1 ATTTTTC
52410636 ATTTTT
1 ATTTTT
52410642 TTTTGGACTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTC
Found at i:52411184 original size:22 final size:23
Alignment explanation
Indices: 52411128--52411184 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
52411118 TTTTATCATT
52411128 ATTTTTTTAAAAAAAGTGATAATTA
1 ATTTTTTT--AAAAAGTGATAATTA
* * *
52411153 ATATTGTTAAATAGTGAT-ATTA
1 ATTTTTTTAAAAAGTGATAATTA
52411175 ATTTTTTTAA
1 ATTTTTTTAA
52411185 TTAATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 12 0.44
23 9 0.33
25 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTTTTTAAAAAGTGATAATTA
Found at i:52417476 original size:16 final size:16
Alignment explanation
Indices: 52417455--52417485 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52417445 TTATAGGTTC
52417455 CAGAACTCTCTTTTTT
1 CAGAACTCTCTTTTTT
*
52417471 CAGAACTTTCTTTTT
1 CAGAACTCTCTTTTT
52417486 AATATCTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (16 bp):
CAGAACTCTCTTTTTT
Found at i:52424844 original size:15 final size:15
Alignment explanation
Indices: 52424824--52424864 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
52424814 TGATAAACTG
52424824 AAAATTAAGTGCGGA
1 AAAATTAAGTGCGGA
* *
52424839 AAAATTAAGTACTGA
1 AAAATTAAGTGCGGA
*
52424854 AAATTTAAGTG
1 AAAATTAAGTG
52424865 GTGAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.27
Consensus pattern (15 bp):
AAAATTAAGTGCGGA
Found at i:52431018 original size:63 final size:63
Alignment explanation
Indices: 52430923--52431056 Score: 180
Period size: 63 Copynumber: 2.1 Consensus size: 63
52430913 ACAAAAAATG
* * * *
52430923 AATGGAAATGGAGAAATGGGAAACCTTTGAAATGATTATGGTTTTCTCCAAAATGAAAATGAA
1 AATGAAAATGGAGAAATGAGAAACATTTGAAATGAATATGGTTTTCTCCAAAATGAAAATGAA
* * *
52430986 AATGAAAATGGAGAAAT-AGAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAG
1 AATGAAAATGGAGAAATGAGAAACATTT-GAAATGAATATGGTTTTCTCCAAAATGAAAATGAA
*
52431049 TATGAAAA
1 AATGAAAA
52431057 ATGAAAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 7 0.11
63 55 0.89
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.27
Consensus pattern (63 bp):
AATGAAAATGGAGAAATGAGAAACATTTGAAATGAATATGGTTTTCTCCAAAATGAAAATGAA
Found at i:52439486 original size:22 final size:23
Alignment explanation
Indices: 52439447--52439505 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
52439437 TATTATATTT
* *
52439447 TTATATATATTTAAAATATTTAT-A
1 TTATAT-TATTT-TAATATTAATAA
52439471 TTATATTATTTTAATATTAATAA
1 TTATATTATTTTAATATTAATAA
*
52439494 TTTTATT-TTTTA
1 TTATATTATTTTA
52439506 TTTGTTGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 13 0.42
23 12 0.39
24 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATTATTTTAATATTAATAA
Found at i:52439745 original size:19 final size:19
Alignment explanation
Indices: 52439723--52439775 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
52439713 ATTTTGAACG
52439723 AACCTAATATTTTTGTCCA
1 AACCTAATATTTTTGTCCA
52439742 AACC---TA-TTTT-T-CA
1 AACCTAATATTTTTGTCCA
*
52439755 AATCTAATATTTTTGTCCA
1 AACCTAATATTTTTGTCCA
52439774 AA
1 AA
52439776 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 12
0.68 0.03 0.30
Matches are distributed among these distances:
13 5 0.19
14 1 0.04
15 4 0.15
16 4 0.15
17 4 0.15
18 1 0.04
19 8 0.30
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (19 bp):
AACCTAATATTTTTGTCCA
Found at i:52439763 original size:32 final size:29
Alignment explanation
Indices: 52439726--52439786 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 29
52439716 TTGAACGAAC
52439726 CTAATATTTTTGTCCAAACCTATTTTTCAAAT
1 CTAATATTTTTGTCCAAA--TATTTTT-AAAT
52439758 CTAATATTTTTGTCCAAATATTTTTAAAT
1 CTAATATTTTTGTCCAAATATTTTTAAAT
52439787 TTTAAGTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 4 0.14
30 7 0.24
32 18 0.62
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (29 bp):
CTAATATTTTTGTCCAAATATTTTTAAAT
Found at i:52446789 original size:3 final size:3
Alignment explanation
Indices: 52446781--52446810 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
52446771 CAATTGGATA
*
52446781 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52446811 CCCCCAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52453213 original size:15 final size:16
Alignment explanation
Indices: 52453193--52453222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52453183 TAATTCCAAA
52453193 TTTTTT-AAAATTTAT
1 TTTTTTAAAAATTTAT
52453208 TTTTTTAAAAATTTA
1 TTTTTTAAAAATTTA
52453223 ATCATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTTAAAAATTTAT
Found at i:52456175 original size:32 final size:32
Alignment explanation
Indices: 52456134--52456198 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
52456124 TTTTGGAGTT
52456134 TTTACGTATCGGGAATTCGATACATCGTGTCC
1 TTTACGTATCGGGAATTCGATACATCGTGTCC
52456166 TTTACGTATCGGGAATTCGATACATCGTGTCC
1 TTTACGTATCGGGAATTCGATACATCGTGTCC
52456198 T
1 T
52456199 AACTTACTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (32 bp):
TTTACGTATCGGGAATTCGATACATCGTGTCC
Found at i:52459642 original size:21 final size:21
Alignment explanation
Indices: 52459618--52459657 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52459608 AGTCAAAAGG
* *
52459618 AAAATGAAAAAATCAAAAATC
1 AAAATAAAAAAAACAAAAATC
52459639 AAAATAAAAAAAACAAAAA
1 AAAATAAAAAAAACAAAAA
52459658 AAAGAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAATAAAAAAAACAAAAATC
Found at i:52459661 original size:45 final size:43
Alignment explanation
Indices: 52459612--52459764 Score: 112
Period size: 45 Copynumber: 3.4 Consensus size: 43
52459602 AGTCAAAGTC
*
52459612 AAAAGGAAAATGAAAAAATCAAAAATCAAAATAAAAAAAACAAA
1 AAAAAGAAAATGAAAAAATC-AAAATCAAAATAAAAAAAACAAA
* * * ** *
52459656 AAAAAGAAAGAAGAAAAAAATCAAAATGAAAATGAAAATGAGAAA
1 AAAAAGAAA-ATG-AAAAAATCAAAATCAAAATAAAAAAAACAAA
* * * *
52459701 AAGAAAGAAGAATGAAAAAAT-AGAAATCTAGATGAAAAAATCAGAA
1 AA-AAAGAA-AATGAAAAAATCA-AAATCAAAATAAAAAAAACA-AA
52459747 TGAAAAAGAAAA-GAAAAA
1 --AAAAAGAAAATGAAAAA
52459765 GAAAAGGAGA
Statistics
Matches: 86, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.10
45 48 0.56
46 20 0.23
47 7 0.08
48 2 0.02
ACGTcount: A:0.73, C:0.04, G:0.14, T:0.10
Consensus pattern (43 bp):
AAAAAGAAAATGAAAAAATCAAAATCAAAATAAAAAAAACAAA
Found at i:52459675 original size:39 final size:41
Alignment explanation
Indices: 52459632--52459712 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
52459622 TGAAAAAATC
52459632 AAAAATCAAAAT-AAAA-AAAACAAAAAAAAGAAAGAAGAA
1 AAAAATCAAAATGAAAAGAAAACAAAAAAAAGAAAGAAGAA
** *
52459671 AAAAATCAAAATGAAAATGAAAATGAGAAAAAGAAAGAAGAA
1 AAAAATCAAAATGAAAA-GAAAACAAAAAAAAGAAAGAAGAA
52459713 TGAAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.33
40 4 0.11
42 20 0.56
ACGTcount: A:0.77, C:0.04, G:0.12, T:0.07
Consensus pattern (41 bp):
AAAAATCAAAATGAAAAGAAAACAAAAAAAAGAAAGAAGAA
Found at i:52459718 original size:46 final size:47
Alignment explanation
Indices: 52459612--52459720 Score: 120
Period size: 45 Copynumber: 2.4 Consensus size: 47
52459602 AGTCAAAGTC
*
52459612 AAAAGGAA-AATG-AAAAAATCAAAAATCAAAATAAAAAAAACAAAA
1 AAAAGAAAGAATGAAAAAAATCAAAAATCAAAATAAAAAAAACAAAA
* * ** *
52459657 AAAAGAAAGAA-GAAAAAAATC-AAAATGAAAATGAAAATGAGAAAA
1 AAAAGAAAGAATGAAAAAAATCAAAAATCAAAATAAAAAAAACAAAA
52459702 AGAAAG-AAGAATGAAAAAA
1 A-AAAGAAAGAATGAAAAAA
52459721 TAGAAATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
45 33 0.61
46 21 0.39
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (47 bp):
AAAAGAAAGAATGAAAAAAATCAAAAATCAAAATAAAAAAAACAAAA
Found at i:52461941 original size:44 final size:43
Alignment explanation
Indices: 52461891--52462360 Score: 147
Period size: 44 Copynumber: 10.8 Consensus size: 43
52461881 TGAATATTTC
*
52461891 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGCCA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGACA
* * * * * *
52461934 GAGATCTTATCTCCTTGAGATTACAGCGAAGCAGATCGAGGACA
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGACA
** * * * * ** *
52461978 CTATCCTATCTCCCTGAAGTTATAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGA-CA
* * * ** * * *
52462021 AGGATCCTATCTCTCTGAAGTTACAGCAGAGCAG-GTCAC-ATA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGACA
* * * * * **
52462063 A-AGCCTTATCTTCCTGAAGTTACAGTGGGGCAGGTTGAATATGCA
1 AGA-TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGA--CA
* ** ** *
52462108 AG-TCCTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGA-A
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGACA
*
52462149 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTG--GAGCT
1 ----AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGA-CA
* * * * ** *
52462195 AGTAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGA-CA
* * * * * *
52462240 AGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCG-C-ATC-
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGA-CA
* * * * ** *
52462282 AGGTCTTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGA-A
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGACA
52462324 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAG
1 ----AGATCTTATCTCCCTGAGGTTACAGTGGAGCAG
52462361 GTCGAAGATG
Statistics
Matches: 307, Mismatches: 90, Indels: 56
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.00
41 52 0.17
42 9 0.03
43 32 0.10
44 148 0.48
45 6 0.02
46 59 0.19
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGACA
Found at i:52462168 original size:46 final size:46
Alignment explanation
Indices: 52462113--52462387 Score: 171
Period size: 46 Copynumber: 6.2 Consensus size: 46
52462103 ATGCAAGTCC
*
52462113 TATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
* ** * * * *
52462159 TATCTCCCTGAGGTTACAGTGGAGCAGATTGGAG-CTAGT-A-ATCC
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTCAGATCT
* * ** ** **
52462203 TATCTCCTTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCT
* * * * * * *
52462247 CATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA--TCAGGTCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
* *
52462288 TATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
* ** *
52462334 TATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAG-ATGGT-AGATCT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTCAGATCT
52462379 TATCTCCCT
1 TATCTCCCT
52462388 AAGCAGTAGT
Statistics
Matches: 173, Mismatches: 43, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
41 27 0.16
42 2 0.01
43 3 0.02
44 55 0.32
45 19 0.11
46 67 0.39
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (46 bp):
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
Found at i:52462205 original size:175 final size:174
Alignment explanation
Indices: 52462024--52462360 Score: 423
Period size: 175 Copynumber: 1.9 Consensus size: 174
52462014 AAAATAAAGG
* * *
52462024 ATCCTATCT-CTCTGAAGTTACAGCAGAGCAGG-TCACATAAA-G-CCTTATCT-TCCTGAAGTT
1 ATCCTATCTCCT-TGAAGTTACAGCAGAGC-GGATAAAATAAAGGACCTCATCTCT-CTGAAGTT
* * * * * * **
52462084 ACAGTGGGGCAGGTTGAATATGCAAGTCCTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAA
63 ACAGTAGAGCAGATCG--CAT-CAAGTCCTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAA
52462149 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTA
125 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTA
** *
52462199 ATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTAC
1 ATCCTATCTCCTTGAAGTTACAGCAGAGCGGA-TAAAATAAAGGACCTCATCTCTCTGAAGTTAC
* * *
52462264 AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCA
65 AGTAGAGCAGATCGCATCAAGTCCTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCA
52462329 GATCTTATCTCCCTGAGGTTACAGTGGAGCAG
130 GATCTTATCTCCCTGAGGTTACAGTGGAGCAG
52462361 GTCGAAGATG
Statistics
Matches: 139, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
174 2 0.01
175 99 0.71
176 11 0.08
177 1 0.01
178 25 0.18
179 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (174 bp):
ATCCTATCTCCTTGAAGTTACAGCAGAGCGGATAAAATAAAGGACCTCATCTCTCTGAAGTTACA
GTAGAGCAGATCGCATCAAGTCCTATCTCCCTAAGGTTACAGTGGAGTAAACCGAAGAATTTCAG
ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTA
Found at i:52462401 original size:219 final size:215
Alignment explanation
Indices: 52461886--52462406 Score: 524
Period size: 219 Copynumber: 2.4 Consensus size: 215
52461876 ATCAATGAAT
* * * *
52461886 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGCCA-G-AGATCTTATCTCCT
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAG--ATGTAGATCTTATCTCCC
* * * *
52461949 TGAGATTACAGCGAAGCAGA-TCGAGGACACTATCCTATCTCCCTGAAGTTATAGTGGAGCGGAT
64 TGAGAGTA-AGTGGAGCAGATTCGAGGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
* *
52462013 TAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAAGCCTTATCTTCCT
128 TAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGATCACATAAAGCCTTATCTCCCT
** * **
52462078 GAAGTTACAGTGGGGCAGGTTGA
193 GAAGTTACAGTGGGAAACGAAGA
* * * * *
52462101 ATATGCA-AGTCCTATCTCCCTGAGGTTACAGTGGAG-TGGACCGAAGAATTTCAGATCTTATCT
1 AT-TTCAGA-TCTTATCTCCCTGAGGTTACAGTGGAGCAGG-TCGAAG-ATGT-AGATCTTATCT
* * *
52462164 CCCTGAG-GTTACAGTGGAGCAGATTGGA-G-CTAGTAATCCTATCTCCTTGAAGTTACAGTGGA
61 CCCTGAGAG-TA-AGTGGAGCAGATTCGAGGAC-ACT-ATCCTATCTCCCTGAAGTTACAGTGGA
* * * * * *
52462226 GCGGATTAAAATAAAGGAT-CTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTA
122 GCGGATTAAAATAAAGGATCCT-ATCTCTCTGAAGTTACAGCAGAGCAGATCACATAAAGCCTTA
52462290 TCTCCCT-AAGGTTACAGTGGAGTAAACCGAAGA
186 TCTCCCTGAA-GTTACAGTGG-G-AAA-CGAAGA
52462323 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCT
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGAT-GTAGATCTTATCTCCCT
*
52462388 AAGCAGT-AGTGGAGCAGAT
65 GAG-AGTAAGTGGAGCAGAT
52462407 CGAAAATGGC
Statistics
Matches: 250, Mismatches: 36, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
215 5 0.02
216 32 0.13
217 1 0.00
218 36 0.14
219 110 0.44
220 20 0.08
221 37 0.15
222 9 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (215 bp):
ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAGATGTAGATCTTATCTCCCTG
AGAGTAAGTGGAGCAGATTCGAGGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
AATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGATCACATAAAGCCTTATCTCCCTGAA
GTTACAGTGGGAAACGAAGA
Found at i:52462410 original size:44 final size:43
Alignment explanation
Indices: 52462351--52462532 Score: 163
Period size: 44 Copynumber: 4.3 Consensus size: 43
52462341 CTGAGGTTAC
* **
52462351 AGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGCCAG-TCTTATCTCCCTAAGCAGT
* * * * * *
52462395 AGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAAT
1 AGTGGAGCAGATCGAAGAT-GCCAGTCTTATCTCCCTAAGCAGT
* ** *** *
52462439 AGTGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAACAGT
1 AGTGGAGCAGATCGAAGATGCCAGTCTTATCTCCCTAAGCAGT
* *
52462482 AGTGGAGCAGATCG--CAT-CAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGCCAGTCTTATCTCCCTAAGCAGT
52462522 AGTGGAGCAGA
1 AGTGGAGCAGA
52462533 CAGAAGAAAC
Statistics
Matches: 108, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
40 32 0.30
43 28 0.26
44 46 0.43
45 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
AGTGGAGCAGATCGAAGATGCCAGTCTTATCTCCCTAAGCAGT
Found at i:52462516 original size:40 final size:41
Alignment explanation
Indices: 52462376--52462532 Score: 156
Period size: 40 Copynumber: 3.7 Consensus size: 41
52462366 AGATGGTAGA
* *
52462376 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-ACAT--CAAG
* * * * * * *
52462420 TCTCATCTTCCTAAGCAATAGTGAAGCAGATTTAAGCCA-CCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CGACATCAAG
*
52462463 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCG-CATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACATCAAG
52462503 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
52462533 CAGAAGAAAC
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
39 2 0.02
40 33 0.36
41 1 0.01
43 27 0.29
44 26 0.28
46 2 0.02
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACATCAAG
Found at i:52462575 original size:127 final size:127
Alignment explanation
Indices: 52462376--52462642 Score: 285
Period size: 127 Copynumber: 2.1 Consensus size: 127
52462366 AGATGGTAGA
* * *
52462376 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAATAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAA-GACAAATCTCATCTCCCTAAGCAACAG
* ** * * *
52462441 TGAAGCAGATTTAAGCCACCAG-TCTTATCTCCCT-AAACAGTAGTGGAGCAGATCGCATCAAG
65 TGAAGCAGATTAAAAACA-AAGATCTTATCTCCCTGAAACAGCAGTAGAGCAGATCGCATCAAG
* *
52462503 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAA-ACCAATC-CTGTCTCCCTGAAGTC-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAA-AAGACAAATCTC-ATCTCCCT-AAG-CA
* * ** *
52462564 ACAGTGGAGCAGATTAAAAACAAAGATCTTATCTCTCTGAAGTAGCAGTAGAGCAGATCGCATCC
61 ACAGTGAAGCAGATTAAAAACAAAGATCTTATCTCCCTGAAACAGCAGTAGAGCAGATCGCATCA
52462629 AG
126 AG
52462631 TCTTATCTCCCT
1 TCTTATCTCCCT
52462643 GAAGTTACAA
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
125 1 0.01
126 14 0.12
127 64 0.55
128 38 0.32
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (127 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGACAAATCTCATCTCCCTAAGCAACAGT
GAAGCAGATTAAAAACAAAGATCTTATCTCCCTGAAACAGCAGTAGAGCAGATCGCATCAAG
Found at i:52466483 original size:19 final size:19
Alignment explanation
Indices: 52466459--52466497 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
52466449 TATCTTTTCA
52466459 AAGGGAAGAAGGGGTGATT
1 AAGGGAAGAAGGGGTGATT
52466478 AAGGGAAGAAGGGGTGATT
1 AAGGGAAGAAGGGGTGATT
52466497 A
1 A
52466498 GAGTCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.15
Consensus pattern (19 bp):
AAGGGAAGAAGGGGTGATT
Found at i:52467951 original size:46 final size:46
Alignment explanation
Indices: 52467884--52468068 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 46
52467874 ACATTGCTAT
* * **
52467884 AACTCAGTATGGCTTTCTTCACGGAATTACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
52467930 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAATTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
52467976 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
52468022 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
52468068 A
1 A
52468069 CTTTGTCATG
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:52469323 original size:17 final size:17
Alignment explanation
Indices: 52469292--52469340 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
52469282 AAATTCTTTT
52469292 TAAATCACAAAAATTCAC
1 TAAATCAC-AAAATTCAC
52469310 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
52469327 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
52469341 TTCTAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 8 0.27
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:52471627 original size:14 final size:16
Alignment explanation
Indices: 52471598--52471636 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
52471588 TTTTAAATAG
52471598 TTTAATATTAAATTTT
1 TTTAATATTAAATTTT
52471614 TTTAAT-TT-AATTTT
1 TTTAATATTAAATTTT
52471628 TTTAA-ATTA
1 TTTAATATTA
52471637 TTAACTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.62
15 2 0.10
16 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATATTAAATTTT
Found at i:52473511 original size:25 final size:25
Alignment explanation
Indices: 52473454--52473516 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 25
52473444 GGGTTTTTAA
*
52473454 TATTAATATAATA--ATTTAAATAT
1 TATTAATCTAATATTATTTAAATAT
*
52473477 TATTAATCTATTATTATTTAAA-A-
1 TATTAATCTAATATTATTTAAATAT
52473500 TATTAATGTCTAATATT
1 TATTAA--TCTAATATT
52473517 TATGTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 17 0.52
24 1 0.03
25 15 0.45
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (25 bp):
TATTAATCTAATATTATTTAAATAT
Found at i:52474343 original size:14 final size:15
Alignment explanation
Indices: 52474317--52474346 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52474307 ATGCATTAGA
52474317 TTAATTAAAATAAAT
1 TTAATTAAAATAAAT
52474332 TTAATT-AAATAAAT
1 TTAATTAAAATAAAT
52474346 T
1 T
52474347 ATTTCAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTAAAATAAAT
Found at i:52475439 original size:29 final size:29
Alignment explanation
Indices: 52475385--52475440 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
52475375 AATATAAGTA
** *
52475385 ACTAAAATATAACATTTCAAACATAAATG
1 ACTAAAATATAACATTGAAAAAATAAATG
52475414 ACTAAAATATAAC-TTGAAATAAATAAA
1 ACTAAAATATAACATTGAAA-AAATAAA
52475441 AGTGATTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (29 bp):
ACTAAAATATAACATTGAAAAAATAAATG
Found at i:52480836 original size:32 final size:30
Alignment explanation
Indices: 52480775--52480838 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
52480765 GATCAGAATC
*
52480775 TATAATAAAAATTATATAAAAGGGTTATTT
1 TATAATAAAAATTATATAAAAGGATTATTT
*
52480805 TATAATATAAAATT-TATAAAAGGAATATATT
1 TATAATA-AAAATTATATAAAAGGATTAT-TT
52480836 TAT
1 TAT
52480839 TTCACCCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.41
Consensus pattern (30 bp):
TATAATAAAAATTATATAAAAGGATTATTT
Found at i:52490723 original size:22 final size:22
Alignment explanation
Indices: 52490686--52490727 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
52490676 TAGAGAGTTG
52490686 AAAATTGAATTATAAATTTTTT
1 AAAATTGAATTATAAATTTTTT
52490708 AAAAGTTGAATT-TAAATTTT
1 AAAA-TTGAATTATAAATTTT
52490728 ATTATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
AAAATTGAATTATAAATTTTTT
Found at i:52493976 original size:16 final size:16
Alignment explanation
Indices: 52493940--52493970 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52493930 TAAAATATAT
*
52493940 TATTATTTAAATAAAG
1 TATTAATTAAATAAAG
52493956 TATTAATTAAATAAA
1 TATTAATTAAATAAA
52493971 TAATTATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TATTAATTAAATAAAG
Found at i:52494369 original size:43 final size:43
Alignment explanation
Indices: 52494274--52494370 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
52494264 TAAAAACCAA
* * * * *
52494274 GACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCAC
1 GACCTTTAGTGGCACTTCTCCCACAAATGACGCTAAAGATCAC
*
52494317 GACCTTTAGTGGCACTTCTCCCAC-AATCGACGCTAAAGATCAT
1 GACCTTTAGTGGCACTTCTCCCACAAAT-GACGCTAAAGATCAC
*
52494360 GGCCTTTAGTG
1 GACCTTTAGTG
52494371 ATACTTCTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 3 0.07
43 43 0.93
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
GACCTTTAGTGGCACTTCTCCCACAAATGACGCTAAAGATCAC
Found at i:52494394 original size:43 final size:43
Alignment explanation
Indices: 52494253--52494396 Score: 108
Period size: 43 Copynumber: 3.3 Consensus size: 43
52494243 ACTAAAAGTA
* * * * * * * *
52494253 AAAAACGTCGCTAAAAACCAAGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGATCACGACCTTTAGTGACACTTCTCCC
* * * *
52494296 ACAAATGCCGCTATAGATCACGACCTTTAGTGGCACTTCTCCC
1 AAAAACGCCGCTAAAGATCACGACCTTTAGTGACACTTCTCCC
* * * * * * **
52494339 ACAATCGACGCTAAAGATCATGGCCTTTAGTGATACTTCTTGC
1 AAAAACGCCGCTAAAGATCACGACCTTTAGTGACACTTCTCCC
52494382 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
52494397 ACATAACCTT
Statistics
Matches: 78, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCACGACCTTTAGTGACACTTCTCCC
Found at i:52494700 original size:34 final size:35
Alignment explanation
Indices: 52494656--52494721 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
52494646 CTATGAAAAT
52494656 TTTAACTTTAAAA-CTAAATATAA-AAATTAATGAA
1 TTTAACTTTAAAATCTAAA-ATAATAAATTAATGAA
* *
52494690 TTTAATTTTAAAATTTAAAATAATAAATTAAT
1 TTTAACTTTAAAATCTAAAATAATAAATTAAT
52494722 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (35 bp):
TTTAACTTTAAAATCTAAAATAATAAATTAATGAA
Found at i:52498861 original size:24 final size:25
Alignment explanation
Indices: 52498815--52498864 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
52498805 GTATTTTCTT
52498815 TAAAAGTATATAAATATTATAAAAA
1 TAAAAGTATATAAATATTATAAAAA
* * *
52498840 TAAAAGTTTA-AAATCTTTTAAAAA
1 TAAAAGTATATAAATATTATAAAAA
52498864 T
1 T
52498865 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
TAAAAGTATATAAATATTATAAAAA
Found at i:52498873 original size:11 final size:11
Alignment explanation
Indices: 52498849--52498905 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 11
52498839 ATAAAAGTTT
52498849 AAAATCTTTTA
1 AAAATCTTTTA
52498860 AAAAT-TTTTA
1 AAAATCTTTTA
**
52498870 AAAA-AATTT-
1 AAAATCTTTTA
52498879 AAAATCTTTTA
1 AAAATCTTTTA
52498890 AAAATCCATTTTA
1 AAAAT-C-TTTTA
52498903 AAA
1 AAA
52498906 TTTTAAATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 4 0.11
10 15 0.39
11 10 0.26
12 1 0.03
13 8 0.21
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATCTTTTA
Found at i:52498906 original size:30 final size:27
Alignment explanation
Indices: 52498840--52498914 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 27
52498830 ATTATAAAAA
52498840 TAAAAGTTTAAAATCTTTTAAAAATTTT
1 TAAAA-TTTAAAATCTTTTAAAAATTTT
52498868 TAAAAAAATTTAAAATCTTTTAAAAATCCATTT
1 T---AAAATTTAAAATCTTTTAAAAAT---TTT
*
52498901 TAAAATTTTAAATC
1 TAAAATTTAAAATC
52498915 ACGAAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 1 0.03
30 31 0.77
31 4 0.10
33 4 0.10
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (27 bp):
TAAAATTTAAAATCTTTTAAAAATTTT
Found at i:52500473 original size:41 final size:42
Alignment explanation
Indices: 52500410--52500608 Score: 192
Period size: 41 Copynumber: 4.7 Consensus size: 42
52500400 AGATTTTATT
* ** * *
52500410 ATTAGCAGCGCTTTTTCTAAAACGCCGCTAAAGGCAC-GAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCCTGAGC
* * *
52500451 ATTAGCGGCGCATTCTCAAAAACGCCGCTAAA-TCCCTGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCCTGAGC
* *
52500492 TTTAGCGGCG-TTTCCCAAAAACGCCGCTAAA-GCCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCCTGAGC
* * * *
52500532 ATTAGTGGCGCTTCCCCAAAAA-GCTGCTAAAGCCTAAGCCCTGAGA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAG-----GCCCTGAGC
52500578 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAA
52500609 TACTTATTTT
Statistics
Matches: 129, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
40 44 0.34
41 51 0.40
46 27 0.21
47 7 0.05
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (42 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCCTGAGC
Found at i:52500643 original size:39 final size:40
Alignment explanation
Indices: 52500600--52500711 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
52500590 TTCCCAAAAA
* *
52500600 CGCCGCTAATACT-TATTTTTAGCGGCGTTTTTCAG-AATG
1 CGCCGCTAATACTCGATTTTTAGCGGCGTTTTTC-GTAAAG
* * *
52500639 CGCCGCTAATACTCGATCTTTAGCGGCATTTTACGTAAAG
1 CGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCGTAAAG
* *
52500679 CGCCGCTAATGCTCGATTTTTAGTGGCGTTTTT
1 CGCCGCTAATACTCGATTTTTAGCGGCGTTTTT
52500712 TGTCCAAACG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 14 0.23
40 47 0.77
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (40 bp):
CGCCGCTAATACTCGATTTTTAGCGGCGTTTTTCGTAAAG
Found at i:52502534 original size:465 final size:465
Alignment explanation
Indices: 52501663--52502598 Score: 1854
Period size: 465 Copynumber: 2.0 Consensus size: 465
52501653 AGAGATCAGA
52501663 TTTCCTCCAAGAAAGATGCAATAACCTGAAGTTGATCGACGATCATCAACATCAGACCCCCAGCT
1 TTTCCTCCAAGAAAGATGCAATAACCTGAAGTTGATCGACGATCATCAACATCAGACCCCCAGCT
52501728 AGCGTTTGAATAGCCTTCAAGAAGAAACCGCGAGGCTCGAGTAAACTTTAAGCCATAGTTCATCG
66 AGCGTTTGAATAGCCTTCAAGAAGAAACCGCGAGGCTCGAGTAAACTTTAAGCCATAGTTCATCG
52501793 TCCCTTGTAGATACCGCAATATTTTTTTGACTACTTCAAAATGCACGTCTAACGGCTTATGCATG
131 TCCCTTGTAGATACCGCAATATTTTTTTGACTACTTCAAAATGCACGTCTAACGGCTTATGCATG
52501858 AACTGGCACACCTTATTTACGGAGTAGACAATGTCGGGCCTGGTTATCACCACATACTGCAAGGC
196 AACTGGCACACCTTATTTACGGAGTAGACAATGTCGGGCCTGGTTATCACCACATACTGCAAGGC
52501923 GCCAACAAGACTTCTGTACTGATGTTCATCATTGACTGGATTTCCACCTATGGCTGAAAGGTGAC
261 GCCAACAAGACTTCTGTACTGATGTTCATCATTGACTGGATTTCCACCTATGGCTGAAAGGTGAC
52501988 AGTTTGTTACCATCGGAGTAGGAAGAGAATTAGACCGATCCATGGACGCTTTACAAAGTAGGTCC
326 AGTTTGTTACCATCGGAGTAGGAAGAGAATTAGACCGATCCATGGACGCTTTACAAAGTAGGTCC
52502053 TGAATGTACTTCGTTTGCGACAGATATAATCCTTCTGCTGTGTATTGAACCTCTATGCCTAGGAA
391 TGAATGTACTTCGTTTGCGACAGATATAATCCTTCTGCTGTGTATTGAACCTCTATGCCTAGGAA
52502118 ATAGTTAAGT
456 ATAGTTAAGT
52502128 TTTCCTCCAAGAAAGATGCAATAACCTGAAGTTGATCGACGATCATCAACATCAGACCCCCAGCT
1 TTTCCTCCAAGAAAGATGCAATAACCTGAAGTTGATCGACGATCATCAACATCAGACCCCCAGCT
52502193 AGCGTTTGAATAGCCTTCAAGAAGAAACCGCGAGGCTCGAGTAAACTTTAAGCCATAGTTCATCG
66 AGCGTTTGAATAGCCTTCAAGAAGAAACCGCGAGGCTCGAGTAAACTTTAAGCCATAGTTCATCG
*
52502258 TCCCTTGTAGATACCGCAATATTTTTTTGACTACTTTAAAATGCACGTCTAACGGCTTATGCATG
131 TCCCTTGTAGATACCGCAATATTTTTTTGACTACTTCAAAATGCACGTCTAACGGCTTATGCATG
52502323 AACTGGCACACCTTATTTACGGAGTAGACAATGTCGGGCCTGGTTATCACCACATACTGCAAGGC
196 AACTGGCACACCTTATTTACGGAGTAGACAATGTCGGGCCTGGTTATCACCACATACTGCAAGGC
*
52502388 GCCAACAATACTTCTGTACTGATGTTCATCATTGACTGGATTTCCACCTATGGCTGAAAGGTGAC
261 GCCAACAAGACTTCTGTACTGATGTTCATCATTGACTGGATTTCCACCTATGGCTGAAAGGTGAC
52502453 AGTTTGTTACCATCGGAGTAGGAAGAGAATTAGACCGATCCATGGACGCTTTACAAAGTAGGTCC
326 AGTTTGTTACCATCGGAGTAGGAAGAGAATTAGACCGATCCATGGACGCTTTACAAAGTAGGTCC
52502518 TGAATGTACTTCGTTTGCGACAGATATAATCCTTCTGCTGTGTATTGAACCTCTATGCCTAGGAA
391 TGAATGTACTTCGTTTGCGACAGATATAATCCTTCTGCTGTGTATTGAACCTCTATGCCTAGGAA
52502583 ATAGTTAAGT
456 ATAGTTAAGT
52502593 TTTCCT
1 TTTCCT
52502599 AGGTCCTTTA
Statistics
Matches: 469, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
465 469 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (465 bp):
TTTCCTCCAAGAAAGATGCAATAACCTGAAGTTGATCGACGATCATCAACATCAGACCCCCAGCT
AGCGTTTGAATAGCCTTCAAGAAGAAACCGCGAGGCTCGAGTAAACTTTAAGCCATAGTTCATCG
TCCCTTGTAGATACCGCAATATTTTTTTGACTACTTCAAAATGCACGTCTAACGGCTTATGCATG
AACTGGCACACCTTATTTACGGAGTAGACAATGTCGGGCCTGGTTATCACCACATACTGCAAGGC
GCCAACAAGACTTCTGTACTGATGTTCATCATTGACTGGATTTCCACCTATGGCTGAAAGGTGAC
AGTTTGTTACCATCGGAGTAGGAAGAGAATTAGACCGATCCATGGACGCTTTACAAAGTAGGTCC
TGAATGTACTTCGTTTGCGACAGATATAATCCTTCTGCTGTGTATTGAACCTCTATGCCTAGGAA
ATAGTTAAGT
Found at i:52510188 original size:6 final size:6
Alignment explanation
Indices: 52510174--52510252 Score: 50
Period size: 6 Copynumber: 13.2 Consensus size: 6
52510164 CCTATGAGGT
* * * * * * *
52510174 CACCCC CACCTC CACCTC CTCCTC CTCCAC CACCAC CACCAC CACCCC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC
* * * * *
52510222 CACCAC CTCCTC CTCCTC CTCCTC CTCCTC C
1 CACCTC CACCTC CACCTC CACCTC CACCTC C
52510253 TCTTCGCCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.14, C:0.70, G:0.00, T:0.16
Consensus pattern (6 bp):
CACCTC
Found at i:52510200 original size:9 final size:9
Alignment explanation
Indices: 52510182--52510254 Score: 56
Period size: 9 Copynumber: 8.1 Consensus size: 9
52510172 GTCACCCCCA
52510182 CCTCCACCT
1 CCTCCACCT
*
52510191 CCTCCTCCT
1 CCTCCACCT
* *
52510200 CCACCACCA
1 CCTCCACCT
* *
52510209 CCACCACCA
1 CCTCCACCT
* *
52510218 CCCCCACCA
1 CCTCCACCT
*
52510227 CCTCCTCCT
1 CCTCCACCT
*
52510236 CCTCCTCCT
1 CCTCCACCT
*
52510245 CCTCCTCCT
1 CCTCCACCT
52510254 C
1 C
52510255 TTCGCCACCG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.12, C:0.68, G:0.00, T:0.19
Consensus pattern (9 bp):
CCTCCACCT
Found at i:52510233 original size:3 final size:3
Alignment explanation
Indices: 52510227--52510254 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
52510217 ACCCCCACCA
52510227 CCT CCT CCT CCT CCT CCT CCT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT C
52510255 TTCGCCACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CCT
Found at i:52514156 original size:13 final size:13
Alignment explanation
Indices: 52514140--52514165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52514130 AATAGATATG
52514140 GATAACAAATACA
1 GATAACAAATACA
52514153 GATAACAAATACA
1 GATAACAAATACA
52514166 AATTTACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (13 bp):
GATAACAAATACA
Found at i:52518358 original size:9 final size:9
Alignment explanation
Indices: 52518339--52518375 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
52518329 TGAGTTTTCG
*
52518339 AATTTGAAT
1 AATTCGAAT
*
52518348 AACTCGAAT
1 AATTCGAAT
52518357 AATTCGAAT
1 AATTCGAAT
52518366 AATTCGAAT
1 AATTCGAAT
52518375 A
1 A
52518376 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:52528244 original size:19 final size:19
Alignment explanation
Indices: 52528220--52528257 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52528210 TTAATGTGCG
* *
52528220 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
52528239 AATATATATATATATGTGT
1 AATATATATATATATGTGT
52528258 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:52528532 original size:41 final size:41
Alignment explanation
Indices: 52528470--52528727 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
52528460 GTTTGGAATT
* *
52528470 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52528511 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
52528552 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52528593 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
52528634 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52528675 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52528716 GGTGATCCGAAT
1 GGTGATCTGAAT
52528728 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:52528607 original size:82 final size:82
Alignment explanation
Indices: 52528470--52528721 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
52528460 GTTTGGAATT
*
52528470 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
52528535 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
52528552 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
52528617 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
52528634 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
52528699 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
52528716 GGTGAT
1 GGTGAT
52528722 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:52536234 original size:41 final size:41
Alignment explanation
Indices: 52536172--52536429 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
52536162 GTTTGGAATT
* *
52536172 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52536213 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
52536254 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52536295 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
52536336 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52536377 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
52536418 GGTGATCCGAAT
1 GGTGATCTGAAT
52536430 ATGATGAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:52536309 original size:82 final size:82
Alignment explanation
Indices: 52536172--52536423 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
52536162 GTTTGGAATT
*
52536172 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
52536237 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
52536254 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
52536319 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
52536336 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
52536401 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
52536418 GGTGAT
1 GGTGAT
52536424 CCGAATATGA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:52641374 original size:19 final size:21
Alignment explanation
Indices: 52641340--52641389 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
52641330 AAAATGTATT
*
52641340 TTAAATATTATATAATT-ATA
1 TTAAATATTTTATAATTCATA
52641360 TTAAA-ATTTTATAATTCATA
1 TTAAATATTTTATAATTCATA
*
52641380 ATAAATATTT
1 TTAAATATTT
52641390 ATGTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATATTTTATAATTCATA
Found at i:52648365 original size:21 final size:22
Alignment explanation
Indices: 52648325--52648366 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
52648315 TATAATTTCT
* *
52648325 TTTTCGGTTTTGGGGGTTTTTG
1 TTTTCGGTTTTAGGGATTTTTG
52648347 TTTTC-GTTTTAGGGATTTTT
1 TTTTCGGTTTTAGGGATTTTT
52648367 AATTTGGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.05, C:0.05, G:0.29, T:0.62
Consensus pattern (22 bp):
TTTTCGGTTTTAGGGATTTTTG
Found at i:52651705 original size:24 final size:24
Alignment explanation
Indices: 52651674--52651721 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
52651664 ATTTGCACAT
52651674 CATTAAATTTATTAATAATATATA
1 CATTAAATTTATTAATAATATATA
*
52651698 CATTAAATTTATTGATAATATATA
1 CATTAAATTTATTAATAATATATA
52651722 TAATTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
CATTAAATTTATTAATAATATATA
Found at i:52661808 original size:20 final size:20
Alignment explanation
Indices: 52661785--52661823 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52661775 AGAGACAAAA
*
52661785 TTAATACAACAGA-GCGTATG
1 TTAATAAAAC-GATGCGTATG
52661805 TTAATAAAACGATGCGTAT
1 TTAATAAAACGATGCGTAT
52661824 TATTGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (20 bp):
TTAATAAAACGATGCGTATG
Found at i:52662671 original size:6 final size:6
Alignment explanation
Indices: 52662660--52662689 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
52662650 AAATCGGAAA
52662660 TCCACC TCCACC TCCACC TCCACC TCCACC
1 TCCACC TCCACC TCCACC TCCACC TCCACC
52662690 GATCCACGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
TCCACC
Found at i:52662929 original size:37 final size:37
Alignment explanation
Indices: 52662878--52662964 Score: 165
Period size: 37 Copynumber: 2.4 Consensus size: 37
52662868 ACAAACAGTA
52662878 GATGTATAATTTCTTTTGGTTGGATTATTTTTCATTT
1 GATGTATAATTTCTTTTGGTTGGATTATTTTTCATTT
*
52662915 TATGTATAATTTCTTTTGGTTGGATTATTTTTCATTT
1 GATGTATAATTTCTTTTGGTTGGATTATTTTTCATTT
52662952 GATGTATAATTTC
1 GATGTATAATTTC
52662965 AGATATTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (37 bp):
GATGTATAATTTCTTTTGGTTGGATTATTTTTCATTT
Found at i:52662952 original size:20 final size:20
Alignment explanation
Indices: 52662887--52662952 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
52662877 AGATGTATAA
*
52662887 TTTCTTTTGGTTGGATTATT
1 TTTCATTTGGTTGGATTATT
* *
52662907 TTTCATTT--TATGTA-TA-A
1 TTTCATTTGGT-TGGATTATT
*
52662924 TTTCTTTTGGTTGGATTATT
1 TTTCATTTGGTTGGATTATT
52662944 TTTCATTTG
1 TTTCATTTG
52662953 ATGTATAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
17 7 0.21
18 6 0.18
19 6 0.18
20 15 0.44
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (20 bp):
TTTCATTTGGTTGGATTATT
Found at i:52663326 original size:16 final size:16
Alignment explanation
Indices: 52663305--52663338 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52663295 ATATAAATTC
*
52663305 AATAACATTTAATTTT
1 AATAACAATTAATTTT
*
52663321 AATAACAATTAGTTTT
1 AATAACAATTAATTTT
52663337 AA
1 AA
52663339 CTTTTAAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:52664014 original size:24 final size:24
Alignment explanation
Indices: 52663970--52664018 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
52663960 TTATTTTTAA
52663970 TAAATTTGATGTATTATATATTTT
1 TAAATTTGATGTATTATATATTTT
* *
52663994 TAAATTTGTTTTA-TATGATATTTT
1 TAAATTTGATGTATTAT-ATATTTT
52664018 T
1 T
52664019 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (24 bp):
TAAATTTGATGTATTATATATTTT
Found at i:52664349 original size:26 final size:24
Alignment explanation
Indices: 52664302--52664350 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
52664292 TTTAATTTGG
*
52664302 TAAATTTTAATTTCTATACTTTTT
1 TAAATTTTAATTTCAATACTTTTT
*
52664326 TAAATTTTAAAATTTCAATCCTTTT
1 TAAATTTT--AATTTCAATACTTTT
52664351 CAAATGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (24 bp):
TAAATTTTAATTTCAATACTTTTT
Found at i:52666309 original size:16 final size:18
Alignment explanation
Indices: 52666275--52666311 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
52666265 ATGTTAATTC
52666275 ATATTTTATTAATTAAAA
1 ATATTTTATTAATTAAAA
52666293 ATATTTT-TTAA-TAAAA
1 ATATTTTATTAATTAAAA
52666309 ATA
1 ATA
52666312 ATTACAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTTATTAATTAAAA
Found at i:52666309 original size:17 final size:18
Alignment explanation
Indices: 52666275--52666309 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52666265 ATGTTAATTC
*
52666275 ATATTTTATTAATTAAAA
1 ATATTTTATTAATAAAAA
52666293 ATATTTT-TTAATAAAAA
1 ATATTTTATTAATAAAAA
52666310 TAATTACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTTATTAATAAAAA
Found at i:52673736 original size:41 final size:41
Alignment explanation
Indices: 52673691--52673954 Score: 368
Period size: 41 Copynumber: 6.4 Consensus size: 41
52673681 CAGGTTCGCT
* * * * * * *
52673691 GGCACTTAGCTTGTTAAGCTTAAAGCCTTATTTAGATCATC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
* *
52673732 GGCACTTAGCCTGCTAGGCTTATAGCCTAATCCA-ATTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA-TCACC
*
52673773 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
* *
52673814 GGCACTTAACCTGCTAGGCTTATAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
*
52673855 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
* * *
52673896 GACACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
52673937 GGCACTTAGCCTGCTAGG
1 GGCACTTAGCCTGCTAGG
52673955 TTTTAAAACC
Statistics
Matches: 202, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.00
41 200 0.99
42 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
Found at i:52677144 original size:6 final size:6
Alignment explanation
Indices: 52677133--52677158 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52677123 TTTGATACAT
52677133 ATATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA AT
52677159 TTTTAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:52683453 original size:19 final size:19
Alignment explanation
Indices: 52683410--52683453 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
52683400 AATCAAAAAA
52683410 TAAAAATTAATAAAATATTT
1 TAAAAATTAATAAAATA-TT
*
52683430 TAAAATTTAA-AAAATATT
1 TAAAAATTAATAAAATATT
52683448 TAAAAA
1 TAAAAA
52683454 GTTACTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATTAATAAAATATT
Found at i:52692106 original size:15 final size:15
Alignment explanation
Indices: 52692086--52692114 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52692076 TTAAAATATG
52692086 ATTAAATTATTTTTT
1 ATTAAATTATTTTTT
52692101 ATTAAATTATTTTT
1 ATTAAATTATTTTT
52692115 AAAAATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTAAATTATTTTTT
Found at i:52692116 original size:26 final size:27
Alignment explanation
Indices: 52692047--52692134 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 27
52692037 ATTTGAAATA
52692047 TTATTAAATTATATTT-AATAATAATT
1 TTATTAAATTATATTTAAATAATAATT
* * * *
52692073 ATATTAAAATATGA-TTAAATTAT-TTT
1 TTATTAAATTAT-ATTTAAATAATAATT
* *
52692099 TTATTAAATTATTTTTAAA-AATAATC
1 TTATTAAATTATATTTAAATAATAATT
*
52692125 CTATTAAATT
1 TTATTAAATT
52692135 TTAATAACAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
25 2 0.04
26 39 0.83
27 6 0.13
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (27 bp):
TTATTAAATTATATTTAAATAATAATT
Found at i:52692663 original size:82 final size:82
Alignment explanation
Indices: 52692489--52692665 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 82
52692479 TTCGAAGGGC
* * *
52692489 TTTAGTGGCGTTTCAATATTAGCGCCGCTAATGCTGAGACCTTTAACGGCGTTTTTGAGTATATG
1 TTTAGTGGCGTTTCAATAATAGCGCCGCAAATGCTGAGACCTTTAACGGCGTTTTTGAGTATACG
*
52692554 CCGCTAATGGTAGGGTT
66 CCGCTAATGGTAGGATT
* * ** * * *
52692571 TTTTGCGGCGTTTTTATAATAGCGCCGCAAATTCT-ATGACTTTTACCGGCGTTTTTGAGTATAC
1 TTTAGTGGCGTTTCAATAATAGCGCCGCAAATGCTGA-GACCTTTAACGGCGTTTTTGAGTATAC
*
52692635 GCTGCTAATGGT-GGATCT
65 GCCGCTAATGGTAGGAT-T
52692653 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
52692666 GTGAGAAACC
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
81 4 0.05
82 75 0.95
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (82 bp):
TTTAGTGGCGTTTCAATAATAGCGCCGCAAATGCTGAGACCTTTAACGGCGTTTTTGAGTATACG
CCGCTAATGGTAGGATT
Found at i:52692810 original size:124 final size:124
Alignment explanation
Indices: 52692536--52692955 Score: 354
Period size: 124 Copynumber: 3.4 Consensus size: 124
52692526 GACCTTTAAC
* * * * * **
52692536 GGCGTTTTTGAGT-ATAT-GCCGCTAATGGTAGGGTTTTTTGCGGCGTTTT-TATAATAGCGCCG
1 GGCGTTTTTG-GTCA-ATCGCCACTAATGTTAAGGTATTTAGCGGCGTTTTCTATCCTAGCGCCG
* * * * **
52692598 CAAAT--TCTATGACTTTTACCGGCGTTTTTGA-GTATACGCTGCTAATGGTGGATCTTTTAGT
64 CGAATGCTCTA-AAC-TTTACCGGCGTTTTT-ATGTATGCGCCGCTAATGGTGGAGGTTTTAGT
* * * * * * * * * *
52692659 GGCGTTTGTGAG-AAACCGGCAGTAATGTTACGATATTTATCGGCGTTTTCTAGT-GTAGCGTCG
1 GGCGTTTTTG-GTCAATCGCCACTAATGTTAAGGTATTTAGCGGCGTTTTCTA-TCCTAGCGCCG
* * *
52692722 CGAATGCTCTTACCTTTACCGGCGTTTTTATGTTTGCGCCGCTAATGGTGGAGGTTTTAGT
64 CGAATGCTCTAAACTTTACCGGCGTTTTTATGTATGCGCCGCTAATGGTGGAGGTTTTAGT
*
52692783 GGCGTTTTTGGTCAATCGCCACTAATGTTAAGGTATTTAGCGGCG-TTTCTATCCTAGCGCCGCT
1 GGCGTTTTTGGTCAATCGCCACTAATGTTAAGGTATTTAGCGGCGTTTTCTATCCTAGCGCCGCG
* * * ** * * * **
52692847 AATGTTGTAAATTTTATTGCCGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGT
66 AATGCTCTAAACTTTACCGGCGTTTTTATGTATGCGCCGCTAATGG-TGGAGGTTTTAGT
*
52692907 GGCGTGTTTTGATCAATCGCCACTAATGTTAAGGTATTTAGCGGCGTTT
1 GGCGT-TTTTGGTCAATCGCCACTAATGTTAAGGTATTTAGCGGCGTTT
52692956 GGTTTTAAAG
Statistics
Matches: 238, Mismatches: 47, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
122 2 0.01
123 87 0.37
124 103 0.43
125 41 0.17
126 5 0.02
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (124 bp):
GGCGTTTTTGGTCAATCGCCACTAATGTTAAGGTATTTAGCGGCGTTTTCTATCCTAGCGCCGCG
AATGCTCTAAACTTTACCGGCGTTTTTATGTATGCGCCGCTAATGGTGGAGGTTTTAGT
Found at i:52692996 original size:125 final size:124
Alignment explanation
Indices: 52692741--52692996 Score: 322
Period size: 125 Copynumber: 2.1 Consensus size: 124
52692731 TTACCTTTAC
* ** *
52692741 CGGCGTTTTTATGTTTGCGCCGCTAATGGTGGAGGTTTTAGTGGCGTTTTTGGTCAATCGCCACT
1 CGGCGTTTTTATGTATGCGCCGCTAATGGTGGAGGTGATAGTGGCGTTTTTGATCAATCGCCACT
** *
52692806 AATGTTAAGGTATTTAGCGGCGTTTCTATCCTAGCGCCGCTAATGTTGTAAATTTTATTG
66 AATGTTAAGGTATTTAGCGGCGTTTCTATCAAAGCGCCGCTAAGGTTG-AAATTTTATTG
* *
52692866 C--CGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGATCAATCGCCA
1 CGGCGTTTTTATGTATGCGCCGCTAATGG-TGGAGGTGATAGTGGCGT-TTTTGATCAATCGCCA
* * * **
52692929 CTAATGTTAAGGTATTTAGCGGCGTTTGGTTTTAAAGCGCCGCTAAGGTTG-GGTTTT-TTG
64 CTAATGTTAAGGTATTTAGCGGCGTTT-CTATCAAAGCGCCGCTAAGGTTGAAATTTTATTG
52692989 CGGCGTTT
1 CGGCGTTT
52692997 ATTGGTAAGC
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
123 28 0.25
124 19 0.17
125 48 0.43
126 17 0.15
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (124 bp):
CGGCGTTTTTATGTATGCGCCGCTAATGGTGGAGGTGATAGTGGCGTTTTTGATCAATCGCCACT
AATGTTAAGGTATTTAGCGGCGTTTCTATCAAAGCGCCGCTAAGGTTGAAATTTTATTG
Found at i:52694661 original size:16 final size:17
Alignment explanation
Indices: 52694634--52694669 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
52694624 TTATACTTAG
*
52694634 TAATTAAAAGATACAAT
1 TAATTAAAAGATAAAAT
52694651 TAATT-AAAGATAAAAT
1 TAATTAAAAGATAAAAT
52694667 TAA
1 TAA
52694670 GAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TAATTAAAAGATAAAAT
Found at i:52695006 original size:23 final size:24
Alignment explanation
Indices: 52694980--52695036 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
52694970 CACTTAGCTG
52694980 AAATTCCCCCCAAATTAT-CCCCA
1 AAATTCCCCCCAAATTATCCCCCA
*
52695003 AAATTCCCCCCAAATTTTCCCCCA
1 AAATTCCCCCCAAATTATCCCCCA
*
52695027 AAAATCCCCC
1 AAATTCCCCC
52695037 AATTCTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (24 bp):
AAATTCCCCCCAAATTATCCCCCA
Found at i:52695036 original size:12 final size:12
Alignment explanation
Indices: 52694980--52695036 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
52694970 CACTTAGCTG
52694980 AAATTCCCCCC-
1 AAATTCCCCCCA
**
52694991 AAATTATCCCCA
1 AAATTCCCCCCA
52695003 AAATTCCCCCCA
1 AAATTCCCCCCA
* *
52695015 AATTTTCCCCCA
1 AAATTCCCCCCA
*
52695027 AAAATCCCCC
1 AAATTCCCCC
52695037 AATTCTAGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 9 0.25
12 27 0.75
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATTCCCCCCA
Found at i:52695038 original size:23 final size:23
Alignment explanation
Indices: 52694984--52695036 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
52694974 TAGCTGAAAT
*
52694984 TCCCCCCAAATTATCCCCAAAAT
1 TCCCCCCAAATTATCCCCAAAAA
*
52695007 TCCCCCCAAATTTTCCCCCAAAAA
1 TCCCCCCAAATTAT-CCCCAAAAA
52695031 TCCCCC
1 TCCCCC
52695037 AATTCTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (23 bp):
TCCCCCCAAATTATCCCCAAAAA
Found at i:52695537 original size:12 final size:12
Alignment explanation
Indices: 52695512--52695551 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
52695502 TGTAATACTG
52695512 TTTT-TTCATAA
1 TTTTGTTCATAA
52695523 TTTTGTT-ACTAA
1 TTTTGTTCA-TAA
52695535 TTTTGTTCATAA
1 TTTTGTTCATAA
52695547 TTTTG
1 TTTTG
52695552 AAATTGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 20 0.77
13 1 0.04
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.62
Consensus pattern (12 bp):
TTTTGTTCATAA
Found at i:52697095 original size:70 final size:69
Alignment explanation
Indices: 52697015--52697226 Score: 345
Period size: 69 Copynumber: 3.1 Consensus size: 69
52697005 CTATATTTAA
* * *
52697015 ATATTGTTAATAATAAATTTTATATTTTTA-AAACTAATTGTACATGTTATTTTTCTAAATATTA
1 ATATTTTTAATAATAAATTTTATAATTTTAGAAA-TAATTGTAAATGTTA-TTTTCTAAATATTA
52697079 ACATCT
64 ACATCT
52697085 ATATTTTTAATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAAC
1 ATATTTTTAATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAAC
52697150 ATCT
66 ATCT
* * *
52697154 ATATTTTCAATAATAAATTTTATAATTTTAGAAAGAATTGTAAATGTTATTTTCCAAATATTAAC
1 ATATTTTTAATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAAC
52697219 ATCT
66 ATCT
52697223 ATAT
1 ATAT
52697227 CGCGAGAGAT
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
69 90 0.67
70 42 0.31
71 3 0.02
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (69 bp):
ATATTTTTAATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAAC
ATCT
Found at i:52699928 original size:44 final size:44
Alignment explanation
Indices: 52699878--52700015 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 44
52699868 TGCATTTAGT
* *
52699878 GGCGTTT-TTATGAAAAGCGTCGCTAAAAGTCAAGGTCTTTTCGC
1 GGCGTTTATGATGAAAAGCGCCGCTAAAAGTCAAGGTCTTTT-GC
** * *
52699922 GGCGTTTATGA-GAAAAGCGCCGCTAAAACCCAATGCCTTTTAGC
1 GGCGTTTATGATGAAAAGCGCCGCTAAAAGTCAAGGTCTTTT-GC
* * * *
52699966 GGCGTTTGTGAT-CAAAGCGCCGCTAAAGGTCAAGGTATTTTGC
1 GGCGTTTATGATGAAAAGCGCCGCTAAAAGTCAAGGTCTTTTGC
52700009 GGCGTTT
1 GGCGTTT
52700016 GTAGTGGAAG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
43 9 0.12
44 66 0.86
45 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (44 bp):
GGCGTTTATGATGAAAAGCGCCGCTAAAAGTCAAGGTCTTTTGC
Found at i:52700027 original size:43 final size:44
Alignment explanation
Indices: 52699829--52700036 Score: 133
Period size: 44 Copynumber: 4.8 Consensus size: 44
52699819 AGCTGCTCAA
* * * * *
52699829 TTTAGCGGCATTTGT-GGGAGAAGTGCCGCTAAAGGTTAATGCA-
1 TTTAGCGGCGTTTGTAGTGA-AAGCGCCGCTAAAGGTCAAGGCAT
* * * *
52699872 TTTAGTGGCGTTTTTA-TGAAAAGCGTCGCTAAAAGTCAAGGTC-T
1 TTTAGCGGCGTTTGTAGTG-AAAGCGCCGCTAAAGGTCAAGG-CAT
* * * *** * *
52699916 TTTCGCGGCGTTTATGAG-AAAAGCGCCGCTAAAACCCAATGCCT
1 TTTAGCGGCGTTTGT-AGTGAAAGCGCCGCTAAAGGTCAAGGCAT
* *
52699960 TTTAGCGGCGTTTGT-GATCAAAGCGCCGCTAAAGGTCAAGGTAT
1 TTTAGCGGCGTTTGTAG-TGAAAGCGCCGCTAAAGGTCAAGGCAT
* *
52700004 TTT-GCGGCGTTTGTAGTGGAAGCGCTGCTAAAG
1 TTTAGCGGCGTTTGTAGTGAAAGCGCCGCTAAAG
52700037 ATAATAACCT
Statistics
Matches: 126, Mismatches: 29, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.01
43 55 0.44
44 69 0.55
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TTTAGCGGCGTTTGTAGTGAAAGCGCCGCTAAAGGTCAAGGCAT
Found at i:52700077 original size:43 final size:43
Alignment explanation
Indices: 52700030--52700122 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
52700020 TGGAAGCGCT
*
52700030 GCTAAAGATAATAACCTTTAGCGGCGCTTAAGTCACAAACGCC
1 GCTAAAGAGAATAACCTTTAGCGGCGCTTAAGTCACAAACGCC
** *
52700073 GCTAAAGAGCTTAACTTTTAGCGGCGCTTAAGTCACAAACGCC
1 GCTAAAGAGAATAACCTTTAGCGGCGCTTAAGTCACAAACGCC
52700116 GCTAAAG
1 GCTAAAG
52700123 TTAACGACGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (43 bp):
GCTAAAGAGAATAACCTTTAGCGGCGCTTAAGTCACAAACGCC
Found at i:52701440 original size:14 final size:14
Alignment explanation
Indices: 52701417--52701463 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
52701407 ATTCTTTTTC
52701417 TTTTAGTTTATATA
1 TTTTAGTTTATATA
*
52701431 TTTTAATTTA-ATCAA
1 TTTTAGTTTATAT--A
*
52701446 TTTTAGTTTTTATA
1 TTTTAGTTTATATA
52701460 TTTT
1 TTTT
52701464 TCGAATTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.07
14 14 0.52
15 9 0.33
16 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (14 bp):
TTTTAGTTTATATA
Found at i:52703028 original size:19 final size:20
Alignment explanation
Indices: 52703006--52703054 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
52702996 ATTTAAAAAT
52703006 TATTTTAAAAAATAAATAA-
1 TATTTTAAAAAATAAATAAC
*
52703025 TATTATAGAAAGAAT--ATAAC
1 TATTTTA-AAA-AATAAATAAC
52703045 TATTTTAAAA
1 TATTTTAAAA
52703055 TTTAAAGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.52
20 9 0.36
21 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
TATTTTAAAAAATAAATAAC
Found at i:52704382 original size:31 final size:32
Alignment explanation
Indices: 52704323--52704387 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
52704313 GGCAAATTAC
52704323 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
52704355 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
52704386 AA
1 AA
52704388 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:52707153 original size:10 final size:10
Alignment explanation
Indices: 52707140--52707280 Score: 58
Period size: 10 Copynumber: 13.4 Consensus size: 10
52707130 ATTTTGCGTT
52707140 TTTTTTTTGC
1 TTTTTTTTGC
52707150 TTTTTTTTGCGC
1 TTTTTTTT--GC
52707162 TTTTTACTCTCT-C
1 TTTTT--T-T-TGC
**
52707175 TTTTTTGCGC
1 TTTTTTTTGC
52707185 TTTTTTTTGC
1 TTTTTTTTGC
52707195 TTTTTTTTGGCGC
1 TTTTTTTT---GC
**
52707208 TTTTTACT-C
1 TTTTTTTTGC
* *
52707217 TCTATTTTGC
1 TTTTTTTTGC
**
52707227 GCTTTTTTGC
1 TTTTTTTTGC
52707237 TTTTTTGTT--
1 TTTTTT-TTGC
52707246 TTTTTTTTGC
1 TTTTTTTTGC
*
52707256 -TGTTTTTGC
1 TTTTTTTTGC
52707265 TGTTTTTTTTGC
1 --TTTTTTTTGC
52707277 TTTT
1 TTTT
52707281 ATTTAAAGAA
Statistics
Matches: 98, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
8 2 0.02
9 19 0.19
10 42 0.43
11 3 0.03
12 15 0.15
13 14 0.14
14 1 0.01
15 1 0.01
16 1 0.01
ACGTcount: A:0.02, C:0.15, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTTTTTTGC
Found at i:52707218 original size:44 final size:44
Alignment explanation
Indices: 52707129--52707242 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 44
52707119 AGGCAACTTT
*
52707129 TATTTTGCGTTTTTTTTTTGCTTTTTTTTGCGCTTTTTACTCTCTC
1 TATTTTGCG-CTTTTTTTTGCTTTTTTTTGCGCTTTTTAC-CTCTC
*
52707175 TTTTTTGCGCTTTTTTTTGCTTTTTTTTGGCGCTTTTTA-CTCTC
1 TATTTTGCGCTTTTTTTTGCTTTTTTTT-GCGCTTTTTACCTCTC
52707219 TATTTTGCGC--TTTTTTGCTTTTTT
1 TATTTTGCGCTTTTTTTTGCTTTTTT
52707243 GTTTTTTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
42 14 0.22
44 14 0.22
45 18 0.28
46 18 0.28
ACGTcount: A:0.04, C:0.17, G:0.12, T:0.68
Consensus pattern (44 bp):
TATTTTGCGCTTTTTTTTGCTTTTTTTTGCGCTTTTTACCTCTC
Found at i:52707234 original size:23 final size:22
Alignment explanation
Indices: 52707131--52707234 Score: 95
Period size: 23 Copynumber: 4.6 Consensus size: 22
52707121 GCAACTTTTA
* * *
52707131 TTTTGCGTTTTTTTTTTGCTTTT
1 TTTTGCGCTTTTTTTCT-CTCTT
*
52707154 TTTTGCGCTTTTTACTCTCTCTT
1 TTTTGCGCTTTTT-TTCTCTCTT
*
52707177 TTTTGCGCTTTTTTT-TGCTTTT
1 TTTTGCGCTTTTTTTCT-CTCTT
* *
52707199 TTTTGGCGC-TTTTTACTCTCTA
1 TTTT-GCGCTTTTTTTCTCTCTT
52707221 TTTTGCGCTTTTTT
1 TTTTGCGCTTTTTT
52707235 GCTTTTTTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.07
22 26 0.39
23 34 0.51
24 2 0.03
ACGTcount: A:0.03, C:0.17, G:0.12, T:0.67
Consensus pattern (22 bp):
TTTTGCGCTTTTTTTCTCTCTT
Found at i:52707248 original size:46 final size:44
Alignment explanation
Indices: 52707129--52707248 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 44
52707119 AGGCAACTTT
*
52707129 TATTTTGCG-TTTTTTTTTTGCTTTTTTTTGCGCTTTTTACTCTCTC
1 TATTTTGCGCTTTTTTTTTT--TTTTTTTGGCGCTTTTTAC-CTCTC
* *
52707175 TTTTTTGCGCTTTTTTTTGCTTTTTTTTGGCGCTTTTTA-CTCTC
1 TATTTTGCGCTTTTTTTT-TTTTTTTTTGGCGCTTTTTACCTCTC
52707219 TATTTTGCGCTTTTTTGCTTTTTTGTTTTT
1 TATTTTGCGCTTTTTT--TTTTTT-TTTTT
52707249 TTTTTGCTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
44 20 0.31
45 3 0.05
46 32 0.50
47 8 0.12
48 1 0.02
ACGTcount: A:0.03, C:0.16, G:0.12, T:0.68
Consensus pattern (44 bp):
TATTTTGCGCTTTTTTTTTTTTTTTTTGGCGCTTTTTACCTCTC
Found at i:52707511 original size:4 final size:4
Alignment explanation
Indices: 52707499--52707532 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
52707489 TAAAATTAGT
52707499 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
52707533 TGATAGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:52707892 original size:31 final size:32
Alignment explanation
Indices: 52707833--52707897 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
52707823 GGCAAATTAC
52707833 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
52707865 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
52707896 AA
1 AA
52707898 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:52710096 original size:22 final size:22
Alignment explanation
Indices: 52710066--52710137 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
52710056 AGCTCAACCC
*
52710066 ATATTAAATATATATATTTAAT
1 ATATAAAATATATATATTTAAT
*
52710088 ATATAAAATATATATATTTGAT
1 ATATAAAATATATATATTTAAT
*
52710110 -TA-AAAGTAAATATATATTTAAT
1 ATATAAA--ATATATATATTTAAT
52710132 ATATAA
1 ATATAA
52710138 TTCGGGCCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
22 33 0.79
23 2 0.05
24 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (22 bp):
ATATAAAATATATATATTTAAT
Found at i:52711806 original size:15 final size:16
Alignment explanation
Indices: 52711786--52711836 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 16
52711776 ACACTATAAA
52711786 ATATTTAT-TATTAAT
1 ATATTTATATATTAAT
*
52711801 ATATTTATAATTTTAAT
1 ATATTTAT-ATATTAAT
* * *
52711818 ATATTAAAACATTAAT
1 ATATTTATATATTAAT
52711834 ATA
1 ATA
52711837 AATATTTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.28
16 9 0.31
17 12 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTTATATATTAAT
Found at i:52711931 original size:20 final size:20
Alignment explanation
Indices: 52711874--52711925 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
52711864 ATTATTTGAA
*
52711874 ATTTAAAATTTAAAATTATT
1 ATTTTAAATTTAAAATTATT
52711894 ATTTTAAATTTAAAATTATT
1 ATTTTAAATTTAAAATTATT
52711914 ATTTTAAATTTA
1 ATTTTAAATTTA
52711926 TTATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTAAATTTAAAATTATT
Found at i:52716604 original size:50 final size:49
Alignment explanation
Indices: 52716529--52717108 Score: 244
Period size: 50 Copynumber: 11.7 Consensus size: 49
52716519 GCAATTAAAA
* * * * *
52716529 AGATTGAAGCTGCAATGGTGAATCTTACTTCCCTGGCGATGCAGTGGAGC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* * * * * ** *
52716579 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
** * * * *
52716629 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCCATGTAGTGGATC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGG-CATGCAGTGGAAC
* * * * * * ** *
52716679 AGATTGAAGCTACAACGGTGAATCTT-GTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
** * * * * * *
52716728 AGATTGAAGCCGCAACGACGAATCTTACTTTCTTGGCAGTGTAGTGGAGC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
* * * * * * * *
52716778 AGATT-AAGGCTACGACGGTGAATCATGCTTCCCCGACATCGCAAT-TAAA
1 AGATTGAA-GCTACGACGGCGAATCTTACTTCCCTGGCAT-GCAGTGGAAC
* *
52716827 AGATTGAAG-T-CGCAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACG--ACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* * * * * ** *
52716877 AGATTGAAGCTACAACGGTGAATCTTA-TTCCCTGACATTGAAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
* * *
52716926 AGATTGAAG-T-CGTAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACG--ACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* *** * * ** * * *
52716976 AGATTAAAGCTACGACGAAAAATCTTGCTTCCCCGATATCGCAAT-TAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCAT-GCAGTGGAAC
** * * * * *
52717025 AGATTGAAGCCGCAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* * *
52717075 ATATTGAAGCTACAACGGCGAATCCTA-TTCCCTG
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTG
52717109 ACATTGCAAT
Statistics
Matches: 371, Mismatches: 136, Indels: 47
0.67 0.25 0.08
Matches are distributed among these distances:
47 3 0.01
48 4 0.01
49 137 0.37
50 220 0.59
51 4 0.01
52 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (49 bp):
AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCATGCAGTGGAAC
Done.