Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 31 of 228
Found at i:9680848 original size:17 final size:17
Alignment explanation
Indices: 9680826--9680889 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
9680816 CATCAAGGGC
*
9680826 TACAATTAAAAGTTGTA
1 TACAATTAGAAGTTGTA
*
9680843 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAGT-T--GTA
*
9680862 TACAATTAGAAGCTGTA
1 TACAATTAGAAGTTGTA
9680879 TACAATTAGAA
1 TACAATTAGAA
9680890 CTCTAAGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 1 0.03
17 23 0.59
18 2 0.05
19 12 0.31
20 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (17 bp):
TACAATTAGAAGTTGTA
Found at i:9680866 original size:19 final size:19
Alignment explanation
Indices: 9680842--9680898 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
9680832 TAAAAGTTGT
9680842 ATACAATTAGAACTCTAAG
1 ATACAATTAGAACTCTAAG
*
9680861 ATACAATTAGAA-GCT--G
1 ATACAATTAGAACTCTAAG
9680877 TATACAATTAGAACTCTAAG
1 -ATACAATTAGAACTCTAAG
9680897 AT
1 AT
9680899 TACATAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (19 bp):
ATACAATTAGAACTCTAAG
Found at i:9680866 original size:36 final size:36
Alignment explanation
Indices: 9680826--9680898 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
9680816 CATCAAGGGC
*
9680826 TACAATTAAAAGTTGTATACAATTAGAACTCTAAGA
1 TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
*
9680862 TACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
9680898 T
1 T
9680899 TACATAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (36 bp):
TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
Found at i:9682709 original size:24 final size:24
Alignment explanation
Indices: 9682647--9682719 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
9682637 CAGTTTTACT
* *
9682647 ACAAAATTGAGTGGCTTGTCCACA
1 ACAATATTGAGTGGCTTGACCACA
* *** *
9682671 ACAGTAACAATTGGCTTGACCACA
1 ACAATATTGAGTGGCTTGACCACA
*
9682695 ACAATATTGAGTGGCTTGGCCACA
1 ACAATATTGAGTGGCTTGACCACA
9682719 A
1 A
9682720 TATAAATGAG
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (24 bp):
ACAATATTGAGTGGCTTGACCACA
Found at i:9683953 original size:32 final size:32
Alignment explanation
Indices: 9683880--9683963 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
9683870 TACTTATTTC
* * *
9683880 AACTATAGACTATGAAACTACTTATATACTAA
1 AACTATAAATTATGAAACTACATATATACTAA
*
9683912 AACTATAAATTATGAAACTACATATATACTGA
1 AACTATAAATTATGAAACTACATATATACTAA
* * *
9683944 AATTTTAAATTGTGAAACTA
1 AACTATAAATTATGAAACTA
9683964 TGGACTATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (32 bp):
AACTATAAATTATGAAACTACATATATACTAA
Found at i:9699039 original size:33 final size:33
Alignment explanation
Indices: 9698993--9699061 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
9698983 GATATGGAAT
*
9698993 GGTTATTTGAATGACTAGTTTGGTATAATTTTA
1 GGTTATTTAAATGACTAGTTTGGTATAATTTTA
9699026 GGTTATTTAAATGACTAGTTTGGTATAATTTTA
1 GGTTATTTAAATGACTAGTTTGGTATAATTTTA
9699059 GGT
1 GGT
9699062 ATGTTTTGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.48
Consensus pattern (33 bp):
GGTTATTTAAATGACTAGTTTGGTATAATTTTA
Found at i:9710842 original size:9 final size:9
Alignment explanation
Indices: 9710819--9710879 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
9710809 ACTGCAACAA
*
9710819 CAACAACAG
1 CAACAGCAG
*
9710828 CAACAGCAA
1 CAACAGCAG
*
9710837 CAACAGCGG
1 CAACAGCAG
*
9710846 CAGCAGCAG
1 CAACAGCAG
9710855 CAACAGCAG
1 CAACAGCAG
*
9710864 CAAGCA-AAG
1 CAA-CAGCAG
9710873 CAACAGC
1 CAACAGC
9710880 TGTCCACTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 2 0.05
9 37 0.90
10 2 0.05
ACGTcount: A:0.46, C:0.33, G:0.21, T:0.00
Consensus pattern (9 bp):
CAACAGCAG
Found at i:9710849 original size:15 final size:15
Alignment explanation
Indices: 9710812--9710879 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
9710802 AGCAGCTACT
*
9710812 GCAACAACAACAACA
1 GCAACAGCAACAACA
9710827 GCAACAGCAACAACA
1 GCAACAGCAACAACA
** * *
9710842 GCGGCAGCAGCAGCA
1 GCAACAGCAACAACA
* *
9710857 ACAGCAGCAAGCAA-A
1 GCAACAGCAA-CAACA
9710872 GCAACAGC
1 GCAACAGC
9710880 TGTCCACTCA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
15 39 0.95
16 2 0.05
ACGTcount: A:0.47, C:0.32, G:0.21, T:0.00
Consensus pattern (15 bp):
GCAACAGCAACAACA
Found at i:9716589 original size:15 final size:15
Alignment explanation
Indices: 9716569--9716598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9716559 TATTTTATTT
*
9716569 ATATTAGGATAATTA
1 ATATTAAGATAATTA
9716584 ATATTAAGATAATTA
1 ATATTAAGATAATTA
9716599 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:9720541 original size:4 final size:4
Alignment explanation
Indices: 9720526--9720594 Score: 51
Period size: 4 Copynumber: 17.5 Consensus size: 4
9720516 CAACCCAATT
9720526 TTTA TTTA --TA TTTA -TTA TTTA -TTA TTTTA TTTTA TTTA CTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA -TTTA TTTA
9720573 -TTA CTTTA TTT- TATTA TTTA TT
1 TTTA -TTTA TTTA T-TTA TTTA TT
9720595 ACTTATTTGG
Statistics
Matches: 55, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
2 2 0.04
3 10 0.18
4 27 0.49
5 16 0.29
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:9720545 original size:13 final size:13
Alignment explanation
Indices: 9720523--9720593 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
9720513 AGGCAACCCA
*
9720523 ATTTTTATTTA-T
1 ATTTATATTTATT
9720535 ATTTATTATTTATT
1 ATTTA-TATTTATT
9720549 ATTT-TATTTTATTT
1 ATTTATA-TTTA-TT
*
9720563 ACTT-TATTTATT
1 ATTTATATTTATT
9720575 ACTTTAT-TTTATT
1 A-TTTATATTTATT
9720588 ATTTAT
1 ATTTAT
9720594 TACTTATTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
12 14 0.28
13 23 0.46
14 13 0.26
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATATTTATT
Found at i:9720552 original size:20 final size:21
Alignment explanation
Indices: 9720523--9720598 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 21
9720513 AGGCAACCCA
9720523 ATTT-TTA-TTTATATTTATT
1 ATTTATTACTTTATATTTATT
*
9720542 ATTTATTATTTTATTTTATTTACTTT
1 ATTTATTACTTTA---TATTTA--TT
9720568 ATTTATTACTTTAT-TTTATT
1 ATTTATTACTTTATATTTATT
9720588 ATTTATTACTT
1 ATTTATTACTT
9720599 ATTTGGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
19 4 0.08
20 16 0.33
21 4 0.08
22 4 0.08
23 1 0.02
24 6 0.12
26 14 0.29
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTACTTTATATTTATT
Found at i:9720552 original size:26 final size:25
Alignment explanation
Indices: 9720525--9720601 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 25
9720515 GCAACCCAAT
9720525 TTTTATTTATATTTATTATTTATTA
1 TTTTATTTATATTTATTATTTATTA
9720550 TTTTATTT-TATTTACTTTATTTATTA
1 TTTTATTTATATTTA--TTATTTATTA
* *
9720576 CTTTATTTTATTATTTATTACTTATT
1 TTTTA-TTTA-TATTTATTATTTATT
9720602 TGGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
24 6 0.13
25 8 0.18
26 14 0.31
27 11 0.24
29 6 0.13
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATTTATATTTATTATTTATTA
Found at i:9720808 original size:22 final size:21
Alignment explanation
Indices: 9720756--9720808 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
9720746 ATGCCTGCAG
* * *
9720756 CCAAACTACCCTATTCCTGCAG
1 CCAAAC-ACCCTATCCCTACAC
*
9720778 CCAACCACCCTTATCCCTACAC
1 CCAAACACCC-TATCCCTACAC
9720800 CCAAACACC
1 CCAAACACC
9720809 ACCCCTCAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.30, C:0.49, G:0.04, T:0.17
Consensus pattern (21 bp):
CCAAACACCCTATCCCTACAC
Found at i:9721969 original size:27 final size:27
Alignment explanation
Indices: 9721928--9721997 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 27
9721918 AAAGTATAAA
*
9721928 AAAATATAAATAATAAATAAAT-AAAAAT
1 AAAATA-AAA-AATAAAAAAATAAAAAAT
9721956 CAAAATAAAAAATAAAAAAATAAAAAAT
1 -AAAATAAAAAATAAAAAAATAAAAAAT
9721984 AAAA-AAAAATATAA
1 AAAATAAAAA-ATAA
9721998 TTTGAGGGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 5 0.13
27 18 0.47
28 9 0.24
29 6 0.16
ACGTcount: A:0.80, C:0.01, G:0.00, T:0.19
Consensus pattern (27 bp):
AAAATAAAAAATAAAAAAATAAAAAAT
Found at i:9721977 original size:15 final size:15
Alignment explanation
Indices: 9721923--9721990 Score: 79
Period size: 15 Copynumber: 4.6 Consensus size: 15
9721913 TTCCTAAAGT
9721923 ATAAAAAAATATAAATA
1 ATAAAAAAATA-AAA-A
*
9721940 ATAAATAAAT-AAAA
1 ATAAAAAAATAAAAA
*
9721954 AT--CAAAATAAAAA
1 ATAAAAAAATAAAAA
9721967 ATAAAAAAATAAAAA
1 ATAAAAAAATAAAAA
9721982 ATAAAAAAA
1 ATAAAAAAA
9721991 AATATAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 3 0.07
15 22 0.50
17 9 0.20
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:9721987 original size:7 final size:7
Alignment explanation
Indices: 9721926--9721989 Score: 69
Period size: 7 Copynumber: 8.9 Consensus size: 7
9721916 CTAAAGTATA
9721926 AAAAAAT
1 AAAAAAT
9721933 ATAAATAAT
1 A-AAA-AAT
9721942 AAATAAAT
1 AAA-AAAT
9721950 -AAAAAT
1 AAAAAAT
*
9721956 -CAAAAT
1 AAAAAAT
9721962 AAAAAAT
1 AAAAAAT
9721969 AAAAAAAT
1 -AAAAAAT
9721977 AAAAAAT
1 AAAAAAT
9721984 AAAAAA
1 AAAAAA
9721990 AAATATAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
6 9 0.18
7 21 0.42
8 15 0.30
9 5 0.10
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:9724024 original size:3 final size:3
Alignment explanation
Indices: 9724016--9724066 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
9724006 TAACTTGGAA
9724016 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9724064 AAG
1 AAG
9724067 CAGAGAGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9727815 original size:21 final size:21
Alignment explanation
Indices: 9727789--9727831 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9727779 GAGATATTAG
9727789 AATTTAAAGTTTGTTGTGTTA
1 AATTTAAAGTTTGTTGTGTTA
9727810 AATTTAAAGTTTGTTGTGTTA
1 AATTTAAAGTTTGTTGTGTTA
9727831 A
1 A
9727832 TAGTTTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (21 bp):
AATTTAAAGTTTGTTGTGTTA
Found at i:9730948 original size:3 final size:3
Alignment explanation
Indices: 9730942--9730979 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9730932 TTCAAAGCAA
9730942 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9730980 GATACTGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9734971 original size:13 final size:14
Alignment explanation
Indices: 9734947--9734985 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
9734937 AATTATGTAC
9734947 AAATAAATTAAAATT
1 AAAT-AATTAAAATT
9734962 AAAT-ATT-AAATT
1 AAATAATTAAAATT
9734974 AAATAATTAAAA
1 AAATAATTAAAA
9734986 AACATGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.41
13 6 0.27
14 3 0.14
15 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATTAAAATT
Found at i:9736309 original size:26 final size:26
Alignment explanation
Indices: 9736274--9736325 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9736264 AGTTATACTG
9736274 AAATTTGTTCTATTATCAGTTGTCTA
1 AAATTTGTTCTATTATCAGTTGTCTA
9736300 AAATTTGTTCTATTATCAGTTGTCTA
1 AAATTTGTTCTATTATCAGTTGTCTA
9736326 TCTATTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (26 bp):
AAATTTGTTCTATTATCAGTTGTCTA
Found at i:9741345 original size:31 final size:31
Alignment explanation
Indices: 9741310--9741370 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
9741300 TAAGAATAGA
9741310 AAAGATATATAATATATTCTTAAATATATGG
1 AAAGATATATAATATATTCTTAAATATATGG
9741341 AAAGATATATAATATATTCTTAAATATATG
1 AAAGATATATAATATATTCTTAAATATATG
9741371 TCTAAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (31 bp):
AAAGATATATAATATATTCTTAAATATATGG
Found at i:9752111 original size:440 final size:438
Alignment explanation
Indices: 9751293--9752175 Score: 1705
Period size: 440 Copynumber: 2.0 Consensus size: 438
9751283 ACTCTTAACT
9751293 GAGATAGGATCACAAGTTAATTCAACACCAACTCAATTAAGAAAATATCAAAAGAACCAGTATTT
1 GAGATAGGATCACAAGTTAATTCAACACCAACTCAATTAAGAAAATATCAAAAGAACCAGTATTT
9751358 TCAAAAATATTATAATAAGGGTGACTATGTCATTTAATATTTTTAATACAATATCTTTGAAAAAA
66 TCAAAAATATTATAATAAGGGTGACTATGTCATTTAATATTTTTAATACAATATCTTTGAAAAAA
9751423 AATAACCATTTATTTTTAAAAATTACTATATACAAAAACAACTATGAACTACCCACCTCCTGTAA
131 AATAACCATTTATTTTTAAAAATTACTATATACAAAAACAACTATGAACTACCCACCTCCTGTAA
9751488 GAACAGTACTTTCACCAAAAAAAAAAGCACCAACAATTAAAAAAGTTCTATGTATATTTATCTTT
196 GAACAGTACTTTCACCAAAAAAAAAAGCACCAACAATTAAAAAAGTTCTATGTATATTTATCTTT
9751553 TTTTAAGCGTTGCAAGTGCGAAACATAAGTGTTTTCGTCACCAAAATATGCGTCATAAGGTAATC
261 TTTTAAGCGTTGCAAGTGCGAAACATAAGTGTTTTCGTCACCAAAATATGCGTCATAAGGTAATC
9751618 TAGTATCAAGTTAATGAAGTAGCTGAAAGGAAGAAAAGAAAGAAACCAGACCAAGAAGGAAATAG
326 TAGTATCAAGTTAATGAAGTAGCTGAAAGGAAGAAAAGAAAGAAACCAGACCAAGAAGGAAATAG
9751683 GAGAAGAGTAATCACTGATTT-GGGGGGGGGGAGGCAAAATATAAACA
391 GAGAAGAGTAATCACTGATTTGGGGGGGGGGGAGGCAAAATATAAACA
9751730 GAGATAGGATCACAAGTTAATTCAACACCAACTCAATTAAGAAAATATCAAAAGAACCAGTATTT
1 GAGATAGGATCACAAGTTAATTCAACACCAACTCAATTAAGAAAATATCAAAAGAACCAGTATTT
*
9751795 TCAAAAATATTATAATAAGGGTGACTATGTCTTTTAATATTTTTAATACAATATCTTTGAAAAAA
66 TCAAAAATATTATAATAAGGGTGACTATGTCATTTAATATTTTTAATACAATATCTTTG-AAAAA
9751860 AAATAACCATTTATTTTTAAAAATTACTATATACAAAAACAACTATGAACTACCCACCTCCTGTA
130 AAATAACCATTTATTTTTAAAAATTACTATATACAAAAACAACTATGAACTACCCACCTCCTGTA
*
9751925 AGAACAGTACTTTCACCAAAAAAAAAAAGCATCAACAATTAAAAAAAGTTCTATGTATATTTATC
195 AGAACAGTACTTTCACC-AAAAAAAAAAGCACCAACAATT-AAAAAAGTTCTATGTATATTTATC
9751990 TTTTTTTAAGCGTTGCAAGTGCGAAACATAAGTGTTTTCGTCACCAAAATATGCGTCATAAGGTA
258 TTTTTTTAAGCGTTGCAAGTGCGAAACATAAGTGTTTTCGTCACCAAAATATGCGTCATAAGGTA
9752055 ATCTAGTATCAAGTTAATGAAGTAGCTGAAAGGAAGAAAAGAAAGAAACCAGACCAAGAAGGAAA
323 ATCTAGTATCAAGTTAATGAAGTAGCTGAAAGGAAGAAAAGAAAGAAACCAGACCAAGAAGGAAA
9752120 TAGGAGAAGAGTAATCACTGATTTGGGGGGGGGGGGAGGCAAAATATAAACA
388 TAGGAGAAGAGTAATCACTGATTT-GGGGGGGGGGGAGGCAAAATATAAACA
9752172 GAGA
1 GAGA
9752176 AGCAACTTTG
Statistics
Matches: 439, Mismatches: 2, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
437 123 0.28
438 87 0.20
439 21 0.05
440 178 0.41
442 30 0.07
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (438 bp):
GAGATAGGATCACAAGTTAATTCAACACCAACTCAATTAAGAAAATATCAAAAGAACCAGTATTT
TCAAAAATATTATAATAAGGGTGACTATGTCATTTAATATTTTTAATACAATATCTTTGAAAAAA
AATAACCATTTATTTTTAAAAATTACTATATACAAAAACAACTATGAACTACCCACCTCCTGTAA
GAACAGTACTTTCACCAAAAAAAAAAGCACCAACAATTAAAAAAGTTCTATGTATATTTATCTTT
TTTTAAGCGTTGCAAGTGCGAAACATAAGTGTTTTCGTCACCAAAATATGCGTCATAAGGTAATC
TAGTATCAAGTTAATGAAGTAGCTGAAAGGAAGAAAAGAAAGAAACCAGACCAAGAAGGAAATAG
GAGAAGAGTAATCACTGATTTGGGGGGGGGGGAGGCAAAATATAAACA
Found at i:9754148 original size:2 final size:2
Alignment explanation
Indices: 9754143--9754169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9754133 ATGGGTGAAT
9754143 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
9754170 AGCAAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9757527 original size:17 final size:17
Alignment explanation
Indices: 9757487--9757528 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
9757477 CTATTTGGGC
*
9757487 CGTGTGGGCCACACGGG
1 CGTGTGTGCCACACGGG
9757504 CGTGTGTGCCACACGGG
1 CGTGTGTGCCACACGGG
9757521 CGTGTGTG
1 CGTGTGTG
9757529 AGGTCGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.10, C:0.26, G:0.45, T:0.19
Consensus pattern (17 bp):
CGTGTGTGCCACACGGG
Found at i:9759469 original size:37 final size:37
Alignment explanation
Indices: 9759377--9759574 Score: 206
Period size: 37 Copynumber: 5.4 Consensus size: 37
9759367 GTGTTGTATG
* * *
9759377 CTGAATGAAGCTCAAAC-GAGCAAAATCTAGTA-ATATA
1 CTGAATAAAGCTC-AACTGAGCGAAATCTA-CAGATATA
* * *
9759414 CTG-A-AAAGCTTAAGTGAGCCAAATCTACAGATATA
1 CTGAATAAAGCTCAACTGAGCGAAATCTACAGATATA
* * *
9759449 GTGAATAAAGCTCAACTGAGCAAAATCTATAGATATA
1 CTGAATAAAGCTCAACTGAGCGAAATCTACAGATATA
* * * *
9759486 CTGAATAAATCTGAATTGAGCGAAATCTACGGATATA
1 CTGAATAAAGCTCAACTGAGCGAAATCTACAGATATA
* * *
9759523 CTAAATAAAGCTCAACTGAGCGATATCTACTGATATA
1 CTGAATAAAGCTCAACTGAGCGAAATCTACAGATATA
9759560 CTGAATAAAGCTCAA
1 CTGAATAAAGCTCAA
9759575 TCGAGCATTA
Statistics
Matches: 133, Mismatches: 24, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
34 3 0.02
35 23 0.17
36 2 0.02
37 105 0.79
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (37 bp):
CTGAATAAAGCTCAACTGAGCGAAATCTACAGATATA
Found at i:9759535 original size:74 final size:75
Alignment explanation
Indices: 9759384--9759571 Score: 235
Period size: 74 Copynumber: 2.6 Consensus size: 75
9759374 ATGCTGAATG
* *
9759384 AAGCTCAAAC-GAGCAAAATCTAGTA-ATATACTG-A-AAAGCTTAAGTGAGCCAAATCTACAGA
1 AAGCTC-AACTGAGCAAAATCTACTAGATATACTGAATAAAGCTGAAGTGAGCCAAATCTACAGA
* *
9759445 TATAGTGAATA
65 TATACTAAATA
* * * *
9759456 AAGCTCAACTGAGCAAAATCTA-TAGATATACTGAATAAATCTGAATTGAGCGAAATCTACGGAT
1 AAGCTCAACTGAGCAAAATCTACTAGATATACTGAATAAAGCTGAAGTGAGCCAAATCTACAGAT
9759520 ATACTAAATA
66 ATACTAAATA
* *
9759530 AAGCTCAACTGAGCGATATCTACT-GATATACTGAATAAAGCT
1 AAGCTCAACTGAGCAAAATCTACTAGATATACTGAATAAAGCT
9759572 CAATCGAGCA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
71 5 0.05
72 26 0.26
73 1 0.01
74 68 0.67
75 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (75 bp):
AAGCTCAACTGAGCAAAATCTACTAGATATACTGAATAAAGCTGAAGTGAGCCAAATCTACAGAT
ATACTAAATA
Found at i:9768522 original size:13 final size:13
Alignment explanation
Indices: 9768506--9768531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9768496 TGCATTTAAC
9768506 TATTTAATTTTTT
1 TATTTAATTTTTT
9768519 TATTTAATTTTTT
1 TATTTAATTTTTT
9768532 GTATGTGTTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTAATTTTTT
Found at i:9784426 original size:20 final size:20
Alignment explanation
Indices: 9784388--9784426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9784378 TATAAAAAAA
* * *
9784388 ATAAGAAGAAACCTTTTTTT
1 ATAAGAAAAAAACTCTTTTT
9784408 ATAAGAAAAAAACTCTTTT
1 ATAAGAAAAAAACTCTTTT
9784427 AGAGCAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (20 bp):
ATAAGAAAAAAACTCTTTTT
Found at i:9786885 original size:17 final size:17
Alignment explanation
Indices: 9786860--9786893 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9786850 ATATGGAAAC
*
9786860 TAATCTTAGAAGATTTG
1 TAATATTAGAAGATTTG
9786877 TAATATTAGAAGATTTG
1 TAATATTAGAAGATTTG
9786894 ATTTCGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TAATATTAGAAGATTTG
Found at i:9786903 original size:23 final size:22
Alignment explanation
Indices: 9786871--9786914 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9786861 AATCTTAGAA
9786871 GATTTGTAATATTAGAAGATTT
1 GATTTGTAATATTAGAAGATTT
* *
9786893 GATTTCGTAATGTTAGAGGATT
1 GATTT-GTAATATTAGAAGATT
9786915 GTGTAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (22 bp):
GATTTGTAATATTAGAAGATTT
Found at i:9788303 original size:46 final size:46
Alignment explanation
Indices: 9788233--9788371 Score: 145
Period size: 46 Copynumber: 3.0 Consensus size: 46
9788223 TATTGCCCAC
* * * **
9788233 AGGTTCCGAGGTCTAGCATTTGTTGCAAACTTGAGAATACAAGAAT
1 AGGTTCCGAGCTCCAGCATATGTTGCGGACTTGAGAATACAAGAAT
* * * **
9788279 AGGTTCCGAGCTCCAGTA-AGTGTTGCGGACTCGAGAATACAGGTTT
1 AGGTTCCGAGCTCCAGCATA-TGTTGCGGACTTGAGAATACAAGAAT
* * *
9788325 AGGTTCTGAGCTCCTGCATATGTTGCGGACTTGAGAATATAAGAAT
1 AGGTTCCGAGCTCCAGCATATGTTGCGGACTTGAGAATACAAGAAT
9788371 A
1 A
9788372 TTAAGCCCAA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
46 72 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (46 bp):
AGGTTCCGAGCTCCAGCATATGTTGCGGACTTGAGAATACAAGAAT
Found at i:9791355 original size:246 final size:246
Alignment explanation
Indices: 9790921--9791420 Score: 991
Period size: 246 Copynumber: 2.0 Consensus size: 246
9790911 AAAATCTAAC
9790921 ATGGGCTTTTTATATTGGTCTAATAACAAATTTAGCACTCGAATGTTTACATATTCTATAAATTT
1 ATGGGCTTTTTATATTGGTCTAATAACAAATTTAGCACTCGAATGTTTACATATTCTATAAATTT
9790986 GATCCTAAATATAAAAAGATAAACAAATTTAGCCTTCAATGTTTACAAAATTTGTCATTTTAGTT
66 GATCCTAAATATAAAAAGATAAACAAATTTAGCCTTCAATGTTTACAAAATTTGTCATTTTAGTT
9791051 TAAATTCTAAAAAAATCAATAAATTTAGCTTTCAATATTTACAAAATGACAAATTTTGCTTCTTA
131 TAAATTCTAAAAAAATCAATAAATTTAGCTTTCAATATTTACAAAATGACAAATTTTGCTTCTTA
9791116 ATAATTTTAGTTATGTTATACCCCGAGTAGTGACCCTCAACATACCTGTAG
196 ATAATTTTAGTTATGTTATACCCCGAGTAGTGACCCTCAACATACCTGTAG
9791167 ATGGGCTTTTTATATTGGTCTAATAACAAATTTAGCACTCGAATGTTTACATATTCTATAAATTT
1 ATGGGCTTTTTATATTGGTCTAATAACAAATTTAGCACTCGAATGTTTACATATTCTATAAATTT
9791232 GATCCTAAATATAAAAAGATAAACAAATTTAGCCTTCAATGTTTACAAAATTTGTCATTTTAGTT
66 GATCCTAAATATAAAAAGATAAACAAATTTAGCCTTCAATGTTTACAAAATTTGTCATTTTAGTT
9791297 TAAATTCTAAAAAAATCAATAAATTTAGCTTTCAATATTTACAAAATGACAAATTTTGCTTCTTA
131 TAAATTCTAAAAAAATCAATAAATTTAGCTTTCAATATTTACAAAATGACAAATTTTGCTTCTTA
9791362 ATAATTTTAGTTATGTTATACCCCGAGTAGTGACCCTCAACATACCTGTAG
196 ATAATTTTAGTTATGTTATACCCCGAGTAGTGACCCTCAACATACCTGTAG
*
9791413 ATGAGCTT
1 ATGGGCTT
9791421 GACACATGTC
Statistics
Matches: 253, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
246 253 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (246 bp):
ATGGGCTTTTTATATTGGTCTAATAACAAATTTAGCACTCGAATGTTTACATATTCTATAAATTT
GATCCTAAATATAAAAAGATAAACAAATTTAGCCTTCAATGTTTACAAAATTTGTCATTTTAGTT
TAAATTCTAAAAAAATCAATAAATTTAGCTTTCAATATTTACAAAATGACAAATTTTGCTTCTTA
ATAATTTTAGTTATGTTATACCCCGAGTAGTGACCCTCAACATACCTGTAG
Found at i:9791473 original size:20 final size:20
Alignment explanation
Indices: 9791445--9791484 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9791435 CCATAGACCC
*
9791445 AGAGTTAGTCCGTGAACCTT
1 AGAGCTAGTCCGTGAACCTT
**
9791465 AGAGCTAGTTTGTGAACCTT
1 AGAGCTAGTCCGTGAACCTT
9791485 CAGAACAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
AGAGCTAGTCCGTGAACCTT
Found at i:9797528 original size:19 final size:19
Alignment explanation
Indices: 9797504--9797587 Score: 72
Period size: 19 Copynumber: 4.5 Consensus size: 19
9797494 TAGGAGTTAA
9797504 GGATTTAGGGTTTAGCTAG
1 GGATTTAGGGTTTAGCTAG
*
9797523 GGATTTAGGGGTTAGACGTTAG
1 GGATTTAGGGTTTAG-C--TAG
*
9797545 GG-GTTAGGAG-TTA---A-
1 GGATTTAGG-GTTTAGCTAG
9797559 GGATTTAGGGTTTAGCTAG
1 GGATTTAGGGTTTAGCTAG
9797578 GGATTTAGGG
1 GGATTTAGGG
9797588 GTCAGATTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
14 3 0.06
15 9 0.17
18 1 0.02
19 24 0.46
20 1 0.02
21 8 0.15
22 6 0.12
ACGTcount: A:0.23, C:0.04, G:0.40, T:0.33
Consensus pattern (19 bp):
GGATTTAGGGTTTAGCTAG
Found at i:9797534 original size:55 final size:55
Alignment explanation
Indices: 9797475--9797589 Score: 230
Period size: 55 Copynumber: 2.1 Consensus size: 55
9797465 GGTTAGGGTC
9797475 GGGGTTAGACGTTAGGGGTTAGGAGTTAAGGATTTAGGGTTTAGCTAGGGATTTA
1 GGGGTTAGACGTTAGGGGTTAGGAGTTAAGGATTTAGGGTTTAGCTAGGGATTTA
9797530 GGGGTTAGACGTTAGGGGTTAGGAGTTAAGGATTTAGGGTTTAGCTAGGGATTTA
1 GGGGTTAGACGTTAGGGGTTAGGAGTTAAGGATTTAGGGTTTAGCTAGGGATTTA
9797585 GGGGT
1 GGGGT
9797590 CAGATTAGGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (55 bp):
GGGGTTAGACGTTAGGGGTTAGGAGTTAAGGATTTAGGGTTTAGCTAGGGATTTA
Found at i:9798213 original size:15 final size:15
Alignment explanation
Indices: 9798195--9798262 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
9798185 GAGTTAGGGG
9798195 TTAAGGGTTTAGGAT
1 TTAAGGGTTTAGGAT
**
9798210 TTAAGGG-TTAGGGG
1 TTAAGGGTTTAGGAT
* *
9798224 TTAAGGGATTAATGAT
1 TTAAGGG-TTTAGGAT
9798240 TT-AGGGTTTAGGAAT
1 TTAAGGGTTTAGG-AT
*
9798255 TCAAGGGT
1 TTAAGGGT
9798263 CAAATCAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
14 16 0.40
15 14 0.35
16 10 0.25
ACGTcount: A:0.28, C:0.01, G:0.35, T:0.35
Consensus pattern (15 bp):
TTAAGGGTTTAGGAT
Found at i:9798217 original size:22 final size:22
Alignment explanation
Indices: 9798175--9798262 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
9798165 GTTTGGGATA
* *
9798175 TAAGGG-TTAGGAGTTAGGGGT
1 TAAGGGTTTAGGATTTAAGGGT
9798196 TAAGGGTTTAGGATTTAAGGGT
1 TAAGGGTTTAGGATTTAAGGGT
* * * *
9798218 TAGGGGTTAAGGGA-TTAATGAT
1 TAAGGGTTTA-GGATTTAAGGGT
* *
9798240 TTAGGGTTTAGGAATTCAAGGGT
1 TAAGGGTTTAGG-ATTTAAGGGT
9798263 CAAATCAGGG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 8 0.16
22 35 0.69
23 8 0.16
ACGTcount: A:0.27, C:0.01, G:0.39, T:0.33
Consensus pattern (22 bp):
TAAGGGTTTAGGATTTAAGGGT
Found at i:9798219 original size:29 final size:29
Alignment explanation
Indices: 9798181--9798247 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
9798171 GATATAAGGG
*
9798181 TTAGGAGTTAGGGGTTAAGGG-TTTAGGAT
1 TTAGG-GTTAGGGGTTAAGGGATTAAGGAT
*
9798210 TTAAGGGTTAGGGGTTAAGGGATTAATGAT
1 TT-AGGGTTAGGGGTTAAGGGATTAAGGAT
9798240 TTAGGGTT
1 TTAGGGTT
9798248 TAGGAATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (29 bp):
TTAGGGTTAGGGGTTAAGGGATTAAGGAT
Found at i:9798227 original size:14 final size:14
Alignment explanation
Indices: 9798178--9798230 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
9798168 TGGGATATAA
9798178 GGGTT-AGGAGTTAG
1 GGGTTAAGG-GTTAG
9798192 GGGTTAAGGGTTTAG
1 GGGTTAAGGG-TTAG
**
9798207 GATTTAAGGGTTAG
1 GGGTTAAGGGTTAG
9798221 GGGTTAAGGG
1 GGGTTAAGGG
9798231 ATTAATGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 18 0.55
15 15 0.45
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (14 bp):
GGGTTAAGGGTTAG
Found at i:9798235 original size:8 final size:7
Alignment explanation
Indices: 9798175--9798235 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
9798165 GTTTGGGATA
9798175 TAAGGGT
1 TAAGGGT
9798182 T-AGGAGT
1 TAAGG-GT
*
9798189 TAGGGGT
1 TAAGGGT
9798196 TAAGGGT
1 TAAGGGT
* *
9798203 TTAGGATT
1 TAAGG-GT
9798211 TAAGGGT
1 TAAGGGT
*
9798218 TAGGGGT
1 TAAGGGT
9798225 TAAGGGAT
1 TAAGGG-T
9798233 TAA
1 TAA
9798236 TGATTTAGGG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
6 3 0.07
7 28 0.67
8 11 0.26
ACGTcount: A:0.28, C:0.00, G:0.41, T:0.31
Consensus pattern (7 bp):
TAAGGGT
Found at i:9799063 original size:246 final size:245
Alignment explanation
Indices: 9798610--9799096 Score: 663
Period size: 246 Copynumber: 2.0 Consensus size: 245
9798600 GCCGCAAATA
* * * * * * ** *
9798610 TTGGATGCATTAGTGGCGTTTTTACAAGAAACGCCGCAAAAGTGTCTTAAAATTTTGAGTAAACG
1 TTGGAAGCAATAGCGGCGTTTGTACAAGAAACGCCGCAAAAGGGTATTAAAATAATGACTAAACG
* * *
9798675 ACGCCGTTTCTCTCCACGATTTTTAACTTATAAAAAGTTTAGAATTATTTACTTAAAACGTCACC
66 ACACCGTTTCTCTACACGATTTTTAACTTATAAAAAGTTTAGAATTATTTACTTAAAACATCACC
** * * *
9798740 GTTTGGCTTAAAGTACGTTAAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATT
131 GTTTGGCTTAAAGTAAATTAAGTATTAATGACGTTTTAACATAAAACACCAGAAACAATGCAATT
* ** *
9798805 TGAGAGTAACAAAACGGCGCCGTTTCTGTTTACGACTTTAAATATTTGTGC
196 TGAGACTAACAAAACGGCGCCGTTTCCCTTTACAACTTT-AATATTTGTGC
*
9798856 TTGGAAGCAATAGCGGCGTTTGTAC-AGTAAACGCCGCAAAAGGGTATTAAAATAATGTCTAAAC
1 TTGGAAGCAATAGCGGCGTTTGTACAAG-AAACGCCGCAAAAGGGTATTAAAATAATGACTAAAC
* * * *
9798920 GGCACCGTTTCTGTACACGATTTTTAACTTA-AAGAAATTTTAGAATTATTTATTTAAAACATCA
65 GACACCGTTTCTCTACACGATTTTTAACTTATAA-AAAGTTTAGAATTATTTACTTAAAACATCA
* * * *
9798984 CCGTTTGGGTTAAAGTAAATTAAGTATTAATGACGTTTTTACATAAAACACTAGAAATAATGCAA
129 CCGTTTGGCTTAAAGTAAATTAAGTATTAATGACGTTTTAACATAAAACACCAGAAACAATGCAA
9799049 TTTGAGACTAACAAAACGGCGCCGTTTCCCTTTACAACTTTAATATTT
194 TTTGAGACTAACAAAACGGCGCCGTTTCCCTTTACAACTTTAATATTT
9799097 AGTGGCATTT
Statistics
Matches: 209, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
245 11 0.05
246 198 0.95
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (245 bp):
TTGGAAGCAATAGCGGCGTTTGTACAAGAAACGCCGCAAAAGGGTATTAAAATAATGACTAAACG
ACACCGTTTCTCTACACGATTTTTAACTTATAAAAAGTTTAGAATTATTTACTTAAAACATCACC
GTTTGGCTTAAAGTAAATTAAGTATTAATGACGTTTTAACATAAAACACCAGAAACAATGCAATT
TGAGACTAACAAAACGGCGCCGTTTCCCTTTACAACTTTAATATTTGTGC
Found at i:9799415 original size:233 final size:233
Alignment explanation
Indices: 9799000--9799467 Score: 645
Period size: 233 Copynumber: 2.0 Consensus size: 233
9798990 GGGTTAAAGT
* * * *
9799000 AAATTAAGTATTAATGACGTTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAATGACGTTTTTACATAAAACACCAGAAAAAATGCAATTAGAGACTAACAAAA
*
9799065 CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCATTTTTAGGAAAACGCCGAAAATGTGG
66 CGGCGCCGTTTCCCTTTACAACTTTAATATATAGTGGCATTTTTAGGAAAACGCCGAAAATGTGG
* ** * * * * ** **
9799130 AATCAATAGTGGCGTTTTTATAGTAAATGCCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGC
131 AAGCAATAACGGCGTTTGTATAGAAAATGCAGCAAAAGGGTATTAAAGTAATGCCTAAACGACGC
* **
9799195 CGTTTCTGTGTACGATTTTTAACTTAGAAAAATTTTAG
196 CGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
* * * * *
9799233 AAATCAAGTATTAGTGGCGTTTTTACGTAAAACGCCAGAAAAAATGCAATTAGAGACTGACAAAA
1 AAATCAAGTATTAATGACGTTTTTACATAAAACACCAGAAAAAATGCAATTAGAGACTAACAAAA
* *
9799298 CGGCGTCG-TTCCTCTTTACAACTTTAATATATAGTGGCGTTTTTAGGAAAACGCC-AGAAATGT
66 CGGCGCCGTTTCC-CTTTACAACTTTAATATATAGTGGCATTTTTAGGAAAACGCCGA-AAATGT
*
9799361 GTAAGCAATAACGGCGTTTGTACT-GAAAATGCAGCAAAAGGGTATTAAAGTAATGCCTAAACGA
129 GGAAGCAATAACGGCGTTTGTA-TAGAAAATGCAGCAAAAGGGTATTAAAGTAATGCCTAAACGA
9799425 CGCCGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
193 CGCCGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
9799466 AA
1 AA
9799468 TTATTTATTT
Statistics
Matches: 205, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
232 5 0.02
233 199 0.97
234 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (233 bp):
AAATCAAGTATTAATGACGTTTTTACATAAAACACCAGAAAAAATGCAATTAGAGACTAACAAAA
CGGCGCCGTTTCCCTTTACAACTTTAATATATAGTGGCATTTTTAGGAAAACGCCGAAAATGTGG
AAGCAATAACGGCGTTTGTATAGAAAATGCAGCAAAAGGGTATTAAAGTAATGCCTAAACGACGC
CGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
Found at i:9800274 original size:60 final size:60
Alignment explanation
Indices: 9800203--9800326 Score: 223
Period size: 60 Copynumber: 2.1 Consensus size: 60
9800193 GTGAATTTTG
* *
9800203 TGAATTTTGGTTACAGTGTGTGAGGGATTTAGGTATAATTTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
9800263 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
9800323 -GAAT
1 TGAAT
9800327 GAATTTTGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 4 0.06
60 58 0.94
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
Found at i:9800391 original size:13 final size:13
Alignment explanation
Indices: 9800367--9800407 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9800357 ATTTTGTGAG
*
9800367 ATTTTCTAAATGA
1 ATTTTCTTAATGA
9800380 ATTTT-TTGAATGA
1 ATTTTCTT-AATGA
9800393 ATTTTCTTAATGA
1 ATTTTCTTAATGA
9800406 AT
1 AT
9800408 ATAGTAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (13 bp):
ATTTTCTTAATGA
Found at i:9800757 original size:23 final size:23
Alignment explanation
Indices: 9800705--9800757 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9800695 TCTTCATTTT
* *
9800705 TTTGCT-TGCATTTCTTTGCTTA
1 TTTGCTCTACATTTCTTCGCTTA
9800727 TCTT-CTCTACATTTCTTCGCTTA
1 T-TTGCTCTACATTTCTTCGCTTA
9800750 TTTGCTCT
1 TTTGCTCT
9800758 TTGTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.09, C:0.25, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTGCTCTACATTTCTTCGCTTA
Found at i:9801093 original size:15 final size:18
Alignment explanation
Indices: 9801059--9801094 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
9801049 TTAAATACTC
9801059 TTTTATTTCCTTGTTTTA
1 TTTTATTTCCTTGTTTTA
9801077 TTTT-TTTCC-TG-TTTA
1 TTTTATTTCCTTGTTTTA
9801092 TTT
1 TTT
9801095 GGTACTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 5 0.28
18 4 0.22
ACGTcount: A:0.08, C:0.11, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTATTTCCTTGTTTTA
Found at i:9801961 original size:13 final size:13
Alignment explanation
Indices: 9801945--9802043 Score: 83
Period size: 13 Copynumber: 7.5 Consensus size: 13
9801935 TTACTAAAAT
*
9801945 TTACTTTAATATA
1 TTACTTAAATATA
*
9801958 TTACTTGAATATA
1 TTACTTAAATATA
*
9801971 TTACTTAAATAAA
1 TTACTTAAATATA
*
9801984 TTACTTAAATACA
1 TTACTTAAATATA
* *
9801997 TCACTTACTAAAAT-
1 TTACTTA--AATATA
** *
9802011 TTGGTTAAATTTA
1 TTACTTAAATATA
*
9802024 TTACTTAAATACA
1 TTACTTAAATATA
9802037 TTACTTA
1 TTACTTA
9802044 CTAAAATTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
12 3 0.04
13 57 0.85
14 4 0.06
15 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:9802019 original size:40 final size:40
Alignment explanation
Indices: 9801975--9802052 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
9801965 AATATATTAC
9801975 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
** *
9802015 TTAAATTTATTACTTAAATACATTACTTACTAAAATTT
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTT
9802053 AAGTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (40 bp):
TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
Found at i:9802076 original size:9 final size:9
Alignment explanation
Indices: 9802062--9802410 Score: 186
Period size: 9 Copynumber: 40.4 Consensus size: 9
9802052 TAAGTATATA
*
9802062 TTACATTAC
1 TTACATAAC
9802071 TTACATAAC
1 TTACATAAC
9802080 TTACATAA-
1 TTACATAAC
9802088 -TACATAAC
1 TTACATAAC
*
9802096 TCT-GATAAC
1 T-TACATAAC
*
9802105 TAACAT-A-
1 TTACATAAC
*
9802112 -TACACAAC
1 TTACATAAC
9802120 TTACATAA-
1 TTACATAAC
* *
9802128 -GACATTAC
1 TTACATAAC
9802136 TTACATAAC
1 TTACATAAC
*
9802145 TTACATTA-
1 TTACATAAC
9802153 -TACATAAC
1 TTACATAAC
*
9802161 TTACATAAT
1 TTACATAAC
*** *
9802170 TTTTTTAATAT
1 TTACAT-A-AC
9802181 TATACATAAC
1 T-TACATAAC
* *
9802191 ATACATTA-
1 TTACATAAC
9802199 -TACATAAC
1 TTACATAAC
9802207 TTACATAAC
1 TTACATAAC
9802216 -T-CATAAC
1 TTACATAAC
9802223 TTACATAAC
1 TTACATAAC
*
9802232 TTA-ATTAC
1 TTACATAAC
**
9802240 ATTATGCA-CCC
1 -TTA--CATAAC
9802251 TTTACATAAC
1 -TTACATAAC
9802261 TTACATAAC
1 TTACATAAC
* *
9802270 TTACACAGC
1 TTACATAAC
*
9802279 TTACAT-TC
1 TTACATAAC
*
9802287 -TACACAAC
1 TTACATAAC
9802295 TTACATAAC
1 TTACATAAC
* *
9802304 ATACATTAC
1 TTACATAAC
**
9802313 TTTGATAAC
1 TTACATAAC
9802322 TTACATAAC
1 TTACATAAC
9802331 TTACATAA-
1 TTACATAAC
*
9802339 -TACACAAC
1 TTACATAAC
*
9802347 TTACATAGC
1 TTACATAAC
*
9802356 TTACTTAA-
1 TTACATAAC
9802364 -TACATAAC
1 TTACATAAC
9802372 TTACATAAC
1 TTACATAAC
*
9802381 TTATA-AAC
1 TTACATAAC
*
9802389 GTACATAAC
1 TTACATAAC
*
9802398 TTACATAAT
1 TTACATAAC
9802407 TTAC
1 TTAC
9802411 TTAATACATA
Statistics
Matches: 254, Mismatches: 56, Indels: 60
0.69 0.15 0.16
Matches are distributed among these distances:
6 3 0.01
7 47 0.19
8 15 0.06
9 174 0.69
10 4 0.02
11 8 0.03
12 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:9802092 original size:25 final size:24
Alignment explanation
Indices: 9802063--9802127 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
9802053 AAGTATATAT
* *
9802063 TACATTACTTACATAACTTACATAA
1 TACATAACTTACATAACTAACAT-A
*
9802088 TACATAACTCT-GATAACTAACATA
1 TACATAACT-TACATAACTAACATA
*
9802112 TACACAACTTACATAA
1 TACATAACTTACATAA
9802128 GACATTACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 13 0.39
25 18 0.55
26 1 0.03
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (24 bp):
TACATAACTTACATAACTAACATA
Found at i:9802145 original size:25 final size:25
Alignment explanation
Indices: 9802112--9802168 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
9802102 AACTAACATA
* *
9802112 TACACAACTTACATAAGACATTACT
1 TACATAACTTACATAAGACATAACT
* *
9802137 TACATAACTTACATTATACATAACT
1 TACATAACTTACATAAGACATAACT
9802162 TACATAA
1 TACATAA
9802169 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAAGACATAACT
Found at i:9802156 original size:16 final size:16
Alignment explanation
Indices: 9802137--9802244 Score: 77
Period size: 16 Copynumber: 7.1 Consensus size: 16
9802127 AGACATTACT
9802137 TACATAACTTACATTA
1 TACATAACTTACATTA
9802153 TACATAACTTACA-TA
1 TACATAACTTACATTA
* *** *
9802168 -A-TTTTTTTAATATTA
1 TACATAACTT-ACATTA
*
9802183 TACATAACATACATTA
1 TACATAACTTACATTA
*
9802199 TACATAACTTACATAA
1 TACATAACTTACATTA
9802215 CT-CATAACTTACA-TA
1 -TACATAACTTACATTA
*
9802230 -ACTTAA-TTACATTA
1 TACATAACTTACATTA
9802244 T
1 T
9802245 GCACCCTTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
13 8 0.12
14 9 0.13
15 5 0.07
16 44 0.64
17 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
TACATAACTTACATTA
Found at i:9802290 original size:25 final size:26
Alignment explanation
Indices: 9802262--9802421 Score: 143
Period size: 25 Copynumber: 6.3 Consensus size: 26
9802252 TTACATAACT
* * *
9802262 TACATAACTTACACAGCTTACATT-C
1 TACATAACTTACATAACTTACATTAA
* * *
9802287 TACACAACTTACATAACATACATTACT
1 TACATAACTTACATAACTTACATTA-A
**
9802314 TTGATAACTTACATAACTTACA-TAA
1 TACATAACTTACATAACTTACATTAA
* *
9802339 TACACAACTTACATAGCTTAC-TTAA
1 TACATAACTTACATAACTTACATTAA
*
9802364 TACATAACTTACATAACTT--ATAAA
1 TACATAACTTACATAACTTACATTAA
*
9802388 CGTACATAACTTACATAATTTAC-TTAA
1 --TACATAACTTACATAACTTACATTAA
9802415 TACATAA
1 TACATAA
9802422 ATATATATCA
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
24 3 0.03
25 64 0.59
26 20 0.19
27 21 0.19
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATTAA
Found at i:9802359 original size:34 final size:34
Alignment explanation
Indices: 9802252--9802406 Score: 113
Period size: 34 Copynumber: 4.5 Consensus size: 34
9802242 TATGCACCCT
* *
9802252 TTACATAACTTACATAACTTACACAGCTTACAT-TC
1 TTACATAACTTACATAA--TACACAACTTACATAAC
* ** **
9802287 -TACACAACTTACATAACATACATTACTTTGATAAC
1 TTACATAACTTACAT-A-ATACACAACTTACATAAC
*
9802322 TTACATAACTTACATAATACACAACTTACATAGC
1 TTACATAACTTACATAATACACAACTTACATAAC
* * *
9802356 TTACTTAA--TACATAACTTACATAACTTATA-AAC
1 TTACATAACTTACATAA--TACACAACTTACATAAC
*
9802389 GTACATAACTTACATAAT
1 TTACATAACTTACATAAT
9802407 TTACTTAATA
Statistics
Matches: 93, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
32 7 0.08
33 9 0.10
34 53 0.57
35 10 0.11
36 14 0.15
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.33
Consensus pattern (34 bp):
TTACATAACTTACATAATACACAACTTACATAAC
Found at i:9808683 original size:9 final size:9
Alignment explanation
Indices: 9808667--9808736 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
9808657 GGTATTTTTC
9808667 GGTAATTCG
1 GGTAATTCG
*
9808676 GTTAATTCG
1 GGTAATTCG
*
9808685 GTTAATTCG
1 GGTAATTCG
*
9808694 GTTAATTCG
1 GGTAATTCG
9808703 GGTAATTCG
1 GGTAATTCG
9808712 GGTAATTCG
1 GGTAATTCG
9808721 GGTAATTCG
1 GGTAATTCG
9808730 GGTAATT
1 GGTAATT
9808737 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:9809357 original size:113 final size:113
Alignment explanation
Indices: 9808935--9809375 Score: 614
Period size: 114 Copynumber: 3.9 Consensus size: 113
9808925 AACACCCCTA
* * * * *
9808935 AGTGGCGCTTATGCAAAAATGCCGCTAAAGCACAGCATTAGGGGCACATTGTAAAAAACGCCGCA
1 AGTGGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTAT-AAAAACGCCGCA
* * *
9809000 AAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATT
65 AAATATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATT
* *
9809049 AGTGGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGTGTATTATAAAAAGCGCCGCA
1 AGTGGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAA-CGCCGCA
* *
9809114 AAATATCTTAATCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATT
65 AAATATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATT
* * * * *
9809163 AGTGGCGCTTATGGAAAAACACCGCTAAAGCACAGTATTAGCAGCGCATTATACAAAACACCGTA
1 AGTGGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATA-AAAACGCCGCA
*
9809228 AAATATCTTAACCAAAACACAGTGTTTGGTCTTGAGGTATATTAGAATT
65 AAATATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATT
* * * * *
9809277 AGTGGCGCTTATG-AAAAACGCCGCTAAATCACAGTATTAGCGGCGCTTTGTGAAAAATGTCGCA
1 AGTGGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTAT-AAAAACGCCGCA
* *
9809341 AAATATCTTAACCAAAACAAAGTGTTTGGTCTTGA
65 AAATATCTTAACCAAAACACAGCGTTTGGTCTTGA
9809376 TTTATAGAGC
Statistics
Matches: 294, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
113 79 0.27
114 211 0.72
115 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (113 bp):
AGTGGCGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAACGCCGCAA
AATATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAGAATT
Found at i:9809872 original size:7 final size:7
Alignment explanation
Indices: 9809862--9809951 Score: 76
Period size: 7 Copynumber: 13.0 Consensus size: 7
9809852 AGAGTTTTGA
9809862 GTTTAGG
1 GTTTAGG
*
9809869 GTTTATG
1 GTTTAGG
* *
9809876 ATGTA-G
1 GTTTAGG
9809882 GTTTA-G
1 GTTTAGG
9809888 GTTTAGG
1 GTTTAGG
9809895 GTTTAAGG
1 GTTT-AGG
* *
9809903 TTTTAGA
1 GTTTAGG
*
9809910 GTTTGGG
1 GTTTAGG
*
9809917 GTTTAAG
1 GTTTAGG
*
9809924 GTTTGGG
1 GTTTAGG
9809931 GTTTAGG
1 GTTTAGG
*
9809938 GTTTGGG
1 GTTTAGG
9809945 GTTTAGG
1 GTTTAGG
9809952 TCGCTTTAGT
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
6 10 0.16
7 48 0.75
8 6 0.09
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:9809950 original size:14 final size:14
Alignment explanation
Indices: 9809887--9809951 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
9809877 TGTAGGTTTA
*
9809887 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTT-GG
* *
9809902 GTTTTAGAGTTTGG
1 GGTTTAGGGTTTGG
*
9809916 GGTTTAAGGTTTGG
1 GGTTTAGGGTTTGG
9809930 GGTTTAGGGTTTGG
1 GGTTTAGGGTTTGG
9809944 GGTTTAGG
1 GGTTTAGG
9809952 TCGCTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 33 0.77
15 10 0.23
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGTTTGG
Found at i:9810070 original size:16 final size:16
Alignment explanation
Indices: 9810049--9810090 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
9810039 AATGTATGGT
9810049 TTTAGGGTTTGTGCGA
1 TTTAGGGTTTGTGCGA
9810065 TTTAGGGTTTGTGCGA
1 TTTAGGGTTTGTGCGA
9810081 TTTAGGGTTT
1 TTTAGGGTTT
9810091 ATTGTTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.12, C:0.05, G:0.36, T:0.48
Consensus pattern (16 bp):
TTTAGGGTTTGTGCGA
Found at i:9810406 original size:44 final size:45
Alignment explanation
Indices: 9810355--9810457 Score: 140
Period size: 44 Copynumber: 2.3 Consensus size: 45
9810345 AGCATGACCA
*
9810355 TAGCGGCGTTTGTTGAAAAAAACGCCGCT-AAAGAACATTA-CTT
1 TAGCGGCGTTTGTTGAAAAAAACGCCGCTAAAAGAACATGAGCTT
* **
9810398 GTAGCGGCGTTTG-TGGAAAAGGCGCCGCTAAAAGAACATGAGCTT
1 -TAGCGGCGTTTGTTGAAAAAAACGCCGCTAAAAGAACATGAGCTT
9810443 TAGCGGCGTTTGTTG
1 TAGCGGCGTTTGTTG
9810458 GTATGCGTCG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
43 13 0.25
44 34 0.65
45 5 0.10
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
TAGCGGCGTTTGTTGAAAAAAACGCCGCTAAAAGAACATGAGCTT
Found at i:9810633 original size:84 final size:85
Alignment explanation
Indices: 9810482--9810664 Score: 235
Period size: 84 Copynumber: 2.2 Consensus size: 85
9810472 AGGTCATGTT
* * * *
9810482 CTTTAGCGGCGTTTGTCATAGAATCGCCGCTAAAGAACATTACCTTTAGCGGCATTTCTGAGAAA
1 CTTTAGCGGCGTTTGTCATAGAAGCGCCACTAAAGAACATGACCTTTAGCGACATTTCTGAGAAA
*
9810547 GCGCTGCTAAAGAACATGAC
66 GCGCTACTAAAGAACATGAC
** * * * **
9810567 CTTTAGCGGCGTTT-TTTTTGAAGCGCCACTAAAGAACATGACCTTTAGCGACGTTTATTTTG-A
1 CTTTAGCGGCGTTTGTCATAGAAGCGCCACTAAAGAACATGACCTTTAGCGACATTT-CTGAGAA
9810630 AGCGCTACTAAAGAACATGAC
65 AGCGCTACTAAAGAACATGAC
9810651 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
9810665 ATTTCTGTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 69 0.81
85 16 0.19
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (85 bp):
CTTTAGCGGCGTTTGTCATAGAAGCGCCACTAAAGAACATGACCTTTAGCGACATTTCTGAGAAA
GCGCTACTAAAGAACATGAC
Found at i:9810664 original size:42 final size:42
Alignment explanation
Indices: 9810511--9810668 Score: 219
Period size: 42 Copynumber: 3.8 Consensus size: 42
9810501 AGAATCGCCG
* * * ** *
9810511 CTAAAGAACATTACCTTTAGCGGCATTT-CTGAGAAAGCGCTG
1 CTAAAGAACATGACCTTTAGCGGCGTTTATTTTG-AAGCGCTA
* *
9810553 CTAAAGAACATGACCTTTAGCGGCGTTTTTTTTGAAGCGCCA
1 CTAAAGAACATGACCTTTAGCGGCGTTTATTTTGAAGCGCTA
*
9810595 CTAAAGAACATGACCTTTAGCGACGTTTATTTTGAAGCGCTA
1 CTAAAGAACATGACCTTTAGCGGCGTTTATTTTGAAGCGCTA
9810637 CTAAAGAACATGACCTTTAGCGGCGTTTATTT
1 CTAAAGAACATGACCTTTAGCGGCGTTTATTT
9810669 CTGTAAATGC
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 102 0.98
43 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
CTAAAGAACATGACCTTTAGCGGCGTTTATTTTGAAGCGCTA
Found at i:9814018 original size:3 final size:3
Alignment explanation
Indices: 9814012--9814039 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9814002 AAGAAGAGCT
9814012 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9814040 GTAACAACTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9821326 original size:29 final size:29
Alignment explanation
Indices: 9821269--9821326 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9821259 GTGCTGGTGA
* *
9821269 TTACAGTTTTCAAGTATTATGTACCAGTG
1 TTACAGTTTTCAAGCATTATGTACAAGTG
* * *
9821298 TTACAGTTTTCAGGCATTCTGTGCAAGTG
1 TTACAGTTTTCAAGCATTATGTACAAGTG
9821327 ATATATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (29 bp):
TTACAGTTTTCAAGCATTATGTACAAGTG
Found at i:9822422 original size:24 final size:25
Alignment explanation
Indices: 9822382--9822436 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
9822372 GTTAGATGAT
*
9822382 TAAAATAATTAAGAATT-AATTAAA
1 TAAAATAATTAAAAATTAAATTAAA
9822406 TAAAAT-ATTAAAAAATTAGAATTAAA
1 TAAAATAATT-AAAAATTA-AATTAAA
9822432 -AAAAT
1 TAAAAT
9822437 TAGGTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 12 0.44
25 5 0.19
26 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAATAATTAAAAATTAAATTAAA
Found at i:9822431 original size:14 final size:14
Alignment explanation
Indices: 9822380--9822457 Score: 50
Period size: 15 Copynumber: 5.3 Consensus size: 14
9822370 GGGTTAGATG
9822380 ATTAAAATAATTAAGA
1 ATTAAAA-AATT-AGA
* * *
9822396 ATTAATTAAATAAAA
1 ATTAA-AAAATTAGA
9822411 TATTAAAAAATTAGA
1 -ATTAAAAAATTAGA
9822426 ATTAAAAAAATTAG-
1 ATT-AAAAAATTAGA
* * *
9822440 GTTAAGAAATTAAA
1 ATTAAAAAATTAGA
9822454 ATTA
1 ATTA
9822458 GGTGTCTGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
13 8 0.17
14 8 0.17
15 18 0.38
16 13 0.27
17 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (14 bp):
ATTAAAAAATTAGA
Found at i:9823898 original size:23 final size:23
Alignment explanation
Indices: 9823865--9823982 Score: 134
Period size: 23 Copynumber: 5.1 Consensus size: 23
9823855 TATGTTGAAA
9823865 GGTA-TATTGGTTGTGTTTGGAG
1 GGTATTATTGGTTGTGTTTGGAG
* *
9823887 GGTATTCTTGGTTGTGTTCGGAG
1 GGTATTATTGGTTGTGTTTGGAG
* *
9823910 GTTATATATATGGTTGTGTTCGGAG
1 GGTAT-TAT-TGGTTGTGTTTGGAG
9823935 GGTGATTA-TGGTTGTGTTTGGAG
1 GGT-ATTATTGGTTGTGTTTGGAG
* *
9823958 GGTA-GATTGGTTGTGTTTGGTG
1 GGTATTATTGGTTGTGTTTGGAG
9823980 GGT
1 GGT
9823983 GATAGCTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 22 0.27
23 37 0.45
24 2 0.02
25 19 0.23
26 2 0.02
ACGTcount: A:0.13, C:0.03, G:0.41, T:0.44
Consensus pattern (23 bp):
GGTATTATTGGTTGTGTTTGGAG
Found at i:9823935 original size:48 final size:47
Alignment explanation
Indices: 9823867--9823985 Score: 136
Period size: 48 Copynumber: 2.6 Consensus size: 47
9823857 TGTTGAAAGG
* *
9823867 TATATTGGTTGTGTTTGGAGGGT-ATTCTTGGTTGTGTTCGGAGGTTA
1 TATATTGGTTGTGTTCGGAGGGTGATT-ATGGTTGTGTTCGGAGGTTA
* *
9823914 TATATATGGTTGTGTTCGGAGGGTGATTATGGTTGTGTTTGGAGG--G
1 TATAT-TGGTTGTGTTCGGAGGGTGATTATGGTTGTGTTCGGAGGTTA
* * *
9823960 TAGATTGGTTGTGTTTGGTGGGTGAT
1 TATATTGGTTGTGTTCGGAGGGTGAT
9823986 AGCTTTATGC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 19 0.30
46 4 0.06
47 5 0.08
48 32 0.51
49 3 0.05
ACGTcount: A:0.13, C:0.03, G:0.39, T:0.45
Consensus pattern (47 bp):
TATATTGGTTGTGTTCGGAGGGTGATTATGGTTGTGTTCGGAGGTTA
Found at i:9832297 original size:25 final size:25
Alignment explanation
Indices: 9832222--9832314 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
9832212 TCATTAAGGA
*
9832222 TTACCTATTCTCAGCTCGTATGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
* * *
9832247 TTACCGATT-GCAACTCGTAAGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
* *
9832271 TTATCGATTCTCAGCTCATATGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
*
9832296 TTACC-ATTTTACAGCTCGT
1 TTACCGATTCT-CAGCTCGT
9832315 GAGAGCATAC
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 24 0.44
25 30 0.56
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (25 bp):
TTACCGATTCTCAGCTCGTATGAGC
Found at i:9836562 original size:12 final size:12
Alignment explanation
Indices: 9836541--9836571 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9836531 CCACACGCCC
9836541 GTGTGCCAAACT
1 GTGTGCCAAACT
*
9836553 GTGTGTCAAACT
1 GTGTGCCAAACT
9836565 GTGTGCC
1 GTGTGCC
9836572 CTTTCGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (12 bp):
GTGTGCCAAACT
Found at i:9837615 original size:37 final size:39
Alignment explanation
Indices: 9837524--9837621 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
9837514 AACACACCAG
* **
9837524 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAATAGTAA
1 TTTGGCACCCAGTGTCTCATCGGATAAACCG-AATAGTAA
* * * *
9837564 ATTGACACCAAGTGTCTCATCGGTTAAACCG-A-AGTAA
1 TTTGGCACCCAGTGTCTCATCGGATAAACCGAATAGTAA
9837601 TTTGGCACCCAGTGTCTCATC
1 TTTGGCACCCAGTGTCTCATC
9837622 AACTCGAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 23 0.48
38 1 0.02
40 24 0.50
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (39 bp):
TTTGGCACCCAGTGTCTCATCGGATAAACCGAATAGTAA
Found at i:9838482 original size:4 final size:4
Alignment explanation
Indices: 9838473--9838548 Score: 61
Period size: 4 Copynumber: 19.0 Consensus size: 4
9838463 TGTGTTTCTC
*
9838473 CTTT CTTT CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT C-TT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
9838518 CTTT CTGTTT CGTTT CTAT CTTT CTAT CTTT
1 CTTT C--TTT C-TTT CTTT CTTT CTTT CTTT
9838549 ATTTTTTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
3 9 0.15
4 38 0.64
5 8 0.14
6 4 0.07
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:9838498 original size:22 final size:23
Alignment explanation
Indices: 9838467--9838521 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
9838457 TAGCCTTGTG
9838467 TTTCTCCTTTCTT-TCTTTCTTTC
1 TTTCTCCTTT-TTCTCTTTCTTTC
*
9838490 TTTC-CCTTTTTCTTTTTCTTTC
1 TTTCTCCTTTTTCTCTTTCTTTC
*
9838512 TTTCTTCTTT
1 TTTCTCCTTT
9838522 CTGTTTCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 18 0.64
23 8 0.29
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTCTCCTTTTTCTCTTTCTTTC
Found at i:9838533 original size:22 final size:20
Alignment explanation
Indices: 9838475--9838539 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
9838465 TGTTTCTCCT
9838475 TTCTTTC-TTTCTTTCTTTCCC
1 TTCTTTCTTTTCTTTCTTT--C
9838496 TT-TTTCTTTTTCTTTCTTTC
1 TTCTTTC-TTTTCTTTCTTTC
*
9838516 TTCTTTCTGTTTCGTTTCTATC
1 TTCTTTCT-TTTC-TTTCTTTC
9838538 TT
1 TT
9838540 TCTATCTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 8 0.21
21 10 0.26
22 20 0.53
ACGTcount: A:0.02, C:0.25, G:0.03, T:0.71
Consensus pattern (20 bp):
TTCTTTCTTTTCTTTCTTTC
Found at i:9840585 original size:21 final size:21
Alignment explanation
Indices: 9840560--9840613 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
9840550 ATGAACATAC
* *
9840560 ATATATTTATATCTTTTTTGT
1 ATATATTTATATCATTTTTCT
*
9840581 ATATATCTTAAAATCATTTTTCT
1 ATATAT-TT-ATATCATTTTTCT
9840604 ATAT-TTTATA
1 ATATATTTATA
9840614 AGTTGTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 2 0.07
21 8 0.30
22 3 0.11
23 14 0.52
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
ATATATTTATATCATTTTTCT
Found at i:9858256 original size:88 final size:87
Alignment explanation
Indices: 9858077--9858241 Score: 210
Period size: 88 Copynumber: 1.9 Consensus size: 87
9858067 AAGACAACAG
* ** * *
9858077 ATCTTGCCTTCCTGCCTTGACAGTGAAGCAGATCGAAGATACAAGCTTTGTCTCCATCGGTTGCG
1 ATCTTGCCTTCCTGCCTTAACAACGAAGCAGATCGAAGATACAAGCCTTGTCTCCATCGGTTGCA
*
9858142 GTGGAGCTGATTGAAGATAGCAT
66 GTGGAGCAGATTGAAGATA-CAT
* *
9858165 ATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAA-A-ACAAAGCCTTG-CGTCCATTGGTTG
1 ATCTTGCCTTCCTGCCTTAACAACGAAGCAGATCGAAGATAC-AAGCCTTGTC-TCCATCGGTTG
9858227 CAGTGGAGCAGATTG
64 CAGTGGAGCAGATTG
9858242 TGTCAGATCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 3 0.04
87 31 0.46
88 33 0.49
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (87 bp):
ATCTTGCCTTCCTGCCTTAACAACGAAGCAGATCGAAGATACAAGCCTTGTCTCCATCGGTTGCA
GTGGAGCAGATTGAAGATACAT
Found at i:9858302 original size:44 final size:42
Alignment explanation
Indices: 9858227--9858998 Score: 361
Period size: 44 Copynumber: 18.1 Consensus size: 42
9858217 CCATTGGTTG
*
9858227 CAGTGGAGCAGATTG-TGTCAG-ATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAG-CAGAATCTTATCTCCCTGAGATTA
*
9858268 CAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGC-AG-AATCTTATCTCCCTGAGATTA
* ** * * * *
9858312 CGGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATT-GAA-GCAGAATCTTATCTCCCTGAGA-TTA
* * * * * * *
9858356 CAGTAGAGTAGATCGCACCAG-GTCTTATTTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGATTA
* *
9858397 CAGTGGAACAGACTGAAGAATTTCAG-ATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAG-----CAGAATCTTATCTCCCTGAGATTA
* *
9858443 CAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTA
1 CAGTGGAGCAGATTGAAGC-AG-AATCTTATCTCCCTGAGATTA
* * *
9858487 CAGTGGAGCGGATT-AA--AGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGA-TTA
* ** * * * * *
9858526 CAGTAGAGTGGATCGCACCAG-GTCTTATTTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGATTA
** * *
9858567 CAGTGGAATAGACTGAAGAATTTCAG-ATCTTATCTCCCTAAGATTA
1 CAGTGGAGCAGATTGAAG-----CAGAATCTTATCTCCCTGAGATTA
* * * *
9858613 CAGCGCAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTA
1 CAGTGGAGCAGATTGAAGC-AG-AATCTTATCTCCCTGAGATTA
* *
9858657 CAGTGGAGC-GCATT-AA--AGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAG-ATTGAAGCAGAATCTTATCTCCCTGAGA-TTA
* ** * * * *
9858696 CAGTAGAGTGGATCGTATCAG-GTCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGATTA
**
9858737 CAGTGGAGCAGACCGAAGAATTACAG-ATCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAG-----CAGAATCTTATCTCCCTGAGATTA
* * *
9858783 CAGCGGAGCAGA-TCAGAGACAGTAATCCTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGA-AG-CAG-AATCTTATCTCCCTGAGATTA
** * ** * *
9858827 CAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATT-GAA-GCAGAATCTTATCTCCCTGAGA-TTA
* * * * * *
9858871 CAGTAGAGAAGATCGTATCAG-GTCTTATCTCCCTGAGATTA
1 CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGATTA
* ** * * *
9858912 CAGCGGAGCAGATCAAAGACAGTAATCCTGTCTCCTTGAGATTA
1 CAGTGGAGCAGATTGAAG-CAG-AATCTTATCTCCCTGAGATTA
* * *
9858956 CAGTGGAGCGGATT-AA--AGGATCTTATCTCTCTGA-AGTTA
1 CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGA-TTA
9858995 CAGT
1 CAGT
9858999 AGAGTGAATC
Statistics
Matches: 554, Mismatches: 124, Indels: 108
0.70 0.16 0.14
Matches are distributed among these distances:
38 3 0.01
39 68 0.12
40 9 0.02
41 125 0.23
42 26 0.05
43 11 0.02
44 196 0.35
45 9 0.02
46 107 0.19
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
CAGTGGAGCAGATTGAAGCAGAATCTTATCTCCCTGAGATTA
Found at i:9858922 original size:175 final size:170
Alignment explanation
Indices: 9858244--9858923 Score: 1004
Period size: 170 Copynumber: 3.9 Consensus size: 170
9858234 GCAGATTGTG
*
9858244 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
9858309 TTACGGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
66 TTACAGTGGAGCGGATT---A--AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
*
9858374 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
126 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
* *
9858419 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
9858484 TTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCACCAGGT
66 TTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGT
* *
9858549 CTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATT
131 CTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
* * *
9858589 TCAGATCTTATCTCCCTAAGATTACAGCGCAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * * *
9858654 TTACAGTGGAGCGCATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAGGT
66 TTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGT
* *
9858719 CTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT
131 CTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
* *
9858759 ACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAGAGAC-AGTAATCCTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA-AG-CTAGTAATCCTATCTCCCTGA
* * *
9858822 GATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGT
64 GATTACAGTGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
* * *
9858887 ATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGA
124 ACCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGA
9858924 TCAAAGACAG
Statistics
Matches: 471, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
169 2 0.00
170 313 0.66
171 2 0.00
172 1 0.00
175 153 0.32
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (170 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGT
CTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGAATT
Found at i:9859059 original size:124 final size:126
Alignment explanation
Indices: 9858764--9859071 Score: 388
Period size: 124 Copynumber: 2.4 Consensus size: 126
9858754 GAATTACAGA
* * *
9858764 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAGAGACAGTAATCCTATCTCCCTGAGATTACA
1 TCTTACCTCCCTGAGATTACAGCGGAGCACATCAAAGACAGTAATCCTATCTCCCTGAGATTACA
*
9858829 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGG
66 GTGGAGCGGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGG
* * * *
9858893 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAGTAATCCTGTCTCCTTGAGATTACA
1 TCTTACCTCCCTGAGATTACAGCGGAGCACATCAAAGACAGTAATCCTATCTCCCTGAGATTACA
*
9858958 GTGGAGCGGA-T-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG-TGAATCGTATCAGG
66 GTGGAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAG-ATCGTATCAGG
* * * * * * ** * *
9859017 TTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTATCTCCC
1 TCTTACCTCCCTGAGATTACAGCGGAGCACATCAAAGACAGTAATCCTATCTCCC
9859072 CGACGTTGCG
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
123 1 0.01
124 86 0.54
128 1 0.01
129 71 0.45
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (126 bp):
TCTTACCTCCCTGAGATTACAGCGGAGCACATCAAAGACAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGG
Found at i:9861081 original size:15 final size:15
Alignment explanation
Indices: 9861061--9861098 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
9861051 TACATATATT
9861061 TATATCTTTTTTGTA
1 TATATCTTTTTTGTA
9861076 TATATCTTTTTTGTA
1 TATATCTTTTTTGTA
9861091 TATATCTT
1 TATATCTT
9861099 AAAATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (15 bp):
TATATCTTTTTTGTA
Found at i:9862865 original size:5 final size:5
Alignment explanation
Indices: 9862857--9862881 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9862847 TATGTGTACA
9862857 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
9862882 GTGTGTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:9865484 original size:39 final size:39
Alignment explanation
Indices: 9865425--9865539 Score: 185
Period size: 39 Copynumber: 2.9 Consensus size: 39
9865415 AATACACCAG
* *
9865425 CACATAGCCTGCTAGGCACATAGCCTGAATAATCACCGA
1 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGA
* *
9865464 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCATCGG
1 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGA
*
9865503 CACAAAGCCTACTAGGCACATAGCCCGAATAATCACC
1 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
9865540 ATATTTCTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.16
Consensus pattern (39 bp):
CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGA
Found at i:9868293 original size:15 final size:15
Alignment explanation
Indices: 9868273--9868305 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9868263 TTTCTAGGTA
9868273 GTTGGATTTTTTTCT
1 GTTGGATTTTTTTCT
*
9868288 GTTGGATTTTTTTTT
1 GTTGGATTTTTTTCT
9868303 GTT
1 GTT
9868306 TAATTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.03, G:0.21, T:0.70
Consensus pattern (15 bp):
GTTGGATTTTTTTCT
Found at i:9869390 original size:11 final size:12
Alignment explanation
Indices: 9869368--9869396 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9869358 AGATAAAGCT
9869368 AGAAAAATAAAA
1 AGAAAAATAAAA
9869380 AGAAAAA-AAAA
1 AGAAAAATAAAA
9869391 AGAAAA
1 AGAAAA
9869397 GGACATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (12 bp):
AGAAAAATAAAA
Found at i:9870732 original size:23 final size:22
Alignment explanation
Indices: 9870701--9870754 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
9870691 ATAAAGACAT
9870701 GTGGAAAATAATTATCGTGCCAA
1 GTGG-AAATAATTATCGTGCCAA
*
9870724 GTGGCAAATAATTATTGTGCCAA
1 GTGG-AAATAATTATCGTGCCAA
*
9870747 ATGGAAAT
1 GTGGAAAT
9870755 TTCTTAACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (22 bp):
GTGGAAATAATTATCGTGCCAA
Found at i:9877300 original size:16 final size:15
Alignment explanation
Indices: 9877275--9877307 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
9877265 GTTCTTTTTC
9877275 AATTTCTGATGGCTG
1 AATTTCTGATGGCTG
9877290 AATTGTCTGATGGCTG
1 AATT-TCTGATGGCTG
9877306 AA
1 AA
9877308 GGCACAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (15 bp):
AATTTCTGATGGCTG
Found at i:9884971 original size:20 final size:20
Alignment explanation
Indices: 9884933--9884972 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9884923 CCTTAAATTG
* *
9884933 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAAACTATTA
9884953 TTTTATTTATAAAACTATTA
1 TTTTATTTATAAAACTATTA
9884973 CATTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTTATAAAACTATTA
Found at i:9887360 original size:23 final size:23
Alignment explanation
Indices: 9887314--9887360 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9887304 GAAAATGAAT
*
9887314 AATTTAAAAAATAAAGAGATTAA
1 AATTTAAAAAATAAAGAGACTAA
*
9887337 AATTTAACAAATAAA-ATGACTAA
1 AATTTAAAAAATAAAGA-GACTAA
9887360 A
1 A
9887361 TCCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
AATTTAAAAAATAAAGAGACTAA
Found at i:9902857 original size:21 final size:22
Alignment explanation
Indices: 9902818--9902892 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 22
9902808 TTTTAAAAAA
*
9902818 TTAAAGAAATAT-ATCAATATAT
1 TTAAA-AAATATAATAAATATAT
* *
9902840 TTAAAAAATTTAA-AAATAAAT
1 TTAAAAAATATAATAAATATAT
*
9902861 TTAAAAAATATAATAACAAATAT
1 TTAAAAAATATAATAA-ATATAT
9902884 TATAAAAAA
1 T-TAAAAAA
9902893 AGTATTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 23 0.53
22 8 0.19
23 5 0.12
24 7 0.16
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (22 bp):
TTAAAAAATATAATAAATATAT
Found at i:9904253 original size:18 final size:19
Alignment explanation
Indices: 9904225--9904263 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
9904215 TTTTTAAAAT
9904225 TTTTTATTTTGTAAA-TAAA
1 TTTTTATTTTG-AAATTAAA
9904244 TTTTTA-TTTGAAATTAAA
1 TTTTTATTTTGAAATTAAA
9904262 TT
1 TT
9904264 ATAATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATTTTGAAATTAAA
Found at i:9910972 original size:30 final size:31
Alignment explanation
Indices: 9910929--9910996 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
9910919 TAAGTTATAT
* *
9910929 TTTTATAAATTTTAA-AGAATTAAATTAAAA
1 TTTTATTAATTTTAAGAGAATTAAAGTAAAA
* *
9910959 TTTTATTATTTTTAAGAGGATTAAAGTAAAA
1 TTTTATTAATTTTAAGAGAATTAAAGTAAAA
*
9910990 ATTTATT
1 TTTTATT
9910997 TTTACTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTTATTAATTTTAAGAGAATTAAAGTAAAA
Found at i:9911310 original size:29 final size:29
Alignment explanation
Indices: 9911272--9911357 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
9911262 AGCCCCTTTA
* *
9911272 AAAATAATAAAAATTTAATTTAATTTTTT
1 AAAATTATAAAAATTAAATTTAATTTTTT
9911301 AAAATTATAAAAATAATAAATTCT-A-TTTTT
1 AAAATTATAAAAAT--TAAATT-TAATTTTTT
**
9911331 ATTATTATAAAAATTAGAATTTAATTT
1 AAAATTATAAAAATTA-AATTTAATTT
9911358 CCACCTCTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.06
29 18 0.38
30 19 0.40
31 6 0.13
32 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
AAAATTATAAAAATTAAATTTAATTTTTT
Found at i:9911342 original size:38 final size:37
Alignment explanation
Indices: 9911270--9911342 Score: 85
Period size: 38 Copynumber: 1.9 Consensus size: 37
9911260 TTAGCCCCTT
*
9911270 TAAAAATAATAAAAATTTAATTTAATTTTTTAAAATTA
1 TAAAAATAAT-AAAATTTAATTTAATTTTATAAAATTA
* *
9911308 TAAAAATAAT-AAATTCTATTTTTATTATTATAAAA
1 TAAAAATAATAAAATT-TAATTTAATT-TTATAAAA
9911343 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 5 0.17
37 8 0.27
38 17 0.57
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
TAAAAATAATAAAATTTAATTTAATTTTATAAAATTA
Found at i:9923858 original size:23 final size:26
Alignment explanation
Indices: 9923804--9923864 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 26
9923794 GAACTATTAT
9923804 CGGTAAGCTCATTCCGAGCTGAAGAA
1 CGGTAAGCTCATTCCGAGCTGAAGAA
9923830 CGGTAAGCTC-TAT-CGAGCT-AA-AA
1 CGGTAAGCTCAT-TCCGAGCTGAAGAA
9923853 CGGTAAGCTCAT
1 CGGTAAGCTCAT
9923865 AAGATTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.36
24 3 0.09
25 7 0.21
26 11 0.33
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (26 bp):
CGGTAAGCTCATTCCGAGCTGAAGAA
Found at i:9925354 original size:41 final size:41
Alignment explanation
Indices: 9925281--9925437 Score: 170
Period size: 41 Copynumber: 3.8 Consensus size: 41
9925271 TTTTGTAAGT
* * *
9925281 TCAGGCTTTATGCCTGGCAGGCTTTATACCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
9925322 TCAGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * ** * *
9925363 TCAGACTTTATGTCTAGCAGGCTTTGTGCTAGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * * * *
9925404 TCGGGTTTTGTGCTTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG
9925438 TTTTATACAA
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
Found at i:9926292 original size:24 final size:23
Alignment explanation
Indices: 9926259--9926533 Score: 153
Period size: 23 Copynumber: 11.9 Consensus size: 23
9926249 TATGTTGCCT
*
9926259 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
* * * *
9926282 ATTTTGGTGTAAAAATGCTGCTCA
1 A-TTTGGTGTATATATGCTGTTAA
*** ***
9926306 ATTTGGTACGTATATGCTG-CCC
1 ATTTGGTGTATATATGCTGTTAA
*
9926328 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
* * * *
9926351 ATTTTGGTGTAAAAATGCTGCTCA
1 A-TTTGGTGTATATATGCTGTTAA
* * ***
9926375 ATTTGGTATGTATATGCTG-CCC
1 ATTTGGTGTATATATGCTGTTAA
*
9926397 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
*
9926420 ATTTTGGTGTA-AAAGTGCTGTTAA
1 A-TTTGGTGTATATA-TGCTGTTAA
* * **
9926444 ATTTGGTATGTATATGCTG-TCC
1 ATTTGGTGTATATATGCTGTTAA
* * *
9926466 ATTTGTTGTATATAAGCTGTCCAA
1 ATTTGGTGTATATATGCTGT-TAA
* *
9926490 ATTTTGGTGTATAAATGCTGTTTA
1 A-TTTGGTGTATATATGCTGTTAA
** *
9926514 ATTTGGAATATAAATGCTGT
1 ATTTGGTGTATATATGCTGT
9926534 CCAAATAGAT
Statistics
Matches: 185, Mismatches: 57, Indels: 20
0.71 0.22 0.08
Matches are distributed among these distances:
22 49 0.26
23 61 0.33
24 59 0.32
25 16 0.09
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (23 bp):
ATTTGGTGTATATATGCTGTTAA
Found at i:9926341 original size:22 final size:22
Alignment explanation
Indices: 9926249--9926509 Score: 112
Period size: 22 Copynumber: 11.3 Consensus size: 22
9926239 GTATTATGTC
* * *
9926249 TATGTTGCCTATTTGTTGTATA
1 TATGCTGCCAATTTGGTGTATA
** *
9926271 TATGCTGTTAAATTTTGGTGTAAA
1 TATGCTG-CCAA-TTTGGTGTATA
* ***
9926295 AATGCTGCTCAATTTGGTACGTA
1 TATGCTGC-CAATTTGGTGTATA
* *
9926318 TATGCTGCCCATTTGTTGTATA
1 TATGCTGCCAATTTGGTGTATA
** *
9926340 TATGCTGTTAAATTTTGGTGTAAA
1 TATGCTG-CCAA-TTTGGTGTATA
* * *
9926364 AATGCTGCTCAATTTGGTATGTA
1 TATGCTGC-CAATTTGGTGTATA
* *
9926387 TATGCTGCCCATTTGTTGTATA
1 TATGCTGCCAATTTGGTGTATA
**
9926409 TATGCTGTTAAATTTTGGTGTA-A
1 TATGCTG-CCAA-TTTGGTGTATA
* ** * *
9926432 AAGTGCTGTTAAATTTGGTATGTA
1 TA-TGCTG-CCAATTTGGTGTATA
*
9926456 TATGCTGTCC-ATTTGTTGTATA
1 TATGCTG-CCAATTTGGTGTATA
*
9926478 TAAGCTGTCCAAATTTTGGTGTATA
1 TATGCTG-CC-AA-TTTGGTGTATA
*
9926503 AATGCTG
1 TATGCTG
9926510 TTTAATTTGG
Statistics
Matches: 174, Mismatches: 52, Indels: 23
0.70 0.21 0.09
Matches are distributed among these distances:
22 57 0.33
23 47 0.27
24 55 0.32
25 15 0.09
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (22 bp):
TATGCTGCCAATTTGGTGTATA
Found at i:9926341 original size:69 final size:69
Alignment explanation
Indices: 9926243--9926519 Score: 428
Period size: 69 Copynumber: 4.0 Consensus size: 69
9926233 TATGATGTAT
* * *
9926243 TATGTCTATGTTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
9926308 TTGG
66 TTGG
*
9926312 TACGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
9926377 TTGG
66 TTGG
* * *
9926381 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
9926446 TTGG
66 TTGG
* * * * * *
9926450 TATGTATATGCTGTCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAA
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGT-TAAATTTTGGTGTAAAAATGCTGCTCAA
9926515 TTTGG
65 TTTGG
9926520 AATATAAATG
Statistics
Matches: 193, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
69 164 0.85
70 29 0.15
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (69 bp):
TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
TTGG
Found at i:9926508 original size:47 final size:45
Alignment explanation
Indices: 9926319--9926510 Score: 115
Period size: 47 Copynumber: 4.2 Consensus size: 45
9926309 TGGTACGTAT
* * * * *
9926319 ATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAA
1 ATGCTGTCAATTTGTTGTATATAAGCTGTCAAA-TTTGGTGTATAA
** * *
9926365 ATGCTGCTCAATTTGGTATGTATAT--GCTG-CCCATTTGTTGTATAT
1 ATGCTG-TCAATTT-GT-TGTATATAAGCTGTCAAATTTGGTGTATAA
* * * * * *
9926410 ATGCTGTTAAATTTTGGTGTA-A-AAGTGCTGTTAAATTTGGTATGTAT
1 ATGCTG-TCAA-TTTGTTGTATATAA--GCTGTCAAATTTGGTGTATAA
*
9926457 ATGCTGTCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAA
1 ATGCTGTCAATTTGTTGTATATAAGCTGT-CAAA-TTTGGTGTATAA
9926504 ATGCTGT
1 ATGCTGT
9926511 TTAATTTGGA
Statistics
Matches: 109, Mismatches: 24, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 32 0.29
46 20 0.18
47 43 0.39
48 2 0.02
49 7 0.06
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (45 bp):
ATGCTGTCAATTTGTTGTATATAAGCTGTCAAATTTGGTGTATAA
Found at i:9928401 original size:37 final size:36
Alignment explanation
Indices: 9928333--9928450 Score: 144
Period size: 37 Copynumber: 3.5 Consensus size: 36
9928323 AACTATAAAC
*
9928333 GCCGAATGC--ACATAT-TCACTTATACCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
9928366 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGCATACATATAT-CACTTATATCCACCTAT
9928403 GCCGAATGCATACA-A-AT-A--TATATCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
9928434 GCCGAATGCCTACATAT
1 GCCGAATGCATACATAT
9928451 GCACACATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
31 25 0.33
32 1 0.01
33 10 0.13
35 8 0.11
36 2 0.03
37 29 0.39
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (36 bp):
GCCGAATGCATACATATATCACTTATATCCACCTAT
Found at i:9928810 original size:41 final size:41
Alignment explanation
Indices: 9928635--9928803 Score: 275
Period size: 41 Copynumber: 4.1 Consensus size: 41
9928625 AATTCATCAT
*
9928635 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
9928676 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * * *
9928717 GTTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
9928758 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
9928799 ATTCA
1 ATTCA
9928804 ATTCACCAAT
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:9928810 original size:82 final size:82
Alignment explanation
Indices: 9928635--9928803 Score: 311
Period size: 82 Copynumber: 2.1 Consensus size: 82
9928625 AATTCATCAT
*
9928635 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
1 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
9928700 GCTAGGTTTATAACCTG
66 GCTAGGTTTATAACCTG
* *
9928717 GTTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGATCACCGGCACTTAGCCT
1 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
9928782 GCTAGGTTTATAACCTG
66 GCTAGGTTTATAACCTG
9928799 ATTCA
1 ATTCA
9928804 ATTCACCAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (82 bp):
ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
GCTAGGTTTATAACCTG
Found at i:9929065 original size:15 final size:17
Alignment explanation
Indices: 9929024--9929067 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
9929014 TTGTTCGATC
9929024 CACATATATATATTACA
1 CACATATATATATTACA
*
9929041 CACATATATATATT-CG
1 CACATATATATATTACA
9929057 CACAT-TATATA
1 CACATATATATA
9929068 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:9930220 original size:13 final size:13
Alignment explanation
Indices: 9930202--9930226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9930192 CAATCAAATG
9930202 CACACAAAATAAA
1 CACACAAAATAAA
9930215 CACACAAAATAA
1 CACACAAAATAA
9930227 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:9930550 original size:43 final size:44
Alignment explanation
Indices: 9930503--9930617 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 44
9930493 ATCACAAATC
* * *
9930503 GATGCCACTGTCCCAGACAAGGTGTTATACGAAATCA-TATAAA
1 GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
* * * *
9930546 GATGCCAATGTCCCAGACATGGTTTTACACGTAATCACAATACA
1 GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
* *
9930590 -ATGCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACAAGGTGTTACA
9930618 TGTTATAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
Found at i:9935877 original size:28 final size:28
Alignment explanation
Indices: 9935834--9935900 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
9935824 AACACCCACC
* * **
9935834 TGATTAAACGGGCTTGCCTGAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
9935862 TGATTAAATGGACTTGCCCAAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
9935890 TGATTAAATGG
1 TGATTAAATGG
9935901 GTCGTTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
TGATTAAATGGACTTGCCCAAAAGGGTT
Found at i:9950314 original size:11 final size:11
Alignment explanation
Indices: 9950300--9950324 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9950290 CAATTATCCA
9950300 TTTTTTATATT
1 TTTTTTATATT
9950311 TTTTTTATATT
1 TTTTTTATATT
9950322 TTT
1 TTT
9950325 GAGATTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:9951315 original size:26 final size:26
Alignment explanation
Indices: 9951245--9951315 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
9951235 ACATCTCGAC
* *
9951245 TCACAGCTCGTGTGAGCAGGCCCATT
1 TCACAGCTCGTGTGAGCATGACCATT
* *
9951271 TCACAACTCGTATGAGCATGACCATT
1 TCACAGCTCGTGTGAGCATGACCATT
*
9951297 TCACAGCTTGTGTGAGCAT
1 TCACAGCTCGTGTGAGCAT
9951316 ATATAGTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCATGACCATT
Found at i:9951536 original size:13 final size:13
Alignment explanation
Indices: 9951519--9951592 Score: 85
Period size: 13 Copynumber: 5.7 Consensus size: 13
9951509 GTTAAATATG
9951519 TAAATGAAATGGT
1 TAAATGAAATGGT
* *
9951532 AAAATGAAATGTT
1 TAAATGAAATGGT
*
9951545 TAGATGAAATGGT
1 TAAATGAAATGGT
* *
9951558 TATATGAAATGAT
1 TAAATGAAATGGT
*
9951571 TACATGAAATGGT
1 TAAATGAAATGGT
*
9951584 TATATGAAA
1 TAAATGAAA
9951593 ATAGATGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.32
Consensus pattern (13 bp):
TAAATGAAATGGT
Found at i:9951551 original size:26 final size:26
Alignment explanation
Indices: 9951522--9951592 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
9951512 AAATATGTAA
* * * *
9951522 ATGAAATGGTAAAATGAAATGTTTAG
1 ATGAAATGGTTATATGAAATGATTAC
9951548 ATGAAATGGTTATATGAAATGATTAC
1 ATGAAATGGTTATATGAAATGATTAC
9951574 ATGAAATGGTTATATGAAA
1 ATGAAATGGTTATATGAAA
9951593 ATAGATGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.32
Consensus pattern (26 bp):
ATGAAATGGTTATATGAAATGATTAC
Found at i:9952898 original size:35 final size:35
Alignment explanation
Indices: 9952859--9952946 Score: 149
Period size: 35 Copynumber: 2.5 Consensus size: 35
9952849 ATAGTGTTAC
9952859 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
* *
9952894 CTGGTGTGCTAGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
*
9952929 CTGGTGTGTTGGATGGTT
1 CTGGTGTGCTGGATGGTT
9952947 AACCGTGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.12, C:0.15, G:0.35, T:0.38
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
Found at i:9954718 original size:17 final size:17
Alignment explanation
Indices: 9954692--9954852 Score: 69
Period size: 18 Copynumber: 9.3 Consensus size: 17
9954682 TACGAGAATT
* *
9954692 TTTTTAAAACATGAAGA
1 TTTTTGAAACATGAAAA
* ***
9954709 TTTTTGAAACAATTATTT
1 TTTTTGAAAC-ATGAAAA
*
9954727 TTTTTGAAAACACGAAAAA
1 TTTTTG-AAACATG-AAAA
* * *
9954746 TTTTTAAAACACGAGAA
1 TTTTTGAAACATGAAAA
* *
9954763 TTTTGGAGACATGAAAA
1 TTTTTGAAACATGAAAA
* *
9954780 TTTTTAAAAACACGAAAA
1 TTTTT-GAAACATGAAAA
*
9954798 TTTTTGAAA-ATCG-GAA
1 TTTTTGAAACAT-GAAAA
**
9954814 TTTTTGAAA-ATACGAGGA
1 TTTTTGAAACAT--GAAAA
*
9954832 TTTTTGAAACACG-AAA
1 TTTTTGAAACATGAAAA
9954848 TTTTT
1 TTTTT
9954853 TTGCTGAAAA
Statistics
Matches: 108, Mismatches: 28, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
16 20 0.19
17 35 0.32
18 42 0.39
19 11 0.10
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (17 bp):
TTTTTGAAACATGAAAA
Found at i:9954749 original size:18 final size:18
Alignment explanation
Indices: 9954727--9954946 Score: 170
Period size: 18 Copynumber: 12.3 Consensus size: 18
9954717 ACAATTATTT
9954727 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
*
9954746 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
9954763 -TTTTGGAGACATGAAAA
1 TTTTTGAAAACACGAAAA
*
9954780 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
9954798 TTTTTGAAAA-TCG-GAA
1 TTTTTGAAAACACGAAAA
* **
9954814 TTTTTGAAAATACGAGGA
1 TTTTTGAAAACACGAAAA
*
9954832 TTTTTG-AAACACGAAATTT
1 TTTTTGAAAACACGAAA--A
*
9954851 TTTTGCTGAAAACAAGAAAA
1 TTTT--TGAAAACACGAAAA
**
9954871 TTTTTGAAAA-ACGGGAA
1 TTTTTGAAAACACGAAAA
*
9954888 TTTTTGAAAACACGGGAAATT
1 TTTTTGAAAACAC--GAAA-A
9954909 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
9954927 TTTTT-AAAACAC--AAA
1 TTTTTGAAAACACGAAAA
9954942 TTTTT
1 TTTTT
9954947 TTTTGAAAAC
Statistics
Matches: 161, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
15 8 0.05
16 16 0.10
17 43 0.27
18 51 0.32
19 13 0.08
20 6 0.04
21 15 0.09
22 9 0.06
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:9954853 original size:17 final size:17
Alignment explanation
Indices: 9954726--9954947 Score: 87
Period size: 17 Copynumber: 12.4 Consensus size: 17
9954716 AACAATTATT
9954726 TTTTTTGAAAACACGAAAA
1 TTTTTTG-AAACACG-AAA
* *
9954745 ATTTTTAAAACACGAGAA
1 TTTTTTGAAACACGA-AA
* * *
9954763 -TTTTGGAGACATGAAAA
1 TTTTTTGAAACACG-AAA
**
9954780 TTTTTAAAAACACGAAA
1 TTTTTTGAAACACGAAA
* *
9954797 ATTTTTGAAA-ATCGGAA
1 TTTTTTGAAACA-CGAAA
* *
9954814 -TTTTTGAAAATACGAGGA
1 TTTTTTG-AAACACGA-AA
9954832 -TTTTTGAAACACGAAA
1 TTTTTTGAAACACGAAA
*
9954848 TTTTTTTGCTGAAAACAAGAAA
1 --TTTTT--TG-AAACACGAAA
* * *
9954870 ATTTTTGAAAAACGGGAA
1 TTTTTTGAAACAC-GAAA
9954888 -TTTTTGAAAACACGGGAAA
1 TTTTTTG-AAACAC--GAAA
9954907 TTTTTTTGAAAACACGAAA
1 -TTTTTTG-AAACACGAAA
* *
9954926 ATTTTTAAAACAC-AAA
1 TTTTTTGAAACACGAAA
9954942 TTTTTT
1 TTTTTT
9954948 TTTGAAAACA
Statistics
Matches: 157, Mismatches: 28, Indels: 39
0.70 0.12 0.17
Matches are distributed among these distances:
16 16 0.10
17 54 0.34
18 42 0.27
19 17 0.11
20 4 0.03
21 15 0.10
22 9 0.06
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTTGAAACACGAAA
Found at i:9954919 original size:56 final size:56
Alignment explanation
Indices: 9954812--9954935 Score: 159
Period size: 56 Copynumber: 2.2 Consensus size: 56
9954802 TGAAAATCGG
9954812 AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTTGCTGAAAACAAGAA
1 AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTT-CTGAAAACAAGAA
*
9954869 AATTTTTGAAAA-ACG-GGAATTTTTGAAAACACGGGAAA-TTTTTT-TGAAAACACGAA
1 AATTTTTGAAAATACGAGG-ATTTTTG-AAACAC--GAAATTTTTTTCTGAAAACAAGAA
9954925 AATTTTT-AAAA
1 AATTTTTGAAAA
9954936 CACAAATTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
55 6 0.10
56 28 0.45
57 18 0.29
58 6 0.10
59 4 0.06
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (56 bp):
AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTTCTGAAAACAAGAA
Found at i:9955056 original size:17 final size:17
Alignment explanation
Indices: 9955032--9955081 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
9955022 TTTTATTATT
9955032 ATTTTTGAAACACGAGAA
1 ATTTTTGAAACACGA-AA
* *
9955050 A-TTTTGAAAATATGAAA
1 ATTTTTG-AAACACGAAA
9955067 ATTTTTGAAACACGA
1 ATTTTTGAAACACGA
9955082 TTAGTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (17 bp):
ATTTTTGAAACACGAAA
Found at i:9955698 original size:26 final size:26
Alignment explanation
Indices: 9955655--9955723 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
9955645 ACTGCTGCTA
9955655 CTGGGCTGCTGCGTCTGGGCC-GCAGGATG
1 CTGGGCTGCT--G-CTGGGCCTGCA-GATG
* *
9955684 CTGGGCTGCTGCTGGGCCTTCAGCTG
1 CTGGGCTGCTGCTGGGCCTGCAGATG
*
9955710 TTGGGCTGCTGCTG
1 CTGGGCTGCTGCTG
9955724 TTTTTCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 23 0.64
27 3 0.08
29 10 0.28
ACGTcount: A:0.04, C:0.28, G:0.42, T:0.26
Consensus pattern (26 bp):
CTGGGCTGCTGCTGGGCCTGCAGATG
Found at i:9955773 original size:30 final size:28
Alignment explanation
Indices: 9955737--9955819 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 28
9955727 TTCTTTGGCA
*
9955737 GGCCTGCTGTTGGGCTGCTGGGAGTGGACT-
1 GGCCTGCTGTTGGGCTGCTGGAAG-GG--TG
9955767 GGCCTGCTGGTGTTGGGCTGCTGGAAGGGTG
1 GGCCTGC---TGTTGGGCTGCTGGAAGGGTG
9955798 GGCCTGCTGTTGTGGCCTGCTG
1 GGCCTGCTGTTG-GG-CTGCTG
9955820 TTTTTTTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
28 5 0.11
29 2 0.04
30 14 0.30
31 7 0.15
32 2 0.04
33 16 0.35
ACGTcount: A:0.05, C:0.20, G:0.47, T:0.28
Consensus pattern (28 bp):
GGCCTGCTGTTGGGCTGCTGGAAGGGTG
Done.