Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 204 of 205
Found at i:60471663 original size:15 final size:15
Alignment explanation
Indices: 60471622--60471663 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
60471612 GTTAACTAAT
*
60471622 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
60471637 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
60471653 TTAAATTTTAT
1 TTAAATTTTAT
60471664 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:60471895 original size:19 final size:19
Alignment explanation
Indices: 60471847--60472012 Score: 75
Period size: 19 Copynumber: 8.7 Consensus size: 19
60471837 ATATCTCGAC
60471847 ATTACAATATTCATAC-AA
1 ATTACAATATTCATACAAA
60471865 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
60471882 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
*
60471900 ATTACAATGTTCATACAAA
1 ATTACAATATTCATACAAA
*
60471919 ATTACAATATTTATACAAA
1 ATTACAATATTCATACAAA
* * *
60471938 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
60471958 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
60471980 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
60471999 ATTACAATATTCAT
1 ATTACAATATTCAT
60472013 TGGCGCCTCT
Statistics
Matches: 110, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
15 3 0.03
16 8 0.07
17 7 0.06
18 17 0.15
19 47 0.43
20 13 0.12
21 3 0.03
22 5 0.05
23 5 0.05
25 2 0.02
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:60471901 original size:27 final size:27
Alignment explanation
Indices: 60471847--60471929 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
60471837 ATATCTCGAC
60471847 ATTACAATATTCATAC-AAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
60471873 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
60471900 ATTACAATGTTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
60471927 ATT
1 ATT
60471930 TATACAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 16 0.30
27 37 0.70
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.36
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:60477165 original size:44 final size:44
Alignment explanation
Indices: 60477102--60477188 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
60477092 ATATAAAAGA
60477102 GAAAAAACCGGTCTCTGCATTATTTTTATTTATTTATTTTTTTT
1 GAAAAAACCGGTCTCTGCATTATTTTTATTTATTTATTTTTTTT
60477146 GAAAAAACCGGTCTCTGCATTATTTTTATTTATTTATTTTTTT
1 GAAAAAACCGGTCTCTGCATTATTTTTATTTATTTATTTTTTT
60477189 GTACTTACCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.54
Consensus pattern (44 bp):
GAAAAAACCGGTCTCTGCATTATTTTTATTTATTTATTTTTTTT
Found at i:60492591 original size:18 final size:18
Alignment explanation
Indices: 60492565--60492600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60492555 AGGATTGCAA
* *
60492565 ATTTTCATTTCTATTTTT
1 ATTTCCATTTCGATTTTT
60492583 ATTTCCATTTCGATTTTT
1 ATTTCCATTTCGATTTTT
60492601 GGAAACCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.14, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTTCCATTTCGATTTTT
Found at i:60494650 original size:20 final size:19
Alignment explanation
Indices: 60494591--60494676 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
60494581 ATATCAATAT
60494591 TTCTAAAGATTTATTCAAACA
1 TTCTAAAGATTTA-TCAAA-A
* * * *
60494612 -TCTAACGGTTTACCCAAA
1 TTCTAAAGATTTATCAAAA
60494630 TTGCTAAAGATTTATCAAAA
1 TT-CTAAAGATTTATCAAAA
60494650 TATCTAACA-ATTTATCAAAA
1 T-TCTAA-AGATTTATCAAAA
60494670 TATCTAA
1 T-TCTAA
60494677 TATTTTACCA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 46 0.87
21 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (19 bp):
TTCTAAAGATTTATCAAAA
Found at i:60494683 original size:20 final size:20
Alignment explanation
Indices: 60494639--60494676 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
60494629 ATTGCTAAAG
60494639 ATTTATCAAAATATCTAACA
1 ATTTATCAAAATATCTAACA
60494659 ATTTATCAAAATATCTAA
1 ATTTATCAAAATATCTAA
60494677 TATTTTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTATCAAAATATCTAACA
Found at i:60494688 original size:20 final size:20
Alignment explanation
Indices: 60494640--60494803 Score: 72
Period size: 20 Copynumber: 8.2 Consensus size: 20
60494630 TTGCTAAAGA
* * *
60494640 TTTATCAAAATATCTAACAA
1 TTTACCAAAATATCTAATAT
*
60494660 TTTATCAAAATATCTAATAT
1 TTTACCAAAATATCTAATAT
**
60494680 TTTACCAAACACT-T-T-GGA-
1 TTTACCAAA-A-TATCTAATAT
* *
60494698 TTAACCAAAATATATAATAT
1 TTTACCAAAATATCTAATAT
* *
60494718 TTTACCAATATATAT-ATAT
1 TTTACCAAAATATCTAATAT
* * *
60494737 CGATTTA-C-TAATATTTATATAGA
1 ---TTTACCAAAATATCTA-ATA-T
60494760 TTTACCAAAATATCTAATAT
1 TTTACCAAAATATCTAATAT
* * *
60494780 TTTAACAAAATAACTAAAAT
1 TTTACCAAAATATCTAATAT
60494800 TTTA
1 TTTA
60494804 AATTTACCAA
Statistics
Matches: 110, Mismatches: 20, Indels: 28
0.70 0.13 0.18
Matches are distributed among these distances:
16 1 0.01
17 2 0.02
18 9 0.08
19 6 0.05
20 70 0.64
21 7 0.06
22 15 0.14
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTACCAAAATATCTAATAT
Found at i:60494735 original size:22 final size:20
Alignment explanation
Indices: 60494706--60494781 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 20
60494696 GATTAACCAA
60494706 AATATATA-ATAT-TTTACC
1 AATATATATATATATTTACC
*
60494724 AATATATATATATCGATTTACT
1 AATATATATATAT--ATTTACC
* *
60494746 AATATTTATATAGATTTACC
1 AATATATATATATATTTACC
* *
60494766 AAAATATCTA-ATATTT
1 AATATATATATATATTT
60494782 TAACAAAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
18 8 0.17
19 9 0.20
20 13 0.28
22 16 0.35
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (20 bp):
AATATATATATATATTTACC
Found at i:60494899 original size:87 final size:86
Alignment explanation
Indices: 60494799--60494965 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 86
60494789 ATAACTAAAA
* * *
60494799 TTTTAAATTTACCAAAATAT-TTAAGACTTTATCAATATATTTCTATCAATTTATCAATATTT-T
1 TTTTAAATTTACCAAAACATCTT-AGACTTTACCAATATA--TCTATCAAATTATCAATATTTAT
60494862 AT-AGATTTCTTAAAATATCTAACC
63 ATGA-ATTTCTTAAAATATCTAACC
* * *
60494886 TTTTAGATTTACCAAAACATCTTAGACTTTACCCATATATCTATTAAATTATCAATATTTATATG
1 TTTTAAATTTACCAAAACATCTTAGACTTTACCAATATATCTATCAAATTATCAATATTTATATG
*
60494951 AATTTTTTAAAATAT
66 AATTTCTTAAAATAT
60494966 ATAGCATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
85 19 0.27
86 16 0.23
87 33 0.47
88 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.46
Consensus pattern (86 bp):
TTTTAAATTTACCAAAACATCTTAGACTTTACCAATATATCTATCAAATTATCAATATTTATATG
AATTTCTTAAAATATCTAACC
Found at i:60525383 original size:34 final size:34
Alignment explanation
Indices: 60525345--60525410 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
60525335 TGGGAAGGAA
*
60525345 ACTGGTGAGAGTGAAAATCAGGCTGATGTCGATG
1 ACTGGTGAGAGTGAAAATCAGGCTGATATCGATG
60525379 ACTGGTGAGAGTGAAAATCAGGCTGATATCGA
1 ACTGGTGAGAGTGAAAATCAGGCTGATATCGA
60525411 CGAGAATGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (34 bp):
ACTGGTGAGAGTGAAAATCAGGCTGATATCGATG
Found at i:60529290 original size:21 final size:23
Alignment explanation
Indices: 60529246--60529296 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
60529236 CAAAAATAAA
* *
60529246 ATATAATTTATATTAAGAATATT
1 ATATAAATTAAATTAAGAATATT
60529269 ATATAAATTAAATTAA-AA-ATT
1 ATATAAATTAAATTAAGAATATT
60529290 ATATAAA
1 ATATAAA
60529297 ATTACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 2 0.08
23 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATAAATTAAATTAAGAATATT
Found at i:60529294 original size:23 final size:23
Alignment explanation
Indices: 60529237--60529300 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
60529227 TTTTCCTGAC
* * * *
60529237 AAAAATAAAATATAATTTATATT
1 AAAAATTATATATAAATTAAATT
*
60529260 AAGAA-TATTATATAAATTAAATT
1 AAAAATTA-TATATAAATTAAATT
60529283 AAAAATTATATA-AAATTA
1 AAAAATTATATATAAATTA
60529301 CAAAAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 7 0.21
23 24 0.73
24 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAAATTATATATAAATTAAATT
Found at i:60529307 original size:21 final size:20
Alignment explanation
Indices: 60529266--60529309 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
60529256 TATTAAGAAT
60529266 ATTATATAAATTAAATTAAAA
1 ATTATATAAATTAAA-TAAAA
60529287 ATTATATAAAATTACAA-AAAA
1 ATTATAT-AAATTA-AATAAAA
60529308 AT
1 AT
60529310 AAAGAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 13 0.62
22 6 0.29
23 2 0.10
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTATATAAATTAAATAAAA
Found at i:60529843 original size:18 final size:18
Alignment explanation
Indices: 60529822--60529942 Score: 68
Period size: 18 Copynumber: 6.5 Consensus size: 18
60529812 AATTTATTTA
*
60529822 TTTTTTATAATTTTCA-T
1 TTTTTTATAATTTTTATT
* *
60529839 TTTTTTAT-GTATTTTATA
1 TTTTTTATAAT-TTTTATT
* *
60529857 TTTCTTATAATTTTTATC
1 TTTTTTATAATTTTTATT
*
60529875 ATTTTTATAATTATTTATAT
1 TTTTTTATAATT-TTTAT-T
*
60529895 CTTTTTTA-AATTTTTTATA
1 -TTTTTTATAA-TTTTTATT
* *
60529914 CTTTTTATTGAATTTTTATA
1 TTTTTTA-T-AATTTTTATT
*
60529934 ATTTTTATA
1 TTTTTTATA
60529943 TTTAATTATT
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
16 1 0.01
17 12 0.15
18 30 0.37
19 7 0.09
20 21 0.26
21 10 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTTATAATTTTTATT
Found at i:60529864 original size:9 final size:9
Alignment explanation
Indices: 60529850--60529942 Score: 82
Period size: 9 Copynumber: 9.8 Consensus size: 9
60529840 TTTTTATGTA
60529850 TTTTAT-AT
1 TTTTATAAT
60529858 TTCTTATAAT
1 TT-TTATAAT
*
60529868 TTTTATCAT
1 TTTTATAAT
60529877 TTTTATAAT
1 TTTTATAAT
60529886 TATTTAT-AT
1 T-TTTATAAT
*
60529895 CTTTTTTAAATT
1 -TTTTAT-AA-T
*
60529907 TTTTATACT
1 TTTTATAAT
60529916 TTTTATTGAAT
1 TTTTA-T-AAT
60529927 TTTTATAAT
1 TTTTATAAT
60529936 TTTTATA
1 TTTTATA
60529943 TTTAATTATT
Statistics
Matches: 70, Mismatches: 6, Indels: 17
0.75 0.06 0.18
Matches are distributed among these distances:
8 2 0.03
9 41 0.59
10 13 0.19
11 13 0.19
12 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:60529906 original size:20 final size:21
Alignment explanation
Indices: 60529866--60529919 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
60529856 ATTTCTTATA
* *
60529866 ATTTTTATCATTTTTATAATT
1 ATTTATATCTTTTTTATAATT
60529887 ATTTATATCTTTTTTA-AATT
1 ATTTATATCTTTTTTATAATT
*
60529907 TTTTATA-CTTTTT
1 ATTTATATCTTTTT
60529920 ATTGAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 6 0.20
20 10 0.33
21 14 0.47
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTATATCTTTTTTATAATT
Found at i:60529929 original size:20 final size:19
Alignment explanation
Indices: 60529850--60529941 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 19
60529840 TTTTTATGTA
60529850 TTTTATA-TTTCTTA-TAAT
1 TTTTATACTTT-TTATTAAT
60529868 TTTTAT-CATTTTTA-TAAT
1 TTTTATAC-TTTTTATTAAT
*
60529886 TATTTATATCTTTTT-TAAATT
1 T-TTTATA-CTTTTTATTAA-T
60529907 TTTTATACTTTTTATTGAAT
1 TTTTATACTTTTTATT-AAT
*
60529927 TTTTATAATTTTTAT
1 TTTTATACTTTTTAT
60529942 ATTTAATTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
18 14 0.23
19 14 0.23
20 29 0.47
21 5 0.08
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTATACTTTTTATTAAT
Found at i:60534298 original size:16 final size:16
Alignment explanation
Indices: 60534277--60534318 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60534267 TTATTAAATT
*
60534277 ATATATTTTAATTATA
1 ATATATTTTAATAATA
60534293 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
60534308 AT-TATGTTTAA
1 ATATAT-TTTAA
60534319 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:60534303 original size:15 final size:15
Alignment explanation
Indices: 60534268--60534309 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60534258 TTAAGAATTT
*
60534268 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60534282 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60534296 TATTTAATAATAAT
1 TATTTAATTATAAT
60534310 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60534449 original size:18 final size:17
Alignment explanation
Indices: 60534421--60534455 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60534411 ATTATTAAGA
*
60534421 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60534438 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60534456 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60534508 original size:157 final size:157
Alignment explanation
Indices: 60534249--60534561 Score: 581
Period size: 157 Copynumber: 2.0 Consensus size: 157
60534239 CATATAAGAA
*
60534249 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
1 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
* * *
60534314 TTTAAATATGATTAAATTATTTATTATTGATATTAATAATTTTATTAAAATTTAAATAACAATAA
66 TTTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
60534379 CAATAATAATTTACCAAAACAAATTTC
131 CAATAATAATTTACCAAAACAAATTTC
60534406 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
60534471 TTTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
66 TTTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
*
60534536 CAATAATCATTTACCAAAACAAATTT
131 CAATAATAATTTACCAAAACAAATTT
60534562 ATGCTAAGGG
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 151 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (157 bp):
TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
TTTAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
CAATAATAATTTACCAAAACAAATTTC
Found at i:60534712 original size:16 final size:16
Alignment explanation
Indices: 60534691--60534722 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60534681 GATTTGCTAT
60534691 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60534707 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60534723 AACAGCGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60538445 original size:118 final size:116
Alignment explanation
Indices: 60538244--60538481 Score: 379
Period size: 118 Copynumber: 2.0 Consensus size: 116
60538234 GAAAAAAAGG
* *
60538244 TCAATGTCTGCTTTGGCCAATTAATGCATCAATTAGTTGAGTTCGAAGCTCTGCTTATAGGCATA
1 TCAATGTCTGCTTTGGCCAATTAATGCATCAATTAGTTGAGTTCGAAGCTCTGCATATAGACATA
60538309 AAGACAAGCATGGCTAGTTACATAAGTATGATTGCTCCCTCCCCACAAAAAA
66 AAGACAAGCATGGCTAGTTACATAAGTATGATTGCTCCCTCCCCAC-AAAAA
* *
60538361 TCAATGTCTGCTTTGGGCAATTAATGCATCAATTAGTTTGAGTTC-TAGACTCTGCATATAGACA
1 TCAATGTCTGCTTTGGCCAATTAATGCATCAATTAG-TTGAGTTCGAAG-CTCTGCATATAGACA
* * *
60538425 TAAAGACAAGCATGGCTAGTTACGTACGTATGATTGCTCCCTCTCCACAAAAA
64 TAAAGACAAGCATGGCTAGTTACATAAGTATGATTGCTCCCTCCCCACAAAAA
60538478 TCAA
1 TCAA
60538482 GAAGAAGATT
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
117 46 0.41
118 66 0.59
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (116 bp):
TCAATGTCTGCTTTGGCCAATTAATGCATCAATTAGTTGAGTTCGAAGCTCTGCATATAGACATA
AAGACAAGCATGGCTAGTTACATAAGTATGATTGCTCCCTCCCCACAAAAA
Found at i:60539883 original size:38 final size:38
Alignment explanation
Indices: 60539841--60539914 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
60539831 CAAATCGAAT
*
60539841 ATTAAAGCTAAACTTATGTACTAAATAGTATATTAAAC
1 ATTAAAGCTAAACTCATGTACTAAATAGTATATTAAAC
*
60539879 ATTAAAGCTAAACTCATGTGCTAAATAGTATATTAA
1 ATTAAAGCTAAACTCATGTACTAAATAGTATATTAA
60539915 CCTAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (38 bp):
ATTAAAGCTAAACTCATGTACTAAATAGTATATTAAAC
Found at i:60543031 original size:15 final size:15
Alignment explanation
Indices: 60543013--60543045 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
60543003 TCTCTCTACT
60543013 TTTTAGATTTTAAAA
1 TTTTAGATTTTAAAA
60543028 TTTTAGATTTTAAAA
1 TTTTAGATTTTAAAA
60543043 TTT
1 TTT
60543046 AGGTCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTAGATTTTAAAA
Found at i:60544473 original size:22 final size:22
Alignment explanation
Indices: 60544416--60544473 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
60544406 GAATGGTATC
60544416 TACAAATC-AATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
60544437 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
60544460 TACATATCAAATCT
1 TACAAATCAAATCT
60544474 ACGATTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 14 0.45
23 8 0.26
24 6 0.19
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:60550057 original size:22 final size:21
Alignment explanation
Indices: 60550027--60550084 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
60550017 GAATGGTATC
60550027 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
*
60550048 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
60550071 TACATATCAAATCT
1 TACAAATCAAATCT
60550085 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:60570746 original size:25 final size:25
Alignment explanation
Indices: 60570717--60570786 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
60570707 GGCTATTATG
* * *
60570717 AGCTTCCCGTTCTATAGCTTAGATA
1 AGCTTCCCGTTATATAGCTCACATA
* * *
60570742 AGCTTTCCGTTATATGGCTCACATG
1 AGCTTCCCGTTATATAGCTCACATA
60570767 AGCTTCCCGTTATATAGCTC
1 AGCTTCCCGTTATATAGCTC
60570787 GAGAGAGGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (25 bp):
AGCTTCCCGTTATATAGCTCACATA
Found at i:60576569 original size:24 final size:25
Alignment explanation
Indices: 60576524--60576574 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
60576514 AAAAAATAAA
*
60576524 ATTATAAATTATAGTATTAATAAATTT
1 ATTATAAATTATA-TATGAAT-AATTT
60576551 ATTATAAA-TAT-TATGAATAATTT
1 ATTATAAATTATATATGAATAATTT
60576574 A
1 A
60576575 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.26
24 6 0.26
26 3 0.13
27 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTATAAATTATATATGAATAATTT
Found at i:60579093 original size:44 final size:45
Alignment explanation
Indices: 60579044--60579138 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
60579034 TTACACCTCT
* *
60579044 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
60579088 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
60579133 ATTACA
1 ATTACA
60579139 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:60579138 original size:16 final size:16
Alignment explanation
Indices: 60579117--60579149 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60579107 TTGATTTGCT
*
60579117 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
60579133 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
60579149 A
1 A
60579150 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:60579159 original size:21 final size:21
Alignment explanation
Indices: 60579130--60579172 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
60579120 ACACCTCTAT
*
60579130 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
60579151 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
60579172 T
1 T
60579173 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:60585128 original size:26 final size:26
Alignment explanation
Indices: 60585092--60585142 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
60585082 TTGAGCCGAC
60585092 AACCTCTTGACCCAATGGCAAGAACT
1 AACCTCTTGACCCAATGGCAAGAACT
60585118 AACCTCTTGACCCAATGGCAAGAAC
1 AACCTCTTGACCCAATGGCAAGAAC
60585143 ATTATGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.18
Consensus pattern (26 bp):
AACCTCTTGACCCAATGGCAAGAACT
Found at i:60588403 original size:57 final size:60
Alignment explanation
Indices: 60588264--60588410 Score: 178
Period size: 57 Copynumber: 2.5 Consensus size: 60
60588254 ATTGACGGTA
60588264 AAAAGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAAGGATTTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCTGAAGAATATGTGTG
* * * *
60588326 AAAAAGATCTAGTCCAGACGGGTGAT-C-T-TGATATAGCCCTCACT-AAGAATATGTG-G
1 AAAAGGATTTAGCCCGGACGGGTGATCCATCTGATATAGCCCTC-CTGAAGAATATGTGTG
*
60588382 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-GGATTTAGCCCGGACGGGTGATCC
60588411 GAATTAGGGT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
56 5 0.07
57 41 0.56
58 3 0.04
59 1 0.01
61 1 0.01
62 22 0.30
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (60 bp):
AAAAGGATTTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCTGAAGAATATGTGTG
Found at i:60588641 original size:67 final size:67
Alignment explanation
Indices: 60588533--60588661 Score: 240
Period size: 67 Copynumber: 1.9 Consensus size: 67
60588523 TTTATATTAC
*
60588533 AGGGGATTTAGCCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTTTT
1 AGGGGATTTAACCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTTTT
60588598 GT
66 GT
*
60588600 AGGGGATTTAACCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCT
1 AGGGGATTTAACCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCT
60588662 CTGAATTTGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (67 bp):
AGGGGATTTAACCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTTTT
GT
Found at i:60592333 original size:16 final size:16
Alignment explanation
Indices: 60592297--60592335 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
60592287 AATTCATCTA
60592297 TATATATACATACTTT
1 TATATATACATACTTT
* **
60592313 CATATATACATGTTTT
1 TATATATACATACTTT
60592329 TATATAT
1 TATATAT
60592336 TTCTATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:60592369 original size:27 final size:27
Alignment explanation
Indices: 60592329--60592387 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
60592319 TACATGTTTT
60592329 TATATATTTCTA-TTATTTTAATTCATA
1 TATATATTTCTATTTA-TTTAATTCATA
* *
60592356 TATATATCTT-TATTTATTTGATTCATG
1 TATATAT-TTCTATTTATTTAATTCATA
60592383 TATAT
1 TATAT
60592388 TTCTGCTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (27 bp):
TATATATTTCTATTTATTTAATTCATA
Found at i:60596430 original size:16 final size:16
Alignment explanation
Indices: 60596405--60596440 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60596395 AGTCAAAATG
* *
60596405 AAAATGAAAAAAATCA
1 AAAATAAAAAAAAACA
60596421 AAAATAAAAAAAAACA
1 AAAATAAAAAAAAACA
60596437 AAAA
1 AAAA
60596441 GAAGAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAATAAAAAAAAACA
Found at i:60597330 original size:20 final size:20
Alignment explanation
Indices: 60597305--60597343 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60597295 AAAACGAATG
*
60597305 AAAAATGAGAATGAAAAATA
1 AAAAATGAAAATGAAAAATA
60597325 AAAAATGAAAATGAAAAAT
1 AAAAATGAAAATGAAAAAT
60597344 GGAGAGGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAATGAAAAATA
Found at i:60597342 original size:7 final size:7
Alignment explanation
Indices: 60597301--60597344 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
60597291 AAAAAAAACG
60597301 AATGAAA
1 AATGAAA
*
60597308 AATG-AG
1 AATGAAA
60597314 AATGAAA
1 AATGAAA
*
60597321 AATAAAA
1 AATGAAA
60597328 AATG-AA
1 AATGAAA
60597334 AATGAAA
1 AATGAAA
60597341 AATG
1 AATG
60597345 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
AATGAAA
Found at i:60598711 original size:88 final size:88
Alignment explanation
Indices: 60598557--60599150 Score: 818
Period size: 88 Copynumber: 6.8 Consensus size: 88
60598547 ATAAAGTTGC
* *
60598557 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
60598622 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
60598645 AGATCTTGCCTTCCTGTATTGATAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
60598710 TGATAGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
60598733 AGATCTTGTCTTCCTGTATTAACAGCGAAGCAGGTCGAAGACACAAACCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
60598798 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
60598821 AGATCTTGCCTTCTTGGATTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
60598886 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* ** * *
60598909 AGATTTTGCCTTCCTGTATTGACAGCGAAGCATATCAAAGACACAAACCTTGCCTCTCTCAGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
60598974 T-AGCGGAGCTGGTTGAAGACAAC
66 TGA-TGGAGCTGGTTGAAGACAAA
* * ** * *
60598997 AGATCTTGCCTACCTGAATCAACAGCGAAGC-GGATCGAAGACACAAGCCTTGCCTCCCTCGGTT
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGG-TCGAAGACACAAACCTTGCCTCTCTCGGTT
**
60599061 GT-AGTGGAGCTGGTTGAAGACAGT
65 GTGA-TGGAGCTGGTTGAAGACAAA
* * * * * *
60599085 AGATCTTGCCTTCCTGCATCGGCAGCGAAGC-GGATCGAAGACACAAGCCTTGCCTCCCTCCGTT
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGG-TCGAAGACACAAACCTTGCCTCTCTCGGTT
60599149 GT
65 GT
60599151 AGTGGATCCA
Statistics
Matches: 454, Mismatches: 50, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 453 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:60599137 original size:44 final size:44
Alignment explanation
Indices: 60599001--60599139 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
60598991 GACAACAGAT
* *
60599001 CTTGCCTACCTGAATCAACAGCGAAGCGGATCGAAGACACAAGC
1 CTTGCCTACCTGCATCAGCAGCGAAGCGGATCGAAGACACAAGC
* * * * * * * ** *
60599045 CTTGCCTCCCT-CGGT-TGTAGTGGAGCTGG-TTGAAGACAGTAGAT
1 CTTGCCTACCTGC-ATCAGCAGCGAAGC-GGATCGAAGACACAAG-C
* *
60599089 CTTGCCTTCCTGCATCGGCAGCGAAGCGGATCGAAGACACAAGC
1 CTTGCCTACCTGCATCAGCAGCGAAGCGGATCGAAGACACAAGC
60599133 CTTGCCT
1 CTTGCCT
60599140 CCCTCCGTTG
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
43 16 0.24
44 33 0.49
45 18 0.27
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.21
Consensus pattern (44 bp):
CTTGCCTACCTGCATCAGCAGCGAAGCGGATCGAAGACACAAGC
Found at i:60599774 original size:50 final size:50
Alignment explanation
Indices: 60599699--60600030 Score: 313
Period size: 50 Copynumber: 6.6 Consensus size: 50
60599689 ACAACATGAT
*
60599699 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTAGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAGAAC
* * * * *
60599749 AGATTGAAGCTTCAACAGCAGATCTTAATTTCCT-GACATTGCAATTA-AA-
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTAGAAC
** * * *
60599798 AGATTGAAGCTACAACAGCAAATTTTATTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAGAAC
* * * *
60599848 AGATTGAAGCTACAACAGTGGATCTTACTTCCCT-GACATTGCAATTA-AGA-
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTAGA-AC
60599898 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGT-GTAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAG-AAC
* * * * *
60599948 AGATTGAAGCTACAACAACGGATCTTACTTCCCT-GACATTGCAATTA-AAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTAGAAC
* * *
60599998 AGATCGAAGCTACAACGGCGAATCTTACCTTTC
1 AGATTGAAGCTACAACAGCGGATCTTA-CTTTC
60600031 AGGCGGTGCA
Statistics
Matches: 230, Mismatches: 36, Indels: 31
0.77 0.12 0.10
Matches are distributed among these distances:
48 2 0.01
49 43 0.19
50 172 0.75
51 13 0.06
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAGAAC
Found at i:60599951 original size:100 final size:99
Alignment explanation
Indices: 60599699--60600656 Score: 950
Period size: 100 Copynumber: 9.6 Consensus size: 99
60599689 ACAACATGAT
* * * * ** *
60599699 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-GCGTTGCAGTAGAACAGATTGAAGCTTCA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTC-CAGGCGATGCAGCGGAACAGATTGAAGCTACA
* *
60599763 ACAGC-AGATCTTAATTTCCTGACATTGCAATTAAA
65 ACAGCGA-ATCTTACTTCCCTGACATTGCAATTAAA
* * * * * *
60599798 AGATTGAAGCTACAACAGCAAATTTTATTTTCCTA-GCGTTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGCGATGCAGCGGAACAGATTGAAGCTACA
* *
60599862 ACAGTGGATCTTACTTCCCTGACATTGCAATTAAGA
65 ACAGCGAATCTTACTTCCCTGACATTGCAATTAA-A
* * * * *
60599898 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGTAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGCGATGCAGCGGAACAGATTGAAGCTACA
* *
60599962 ACAACGGATCTTACTTCCCTGACATTGCAATTAAAA
65 ACAGCGAATCTTACTTCCCTGACATTGCAATT-AAA
* * * **
60599998 AGATCGAAGCTACAACGGCGAATCTTACCTTT-CAGGCGGTGCAGCGGAACAGATTAAAGCTATG
1 AGATTGAAGCTACAACGGCGAATCTTA-CTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* *
60600062 ACAGCGAATCTCACTTCCCCGACATTGCAATTCAAA
65 ACAGCGAATCTTACTTCCCTGACATTGCAATT-AAA
* * * * * *
60600098 AGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGCGATGCAGTGGAATAGATTGAAACTACAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* **
60600163 CGGCGAATCTCCCTT-CCTCGACATTGCAATTAAAA
66 CAGCGAATCTTACTTCCCT-GACATTGCAATT-AAA
* * * * * *
60600198 AGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGTAGCGGAACAGATTGAAGCTACGA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
** * * *
60600263 TGGCGAATCTCACTTCCCCGACATTACAATTAAA
66 CAGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * *
60600297 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAATAGATTGAAGCTACGA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
** * * *
60600362 TGGCAAAT-TTCACTACCCCGACATTGCAATTAAA
66 CAGCGAATCTT-ACTTCCCTGACATTGCAATTAAA
* * * * * * *
60600396 AGATTGAAGCCACAATGGTGAATCTTAC-TTCCAGGCGATGTAGCGGAACAGATTAAAACTACGA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* * *
60600460 CAGCGAATCTTGCTT-CCTCGACATTGCAGTTTCAA
66 CAGCGAATCTTACTTCCCT-GACATTGCA-ATTAAA
* *
60600495 AGATTGAAGCTACAACGGTGAATCTTACCTTT-CAGGCGGTGCAGCGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGCGAATCTTA-CTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* * ** * *
60600559 ACGGCGAATCCTGTTTCCCCGACATAGCAATTTAAA
65 ACAGCGAATCTTACTTCCCTGACATTGCAA-TTAAA
* * *
60600595 AGATTGAGGCTACAACGACGAATCTTAC-TCCCAGGCGATGC-GACGGAACAGATTGAAGCTAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAG-CGGAACAGATTGAAGCTAC
60600657 GACGATTGAA
Statistics
Matches: 741, Mismatches: 99, Indels: 38
0.84 0.11 0.04
Matches are distributed among these distances:
97 2 0.00
98 50 0.07
99 271 0.37
100 406 0.55
101 12 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (99 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
CAGCGAATCTTACTTCCCTGACATTGCAATTAAA
Found at i:60600128 original size:50 final size:49
Alignment explanation
Indices: 60599749--60600623 Score: 417
Period size: 50 Copynumber: 17.6 Consensus size: 49
60599739 GCAGTAGAAC
* * * * *
60599749 AGATTGAAGCTTCAACAGC-AGATCTTAATTTCCTGACATTGCAATTAAA
1 AGATTGAAGCTACAACGGCGA-ATCTTACTTCCCCGACATTGCAATTAAA
* * * ** * * * * *
60599798 AGATTGAAGCTACAACAGCAAATTTTA-TTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAAT-TAAA
* * * *
60599848 AGATTGAAGCTACAACAGTGGATCTTACTTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTAA-A
* * * * * * *
60599898 AGATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGCGTTGCAGTGTAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAAT-TAAA
** * *
60599948 AGATTGAAGCTACAACAACGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATT-AAA
* * * * ** *** *
60599998 AGATCGAAGCTACAACGGCGAATCTTACCTT-TCAGGCGGTGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTA-CTTCCCCGACATTGCA-ATTAAA
* ** * *
60600048 AGATTAAAGCTATGACAGCGAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATT-AAA
* * * * * * *
60600098 AGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGCGA-TGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAAT-TAAA
* ** *
60600148 AGATTGAAACTACAACGGCGAATCTCCCTTCCTCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATT-AAA
* * * * * ** *
60600198 AGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGTAGC--GGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-AT-T-GCAATTAAA
* * * *
60600248 AGATTGAAGCTACGATGGCGAATCTCACTTCCCCGACATTACAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAA
* * * * *** *
60600297 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGA-TGCAGCGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCA-ATTAAA
* * * *
60600347 AGATTGAAGCTACGATGGCAAAT-TTCACTACCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-ACTTCCCCGACATTGCAATTAAA
* * * * * ** *
60600396 AGATTGAAGCCACAATGGTGAATCTTACTT-CCAGGCGATGTAGC--GGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-AT-T-GCAATTAAA
* * * * * * * *
60600445 AGATTAAAACTACGACAGCGAATCTTGCTTCCTCGACATTGCAGTTTCAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCA-ATTAAA
* * * * ** *** *
60600495 AGATTGAAGCTACAACGGTGAATCTTACCTT-TCAGGCGGTGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTA-CTTCCCCGACATTGCA-ATTAAA
* ** *
60600545 AGATTGAAGCTACAACGGCGAATCCTGTTTCCCCGACATAGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA-TTAAA
* *
60600595 AGATTGAGGCTACAACGACGAATCTTACT
1 AGATTGAAGCTACAACGGCGAATCTTACT
60600624 CCCAGGCGAT
Statistics
Matches: 594, Mismatches: 195, Indels: 73
0.69 0.23 0.08
Matches are distributed among these distances:
47 3 0.01
48 11 0.02
49 133 0.22
50 424 0.71
51 20 0.03
52 1 0.00
53 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAA
Found at i:60601553 original size:132 final size:132
Alignment explanation
Indices: 60601316--60601565 Score: 455
Period size: 132 Copynumber: 1.9 Consensus size: 132
60601306 AGCTACGAAT
*
60601316 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATAC
1 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
*
60601381 AGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAAAT
66 AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAAAT
60601446 TG
131 TG
*
60601448 CAGATTCTGTCACCCTATGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
1 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
* *
60601513 AGTGGAGAAGCAGATTTAAGCCATTAGTCCTGTCACCCTAATCAGTAGTGGAG
66 AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
60601566 CATGATCAAA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 113 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAAAT
TG
Found at i:60601559 original size:88 final size:89
Alignment explanation
Indices: 60601454--60601654 Score: 352
Period size: 89 Copynumber: 2.3 Consensus size: 89
60601444 ATTGCAGATT
60601454 CTGTCACCCT-ATGCAGTAGTGGAGCA-GATCAAAGATGGTGAATCTTATCTTCCCAATACAGTG
1 CTGTCACCCTAAT-CAGTAGTGGAGCATGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTG
60601517 GAGAAGCAGATTTAAGCCATTAGTC
65 GAGAAGCAGATTTAAGCCATTAGTC
60601542 CTGTCACCCTAATCAGTAGTGGAGCATGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
1 CTGTCACCCTAATCAGTAGTGGAGCATGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
*
60601607 AGAAGCATATTTAAGCCATTAGTC
66 AGAAGCAGATTTAAGCCATTAGTC
* *
60601631 CTATCACCCTAAGCAGTAGTGGAG
1 CTGTCACCCTAATCAGTAGTGGAG
60601655 TAGGTCGAAG
Statistics
Matches: 108, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
88 23 0.21
89 85 0.79
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (89 bp):
CTGTCACCCTAATCAGTAGTGGAGCATGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
AGAAGCAGATTTAAGCCATTAGTC
Found at i:60601684 original size:44 final size:44
Alignment explanation
Indices: 60601631--60601842 Score: 146
Period size: 44 Copynumber: 4.8 Consensus size: 44
60601621 GCCATTAGTC
* *
60601631 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATT
* * * ** *
60601675 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATT
* * * * * ** *
60601718 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAGATT
* * * *
60601763 CTATCACCCTAGGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATT
* *
60601807 TTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
60601843 GGTGAATCTT
Statistics
Matches: 123, Mismatches: 35, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.02
43 26 0.21
44 71 0.58
45 20 0.16
46 1 0.01
47 1 0.01
48 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATT
Found at i:60601704 original size:221 final size:220
Alignment explanation
Indices: 60601322--60601786 Score: 833
Period size: 221 Copynumber: 2.1 Consensus size: 220
60601312 GAATCAGATT
*
60601322 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
1 CTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
* *
60601387 GAAGCAGATTTAAGCCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGA
66 GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAAATTGCAGA
60601452 TTCTGTCACCCTATGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTG
131 TTCTGTCACCCTATGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTG
60601517 GAGAAGCAGATTTAAGCCATTAGTC
196 GAGAAGCAGATTTAAGCCATTAGTC
*
60601542 CTGTCACCCTAATCAGTAGTGGAGCATGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
1 CTGTCACCCTAAGCAGTAGTGGAGCA-GATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
* *
60601607 AGAAGCATATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAG
65 AGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAAATTGCAG
60601672 ATTCTGTCACCCTAAT-CAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAG
130 ATTCTGTCACCCT-ATGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAG
60601736 TGGAGAAGCAGATTTAAGCCATTAGTC
194 TGGAGAAGCAGATTTAAGCCATTAGTC
* *
60601763 CTATCACCCTAGGCAGTAGTGGAG
1 CTGTCACCCTAAGCAGTAGTGGAG
60601787 TAGGTTGAAG
Statistics
Matches: 234, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
220 25 0.11
221 207 0.88
222 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (220 bp):
CTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAAATTGCAGA
TTCTGTCACCCTATGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTG
GAGAAGCAGATTTAAGCCATTAGTC
Found at i:60601780 original size:132 final size:132
Alignment explanation
Indices: 60601542--60601970 Score: 716
Period size: 132 Copynumber: 3.2 Consensus size: 132
60601532 GCCATTAGTC
*
60601542 CTGTCACCCTAATCAGTAGTGGAGCATGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
1 CTGTCACCCTAAGCAGTAGTGGAGCA-GATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGG
*
60601607 AGAAGCATATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAG
65 AGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAG
60601672 ATT
130 ATT
*
60601675 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
1 CTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
* *
60601740 GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAGGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
66 GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGA
60601805 TT
131 TT
* * *
60601807 TTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATATAGTGGA
1 CTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
* * *
60601872 GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGA
66 GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGA
60601937 TT
131 TT
* *
60601939 CTGTC-CTCCTAAGCAGTAATGGAGCAAATCAA
1 CTGTCAC-CCTAAGCAGTAGTGGAGCAGATCAA
60601971 CAATAACGAA
Statistics
Matches: 279, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 252 0.90
133 26 0.09
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
CTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGA
GAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGA
TT
Found at i:60603411 original size:3 final size:3
Alignment explanation
Indices: 60603405--60603429 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60603395 TTATTTAACC
60603405 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
60603430 GTTGTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:60603554 original size:16 final size:16
Alignment explanation
Indices: 60603518--60603556 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
60603508 AATTCATCTA
60603518 TATATATACATACTTT
1 TATATATACATACTTT
* **
60603534 CATATATACATGTTTT
1 TATATATACATACTTT
60603550 TATATAT
1 TATATAT
60603557 TTCTATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:60610285 original size:21 final size:21
Alignment explanation
Indices: 60610256--60610317 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
60610246 TAACAATAAG
* *
60610256 TATATAAATAATTTAAAATTT
1 TATAAAAATAATTAAAAATTT
*
60610277 TATAAAAATTAATAAAAAATTT
1 TATAAAAA-TAATTAAAAATTT
*
60610299 TA-AAATATATATTAAAAAT
1 TATAAAAATA-ATTAAAAAT
60610318 AAATTAGTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.06
21 19 0.56
22 13 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAAAAATAATTAAAAATTT
Found at i:60612462 original size:6 final size:6
Alignment explanation
Indices: 60612451--60612478 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
60612441 CTTACAGAAG
60612451 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
60612479 AAGTTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:60615795 original size:119 final size:119
Alignment explanation
Indices: 60615584--60615822 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
60615574 ACAAATAACA
60615584 GATAAACAACTTACTAAATTAAATAACTAATGAACGGCTGACTTTTGGTTGTAATGATTGGCTTT
1 GATAAACAACTTACTAAATTAAATAACTAATGAACGGCTGACTTTTGGTTGTAATGATTGGCTTT
60615649 TGGCATATAGTAACCTGGTTGATATCAATGTTGAACTCAGAAGCATCAAAGAAG
66 TGGCATATAGTAACCTGGTTGATATCAATGTTGAACTCAGAAGCATCAAAGAAG
60615703 GATAAACAACTTACTAAATTAAATAACTAATGAACGGCTGACTTTTGGTTGTAATGATTGGCTTT
1 GATAAACAACTTACTAAATTAAATAACTAATGAACGGCTGACTTTTGGTTGTAATGATTGGCTTT
60615768 TGGCATATAGTAACCTGGTTGATATCAATGTTGAACTCAGAAGCATCAAAGAAG
66 TGGCATATAGTAACCTGGTTGATATCAATGTTGAACTCAGAAGCATCAAAGAAG
60615822 G
1 G
60615823 TTCTTTTTCT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (119 bp):
GATAAACAACTTACTAAATTAAATAACTAATGAACGGCTGACTTTTGGTTGTAATGATTGGCTTT
TGGCATATAGTAACCTGGTTGATATCAATGTTGAACTCAGAAGCATCAAAGAAG
Found at i:60625983 original size:43 final size:42
Alignment explanation
Indices: 60625935--60626067 Score: 187
Period size: 43 Copynumber: 3.1 Consensus size: 42
60625925 TTTTTAAAAG
60625935 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCATTTTATACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTTTATACAAA
*
60625978 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTACACAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTTTATACAAA
* * *
60626021 CGCCGCTAAAGCTA-ATGTTCTTTAGTGGCGCTTTTTTCACAAA
1 CGCCGCTAAAG-AACATGTTCTTTAGCGGCGCTTTTAT-ACAAA
60626064 CGCC
1 CGCC
60626068 ACTTTTTGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 4 0.05
43 77 0.94
44 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAA
Found at i:60630017 original size:22 final size:21
Alignment explanation
Indices: 60629978--60630018 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
60629968 ACTCTGACTA
60629978 TAAAAACTAAACTCCAAACTT
1 TAAAAACTAAACTCCAAACTT
60629999 TAAAACACTAAA-TCACAAAC
1 TAAAA-ACTAAACTC-CAAAC
60630019 CCAATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACTAAACTCCAAACTT
Found at i:60630063 original size:16 final size:16
Alignment explanation
Indices: 60630042--60630111 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
60630032 CCCTAAACCA
60630042 TAAACTATAAAACCCT
1 TAAACTATAAAACCCT
* * **
60630058 TAAACTA-CATACTAT
1 TAAACTATAAAACCCT
*
60630073 AGTAAAC-ATTAAA-CCT
1 --TAAACTATAAAACCCT
60630089 TAAACTATAAAACCCT
1 TAAACTATAAAACCCT
60630105 TAAACTA
1 TAAACTA
60630112 CATACTATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 19 0.47
17 7 0.17
ACGTcount: A:0.50, C:0.21, G:0.01, T:0.27
Consensus pattern (16 bp):
TAAACTATAAAACCCT
Found at i:60630071 original size:23 final size:23
Alignment explanation
Indices: 60630045--60630120 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
60630035 TAAACCATAA
60630045 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
*
60630068 ACTATAGTAAA-CATTAAACCTTA-A-
1 ACTATA--AAACCCTTAAA-C-TACAT
60630092 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
60630115 ACTATA
1 ACTATA
60630121 GCCCTTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.11
23 18 0.41
24 12 0.27
25 5 0.11
26 2 0.05
ACGTcount: A:0.49, C:0.22, G:0.01, T:0.28
Consensus pattern (23 bp):
ACTATAAAACCCTTAAACTACAT
Found at i:60630592 original size:41 final size:40
Alignment explanation
Indices: 60630547--60630747 Score: 278
Period size: 41 Copynumber: 4.9 Consensus size: 40
60630537 AGGCCTGCGA
* *
60630547 ATTAGCGGCG-TATCAATAAAAACGCTGCTAAAGCCCAGAAC
1 ATTAGCGGCGCT-T-AATAAAAACGCCGCTAAATCCCAGAAC
*
60630588 ATTAGCGGCGCTTAATTAAAAACGCCACTAAATCCCAGAAC
1 ATTAGCGGCGCTTAA-TAAAAACGCCGCTAAATCCCAGAAC
*
60630629 ATTAGCTGCGCTTAAATAAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTT-AATAAAAACGCCGCTAAATCCCAGAAC
* *
60630670 ATTAGTGGCGCTTAAAACAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTTAATA-AAAACGCCGCTAAATCCCAGAAC
*
60630711 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCA
1 ATTAGCGGCGCTTA-ATAAAAACGCCGCTAAATCCCA
60630748 CGAAAAGTCA
Statistics
Matches: 144, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 5 0.03
41 134 0.93
42 5 0.03
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (40 bp):
ATTAGCGGCGCTTAATAAAAACGCCGCTAAATCCCAGAAC
Found at i:60630655 original size:123 final size:124
Alignment explanation
Indices: 60630522--60630747 Score: 291
Period size: 123 Copynumber: 1.8 Consensus size: 124
60630512 GCGTTTTTTA
* * * * *
60630522 AAAAAGCGCCGCTAAAGGCCTGCGA-ATTAGCGGCG-TATCAATA-AAAACGCTGCTAAAGCCCA
1 AAAAAGCGCCGCTAAAGCCCAG-AACATTAGCGGCGCT-T-AAAACAAAACGCCGCTAAAGCCCA
*
60630584 GAACATTAGCGGCGCTTA-ATTAAAAACGCCACTAAATCCCAGAACATTAGCTGCGCTTAAAT
63 GAACATTAGCGGCGCTTACA-TAAAAACGCCACTAAAGCCCAGAACATTAGCTGCGCTTAAAT
* * *
60630646 AAAAA-CGCCGCTAAATCCCAGAACATTAGTGGCGCTTAAAACAAAACGCCGCTAAATCCCAGAA
1 AAAAAGCGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAAAACAAAACGCCGCTAAAGCCCAGAA
*
60630710 CATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCA
66 CATTAGCGGCGCTTACATAAAAACGCCACTAAAGCCCA
60630748 CGAAAAGTCA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
122 4 0.05
123 77 0.88
124 7 0.08
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (124 bp):
AAAAAGCGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAAAACAAAACGCCGCTAAAGCCCAGAA
CATTAGCGGCGCTTACATAAAAACGCCACTAAAGCCCAGAACATTAGCTGCGCTTAAAT
Found at i:60632899 original size:12 final size:12
Alignment explanation
Indices: 60632850--60632902 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
60632840 TAGTCAAAGG
*
60632850 TATGTATAGATA
1 TATGTATATATA
*
60632862 TATGTATGTATAA
1 TATGTATATAT-A
*
60632875 TACTCGAATATATA
1 TA-T-GTATATATA
60632889 TATGTATATATA
1 TATGTATATATA
60632901 TA
1 TA
60632903 AGTTTTTGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
12 19 0.58
13 4 0.12
14 4 0.12
15 6 0.18
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (12 bp):
TATGTATATATA
Found at i:60633219 original size:41 final size:41
Alignment explanation
Indices: 60633157--60633276 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
60633147 TGATCGAATG
* *
60633157 TAATACAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAA
*
60633198 TAATTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * *
60633239 CATTTCGGACTATATGTCTAGCAGG-TTAAAAGCCGGTG
1 TAATTCAGACTTTATGTCTAGCAGGCTT-AATGCCGGTG
60633277 TACCGAATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
40 2 0.03
41 68 0.97
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
TAATTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:60635550 original size:13 final size:14
Alignment explanation
Indices: 60635520--60635568 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
60635510 AAGAATAAAG
60635520 TAAATATTATAA-AT
1 TAAATATT-TAATAT
60635534 TAAA-ATTTAATAT
1 TAAATATTTAATAT
60635547 TAAATATTTAAT-T
1 TAAATATTTAATAT
*
60635560 CAAATATTT
1 TAAATATTT
60635569 GTTAAGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 3 0.09
13 18 0.56
14 11 0.34
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAATATTTAATAT
Found at i:60636210 original size:19 final size:19
Alignment explanation
Indices: 60636173--60636214 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
60636163 TATTTTTCAT
*
60636173 CTATATTTATCTATCTATA
1 CTATATTTATCTATATATA
60636192 CTATATTTA-C-ATATATA
1 CTATATTTATCTATATATA
60636209 -TATATT
1 CTATATT
60636215 CTATAGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 6 0.27
18 1 0.05
19 9 0.41
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (19 bp):
CTATATTTATCTATATATA
Found at i:60637977 original size:16 final size:16
Alignment explanation
Indices: 60637956--60637988 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60637946 GAAGCATGAA
60637956 GTTTAGATTGTGATCT
1 GTTTAGATTGTGATCT
*
60637972 GTTTAGATTGTGCTCT
1 GTTTAGATTGTGATCT
60637988 G
1 G
60637989 GGTTATTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.09, G:0.27, T:0.48
Consensus pattern (16 bp):
GTTTAGATTGTGATCT
Found at i:60639559 original size:34 final size:34
Alignment explanation
Indices: 60639516--60639585 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
60639506 TGGTTGCAAA
*
60639516 TGTGTACAATTGTGAGTTGGTTCTTACTTACATT
1 TGTGTACAATTGCGAGTTGGTTCTTACTTACATT
60639550 TGTGTACAATTGCGAGTTGGTTCTTACTTACATT
1 TGTGTACAATTGCGAGTTGGTTCTTACTTACATT
60639584 TG
1 TG
60639586 GTGCCATCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.46
Consensus pattern (34 bp):
TGTGTACAATTGCGAGTTGGTTCTTACTTACATT
Found at i:60642534 original size:57 final size:56
Alignment explanation
Indices: 60642456--60642590 Score: 155
Period size: 57 Copynumber: 2.3 Consensus size: 56
60642446 TTATAGTATT
* * * *
60642456 TTATATTATGATTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAA
1 TTATA-TATTATTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAA
* *
60642514 TTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAA
1 TTATATATTATTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAA
*
60642571 TTATTTATTATTTTTATTAA
1 TTATATATTA-TTTTATTAA
60642591 TAATCTTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
56 3 0.04
57 34 0.51
58 30 0.45
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (56 bp):
TTATATATTATTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAAA
Found at i:60646592 original size:44 final size:45
Alignment explanation
Indices: 60646519--60646614 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 45
60646509 CTGTTTGTGC
*
60646519 TTGTAATTGTTTGATCCTACTTTATGATTACTAGAACAATCCGTA
1 TTGTAATTGTTTGATCATACTTTATGATTACTAGAACAATCCGTA
*
60646564 TTGTAATTGTTTG-TTATACTTTATGATTACTAGAACAATCCGTA
1 TTGTAATTGTTTGATCATACTTTATGATTACTAGAACAATCCGTA
*
60646608 TTATAAT
1 TTGTAAT
60646615 ATTATACTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (45 bp):
TTGTAATTGTTTGATCATACTTTATGATTACTAGAACAATCCGTA
Found at i:60648637 original size:29 final size:30
Alignment explanation
Indices: 60648594--60648652 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
60648584 GAATTTGATC
60648594 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
*
60648624 AAATCAAAA-TTCATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
60648653 TTAAACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:60648736 original size:21 final size:21
Alignment explanation
Indices: 60648693--60648740 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
60648683 TTTATCCCTA
*
60648693 AAAATATTTATAATTATAATC
1 AAAATATTTATAATAATAATC
*
60648714 AAAATATTTATAA-AATCACTC
1 AAAATATTTATAATAAT-AATC
60648735 AAAATA
1 AAAATA
60648741 ATCTCAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATATTTATAATAATAATC
Found at i:60649067 original size:12 final size:11
Alignment explanation
Indices: 60649040--60649091 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
60649030 CACCTAAATC
60649040 ATTTCTCTC-A
1 ATTTCTCTCAA
60649050 ATTTCTCTCAA
1 ATTTCTCTCAA
*
60649061 ATATTCTCTTAA
1 AT-TTCTCTCAA
*
60649073 ATTCCTCTCAA
1 ATTTCTCTCAA
*
60649084 ATTCCTCT
1 ATTTCTCT
60649092 TAAAAAAGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.24
11 18 0.49
12 10 0.27
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:60649094 original size:22 final size:23
Alignment explanation
Indices: 60649049--60649095 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
60649039 CATTTCTCTC
* *
60649049 AATTTCTCTCAAATATTCTCTTA
1 AATTCCTCTCAAATATCCTCTTA
60649072 AATTCCTCTCAAAT-TCCTCTTA
1 AATTCCTCTCAAATATCCTCTTA
60649094 AA
1 AA
60649096 AAAGCTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTCCTCTCAAATATCCTCTTA
Found at i:60649520 original size:12 final size:11
Alignment explanation
Indices: 60649493--60649544 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 11
60649483 CACCTAAATC
60649493 ATTTCTCTC-A
1 ATTTCTCTCAA
60649503 ATTTCTCTCAA
1 ATTTCTCTCAA
*
60649514 ATATTCTCTTAA
1 AT-TTCTCTCAA
60649526 A-TTCATCTCAA
1 ATTTC-TCTCAA
*
60649537 ATTCCTCT
1 ATTTCTCT
60649545 TAAAAAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 12 0.34
11 12 0.34
12 11 0.31
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:60651463 original size:12 final size:12
Alignment explanation
Indices: 60651446--60651477 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
60651436 TTATTATTTT
60651446 ATTATATTGTAA
1 ATTATATTGTAA
60651458 ATTATATTGTAA
1 ATTATATTGTAA
60651470 ATTATATT
1 ATTATATT
60651478 ATATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
ATTATATTGTAA
Found at i:60652609 original size:20 final size:21
Alignment explanation
Indices: 60652560--60652613 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
60652550 ATCAGACACT
* *
60652560 TTATGTGTCGTATCAGGCACC
1 TTATGTGTCGTTTCAAGCACC
**
60652581 TCGTGTGTCGTTTCAAGCA-C
1 TTATGTGTCGTTTCAAGCACC
60652601 TTATGTGTCGTTT
1 TTATGTGTCGTTT
60652614 ACTGATCAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (21 bp):
TTATGTGTCGTTTCAAGCACC
Found at i:60653130 original size:95 final size:97
Alignment explanation
Indices: 60652863--60653159 Score: 300
Period size: 96 Copynumber: 3.1 Consensus size: 97
60652853 CCTAAACTCC
* * * *
60652863 AAACCGTAATTTATTTGA-GTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTATTTTTAA
1 AAACCCTAATTTAATTGATTTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT-A
**
60652927 AAAAAATTATAATTAATTTACTCAAGTAACCCT
65 AAAATTTTATAATTAATTTACTCAAGTAACCCT
* * * * * *
60652960 AAACCTTAATTT-ATT--TTATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATATGATTTTT
1 AAACCCTAATTTAATTGATT-TTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTA
* ** *
60653022 TATTTTTTTTAATTAATTTACTCAAGTAACCCT
65 AAAATTTTATAATTAATTTACTCAAGTAACCCT
* * * *
60653055 -AACCCTAATTTAATTGATTTTTTTCTTTAAAAACCATAAACACGAAA-CCTAATCCAATTTTGA
1 AAACCCTAATTTAATTGATTTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTAA
* * * ** *
60653118 AAATTTTATAATTAAATTAATTAAAAAACACT
66 AAATTTTATAATTAATTTACTCAAGTAACCCT
60653150 AAACCCTAAT
1 AAACCCTAAT
60653160 CCCTTATTTA
Statistics
Matches: 160, Mismatches: 34, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
94 10 0.06
95 64 0.40
96 73 0.46
97 13 0.08
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.39
Consensus pattern (97 bp):
AAACCCTAATTTAATTGATTTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTAA
AAATTTTATAATTAATTTACTCAAGTAACCCT
Found at i:60653237 original size:27 final size:29
Alignment explanation
Indices: 60653189--60653244 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
60653179 TCTTTAAAAT
*
60653189 CTTAAACCTAAAAATCCTAAAACCCTAAC
1 CTTAAACCTAAAAATCCCAAAACCCTAAC
60653218 CTTAAACC-AAAAA-CCCAAAACCCTAAC
1 CTTAAACCTAAAAATCCCAAAACCCTAAC
60653245 TAGCAGGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.50
28 5 0.19
29 8 0.31
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (29 bp):
CTTAAACCTAAAAATCCCAAAACCCTAAC
Found at i:60654007 original size:30 final size:30
Alignment explanation
Indices: 60653973--60654031 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
60653963 AATAAATTAG
*
60653973 ATTTGTATATTAACATTTTGTTTGTGTTAA
1 ATTTGTATATTAACATTGTGTTTGTGTTAA
*
60654003 ATTTGTATATTAATATTGTGTTTGTGTTA
1 ATTTGTATATTAACATTGTGTTTGTGTTA
60654032 TTTTATATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
ATTTGTATATTAACATTGTGTTTGTGTTAA
Found at i:60655563 original size:21 final size:20
Alignment explanation
Indices: 60655539--60655577 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60655529 TGGTGGTATC
*
60655539 AGCACCATCACCAGAAACTCA
1 AGCAACATCACCA-AAACTCA
*
60655560 AGCAACATCAGCAAAACT
1 AGCAACATCACCAAAACT
60655578 TGCTGCACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.33, G:0.10, T:0.10
Consensus pattern (20 bp):
AGCAACATCACCAAAACTCA
Found at i:60658235 original size:13 final size:13
Alignment explanation
Indices: 60658217--60658241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60658207 TTATCATCTA
60658217 TCATTTATTTATT
1 TCATTTATTTATT
60658230 TCATTTATTTAT
1 TCATTTATTTAT
60658242 CTACGCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:60658967 original size:22 final size:22
Alignment explanation
Indices: 60658940--60659008 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
60658930 CCCTTGATCC
60658940 TTTTAACACTAT-TTTTATATAT
1 TTTTAA-ACTATCTTTTATATAT
*
60658962 TTTTAAACTGTCTTTT-T-TAT
1 TTTTAAACTATCTTTTATATAT
*
60658982 TATTTAAGACTTTCTTTTATATAT
1 T-TTTAA-ACTATCTTTTATATAT
60659006 TTT
1 TTT
60659009 ATTTTAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.10
21 10 0.25
22 19 0.47
23 3 0.08
24 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTAAACTATCTTTTATATAT
Found at i:60663860 original size:26 final size:28
Alignment explanation
Indices: 60663811--60663864 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
60663801 ATGCTTTGAA
60663811 ATTATTAAATATATAAATTAAAATTAACT
1 ATTATTAAATATATAAATTAAAA-TAACT
*
60663840 ATTA-TAAATAT-TTAATT-AAATAACT
1 ATTATTAAATATATAAATTAAAATAACT
60663865 TAATTGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 5 0.21
28 7 0.29
29 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTATTAAATATATAAATTAAAATAACT
Found at i:60677860 original size:59 final size:59
Alignment explanation
Indices: 60677788--60677967 Score: 360
Period size: 59 Copynumber: 3.1 Consensus size: 59
60677778 AAAGAGAAGA
60677788 TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
1 TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
60677847 TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
1 TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
60677906 TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
1 TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
60677965 TTG
1 TTG
60677968 GGGCCTAAGT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 121 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.36
Consensus pattern (59 bp):
TTGATGGATGTGAAAGGAAGTTGATTTAAAAAGTATGTTGTGGCATATTGTGAAACATT
Found at i:60680032 original size:21 final size:21
Alignment explanation
Indices: 60680002--60680042 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60679992 TTAGAATAAT
* *
60680002 TTTTTTTACTAATGTTCGTAA
1 TTTTTATACTAATATTCGTAA
*
60680023 TTTTTATACTATTATTCGTA
1 TTTTTATACTAATATTCGTA
60680043 TTGGTTGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTTATACTAATATTCGTAA
Found at i:60687336 original size:29 final size:30
Alignment explanation
Indices: 60687277--60687334 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60687267 TCCGAGCCTT
*
60687277 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
60687307 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
60687335 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:60687564 original size:13 final size:13
Alignment explanation
Indices: 60687546--60687577 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60687536 TTTCCAGCAA
60687546 TTATGAATTTATT
1 TTATGAATTTATT
60687559 TTATGAATTTATT
1 TTATGAATTTATT
*
60687572 TGATGA
1 TTATGA
60687578 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:60687752 original size:50 final size:50
Alignment explanation
Indices: 60687672--60687856 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
60687662 ATTTGGGTAA
*
60687672 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
60687722 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
60687772 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
60687822 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
60687857 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:60699015 original size:93 final size:98
Alignment explanation
Indices: 60698858--60699064 Score: 237
Period size: 93 Copynumber: 2.1 Consensus size: 98
60698848 ATAGTAAAAC
** *
60698858 TATGGTCTTGCACATAGTCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-
1 TATGGTCTTATACATAGTCACATATCACA-ACCGAGGCCATAGCCCAGACATGGTCTTACACGGA
* * *
60698922 ATCACATATCACA-C-T-GATGCCATATCCCAGA
65 AGCACATATCACATCTTCGAAGCCATAGCCCAGA
* * * *
60698953 TATGGTCTTATACAGTAG-CACATATCAC-ACCGATGCCATATCCCAGATATGGTCTTATACGGA
1 TATGGTCTTATACA-TAGTCACATATCACAACCGAGGCCATAGCCCAGACATGGTCTTACACGGA
*
60699016 AGCACATATCACATTTCTTCGAAGCCATAGCCCAGC
65 AGCACATATCACA--TCTTCGAAGCCATAGCCCAGA
60699052 TATGGTCTTATAC
1 TATGGTCTTATAC
60699065 GGAAATCACA
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
93 29 0.31
94 12 0.13
95 22 0.23
96 3 0.03
97 1 0.01
98 1 0.01
99 26 0.28
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (98 bp):
TATGGTCTTATACATAGTCACATATCACAACCGAGGCCATAGCCCAGACATGGTCTTACACGGAA
GCACATATCACATCTTCGAAGCCATAGCCCAGA
Found at i:60699059 original size:52 final size:48
Alignment explanation
Indices: 60698876--60699068 Score: 205
Period size: 47 Copynumber: 4.0 Consensus size: 48
60698866 TGCACATAGT
* ** * *
60698876 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT--CGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
60698924 CACATATCACACT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
*
60698971 CACATATCACAC-CGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACTCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
60699018 CACATATCACATTTCTTCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---C-TCGATGCCATAGCCCAGATATGGTCTTATACGGAA
60699069 ATCACATTTC
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
46 25 0.20
47 56 0.45
48 11 0.09
49 1 0.01
50 1 0.01
52 31 0.25
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (48 bp):
CACATATCACACTCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:60702219 original size:46 final size:46
Alignment explanation
Indices: 60702166--60702300 Score: 144
Period size: 46 Copynumber: 2.8 Consensus size: 46
60702156 ACACGGGTAC
* * *
60702166 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTTTTG
1 CTTACCATTGCCATGACTTGGCATGGTCTTACATGGTAGCCTTTTG
*
60702212 CTTACCATTGCCATGTCTTGGCATGGTCTTACATGGTAGCCTTGCCTTATG
1 CTTACCATTGCCATGACTTGGCATGGTCTTACATGGTAGCC-T---TT-TG
* * *
60702263 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGG
1 --CTTACCATTGCCATGACTTGGCATGGTCTTACATGG
60702301 GACCTTTACC
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
46 37 0.49
47 1 0.01
50 2 0.03
51 2 0.03
53 33 0.44
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (46 bp):
CTTACCATTGCCATGACTTGGCATGGTCTTACATGGTAGCCTTTTG
Found at i:60702285 original size:53 final size:54
Alignment explanation
Indices: 60702215--60702368 Score: 186
Period size: 53 Copynumber: 2.8 Consensus size: 54
60702205 CCTTTTGCTT
*
60702215 ACCATTGCCATGTCTTGGCATGGTCTTACATGGTAGCCTTGCCTTAT-G-AACTC
1 ACCAATGCCATGTCTTGGCATGGTCTTACATGGTA-CCTTGCCTTATGGTAACTC
* * * *
60702268 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATGGTAACTT
1 ACCAATGCCATGTCTTGGCATGGTCTTACATGGTACC-TTGCCTTATGGTAACTC
* * * *
60702323 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 ACCAATGCCATGTCTTGGCATGGTCTTACATG-GTACCTTGCCTTA
60702369 GAAATGTAAC
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 40 0.47
54 1 0.01
55 40 0.47
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
ACCAATGCCATGTCTTGGCATGGTCTTACATGGTACCTTGCCTTATGGTAACTC
Found at i:60702368 original size:55 final size:52
Alignment explanation
Indices: 60702215--60702368 Score: 164
Period size: 55 Copynumber: 2.9 Consensus size: 52
60702205 CCTTTTGCTT
* *
60702215 ACCATTGCCATGTCTTGGCATGGTCTTACATGGTAGCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGGCATGGTCTTACAT-GTAACCTTGCCTTATGAACTC
* ** * *
60702268 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATGGTAACTT
1 ACCAATGCCATGTCTTGGCATGGTCTTACATGTAACC-TTGCCTTAT-G-AACTC
* * **
60702323 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 ACCAATGCCATGTCTTGGCATGGTCTTACATG-TAACCTTGCCTTA
60702369 GAAATGTAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
52 3 0.04
53 37 0.45
54 1 0.01
55 40 0.48
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (52 bp):
ACCAATGCCATGTCTTGGCATGGTCTTACATGTAACCTTGCCTTATGAACTC
Found at i:60704039 original size:40 final size:40
Alignment explanation
Indices: 60703967--60704218 Score: 346
Period size: 40 Copynumber: 6.3 Consensus size: 40
60703957 ACCCCGAATT
* * * *
60703967 CACAAAGCCTACGGGTC-TTAAGTCTGAATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
60704006 CACGAAGCCTGCGGGTCTTTAAGCTCAGATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* *
60704046 CACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
60704086 CACAAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
*
60704125 CACAAAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
60704165 CATATAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
60704205 CACAAAGCCTGCGG
1 CACAAAGCCTGCGG
60704219 ACCTTAAGTC
Statistics
Matches: 186, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
39 51 0.27
40 135 0.73
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (40 bp):
CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
Found at i:60704121 original size:79 final size:79
Alignment explanation
Indices: 60703967--60704218 Score: 346
Period size: 79 Copynumber: 3.2 Consensus size: 79
60703957 ACCCCGAATT
* * * * *
60703967 CACAAAGCCTACGGGTC-TTAAGTCTGAATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCT
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGC-
60704031 CAGATACAATTCCAG
65 CAGATACAATTCCAG
* * * *
60704046 CACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGC-GGACCTTAAGTC
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAG-C
*
60704110 CGGATACAATTCCAG
65 CAGATACAATTCCAG
* * *
60704125 CACAAAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCC
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAG-C
60704190 CAGATACAATTCCAG
65 CAGATACAATTCCAG
60704205 CACAAAGCCTGCGG
1 CACAAAGCCTGCGG
60704219 ACCTTAAGTC
Statistics
Matches: 151, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 83 0.55
80 68 0.45
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (79 bp):
CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGCC
AGATACAATTCCAG
Found at i:60704181 original size:119 final size:119
Alignment explanation
Indices: 60703967--60704234 Score: 412
Period size: 119 Copynumber: 2.3 Consensus size: 119
60703957 ACCCCGAATT
* ** * * * *
60703967 CACAAAGCCTACGGGTCTTAAGTCTGAATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCTC
1 CACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCC
* *
60704032 AGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAG
66 AGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAG
60704086 CACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCC
1 CACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCC
* * *
60704151 GGATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAG
66 AGATACAATTCCAGCACGA-AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAG
60704205 CACAAAGCCTGCGGACCTTAAGTCCGGATA
1 CACAAAGCCTGCGGACCTTAAGTCCGGATA
60704235 TACATCAAAT
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
118 1 0.01
119 135 0.99
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (119 bp):
CACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCC
AGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAG
Found at i:60712399 original size:7 final size:7
Alignment explanation
Indices: 60712387--60712422 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
60712377 TAATAATTAT
60712387 ATTTAAA
1 ATTTAAA
60712394 ATTTAAA
1 ATTTAAA
*
60712401 CTTTAAA
1 ATTTAAA
60712408 ATTTAAA
1 ATTTAAA
60712415 ATTTAAA
1 ATTTAAA
60712422 A
1 A
60712423 AGCAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTTAAA
Found at i:60714525 original size:14 final size:14
Alignment explanation
Indices: 60714506--60714535 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60714496 AATTTAAATT
60714506 TTAAATTAATTAAA
1 TTAAATTAATTAAA
*
60714520 TTAAATTATTTAAA
1 TTAAATTAATTAAA
60714534 TT
1 TT
60714536 TTGAGTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATTAATTAAA
Found at i:60714610 original size:21 final size:20
Alignment explanation
Indices: 60714586--60714640 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
60714576 AATTTCATAC
60714586 TTAAATAAGTTAATTAATAA
1 TTAAATAAGTTAATTAATAA
*
60714606 TTTAAATTTA-TTAATTAATAA
1 -TTAAA-TAAGTTAATTAATAA
60714627 TT-AATAAGTTAATT
1 TTAAATAAGTTAATT
60714641 TTGTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.07
19 8 0.27
20 2 0.07
21 16 0.53
22 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TTAAATAAGTTAATTAATAA
Found at i:60723187 original size:16 final size:16
Alignment explanation
Indices: 60723163--60723199 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
60723153 TTTTATTTTA
* *
60723163 TTATAAAAATTTATTT
1 TTATTAAAATATATTT
60723179 TTATTAAAATATATTT
1 TTATTAAAATATATTT
60723195 TTATT
1 TTATT
60723200 TTCATAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTAAAATATATTT
Found at i:60727826 original size:30 final size:30
Alignment explanation
Indices: 60727792--60727851 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
60727782 TTTAGCAGAA
*
60727792 AGGTTCTCTTGGGTTCATTTGTTTGTTGAC
1 AGGTTCTCCTGGGTTCATTTGTTTGTTGAC
60727822 AGGTTCTCCTGGGTTCATTTGTTTGTTGAC
1 AGGTTCTCCTGGGTTCATTTGTTTGTTGAC
60727852 TGTGTTGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.10, C:0.15, G:0.27, T:0.48
Consensus pattern (30 bp):
AGGTTCTCCTGGGTTCATTTGTTTGTTGAC
Found at i:60728363 original size:22 final size:22
Alignment explanation
Indices: 60728337--60728421 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
60728327 TTTTCTAAAG
60728337 ATTAAATAGATTTTATTTTATT
1 ATTAAATAGATTTTATTTTATT
60728359 ATTAAATAGATTTTATTTTATT
1 ATTAAATAGATTTTATTTTATT
* * * *
60728381 ATAAAAAATATTTT-GTTT-TT
1 ATTAAATAGATTTTATTTTATT
*
60728401 ATTAAAATATATTTTCATTTT
1 ATT-AAATAGATTTT-ATTTT
60728422 TAGAGTTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
20 4 0.08
21 13 0.25
22 33 0.62
23 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (22 bp):
ATTAAATAGATTTTATTTTATT
Found at i:60737616 original size:20 final size:20
Alignment explanation
Indices: 60737591--60737635 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
60737581 ATAGTTTTTT
*
60737591 AATTTAAAC-CTTGAATCTTG
1 AATTTAAACTC-TGAATCTTA
60737611 AATTTAAACTCTGAATCTTA
1 AATTTAAACTCTGAATCTTA
60737631 AATTT
1 AATTT
60737636 TAAATTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (20 bp):
AATTTAAACTCTGAATCTTA
Found at i:60749603 original size:30 final size:32
Alignment explanation
Indices: 60749549--60749612 Score: 96
Period size: 30 Copynumber: 2.0 Consensus size: 32
60749539 AATATTTATT
60749549 GCCGATATGAGTAATTTCACCTCGATGATTCCA
1 GCCGATATGAGTAA-TTCACCTCGATGATTCCA
*
60749582 GCCGATATTAGTAA-T-ACCTCGATGATTCCA
1 GCCGATATGAGTAATTCACCTCGATGATTCCA
60749612 G
1 G
60749613 GCTTCTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 16 0.53
31 1 0.03
33 13 0.43
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (32 bp):
GCCGATATGAGTAATTCACCTCGATGATTCCA
Found at i:60754116 original size:33 final size:33
Alignment explanation
Indices: 60754079--60754149 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
60754069 TCCCAACCCT
*
60754079 AATTATAGGCATTTAATTCGAGGGTATATTTAA
1 AATTATAGGCATTTAATTAGAGGGTATATTTAA
60754112 AATTATAGGCATTTAATTAGAGGGTATATTTAA
1 AATTATAGGCATTTAATTAGAGGGTATATTTAA
*
60754145 GATTA
1 AATTA
60754150 GTATTTCAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.39
Consensus pattern (33 bp):
AATTATAGGCATTTAATTAGAGGGTATATTTAA
Found at i:60754658 original size:23 final size:23
Alignment explanation
Indices: 60754626--60754669 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
60754616 AATCTATTAC
*
60754626 ATTCACGCATTTTAAATAAATAT
1 ATTCACGCATGTTAAATAAATAT
* *
60754649 ATTCATGCATGTTAATTAAAT
1 ATTCACGCATGTTAAATAAAT
60754670 CACTACTAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTCACGCATGTTAAATAAATAT
Found at i:60756156 original size:20 final size:20
Alignment explanation
Indices: 60756131--60756180 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60756121 TGGCTTAAAA
60756131 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60756151 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60756168 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60756181 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:60756861 original size:48 final size:48
Alignment explanation
Indices: 60756805--60756900 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
60756795 AAGGATTGCT
60756805 AAAAGCATTGTCTGGTAAAGATAAATTACCAAGCACGCTTTCGGAAGA
1 AAAAGCATTGTCTGGTAAAGATAAATTACCAAGCACGCTTTCGGAAGA
60756853 AAAAGCATTGTCTGGTAAAGATAAATTACCAAGCACGCTTTCGGAAGA
1 AAAAGCATTGTCTGGTAAAGATAAATTACCAAGCACGCTTTCGGAAGA
60756901 GCAAAAGGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (48 bp):
AAAAGCATTGTCTGGTAAAGATAAATTACCAAGCACGCTTTCGGAAGA
Found at i:60760843 original size:20 final size:20
Alignment explanation
Indices: 60760818--60760867 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60760808 TGGCTTAAAA
60760818 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60760838 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60760855 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60760868 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:60763410 original size:15 final size:15
Alignment explanation
Indices: 60763378--60763407 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60763368 TTACCTGAAA
60763378 TATAACAAATAGATT
1 TATAACAAATAGATT
60763393 TATAA-AAATAGATT
1 TATAACAAATAGATT
60763407 T
1 T
60763408 TATTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
TATAACAAATAGATT
Found at i:60764195 original size:26 final size:25
Alignment explanation
Indices: 60764144--60764201 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
60764134 ACACACTCTA
60764144 TATGATAAAAGTATTCTACGGGTTTT
1 TATGAT-AAAGTATTCTACGGGTTTT
60764170 TATGATAAAGTATTCTACGGGTTTT
1 TATGATAAAGTATTCTACGGGTTTT
60764195 TATGATA
1 TATGATA
60764202 TAGTGCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (25 bp):
TATGATAAAGTATTCTACGGGTTTT
Found at i:60778687 original size:7 final size:7
Alignment explanation
Indices: 60778671--60778700 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
60778661 TAAATATATA
60778671 TTTT-AT
1 TTTTAAT
60778677 TTTTAAT
1 TTTTAAT
60778684 TTTTAAT
1 TTTTAAT
60778691 TTTTAAT
1 TTTTAAT
60778698 TTT
1 TTT
60778701 AAAATACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTAAT
Found at i:60779458 original size:43 final size:43
Alignment explanation
Indices: 60779410--60779496 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
60779400 TTTTTAAGTA
60779410 AGTTATTTGGACGGATGAGAAAATTAGGTCAAAATATGCTACG
1 AGTTATTTGGACGGATGAGAAAATTAGGTCAAAATATGCTACG
60779453 AGTTATTTGGACGGATGAGAAAATTAGGTCAAAATATGCTACG
1 AGTTATTTGGACGGATGAGAAAATTAGGTCAAAATATGCTACG
60779496 A
1 A
60779497 AGACACCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (43 bp):
AGTTATTTGGACGGATGAGAAAATTAGGTCAAAATATGCTACG
Found at i:60784212 original size:32 final size:32
Alignment explanation
Indices: 60784172--60784239 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
60784162 CCGGCAAAGC
*
60784172 AATGAATATAAAGCAAAGGTTCCACCTGCAGG
1 AATGAATATAAAGCAAAAGTTCCACCTGCAGG
60784204 AATGAATATAAAGCAAAAGTTCCACCTGCAGG
1 AATGAATATAAAGCAAAAGTTCCACCTGCAGG
60784236 AATG
1 AATG
60784240 CGGCCTCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (32 bp):
AATGAATATAAAGCAAAAGTTCCACCTGCAGG
Found at i:60791838 original size:42 final size:43
Alignment explanation
Indices: 60791737--60791857 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 43
60791727 AGCTCGAATA
** * * *
60791737 ATGCCAACATCCCAGAC-GTGGTCTTACATGCAATCAAATAATG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATAACG
* * *
60791780 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATAT-ACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATAACG
*
60791822 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCA
60791858 CATATTGGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 35 0.52
43 31 0.46
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATAACG
Found at i:60794863 original size:24 final size:24
Alignment explanation
Indices: 60794835--60794886 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
60794825 TTAGTAAGTC
* *
60794835 AAATAGACTATGCTAATAAATGCT
1 AAATAGACTATACTAATAAATACT
* *
60794859 AAATATATTATACTAATAAATACT
1 AAATAGACTATACTAATAAATACT
60794883 AAAT
1 AAAT
60794887 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAGACTATACTAATAAATACT
Found at i:60796421 original size:35 final size:35
Alignment explanation
Indices: 60796375--60796516 Score: 275
Period size: 35 Copynumber: 4.1 Consensus size: 35
60796365 TTGATAAACC
60796375 TTCATTTTTATACATTATTCTTGATCAATATAAGA
1 TTCATTTTTATACATTATTCTTGATCAATATAAGA
60796410 TTCATTTTTATACATTATTCTTGATCAATATAAGA
1 TTCATTTTTATACATTATTCTTGATCAATATAAGA
60796445 TTCATTTTTATACATTATTCTTGATCAATATAAGA
1 TTCATTTTTATACATTATTCTTGATCAATATAAGA
*
60796480 TTCATTTTTATACATTATTCTTGATCTATATAAGA
1 TTCATTTTTATACATTATTCTTGATCAATATAAGA
60796515 TT
1 TT
60796517 GTGAGTATTT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 106 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (35 bp):
TTCATTTTTATACATTATTCTTGATCAATATAAGA
Found at i:60796851 original size:21 final size:22
Alignment explanation
Indices: 60796821--60796862 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
60796811 GTCATCAATT
*
60796821 AATTAATTTTAAAAATTAAAAG
1 AATTAATTTTAAAAAATAAAAG
60796843 AATT-ATTTTAAAAAATAAAA
1 AATTAATTTTAAAAAATAAAA
60796863 AATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTAATTTTAAAAAATAAAAG
Found at i:60796856 original size:22 final size:22
Alignment explanation
Indices: 60796821--60796863 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60796811 GTCATCAATT
*
60796821 AATTAATTTTAAAAATTAAAAG
1 AATTAATTTTAAAAATAAAAAG
60796843 AATT-ATTTTAAAAAATAAAAA
1 AATTAATTTT-AAAAATAAAAA
60796864 ATATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AATTAATTTTAAAAATAAAAAG
Done.