Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 94 of 129
Found at i:16832792 original size:17 final size:17
Alignment explanation
Indices: 16832770--16832803 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16832760 ACATTTCATG
16832770 TTTTGTT-TATTTGCTTA
1 TTTTGTTGT-TTTGCTTA
16832787 TTTTGTTGTTTTGCTTA
1 TTTTGTTGTTTTGCTTA
16832804 CATTTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.71
Consensus pattern (17 bp):
TTTTGTTGTTTTGCTTA
Found at i:16833691 original size:14 final size:14
Alignment explanation
Indices: 16833674--16833709 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
16833664 AAAAGAATGA
16833674 AAAAGAAAGAAAAT
1 AAAAGAAAGAAAAT
*
16833688 AAAAGAATGAAAAT
1 AAAAGAAAGAAAAT
16833702 AAAAGAAA
1 AAAAGAAA
16833710 CAAGTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (14 bp):
AAAAGAAAGAAAAT
Found at i:16833691 original size:24 final size:24
Alignment explanation
Indices: 16833664--16833709 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
16833654 TGTAGCTTGG
16833664 AAAAGAATGAAAA-AGAAAGAAAAT
1 AAAAGAATGAAAATA-AAAGAAAAT
16833688 AAAAGAATGAAAATAAAAGAAA
1 AAAAGAATGAAAATAAAAGAAA
16833710 CAAGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (24 bp):
AAAAGAATGAAAATAAAAGAAAAT
Found at i:16840472 original size:21 final size:20
Alignment explanation
Indices: 16840427--16840475 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
16840417 AAAAAAAGTC
*
16840427 AAAAAAACAAAAATGGCTAT
1 AAAAAAACAAAAATGGCAAT
16840447 AAAAAAACAAAAATGGCAAAGT
1 AAAAAAACAAAAATGGC-AA-T
16840469 AAAAAAA
1 AAAAAAA
16840476 AGATGCCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 17 0.65
21 1 0.04
22 8 0.31
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAAACAAAAATGGCAAT
Found at i:16843052 original size:24 final size:25
Alignment explanation
Indices: 16843012--16843088 Score: 147
Period size: 25 Copynumber: 3.1 Consensus size: 25
16843002 ATATGCAAGG
16843012 TGCTATTAAAATTCATACCATTATA
1 TGCTATTAAAATTCATACCATTATA
16843037 TGCTATT-AAATTCATACCATTATA
1 TGCTATTAAAATTCATACCATTATA
16843061 TGCTATTAAAATTCATACCATTATA
1 TGCTATTAAAATTCATACCATTATA
16843086 TGC
1 TGC
16843089 AAGGTGCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
24 24 0.47
25 27 0.53
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (25 bp):
TGCTATTAAAATTCATACCATTATA
Found at i:16848837 original size:16 final size:16
Alignment explanation
Indices: 16848813--16848847 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16848803 CTTGATGACA
* *
16848813 TATCTTTAAGAATTGG
1 TATCCTTAACAATTGG
16848829 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
16848845 TAT
1 TAT
16848848 GAGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:16857953 original size:18 final size:19
Alignment explanation
Indices: 16857916--16857953 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16857906 GTTGGATATA
*
16857916 ACATGAGGTATATGAAGAT
1 ACATGAAGTATATGAAGAT
*
16857935 ACATGAAGTA-ATTAAGAT
1 ACATGAAGTATATGAAGAT
16857953 A
1 A
16857954 AGATTTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (19 bp):
ACATGAAGTATATGAAGAT
Found at i:16862441 original size:31 final size:29
Alignment explanation
Indices: 16862381--16862443 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
16862371 GGATGCAACT
16862381 AAAACTAAAAAATACCTAAATGAAACTTG
1 AAAACTAAAAAATACCTAAATGAAACTTG
*
16862410 AAAACTAAAAACATGACTTCAAAT-AAACTTG
1 AAAACTAAAAA-AT-ACCT-AAATGAAACTTG
16862441 AAA
1 AAA
16862444 GCAAACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 2 0.07
31 13 0.43
32 4 0.13
ACGTcount: A:0.59, C:0.14, G:0.06, T:0.21
Consensus pattern (29 bp):
AAAACTAAAAAATACCTAAATGAAACTTG
Found at i:16864958 original size:19 final size:18
Alignment explanation
Indices: 16864934--16864974 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
16864924 TAAGTCGAAT
16864934 CCTAAACCAAACCCTAAAC
1 CCTAAACCAAACCCT-AAC
**
16864953 CCTAAATGAAACCCTAAC
1 CCTAAACCAAACCCTAAC
16864971 CCTA
1 CCTA
16864975 GTCAAGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.15
Consensus pattern (18 bp):
CCTAAACCAAACCCTAAC
Found at i:16865062 original size:12 final size:13
Alignment explanation
Indices: 16865037--16865074 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
16865027 TAGTGTGGAT
16865037 CCCTAAACTAAAA
1 CCCTAAACTAAAA
*
16865050 CCTTAAA-TAAAA
1 CCCTAAACTAAAA
*
16865062 CCCTAAACCAAAA
1 CCCTAAACTAAAA
16865075 TCCCAAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (13 bp):
CCCTAAACTAAAA
Found at i:16865119 original size:7 final size:7
Alignment explanation
Indices: 16865107--16865148 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
16865097 CAAAATTTAC
16865107 ACCCTAA
1 ACCCTAA
16865114 ACCCTAA
1 ACCCTAA
*
16865121 AGCC-AA
1 ACCCTAA
16865127 ACCCT--
1 ACCCTAA
16865132 ACCCTAA
1 ACCCTAA
16865139 ACCCTAA
1 ACCCTAA
16865146 ACC
1 ACC
16865149 TACCCCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.17
6 5 0.17
7 20 0.67
ACGTcount: A:0.40, C:0.45, G:0.02, T:0.12
Consensus pattern (7 bp):
ACCCTAA
Found at i:16865137 original size:18 final size:18
Alignment explanation
Indices: 16865114--16865159 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
16865104 TACACCCTAA
*
16865114 ACCCTAAAGCC-AAACCCT
1 ACCCTAAACCCTAAA-CCT
16865132 ACCCTAAACCCTAAACCT
1 ACCCTAAACCCTAAACCT
*
16865150 ACCCCAAACC
1 ACCCTAAACC
16865160 TTTAAGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.39, C:0.48, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCTAAACCCTAAACCT
Found at i:16868155 original size:14 final size:14
Alignment explanation
Indices: 16868136--16868163 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16868126 CAAGAAAGGA
16868136 AAGCTCCACATGCC
1 AAGCTCCACATGCC
16868150 AAGCTCCACATGCC
1 AAGCTCCACATGCC
16868164 TTTGTTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (14 bp):
AAGCTCCACATGCC
Found at i:16868865 original size:12 final size:11
Alignment explanation
Indices: 16868850--16868934 Score: 59
Period size: 12 Copynumber: 7.5 Consensus size: 11
16868840 ACCCTTAAAT
16868850 CCTAAACCAAAC
1 CCTAAACC-AAC
16868862 CCTAAACCTAAC
1 CCTAAACC-AAC
*
16868874 ACTAAACCAAC
1 CCTAAACCAAC
*
16868885 TCTAAATGCCAAC
1 CCTAAA--CCAAC
* *
16868898 CCTAAACAAAA
1 CCTAAACCAAC
*
16868909 CCT-TA--AAC
1 CCTAAACCAAC
16868917 CCTAAACCAAAC
1 CCTAAACC-AAC
16868929 CCTAAA
1 CCTAAA
16868935 AGCTAAATCC
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 1 0.02
11 14 0.24
12 27 0.47
13 10 0.17
ACGTcount: A:0.48, C:0.36, G:0.01, T:0.14
Consensus pattern (11 bp):
CCTAAACCAAC
Found at i:16868878 original size:24 final size:23
Alignment explanation
Indices: 16868851--16868934 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
16868841 CCCTTAAATC
16868851 CTAAACCAAACCCTAAACCTAACA
1 CTAAACCAAACCCTAAACC-AACA
* *
16868875 CTAAACC-AACTCTAAATGCCAACC
1 CTAAACCAAACCCTAAA--CCAACA
* *
16868899 CTAAACAAAACCTTAAA-C--C-
1 CTAAACCAAACCCTAAACCAACA
16868918 CTAAACCAAACCCTAAA
1 CTAAACCAAACCCTAAA
16868935 AGCTAAATCC
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 15 0.30
20 1 0.02
22 1 0.02
23 8 0.16
24 16 0.32
25 9 0.18
ACGTcount: A:0.49, C:0.36, G:0.01, T:0.14
Consensus pattern (23 bp):
CTAAACCAAACCCTAAACCAACA
Found at i:16868919 original size:19 final size:19
Alignment explanation
Indices: 16868895--16868934 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16868885 TCTAAATGCC
*
16868895 AACCCTAAACAAAACCTTA
1 AACCCTAAACAAAACCCTA
*
16868914 AACCCTAAACCAAACCCTA
1 AACCCTAAACAAAACCCTA
16868933 AA
1 AA
16868935 AGCTAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (19 bp):
AACCCTAAACAAAACCCTA
Found at i:16868940 original size:19 final size:19
Alignment explanation
Indices: 16868898--16868953 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
16868888 AAATGCCAAC
* * *
16868898 CCTAAACAAAACCTTAAAC
1 CCTAAACCAAACCCTAAAA
16868917 CCTAAACCAAACCCTAAAA
1 CCTAAACCAAACCCTAAAA
* *
16868936 GCTAAATCCAAACTCTAA
1 CCTAAA-CCAAACCCTAA
16868954 TCTTTAACGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (19 bp):
CCTAAACCAAACCCTAAAA
Found at i:16871007 original size:23 final size:23
Alignment explanation
Indices: 16870981--16871057 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
16870971 ACGTCAAGTA
16870981 ATAA-AATAAAATATCATGCAAAT
1 ATAATAATAAAA-ATCATGCAAAT
*
16871004 ATAATAATATAAATCATGC-AA-
1 ATAATAATAAAAATCATGCAAAT
** * *
16871025 GCAATAATATAAAT-ATGCAATT
1 ATAATAATAAAAATCATGCAAAT
16871047 ATAAATAATAA
1 AT-AATAATAA
16871058 TTAATAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.09
21 13 0.30
22 2 0.05
23 18 0.42
24 6 0.14
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (23 bp):
ATAATAATAAAAATCATGCAAAT
Found at i:16871044 original size:20 final size:21
Alignment explanation
Indices: 16871006--16871044 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16870996 ATGCAAATAT
16871006 AATAATATAAATCATGCAAGC
1 AATAATATAAATCATGCAAGC
16871027 AATAATATAAAT-ATGCAA
1 AATAATATAAATCATGCAA
16871045 TTATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (21 bp):
AATAATATAAATCATGCAAGC
Found at i:16872052 original size:17 final size:17
Alignment explanation
Indices: 16872032--16872069 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16872022 AATTGGTTTG
16872032 ATTTTATAATTAAACCA
1 ATTTTATAATTAAACCA
* *
16872049 ATTTTGTAGTTAAACCA
1 ATTTTATAATTAAACCA
16872066 ATTT
1 ATTT
16872070 AAATCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTTTATAATTAAACCA
Found at i:16875702 original size:10 final size:10
Alignment explanation
Indices: 16875688--16875731 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
16875678 CTTTAAAAAA
16875688 CTTTCTTTTC
1 CTTTCTTTTC
*
16875698 TTTTCTTTTC
1 CTTTCTTTTC
16875708 CTTTCTTTTC
1 CTTTCTTTTC
*
16875718 CTTTCCTTTC
1 CTTTCTTTTC
16875728 CTTT
1 CTTT
16875732 ATTTATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
CTTTCTTTTC
Found at i:16875707 original size:15 final size:15
Alignment explanation
Indices: 16875688--16875727 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16875678 CTTTAAAAAA
*
16875688 CTTTCTTTTCTTTTC
1 CTTTCCTTTCTTTTC
*
16875703 TTTTCCTTTCTTTTC
1 CTTTCCTTTCTTTTC
16875718 CTTTCCTTTC
1 CTTTCCTTTC
16875728 CTTTATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
CTTTCCTTTCTTTTC
Found at i:16875728 original size:5 final size:5
Alignment explanation
Indices: 16875688--16875731 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
16875678 CTTTAAAAAA
* * * *
16875688 CTTTC TTTTC TTTTC TTTTC CTTTC TTTTC CTTTC CTTTC CTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
16875732 ATTTATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (5 bp):
CTTTC
Found at i:16877289 original size:25 final size:25
Alignment explanation
Indices: 16877261--16877317 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
16877251 AAACGTTCGT
*
16877261 AAACTTTTA-AAAATCCTAAAATCGA
1 AAACTTTGATAAAATCCTAAAAT-GA
* * *
16877286 AAACTTAGATGAAATCCTAAAATTA
1 AAACTTTGATAAAATCCTAAAATGA
16877311 AAACTTT
1 AAACTTT
16877318 AAATAAAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (25 bp):
AAACTTTGATAAAATCCTAAAATGA
Found at i:16877394 original size:12 final size:13
Alignment explanation
Indices: 16877334--16877413 Score: 54
Period size: 14 Copynumber: 6.0 Consensus size: 13
16877324 AACCTTAAGG
*
16877334 TCAAAACCCTAAGG
1 TCAAAACCCTAA-A
* *
16877348 TCTAAATCCTAAA
1 TCAAAACCCTAAA
** *
16877361 TTGAAACCCCAAA
1 TCAAAACCCTAAA
*
16877374 GCCAAAACCCTAAA
1 -TCAAAACCCTAAA
16877388 T-AAAACCCTAAAA
1 TCAAAACCCT-AAA
*
16877401 TCAAAACCATAAA
1 TCAAAACCCTAAA
16877414 GGAAATCCAA
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
12 8 0.16
13 16 0.32
14 26 0.52
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (13 bp):
TCAAAACCCTAAA
Found at i:16877661 original size:15 final size:15
Alignment explanation
Indices: 16877643--16877680 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16877633 CGGTTCTATT
16877643 AAAATAACAAAT-ATA
1 AAAATAA-AAATAATA
16877658 AAAATATAAAATAATA
1 AAAATA-AAAATAATA
16877674 AAAATAA
1 AAAATAA
16877681 TAAAACGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:16877676 original size:16 final size:16
Alignment explanation
Indices: 16877651--16877685 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16877641 TTAAAATAAC
16877651 AAATATAAAAAT-ATA
1 AAATATAAAAATAATA
16877666 AAATAATAAAAATAATA
1 AAAT-ATAAAAATAATA
16877683 AAA
1 AAA
16877686 CGTGATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATATAAAAATAATA
Found at i:16877677 original size:9 final size:9
Alignment explanation
Indices: 16877645--16877685 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
16877635 GTTCTATTAA
16877645 AATAACAAAT
1 AATAA-AAAT
16877655 -ATAAAAAT
1 AATAAAAAT
16877663 -AT-AAAAT
1 AATAAAAAT
16877670 AATAAAAAT
1 AATAAAAAT
16877679 AATAAAA
1 AATAAAA
16877686 CGTGATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 8 0.28
9 16 0.55
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (9 bp):
AATAAAAAT
Found at i:16878419 original size:42 final size:42
Alignment explanation
Indices: 16878355--16878464 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
16878345 TGAACTACTA
* * *
16878355 AACTTGTCCAAAGTAATCTTCCATCAAGCTTTTCCAAGGATT
1 AACTAGTCCAAAGTAATATTCCATCAAGCTTCTCCAAGGATT
* * * *
16878397 AACTAGTCCAAATTAATATTCCATTATGCTTCTCCATGGATT
1 AACTAGTCCAAAGTAATATTCCATCAAGCTTCTCCAAGGATT
* * *
16878439 AAC-ATGTCTAAAGTAATCTTTCATCA
1 AACTA-GTCCAAAGTAATATTCCATCA
16878465 TGTTTTTCCT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (42 bp):
AACTAGTCCAAAGTAATATTCCATCAAGCTTCTCCAAGGATT
Found at i:16878723 original size:85 final size:83
Alignment explanation
Indices: 16878560--16878786 Score: 230
Period size: 85 Copynumber: 2.7 Consensus size: 83
16878550 AGCTAGTGTA
* * *
16878560 AAGATCTTTCATT-TGCTTGGAAATCAGGTTTTCATCTCCACCTTAAATTTTTTGTACCATTATG
1 AAGATC-TTCATTGTGCTTGGAAATCAAGTTTTCATCTCCAACTTGAATTTTTTG-A-CATTATG
* *
16878624 AAATTCGTTGACATAAGTCTC
63 AAATTCGTTCACATAAATCTC
*
16878645 AAGATCTTCATTGTGCTTGGAAATCAAGTTTTCATCTACAACTTGAATTTTTTG-CATTACTGCA
1 AAGATCTTCATTGTGCTTGGAAATCAAGTTTTCATCTCCAACTTGAATTTTTTGACATTA-TG-A
*
16878709 AGACTT-GTTCACATAAATCTT
64 A-A-TTCGTTCACATAAATCTC
* * * * * *
16878730 AGGATTTTTATTGTGCTT-GAATATCAAATTCTCATCTCCAACTTGAATTCTTT-ACAT
1 AAGATCTTCATTGTGCTTGGAA-ATCAAGTTTTCATCTCCAACTTGAATTTTTTGACAT
16878787 ATTTGTAAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
82 5 0.04
83 2 0.02
84 11 0.09
85 101 0.83
86 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.41
Consensus pattern (83 bp):
AAGATCTTCATTGTGCTTGGAAATCAAGTTTTCATCTCCAACTTGAATTTTTTGACATTATGAAA
TTCGTTCACATAAATCTC
Found at i:16879294 original size:31 final size:30
Alignment explanation
Indices: 16879259--16879369 Score: 116
Period size: 31 Copynumber: 3.6 Consensus size: 30
16879249 GCTCAACACT
*
16879259 TTGAAACAAAGCTTCCTTTGTCACTAGCACC
1 TTGAAA-AAAGCTTCCTTTGTCATTAGCACC
* *
16879290 TTGAAATAAAGCTTCATTTGTCATTAACACC
1 TTGAAA-AAAGCTTCCTTTGTCATTAGCACC
* *
16879321 TTGGAAAAAATCTTCCTTTGACATTAGCA-C
1 TT-GAAAAAAGCTTCCTTTGTCATTAGCACC
* *
16879351 TTAGAATAAATCTTCCTTT
1 TT-GAAAAAAGCTTCCTTT
16879370 AAGCAACACA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 18 0.26
31 47 0.68
32 4 0.06
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (30 bp):
TTGAAAAAAGCTTCCTTTGTCATTAGCACC
Found at i:16883642 original size:55 final size:54
Alignment explanation
Indices: 16883472--16883642 Score: 173
Period size: 55 Copynumber: 3.1 Consensus size: 54
16883462 CAGTTTTCTA
* * ** * * *
16883472 GACTTGTGGTTCAATTCCAGTCACTCGATCTTAGCTCAATCCAGATCATTTT-TT
1 GACTTGTGGTTCAATCCCGGTTGCTCGATCTTGGCT-TATCCAGATCATTTTCCT
* * * *
16883526 AGACTTGTGATTCAATCCCGATTGCTTGATCTTGGCTTAGTCCAGATCATTTTCCA
1 -GACTTGTGGTTCAATCCCGGTTGCTCGATCTTGGCTTA-TCCAGATCATTTTCCT
* * *
16883582 AACTTGTGGTTCAATCCCGGTTGCTCGATCATGGCTTGATTCAGATCATTTTCCT
1 GACTTGTGGTTCAATCCCGGTTGCTCGATCTTGGCTT-ATCCAGATCATTTTCCT
16883637 GACTTG
1 GACTTG
16883643 CAACTCAATC
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
54 1 0.01
55 92 0.98
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
GACTTGTGGTTCAATCCCGGTTGCTCGATCTTGGCTTATCCAGATCATTTTCCT
Found at i:16883828 original size:3 final size:3
Alignment explanation
Indices: 16883809--16883960 Score: 60
Period size: 3 Copynumber: 53.3 Consensus size: 3
16883799 CGATTTTTAC
* * * * *
16883809 TAT TTT TAT TAT T-T TAT TAT TAC TAG TAT TA- TAT TAT AAT ATAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
16883853 TA- TAG TA- TAT TAT TA- TAT TA- TAT TA- TAT TAT TGT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
16883894 TAGT CTAT ATAT TAT TA- TAT TA- TAT TA- TATT TAT TAT TA- TAA TAT
1 TA-T -TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * *
16883939 AAT TAT TTT TTT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
16883961 TTCTTTCCTA
Statistics
Matches: 114, Mismatches: 18, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
2 26 0.23
3 79 0.69
4 7 0.06
5 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:16883843 original size:5 final size:5
Alignment explanation
Indices: 16883835--16883930 Score: 92
Period size: 5 Copynumber: 19.2 Consensus size: 5
16883825 TTATTACTAG
* * *
16883835 TATTA TATTA TAATA TAGTA TAGTA TA-T- TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
16883883 TTGTTA TATTA TAGTCTA TA-TA TTATTA TATTA TATTA TATT- TATTA
1 -TATTA TATTA TA-T-TA TATTA -TATTA TATTA TATTA TATTA TATTA
16883930 T
1 T
16883931 TATAATATAA
Statistics
Matches: 79, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
3 2 0.03
4 8 0.10
5 58 0.73
6 7 0.09
7 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:16883944 original size:33 final size:33
Alignment explanation
Indices: 16883815--16883944 Score: 99
Period size: 33 Copynumber: 3.9 Consensus size: 33
16883805 TTACTATTTT
* *
16883815 TATTAT-TTTATTATTACTAGTATTATATTATAATA
1 TATTATATTTATTATTA-TAATA-TA-ATTATATTA
* * *
16883850 TAGTATAGTATATTATTATATTAT-ATTATATTA
1 TATTATA-TTTATTATTATAATATAATTATATTA
* *
16883883 TTGTTATA-TTA-TAGTCTAT-ATATTATTATATTA
1 -TATTATATTTATTA-T-TATAATATAATTATATTA
16883916 TATTATATTTATTATTATAATATAATTAT
1 TATTATATTTATTATTATAATATAATTAT
16883945 TTTTTTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.03
32 15 0.20
33 33 0.43
34 7 0.09
35 6 0.08
36 4 0.05
37 9 0.12
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (33 bp):
TATTATATTTATTATTATAATATAATTATATTA
Found at i:16884411 original size:19 final size:19
Alignment explanation
Indices: 16884397--16884446 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
16884387 TCTGAAAAGA
16884397 TCTGGAAATTTTGAAAAAT
1 TCTGGAAATTTTGAAAAAT
* * * *
16884416 TTTGGAAATTTTTAGAATT
1 TCTGGAAATTTTGAAAAAT
*
16884435 TCTAGAAATTTT
1 TCTGGAAATTTT
16884447 CTAAAACATC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (19 bp):
TCTGGAAATTTTGAAAAAT
Found at i:16884790 original size:6 final size:6
Alignment explanation
Indices: 16884781--16884859 Score: 51
Period size: 6 Copynumber: 13.2 Consensus size: 6
16884771 CTTTTTTTCA
* *
16884781 TTTATT TTTATT TTT-TCA TTTATT TTTA-- TTTATT TTATATT TTGAGTT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTATT TT-TATT TTTA-TT
*
16884829 TTCA-T TTTATT TTTAGTT TTT-TAT TTTATT T
1 TTTATT TTTATT TTTA-TT TTTAT-T TTTATT T
16884860 ATTTTACTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
4 4 0.07
5 6 0.10
6 30 0.52
7 18 0.31
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:16884794 original size:18 final size:17
Alignment explanation
Indices: 16884773--16884892 Score: 95
Period size: 18 Copynumber: 7.0 Consensus size: 17
16884763 GCAGTTTTCT
16884773 TTTTTTCATTTATTTTTA
1 TTTTTT-ATTTATTTTTA
16884791 TTTTTTCATTTATTTTTA
1 TTTTTT-ATTTATTTTTA
* *
16884809 TTTATTT-TATATTTTGA
1 TTT-TTTATTTATTTTTA
* *
16884826 GTTTTCATTTTATTTTTA
1 TTTTTTA-TTTATTTTTA
*
16884844 GTTTTTTATTT-TATTTA
1 -TTTTTTATTTATTTTTA
* *
16884861 --TTTTACTTACTTTTA
1 TTTTTTATTTATTTTTA
*
16884876 TTATTTATTTATTTTTA
1 TTTTTTATTTATTTTTA
16884893 CTGAGCAATT
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
14 7 0.09
15 4 0.05
16 2 0.03
17 27 0.34
18 32 0.40
19 8 0.10
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTATTTTTA
Found at i:16884822 original size:35 final size:35
Alignment explanation
Indices: 16884783--16884890 Score: 103
Period size: 35 Copynumber: 3.0 Consensus size: 35
16884773 TTTTTTCATT
16884783 TATTTTTATTTTTTCATTTATTTTTATTTATTTTA
1 TATTTTTATTTTTTCATTTATTTTTATTTATTTTA
* * *
16884818 TATTTTGA-GTTTTCATTTTATTTTTAGTT-TTTTA
1 TATTTTTATTTTTTCA-TTTATTTTTATTTATTTTA
* *
16884852 TTTTATTTATTTTACTTACTTTTATTATTTATTTATTTT
1 TATT-TTTATTTT--TT-CATTTATT-TTTATTTATTTT
16884891 TACTGAGCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
34 14 0.25
35 22 0.39
36 2 0.04
38 8 0.14
39 7 0.12
40 4 0.07
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (35 bp):
TATTTTTATTTTTTCATTTATTTTTATTTATTTTA
Found at i:16885885 original size:63 final size:61
Alignment explanation
Indices: 16885698--16885886 Score: 211
Period size: 60 Copynumber: 3.1 Consensus size: 61
16885688 CATGATTCAA
* * * * *
16885698 TTTTTTTTGTGCCTTAACATTTGCCTAAGTCATCCTTTGTAGGATTTTCAACTTAGCAGGCT
1 TTTTTTTTGTGCCCTAACATTTGCCTAAGTCGTCATTTGTAGGATTTTCAACTTATC-GACT
* * * * *
16885760 TTTTTTTTGT--CCTAACATTTGCCTAAGTTGTCTTTTGTAGCATTTCCAACTTAATGGACT
1 TTTTTTTTGTGCCCTAACATTTGCCTAAGTCGTCATTTGTAGGATTTTCAACTT-ATCGACT
* * *
16885820 TTTTTTTTGGTGCCCTAACTTTTACCTAAATCGTCATTTGTAGGATTTTCAACTTATCGATCT
1 TTTTTTTT-GTGCCCTAACATTTGCCTAAGTCGTCATTTGTAGGATTTTCAACTTATCGA-CT
16885883 TTTT
1 TTTT
16885887 ATTTAAAGTA
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
60 47 0.45
61 3 0.03
62 14 0.13
63 41 0.39
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (61 bp):
TTTTTTTTGTGCCCTAACATTTGCCTAAGTCGTCATTTGTAGGATTTTCAACTTATCGACT
Found at i:16885982 original size:32 final size:32
Alignment explanation
Indices: 16885934--16885994 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
16885924 TTTTTTATGT
16885934 AGTTTAAGCTTATGCTTAGGAGCAACATTAGC
1 AGTTTAAGCTTATGCTTAGGAGCAACATTAGC
* * *
16885966 AGTTTAGGCTTTTGCTTATGAGCAACATT
1 AGTTTAAGCTTATGCTTAGGAGCAACATT
16885995 TTTTTTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (32 bp):
AGTTTAAGCTTATGCTTAGGAGCAACATTAGC
Found at i:16892331 original size:75 final size:75
Alignment explanation
Indices: 16892208--16892359 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
16892198 GGTTCCATAA
16892208 AGTAAACAATATGTTAGCGTGGGTTTGCCATCAAATTGTTGAAATTTTAGAGGCTAATAATTCTC
1 AGTAAACAATATGTTAGCGTGGGTTTGCCATCAAATTGTTGAAATTTTAGAGGCTAATAATTCTC
16892273 AAGCATCTTT
66 AAGCATCTTT
16892283 AGTAAACAATATGTTAGCGTGGGTTTGCCATCAAATTGTTGAAATTTTAGAGGCTAATAATTCTC
1 AGTAAACAATATGTTAGCGTGGGTTTGCCATCAAATTGTTGAAATTTTAGAGGCTAATAATTCTC
16892348 AAGCATCTTT
66 AAGCATCTTT
16892358 AG
1 AG
16892360 ATGATCAATC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (75 bp):
AGTAAACAATATGTTAGCGTGGGTTTGCCATCAAATTGTTGAAATTTTAGAGGCTAATAATTCTC
AAGCATCTTT
Found at i:16894010 original size:145 final size:149
Alignment explanation
Indices: 16893834--16894143 Score: 443
Period size: 145 Copynumber: 2.1 Consensus size: 149
16893824 AAAACTCATT
* * * * * *
16893834 AAATCTCTCAATAGTTTGGTAATATTTAACTTGATATGCAATCCTCTAATAGTTTGGTAGGAA-A
1 AAATCACTCAATAGTTTGGAAAGATTTAACTTGATATCCAATCCCCCAATAGTTTGGTA-GAATA
* * * * *
16893898 AAAAATTATTTTTTCCA-TTTTTT-AATTTTATTTATGAAAATTTCTAATAGTTTGGTGGA-TCT
65 AAAAATTATTCTTTCCATTTTTTTGAATTTTATTTATGAAAATTCCTAATAGTTTAGTAGATTCC
16893960 ATAAAATTTAAATTTATGAA
130 ATAAAATTTAAATTTATGAA
16893980 AAATCACT-AATAGTTTGGAAAGATTTAACTTGATATCCAATCCCCCAATAGTTTGGTAGAATAA
1 AAATCACTCAATAGTTTGGAAAGATTTAACTTGATATCCAATCCCCCAATAGTTTGGTAGAATAA
16894044 AAAATTATTCTTTCCATTTTTTTGAATTTTATTTATGAAAATTCCTAATAGTTTAGTAGATTCCA
66 AAAATTATTCTTTCCATTTTTTTGAATTTTATTTATGAAAATTCCTAATAGTTTAGTAGATTCCA
*
16894109 TAAAATTTAAATTTATGAG
131 TAAAATTTAAATTTATGAA
* *
16894128 AATTCTC-CAATAGTTT
1 AAATCACTCAATAGTTT
16894144 AGTAGGATTC
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
144 3 0.02
145 62 0.43
146 13 0.09
147 33 0.23
148 34 0.23
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (149 bp):
AAATCACTCAATAGTTTGGAAAGATTTAACTTGATATCCAATCCCCCAATAGTTTGGTAGAATAA
AAAATTATTCTTTCCATTTTTTTGAATTTTATTTATGAAAATTCCTAATAGTTTAGTAGATTCCA
TAAAATTTAAATTTATGAA
Found at i:16894161 original size:45 final size:44
Alignment explanation
Indices: 16894066--16894162 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
16894056 TCCATTTTTT
* *
16894066 TGAATTT-TATTTATGAAAATTCCTAATAGTTTAGTAGATTCCA
1 TGAATTTAAATTTATGAAAATTCCCAATAGTTTAGTAGATTCCA
* *
16894109 TAAAATTTAAATTTATGAGAATTCTCCAATAGTTTAGTAGGATT-CA
1 T-GAATTTAAATTTATGAAAATTC-CCAATAGTTTAGTA-GATTCCA
16894155 TGAATTTA
1 TGAATTTA
16894163 TTCGAAAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 5 0.11
45 19 0.42
46 16 0.36
47 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (44 bp):
TGAATTTAAATTTATGAAAATTCCCAATAGTTTAGTAGATTCCA
Found at i:16894302 original size:10 final size:10
Alignment explanation
Indices: 16894284--16894327 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
16894274 AAAAGTCAGT
16894284 AAAAT-AATA
1 AAAATAAATA
16894293 AAAATAAATA
1 AAAATAAATA
16894303 AAAAT--AT-
1 AAAATAAATA
16894310 AAAATAAATA
1 AAAATAAATA
16894320 AAAATAAA
1 AAAATAAA
16894328 AATGGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 7 0.23
10 17 0.55
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATA
Found at i:16894315 original size:17 final size:16
Alignment explanation
Indices: 16894261--16894330 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
16894251 ATTTCTCAGT
16894261 ATAAATAAATAATAAAA
1 ATAAATAAA-AATAAAA
* * *
16894278 GTCAGTAAAATAATAAAA
1 ATAAAT-AAA-AATAAAA
16894296 ATAAATAAAAATATAAA
1 ATAAATAAAAATA-AAA
16894313 ATAAATAAAAATAAAA
1 ATAAATAAAAATAAAA
16894329 AT
1 AT
16894331 GGATAAAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.20
17 22 0.49
18 14 0.31
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAATAAAAATAAAA
Found at i:16895042 original size:23 final size:22
Alignment explanation
Indices: 16895016--16895069 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
16895006 TTATCCAGAT
16895016 TGAATTTGAAAATCCTCTGATTA
1 TGAATTTGAAAA-CCTCTGATTA
*
16895039 TGAA-TT-AAAACCTTTGATTA
1 TGAATTTGAAAACCTCTGATTA
*
16895059 TGTATATTGAA
1 TGAAT-TTGAA
16895070 TTCCTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 12 0.46
21 4 0.15
22 4 0.15
23 6 0.23
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (22 bp):
TGAATTTGAAAACCTCTGATTA
Found at i:16895141 original size:3 final size:3
Alignment explanation
Indices: 16895135--16895206 Score: 64
Period size: 3 Copynumber: 25.0 Consensus size: 3
16895125 AAGGAAGGAA
* *
16895135 AAT AAT AA- AAT AA- AAT AAT AAT AAT AAT ATAT TAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
16895179 ACAT AAT AA- AAT -GT AAT AAT AAT -AT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16895207 CTAATCTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 9 0.16
3 43 0.77
4 4 0.07
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16895149 original size:13 final size:13
Alignment explanation
Indices: 16895133--16895205 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 13
16895123 AAAAGGAAGG
16895133 AAAATAATAAAAT
1 AAAATAATAAAAT
16895146 AAAATAATAATAAT
1 AAAATAATAA-AAT
*
16895160 AATATATTATAATAAT
1 AA-A-ATAATAA-AAT
16895176 AACACATAATAAAAT
1 AA-A-ATAATAAAAT
** *
16895191 GTAATAATAATAT
1 AAAATAATAAAAT
16895204 AA
1 AA
16895206 TCTAATCTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 19 0.40
14 6 0.12
15 4 0.08
16 19 0.40
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:16895154 original size:16 final size:19
Alignment explanation
Indices: 16895135--16895285 Score: 68
Period size: 19 Copynumber: 7.9 Consensus size: 19
16895125 AAGGAAGGAA
* *
16895135 AATAATAAAATAAAATAAT
1 AATAATAATATATAATAAT
*
16895154 AATAATAATATATTATAAT
1 AATAATAATATATAATAAT
*
16895173 AATAACACATA-ATAA-AAT
1 AATAATA-ATATATAATAAT
* *
16895191 -GTAATAATAATATAAT-CT
1 AATAATAAT-ATATAATAAT
* *
16895209 AAT-CTAATAT-TAAT-CT
1 AATAATAATATATAATAAT
16895225 AAT-ATACCATATCATAATATAAT
1 AATAATA--ATAT-AT-A-ATAAT
*
16895248 AATAATAATATATTATCACCAT
1 AATAATAATATATAAT-A--AT
16895270 -ATAATAATATATAATA
1 AATAATAATATATAATA
16895286 CACCATATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
16 13 0.13
17 7 0.07
18 16 0.16
19 28 0.27
20 6 0.06
21 17 0.17
22 8 0.08
23 4 0.04
24 3 0.03
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AATAATAATATATAATAAT
Found at i:16895246 original size:5 final size:5
Alignment explanation
Indices: 16895136--16895254 Score: 51
Period size: 5 Copynumber: 22.2 Consensus size: 5
16895126 AGGAAGGAAA
* * * *
16895136 ATAAT AAAAT AAAAT AATAAT AATAAT ATATT ATAAT AATAACAC ATAAT
1 ATAAT ATAAT ATAAT -ATAAT -ATAAT ATAAT ATAAT -AT-A-AT ATAAT
* * * * * **
16895186 AAAAT GTAAT AATAAT ATAAT CTAAT CTAAT ATTAAT CTAAT ATACC AT-AT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT
16895237 CATAAT ATAAT AATAAT A
1 -ATAAT ATAAT -ATAAT A
16895255 ATATATTATC
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
5 55 0.63
6 28 0.32
7 3 0.03
8 1 0.01
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:16895275 original size:21 final size:22
Alignment explanation
Indices: 16895249--16895293 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
16895239 TAATATAATA
*
16895249 ATAATAATATATTAT-CACCAT
1 ATAATAATATATAATACACCAT
16895270 ATAATAATATATAATACACCAT
1 ATAATAATATATAATACACCAT
16895292 AT
1 AT
16895294 TATGATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATAATATATAATACACCAT
Found at i:16907742 original size:25 final size:26
Alignment explanation
Indices: 16907679--16907742 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
16907669 ATAATTACTC
* **
16907679 AGTAGAAATAAATAAATAATACAATTT
1 AGTA-AAATAAATAAAAAATACAAAAT
*
16907706 AGTAAAAT-AATAAAAAATTCAAAAT
1 AGTAAAATAAATAAAAAATACAAAAT
16907731 A-TAAAATAAATA
1 AGTAAAATAAATA
16907743 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 6 0.19
25 18 0.56
26 4 0.12
27 4 0.12
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.27
Consensus pattern (26 bp):
AGTAAAATAAATAAAAAATACAAAAT
Found at i:16907749 original size:15 final size:13
Alignment explanation
Indices: 16907726--16907770 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 13
16907716 TAAAAAATTC
*
16907726 AAAATATAAAATA
1 AAAAAATAAAATA
16907739 AATACAAATAAAATA
1 AA-A-AAATAAAATA
16907754 AAAAAATACAAATA
1 AAAAAATA-AAATA
16907768 AAA
1 AAA
16907771 TGGAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 7 0.25
14 10 0.36
15 11 0.39
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:16907762 original size:19 final size:20
Alignment explanation
Indices: 16907731--16907771 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
16907721 AATTCAAAAT
16907731 ATAAAATAAATACAAATAAA
1 ATAAAATAAATACAAATAAA
16907751 ATAAAA-AAATACAAATAAA
1 ATAAAATAAATACAAATAAA
16907770 AT
1 AT
16907772 GGAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
ATAAAATAAATACAAATAAA
Found at i:16907768 original size:14 final size:14
Alignment explanation
Indices: 16907731--16907770 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
16907721 AATTCAAAAT
16907731 ATAAAATAAATACAA
1 ATAAAATAAA-ACAA
16907746 ATAAAATAAAA-AA
1 ATAAAATAAAACAA
16907759 ATACAAATAAAA
1 ATA-AAATAAAA
16907771 TGGAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.21
14 9 0.38
15 10 0.42
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (14 bp):
ATAAAATAAAACAA
Found at i:16908568 original size:3 final size:3
Alignment explanation
Indices: 16908562--16908695 Score: 79
Period size: 3 Copynumber: 44.3 Consensus size: 3
16908552 AAGGAAAGAA
* *
16908562 AAT AAT AA- AAT AAAT AAT AAAT AAT AAT -AT ATAT TAT AAA AAT ACAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT A-AT
* *
16908609 AAT -AC AAT GCAAT AAT AAT -AT AAT -AT AAT -AT AAT AAT AAT -CT
1 AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16908651 AAT -AT ACCAT ACCAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT A--AT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16908696 TCACCATATA
Statistics
Matches: 106, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
2 16 0.15
3 68 0.64
4 11 0.10
5 11 0.10
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16908631 original size:5 final size:5
Alignment explanation
Indices: 16908623--16908718 Score: 70
Period size: 5 Copynumber: 18.2 Consensus size: 5
16908613 CAATGCAATA
* ** **
16908623 ATAAT ATAAT ATAAT ATAAT AATAAT CTAAT ATACC ATACC ATAAT AT-A-
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
16908672 ATAAT AATAAT AATAAT AATAAT ATCACCAT ATAAT ATAAT ATAAT A
1 ATAAT -ATAAT -ATAAT -ATAAT AT-A--AT ATAAT ATAAT ATAAT A
16908719 CACTATATTA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 46 0.59
6 23 0.29
7 1 0.01
8 4 0.05
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:16908633 original size:21 final size:21
Alignment explanation
Indices: 16908562--16908720 Score: 63
Period size: 21 Copynumber: 7.8 Consensus size: 21
16908552 AAGGAAAGAA
* *
16908562 AATAATAAAATAA-ATAATA-
1 AATAATAATATAATACAATAC
**
16908581 AATAATAATAT-ATATTATA-
1 AATAATAATATAATACAATAC
* *
16908600 AA-AAT-ACATAATACAATGC
1 AATAATAATATAATACAATAC
* *
16908619 AATAATAATATAATATAATAT
1 AATAATAATATAATACAATAC
*
16908640 AATAATAATCTAAT---ATAC
1 AATAATAATATAATACAATAC
* *
16908658 CATACCATAATATAAT--AATAAT
1 AATA--ATAATATAATACAAT-AC
*
16908680 AATAATAATAATAATATCACCATAT
1 AATAATAAT-ATAATA-CA--ATAC
16908705 AAT-ATAATATAATACA
1 AATAATAATATAATACA
16908721 CTATATTATG
Statistics
Matches: 109, Mismatches: 16, Indels: 27
0.72 0.11 0.18
Matches are distributed among these distances:
17 3 0.03
18 15 0.14
19 19 0.17
20 17 0.16
21 30 0.28
22 6 0.06
23 6 0.06
24 6 0.06
25 5 0.05
26 2 0.02
ACGTcount: A:0.60, C:0.08, G:0.01, T:0.32
Consensus pattern (21 bp):
AATAATAATATAATACAATAC
Found at i:16908653 original size:26 final size:26
Alignment explanation
Indices: 16908566--16908718 Score: 85
Period size: 26 Copynumber: 5.8 Consensus size: 26
16908556 AAAGAAAATA
*
16908566 ATAA-AATAAATAATA-AATAATAAT
1 ATAATAATAATTAATATAATAATAAT
*
16908590 AT-AT-ATTA-TAA-A-AATACATAAT
1 ATAATAATAATTAATATAATA-ATAAT
*
16908612 ACAATGCAATAA-TAATATAAT-ATAAT
1 ATAAT--AATAATTAATATAATAATAAT
16908638 ATAATAATAATCTAATATACCATACCATAAT
1 ATAATAATAAT-TAATATA--ATA--ATAAT
16908669 ATAATAATAA-TAATAATAATAATAAT
1 ATAATAATAATTAAT-ATAATAATAAT
16908695 ATCACCAT-ATAATATAATATAATA
1 AT-A--ATAATAAT-TAATATAATA
16908719 CACTATATTA
Statistics
Matches: 104, Mismatches: 4, Indels: 37
0.72 0.03 0.26
Matches are distributed among these distances:
21 5 0.05
22 9 0.09
23 6 0.06
24 7 0.07
26 29 0.28
27 2 0.02
28 12 0.12
29 12 0.12
30 7 0.07
31 15 0.14
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (26 bp):
ATAATAATAATTAATATAATAATAAT
Found at i:16909965 original size:21 final size:20
Alignment explanation
Indices: 16909941--16910008 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
16909931 TCAAGTTCTC
16909941 TTTAATTTCAAGTTCTTGCAA
1 TTTAATTTCAAGTTCTT-CAA
* * *
16909962 TTTATTTTTAAGTTCTTTAA
1 TTTAATTTCAAGTTCTTCAA
*
16909982 TTTCAAGTTCAAGTTCTTCAA
1 TTT-AATTTCAAGTTCTTCAA
16910003 GTTTAA
1 -TTTAA
16910009 GCTCTTAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 5 0.13
21 30 0.79
22 3 0.08
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTAATTTCAAGTTCTTCAA
Found at i:16918753 original size:14 final size:14
Alignment explanation
Indices: 16918734--16918770 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
16918724 TGCATGTAAC
*
16918734 CAAGTGATGCTGTA
1 CAAGTGATGCTATA
16918748 CAAGTGATGCTATA
1 CAAGTGATGCTATA
16918762 CAAGTGATG
1 CAAGTGATG
16918771 ATGTTATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (14 bp):
CAAGTGATGCTATA
Found at i:16921958 original size:55 final size:57
Alignment explanation
Indices: 16921899--16922004 Score: 132
Period size: 55 Copynumber: 1.9 Consensus size: 57
16921889 ATTGAAATAT
16921899 ATTTGAAAATTTTAAA-TAT-A-ATGCAACGATATAATAT-AAAA-AATATAAAAATTAA
1 ATTTGAAAA-TTTAAAGTATGATATG--ACGATATAATATAAAAATAATATAAAAATTAA
* *
16921954 ATTTGATAATTTAAAGTATGATATGATGATATAATATAAAAATAATATAAA
1 ATTTGAAAATTTAAAGTATGATATGACGATATAATATAAAAATAATATAAA
16922005 TAAAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
54 6 0.14
55 22 0.50
56 5 0.11
57 11 0.25
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (57 bp):
ATTTGAAAATTTAAAGTATGATATGACGATATAATATAAAAATAATATAAAAATTAA
Found at i:16922003 original size:16 final size:16
Alignment explanation
Indices: 16921982--16922016 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16921972 TGATATGATG
16921982 ATAT-AATATAAAAATA
1 ATATAAATA-AAAAATA
16921998 ATATAAATAAAAAATA
1 ATATAAATAAAAAATA
16922014 ATA
1 ATA
16922017 ACACTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATATAAATAAAAAATA
Found at i:16922054 original size:23 final size:25
Alignment explanation
Indices: 16922003--16922055 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
16921993 AAATAATATA
*
16922003 AATAAAAAATAATAACACTTAATTT
1 AATAAAAAATAATAACACTAAATTT
*
16922028 --TAAAAAATTATAA-A-TAAATTT
1 AATAAAAAATAATAACACTAAATTT
16922049 AATAAAA
1 AATAAAA
16922056 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 6 0.25
22 1 0.04
23 17 0.71
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAAAAAATAATAACACTAAATTT
Found at i:16922116 original size:25 final size:24
Alignment explanation
Indices: 16922088--16922134 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16922078 TTTAATATCA
*
16922088 ATATAAATTATAATATATAATATTT
1 ATATAAAATATAATATA-AATATTT
*
16922113 ATATAAAATATGATATAAATAT
1 ATATAAAATATAATATAAATAT
16922135 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATAAAATATAATATAAATATTT
Found at i:16922139 original size:23 final size:23
Alignment explanation
Indices: 16922081--16922153 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
16922071 TTTATATTTT
* *
16922081 AATATCAATATAAATTATAATATA
1 AATAT-AATATAAAATATGATATA
*
16922105 TAATATTTATATAAAATATGATATA
1 -AATA-TAATATAAAATATGATATA
***
16922130 AATATAATATTTTATATGATATA
1 AATATAATATAAAATATGATATA
16922153 A
1 A
16922154 TAATATGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 16 0.40
24 4 0.10
25 19 0.47
26 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (23 bp):
AATATAATATAAAATATGATATA
Found at i:16926095 original size:6 final size:6
Alignment explanation
Indices: 16926085--16926141 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
16926075 AAGTAGGCGT
*
16926085 TCTTCT TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA
16926133 TCTTCA TCT
1 TCTTCA TCT
16926142 CTAAAAGCTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.14, C:0.33, G:0.00, T:0.53
Consensus pattern (6 bp):
TCTTCA
Found at i:16937249 original size:36 final size:36
Alignment explanation
Indices: 16937190--16937263 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
16937180 CTTCGAAAAA
** * *
16937190 TTAAAAATTAAAAATTTTTAAAAATGTATTTTATTTT
1 TTAAAAATTAAAAAACTTAAAAAAT-TATATTATTTT
*
16937227 TTAAAAA-TAAAAAACTTAAAAAATTATATTCTTTT
1 TTAAAAATTAAAAAACTTAAAAAATTATATTATTTT
16937262 TT
1 TT
16937264 TTCATTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 11 0.34
36 14 0.44
37 7 0.22
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
TTAAAAATTAAAAAACTTAAAAAATTATATTATTTT
Found at i:16949357 original size:14 final size:14
Alignment explanation
Indices: 16949334--16949366 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
16949324 AATTCAAATT
16949334 AAAAAAAAA-GAAA
1 AAAAAAAAAGGAAA
16949347 AAAATAAAAAGGAAA
1 AAAA-AAAAAGGAAA
16949362 AAAAA
1 AAAAA
16949367 TCGAGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 6 0.33
15 8 0.44
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAGGAAA
Found at i:16950638 original size:20 final size:19
Alignment explanation
Indices: 16950613--16950663 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
16950603 GAATATTTTG
16950613 AATAAATTTTATTATTTATT
1 AATAAATTTTATTATTTA-T
*
16950633 AATAAATTTAATTATTTAT
1 AATAAATTTTATTATTTAT
*
16950652 AAAAAATTTTAT
1 AATAAATTTTAT
16950664 AAATGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAAATTTTATTATTTAT
Found at i:16953788 original size:17 final size:16
Alignment explanation
Indices: 16953759--16953802 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
16953749 GCCACAAGTC
*
16953759 ATTTGACTTTTTTTCCT
1 ATTT-ACTTTTTTTTCT
*
16953776 TTTTACTTTTTTTTCT
1 ATTTACTTTTTTTTCT
16953792 ATTTACTTTTT
1 ATTTACTTTTT
16953803 GTTTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTACTTTTTTTTCT
Found at i:16954191 original size:17 final size:14
Alignment explanation
Indices: 16954156--16954183 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16954146 TCTTTCTTTC
16954156 TTTTTCAATAAGAT
1 TTTTTCAATAAGAT
16954170 TTTTTCAATAAGAT
1 TTTTTCAATAAGAT
16954184 CATTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTTTCAATAAGAT
Found at i:16959135 original size:901 final size:890
Alignment explanation
Indices: 16957384--16960009 Score: 3511
Period size: 901 Copynumber: 2.9 Consensus size: 890
16957374 AGATAGATTT
* * * * *
16957384 GAAGCATTGAGTCACTATAATAGGTTTGGAAAACATTGAAAAAACTTTTCTAA-AGGCAAAATAC
1 GAAGCATTAAGTCACCACAATAGGTTTGG-AAACATTGGAAAAACTTTTC-AAGAAGCAAAATA-
* * * *
16957448 AAG-TAGACTTCAGTTGCTTCAAAATAAGCTTGCTAATATAACTCAAGGTAACATGACAATTACT
63 TAGCTAGACTTCAGTTGCTTCAAAATAAGCTTGCCAATATAACTCAAGGTAATATGACAATTGCT
* * *
16957512 CAGTTTTTCCATAAAATAAAGAATATATGTTCTAAAATTTTAAAGTTAGATCTTAAAGAGCCAAC
128 CAGTTTTTCCATAAAATGAAGAATATATGTTCTGAAATTTCAAAGTTAGATCTTAAAGAGCCAAC
* * * * * * *
16957577 CAGTGAAGTATGCCTAAATCAATACAATATTCATTGGATTAAATAGGAATAAATACCATTTTTGA
193 CAGTGAAGTATGCCTAAA-CAATATAAGATTCATGGGATTAAAAAAGAATACATGCCATTTTTGA
* *
16957642 CATCTATTCAAAGATGGGCAACACAACCTACTATCACTAAACTTGAGAATCAGTTGGCTAATAAA
257 CATCTATTCAAAGATGGGCAACACAACCTACTATCACTAAACTTGAGAATCTG-TGTCTAATAAA
* * *
16957707 AAAGATTTAGCCATACAAATGACTAAAATTTTAGTTTCTAGAAAGAATGAAGCCTTGTTCTATAG
321 AAAGATTTAGCCATACAAAT-ACTAAAATTTTAGTTTCTAGAAAGAATGAAG-CTTGTTATGTGG
*
16957772 AGATAGAAAGAAAGGTTTTAACAAGCATTAAAAGGTGAATAACTTCAATGAGAAAGATGGAAATA
384 A-ATA-AAAGAAAGGTTTTAACAAGCATTAAAAGG-GAAAAACTTCAATGAGAAAGATGGAAATA
* ** * *
16957837 AAAAAGATGGCAGTGCATGGCCTGAATATAAAAAGAAAGTTAAATGTCACACATGTGGCAAATTT
446 AAAAGGATGGCAGTGCA-CACCTAAATATAAAAAGAAAGTTAAATGTCACAAATGTGGCAAATTT
* * * *
16957902 GGACATATAAAGAAGTTTTGCAAGTGCAAGATTGTTGAAAAGAATTCCAACACTTCCATAAAAT-
510 GGACATATAAAGAAGTTTTGCAAGTTCAAGGTTGTTGAAAAGGATTCCAA-GCTTCCAT-AAATG
* * * * * *
16957966 ATGAAGAAGATCACAATATTCATGTTATTGATTGGGAGACATGTTTATCTATCATTGCCATCAAC
573 AT-AAGAAGGTCACAACATCCATGTTATTGATT-GGAAACATGTTTGTCTACCATTGCCATCAAC
* * *
16958031 AA-AAAAGAGGCTAGCAATGTTCTAGCTAATGGTGATCAAATAAACATAAAACATAGCTCGGTAA
636 AAGAAAA-AGGCTAGCAATGTTCTAGCTAGTGGTGATCAAAGAAGCATAAAACATAGCTCGGTAA
* * * *
16958095 CCATAAACTACAATAAGTATTGGATTCTTGATTCTTG-TGGTTCTTATTATGTGATCGAAAATGA
700 CCATAAACTACAACAAGGATTGGATTCTTGATTC-TGATTGTTCTAATTATGTGATCGAAAATGA
* * *
16958159 ATTATTGCTTTCACAACTGGAAATGCACAAAGGAA-ATGAGGTAATCTTGATAGCAAACAACACA
764 ATTATTGCTTTCACAACTAGAAAAGCACAAAGGAAGATGAAGTAATCTTGATAGCAAACAACACA
* *
16958223 GTGTGGGCAAGCTTTGTTCATATTAAGATGTTGTGTACACAAGGATGTAATCAAGCATATTC
829 GTGTAGGCAAGCTTTGTTCATATTAAGATGTTGTGTACACAAGGATGTAATCAAGCACATTC
*
16958285 GAAGCATTAAGTCACCACAATAGGTTTAGGAAACATTGGAAAAACTTTTCAAGAAGCAAAATATG
1 GAAGCATTAAGTCACCACAATAGGTTT-GGAAACATTGGAAAAACTTTTCAAGAAGCAAAATATA
* * *
16958350 GCTAGACTTTAGTTGCTTCAAAATGAGCTTGCCAATACAACTCAAGGTAATATGACAATTGCTCA
65 GCTAGACTTCAGTTGCTTCAAAATAAGCTTGCCAATATAACTCAAGGTAATATGACAATTGCTCA
* * * *
16958415 GTTTTTCCATAAAATGAAGAATATAGGTTTTGAAATTTCAAAGTTAGGTCCTAAAGAGCCAACCA
130 GTTTTTCCATAAAATGAAGAATATATGTTCTGAAATTTCAAAGTTAGATCTTAAAGAGCCAACCA
16958480 GTGAAGTATGCCTACAACAATATAAGATTCATGGGATTAAAAAAGAATACATGCCATTTTTGACA
195 GTGAAGTATGCCTA-AACAATATAAGATTCATGGGATTAAAAAAGAATACATGCCATTTTTGACA
* * * *
16958545 TCTATTGAATGATGGGCAACACAACCTACAATCACTAAACTTGAGAATTTGCTGTCTAATAAAAA
259 TCTATTCAAAGATGGGCAACACAACCTACTATCACTAAACTTGAGAATCTG-TGTCTAATAAAAA
* * *
16958610 AGATTTAGCCATACAAATCACTAAAATTTCAGTTTCTGGAAAGAATGAAGCTTTGTTTTGTGGAC
323 AGATTTAGCCATACAAAT-ACTAAAATTTTAGTTTCTAGAAAGAATGAAGC-TTGTTATGTGGA-
* * * * * *
16958675 ATAAAAAGAAATGTTTTAACAAGTATTAAAAGGGAAAAAACTTCAATGAGAAATATGGGAACAGA
385 AT-AAAAGAAAGGTTTTAACAAGCATTAAAAGGG-AAAAACTTCAATGAGAAAGATGGAAATAAA
* *
16958740 AAGGATGGCAGTGCACACCTTAAATATGAAAAGAAAGTTAAATGTCACAAATGTGGCTAATTTGG
448 AAGGATGGCAGTGCACACC-TAAATATAAAAAGAAAGTTAAATGTCACAAATGTGGCAAATTTGG
16958805 ACATATAAAGAAGTTTTGCAAGTTCAAGGTTGTTGAAAAGGATTCCAATGCTTCCATAAATGATA
512 ACATATAAAGAAGTTTTGCAAGTTCAAGGTTGTTGAAAAGGATTCCAA-GCTTCCATAAATGAT-
* *
16958870 AAAAAGGTCATAACATCCATGTTATTGATTAGGAAACATGTTTGTCTACCATTGCCATCAACAAG
575 AAGAAGGTCACAACATCCATGTTATTGATT-GGAAACATGTTTGTCTACCATTGCCATCAACAAG
* * *
16958935 AAAAAGGCTAGCAATGTTCTAGCTGGTGGTGATCAAAGAAGCATAAAACATAACTCGATAACCAT
639 AAAAAGGCTAGCAATGTTCTAGCTAGTGGTGATCAAAGAAGCATAAAACATAGCTCGGTAACCAT
* ** *
16959000 AAACTACAACAAGGATTGGATTCTTGATTCTGATTGTTCTAATAACCTGA-CTGAAAATGAATTG
704 AAACTACAACAAGGATTGGATTCTTGATTCTGATTGTTCTAATTATGTGATC-GAAAATGAATTA
* * *
16959064 TTGCTTTCACAACTAGAAAAACATAAA-GAAGATGAAGTAATCATGATAGCAAACAACAC-GATG
768 TTGCTTTCACAACTAGAAAAGCACAAAGGAAGATGAAGTAATCTTGATAGCAAACAACACAG-TG
* * * **
16959127 TAGGCAAGCTTTGTTCATATTGAGGTGTTGTGTACACAAGGATTTAATTGAGCACATTC
832 TAGGCAAGCTTTGTTCATATTAAGATGTTGTGTACACAAGGATGTAATCAAGCACATTC
* * * * *
16959186 GAAGGA-TAGAGTCACCGCAACAGGTTTGGGAAACACTAGAAAAACTTTTC-AGAAGCAAAATAT
1 GAAGCATTA-AGTCACCACAATAGGTTT-GGAAACATTGGAAAAACTTTTCAAGAAGCAAAATAT
*
16959249 AGCTAGACTTCAATTGCTTCAAAATAAGCTTGCCAATATAACTCAAGGTAATATGACAATTGCTC
64 AGCTAGACTTCAGTTGCTTCAAAATAAGCTTGCCAATATAACTCAAGGTAATATGACAATTGCTC
* *
16959314 AATTTTTCCATAAAATGAAGAATATATGTTCTGAAATTTCAAAGTTAGATCTTAAAAAGCCAACC
129 AGTTTTTCCATAAAATGAAGAATATATGTTCTGAAATTTCAAAGTTAGATCTTAAAGAGCCAACC
* * * * * *
16959379 AGTGAAGCATGCCTATGACAATATAGGATTCGTGGGATTAAAAAAGAATACATGTCATTCTTGAC
194 AGTGAAGTATGCCTA-AACAATATAAGATTCATGGGATTAAAAAAGAATACATGCCATTTTTGAC
* * *
16959444 ATCTATTCAAGGATGGGCAACACAACCTACTATCACTAAACTTAAGAATCTGTCATCTAATAAAA
258 ATCTATTCAAAGATGGGCAACACAACCTACTATCACTAAACTTGAGAATCTGT-GTCTAATAAAA
* *
16959509 AAAATTTAGCCATACAAATAGCTAAAATTTTAGTTTCTAGAAAGAATGAA---AG--ATG-GG--
322 AAGATTTAGCCATACAAATA-CTAAAATTTTAGTTTCTAGAAAGAATGAAGCTTGTTATGTGGAA
* *
16959566 --AAAGAAAGGTTTTAACAAGCATTAAAAGGGGAAGAACTTCAATGAGAAAGATGAAAATAAAAA
386 TAAAAGAAAGGTTTTAACAAGCATTAAAA-GGGAAAAACTTCAATGAGAAAGATGGAAATAAAAA
* * * *
16959629 GGATGGTAGTGCACACCCTAAATATCAAAAGAAAGTAAAATGTCACAAATGTGGCAAATTTGAAC
450 GGATGGCAGTGCACA-CCTAAATATAAAAAGAAAGTTAAATGTCACAAATGTGGCAAATTTGGAC
* * *
16959694 ATATAAAGAAGTTTTGCAAGTTCAAGGTTGTTG-AAAGGAATTTC-AGCATTTTCATAAAAGATA
514 ATATAAAGAAGTTTTGCAAGTTCAAGGTTGTTGAAAAGG-ATTCCAAGC--TTCCATAAATGATA
* * * *
16959757 AGAAGGTTACAACATCCATGTTATTGATTGGAAAACCTATTTGTCTACCATTGCCATCAATAAGA
576 AGAAGGTCACAACATCCATGTTATTGATTGG-AAACATGTTTGTCTACCATTGCCATCAACAAGA
* * *
16959822 AAAAGGCTAGCAATGTTCTAGCTAGAGGTGATCAAAGAAGCATAAAACAGAGCTTGGTAACCATA
640 AAAAGGCTAGCAATGTTCTAGCTAGTGGTGATCAAAGAAGCATAAAACATAGCTCGGTAACCATA
* *
16959887 AACTACAACAAGGATTGGATTCTTGATTCTGATTGTTCTCATTATGTGATCAAAAATGAATTATT
705 AACTACAACAAGGATTGGATTCTTGATTCTGATTGTTCTAATTATGTGATCGAAAATGAATTATT
* *
16959952 GCTTTCATAACTAGAAAAGCACAAATG-AGATGAAGTAATCTTG-TCAGCAAACAACACA
770 GCTTTCACAACTAGAAAAGCACAAAGGAAGATGAAGTAATCTTGAT-AGCAAACAACACA
16960010 CTACATTATA
Statistics
Matches: 1528, Mismatches: 170, Indels: 68
0.87 0.10 0.04
Matches are distributed among these distances:
885 5 0.00
886 228 0.15
887 158 0.10
888 5 0.00
893 2 0.00
894 2 0.00
896 1 0.00
899 2 0.00
900 312 0.20
901 804 0.53
902 9 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (890 bp):
GAAGCATTAAGTCACCACAATAGGTTTGGAAACATTGGAAAAACTTTTCAAGAAGCAAAATATAG
CTAGACTTCAGTTGCTTCAAAATAAGCTTGCCAATATAACTCAAGGTAATATGACAATTGCTCAG
TTTTTCCATAAAATGAAGAATATATGTTCTGAAATTTCAAAGTTAGATCTTAAAGAGCCAACCAG
TGAAGTATGCCTAAACAATATAAGATTCATGGGATTAAAAAAGAATACATGCCATTTTTGACATC
TATTCAAAGATGGGCAACACAACCTACTATCACTAAACTTGAGAATCTGTGTCTAATAAAAAAGA
TTTAGCCATACAAATACTAAAATTTTAGTTTCTAGAAAGAATGAAGCTTGTTATGTGGAATAAAA
GAAAGGTTTTAACAAGCATTAAAAGGGAAAAACTTCAATGAGAAAGATGGAAATAAAAAGGATGG
CAGTGCACACCTAAATATAAAAAGAAAGTTAAATGTCACAAATGTGGCAAATTTGGACATATAAA
GAAGTTTTGCAAGTTCAAGGTTGTTGAAAAGGATTCCAAGCTTCCATAAATGATAAGAAGGTCAC
AACATCCATGTTATTGATTGGAAACATGTTTGTCTACCATTGCCATCAACAAGAAAAAGGCTAGC
AATGTTCTAGCTAGTGGTGATCAAAGAAGCATAAAACATAGCTCGGTAACCATAAACTACAACAA
GGATTGGATTCTTGATTCTGATTGTTCTAATTATGTGATCGAAAATGAATTATTGCTTTCACAAC
TAGAAAAGCACAAAGGAAGATGAAGTAATCTTGATAGCAAACAACACAGTGTAGGCAAGCTTTGT
TCATATTAAGATGTTGTGTACACAAGGATGTAATCAAGCACATTC
Found at i:16966665 original size:24 final size:25
Alignment explanation
Indices: 16966637--16966691 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
16966627 GAGTTTTCTA
*
16966637 TTGAAGAAA-AGCTTAAAAAAGATC
1 TTGAAGAAAGAGCTTAAAAAAGACC
* *
16966661 TTGAA-AAAGAGTTTAAAGAAGACC
1 TTGAAGAAAGAGCTTAAAAAAGACC
16966685 TTGAAGA
1 TTGAAGA
16966692 GGAAAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 3 0.12
24 22 0.85
25 1 0.04
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (25 bp):
TTGAAGAAAGAGCTTAAAAAAGACC
Found at i:16970699 original size:48 final size:49
Alignment explanation
Indices: 16970569--16970745 Score: 162
Period size: 50 Copynumber: 3.6 Consensus size: 49
16970559 ACTAAACTTC
* * * * * * *
16970569 CCTTTTTCAAAATGAAATTTTTAAAGTTCCCTAACTTATGTTTGTAAGA-
1 CCTTTTTC-AAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * *
16970618 CTCTTTTTCAAAATAAGATTTTTAAAATTTCTTAGCCTATCTTTATGAGAG
1 C-CTTTTTC-AAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * *
16970669 CC-TTTTCAACATGAGA-TTTTAAAGTTTCTTAGTCTATTTTTATAATAG
1 CCTTTTTCAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
*
16970717 CCTTTTTCAAAGCGAGATTTTTAAAGTTT
1 CCTTTTTCAAA-TGAGATTTTTAAAGTTT
16970746 TCTATATATG
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
48 32 0.30
49 22 0.21
50 50 0.48
51 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.45
Consensus pattern (49 bp):
CCTTTTTCAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
Found at i:16970771 original size:49 final size:48
Alignment explanation
Indices: 16970666--16970921 Score: 139
Period size: 48 Copynumber: 5.3 Consensus size: 48
16970656 ATCTTTATGA
* * * * * *
16970666 GAGCCTTTTCAACATGAGAT-TTTAAAGTT-TCTTAGTCTATTTTTATAA
1 GAGCTTTTTCAAAACGAGATCTTTAAAGTTCTCTGA-T-TATGTTTATAG
* * * * *
16970714 TAGCCTTTTTCAAAGCGAGATTTTTAAAGTTTTCT-ATATATGTTTGTAG
1 GAG-CTTTTTCAAAACGAGATCTTTAAAGTTCTCTGAT-TATGTTTATAG
* *
16970763 GAGTCTTTTCCAAAACGAGATCTTTAAAGTTCTCTGCTTATGTTTATAG
1 GAG-CTTTTTCAAAACGAGATCTTTAAAGTTCTCTGATTATGTTTATAG
* *** ** * **
16970812 TAGCTTTTTCAAATTAAGATCTTTAAAAATCTTTGCCTATGTTTATA-
1 GAGCTTTTTCAAAACGAGATCTTTAAAGTTCTCTGATTATGTTTATAG
* * * *
16970859 GAGTCTTTTTGAAAA-GAAAAAT-TTTAAAGTTCCCT-ACTTATATTTATAG
1 GAG-CTTTTTCAAAACG--AGATCTTTAAAGTTCTCTGA-TTATGTTTATAG
*
16970908 GAGCCTTTTCAAAA
1 GAGCTTTTTCAAAA
16970922 ATTTTTTTTT
Statistics
Matches: 159, Mismatches: 40, Indels: 18
0.73 0.18 0.08
Matches are distributed among these distances:
47 2 0.01
48 74 0.47
49 69 0.43
50 11 0.07
51 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (48 bp):
GAGCTTTTTCAAAACGAGATCTTTAAAGTTCTCTGATTATGTTTATAG
Found at i:16979334 original size:34 final size:34
Alignment explanation
Indices: 16979283--16979347 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
16979273 TCATTAAATA
* * * *
16979283 TTTTTTTTCAATTGCAGCTATAGTAACTTTTTCT
1 TTTTTTTTAAATCGCAGCTACAGTAAATTTTTCT
16979317 TTTTTTTTAAATCGCAGCTACAGTAAATTTT
1 TTTTTTTTAAATCGCAGCTACAGTAAATTTT
16979348 ATTACTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (34 bp):
TTTTTTTTAAATCGCAGCTACAGTAAATTTTTCT
Found at i:16980996 original size:3 final size:3
Alignment explanation
Indices: 16980988--16981012 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16980978 TTTTCTTTTC
16980988 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
16981013 AAGCGGGATT
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16981533 original size:10 final size:9
Alignment explanation
Indices: 16981509--16981534 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16981499 TGGGAAGACC
16981509 CCTTTTTTA
1 CCTTTTTTA
16981518 CCTTTTTTA
1 CCTTTTTTA
16981527 CCTTTTTT
1 CCTTTTTT
16981535 CTTTCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (9 bp):
CCTTTTTTA
Found at i:16981612 original size:43 final size:41
Alignment explanation
Indices: 16981518--16981622 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 41
16981508 CCCTTTTTTA
16981518 CCTTTTTTACCTTTTTTCTTTCTTTCTTTTATATGGGAAGAC
1 CCTTTTTTACCTTTTTT-TTTCTTTCTTTTATATGGGAAGAC
* *
16981560 CCTTGTTTACCTTTTTTTTTCCTTTCTTTTATATGGGAAGGC
1 CCTTTTTTACCTTTTTTTTT-CTTTCTTTTATATGGGAAGAC
16981602 CACTTTTTTACCTTTTTTTTT
1 C-CTTTTTTACCTTTTTTTTT
16981623 TACTTTCCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
41 3 0.05
42 37 0.64
43 18 0.31
ACGTcount: A:0.12, C:0.19, G:0.10, T:0.59
Consensus pattern (41 bp):
CCTTTTTTACCTTTTTTTTTCTTTCTTTTATATGGGAAGAC
Found at i:16984733 original size:19 final size:19
Alignment explanation
Indices: 16984711--16984761 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
16984701 AAGCTATAAT
* *
16984711 CCTAAACCTTAAATCTTAA
1 CCTAAACCTTAAAACCTAA
*
16984730 CCTAAACCCTAAAACCTAA
1 CCTAAACCTTAAAACCTAA
**
16984749 CCTTGACCTTAAA
1 CCTAAACCTTAAA
16984762 CCTCAAATCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.02, T:0.25
Consensus pattern (19 bp):
CCTAAACCTTAAAACCTAA
Found at i:16984792 original size:7 final size:7
Alignment explanation
Indices: 16984770--16984808 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
16984760 AACCTCAAAT
16984770 CTAAACAC
1 CTAAAC-C
*
16984778 CCAAACC
1 CTAAACC
16984785 CTAAACC
1 CTAAACC
16984792 C-AAACC
1 CTAAACC
16984798 CTAAACC
1 CTAAACC
16984805 CTAA
1 CTAA
16984809 CCTTAACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.21
7 17 0.61
8 5 0.18
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (7 bp):
CTAAACC
Found at i:16984792 original size:13 final size:13
Alignment explanation
Indices: 16984776--16984810 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
16984766 AAATCTAAAC
16984776 ACCCAAACCCTAA
1 ACCCAAACCCTAA
16984789 ACCCAAACCCTAA
1 ACCCAAACCCTAA
*
16984802 ACCCTAACC
1 ACCCAAACC
16984811 TTAACTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.49, G:0.00, T:0.09
Consensus pattern (13 bp):
ACCCAAACCCTAA
Found at i:16986798 original size:13 final size:14
Alignment explanation
Indices: 16986777--16986811 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
16986767 TTTCGGTTTT
16986777 AAGAAAAAAAAAGA
1 AAGAAAAAAAAAGA
*
16986791 AA-AAAAAAATAGA
1 AAGAAAAAAAAAGA
16986804 AAGAAAAA
1 AAGAAAAA
16986812 GCATGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (14 bp):
AAGAAAAAAAAAGA
Found at i:16986859 original size:19 final size:20
Alignment explanation
Indices: 16986837--16986883 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16986827 AGAAGAAAAC
16986837 AAAAATTGAAA-AAAAGAAA
1 AAAAATTGAAAGAAAAGAAA
* *
16986856 AAAAATAGAAAGAAGAGAAA
1 AAAAATTGAAAGAAAAGAAA
*
16986876 ATAAATTG
1 AAAAATTG
16986884 TTTGGATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (20 bp):
AAAAATTGAAAGAAAAGAAA
Found at i:16986874 original size:20 final size:20
Alignment explanation
Indices: 16986818--16986881 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 20
16986808 AAAAGCATGG
*
16986818 AAAAA-AGAGAGAAGA-AAA
1 AAAAATAGAAAGAAGAGAAA
* *
16986836 CAAAAATTGAAA-AAAAGAAA
1 -AAAAATAGAAAGAAGAGAAA
16986856 AAAAATAGAAAGAAGAGAAA
1 AAAAATAGAAAGAAGAGAAA
*
16986876 ATAAAT
1 AAAAAT
16986882 TGTTTGGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAAATAGAAAGAAGAGAAA
Found at i:16988348 original size:43 final size:43
Alignment explanation
Indices: 16988287--16988372 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
16988277 AGATTAGAGT
* * * * *
16988287 TAAAAAATACACTGATGATGTGACTTTGGGGTATTTAGTTTGG
1 TAAAAAATACACTAATGATATGACTCTAGGGTACTTAGTTTGG
* *
16988330 TAAAAGATACACTAATGATATGACTCTATGGTACTTAGTTTGG
1 TAAAAAATACACTAATGATATGACTCTAGGGTACTTAGTTTGG
16988373 AGAGTTGAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (43 bp):
TAAAAAATACACTAATGATATGACTCTAGGGTACTTAGTTTGG
Found at i:16995335 original size:12 final size:12
Alignment explanation
Indices: 16995307--16995373 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
16995297 TTTCTTTCTC
*
16995307 TTTTTATTTTCGG
1 TTTTTATTTT-GA
16995320 TTTTTATTTTGA
1 TTTTTATTTTGA
16995332 -TTTTA-TTT-A
1 TTTTTATTTTGA
*
16995341 -TTTTATGTTGA
1 TTTTTATTTTGA
*
16995352 TTTTTATTTTTA
1 TTTTTATTTTGA
*
16995364 TTATTATTTT
1 TTTTTATTTT
16995374 ATGATATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 6 0.13
10 5 0.11
11 6 0.13
12 19 0.41
13 10 0.22
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:16995346 original size:20 final size:21
Alignment explanation
Indices: 16995321--16995360 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16995311 TATTTTCGGT
*
16995321 TTTTATTTTGA-TTTTATTTA
1 TTTTATGTTGATTTTTATTTA
16995341 TTTTATGTTGATTTTTATTT
1 TTTTATGTTGATTTTTATTT
16995361 TTATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTTATGTTGATTTTTATTTA
Found at i:16996039 original size:17 final size:17
Alignment explanation
Indices: 16996000--16996043 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
16995990 ATTTTTTTAT
16996000 ATAATAA-AAAAGATAA
1 ATAATAATAAAAGATAA
16996016 A-AATAATAAACAG-TAA
1 ATAATAATAAA-AGATAA
16996032 ATAATAATAAAA
1 ATAATAATAAAA
16996044 AATTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.20
16 9 0.36
17 11 0.44
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
ATAATAATAAAAGATAA
Found at i:16998306 original size:20 final size:20
Alignment explanation
Indices: 16998255--16998326 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
16998245 CCACAAAAAC
* *
16998255 CCCAAACCCTTAACCTAAC-
1 CCCAAACCCTAAATCTAACT
* *
16998274 CCTAAACCTTAAATCTAACT
1 CCCAAACCCTAAATCTAACT
16998294 CCCAAACCCTAAATCTAACT
1 CCCAAACCCTAAATCTAACT
*
16998314 CTCAAACCCTAAA
1 CCCAAACCCTAAA
16998327 CCCAATCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (20 bp):
CCCAAACCCTAAATCTAACT
Found at i:16998366 original size:7 final size:7
Alignment explanation
Indices: 16998354--16998418 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
16998344 CCCCAAGCTG
16998354 AAACCCT
1 AAACCCT
16998361 AAACCCT
1 AAACCCT
16998368 AAACCCT
1 AAACCCT
16998375 AAA--CT
1 AAACCCT
* *
16998380 TAATCCT
1 AAACCCT
16998387 AAACCCT
1 AAACCCT
16998394 AAA-CCT
1 AAACCCT
16998400 -AA-CCT
1 AAACCCT
* *
16998405 TAACCTT
1 AAACCCT
16998412 AAACCCT
1 AAACCCT
16998419 GAATCTAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 9 0.19
6 5 0.10
7 34 0.71
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:16998389 original size:19 final size:18
Alignment explanation
Indices: 16998365--16998416 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
16998355 AACCCTAAAC
*
16998365 CCTAAACCCTAAACTTAA
1 CCTAAACCCTAAACCTAA
16998383 TCCTAAACCCTAAACCTAA
1 -CCTAAACCCTAAACCTAA
* *
16998402 CCTTAACCTTAAACC
1 CCTAAACCCTAAACC
16998417 CTGAATCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (18 bp):
CCTAAACCCTAAACCTAA
Found at i:16998426 original size:25 final size:24
Alignment explanation
Indices: 16998358--16998428 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
16998348 AAGCTGAAAC
16998358 CCTAAACCCTAAACCCTAAACTTAA
1 CCTAAACCCTAAA-CCTAAACTTAA
*
16998383 TCCTAAACCCTAAACCTAACCTTAA
1 -CCTAAACCCTAAACCTAAACTTAA
* *
16998408 CCTTAAACCCTGAATCTAAAC
1 CC-TAAACCCTAAACCTAAAC
16998429 ACCCAAACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.05
25 25 0.62
26 13 0.32
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (24 bp):
CCTAAACCCTAAACCTAAACTTAA
Found at i:16999019 original size:30 final size:27
Alignment explanation
Indices: 16998957--16999020 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
16998947 TCTCAGTTTT
16998957 CATAG-GGCATTTTGAAAACTTCTAAA
1 CATAGAGGCATTTTGAAAACTTCTAAA
** *
16998983 GTTAGAGGCATTTTTAAAACTCTACCTAAA
1 CATAGAGGCATTTTGAAAACT-T--CTAAA
16999013 CATAGAGG
1 CATAGAGG
16999021 AGTAAATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.10
27 14 0.48
28 1 0.03
30 11 0.38
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (27 bp):
CATAGAGGCATTTTGAAAACTTCTAAA
Found at i:17004720 original size:74 final size:75
Alignment explanation
Indices: 17004619--17004769 Score: 259
Period size: 74 Copynumber: 2.0 Consensus size: 75
17004609 AAGTTAATCA
* *
17004619 ATTTTTAAATTTTAATTTTTTTGTTTTTATATATTATTTGAATATAATTTTTAACATATTTAAAT
1 ATTTTTAAATTTTAAATTTTTTATTTTTATATATTATTTGAATATAATTTTTAACATATTTAAAT
17004684 AGATTTAGGT
66 AGATTTAGGT
* *
17004694 ATTTTTAAA-TTTAAATTTTTTATTTTTATATATTATTTGAATATGATTTTTAATATATTTAAAT
1 ATTTTTAAATTTTAAATTTTTTATTTTTATATATTATTTGAATATAATTTTTAACATATTTAAAT
17004758 AGATTTAGGT
66 AGATTTAGGT
17004768 AT
1 AT
17004770 AAAATAATTA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 63 0.88
75 9 0.12
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (75 bp):
ATTTTTAAATTTTAAATTTTTTATTTTTATATATTATTTGAATATAATTTTTAACATATTTAAAT
AGATTTAGGT
Found at i:17004758 original size:22 final size:23
Alignment explanation
Indices: 17004715--17004763 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
17004705 TAAATTTTTT
*
17004715 ATTTTTATATATTATTTGAATATG
1 ATTTTTATATATTATTTAAATA-G
17004739 ATTTTTA-ATA-TATTTAAATAG
1 ATTTTTATATATTATTTAAATAG
17004760 ATTT
1 ATTT
17004764 AGGTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 9 0.38
23 3 0.12
24 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTTTATATATTATTTAAATAG
Found at i:17005092 original size:30 final size:30
Alignment explanation
Indices: 17005058--17005117 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
17005048 AAAAATACCT
17005058 AAAATAATA-TTTAAAAAGCTTAATTAAATA
1 AAAATAATACTTT-AAAAGCTTAATTAAATA
17005088 AAAATAATACTTTAAAAGCTTAATTAAATA
1 AAAATAATACTTTAAAAGCTTAATTAAATA
17005118 TAATAGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATAATACTTTAAAAGCTTAATTAAATA
Found at i:17026730 original size:12 final size:13
Alignment explanation
Indices: 17026704--17026728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17026694 GAAGTATCTC
17026704 TTTGTGAAAAAAA
1 TTTGTGAAAAAAA
17026717 TTTGTGAAAAAA
1 TTTGTGAAAAAA
17026729 TTACAACATA
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:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (13 bp):
TTTGTGAAAAAAA
Found at i:17041730 original size:21 final size:19
Alignment explanation
Indices: 17041705--17041797 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 19
17041695 AAAAAATCAA
*
17041705 AAATTTTTTGAAAAATTTG
1 AAATTTTTTGAAAAATATG
* * *
17041724 AAGA-ATTTGGAAAAATATA
1 AA-ATTTTTTGAAAAATATG
17041743 AAATTTTTTGAAAAAATATG
1 AAATTTTTTG-AAAAATATG
*
17041763 AAATTTGTTTTAAAAATTATG
1 AAATTT-TTTGAAAAA-TATG
17041784 AAA-TTTTTGAAAAA
1 AAATTTTTTGAAAAA
17041798 AAAATAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.02
19 27 0.45
20 22 0.37
21 10 0.17
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
AAATTTTTTGAAAAATATG
Found at i:17041752 original size:20 final size:20
Alignment explanation
Indices: 17041729--17041798 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
17041719 ATTTGAAGAA
* *
17041729 TTTGGAAAAATATAAAATTT
1 TTTGAAAAAATATGAAATTT
17041749 TTTGAAAAAATATGAAATTT
1 TTTGAAAAAATATGAAATTT
* *
17041769 GTTTTAAAAATTATGAAA-TT
1 -TTTGAAAAAATATGAAATTT
17041789 TTTGAAAAAA
1 TTTGAAAAAA
17041799 AAATAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
19 8 0.19
20 20 0.47
21 15 0.35
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTGAAAAAATATGAAATTT
Found at i:17042058 original size:16 final size:15
Alignment explanation
Indices: 17042034--17042065 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
17042024 TTTTGAATTT
17042034 TTTTGGATTTTTTTA
1 TTTTGGATTTTTTTA
17042049 TTTTGAGATTTTTTTA
1 TTTTG-GATTTTTTTA
17042065 T
1 T
17042066 AATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (15 bp):
TTTTGGATTTTTTTA
Found at i:17042094 original size:15 final size:15
Alignment explanation
Indices: 17042060--17042094 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17042050 TTTGAGATTT
17042060 TTTTATAATTTTATA
1 TTTTATAATTTTATA
* *
17042075 ATTTATAATTTTTTA
1 TTTTATAATTTTATA
17042090 TTTTA
1 TTTTA
17042095 AAAAAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATAATTTTATA
Found at i:17042147 original size:19 final size:20
Alignment explanation
Indices: 17042102--17042154 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
17042092 TTAAAAAAAT
**
17042102 TTTAGAAGTTTTTTAGAGTTC
1 TTTAGAA-TTTTTTAGAACTC
*
17042123 TATAGAATTTTTTA-AACTC
1 TTTAGAATTTTTTAGAACTC
17042142 TTTAGAATTTTTT
1 TTTAGAATTTTTT
17042155 GAAATTGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.54
20 7 0.25
21 6 0.21
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTAGAATTTTTTAGAACTC
Found at i:17044609 original size:20 final size:20
Alignment explanation
Indices: 17044584--17044631 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
17044574 AAAGATCTTA
17044584 AAAAGAATGCTTCTTGAACT
1 AAAAGAATGCTTCTTGAACT
*
17044604 AAAAGAATGCTTCTTGAGCT
1 AAAAGAATGCTTCTTGAACT
17044624 AAAAGAAT
1 AAAAGAAT
17044632 TTAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (20 bp):
AAAAGAATGCTTCTTGAACT
Found at i:17070030 original size:36 final size:36
Alignment explanation
Indices: 17069990--17070112 Score: 174
Period size: 36 Copynumber: 3.4 Consensus size: 36
17069980 ATCAAGTAGG
*
17069990 AATTTTGCATACCATCAAGATCATCAATCAAATAAA
1 AATTTTGCATACCACCAAGATCATCAATCAAATAAA
* * *
17070026 AATTTTTCATACTACCAAGATCATCAATCAAATAGA
1 AATTTTGCATACCACCAAGATCATCAATCAAATAAA
* *
17070062 AATTTTGCATACTACCAAGATCATCAATCGAATAGAA
1 AATTTTGCATACCACCAAGATCATCAATCAAATA-AA
*
17070099 AATTTTTCATACCA
1 AATTTTGCATACCA
17070113 ATTCCTTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 64 0.83
37 13 0.17
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (36 bp):
AATTTTGCATACCACCAAGATCATCAATCAAATAAA
Found at i:17078495 original size:22 final size:23
Alignment explanation
Indices: 17078465--17078509 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
17078455 CACCTCATCC
*
17078465 ATCTCTAAACAA-TCGAGTAATG
1 ATCTCTAAACAATTCGAGAAATG
* *
17078487 ATCTTTAAATAATTCGAGAAATG
1 ATCTCTAAACAATTCGAGAAATG
17078510 GCATGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (23 bp):
ATCTCTAAACAATTCGAGAAATG
Found at i:17089603 original size:18 final size:18
Alignment explanation
Indices: 17089580--17089631 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
17089570 AAGGTTTGGT
17089580 TTTTCT-TTTTCCATTTTA
1 TTTTCTATTTT-CATTTTA
*
17089598 TTTTCTATTTTGATTTTA
1 TTTTCTATTTTCATTTTA
*
17089616 TTTT-TAGTTT-ATTTTA
1 TTTTCTATTTTCATTTTA
17089632 GATTCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 6 0.19
17 5 0.16
18 16 0.52
19 4 0.13
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTCTATTTTCATTTTA
Found at i:17092568 original size:800 final size:800
Alignment explanation
Indices: 17091028--17092630 Score: 2785
Period size: 800 Copynumber: 2.0 Consensus size: 800
17091018 TATATTTGCA
17091028 TACTAACCCTTTATGTTGTTTTTTTTATGTATTATTTTTAGTATATATCATTTTTTACTAACCCC
1 TACTAACCCTTTATGTTGTTTTTTTTATGTATTATTTTTAGTATATATCATTTTTTACTAACCCC
*
17091093 TTTTTCTTTTATTGTCTATGCATTCATTGACATCATTAAATCCTCATCACATCCATGCATTTTTG
66 TTTTTCTTTTATTGTCTATACATTCATTGACATCATTAAATCCTCATCACATCCATGCATTTTTG
*
17091158 CATTCAATTTCATGCATAATCTGATGGGTATATAAACATCACTATAAACCTGCACCCTAATTATG
131 CATTCAATTTCATGCATAATCTGATGGGTATATAAACATCACTATAAACATGCACCCTAATTATG
*
17091223 AAAAATTAAGGTTCAAGGATAGCTTGACTAACTTACCACAAGTATAATACCTGAGCTCAAGCTAG
196 AAAAATTAAGGTTCAAGGATAACTTGACTAACTTACCACAAGTATAATACCTGAGCTCAAGCTAG
*
17091288 AAGAATGGAATAAGATAATACGAGTAATCTTGAGAAATTGGAAAAAGCTCAAGATGATATCAAAA
261 AAGAATGGAATAAGATAAAACGAGTAATCTTGAGAAATTGGAAAAAGCTCAAGATGATATCAAAA
*
17091353 GAGAATTGAACAAGATCCTTGAAGCTTTGAGTAAGCCAAATAAGGGAAATGAGGTAGAGGAAGAT
326 GAGAATTGAACAAGATCCTTGAAGCTTTGAGTAAGCCAAATAAGGGAAAAGAGGTAGAGGAAGAT
* * *
17091418 GTTTTACATGAACTTTTTGATCCATTGTATCCTTTCAGTTATGGCCCACCTTAAGCCCAATCCAC
391 ATTTTACATGAACTTTTTGATCCACTGTATCCTTTCAGTTATGGCCCACCTCAAGCCCAATCCAC
* *
17091483 TTTAAGCCTACTATCATAACAATTTACATTTTTGATAGGCTATACTTACATAGAAATATCGCCTA
456 TCTAAGCCTACTATCATAACAATTTACATTTTTGATAGGCTATACTTACACAGAAATATCGCCTA
** * * *
17091548 CTCCCAGCAAAGGGAATGTCCAAAGCTATAACAACCCTAGCTTTACTGAAAAGGTAGTTGAATTG
521 CTCCCAAAAAAAGAAATGTCCAAAGCTATAACAACCCTAGCTTTACTGAAAAGGTAGTTGAATCG
17091613 ATCCAAGTTCCTAATTTAGACATTCCAAAAGAGAAATTGAAAATGGTTTAAGCTTTAGAAGATTT
586 ATCCAAGTTCCTAATTTAGACATTCCAAAAGAGAAATTGAAAATGGTTTAAGCTTTAGAAGATTT
* **
17091678 AAAAGTTGATTACAAGATGAACATGCTCGCTGAGAGGTTATGAGCTATTGAGGGGATAAAATTTT
651 AAAAGTTGATTACAAGATGAACATGCTCGCTGAGAGGTTATGAGATATTGAAAGGATAAAATTTT
* * *
17091743 ATGGCTTCATGGATGCTACTGGACTTTATTTGGTCCTAGATGTTGTGATTTTTTAAAATTTTAAA
716 ATGGCTCCATGGATGCTACTGGACTTTATTTAGTCCCAGATGTTGTGATTTTTTAAAATTTTAAA
17091808 AAGCTTTAAAGTTTAAAAAG
781 AAGCTTTAAAGTTTAAAAAG
17091828 TACTAACCCTTTATGTTGTTTTTTTTATGTATTATTTTTAGTATATATCATTTTTTACTAACCCC
1 TACTAACCCTTTATGTTGTTTTTTTTATGTATTATTTTTAGTATATATCATTTTTTACTAACCCC
* * *
17091893 TTTTTCTTTTATTGTTTATACATTCGTTGACATCATTAAATCTTCATCACATCCATGCATTTTTG
66 TTTTTCTTTTATTGTCTATACATTCATTGACATCATTAAATCCTCATCACATCCATGCATTTTTG
* * *
17091958 CATTCAGTTTCATGCATAATCTGATGGTTATATAAACATCACTATAAACATGCACCTTAATTATG
131 CATTCAATTTCATGCATAATCTGATGGGTATATAAACATCACTATAAACATGCACCCTAATTATG
*
17092023 AAAAATTAAGGTTCAAGGATAACTTGACTAACTTACCACAAGTATAATACCTGAGTTCAAGCTAG
196 AAAAATTAAGGTTCAAGGATAACTTGACTAACTTACCACAAGTATAATACCTGAGCTCAAGCTAG
*
17092088 AAGAATGGAATAAGATAAAACGAGTAATCTTGAGAAATTGGAAAAAGCTCAAGATGATATCAAAG
261 AAGAATGGAATAAGATAAAACGAGTAATCTTGAGAAATTGGAAAAAGCTCAAGATGATATCAAAA
* *
17092153 GAGAATTGAGCAAGATCCTTGAAGCTTTGAGTAAGCCAAATGAGGGAAAAGAGGTAGAGGAAGAT
326 GAGAATTGAACAAGATCCTTGAAGCTTTGAGTAAGCCAAATAAGGGAAAAGAGGTAGAGGAAGAT
*
17092218 ATTTTACATGAACTTTTTGATCCACTGTATCCTTTCGGTTATGGCCCACCTCAAGCCCAATCCAC
391 ATTTTACATGAACTTTTTGATCCACTGTATCCTTTCAGTTATGGCCCACCTCAAGCCCAATCCAC
* * *
17092283 TCTAAGCCTACTATCATAACAATTTGCATTTTTGATAGGCTATGCTTACACAGAAATATCGCTTA
456 TCTAAGCCTACTATCATAACAATTTACATTTTTGATAGGCTATACTTACACAGAAATATCGCCTA
* *
17092348 CTCTCAAAAAAAGAAATGTCCAAAGCTATAACAACCCTAGCTTTA-TTAAAAGGGTAGTTGAATC
521 CTCCCAAAAAAAGAAATGTCCAAAGCTATAACAACCCTAGCTTTACTGAAAA-GGTAGTTGAATC
* *
17092412 GGTCCAAGTTCCTAATTTAGACATTCCAAAAGAGAAATTGAAAATGGTTTAGGCTTTAGAAGATT
585 GATCCAAGTTCCTAATTTAGACATTCCAAAAGAGAAATTGAAAATGGTTTAAGCTTTAGAAGATT
* * * *
17092477 TAAAAGTTGATTACAAGATGAACATGCTCGCTGAGAGGTTATGAGATGTTGAAATGATAGATTTT
650 TAAAAGTTGATTACAAGATGAACATGCTCGCTGAGAGGTTATGAGATATTGAAAGGATAAAATTT
*
17092542 TATGGCTCCATGGATGTTACTGGACTTTATTTAGTCCCAGATGTTGTGATTTTTTAAAATTTTAA
715 TATGGCTCCATGGATGCTACTGGACTTTATTTAGTCCCAGATGTTGTGATTTTTTAAAATTTTAA
*
17092607 AAAGTTTTAAAGTTTAAAAAG
780 AAAGCTTTAAAGTTTAAAAAG
17092628 TAC
1 TAC
17092631 AATGGTACTT
Statistics
Matches: 757, Mismatches: 45, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
799 5 0.01
800 752 0.99
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (800 bp):
TACTAACCCTTTATGTTGTTTTTTTTATGTATTATTTTTAGTATATATCATTTTTTACTAACCCC
TTTTTCTTTTATTGTCTATACATTCATTGACATCATTAAATCCTCATCACATCCATGCATTTTTG
CATTCAATTTCATGCATAATCTGATGGGTATATAAACATCACTATAAACATGCACCCTAATTATG
AAAAATTAAGGTTCAAGGATAACTTGACTAACTTACCACAAGTATAATACCTGAGCTCAAGCTAG
AAGAATGGAATAAGATAAAACGAGTAATCTTGAGAAATTGGAAAAAGCTCAAGATGATATCAAAA
GAGAATTGAACAAGATCCTTGAAGCTTTGAGTAAGCCAAATAAGGGAAAAGAGGTAGAGGAAGAT
ATTTTACATGAACTTTTTGATCCACTGTATCCTTTCAGTTATGGCCCACCTCAAGCCCAATCCAC
TCTAAGCCTACTATCATAACAATTTACATTTTTGATAGGCTATACTTACACAGAAATATCGCCTA
CTCCCAAAAAAAGAAATGTCCAAAGCTATAACAACCCTAGCTTTACTGAAAAGGTAGTTGAATCG
ATCCAAGTTCCTAATTTAGACATTCCAAAAGAGAAATTGAAAATGGTTTAAGCTTTAGAAGATTT
AAAAGTTGATTACAAGATGAACATGCTCGCTGAGAGGTTATGAGATATTGAAAGGATAAAATTTT
ATGGCTCCATGGATGCTACTGGACTTTATTTAGTCCCAGATGTTGTGATTTTTTAAAATTTTAAA
AAGCTTTAAAGTTTAAAAAG
Found at i:17095697 original size:22 final size:22
Alignment explanation
Indices: 17095665--17095811 Score: 91
Period size: 22 Copynumber: 6.6 Consensus size: 22
17095655 TTAAAAGAGT
*
17095665 TTTTCAATGTGAACCTTTGAAA
1 TTTTGAATGTGAACCTTTGAAA
* **
17095687 TTTTGAGTGTGAATTTTTGAAA
1 TTTTGAATGTGAACCTTTGAAA
* *
17095709 TTTTGAATGTGAA--TTTCTAATT
1 TTTTGAATGTGAACCTTT-GAA-A
**
17095731 TTTTGAATGTGAGTCTTTGAAA
1 TTTTGAATGTGAACCTTTGAAA
* * * * *
17095753 CTTTGGATGTGAATCTCTAAAA
1 TTTTGAATGTGAACCTTTGAAA
* * *
17095775 GTTTTGGAATGAGAATCTTTAAAA
1 -TTTT-GAATGTGAACCTTTGAAA
*
17095799 TTTTGGATGTGAA
1 TTTTGAATGTGAA
17095812 TCCAAAATTT
Statistics
Matches: 98, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.03
21 2 0.02
22 66 0.67
23 9 0.09
24 18 0.18
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (22 bp):
TTTTGAATGTGAACCTTTGAAA
Found at i:17095735 original size:44 final size:44
Alignment explanation
Indices: 17095687--17095892 Score: 146
Period size: 44 Copynumber: 4.6 Consensus size: 44
17095677 ACCTTTGAAA
* * * *
17095687 TTTTGAGTGTGAATTTTTGAAATTTTGAATGTGAATTTCTAATT
1 TTTTGAATGTGAATCTTTGAAACTTTGAATGTGAATCTCTAATT
* * *
17095731 TTTTGAATGTGAGTCTTTGAAACTTTGGATGTGAATCTCTAAAAGT
1 TTTTGAATGTGAATCTTTGAAACTTTGAATGTGAATCTCT--AATT
* * * * * *
17095777 TTTGGAATGAGAATCTTTAAAATTTTGGATGTGAATC-CAAAATT
1 TTTTGAATGTGAATCTTTGAAACTTTGAATGTGAATCTC-TAATT
* ** * * * *
17095821 TTTCGAATAAGAATCTTT-AAAGTTTCAAATGTGAATCCCAAAATT
1 TTTTGAATGTGAATCTTTGAAACTTT-GAATGTGAATCTC-TAATT
** *
17095866 TTTCAAATGAGAATCTTTGAAACTTTG
1 TTTTGAATGTGAATCTTTGAAACTTTG
17095893 GGTGAATTTC
Statistics
Matches: 133, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
43 6 0.05
44 62 0.47
45 24 0.18
46 41 0.31
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (44 bp):
TTTTGAATGTGAATCTTTGAAACTTTGAATGTGAATCTCTAATT
Found at i:17095792 original size:24 final size:23
Alignment explanation
Indices: 17095754--17095813 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
17095744 TCTTTGAAAC
*
17095754 TTTGGATGTGAATCTCTAAAAGT
1 TTTGGATGAGAATCTCTAAAAGT
*
17095777 TTTGGAATGAGAATCTTTAAAA-T
1 TTTGG-ATGAGAATCTCTAAAAGT
*
17095800 TTTGGATGTGAATC
1 TTTGGATGAGAATC
17095814 CAAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.24
23 11 0.33
24 14 0.42
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (23 bp):
TTTGGATGAGAATCTCTAAAAGT
Found at i:17095879 original size:45 final size:45
Alignment explanation
Indices: 17095759--17095883 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 45
17095749 GAAACTTTGG
* * * ***
17095759 ATGTGAATCTCTAAAAGTTTTGGAATGAGAATCTTTAAAATTTTGG
1 ATGTGAATC-CCAAAATTTTTCGAATGAGAATCTTTAAAATTTCAA
* *
17095805 ATGTGAAT-CCAAAATTTTTCGAATAAGAATCTTTAAAGTTTCAA
1 ATGTGAATCCCAAAATTTTTCGAATGAGAATCTTTAAAATTTCAA
*
17095849 ATGTGAATCCCAAAATTTTTCAAATGAGAATCTTT
1 ATGTGAATCCCAAAATTTTTCGAATGAGAATCTTT
17095884 GAAACTTTGG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 36 0.53
45 24 0.35
46 8 0.12
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (45 bp):
ATGTGAATCCCAAAATTTTTCGAATGAGAATCTTTAAAATTTCAA
Found at i:17096181 original size:19 final size:19
Alignment explanation
Indices: 17096153--17096197 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
17096143 CTTGTGAATC
17096153 TAAA-TTCTTG-AGAATTTT
1 TAAAGTTCTTGCA-AATTTT
17096171 TAAAGTTCTTGCAAATTTT
1 TAAAGTTCTTGCAAATTTT
17096190 TAAAGTTC
1 TAAAGTTC
17096198 ATGCGAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (19 bp):
TAAAGTTCTTGCAAATTTT
Found at i:17096310 original size:17 final size:17
Alignment explanation
Indices: 17096278--17096320 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
17096268 TACGAATTTT
*
17096278 TAAAACC-TTGTGAATC
1 TAAAACCTTTATGAATC
17096294 TAAAACCTTTATGAATC
1 TAAAACCTTTATGAATC
17096311 TAAAACCTTT
1 TAAAACCTTT
17096321 GCAAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (17 bp):
TAAAACCTTTATGAATC
Found at i:17096399 original size:27 final size:27
Alignment explanation
Indices: 17096346--17096400 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
17096336 TTTGTAAATC
*
17096346 TGTAAACTTTTGCAAATCTTGACTTTT
1 TGTAAACTTTTGCAAATCTTGAATTTT
17096373 TGTAAA-TTTTG-AAATCATTGCAATTTT
1 TGTAAACTTTTGCAAATC-TTG-AATTTT
17096400 T
1 T
17096401 TATGAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 8 0.32
27 12 0.48
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (27 bp):
TGTAAACTTTTGCAAATCTTGAATTTT
Found at i:17096726 original size:66 final size:65
Alignment explanation
Indices: 17096618--17096796 Score: 171
Period size: 67 Copynumber: 2.7 Consensus size: 65
17096608 AATTTTGGTC
* * * * * *
17096618 ATTCATCTTCAACCTTAACTCGATCCATGTCACTTTATTTTTTTAAACTACTA-TTCAATCTCAA
1 ATTCATCTTCAACC-TAGCTCGGTCTAAGTCATTTTATTTTTCTAAACTAC-AGTTCAATCTCAA
17096682 TA
64 TA
* * * *
17096684 ATTCATCTTCGACCTCAGCTCGGTCTAAGTCATTTTAGTTTTTCTAACCTGCAGTTCAATCTCGA
1 ATTCATCTTCAACCT-AGCTCGGTCTAAGTCATTTTA-TTTTTCTAAACTACAGTTCAATCTCAA
*
17096749 TT
64 TA
* * **
17096751 ACTCATTTTTTACCATAGCTCGGTCTAAGTCATTTTATTTTTCTAA
1 ATTCATCTTCAACC-TAGCTCGGTCTAAGTCATTTTATTTTTCTAA
17096797 CTTGTGGTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
65 1 0.01
66 39 0.41
67 53 0.56
68 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.43
Consensus pattern (65 bp):
ATTCATCTTCAACCTAGCTCGGTCTAAGTCATTTTATTTTTCTAAACTACAGTTCAATCTCAATA
Found at i:17096830 original size:67 final size:67
Alignment explanation
Indices: 17096700--17096827 Score: 179
Period size: 66 Copynumber: 1.9 Consensus size: 67
17096690 CTTCGACCTC
* *
17096700 AGCTCGGTCTAAGTCATTTTAGTTTTTCTAACCTGCAGTTCAATCTCGATTACTCATTTTTTACC
1 AGCTCGGTCTAAGTCATTTTAGTTTTTCTAACCTGCAGTTCAATCCCGATTAATCATTTTTTACC
17096765 AT
66 AT
* ** *
17096767 AGCTCGGTCTAAGTCATTTTA-TTTTTCTAACTTGTGGTTTAATCCC-AGTTAATCATTTTTT
1 AGCTCGGTCTAAGTCATTTTAGTTTTTCTAACCTGCAGTTCAATCCCGA-TTAATCATTTTTT
17096828 TACTGGGCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.02
66 32 0.59
67 21 0.39
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (67 bp):
AGCTCGGTCTAAGTCATTTTAGTTTTTCTAACCTGCAGTTCAATCCCGATTAATCATTTTTTACC
AT
Found at i:17098414 original size:46 final size:44
Alignment explanation
Indices: 17098363--17098452 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 44
17098353 ATTTTTAAAA
* *
17098363 TAAATTCATGAA-TCTTATCAAATTATTGGAGAACTTTTCATAAATT
1 TAAATTCATGAATTC-TACCAAACTATTGGAGAA--TTTCATAAATT
* *
17098409 TAAATTTATGAATTCTACCAAACTATTGGATAATTTCATAAATT
1 TAAATTCATGAATTCTACCAAACTATTGGAGAATTTCATAAATT
17098453 AATTTTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 11 0.28
46 26 0.67
47 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (44 bp):
TAAATTCATGAATTCTACCAAACTATTGGAGAATTTCATAAATT
Done.