Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1587
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: 111594
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2163 original size:67 final size:67
Alignment explanation
Indices: 2079--2212 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
2069 AGGACGTATG
2079 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
1 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
2144 AT
66 AT
2146 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
1 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
2211 AT
66 AT
2213 TAAGACATCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (67 bp):
GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
AT
Found at i:2747 original size:13 final size:14
Alignment explanation
Indices: 2722--2753 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2712 TGATGAGTTT
2722 GCTG-GTAGTGGTG
1 GCTGAGTAGTGGTG
2735 GCTGAGTAG-GGTG
1 GCTGAGTAGTGGTG
2748 GCTGAG
1 GCTGAG
2754 ATTAAAGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.12, C:0.09, G:0.53, T:0.25
Consensus pattern (14 bp):
GCTGAGTAGTGGTG
Found at i:3062 original size:20 final size:20
Alignment explanation
Indices: 3022--3093 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
3012 AATTGCCTGC
* *
3022 ATGTATCAATAC-ATTAAGA
1 ATGTATCGATACAATGAAGA
3041 ATGTATCGATACAATGAAGA
1 ATGTATCGATACAATGAAGA
* *
3061 ATTTATCGATATAATGAAGA
1 ATGTATCGATACAATGAAGA
*
3081 ATGTATTGATACA
1 ATGTATCGATACA
3094 TTTTCATTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 11 0.24
20 34 0.76
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGAAGA
Found at i:6180 original size:23 final size:23
Alignment explanation
Indices: 6137--6181 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6127 AATATTATTT
* *
6137 ATAAATTAAATATAAATAATATC
1 ATAAATTAAATAGAAAAAATATC
6160 ATAAA-TAAATAAGAAAAAATAT
1 ATAAATTAAAT-AGAAAAAATAT
6182 TTATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
ATAAATTAAATAGAAAAAATATC
Found at i:9744 original size:2 final size:2
Alignment explanation
Indices: 9737--9780 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
9727 TTGATCTCTT
*
9737 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9779 TA
1 TA
9781 ACGGAGATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14443 original size:2 final size:2
Alignment explanation
Indices: 14436--14473 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14426 CACTCTGTAA
14436 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14474 TTGTAATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16819 original size:15 final size:15
Alignment explanation
Indices: 16779--16819 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
16769 GTATTAAGTC
*
16779 AAATTA-AATTAAAA
1 AAATTATAATTCAAA
*
16793 AAATTAT-GTTCAAA
1 AAATTATAATTCAAA
16807 AAATTATAATTCA
1 AAATTATAATTCA
16820 TAATAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (15 bp):
AAATTATAATTCAAA
Found at i:18925 original size:11 final size:10
Alignment explanation
Indices: 18902--18935 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
18892 TTTCTTAATT
*
18902 TATATATATA
1 TATAAATATA
18912 TATAAATAATA
1 TATAAAT-ATA
18923 TATAAATATA
1 TATAAATATA
18933 TAT
1 TAT
18936 TTTGAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATAAATATA
Found at i:18973 original size:18 final size:18
Alignment explanation
Indices: 18947--18982 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18937 TTGAACATAA
*
18947 ATATGTTATATTTTTATT
1 ATATATTATATTTTTATT
18965 ATATATTATATTTTTATT
1 ATATATTATATTTTTATT
18983 GATTACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
ATATATTATATTTTTATT
Found at i:19076 original size:24 final size:24
Alignment explanation
Indices: 19047--19093 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
19037 TATATTAAAA
19047 TTTT-AAATATTAAATTAATAATTT
1 TTTTAAAATATTAAATTAA-AATTT
19071 TTTTAAAATATTAAATTAAAATT
1 TTTTAAAATATTAAATTAAAATT
19094 AAACTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTAAAATATTAAATTAAAATTT
Found at i:19101 original size:24 final size:25
Alignment explanation
Indices: 19051--19105 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
19041 TTAAAATTTT
****
19051 AAATATTAAATTAATAATTTTTTTA
1 AAATATTAAATTAATAATTAAACTA
19076 AAATATTAAATTAA-AATTAAACTA
1 AAATATTAAATTAATAATTAAACTA
19100 AAATAT
1 AAATAT
19106 AATATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATTAAATTAATAATTAAACTA
Found at i:20441 original size:125 final size:125
Alignment explanation
Indices: 20219--20469 Score: 475
Period size: 125 Copynumber: 2.0 Consensus size: 125
20209 TGGCTTTGCT
* *
20219 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTGTTGCCTTGGCACAACTTT
1 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTATTGCCTTGGAACAACTTT
*
20284 TATTTATAGTTGTGAATATAAAAGGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
66 TATTTATAGTTGTGAATATAAAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
20344 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTATTGCCTTGGAACAACTTT
1 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTATTGCCTTGGAACAACTTT
20409 TATTTATAGTTGTGAATATAAAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
66 TATTTATAGTTGTGAATATAAAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
20469 T
1 T
20470 TATTCATTTC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (125 bp):
TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTATTGCCTTGGAACAACTTT
TATTTATAGTTGTGAATATAAAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
Found at i:21071 original size:23 final size:23
Alignment explanation
Indices: 21045--21090 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21035 ATTAATTTTT
21045 TATTATATTTAAAA-TATATATAA
1 TATTAT-TTTAAAATTATATATAA
*
21068 TATTATTTTAAAATTATTTATAA
1 TATTATTTTAAAATTATATATAA
21091 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTATTTTAAAATTATATATAA
Found at i:21517 original size:19 final size:20
Alignment explanation
Indices: 21493--21542 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
21483 TTATAATTAA
*
21493 TAAAAAATAATTTTTAAT-T
1 TAAAAAATAATTTTAAATAT
*
21512 TAAAAAATTA-TTTAAATAT
1 TAAAAAATAATTTTAAATAT
21531 TAATAAAATAAT
1 TAA-AAAATAAT
21543 AATATATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAAATAATTTTAAATAT
Found at i:21644 original size:22 final size:21
Alignment explanation
Indices: 21559--21637 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 21
21549 TCAAATGATT
21559 TAAAATTTAAA-ATTTT-ATA
1 TAAAATTTAAATATTTTAATA
* *
21578 TAAAA--TAAATATAAATTACGTA
1 TAAAATTTAAATAT--TTTA-ATA
*
21600 TTAAATTTAAATATTTTAATA
1 TAAAATTTAAATATTTTAATA
21621 TAAAATTTAAA-ATTTTA
1 TAAAATTTAAATATTTTA
21638 TATTATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 5 0.11
20 8 0.17
21 12 0.26
22 9 0.19
24 7 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (21 bp):
TAAAATTTAAATATTTTAATA
Found at i:21721 original size:20 final size:20
Alignment explanation
Indices: 21674--21722 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21664 CTTTTATAAG
*
21674 ATTTA-AATAATTTTTTAAT
1 ATTTATAATTATTTTTTAAT
*
21693 A-TTATTAATTATTTTTTATT
1 ATTTA-TAATTATTTTTTAAT
21713 ATTTATAATT
1 ATTTATAATT
21723 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 18 0.72
21 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTATAATTATTTTTTAAT
Found at i:21741 original size:15 final size:15
Alignment explanation
Indices: 21723--21772 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
21713 ATTTATAATT
21723 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
21738 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
*
21752 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
21767 TTAAAA
1 TTAAAA
21773 TACTTCTCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:21743 original size:14 final size:14
Alignment explanation
Indices: 21726--21774 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
21716 TATAATTTTA
21726 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
21740 AAAATATTAAATTT
1 AAAATATAAAAATT
21754 AATAATATAAAAATT
1 AA-AATATAAAAATT
21769 AAAATA
1 AAAATA
21775 CTTCTCCACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:21825 original size:26 final size:26
Alignment explanation
Indices: 21796--21847 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
21786 ATTATAATAT
21796 AGAGATTGCCACTGAACCACTACCAC
1 AGAGATTGCCACTGAACCACTACCAC
21822 AGAGATTGCCACTGAACCACTACCAC
1 AGAGATTGCCACTGAACCACTACCAC
21848 CTTGACAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (26 bp):
AGAGATTGCCACTGAACCACTACCAC
Found at i:22159 original size:18 final size:19
Alignment explanation
Indices: 22121--22165 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
22111 TGAGCAAGTC
*
22121 AAAT-TTAAATTATTATTT
1 AAATATTAAATTATAATTT
22139 AAA-ATTAAATT-TAATTAT
1 AAATATTAAATTATAATT-T
22157 AAATATTAA
1 AAATATTAA
22166 TATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTAAATTATAATTT
Found at i:23101 original size:20 final size:20
Alignment explanation
Indices: 23073--23124 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 20
23063 TATAATTAAA
23073 TATATTTTTAATAAATTTTTT
1 TATATTTTTAAT-AATTTTTT
23094 TATATTTTTAATAATTTTTT
1 TATATTTTTAATAATTTTTT
23114 TATATTTTTAA
1 TATATTTTTAA
23125 AATACATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATATTTTTAATAATTTTTT
Found at i:25251 original size:12 final size:13
Alignment explanation
Indices: 25234--25262 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25224 TTTTAAATTT
25234 TTTTGCTTTTG-C
1 TTTTGCTTTTGAC
25246 TTTTGCTTTTGAC
1 TTTTGCTTTTGAC
25259 TTTT
1 TTTT
25263 TTGTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.03, C:0.14, G:0.14, T:0.69
Consensus pattern (13 bp):
TTTTGCTTTTGAC
Found at i:28022 original size:13 final size:13
Alignment explanation
Indices: 28004--28028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27994 CATAAAGTGT
28004 TGTATCGATACAA
1 TGTATCGATACAA
28017 TGTATCGATACA
1 TGTATCGATACA
28029 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:28044 original size:32 final size:33
Alignment explanation
Indices: 27984--28049 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
27974 TTCAACGACT
27984 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
28017 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
28049 T
1 T
28050 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:28108 original size:13 final size:13
Alignment explanation
Indices: 28090--28114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28080 ATTACTCAAA
28090 TGTATCGATACAT
1 TGTATCGATACAT
28103 TGTATCGATACA
1 TGTATCGATACA
28115 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:43532 original size:29 final size:29
Alignment explanation
Indices: 43493--44129 Score: 707
Period size: 29 Copynumber: 21.7 Consensus size: 29
43483 TCACCCTTCA
43493 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
43522 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
43551 AAAGCTCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
43580 AAAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
43607 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
43637 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
43666 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
43695 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
43724 AAAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
43751 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
*
43781 AAAGCCTACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
43810 AAAGCCCACAAGTTAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
43839 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
43868 AAAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
43895 AAAGCCCACAAATTAGTGGCACCTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTTC
* * *
43925 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
43954 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * * *
43984 TTTTGTAAGCTCACAACTCCGTAGCACTCTTTTTCC
1 -----AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C
* * * *
44020 TTTTAAGCCCACAAGTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
44052 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
44081 AAAGCCCACAAGTTAGTGGCAATC--TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
*
44109 AAAGCCCATAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
44130 GCCTTTAAAA
Statistics
Matches: 526, Mismatches: 65, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
27 67 0.13
28 43 0.08
29 273 0.52
30 93 0.18
32 1 0.00
33 5 0.01
34 18 0.03
35 25 0.05
36 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:43636 original size:115 final size:115
Alignment explanation
Indices: 43488--44129 Score: 679
Period size: 115 Copynumber: 5.5 Consensus size: 115
43478 ATTCCTCACC
43488 CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAA
1 CTTC-AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAA
* * *
43553 AGCTCACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAAC-
65 AGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCT
* *
43603 CTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAA
1 CTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAA
43668 AGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTT
65 AGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATC-T
* * * * * *
43720 TTTCAAAGTCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCAA
1 CTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTTCAA
* *
43783 AGCCTACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTTAGTGGCATCTT
65 AGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATC-T
* * * *
43835 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAAC--CTTCAAA
1 CTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAA
* * * * *
43898 GCCCACAAATTAGTGGCACCTTTTTTCGAAGCCCACAAGTCGGTGGCATCT
66 GCCCACAAGTCAGTGGCATC-TTTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * * * * *
43949 TTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACTCCGTAGCACTCT
1 CTT-CAAAGCCCACAAGTCAGTGGCA-TCTTTTTC-----AAAGCCCACAAGTCAGTGGCA-TCT
* * * * *
44014 TTTTCCTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-
58 TTTT-C---AAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * *
44076 CTTTAAAAGCCCACAAGTTAGTGGCAATC--TTTAAAAGCCCATAAGTCAGTGGCA
1 C-TTCAAAGCCCACAAGTCAGTGGC-ATCTTTTTCAAAGCCCACAAGTCAGTGGCA
44130 GCCTTTAAAA
Statistics
Matches: 445, Mismatches: 58, Indels: 43
0.82 0.11 0.08
Matches are distributed among these distances:
114 69 0.16
115 218 0.49
116 10 0.02
117 44 0.10
120 15 0.03
121 15 0.03
122 1 0.00
124 2 0.00
125 4 0.01
127 23 0.05
128 44 0.10
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (115 bp):
CTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAA
GCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:43753 original size:144 final size:144
Alignment explanation
Indices: 43493--44129 Score: 877
Period size: 144 Copynumber: 4.3 Consensus size: 144
43483 TCACCCTTCA
*
43493 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCC
43558 ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAG
66 ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAG
43623 TGGCACCCTTTTTC
131 TGGCACCCTTTTTC
43637 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCC
43702 ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAG
66 ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAG
43767 TGGCACCCTTTTTC
131 TGGCACCCTTTTTC
* *
43781 AAAGCCTACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCC
*
43846 ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATTAG
66 ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAG
*
43911 TGGCACCTTTTTTC
131 TGGCACCCTTTTTC
* * * * * * *
43925 GAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGT
1 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTTC-----A
* * * * * * * *
43990 AAGCTCACAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
60 AAGCCCACAAGTCAGTGGCA-TCTTTTT-C---AAAGTCCACAAGTCAGTGGCAACC--TTC-AA
* * *
44055 AGCCCACAAGTCAGTGGCAACC--TTTA
117 AGCCCACAAATCAGTGGCACCCTTTTTC
* * *
44081 AAAGCCCACAAGTTAGTGGCAATC--TTTAAAAGCCCATAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTCAAAGCCCACAAGTCAGTGGCA
44130 GCCTTTAAAA
Statistics
Matches: 442, Mismatches: 36, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
144 325 0.74
145 8 0.02
150 16 0.04
151 7 0.02
152 1 0.00
155 39 0.09
156 20 0.05
157 6 0.01
158 20 0.05
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (144 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCC
ACAAGTCAGTGGCATCTTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAG
TGGCACCCTTTTTC
Found at i:44033 original size:34 final size:35
Alignment explanation
Indices: 43959--44033 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
43949 TTTCCAAAGT
* *
43959 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
*
43994 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
44028 CCACAA
1 CCACAA
44034 GTTAGTGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.28
35 26 0.72
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (35 bp):
CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
Found at i:44050 original size:34 final size:35
Alignment explanation
Indices: 43959--44050 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 35
43949 TTTCCAAAGT
* *
43959 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
* * *
43994 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
* * *
44028 CCACAAGTTAGTGGCACCCTTTT
1 CCACAACTCAGTGGCACTCTTTT
44051 CAAAAGCCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
34 22 0.46
35 26 0.54
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (35 bp):
CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
Found at i:44092 original size:28 final size:28
Alignment explanation
Indices: 44024--44175 Score: 173
Period size: 28 Copynumber: 5.3 Consensus size: 28
44014 TTTTCCTTTT
* *
44024 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
44054 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
44082 AAGCCCACAAGTTAGTGGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
44110 AAGCCCATAAGTCAGTGGCAGCCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
44138 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
44167 AAGCCCACA
1 AAGCCCACA
44176 CAAGTTGGTG
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.03
28 69 0.65
29 13 0.12
30 21 0.20
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:44407 original size:48 final size:48
Alignment explanation
Indices: 44211--44628 Score: 379
Period size: 48 Copynumber: 8.6 Consensus size: 48
44201 TCTGATATCG
* * * * **
44211 CTGGCCTTGAACCAGCATATTGGCGCCTTTATCTTTTAAACCCAATATA
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATC-TTTAAGTCCAATATA
* * * *
44260 GTTGGTCTTGAATCAGCACATTGGTACCTTCATCTTTAAGTCCAATGTA
1 -CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
* *
44309 GCCGGCCTAGAATCAGCACATTGGCACC-T--TC---AAGTCCAATATA
1 -CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
44352 GCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCA
1 -CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT-A
* * * * *
44401 CTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTAATATTG
1 CTGGCCTTGAATCAGCACATTGGCACC-TT--CATCTTTAAGTCCAATA-TA
* *
44453 CTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
* * * * *
44501 GCTGGCCTTGAATCAGTACATTGGTACCTT-ACCTTTAAGCCCAATATCG
1 -CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT-A
** * * *
44550 CTGGCCTTGAATCAGCGTATTGGCACCTT-GTCTTTAAGACCAATGT-
1 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
*
44596 CGTTGGCCTTGAATCAGCACATTGTCACCTTCA
1 C--TGGCCTTGAATCAGCACATTGGCACCTTCA
44629 AGTCTAACTG
Statistics
Matches: 304, Mismatches: 47, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.00
43 36 0.12
45 2 0.01
46 3 0.01
48 113 0.37
49 77 0.25
50 28 0.09
51 2 0.01
52 41 0.13
53 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (48 bp):
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
Found at i:44555 original size:149 final size:144
Alignment explanation
Indices: 44205--44628 Score: 448
Period size: 149 Copynumber: 2.9 Consensus size: 144
44195 TCTAAGTCTG
* * * * * * * * * *
44205 ATATCGCTGGCCTTGAACCAGCATATTGGCGCCTTTATCTTTTAAACCCAATATAGTTGGTCTTG
1 ATATAGCTGGCCTTGAATCAGCACATTGGC-ACTTCA-CCTTTAAGCCCAATATCGCTGGCCTTG
* * * *
44270 AATCAGCACATTGGTACCTT-CATCTTTAAGTCCAATGTAGCCGGCCTAGAATCAGCACATTGGC
64 AATCAGCATATTGGCACCTTGCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
44334 ACC-T--TCAAGTCCA
129 ACCTTCATCAAGTCCA
* * *
44347 ATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCACTGGCCTTGAA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGCCCAATATCGCTGGCCTTGAA
* * * * * *
44412 TCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTAATATTGCTGGCCTTGAATCAGCATATTGGC
66 TCAGCATATTGGCACC-TT-GCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
44477 ACCTTCATCTTTAAGTCCA
129 ACCTTCATC---AAGTCCA
* * *
44496 ATGTAGCTGGCCTTGAATCAGTACATTGGTACCTT-ACCTTTAAGCCCAATATCGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCACCTTTAAGCCCAATATCGCTGGCCTTGA
* * * * *
44560 ATCAGCGTATTGGCACCTTG--TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGTCA
65 ATCAGCATATTGGCACCTTGCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
44623 CCTTCA
130 CCTTCA
44629 AGTCTAACTG
Statistics
Matches: 233, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
140 34 0.15
141 6 0.03
142 27 0.12
143 40 0.17
144 1 0.00
145 41 0.18
146 2 0.01
147 1 0.00
148 2 0.01
149 76 0.33
150 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (144 bp):
ATATAGCTGGCCTTGAATCAGCACATTGGCACTTCACCTTTAAGCCCAATATCGCTGGCCTTGAA
TCAGCATATTGGCACCTTGCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
CTTCATCAAGTCCA
Found at i:45343 original size:19 final size:20
Alignment explanation
Indices: 45301--45352 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
45291 TTTCAACGAC
45301 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
*
45321 TTGTATCGATACAT-AAGTT
1 TTGTATCGATACATAAAGTG
45340 TTGTATCGATACA
1 TTGTATCGATACA
45353 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:45413 original size:13 final size:13
Alignment explanation
Indices: 45395--45419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45385 ATTACTCAAA
45395 TGTATCGATACAT
1 TGTATCGATACAT
45408 TGTATCGATACA
1 TGTATCGATACA
45420 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:45469 original size:52 final size:52
Alignment explanation
Indices: 45408--45525 Score: 236
Period size: 52 Copynumber: 2.3 Consensus size: 52
45398 ATCGATACAT
45408 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGTAAATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGTAAATTTGCCCAGA
45460 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGTAAATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGTAAATTTGCCCAGA
45512 TGTATCGATACACT
1 TGTATCGATACACT
45526 ATTAAATGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (52 bp):
TGTATCGATACACTGATCTTTGTATCGATACATGCAGGTAAATTTGCCCAGA
Found at i:54044 original size:53 final size:53
Alignment explanation
Indices: 53977--54091 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 53
53967 CGATTAATTT
* * **
53977 AATATTAAATCCGATTGAC-CAAAATCTAAAATAATCTAAATTTAATTAACTCG
1 AATATTAAACCCGATTAACTC-AAATAAAAAATAATCTAAATTTAATTAACTCG
* * **
54030 AATATTGAACCCGATTAACTCAAATAAAAAATAATCTTAATTTAATTAACTTA
1 AATATTAAACCCGATTAACTCAAATAAAAAATAATCTAAATTTAATTAACTCG
54083 AATATTAAA
1 AATATTAAA
54092 TTTAATTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 51 0.98
54 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (53 bp):
AATATTAAACCCGATTAACTCAAATAAAAAATAATCTAAATTTAATTAACTCG
Found at i:54148 original size:16 final size:16
Alignment explanation
Indices: 54087--54167 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 16
54077 AACTTAAATA
*
54087 TTAAATTT-AATTAAT
1 TTAAATTTAAAATAAT
* *
54102 TTAAACTTAAAAAAAT
1 TTAAATTTAAAATAAT
* *
54118 TTAAAATCT-ATATAAT
1 TT-AAATTTAAAATAAT
54134 TTAAATTTAAAATAAT
1 TTAAATTTAAAATAAT
* *
54150 TTTAATATAAAATTAAT
1 TTAAATTTAAAA-TAAT
54167 T
1 T
54168 AAAAAATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
15 12 0.24
16 30 0.59
17 9 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:54839 original size:3 final size:3
Alignment explanation
Indices: 54831--54877 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
54821 CGGAAATGAA
*
54831 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
54878 AGTTGTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58501 original size:19 final size:19
Alignment explanation
Indices: 58477--58516 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
58467 ATTAAAGATT
58477 TAAATTTTATT-AAATAAAA
1 TAAATTTT-TTAAAATAAAA
58496 TAAATTTTTTAAAATAAAA
1 TAAATTTTTTAAAATAAAA
58515 TA
1 TA
58517 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTTTTAAAATAAAA
Found at i:59554 original size:21 final size:21
Alignment explanation
Indices: 59530--59570 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
59520 GTGGTTCTAT
59530 AAGAACCTTCCAAATATATAG
1 AAGAACCTTCCAAATATATAG
*
59551 AAGAACCTTCCAAATGTATA
1 AAGAACCTTCCAAATATATA
59571 CGACGTACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (21 bp):
AAGAACCTTCCAAATATATAG
Found at i:62589 original size:15 final size:16
Alignment explanation
Indices: 62563--62592 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62553 AAAGCTTCTT
62563 TTTTTTATATTTATTA
1 TTTTTTATATTTATTA
62579 TTTTTTA-ATTTATT
1 TTTTTTATATTTATT
62593 TTTATGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATATTTATTA
Found at i:63960 original size:135 final size:133
Alignment explanation
Indices: 63767--64013 Score: 334
Period size: 135 Copynumber: 1.8 Consensus size: 133
63757 CTTAAATTGA
* * *
63767 AAAGGGGTTAACCAAGACAAAATTGATAAAGTAAACTAAAAGAGACTAGGGCGAAACCTAAGTCG
1 AAAGGGGTTAACCAAGACAAAATCGATAAAGTAAACTAAAAAAGACTAAGGCGAAACCTAAGTCG
63832 AAAAGAGTGTTGATCAAG-GCTGAAAATGATAAAGTCAACTAAAAGAGACGAATGTGGAACCGAA
66 AAAAGAGTGTTGAT-AAGCG-TGAAAATGATAAAGTCAACTAAAAGAGACGAATGTGGAACCGAA
63896 GTCAG
129 GTCAG
* * * * * *
63901 AAAGGGTGTTGACCAAGGCAAAATCGATAAAGTCAATTAAAAAAGACTAAGGTGTAACCTAAGTC
1 AAAGGG-GTTAACCAAGACAAAATCGATAAAGTAAACTAAAAAAGACTAAGGCGAAACCTAAGTC
* * * * *
63966 GGAAAGGGTGTTGATTAGCGTGAAACTGATAACGTCAACTAAAAGAGA
65 GAAAAGAGTGTTGATAAGCGTGAAAATGATAAAGTCAACTAAAAGAGA
64014 TTAGGGAGAA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
134 34 0.35
135 63 0.65
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.18
Consensus pattern (133 bp):
AAAGGGGTTAACCAAGACAAAATCGATAAAGTAAACTAAAAAAGACTAAGGCGAAACCTAAGTCG
AAAAGAGTGTTGATAAGCGTGAAAATGATAAAGTCAACTAAAAGAGACGAATGTGGAACCGAAGT
CAG
Found at i:63965 original size:67 final size:66
Alignment explanation
Indices: 63767--64196 Score: 316
Period size: 67 Copynumber: 6.5 Consensus size: 66
63757 CTTAAATTGA
* * ** * * *
63767 AAAGGG-GTTAACCAAGACAAAATTGATAAAGTAAACTAAAAGAGACTAGGGCGAAACCTAAGTC
1 AAAGGGTGTTGACCAAGGCAAAACCGATAAAGTCAACTAAAAGAGACTAAGGTGAAACCTAAGTC
63831 G
66 G
* * * * * * *
63832 AAAAGAGTGTTGATCAAGGCTGAAAA-TGATAAAGTCAACTAAAAGAGACGAATGTGGAACCGAA
1 -AAAGGGTGTTGACCAAGGC--AAAACCGATAAAGTCAACTAAAAGAGACTAAGGTGAAACCTAA
63896 GTCAG
63 GTC-G
* * * *
63901 AAAGGGTGTTGACCAAGGCAAAATCGATAAAGTCAATTAAAAAAGACTAAGGTGTAACCTAAGTC
1 AAAGGGTGTTGACCAAGGCAAAACCGATAAAGTCAACTAAAAGAGACTAAGGTGAAACCTAAGTC
63966 GG
66 -G
** ** * * * * *
63968 AAAGGGTGTTGA-TTAGCGTGAAACTGATAACGTCAACTAAAAGAGATTAGGGAGAAACCTAAGT
1 AAAGGGTGTTGACCAAG-GCAAAACCGATAAAGTCAACTAAAAGAGACTAAGGTGAAACCTAAGT
64032 CG
65 CG
* * * * * * *
64034 AAATGGGTGTTGA-CTAGG-ATGAAACCAATAAAATCAACTGAAAGATACCAGGGT-AGAACCTA
1 AAA-GGGTGTTGACCAAGGCA--AAACCGATAAAGTCAACTAAAAGAGACTAAGGTGA-AACCTA
64096 AGTCG
62 AGTCG
* * * * * * *
64101 -AAGGGTGTTAACCAAAGCGAAACCGATAAAGTCAACTAAAAAAGATTAAGGCGAAACCAAAGTC
1 AAAGGGTGTTGACCAAGGCAAAACCGATAAAGTCAACTAAAAGAGACTAAGGTGAAACCTAAGTC
*
64165 A
66 G
* * *
64166 AAATGGTGTTGACCAAAGCGAAACCGATAAA
1 AAAGGGTGTTGACCAAGGCAAAACCGATAAA
64197 ACCAAAAGGT
Statistics
Matches: 288, Mismatches: 62, Indels: 28
0.76 0.16 0.07
Matches are distributed among these distances:
65 41 0.14
66 51 0.18
67 140 0.49
68 51 0.18
69 5 0.02
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (66 bp):
AAAGGGTGTTGACCAAGGCAAAACCGATAAAGTCAACTAAAAGAGACTAAGGTGAAACCTAAGTC
G
Found at i:65284 original size:67 final size:67
Alignment explanation
Indices: 65195--65337 Score: 162
Period size: 67 Copynumber: 2.1 Consensus size: 67
65185 TTAACGGCCA
* * *
65195 AAACTGATAACAAGCTAAAGTAAGAGATCATGATGGGGTATA-TGTGGTTCCCATAAAAAGCCGA
1 AAACTGATAACAAGCTAAAGTAAAAGATCATGATAGGGAATATTG-GGTTCCCATAAAAAGCCGA
65259 AAC
65 AAC
* * ** * * * *
65262 AAACTGATAATAAGTTGGAGTAAAAGATTATGATAGGGAATATTGGGTTCCCATCAACAGCTGAA
1 AAACTGATAACAAGCTAAAGTAAAAGATCATGATAGGGAATATTGGGTTCCCATAAAAAGCCGAA
65327 AC
66 AC
*
65329 AAATTGATA
1 AAACTGATA
65338 GAAGATCATG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
67 61 0.97
68 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.24
Consensus pattern (67 bp):
AAACTGATAACAAGCTAAAGTAAAAGATCATGATAGGGAATATTGGGTTCCCATAAAAAGCCGAA
AC
Found at i:71677 original size:71 final size:71
Alignment explanation
Indices: 71561--71713 Score: 306
Period size: 71 Copynumber: 2.2 Consensus size: 71
71551 CATATATGAA
71561 TGTATCGATACATGCTTGTAATGTATCGATACTAGACCGTGTCAAGGTAAAATTTTGCAATTTGG
1 TGTATCGATACATGCTTGTAATGTATCGATACTAGACCGTGTCAAGGTAAAATTTTGCAATTTGG
71626 AAAAAT
66 AAAAAT
71632 TGTATCGATACATGCTTGTAATGTATCGATACTAGACCGTGTCAAGGTAAAATTTTGCAATTTGG
1 TGTATCGATACATGCTTGTAATGTATCGATACTAGACCGTGTCAAGGTAAAATTTTGCAATTTGG
71697 AAAAAT
66 AAAAAT
71703 TGTATCGATAC
1 TGTATCGATAC
71714 TTTCACTTAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (71 bp):
TGTATCGATACATGCTTGTAATGTATCGATACTAGACCGTGTCAAGGTAAAATTTTGCAATTTGG
AAAAAT
Found at i:74788 original size:13 final size:13
Alignment explanation
Indices: 74770--74794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74760 ATATTGCTTA
74770 GTATCGATACATT
1 GTATCGATACATT
74783 GTATCGATACAT
1 GTATCGATACAT
74795 GTTCATAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:74809 original size:32 final size:33
Alignment explanation
Indices: 74749--74812 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
74739 CACACCCAGA
*
74749 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCATAGTATCGATACAT
*
74782 TGTATCGATACATGTT-CATAGTATCGATACA
1 TGTATCGATACATATTGCATAGTATCGATACA
74813 CCTTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTGCATAGTATCGATACAT
Found at i:75184 original size:34 final size:36
Alignment explanation
Indices: 75146--75219 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 36
75136 ATTTTCTACA
75146 TTTCAAAAAGC-T-TTTGTATT-CTTTGTTG-TTATTC
1 TTTC-AAAAGCTTATTTGTATTCCTTTG-TGCTTATTC
*
75180 TTTC-AAAGCTTATTTGTATTCCTTTGTGCTTATTT
1 TTTCAAAAGCTTATTTGTATTCCTTTGTGCTTATTC
75215 TTTCA
1 TTTCA
75220 CAAACATTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
32 5 0.15
33 1 0.03
34 14 0.41
35 14 0.41
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.57
Consensus pattern (36 bp):
TTTCAAAAGCTTATTTGTATTCCTTTGTGCTTATTC
Found at i:77015 original size:16 final size:16
Alignment explanation
Indices: 76994--77026 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
76984 AACCCTCTCT
76994 AAACTAAATGATGAAA
1 AAACTAAATGATGAAA
77010 AAACTAAATGATGAAA
1 AAACTAAATGATGAAA
77026 A
1 A
77027 TAAATCGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAACTAAATGATGAAA
Found at i:77759 original size:16 final size:16
Alignment explanation
Indices: 77734--77769 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
77724 CAACTTTTCA
77734 TTTTGAATTGAAAATG
1 TTTTGAATTGAAAATG
*
77750 TTTTGTATTGAAAATG
1 TTTTGAATTGAAAATG
77766 TTTT
1 TTTT
77770 ATATGTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTTGAATTGAAAATG
Found at i:80942 original size:20 final size:21
Alignment explanation
Indices: 80917--80956 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
80907 AATTTTTCAG
80917 AATGTATCGATACAT-TGAAC
1 AATGTATCGATACATCTGAAC
80937 AATGTATCGATACATCTGAA
1 AATGTATCGATACATCTGAA
80957 AAACCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAC
Found at i:83996 original size:34 final size:35
Alignment explanation
Indices: 83957--84030 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
83947 ATTTTCTACA
*
83957 TTTCAAAGAGCTTTTGTATT-CTTTGTTG-TTATTC
1 TTTCAAAGAGCATTTGTATTCCTTTG-TGCTTATTC
**
83991 TTTCAAAGCTCATTTGTATTCCTTTGTGCTTATTC
1 TTTCAAAGAGCATTTGTATTCCTTTGTGCTTATTC
84026 TTTCA
1 TTTCA
84031 TAAACATCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 19 0.54
35 16 0.46
ACGTcount: A:0.18, C:0.16, G:0.12, T:0.54
Consensus pattern (35 bp):
TTTCAAAGAGCATTTGTATTCCTTTGTGCTTATTC
Found at i:84870 original size:237 final size:237
Alignment explanation
Indices: 84447--84893 Score: 557
Period size: 237 Copynumber: 1.9 Consensus size: 237
84437 TACAAACCCC
* * * * * *
84447 ATTTTCATTTCTAAAACACCAAATTTTTCATTTCTGAGGATACTTCAACCCTACTATCTTCGAGG
1 ATTTTCATTTCTAAAACACCAAAATTTTCATTCCGGAGGATACTCCAACCCTACCATCTTCAAGG
** * * * *
84512 GGATACTCCAACCTTGTTTTTACTTCCAAAACCTCGAATTTTTTATCCCCGGGGATAGTCTAACC
66 GGATACTCCAACCCCGTTTCTACTTCCAAAACCTCAAATTTTTTATCCCCGGGAATACTCTAACC
*
84577 CCACCATCACTAAGGGGATACTCCAACCCCGTTTCTACTTCTAAAAGTCAAAA-TTTTCATCTCT
131 CCACCATCACTAAGGGGATACTCCAACCCCATTTCTACTTCTAAAAGTCAAAATTTTTCATCT-T
84641 AGGGATACTCTAACCCCAACATCAAAGGGGTACTCCAACTCTT
195 AGGGATACTCTAACCCCAACATCAAAGGGGTACTCCAACTCTT
*
84684 ATTTTCATTTCTAAAATACCAAAATTTTCATCTCCGGA-GATACTCCAA-CCTCACCATC-TCTA
1 ATTTTCATTTCTAAAACACCAAAATTTTCAT-TCCGGAGGATACTCCAACCCT-ACCATCTTC-A
* * * * *
84746 AGGGGATACTTCAACCCCGTTTCTATTTCCAAAATGC-CAAATTTTTTATCTCTGGGAATACTCT
63 AGGGGATACTCCAACCCCGTTTCTACTTCCAAAA-CCTCAAATTTTTTATCCCCGGGAATACTCT
* * * *
84810 AACCCCACCATC-TTCGAGGGGATACTCCAACCCCATTTTTACTTCTAAAATGTC-AAATTTTTT
127 AACCCCACCATCACT-AAGGGGATACTCCAACCCCATTTCTACTTCTAAAA-GTCAAAATTTTTC
* *
84873 ATCTTTGGGATACTTTAACCC
190 ATCTTAGGGATACTCTAACCC
84894 TACTATCTCC
Statistics
Matches: 178, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
236 6 0.03
237 156 0.88
238 16 0.09
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (237 bp):
ATTTTCATTTCTAAAACACCAAAATTTTCATTCCGGAGGATACTCCAACCCTACCATCTTCAAGG
GGATACTCCAACCCCGTTTCTACTTCCAAAACCTCAAATTTTTTATCCCCGGGAATACTCTAACC
CCACCATCACTAAGGGGATACTCCAACCCCATTTCTACTTCTAAAAGTCAAAATTTTTCATCTTA
GGGATACTCTAACCCCAACATCAAAGGGGTACTCCAACTCTT
Found at i:84921 original size:79 final size:79
Alignment explanation
Indices: 84441--84972 Score: 393
Period size: 80 Copynumber: 6.7 Consensus size: 79
84431 TGAGCTTACA
* * * ** * *
84441 AACCCCATTTTCATTTCTAAAACACCAAATTTTTCATTTCTGAGGATACT-TCAACCCTACTATC
1 AACCCCGTTTTTACTTCTAAAATGCCAAATTTTTCATCTCTG-GGATACTCT-AACCCTACCATC
* *
84505 TTCGAGGGGATACTCC
64 TCCAAGGGGATACTCC
** * * * * * * * *
84521 AACCTTGTTTTTACTTCCAAAA-CCTCGAATTTTTTATCCCCGGGGATAGTCTAACCCCACCATC
1 AACCCCGTTTTTACTTCTAAAATGC-CAAATTTTTCAT-CTCTGGGATACTCTAACCCTACCATC
* *
84585 ACTAAGGGGATACTCC
64 TCCAAGGGGATACTCC
* * * * *
84601 AACCCCGTTTCTACTTCTAAAA-GTCAAAATTTTCATCTCTAGGGATACTCTAACCCCAACA--T
1 AACCCCGTTTTTACTTCTAAAATGCCAAATTTTTCATCTCT-GGGATACTCTAACCCTACCATCT
*
84663 CAAAGGGG-TACTCC
65 CCAAGGGGATACTCC
* * * * * * *
84677 AA-CTCTTATTTTCATTTCTAAAATACCAAAATTTTCATCTCCGGAGATACTCCAA-CCTCACCA
1 AACCCCGT-TTTT-ACTTCTAAAATGCCAAATTTTTCATCTCTGG-GATACTCTAACCCT-ACCA
* *
84740 TCTCTAAGGGGATACTTC
62 TCTCCAAGGGGATACTCC
* * * * *
84758 AACCCCGTTTCTATTTCCAAAATGCCAAATTTTTTATCTCTGGGAATACTCTAACCCCACCATCT
1 AACCCCGTTTTTACTTCTAAAATGCCAAATTTTTCATCTCTGGG-ATACTCTAACCCTACCATCT
* *
84823 TCGAGGGGATACTCC
65 CCAAGGGGATACTCC
* * * * * *
84838 AACCCCATTTTTACTTCTAAAATGTCAAATTTTTTATCTTTGGGATACTTTAACCCTACTATCTC
1 AACCCCGTTTTTACTTCTAAAATGCCAAATTTTTCATCTCTGGGATACTCTAACCCTACCATCTC
* *
84903 CGAGGGGATACTCT
66 CAAGGGGATACTCC
* *
84917 AACCCCGTTTTTACTTTCAAAACATTG--AAA-TTTTCATTTCTGGGATACTCTAACCC
1 AACCCCGTTTTTAC-TTCTAAA-A-TGCCAAATTTTTCATCTCTGGGATACTCTAACCC
84973 AATTTTTTAT
Statistics
Matches: 357, Mismatches: 77, Indels: 37
0.76 0.16 0.08
Matches are distributed among these distances:
75 3 0.01
76 11 0.03
77 20 0.06
78 29 0.08
79 94 0.26
80 179 0.50
81 16 0.04
82 5 0.01
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.33
Consensus pattern (79 bp):
AACCCCGTTTTTACTTCTAAAATGCCAAATTTTTCATCTCTGGGATACTCTAACCCTACCATCTC
CAAGGGGATACTCC
Found at i:90145 original size:13 final size:13
Alignment explanation
Indices: 90127--90151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90117 CAATTCATCA
90127 TGTATCGATACAC
1 TGTATCGATACAC
90140 TGTATCGATACA
1 TGTATCGATACA
90152 ATGCGCCATA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:90166 original size:33 final size:33
Alignment explanation
Indices: 90107--90169 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
90097 TTTGAAGTAA
* * *
90107 TGTATCGATACAATTCATCATGTATCGATACAC
1 TGTATCGATACAATGCACCATATATCGATACAC
*
90140 TGTATCGATACAATGCGCCATATATCGATA
1 TGTATCGATACAATGCACCATATATCGATA
90170 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAATGCACCATATATCGATACAC
Found at i:90245 original size:19 final size:20
Alignment explanation
Indices: 90201--90253 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
90191 CTGCTAGTTT
* *
90201 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
90221 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
90240 CATGTATCGATACA
1 CATGTATCGATACA
90254 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:90260 original size:13 final size:13
Alignment explanation
Indices: 90242--90266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90232 ACAATGAACA
90242 TGTATCGATACAT
1 TGTATCGATACAT
90255 TGTATCGATACA
1 TGTATCGATACA
90267 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:90283 original size:33 final size:32
Alignment explanation
Indices: 90223--90288 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 32
90213 CAATTATCCA
*
90223 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
90255 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
90288 T
1 T
90289 TGGGTGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 14 0.45
33 16 0.52
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:90879 original size:21 final size:20
Alignment explanation
Indices: 90841--90882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
90831 GGCTCTCGTT
* *
90841 AAAAATTTTTCCCTTTGATA
1 AAAAATTTTCCCCCTTGATA
90861 AAAAATTTCTCCCCCTTGATA
1 AAAAATTT-TCCCCCTTGATA
90882 A
1 A
90883 TCGGTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATTTTCCCCCTTGATA
Found at i:91138 original size:23 final size:23
Alignment explanation
Indices: 91111--91154 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
91101 ATTACAAGGA
91111 AAGTCACAATAATAATCAAAACC
1 AAGTCACAATAATAATCAAAACC
91134 AAGTCACAATAATAATCAAAA
1 AAGTCACAATAATAATCAAAA
91155 TGGAAGGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.18, G:0.05, T:0.18
Consensus pattern (23 bp):
AAGTCACAATAATAATCAAAACC
Found at i:91947 original size:22 final size:21
Alignment explanation
Indices: 91912--91961 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
91902 TTTGTTGATG
*
91912 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
91932 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
91953 AGTTTGAAG
1 ATTTTGAAG
91962 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:91958 original size:21 final size:22
Alignment explanation
Indices: 91919--91961 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
91909 ATGATTTTGA
* *
91919 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAGTTTGAAG
91941 TGAAAAAT-AAGAAGTTTGAAG
1 TGAAAAATGAAGAAGTTTGAAG
91962 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAGTTTGAAG
Found at i:92088 original size:13 final size:13
Alignment explanation
Indices: 92070--92095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92060 TAGTAACCTT
92070 TGTATCGATACAA
1 TGTATCGATACAA
92083 TGTATCGATACAA
1 TGTATCGATACAA
92096 CGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:93795 original size:11 final size:11
Alignment explanation
Indices: 93779--93808 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
93769 GCCGTTATAA
93779 GCTTGTTTGGT
1 GCTTGTTTGGT
93790 GCTTGTTTGGT
1 GCTTGTTTGGT
93801 GCTTGTTT
1 GCTTGTTT
93809 TCATGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.33, T:0.57
Consensus pattern (11 bp):
GCTTGTTTGGT
Found at i:94604 original size:21 final size:21
Alignment explanation
Indices: 94577--94660 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 21
94567 AAGTTTTCAT
94577 TTTTCTCCCCCTAT-TAAAAA
1 TTTTCTCCCCCTATATAAAAA
* ***
94597 -TTTCTCTCCCT-TA-AACGG
1 TTTTCTCCCCCTATATAAAAA
*
94615 TTATCTCCCCCTATATAAAAGA
1 TTTTCTCCCCCTATATAAAA-A
* *
94637 TTTTCTCCCCTTATGTAAAAA
1 TTTTCTCCCCCTATATAAAAA
94658 TTT
1 TTT
94661 ATTAACAACA
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
18 3 0.06
19 19 0.40
20 2 0.04
21 6 0.13
22 17 0.36
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTCTCCCCCTATATAAAAA
Found at i:102272 original size:33 final size:33
Alignment explanation
Indices: 102235--102301 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
102225 GTTACAAGCT
**
102235 ATGTATCGATACATT-TCTTCATGTATCGATACA
1 ATGTATCGATACATTGT-AACATGTATCGATACA
*
102268 ATGTATTGATACATTGTAACATGTATCGATACA
1 ATGTATCGATACATTGTAACATGTATCGATACA
102301 A
1 A
102302 ATAATGATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTGTAACATGTATCGATACA
Found at i:102374 original size:19 final size:20
Alignment explanation
Indices: 102330--102382 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
102320 CTGCCAGTTT
*
102330 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAC
*
102350 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAC
102369 CATGTATCGATACA
1 CATGTATCGATACA
102383 TTATATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:107832 original size:20 final size:20
Alignment explanation
Indices: 107807--107860 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
107797 GTTTGAAGCA
* *
107807 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
*
107827 ATGTATCGATACAATGCGCC
1 ATGTATCGATACAATGCACC
107847 ATGTATCGATACAA
1 ATGTATCGATACAA
107861 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:107933 original size:19 final size:20
Alignment explanation
Indices: 107889--107941 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
107879 CTGCTAGTTT
* **
107889 CATGTATCAATACAATTGCC
1 CATGTATCGATACAATTGAA
107909 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
107928 CATGTATCGATACA
1 CATGTATCGATACA
107942 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:107948 original size:13 final size:13
Alignment explanation
Indices: 107930--107967 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
107920 ACAATGAACA
107930 TGTATCGATACAT
1 TGTATCGATACAT
107943 TGTATCGATACAT
1 TGTATCGATACAT
*
107956 TGTATCAATACA
1 TGTATCGATACA
107968 AGCGTAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Done.