Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014110.1 Kokia drynarioides strain JFW-HI SEQ_129141, 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: 195940
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 31 characters in sequence are not A, C, G, or T
Found at i:173 original size:23 final size:22
Alignment explanation
Indices: 65--183 Score: 132
Period size: 23 Copynumber: 5.2 Consensus size: 22
55 ACACTAGCGC
*
65 GCTCTCTGTTTAGCACGTCT-TGT
1 GCTCTCTGATTAGCAC-T-TGTGT
*
88 GCTCTCTGGTTAGCACTATGTGT
1 GCTCTCTGATTAGCACT-TGTGT
*
111 GCTCTCTGGTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACT-TGTGT
*
134 GCTCTCTGATTAGCACTTCGTTT
1 GCTCTCTGATTAGCACTT-GTGT
*
157 GCTCTCTAATTAGCACTTTGTGT
1 GCTCTCTGATTAGCAC-TTGTGT
180 GCTC
1 GCTC
184 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
22 3 0.03
23 81 0.94
24 2 0.02
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (22 bp):
GCTCTCTGATTAGCACTTGTGT
Found at i:223 original size:23 final size:23
Alignment explanation
Indices: 187--256 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
177 TGTGCTCAGT
* *
187 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTATGTGCTCTCTGTTTAGC
* *
210 ACTTTTTGTGCTCTCTGTTGCCCAGC
1 ACTTTATGTGCTCTCTGTT---TAGC
236 AC-TTATGTGCTCTCTGTTTAG
1 ACTTTATGTGCTCTCTGTTTAG
257 TGCTTCGGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 17 0.44
25 15 0.38
26 5 0.13
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (23 bp):
ACTTTATGTGCTCTCTGTTTAGC
Found at i:15943 original size:16 final size:17
Alignment explanation
Indices: 15908--15943 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15898 ATTAAATATA
15908 TTTTATTTTTTGAAATT
1 TTTTATTTTTTGAAATT
* *
15925 TTTTTTTTTTTTAAATT
1 TTTTATTTTTTGAAATT
15942 TT
1 TT
15944 GCTAATGCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTTGAAATT
Found at i:16189 original size:16 final size:18
Alignment explanation
Indices: 16150--16183 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16140 TAAGTTTATA
16150 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
16167 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
16184 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:27409 original size:21 final size:21
Alignment explanation
Indices: 27383--27451 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
27373 TTAGTACCGG
* *
27383 TAGAAGCATGATTTGTTTCGA
1 TAGAAGCATCACTTGTTTCGA
**
27404 TAGAAGTTTCACTTGTTTCGA
1 TAGAAGCATCACTTGTTTCGA
* * *
27425 TAGAAGCTTCACTTGTATCGG
1 TAGAAGCATCACTTGTTTCGA
27446 TAGAAG
1 TAGAAG
27452 TCTGCACTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (21 bp):
TAGAAGCATCACTTGTTTCGA
Found at i:37709 original size:29 final size:29
Alignment explanation
Indices: 37677--37737 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
37667 AGTTTTACAC
*
37677 TTTTTT-ACATAATTTCGTATGATTAATT
1 TTTTTTAACATAATTTCGTATGATTAATA
* *
37705 TTTTTTAATATAATTTTGTATGATTAATA
1 TTTTTTAACATAATTTCGTATGATTAATA
37734 TTTT
1 TTTT
37738 AATGATTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (29 bp):
TTTTTTAACATAATTTCGTATGATTAATA
Found at i:43313 original size:29 final size:30
Alignment explanation
Indices: 43281--43339 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
43271 TATGGTTTAA
43281 TGTGCAATTCTATACATG-AACTTTGATTT
1 TGTGCAATTCTATACATGAAACTTTGATTT
* *
43310 TGTGCAATTGTATACATGAAATTTTGATTT
1 TGTGCAATTCTATACATGAAACTTTGATTT
43340 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (30 bp):
TGTGCAATTCTATACATGAAACTTTGATTT
Found at i:43348 original size:30 final size:29
Alignment explanation
Indices: 43285--43350 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
43275 GTTTAATGTG
*
43285 CAATTCTATACATGAACTTTGATTTTGTG
1 CAATTCTATACATGAACTTTGATTTTGTC
* *
43314 CAATTGTATACATGAAATTTTGA-TTTGATC
1 CAATTCTATACATG-AACTTTGATTTTG-TC
43344 CAATTCT
1 CAATTCT
43351 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (29 bp):
CAATTCTATACATGAACTTTGATTTTGTC
Found at i:45257 original size:20 final size:22
Alignment explanation
Indices: 45234--45281 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
45224 TAGTTGTTCT
45234 GGTAGAAGC-ATACTTGTAT-A
1 GGTAGAAGCTATACTTGTATCA
*
45254 GGTAGAA-CTATAGTTGTATCA
1 GGTAGAAGCTATACTTGTATCA
45275 -GTAGAAG
1 GGTAGAAG
45282 AGGAGTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (22 bp):
GGTAGAAGCTATACTTGTATCA
Found at i:49309 original size:18 final size:19
Alignment explanation
Indices: 49274--49324 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
49264 TTAGAAATCG
*
49274 TTTATTAATCTTTTGAAT-T
1 TTTA-TAATATTTTGAATAT
49293 TTTATAAT-TTTTAGAATAT
1 TTTATAATATTTT-GAATAT
*
49312 TATATAATATTTT
1 TTTATAATATTTT
49325 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.14
18 8 0.29
19 12 0.43
20 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTATAATATTTTGAATAT
Found at i:49319 original size:19 final size:18
Alignment explanation
Indices: 49274--49324 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
49264 TTAGAAATCG
*
49274 TTTAT-TAATCTTTTGAA
1 TTTATATAATATTTTGAA
*
49291 TTTTTATAAT-TTTTAGAA
1 TTTATATAATATTTT-GAA
49309 TATTATATAATATTTT
1 T-TTATATAATATTTT
49325 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 8 0.29
20 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTATATAATATTTTGAA
Found at i:51793 original size:23 final size:24
Alignment explanation
Indices: 51745--51801 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
51735 ATGAGTGTGT
51745 TTAAAAATAAAATTTAATAAATAA
1 TTAAAAATAAAATTTAATAAATAA
* *
51769 TTAAACATATAATTTAA-AAATAA
1 TTAAAAATAAAATTTAATAAATAA
*
51792 TTAATAATAA
1 TTAAAAATAA
51802 TACATGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAAATAAAATTTAATAAATAA
Found at i:52590 original size:28 final size:28
Alignment explanation
Indices: 52559--52612 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
52549 TATTATGTTA
52559 TAAAAAAT-ACTATATAAATTATATATGT
1 TAAAAAATAACTATATAAATT-TATATGT
* * *
52587 TAAACAATAATTATATATATTTATAT
1 TAAAAAATAACTATATAAATTTATAT
52613 TTATATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 12 0.55
29 10 0.45
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (28 bp):
TAAAAAATAACTATATAAATTTATATGT
Found at i:52782 original size:38 final size:38
Alignment explanation
Indices: 52717--52802 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
52707 AAAAATTATA
*
52717 TTTAATACAATAAATATTTATTATATTTATTT-GAGTT
1 TTTAATATAATAAATATTTATTATATTTATTTAGAGTT
* * *
52754 TTTAATATAATAAAATATTTATTGTATTTTTTTAGTGTT
1 TTTAATATAAT-AAATATTTATTATATTTATTTAGAGTT
*
52793 TTTAGTATAA
1 TTTAATATAA
52803 ATATTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 10 0.24
38 19 0.45
39 13 0.31
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (38 bp):
TTTAATATAATAAATATTTATTATATTTATTTAGAGTT
Found at i:53210 original size:81 final size:82
Alignment explanation
Indices: 53075--53226 Score: 252
Period size: 81 Copynumber: 1.9 Consensus size: 82
53065 GTAGTCGAAA
*
53075 TTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAGGATTAAATCAAAA-TTTTATCA
1 TTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTTATCA
53139 ATTTTATGGAAATAAAG
66 ATTTTATGGAAATAAAG
* * *
53156 TTAAATTGTAATTTTTGTGATAGTGAAAATGCAATTTTTAAAAGATTAAATCAAAATTTTTATCA
1 TTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTTATCA
*
53221 TTTTTA
66 ATTTTA
53227 AAGGGCCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 52 0.80
82 13 0.20
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (82 bp):
TTAAATTGTAATTTTTATGATAGTAAAAATACAATTTTTAAAAGATTAAATCAAAATTTTTATCA
ATTTTATGGAAATAAAG
Found at i:55553 original size:6 final size:6
Alignment explanation
Indices: 55544--55579 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
55534 ATATATATCA
* *
55544 TGAGAT TGAGAT TGAGAT TGAGAT TAAGAC TGAGAT
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT
55580 ATATATGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.31
Consensus pattern (6 bp):
TGAGAT
Found at i:58090 original size:19 final size:19
Alignment explanation
Indices: 58066--58107 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
58056 AAATTTCGAA
58066 TATATATACAT-TTATTTAT
1 TATATATAC-TCTTATTTAT
58085 TATATATACTGCTTATTTAT
1 TATATATACT-CTTATTTAT
58105 TAT
1 TAT
58108 TACCGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.05
19 9 0.43
20 11 0.52
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATATACTCTTATTTAT
Found at i:59657 original size:15 final size:16
Alignment explanation
Indices: 59631--59660 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59621 GTTTAAAAAC
59631 TTTAAAATAAAAATAT
1 TTTAAAATAAAAATAT
59647 TTTAAAA-AAAAATA
1 TTTAAAATAAAAATA
59661 CATAAAATTA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTTAAAATAAAAATAT
Found at i:60682 original size:50 final size:51
Alignment explanation
Indices: 60589--60717 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 51
60579 TTCCAACTTT
* * * * *
60589 TTATTTATTATTTGTCTCTT-ACTAATTTA-ATTAATTAGAGATAAGACAA
1 TTATTTAATATTTATCACTTAATTAATTTATTTTAATTAGAGATAAGACAA
* * * *
60638 TTATTTAATA-TTATCACTTAATTATTTTATTTTAATTAGTGATAATATAA
1 TTATTTAATATTTATCACTTAATTAATTTATTTTAATTAGAGATAAGACAA
* * *
60688 TTTTTTATTATTTATCTCTTAATTAATTTA
1 TTATTTAATATTTATCACTTAATTAATTTA
60718 AGTTAATTGA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
48 7 0.11
49 16 0.25
50 24 0.38
51 17 0.27
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (51 bp):
TTATTTAATATTTATCACTTAATTAATTTATTTTAATTAGAGATAAGACAA
Found at i:63883 original size:69 final size:69
Alignment explanation
Indices: 63779--64239 Score: 320
Period size: 69 Copynumber: 6.8 Consensus size: 69
63769 GAACTTTAAT
* * * * * *
63779 AATATTAGTTGAGAACATAGGTCCACGAGCT-GTTTTGGACGTTGCGATTTTAAACCAACAAGCC
1 AATATTAGCTGGGAACGTAGGTCCGCGAG-TAGTTTTGGAGGCTGCGATTTTAAACCAACAAGCC
63843 TTTAG
65 TTTAG
* * * * *
63848 AATATTAGCTGGGAACGTAGGTTCGCGAGTAGTTTTAGAGGTTGCGATCTTAAACCTACAAGCCT
1 AATATTAGCTGGGAACGTAGGTCCGCGAGTAGTTTTGGAGGCTGCGATTTTAAACCAACAAGCCT
63913 TTAG
66 TTAG
* ** * ** * * * **
63917 AATATCAATTGGGAATGTAGGTTTGCAAGTTGTTTTGGAGGCTGCGATTTTAAATCAATGAGCCT
1 AATATTAGCTGGGAACGTAGGTCCGCGAGTAGTTTTGGAGGCTGCGATTTTAAACCAACAAGCCT
63982 TTAG
66 TTAG
* * ***
63986 AATATTAG-TCGGGAACGTAGCTCCGCGAACTA-TTTTGGAGGCTGCGATTTTAAACTGGCAAGC
1 AATATTAGCT-GGGAACGTAGGTCCGCG-AGTAGTTTTGGAGGCTGCGATTTTAAACCAACAAGC
64049 CTTTAG
64 CTTTAG
* ** * ** **
64055 AATATCAGCTGGGAACGTAGGTCCAAGAGCTA-TTTTGGAGG-TCGCGATCTTAAACTGATGAGC
1 AATATTAGCTGGGAACGTAGGTCCGCGAG-TAGTTTTGGAGGCT-GCGATTTTAAACCAACAAGC
64118 CTTTAG
64 CTTTAG
* * * * * * * * *
64124 AATATCAACT-GAAACATAGGTCCGCAACCTA-TTTTGGAGGTTGCGATCTT--A--AAC---CT
1 AATATTAGCTGGGAACGTAGGTCCGCGA-GTAGTTTTGGAGGCTGCGATTTTAAACCAACAAGCC
*
64180 TTTTG
65 TTTAG
* * * * *
64185 AATATCAGCTGGGAACGTAGATCCGCGAGTTGTTTTGGAGGCTGTGATCTTAAAC
1 AATATTAGCTGGGAACGTAGGTCCGCGAGTAGTTTTGGAGGCTGCGATTTTAAAC
64240 TGGTAAGCCT
Statistics
Matches: 312, Mismatches: 67, Indels: 30
0.76 0.16 0.07
Matches are distributed among these distances:
61 15 0.05
62 30 0.10
64 2 0.01
66 1 0.00
68 35 0.11
69 226 0.72
70 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (69 bp):
AATATTAGCTGGGAACGTAGGTCCGCGAGTAGTTTTGGAGGCTGCGATTTTAAACCAACAAGCCT
TTAG
Found at i:64032 original size:138 final size:136
Alignment explanation
Indices: 63791--64179 Score: 403
Period size: 138 Copynumber: 2.8 Consensus size: 136
63781 TATTAGTTGA
* * * **
63791 GAACATAGGTCCACGAGCTGTTTTGGACGTTGCGATTTTAAACCAACAAGCCTTTAGAATATTAG
1 GAACGTAGGTCCAAGAGCTGTTTTGGA-GGTGCGATTTTAAA-CAATGAGCCTTTAGAATATTAG
* * *
63856 CTGGGAACGTAGGTTCGCG-AGTAGTTTTAGAGGTTGCGATCTTAAACCT-ACAAGCCTTTAGAA
64 C-GGGAACGTAGGTCCGCGAACTA-TTTTGGAGGTTGCGATCTTAAACCTGACAAGCCTTTAGAA
*
63919 TATCAATTGG
127 TATCAACTGG
* * *
63929 GAATGTAGGTTTGC-A-AGTTGTTTTGGAGGCTGCGATTTTAAATCAATGAGCCTTTAGAATATT
1 GAACGTAGG--TCCAAGAGCTGTTTTGGAGG-TGCGATTTTAAA-CAATGAGCCTTTAGAATATT
* * * *
63992 AGTCGGGAACGTAGCTCCGCGAACTATTTTGGAGGCTGCGATTTTAAA-CTGGCAAGCCTTTAGA
62 AG-CGGGAACGTAGGTCCGCGAACTATTTTGGAGGTTGCGATCTTAAACCTGACAAGCCTTTAGA
*
64056 ATATCAGCTGG
126 ATATCAACTGG
* * * * *
64067 GAACGTAGGTCCAAGAGCTATTTTGGAGGTCGCGATCTTAAACTGATGAGCCTTTAGAATATCAA
1 GAACGTAGGTCCAAGAGCTGTTTTGGAGGT-GCGATTTTAAAC-AATGAGCCTTTAGAATATTAG
* * *
64132 CTGAAACATAGGTCCGC-AACCTATTTTGGAGGTTGCGATCTTAAACCT
64 CGGGAACGTAGGTCCGCGAA-CTATTTTGGAGGTTGCGATCTTAAACCT
64180 TTTTGAATAT
Statistics
Matches: 207, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
136 4 0.02
137 42 0.20
138 155 0.75
139 4 0.02
140 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (136 bp):
GAACGTAGGTCCAAGAGCTGTTTTGGAGGTGCGATTTTAAACAATGAGCCTTTAGAATATTAGCG
GGAACGTAGGTCCGCGAACTATTTTGGAGGTTGCGATCTTAAACCTGACAAGCCTTTAGAATATC
AACTGG
Found at i:75128 original size:133 final size:134
Alignment explanation
Indices: 74951--75217 Score: 473
Period size: 133 Copynumber: 2.0 Consensus size: 134
74941 ATAGGATTTG
*
74951 ATTTGAATGTAATCCATGTAAATCCCATAATTTATGGGTAGGCCAATCTCATTCGTCGATGTAAT
1 ATTTGAATGTAATCCATGTAAATCCCATAATTTATGGGTAGGCCAATCTCATCCGTCGATGTAAT
* * *
75016 TCGATCTTGACTGTCTATTGTGGGGGAGCTCAACTATTAATAGGGAGCCTCCCCTCATTTGTAAC
66 TCGATCTTGACCGTCTATTATGGGGGAGCTCAACTATAAATAGGGAGCCTCCCCTCATTTGTAAC
75081 ACAC
131 ACAC
*
75085 ATTTGAATGTAATCCTTGTAAA-CCCATAATTTATGGGTAGGCCAATCTCATCCGTCGATGTAAT
1 ATTTGAATGTAATCCATGTAAATCCCATAATTTATGGGTAGGCCAATCTCATCCGTCGATGTAAT
*
75149 TCGATCTTGACCGTCTGTTATGGGGGAGCTCAACTATAAATAGGGAGCCTCCCCTCATTTGTAAC
66 TCGATCTTGACCGTCTATTATGGGGGAGCTCAACTATAAATAGGGAGCCTCCCCTCATTTGTAAC
75214 ACAC
131 ACAC
75218 TCCATTCTTT
Statistics
Matches: 127, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
133 106 0.83
134 21 0.17
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (134 bp):
ATTTGAATGTAATCCATGTAAATCCCATAATTTATGGGTAGGCCAATCTCATCCGTCGATGTAAT
TCGATCTTGACCGTCTATTATGGGGGAGCTCAACTATAAATAGGGAGCCTCCCCTCATTTGTAAC
ACAC
Found at i:83516 original size:16 final size:16
Alignment explanation
Indices: 83495--83543 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
83485 ATTTGGAGTT
83495 AAAATTGAACTTTTGG
1 AAAATTGAACTTTTGG
* **
83511 AAAATTCAA--GGT-G
1 AAAATTGAACTTTTGG
83524 AAAATTGAACTTTTGG
1 AAAATTGAACTTTTGG
83540 AAAA
1 AAAA
83544 GTTCGGGGGT
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 9 0.38
14 1 0.04
15 1 0.04
16 13 0.54
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (16 bp):
AAAATTGAACTTTTGG
Found at i:83638 original size:29 final size:28
Alignment explanation
Indices: 83549--83794 Score: 77
Period size: 30 Copynumber: 8.4 Consensus size: 28
83539 GAAAAGTTCG
*
83549 GGGGTAAAAATGTGATTTTGGAAGTTT-
1 GGGGTAAAAATGTAATTTTGGAAGTTTA
* * * * * *
83576 GAGTGCAAAATTGTGAATTTTAGATGATTCA
1 G-GGGTAAAAATGT-AATTTTGGAAG-TTTA
83607 GGGGTAAAAATGTAATTTTTGGAAGTTTA
1 GGGGTAAAAATGTAA-TTTTGGAAGTTTA
* * * *
83636 GGGCCT-AATATATAATTTTTGGAAAATTTTA
1 GGG-GTAAAAATGTAA-TTTTGG--AAGTTTA
* * *
83667 GGGTTTAAAATGCAATTTTGGAAAAGTTT-
1 GGGGTAAAAATGTAATTTTGG--AAGTTTA
* * * *
83696 -CGATTAAAATGTAATTTTGAAAAAGTTTA
1 GGGGTAAAAATGTAATTTTG--GAAGTTTA
* * ** * *
83725 GGGGTCAGAATCAAAATTTGGAAATATTA
1 GGGGTAAAAATGTAATTTTGGAAGT-TTA
*** *
83754 AAAGTTAAAATGTAATTTTAGAGAAGTTTA
1 GGGGTAAAAATGTAATTTT-G-GAAGTTTA
83784 GGGGTAAAAAT
1 GGGGTAAAAAT
83795 ATGATTTTTA
Statistics
Matches: 155, Mismatches: 48, Indels: 29
0.67 0.21 0.12
Matches are distributed among these distances:
27 1 0.01
28 34 0.22
29 44 0.28
30 56 0.36
31 20 0.13
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (28 bp):
GGGGTAAAAATGTAATTTTGGAAGTTTA
Found at i:84426 original size:13 final size:12
Alignment explanation
Indices: 84408--84439 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
84398 GTTTTAATCT
84408 TTTTTTTGTTCTA
1 TTTTTTTGTT-TA
84421 TTTTTTTGTTTA
1 TTTTTTTGTTTA
84433 TTTTTTT
1 TTTTTTT
84440 TTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (12 bp):
TTTTTTTGTTTA
Found at i:84568 original size:14 final size:13
Alignment explanation
Indices: 84546--84584 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
84536 AGATAAAATA
*
84546 TATATATATTCATG
1 TATAAATATT-ATG
84560 TATAAATATATATG
1 TATAAATAT-TATG
84574 TATAAATATTA
1 TATAAATATTA
84585 GTACCTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 2 0.09
14 20 0.87
15 1 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (13 bp):
TATAAATATTATG
Found at i:85028 original size:27 final size:27
Alignment explanation
Indices: 84998--85084 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
84988 TTTAAGCAAA
84998 TTTAAATTTAAAAATATATTTGGACAT
1 TTTAAATTTAAAAATATATTTGGACAT
** *
85025 TTTAAATTT----A-A-ATTTAAACAA
1 TTTAAATTTAAAAATATATTTGGACAT
* * *
85046 ATTAAATTGAAAAATGTATTTGGACAT
1 TTTAAATTTAAAAATATATTTGGACAT
85073 TTTAAATTTAAA
1 TTTAAATTTAAA
85085 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
21 14 0.33
22 1 0.02
23 1 0.02
25 1 0.02
27 26 0.60
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (27 bp):
TTTAAATTTAAAAATATATTTGGACAT
Found at i:85066 original size:48 final size:49
Alignment explanation
Indices: 84982--85090 Score: 184
Period size: 48 Copynumber: 2.2 Consensus size: 49
84972 ATTTGGACCT
* *
84982 TTTAAATTTAAGCAAATTTAAATTTAAAAATATATTTGGACATTTTAAA
1 TTTAAATTTAAACAAATTTAAATTGAAAAATATATTTGGACATTTTAAA
*
85031 TTTAAATTTAAACAAA-TTAAATTGAAAAATGTATTTGGACATTTTAAA
1 TTTAAATTTAAACAAATTTAAATTGAAAAATATATTTGGACATTTTAAA
85079 TTTAAATTTAAA
1 TTTAAATTTAAA
85091 ATTTATTTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
48 42 0.74
49 15 0.26
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (49 bp):
TTTAAATTTAAACAAATTTAAATTGAAAAATATATTTGGACATTTTAAA
Found at i:85788 original size:39 final size:39
Alignment explanation
Indices: 85745--86061 Score: 171
Period size: 39 Copynumber: 8.2 Consensus size: 39
85735 CCCTATCGCC
* *
85745 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCATGATCG
1 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * *
85784 GGGTAAAAGATCAAATGGTTG-C---AATCTGCCCCAAGCTCG
1 GGGT--AAGA--AATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * ** ** * *
85823 GGGTAAGAGATTAGCTGATAGTGATCTGCCATAGGCTCA
1 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * * * * * *
85862 GGGTAA-AAGATCGGATGACTGTAATCTGCCTCAGGCTTG
1 GGGTAAGAA-ATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * * *
85901 GGGTAA-AAGATTAGCTGATGATGATCTGCCCCAAGCTCA
1 GGGTAAGAA-ATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * * * * * * * *
85940 AGGTAAGAGATCGGATGACTGTAATCTACCCTAGGCTCG
1 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * *
85979 GGGTAAGAGATTGGTTGATGGTGATCTG-CCCAAGCTCG
1 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCAAGCTCG
* * * *
86017 GGGTAAGAGATTAGCTGATGGTGATCTGCCTCAAGCTCG
1 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCAAGCTCG
86056 GGGTAA
1 GGGTAA
86062 AAGATCAGAT
Statistics
Matches: 205, Mismatches: 62, Indels: 22
0.71 0.21 0.08
Matches are distributed among these distances:
35 5 0.02
37 4 0.02
38 35 0.17
39 148 0.72
40 1 0.00
41 4 0.02
42 1 0.00
43 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
GGGTAAGAAATTGGCTGACGGTGATCTGCCCCAAGCTCG
Found at i:85840 original size:78 final size:78
Alignment explanation
Indices: 85745--86994 Score: 634
Period size: 78 Copynumber: 16.1 Consensus size: 78
85735 CCCTATCGCC
* * * * ** ** *
85745 GGGTAAGAAATTGGCTGACGGTGATCTGCCCCATGATCGGGGTAAAAGATCAAATGGTTGCAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
*
85810 TGCCCCAAGCTCG
66 TGCCCCAGGCTCG
* * ** * *
85823 GGGTAAGAGATTAGCTGATAGTGATCTGCCATAGGCTCAGGGTAAAAGATCGGATGACTGTAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* *
85888 TGCCTCAGGCTTG
66 TGCCCCAGGCTCG
* * * ** *
85901 GGGTAAAAGATTAGCTGATGATGATCTGCCCCAAGCTCAAGGTAAGAGATCGGATGACTGTAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* *
85966 TACCCTAGGCTCG
66 TGCCCCAGGCTCG
* * ** * *
85979 GGGTAAGAGATTGGTTGATGGTGATCTG-CCCAAGCTCGGGGTAAGAGATTAGCTGA-TGGTGAT
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACT-GTAAT
* *
86042 CTGCCTCAAGCTCG
65 CTGCCCCAGGCTCG
* * * * *
86056 GGGTAAAAGA-T--CAGATGGCTTCAATCTGCCCTAAGCTCGGGGTAAAAGAT----TGGCTG--
1 GGGTAAGAGATTGGCTGATGG--T-GATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTA
* *
86112 AT-GGTCCCAGGCTCG
63 ATCTGCCCCAGGCTCG
* * * * * * * *** *
86127 GTGTAAAAGATCGGATGATTGTGATCTACCCTATTATTGGGGTAAAAGATCGGATGACTGTAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * * *
86192 TGTCCTAGGTTCA
66 TGCCCCAGGCTCG
* * * *
86205 GGGTAAGAGATTGACT-ATTGGTGATCTGCCCTAAGCTCGGGATAAAAGATCGGATGGCT-TCAA
1 GGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGT-AA
*
86268 TCTGCCCTAGGCTCG
64 TCTGCCCCAGGCTCG
* *
86283 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTGATG
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
** *
86348 TGCCCCTTGATCG
66 TGCCCCAGGCTCG
* * * ** * * * * * * *
86361 GGGTAAGAGATTGGATGGTTGCAATCTGTCTCAAGCTCGGGATAAGAGATTGGCTGA-TGGTGAT
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACT-GTAAT
** *
86425 CTGCCTTATGCTCG
65 CTGCCCCAGGCTCG
* * * ** * * * * *
86439 GAGTAAAAGATCGAATGACT--TCAATCTACCTCAGGCTCGGGGTAAAAGATCGGATGACTGTGA
1 GGGTAAGAGATTGGCTGA-TGGT-GATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAA
* * * * *
86502 TCTTCCTCATGATAG
64 TCTGCCCCAGGCTCG
* * * * * * *
86517 GGGTAAGAGA-T--CAGATGGTTGCACTCTG-TCCAAGCTCGAGCTAAGAGATTGGCTGA-TGGT
1 GGGTAAGAGATTGGCTGATGG-TG-A-TCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACT-GT
* * * *
86577 GATTTGCACCAGGCTCA
62 AATCTGCCCCAGGCTCG
* * * * * * * * *
86594 GGGTAAAAGATCGGATGACT--TCAATCTGCCCCAAGCTCGGGGTAAAAAATTGGTTG-TTGGTG
1 GGGTAAGAGATTGGCTGA-TGGT-GATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACT-GTA
* *
86656 ATCTGCCTCAGACTCG
63 ATCTGCCCCAGGCTCG
* * * * * * * * * * *
86672 GAGTAAAAGA-T--CAGATGGCTTCAATCTACCTCAGGCTCGTGGTAAGAGATTGGTTGA-TGGT
1 GGGTAAGAGATTGGCTGATGG--T-GATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACT-GT
* ** *
86733 GATCTGCCTTAAGCTCG
62 AATCTGCCCCAGGCTCG
* * * *** * * * * * ** *
86750 GGGTAAAAGATCGGATGATTACGATCTGCCCCATGATCAGGGTAAGAGATCAGATGGTTGTGATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
*
86815 TGTCCCAGGCTCG
66 TGCCCCAGGCTCG
* * * * * * *
86828 AGGTAAGAGATTGACTGATGGTGATTTGCCCTAGGCTCGAGGTAAAAGATCGAATGACTGTAATC
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* **
86893 TACCTTAGGCTCG
66 TGCCCCAGGCTCG
* * * **
86906 GGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCT-GAGGGTAAAAGATTGGATGGCTACAAT
1 GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG-GGGTAAAAGATCGGATGACTGTAAT
86970 CTGCCCCAGGCTCG
65 CTGCCCCAGGCTCG
86984 GGGTAAGAGAT
1 GGGTAAGAGAT
86995 CGAAATCTTC
Statistics
Matches: 883, Mismatches: 242, Indels: 94
0.72 0.20 0.08
Matches are distributed among these distances:
71 40 0.05
72 3 0.00
74 14 0.02
75 10 0.01
76 4 0.00
77 103 0.12
78 698 0.79
79 5 0.01
80 2 0.00
81 4 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (78 bp):
GGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
TGCCCCAGGCTCG
Found at i:85930 original size:117 final size:116
Alignment explanation
Indices: 85807--86116 Score: 329
Period size: 116 Copynumber: 2.7 Consensus size: 116
85797 AATGGTTGCA
* * * *
85807 ATCTGCCCCAAGCTCGGGGTAAGAGATTAGCTGA-TAGTGATCTGCCATAGGCTCAGGGTAAAAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCAGATGACT-GTAATCTACCATAGGCTCAGGGTAAAAG
* *
85871 ATCGGATGACT-GTAATCTGCCTCAGGCTTGGGGTAAAAGATTAGCTGATGATG
65 ATCGGATGA-TGGTAATCTGCC-CAAGCTCGGGGTAAAAGATTAGCTGATGATG
** * * * *
85924 ATCTGCCCCAAGCTCAAGGTAAGAGATCGGATGACTGTAATCTACCCTAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCAGATGACTGTAATCTACCATAGGCTCAGGGTAAAAGA
* * * * *
85989 TTGGTTGATGGTGATCTGCCCAAGCTCGGGGTAAGAGATTAGCTGATGGTG
66 TCGGATGATGGTAATCTGCCCAAGCTCGGGGTAAAAGATTAGCTGATGATG
* * * * * * *
86040 ATCTGCCTCAAGCTCGGGGTAAAAGATCAGATGGCT-TCAATCTGCCCTAAGCTCGGGGTAAAAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCAGATGACTGT-AATCTACCATAGGCTCAGGGTAAAAG
* *
86104 ATTGGCTGATGGT
65 ATCGGATGATGGT
86117 CCCAGGCTCG
Statistics
Matches: 163, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
115 1 0.01
116 93 0.57
117 68 0.42
118 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (116 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCAGATGACTGTAATCTACCATAGGCTCAGGGTAAAAGA
TCGGATGATGGTAATCTGCCCAAGCTCGGGGTAAAAGATTAGCTGATGATG
Found at i:86209 original size:39 final size:39
Alignment explanation
Indices: 86122--86996 Score: 281
Period size: 39 Copynumber: 22.5 Consensus size: 39
86112 ATGGTCCCAG
* * * * *
86122 GCTCGGTGTAAAAGATCGGATGATTGTGATCTACCCTAT
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCTAA
** * * *
86161 TATTGGGGTAAAAGATCGGATGACTGTAATCTGTCCTAG
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCTAA
* * * * * *
86200 GTTCAGGGTAAGAGAT-TGACT-ATTGGTGATCTGCCCTAA
1 GCTCGGGGTAAAAGATCGGA-TGACT-GTAATCTGCCCTAA
* * *
86239 GCTCGGGATAAAAGATCGGATGGCT-TCAATCTGCCCTAG
1 GCTCGGGGTAAAAGATCGGATGACTGT-AATCTGCCCTAA
* * * * *
86278 GCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAA
1 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTGCCCTAA
* * *
86317 GCTCGGGGTAAAAGATCGGATGACTGTGATGTGCCCCT-T
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTG-CCCTAA
* * * ** * *
86356 GATCGGGGTAAGAGATTGGATGGTTGCAATCTG-TCTCAA
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCT-AA
* * * * * * *
86395 GCTCGGGATAAGAGATTGGCTGA-TGGTGATCTGCCTTAT
1 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTGCCCTAA
* * * *
86434 GCTCGGAGTAAAAGATCGAATGACT-TCAATCT-ACCTCAG
1 GCTCGGGGTAAAAGATCGGATGACTGT-AATCTGCCCT-AA
* * *
86473 GCTCGGGGTAAAAGATCGGATGACTGTGATCT-TCCTCAT
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCT-AA
* * * * ** * * *
86512 GATAGGGGTAAGAGATCAGATGGTTGCACTCTGTCC-AA
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCTAA
* * * * * * * *
86550 GCTCGAGCTAAGAGATTGGCTGA-TGGTGATTTGCACC-AG
1 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTGC-CCTAA
* *
86589 GCTCAGGGTAAAAGATCGGATGACT-TCAATCTGCCCCAA
1 GCTCGGGGTAAAAGATCGGATGACTGT-AATCTGCCCTAA
* * * * * *
86628 GCTCGGGGTAAAAAATTGGTTG-TTGGTGATCTG-CCTCA
1 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTGCCCTAA
* * * * *
86666 GACTCGGAGTAAAAGATCAGATGGCT-TCAATCT-ACCTCAG
1 G-CTCGGGGTAAAAGATCGGATGACTGT-AATCTGCCCT-AA
* * * * * *
86706 GCTCGTGGTAAGAGATTGGTTGA-TGGTGATCTGCCTTAA
1 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTGCCCTAA
* *
86745 GCTCGGGGTAAAAGATCGGATGA-T-TACGATCTGCCCCAT
1 GCTCGGGGTAAAAGATCGGATGACTGTA--ATCTGCCCTAA
* * * * ** * *
86784 GATCAGGGTAAGAGATCAGATGGTTGTGATCTGTCCC-AG
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTG-CCCTAA
* * * * * *
86823 GCTCGAGGTAAGAGAT-TGACTGA-TGGTGATTTGCCCTAG
1 GCTCGGGGTAAAAGATCGGA-TGACT-GTAATCTGCCCTAA
* * * * *
86862 GCTCGAGGTAAAAGATCGAATGACTGTAATCTACCTTAG
1 GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCTAA
* * * * * *
86901 GCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTACCCCAA
1 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTGCCCTAA
* * ** * *
86940 GCT-GAGGGTAAAAGATTGGATGGCTACAATCTGCCCCAG
1 GCTCG-GGGTAAAAGATCGGATGACTGTAATCTGCCCTAA
*
86979 GCTCGGGGTAAGAGATCG
1 GCTCGGGGTAAAAGATCG
86997 AAATCTTCAA
Statistics
Matches: 605, Mismatches: 184, Indels: 94
0.69 0.21 0.11
Matches are distributed among these distances:
37 4 0.01
38 48 0.08
39 523 0.86
40 29 0.05
41 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (39 bp):
GCTCGGGGTAAAAGATCGGATGACTGTAATCTGCCCTAA
Found at i:86479 original size:117 final size:117
Alignment explanation
Indices: 86239--86721 Score: 319
Period size: 117 Copynumber: 4.1 Consensus size: 117
86229 TCTGCCCTAA
* * *
86239 GCTCGGGATAAAAGATCGGATGGCTTCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGG
1 GCTCGGGGTAAAAGATCGGATGGCTTCAATCTGCCCTAAGCTCGGGATAAGAGATTGGCTGATGG
* * * * * **
86304 TGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTGATGTGCCCCTT
66 TGATCTGCCCCAAGCTCGGAGTAAAAGATCGAATGACTGTAATCTACCCCAG
* * * *
86356 GATCGGGGTAAGAGATTGGATGG-TTGCAATCTG-TCTCAAGCTCGGGATAAGAGATTGGCTGAT
1 GCTCGGGGTAAAAGATCGGATGGCTT-CAATCTGCCCT-AAGCTCGGGATAAGAGATTGGCTGAT
** * *
86419 GGTGATCTGCCTTATGCTCGGAGTAAAAGATCGAATGACT-TCAATCTACCTCAG
64 GGTGATCTGCCCCAAGCTCGGAGTAAAAGATCGAATGACTGT-AATCTACCCCAG
* * * * * * * *
86473 GCTCGGGGTAAAAGATCGGATGACTGT-GATCT-TCCTCATGATAGGGGTAAGAGA-T--CAGAT
1 GCTCGGGGTAAAAGATCGGATGGCT-TCAATCTGCCCT-AAGCTCGGGATAAGAGATTGGCTGAT
* * * ** * * * *
86533 GGTTGCACTCTG-TCCAAGCTC-GAGCTAAGAGATTGGCTGA-TGGTGATTTGCACCAG
64 GG-TG-A-TCTGCCCCAAGCTCGGAG-TAAAAGATCGAATGACT-GTAATCTACCCCAG
* * * * * * * *
86589 GCTCAGGGTAAAAGATCGGATGACTTCAATCTGCCCCAAGCTCGGGGTAAAAAATTGGTTGTTGG
1 GCTCGGGGTAAAAGATCGGATGGCTTCAATCTGCCCTAAGCTCGGGATAAGAGATTGGCTGATGG
* * *
86654 TGATCTGCCTC-AGACTCGGAGTAAAAGATC-AGATGGCT-TCAATCTACCTCAG
66 TGATCTGCCCCAAG-CTCGGAGTAAAAGATCGA-ATGACTGT-AATCTACCCCAG
* *
86706 GCTCGTGGTAAGAGAT
1 GCTCGGGGTAAAAGAT
86722 TGGTTGATGG
Statistics
Matches: 274, Mismatches: 69, Indels: 46
0.70 0.18 0.12
Matches are distributed among these distances:
114 6 0.02
115 7 0.03
116 77 0.28
117 172 0.63
118 7 0.03
119 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (117 bp):
GCTCGGGGTAAAAGATCGGATGGCTTCAATCTGCCCTAAGCTCGGGATAAGAGATTGGCTGATGG
TGATCTGCCCCAAGCTCGGAGTAAAAGATCGAATGACTGTAATCTACCCCAG
Found at i:87940 original size:107 final size:106
Alignment explanation
Indices: 87756--87947 Score: 267
Period size: 107 Copynumber: 1.8 Consensus size: 106
87746 ACTAACCATC
* * ** *
87756 ATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTGAATTTTATTAGAGGCAG
1 ATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTGTATTAGAGAAAA
***
87821 AGCTCGCGTGAATGAAAAGAATTATTAGTCCACTAACTGTT
66 AGCTCAAATGAATGAAAAGAATTATTAGTCCACTAACTGTT
** *
87862 ATTTCAATGCAAACGTGCTTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTGTATTGGAGAAA
1 ATTTCAATGCAAAAATGC-TTGAACAAGGTTGTAAGGTGGATAAAATTGAATTGTATTAGAGAAA
*
87927 AAGGTCAAATGAATGAAAAGA
65 AAGCTCAAATGAATGAAAAGA
87948 TTAAAAATCA
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
106 16 0.22
107 57 0.78
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (106 bp):
ATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTGTATTAGAGAAAA
AGCTCAAATGAATGAAAAGAATTATTAGTCCACTAACTGTT
Found at i:97298 original size:29 final size:30
Alignment explanation
Indices: 97273--97350 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
97263 AAGTTTTGAG
* *
97273 AAATTCGGGGTCAAAATCGGGTTTTTTTGGA
1 AAATTCGGGGTCAAAATCGAG-TCTTTTGGA
* * *
97304 AAATTTGGAGTTAAAATCGAG-CTTTTGGA
1 AAATTCGGGGTCAAAATCGAGTCTTTTGGA
*
97333 AAATTCGAGGTCAAAATC
1 AAATTCGGGGTCAAAATC
97351 AAACTTTAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 21 0.55
31 17 0.45
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.32
Consensus pattern (30 bp):
AAATTCGGGGTCAAAATCGAGTCTTTTGGA
Found at i:97357 original size:29 final size:29
Alignment explanation
Indices: 97297--97357 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
97287 AATCGGGTTT
* * * *
97297 TTTTGGAAAATTTGGAGTTAAAATCGAGC
1 TTTTGGAAAATTCGGAGTCAAAATCAAAC
97326 TTTTGGAAAATTC-GAGGTCAAAATCAAAC
1 TTTTGGAAAATTCGGA-GTCAAAATCAAAC
97355 TTT
1 TTT
97358 AAGAAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (29 bp):
TTTTGGAAAATTCGGAGTCAAAATCAAAC
Found at i:97466 original size:29 final size:28
Alignment explanation
Indices: 97371--97467 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 28
97361 AAAAGTTTGG
* *
97371 GGGTAAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAATGTAATTTTTGGAAGTTCAA
* * *
97399 GGGCAAAATTGTATTTTTTGAAAGATTCAA
1 GGGTAAAA-TGTAATTTTTGGAAG-TTCAA
* *
97429 GGGAAAAAATATAATTTTTGGAAGTTCAA
1 GGG-TAAAATGTAATTTTTGGAAGTTCAA
97458 GGGTTAAAAT
1 GGG-TAAAAT
97468 TAAAGTTTAG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
28 7 0.13
29 25 0.45
30 19 0.35
31 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGTAATTTTTGGAAGTTCAA
Found at i:97527 original size:30 final size:30
Alignment explanation
Indices: 97487--97593 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
97477 GAAAATTTTG
* *
97487 GGGTCGAAATGTAATTTTGAAAAAGTTTAT
1 GGGTCAAAATATAATTTTGAAAAAGTTTAT
* * *
97517 GGGTCAAAATGTAATGTTGGAAAAGTTTAT
1 GGGTCAAAATATAATTTTGAAAAAGTTTAT
*
97547 GGGTTAAAATATAATTTTGGAAAAA-TTTA-
1 GGGTCAAAATATAATTTT-GAAAAAGTTTAT
97576 GGTGTCAAAATATAATTT
1 GG-GTCAAAATATAATTT
97594 CTACAAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
29 2 0.03
30 60 0.90
31 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
GGGTCAAAATATAATTTTGAAAAAGTTTAT
Found at i:102515 original size:27 final size:26
Alignment explanation
Indices: 102485--102572 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 26
102475 ATTTATTAAA
102485 ATTTTAAAACATAAAAAATATAAAATT
1 ATTTTAAAA-ATAAAAAATATAAAATT
*
102512 ATTTTTAAAATTAAAAAA-ATTAAAATT
1 A-TTTTAAAAATAAAAAATA-TAAAATT
*
102539 ATTTTAAAAAGTATAAAAATTATAAAAAT
1 ATTTTAAAAA-TA-AAAAA-TATAAAATT
102568 ATTTT
1 ATTTT
102573 TAAATTTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
26 9 0.17
27 18 0.35
28 13 0.25
29 11 0.21
30 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (26 bp):
ATTTTAAAAATAAAAAATATAAAATT
Found at i:104564 original size:23 final size:25
Alignment explanation
Indices: 104533--104582 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
104523 TTCAAGGCCC
* **
104533 AACCAATTAGAGTTTATTTTG-ATA
1 AACCAATTAAAGGATATTTTGAATA
104557 AACC-ATTAAAGGATATTTTGAATA
1 AACCAATTAAAGGATATTTTGAATA
104581 AA
1 AA
104583 GTAAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (25 bp):
AACCAATTAAAGGATATTTTGAATA
Found at i:105946 original size:15 final size:15
Alignment explanation
Indices: 105926--105955 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
105916 CTAACTAAAT
*
105926 AAACTAACAACTAAC
1 AAACTAAAAACTAAC
105941 AAACTAAAAACTAAC
1 AAACTAAAAACTAAC
105956 CACAATAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACTAAAAACTAAC
Found at i:107152 original size:15 final size:14
Alignment explanation
Indices: 107127--107160 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
107117 ATTTCGAGTT
107127 CTTTCTCACTCACA
1 CTTTCTCACTCACA
*
107141 CTTTCATCACTCTCA
1 CTTTC-TCACTCACA
107156 CTTTC
1 CTTTC
107161 CTTTTCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.18, C:0.41, G:0.00, T:0.41
Consensus pattern (14 bp):
CTTTCTCACTCACA
Found at i:109126 original size:57 final size:57
Alignment explanation
Indices: 109058--109172 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
109048 AACAGCTACA
* * *
109058 TGGTGTGAATATGTTGAATGCCTTAGCAATC-CTAAACAGCCACATTATGTGAACACT
1 TGGTGTGAATATGTTGAATGCCTTAGCAATCTC-AAACAACCACATAACGTGAACACT
* *
109115 TGGTGTGAATATGTTGAATGCCTTGGCAATCTCGAACAACCACATAACGTGAACACT
1 TGGTGTGAATATGTTGAATGCCTTAGCAATCTCAAACAACCACATAACGTGAACACT
109172 T
1 T
109173 TTGATCCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 51 0.98
58 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (57 bp):
TGGTGTGAATATGTTGAATGCCTTAGCAATCTCAAACAACCACATAACGTGAACACT
Found at i:115240 original size:68 final size:68
Alignment explanation
Indices: 115050--115459 Score: 363
Period size: 68 Copynumber: 6.1 Consensus size: 68
115040 ACAAGTCAAA
* * * * *
115050 CCTCACTTTACCTTCAAGG-GTGTGTGATTTTAAGA--ATCAAGATCTACACTTTGCCTTCAAAG
1 CCTCACTCTACCTTCAAGGTGAGTGTGATTTTAAGATTAT-GATATCTACACTTTGCCTTCAAGG
*
115112 CAAG
65 CGAG
* * * * * *
115116 CCTCACACTACCTTTAAGGTGAGTTTGATTTT--GATTATGATATCCACGCTTTGCCTTTAAGGC
1 CCTCACTCTACCTTCAAGGTGAGTGTGATTTTAAGATTATGATATCTACACTTTGCCTTCAAGGC
115179 GAG
66 GAG
* *
115182 TCTCACTCTTCCTTCAAGGTGAGTGTGATTTTAAGATTATGATATCTACACTTTGCCTTCGAA-G
1 CCTCACTCTACCTTCAAGGTGAGTGTGATTTTAAGATTATGATATCTACACTTTGCCTTC-AAGG
115246 CGAG
65 CGAG
* * * *
115250 CCTCACCCTACCTTCAAAGTGAGTGTGATTTTAAGATTAAGATATTTACACTTTGCCTTCAAGGC
1 CCTCACTCTACCTTCAAGGTGAGTGTGATTTTAAGATTATGATATCTACACTTTGCCTTCAAGGC
115315 GAG
66 GAG
* * * * * ** *
115318 CCTCACTCTACCTTCAAGGTGAGAT-CGATTCTCAGGTT-TGAGATCTA-TGTTTGGCCTACAAG
1 CCTCACTCTACCTTCAAGGTGAG-TGTGATTTTAAGATTATGATATCTACACTTT-GCCTTCAAG
*
115380 GTGAG
64 GCGAG
* * * * * * * * ***
115385 CCTCGCTTTTCTTTCAATGTGAGTGTGATTTTAAGGATT-CGAGATCTACGCTTTATATTCAAGG
1 CCTCACTCTACCTTCAAGGTGAGTGTGATTTTAA-GATTATGATATCTACACTTTGCCTTCAAGG
115449 CGAG
65 CGAG
115453 CCTCACT
1 CCTCACT
115460 TTACTTAATT
Statistics
Matches: 275, Mismatches: 57, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
65 2 0.01
66 68 0.25
67 56 0.20
68 143 0.52
69 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (68 bp):
CCTCACTCTACCTTCAAGGTGAGTGTGATTTTAAGATTATGATATCTACACTTTGCCTTCAAGGC
GAG
Found at i:135345 original size:359 final size:359
Alignment explanation
Indices: 134686--135404 Score: 1375
Period size: 359 Copynumber: 2.0 Consensus size: 359
134676 TTGCATTTGG
134686 AGGTTGATTTGGAAGGGAAAGGTACCTCAAAGGGTTAAATTGTTCTTATCGTTACTTTGGAAGGG
1 AGGTTGATTTGGAAGGGAAAGGTACCTCAAAGGGTTAAATTGTTCTTATCGTTACTTTGGAAGGG
*
134751 GAGAATTTTAACTAATGACGAAAGAACAAGGAGGCACATTACAAATGATAGTAGTTGTCCATGTT
66 GAGAATTTTAACTAATGACGAAAGAACAAGGAGGCACATAACAAATGATAGTAGTTGTCCATGTT
* * *
134816 GCGGCCAGTTTGAGGAATTCAAATTGCATGCTCTGCGAGATTGCAACTTTTCTAAATCAGTGTGG
131 GCAGCCAGTTTGAGGAATTCAAATTGCATGCTCTACGAAATTGCAACTTTTCTAAATCAGTGTGG
*
134881 CGTTTGATTGTACTGAACCATAATCAAGTATATTTCTTCTCCTTATCAATTCAAGACAGGTTGCT
196 CGTTCGATTGTACTGAACCATAATCAAGTATATTTCTTCTCCTTATCAATTCAAGACAGGTTGCT
*
134946 ATGGAATGTACAAGATATTGGAGATTGTGGCTCGCATGACATTGATTGGCAAATGTCTTTCCCTA
261 ATGGAATCTACAAGATATTGGAGATTGTGGCTCGCATGACATTGATTGGCAAATGTCTTTCCCTA
135011 TAATCTACTGGTTATTATGGAAAAGTAGGAACAC
326 TAATCTACTGGTTATTATGGAAAAGTAGGAACAC
135045 AGGTTGATTTGGAAGGGAAAGGTACCTCAAAGGGTTAAATTGTTCTTATCGTTACTTTGGAAGGG
1 AGGTTGATTTGGAAGGGAAAGGTACCTCAAAGGGTTAAATTGTTCTTATCGTTACTTTGGAAGGG
*
135110 GAGAATTTTAACTAATGACGAATGAACAAGGAGGCACATAACAAATGATAGTAGTTGTCCATGTT
66 GAGAATTTTAACTAATGACGAAAGAACAAGGAGGCACATAACAAATGATAGTAGTTGTCCATGTT
135175 GCAGCCAGTTTGAGGAATTCAAATTGCATGCTCTACGAAATTGCAACTTTTCTAAATCAGTGTGG
131 GCAGCCAGTTTGAGGAATTCAAATTGCATGCTCTACGAAATTGCAACTTTTCTAAATCAGTGTGG
135240 CGTTCGATTGTACTGAACCATAATCAAGTATATTTCTTCTCCTTATCAATTCAAGACAGGTTGCT
196 CGTTCGATTGTACTGAACCATAATCAAGTATATTTCTTCTCCTTATCAATTCAAGACAGGTTGCT
135305 ATGGAATCTACAAGATATTGGAGATTGTGGCTCGCATGACATTGATTGGCAAATGTCTTTCCCTA
261 ATGGAATCTACAAGATATTGGAGATTGTGGCTCGCATGACATTGATTGGCAAATGTCTTTCCCTA
135370 TAATCTACTGGTTATTATGGAAAAGTAGGAACAC
326 TAATCTACTGGTTATTATGGAAAAGTAGGAACAC
135404 A
1 A
135405 TTTTATTATC
Statistics
Matches: 353, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
359 353 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (359 bp):
AGGTTGATTTGGAAGGGAAAGGTACCTCAAAGGGTTAAATTGTTCTTATCGTTACTTTGGAAGGG
GAGAATTTTAACTAATGACGAAAGAACAAGGAGGCACATAACAAATGATAGTAGTTGTCCATGTT
GCAGCCAGTTTGAGGAATTCAAATTGCATGCTCTACGAAATTGCAACTTTTCTAAATCAGTGTGG
CGTTCGATTGTACTGAACCATAATCAAGTATATTTCTTCTCCTTATCAATTCAAGACAGGTTGCT
ATGGAATCTACAAGATATTGGAGATTGTGGCTCGCATGACATTGATTGGCAAATGTCTTTCCCTA
TAATCTACTGGTTATTATGGAAAAGTAGGAACAC
Found at i:141639 original size:15 final size:15
Alignment explanation
Indices: 141619--141652 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
141609 TTTGTGGAAT
*
141619 TGAATAAAATTGAAA
1 TGAATAAAAATGAAA
*
141634 TGAATAAAAATGGAA
1 TGAATAAAAATGAAA
141649 TGAA
1 TGAA
141653 ATTGTATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (15 bp):
TGAATAAAAATGAAA
Found at i:142221 original size:56 final size:55
Alignment explanation
Indices: 142071--142223 Score: 166
Period size: 56 Copynumber: 2.7 Consensus size: 55
142061 ATAACTACTT
* * * *
142071 TGATTCTAGCTCGGAAAGAGTGGTGTTC-AGATTGTGTCTCGAGAAGAGCAAAGTTC
1 TGATTCTGGCTCGGAAAGAGCGATGTTCTA-ATT-TGGCTCGAGAAGAGCAAAGTTC
* * * * *
142127 TGATTTTGGCTCGGGAAGAGCGAAGTTCTGATATTGGCTTGAGAAGAGCAACA-TTC
1 TGATTCTGGCTCGGAAAGAGCGATGTTCTAAT-TTGGCTCGAGAAGAGCAA-AGTTC
142183 TGATTCTGGCTCGGAAAGAGCGATGTTCTAATTCTGGCTCG
1 TGATTCTGGCTCGGAAAGAGCGATGTTCTAATT-TGGCTCG
142224 GTGGAGAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
55 1 0.01
56 76 0.96
57 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (55 bp):
TGATTCTGGCTCGGAAAGAGCGATGTTCTAATTTGGCTCGAGAAGAGCAAAGTTC
Found at i:142224 original size:28 final size:28
Alignment explanation
Indices: 142071--142224 Score: 118
Period size: 28 Copynumber: 5.5 Consensus size: 28
142061 ATAACTACTT
* * **
142071 TGATTCTAGCTCGGAAAGAGTGGTGTTC
1 TGATTCTGGCTCGGAAAGAGCGAAGTTC
* * * *
142099 AGATTGTGTCTC-GAGAAGAGCAAAGTTC
1 TGATTCTGGCTCGGA-AAGAGCGAAGTTC
* *
142127 TGATTTTGGCTCGGGAAGAGCGAAGTTC
1 TGATTCTGGCTCGGAAAGAGCGAAGTTC
* *
142155 TGATAT-TGGCT-TGAGAAGAGC-AACATTC
1 TGAT-TCTGGCTCGGA-AAGAGCGAA-GTTC
*
142183 TGATTCTGGCTCGGAAAGAGCGATGTTC
1 TGATTCTGGCTCGGAAAGAGCGAAGTTC
*
142211 TAATTCTGGCTCGG
1 TGATTCTGGCTCGG
142225 TGGAGAAATT
Statistics
Matches: 98, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
27 6 0.06
28 87 0.89
29 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
TGATTCTGGCTCGGAAAGAGCGAAGTTC
Found at i:142276 original size:25 final size:25
Alignment explanation
Indices: 142246--142305 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
142236 TTTGAACTTC
*
142246 GGCTCGTAAGAGCAATATCCTGTCT
1 GGCTCGTAAGAACAATATCCTGTCT
* *
142271 GGCTCGTAAGAACGATATTCTGTCT
1 GGCTCGTAAGAACAATATCCTGTCT
* *
142296 AGCTTGTAAG
1 GGCTCGTAAG
142306 TGTAATAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (25 bp):
GGCTCGTAAGAACAATATCCTGTCT
Found at i:151216 original size:37 final size:37
Alignment explanation
Indices: 150999--151216 Score: 256
Period size: 37 Copynumber: 5.9 Consensus size: 37
150989 GTTTGCACAA
* * * * *
150999 TATTTAGGCTGTGGGACTAGCAAGCTTCGTGCCAGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTG
* **
151036 TATTCAGGCTGTGTGCCTAGCAGGCTTCATGTTGGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTG
* *
151073 TATTCAGGCTGTGTGCCTAGTAGGCTTCGTGTCGGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTG
*
151110 TATTCAGGCTGTGTGCCTAGCAGGCTACGTGCCGGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTG
* * * * *
151147 TATTCAGGTTGTGTGTCAAGTAAGCTTCGTGCCGGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTG
* * * *
151184 TATTCGGGCTATGTGCCTAGCAGACTTTGTGCC
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCC
151217 AGTGATCCAA
Statistics
Matches: 152, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 152 1.00
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.33
Consensus pattern (37 bp):
TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCCGGTG
Found at i:158363 original size:37 final size:37
Alignment explanation
Indices: 158299--158431 Score: 194
Period size: 37 Copynumber: 3.6 Consensus size: 37
158289 GTTTGCACAA
* * * **
158299 TATTTAGGTTGTGTGCCTAGCAAGCTTCGTGCCAGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCTGGTG
158336 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCTGGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCTGGTG
* *
158373 TATTCAGGCTATGTACCTAGCAGGCTTCGTGCTGGTG
1 TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCTGGTG
*
158410 TATTCAAGCTGTGTGCCTAGCA
1 TATTCAGGCTGTGTGCCTAGCA
158432 AGTTTTGTGC
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 86 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (37 bp):
TATTCAGGCTGTGTGCCTAGCAGGCTTCGTGCTGGTG
Found at i:161090 original size:10 final size:10
Alignment explanation
Indices: 161063--161119 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
161053 CATCACATGT
161063 TAATCACATA
1 TAATCACATA
*
161073 TAACCACATA
1 TAATCACATA
* *
161083 TAGTCACAAA
1 TAATCACATA
*
161093 TAATGACATA
1 TAATCACATA
*
161103 TAATCACATT
1 TAATCACATA
161113 TAATCAC
1 TAATCAC
161120 TTTTATTCAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (10 bp):
TAATCACATA
Found at i:161124 original size:10 final size:10
Alignment explanation
Indices: 161054--161130 Score: 55
Period size: 10 Copynumber: 7.6 Consensus size: 10
161044 CATATATTCC
161054 ATCACATGTTA
1 ATCACAT-TTA
*
161065 ATCACATATA
1 ATCACATTTA
* *
161075 ACCACATATA
1 ATCACATTTA
* **
161085 GTCACAAATA
1 ATCACATTTA
* *
161095 ATGACATATA
1 ATCACATTTA
161105 ATCACATTTA
1 ATCACATTTA
*
161115 ATCACTTTTA
1 ATCACATTTA
*
161125 TTCACA
1 ATCACA
161131 ATTTGATAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
10 46 0.87
11 7 0.13
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (10 bp):
ATCACATTTA
Found at i:161586 original size:36 final size:36
Alignment explanation
Indices: 161519--161597 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
161509 ATATAAACAT
* * * *
161519 TGTCACATGGCATGAAAAACGCACCCACATATTTAC
1 TGTCACATGACATGAAAAACACAACCACATATTCAC
* * *
161555 TGTCACATGACATGAATAACATAACCTCATATTCAC
1 TGTCACATGACATGAAAAACACAACCACATATTCAC
*
161591 TTTCACA
1 TGTCACA
161598 ACATTCATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (36 bp):
TGTCACATGACATGAAAAACACAACCACATATTCAC
Found at i:168874 original size:17 final size:17
Alignment explanation
Indices: 168848--168889 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
168838 AAAAATTAAA
168848 ATAA-TAATTTTGAGAC
1 ATAATTAATTTTGAGAC
168864 ATAATTAATTTTGAGAC
1 ATAATTAATTTTGAGAC
168881 ATAATTAAT
1 ATAATTAAT
168890 GATTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (17 bp):
ATAATTAATTTTGAGAC
Found at i:181956 original size:88 final size:88
Alignment explanation
Indices: 181802--181979 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 88
181792 AATTTCGATC
*
181802 AGATTCAACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATAT
1 AGATCCAACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATAT
181867 TTATAATTGCACAAATAGGACAA
66 TTATAATTGCACAAATAGGACAA
181890 AGATCCAACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATAT
1 AGATCCAACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATAT
181955 TTATAATTGCACAAATAGGACAA
66 TTATAATTGCACAAATAGGACAA
181978 AG
1 AG
181980 TTCAAACAGA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (88 bp):
AGATCCAACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATAT
TTATAATTGCACAAATAGGACAA
Found at i:181999 original size:88 final size:88
Alignment explanation
Indices: 181808--181999 Score: 305
Period size: 88 Copynumber: 2.2 Consensus size: 88
181798 GATCAGATTC
* *
181808 AACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATATTTATAA
1 AACTAGATTGATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATATTTATAA
*
181873 TTGCACAAATAGGACAAAGATCC
66 TTGCACAAATAGGACAAAGATCA
* *
181896 AACTCGATTTATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATATTTATAA
1 AACTAGATTGATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATATTTATAA
*
181961 TTGCACAAATAGGACAAAGTTCA
66 TTGCACAAATAGGACAAAGATCA
*
181984 AAC-AGAATTGCTGAAT
1 AACTAG-ATTGATGAAT
182000 GCTAATTCCG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 1 0.01
88 97 0.99
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (88 bp):
AACTAGATTGATGAATACGTATATTTAACTTTTATTATAAAATAGAATATTATATATATTTATAA
TTGCACAAATAGGACAAAGATCA
Found at i:182526 original size:2 final size:2
Alignment explanation
Indices: 182521--182548 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
182511 AACTGATCTA
182521 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
182549 ACCTCTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:189172 original size:18 final size:17
Alignment explanation
Indices: 189144--189191 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
189134 ATTTTTAACT
189144 TTTTTAGATATTTAAATTA
1 TTTTTAGATATTT-AA-TA
189163 TTTTTA-ATATTTAATA
1 TTTTTAGATATTTAATA
*
189179 TTTTTATATATTT
1 TTTTTAGATATTT
189192 TTTTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.29
17 8 0.29
18 6 0.21
19 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTTAGATATTTAATA
Found at i:189259 original size:17 final size:17
Alignment explanation
Indices: 189239--189271 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
189229 ATTAGTTTAA
189239 TATT-TATATTATAGTAG
1 TATTATATATT-TAGTAG
189256 TATTATATATTTAGTA
1 TATTATATATTTAGTA
189272 TAAGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTATATATTTAGTAG
Found at i:193658 original size:49 final size:49
Alignment explanation
Indices: 193605--193701 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
193595 TCGTATAAAA
* * * *
193605 CTACACTTCCTTTATTTGACATTGATTAGAATAAGGTTTTTCAACTTTG
1 CTACACTTCATCTATTTGACATTAATTAAAATAAGGTTTTTCAACTTTG
193654 CTACACTTCATCTATTTGACATTAATTAAAATAAGGTTTTTCAACTTT
1 CTACACTTCATCTATTTGACATTAATTAAAATAAGGTTTTTCAACTTT
193702 TCTTGAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (49 bp):
CTACACTTCATCTATTTGACATTAATTAAAATAAGGTTTTTCAACTTTG
Done.