Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011180.1 Kokia drynarioides strain JFW-HI SEQ_126156, 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: 111212
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 33 characters in sequence are not A, C, G, or T
Found at i:6623 original size:2 final size:2
Alignment explanation
Indices: 6585--6610 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6575 TCAAAACTTA
6585 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
6611 TGATTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10159 original size:27 final size:27
Alignment explanation
Indices: 10108--10160 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
10098 TGTCCACTTC
* **
10108 TCTCAGATTGGTACCTAAAGTTTTTTG
1 TCTCAGATTGGTACCCAAACATTTTTG
*
10135 TCTCAGATTGGTACCCGAACATTTTT
1 TCTCAGATTGGTACCCAAACATTTTT
10161 TTCGTCCACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (27 bp):
TCTCAGATTGGTACCCAAACATTTTTG
Found at i:10902 original size:30 final size:30
Alignment explanation
Indices: 10868--10935 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
10858 AAATTGATTG
* *
10868 TTTTATTTGGTATTATATATACCTTTTATT
1 TTTTATTTCGTATTATATATAACTTTTATT
* *
10898 TTTTAATTCGTATTATATCTAACTTTTATT
1 TTTTATTTCGTATTATATATAACTTTTATT
10928 TTTTATTT
1 TTTTATTT
10936 TCTTGGCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (30 bp):
TTTTATTTCGTATTATATATAACTTTTATT
Found at i:11047 original size:4 final size:4
Alignment explanation
Indices: 11038--11087 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
11028 TTACTGTTTG
*
11038 TGTA TGTA TGTA TGTA T-AA T-TA TGTA TGTTA TGTA CTGTTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-TA TGTA -TG-TA TGTA TGTA
11087 T
1 T
11088 AATCATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 4 0.10
4 26 0.65
5 8 0.20
6 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:11063 original size:14 final size:13
Alignment explanation
Indices: 11044--11201 Score: 59
Period size: 12 Copynumber: 12.4 Consensus size: 13
11034 TTTGTGTATG
11044 TATGTATGTATAAT
1 TATGTATGTAT-AT
11058 TATGTATGT-TAT
1 TATGTATGTATAT
11070 GTACTGTTATGTATGTAT
1 -TA-TG-TATGTA--TAT
* *
11088 AAT-CATGTATAT
1 TATGTATGTATAT
*
11100 TATG-A-ATATAT
1 TATGTATGTATAT
* *
11111 AAT-TATGTATGT
1 TATGTATGTATAT
*
11123 TATGT-T-TACTGT
1 TATGTATGTA-TAT
* *
11135 TATGTTTGTTTAT
1 TATGTATGTATAT
*
11148 T-TGTATGTATGT
1 TATGTATGTATAT
11160 TATGT-T-TACTAT
1 TATGTATGTA-TAT
*
11172 TATGTTTGTATAT
1 TATGTATGTATAT
* *
11185 T-TTTATGTATGT
1 TATGTATGTATAT
11197 TATGT
1 TATGT
11202 TTACTGTTAT
Statistics
Matches: 108, Mismatches: 18, Indels: 37
0.66 0.11 0.23
Matches are distributed among these distances:
11 12 0.11
12 49 0.45
13 18 0.17
14 19 0.18
15 5 0.05
16 1 0.01
17 1 0.01
18 3 0.03
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.56
Consensus pattern (13 bp):
TATGTATGTATAT
Found at i:11139 original size:21 final size:21
Alignment explanation
Indices: 11113--11213 Score: 87
Period size: 21 Copynumber: 5.3 Consensus size: 21
11103 GAATATATAA
11113 TTATGTATGTTATGTTTACTG
1 TTATGTATGTTATGTTTACTG
* *
11134 TTATGTTTGTT-T-ATT--TG
1 TTATGTATGTTATGTTTACTG
11151 -TATGTATGTTATGTTTAC--
1 TTATGTATGTTATGTTTACTG
* * *
11169 -TAT-TATGTT-TGTATATTT
1 TTATGTATGTTATGTTTACTG
11187 TTATGTATGTTATGTTTACTG
1 TTATGTATGTTATGTTTACTG
11208 TTATGT
1 TTATGT
11214 TTGTATGACT
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
16 14 0.23
17 9 0.15
18 5 0.08
19 5 0.08
20 7 0.11
21 22 0.35
ACGTcount: A:0.19, C:0.03, G:0.17, T:0.61
Consensus pattern (21 bp):
TTATGTATGTTATGTTTACTG
Found at i:11155 original size:37 final size:37
Alignment explanation
Indices: 11114--11219 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
11104 AATATATAAT
*
11114 TATGTATGTTATGTTTACTGTTATGTTTGTTTATTTG
1 TATGTATGTTATGTTTACTGTTATGTTTGTATATTTG
* *
11151 TATGTATGTTATGTTTACTATTATGTTTGTATATTTT
1 TATGTATGTTATGTTTACTGTTATGTTTGTATATTTG
11188 TATGTATGTTATGTTTACTGTTATGTTTGTAT
1 TATGTATGTTATGTTTACTGTTATGTTTGTAT
11220 GACTATTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.19, C:0.03, G:0.17, T:0.61
Consensus pattern (37 bp):
TATGTATGTTATGTTTACTGTTATGTTTGTATATTTG
Found at i:11155 original size:74 final size:73
Alignment explanation
Indices: 11077--11217 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 73
11067 TATGTACTGT
11077 TATGTATGTATAATCATGTA-TATTATG-AATATATAATTATGTATGTTATGTTTACTGTTATGT
1 TATGTATGT-T-AT-ATGTACTATTATGTAATATATAATTATGTATGTTATGTTTACTGTTATGT
11140 TTGTTTATTTG
63 TTGTTTATTTG
* * ** **
11151 TATGTATGTTATGTTTACTATTATGTTTGTATATTTTTATGTATGTTATGTTTACTGTTATGTTT
1 TATGTATGTTATATGTACTATTATG-TAATATATAATTATGTATGTTATGTTTACTGTTATGTTT
11216 GT
65 GT
11218 ATGACTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
71 3 0.05
72 9 0.16
73 1 0.02
74 45 0.78
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (73 bp):
TATGTATGTTATATGTACTATTATGTAATATATAATTATGTATGTTATGTTTACTGTTATGTTTG
TTTATTTG
Found at i:13788 original size:17 final size:16
Alignment explanation
Indices: 13762--13793 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13752 CCCTCCTGGG
13762 AAAACAAAGAGTCAAT
1 AAAACAAAGAGTCAAT
13778 AAAACCAAAGAGTCAA
1 AAAA-CAAAGAGTCAA
13794 ATAGTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.09
Consensus pattern (16 bp):
AAAACAAAGAGTCAAT
Found at i:15529 original size:23 final size:23
Alignment explanation
Indices: 15446--15621 Score: 169
Period size: 23 Copynumber: 7.6 Consensus size: 23
15436 TATATGGAAC
* *
15446 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
15468 -AACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
15489 GGGAAATAAAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* *
15515 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
15538 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
15561 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
15584 AATAACAGAGAGCACACATAGTGCT
1 -A-AACAGAGAGCACACAAAGTGCT
*
15609 AATCAGAGAGCAC
1 AAACAGAGAGCAC
15622 GCTAGTGTTC
Statistics
Matches: 127, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
21 17 0.13
23 71 0.56
24 2 0.02
25 31 0.24
26 6 0.05
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:15547 original size:25 final size:23
Alignment explanation
Indices: 15498--15621 Score: 176
Period size: 23 Copynumber: 5.3 Consensus size: 23
15488 TGGGAAATAA
* *
15498 AGAGCACACACAGTGCTAAACAG
1 AGAGCACACAAAGTGCTAATCAG
* *
15521 AGAGTACACAAAGTACTAATCAG
1 AGAGCACACAAAGTGCTAATCAG
15544 AGAGCACACAAAGTGCTAATCAG
1 AGAGCACACAAAGTGCTAATCAG
*
15567 AGAGCACACACAGTGCTAATAACAG
1 AGAGCACACAAAGTGCTAAT--CAG
*
15592 AGAGCACACATAGTGCTAATCAG
1 AGAGCACACAAAGTGCTAATCAG
15615 AGAGCAC
1 AGAGCAC
15622 GCTAGTGTTC
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 69 0.76
25 22 0.24
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.13
Consensus pattern (23 bp):
AGAGCACACAAAGTGCTAATCAG
Found at i:15593 original size:71 final size:68
Alignment explanation
Indices: 15446--15621 Score: 223
Period size: 71 Copynumber: 2.5 Consensus size: 68
15436 TATATGGAAC
*
15446 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACATAAGTGCTGGGAAATAAAGAGCACACAC
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACAAAAGTGCT--G-AATAAAGAGCACACAC
15509 AGTGCT
63 AGTGCT
*
15515 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACACA
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACA-AAAGTGCTGAAT-AAAGAGCACACACA
15579 GTGCT
64 GTGCT
* * *
15584 AATAACAGAGAGCACACATAGTGCTAATCAGAGAGCAC
1 -A-AACAGAGAGTACACAAAGTACTAATCAGAGAGCAC
15622 GCTAGTGTTC
Statistics
Matches: 96, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
68 3 0.03
69 31 0.32
70 12 0.12
71 43 0.45
72 7 0.07
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (68 bp):
AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACAAAAGTGCTGAATAAAGAGCACACACAGT
GCT
Found at i:21316 original size:24 final size:23
Alignment explanation
Indices: 21283--21332 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
21273 AGAAATAATC
* *
21283 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTT-TTTG
*
21307 TTTCAATTAAACTTTATTTTTTG
1 TTTCAATTAAACTCTATTTTTTG
21330 TTT
1 TTT
21333 GAGTCAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.60
Consensus pattern (23 bp):
TTTCAATTAAACTCTATTTTTTG
Found at i:24371 original size:31 final size:31
Alignment explanation
Indices: 24305--24373 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
24295 TGTACAACAT
* * * *
24305 TTGGTACTTTAACTTGACATTTCTTCTTAAT
1 TTGGTACCTAAACTTGACATTTCATCTTAAG
*
24336 TTGGTACCTAAACTTGACACTTT-ATCTTCAG
1 TTGGTACCTAAACTTGACA-TTTCATCTTAAG
24367 TTGGTAC
1 TTGGTAC
24374 TTAATCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (31 bp):
TTGGTACCTAAACTTGACATTTCATCTTAAG
Found at i:24927 original size:23 final size:23
Alignment explanation
Indices: 24897--24941 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24887 AAATTGAGAC
*
24897 AAAAAAAAT-TTAAGTATCAAATT
1 AAAAAAAATATTAAAT-TCAAATT
24920 AAAAAAAATATTAAATTCAAAT
1 AAAAAAAATATTAAATTCAAAT
24942 ACCAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAAAATATTAAATTCAAATT
Found at i:26476 original size:29 final size:29
Alignment explanation
Indices: 26434--26493 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
26424 CCATCCACAT
26434 TAAACATGAACGAACCTTTTGGACACCTA
1 TAAACATGAACGAACCTTTTGGACACCTA
26463 TAAACATGAACGAACCTTTTGGACACCTA
1 TAAACATGAACGAACCTTTTGGACACCTA
26492 TA
1 TA
26494 GTCAGCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (29 bp):
TAAACATGAACGAACCTTTTGGACACCTA
Found at i:27978 original size:21 final size:21
Alignment explanation
Indices: 27952--27993 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27942 AAAGAAGAAG
27952 AGAAAACAAAAAG-AAAAACTA
1 AGAAAAC-AAAAGCAAAAACTA
*
27973 AGAAAACTAAAGCAAAAACTA
1 AGAAAACAAAAGCAAAAACTA
27994 TCCTAGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.71, C:0.12, G:0.10, T:0.07
Consensus pattern (21 bp):
AGAAAACAAAAGCAAAAACTA
Found at i:32198 original size:122 final size:122
Alignment explanation
Indices: 32001--32448 Score: 546
Period size: 122 Copynumber: 3.6 Consensus size: 122
31991 AGATTGAATG
* * * * * * * *
32001 CTTCAATCTACCTCATGATCGAGATAAGAGATTGGCTAATGTCTTAAATCTACCTCATGATCGAG
1 CTTCAATCTACC-CATGATCGGGGTAAGAGATTAGAT-GTGTCTTCAATCTACCCCATGATCGGG
*
32066 GTAAGAGATTGGATGGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
64 GTAAGAGATTGGATGGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGGTGT
* * *
32125 CTTCAATCTACTCCAAGATCGGGGTAAGAGATTTGATG-GTCTTCAATCTACCCCATTATCGGGG
1 CTTCAATCTAC-CCATGATCGGGGTAAGAGATTAGATGTGTCTTCAATCTACCCCATGATCGGGG
*
32189 TAAGAGATTGGATGGTCTTCAATCTACCCCATGATCAGGGTAAGAGATTGGATGGTGT
65 TAAGAGATTGGATGGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGGTGT
* * * **
32247 CTTCAATTTACACCATGATTGGGGTAAGAGATTAGATGGTGTCTTCAATCTGCCCTC-TGATTAG
1 CTTCAATCTAC-CCATGATCGGGGTAAGAGATTAGAT-GTGTCTTCAATCTACCC-CATGATCGG
* * *
32311 GGTAAGCA-ATTGGAT-G-CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGTAT
63 GGTAAG-AGATTGGATGGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGGTGT
* * * * *
32369 CTTCAATCTACCCTATGATCGAGGAAAGAAATTGGATGATGTCTTCAATCTACCCCATGATTGGG
1 CTTCAATCTACCC-ATGATCGGGGTAAGAGATTAGATG-TGTCTTCAATCTACCCCATGATCGGG
32434 GTAAGAGATTGGATG
64 GTAAGAGATTGGATG
32449 ATGTATTTAA
Statistics
Matches: 281, Mismatches: 33, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
121 5 0.02
122 210 0.75
123 2 0.01
124 61 0.22
125 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (122 bp):
CTTCAATCTACCCATGATCGGGGTAAGAGATTAGATGTGTCTTCAATCTACCCCATGATCGGGGT
AAGAGATTGGATGGTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGGTGT
Found at i:32273 original size:164 final size:162
Alignment explanation
Indices: 31993--32452 Score: 581
Period size: 164 Copynumber: 2.8 Consensus size: 162
31983 AAGGTAAAAG
* * * * *
31993 ATTGAATGCTTCAATCTACCTCATGATCGAGATAAGAGATTGGCTAAT-GTCTTAAATCTACCTC
1 ATTGGATGCTTCAATCTACCCCATGATCGAGGTAAGAGATTGG---ATGGTCTTCAATCTACCCC
*
32057 ATGATCGAGGTAAGAGATTGGAT-G-GTCTTCAATCTACCCCATGATCGGGGTAAGAGATTGGAT
63 ATGATCGAGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGAT
*
32120 GATGTCTTCAATCTACTCC-AAGATCGGGGTAAG-A
128 GATGTCTTCAATCTAC-CCTAAGATCAGGGTAAGCA
* * *
32154 GATTTGATGGTCTTCAATCTACCCCATTATCGGGGTAAGAGATTGGATGGTCTTCAATCTACCCC
1 -ATTGGAT-G-CTTCAATCTACCCCATGATCGAGGTAAGAGATTGGATGGTCTTCAATCTACCCC
* * *
32219 ATGATC-AGGGTAAGAGATTGGATGGTGTCTTCAATTTACACCATGATTGGGGTAAGAGATTAGA
63 ATGATCGA-GGTAAGAGATTGGATGGTGTCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGA
* * ** *
32283 TGGTGTCTTCAATCTGCCCTCTGATTAGGGTAAGCA
127 TGATGTCTTCAATCTACCCTAAGATCAGGGTAAGCA
* *
32319 ATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGTATCTTCAATCTACCCTA
1 ATTGGATGCTTCAATCTACCCCATGATCGAGGTAAGAGATTGGATGG--TCTTCAATCTACCCCA
* * *
32384 TGATCGAGGAAAGAAATTGGATGATGTCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGATG
64 TGATCGAGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGATG
32449 ATGT
129 ATGT
32453 ATTTAATTTT
Statistics
Matches: 257, Mismatches: 30, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
161 3 0.01
162 76 0.30
163 5 0.02
164 171 0.67
165 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (162 bp):
ATTGGATGCTTCAATCTACCCCATGATCGAGGTAAGAGATTGGATGGTCTTCAATCTACCCCATG
ATCGAGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCATGATTGGGGTAAGAGATTGGATGAT
GTCTTCAATCTACCCTAAGATCAGGGTAAGCA
Found at i:32449 original size:42 final size:42
Alignment explanation
Indices: 32001--32452 Score: 523
Period size: 42 Copynumber: 11.0 Consensus size: 42
31991 AGATTGAATG
* * * * *
32001 CTTCAATCTACCTCATGATCGAGATAAGAGATTGGCTAATGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
32043 CTTAAATCTACCTCATGATCGAGGTAAGAGATTGGATG--GT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
32083 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
32125 CTTCAATCTACTCCAAGATCGGGGTAAGAGATTTGATG--GT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
*
32165 CTTCAATCTACCCCATTATCGGGGTAAGAGATTGGATG--GT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
32205 CTTCAATCTACCCCATGATCAGGGTAAGAGATTGGATGGTGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * * *
32247 CTTCAATTTACACCATGATTGGGGTAAGAGATTAGATGGTGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
* **
32289 CTTCAATCTGCCCTC-TGATTAGGGTAAGCA-ATT-G--GATG-
1 CTTCAATCTACCC-CATGATCGGGGTAAG-AGATTGGATGATGT
* * * *
32327 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGGTAT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * *
32369 CTTCAATCTACCCTATGATCGAGGAAAGAAATTGGATGATGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
*
32411 CTTCAATCTACCCCATGATTGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
32453 ATTTAATTTT
Statistics
Matches: 356, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.01
38 26 0.07
39 4 0.01
40 111 0.31
41 3 0.01
42 208 0.58
43 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGT
Found at i:32800 original size:47 final size:49
Alignment explanation
Indices: 32687--32808 Score: 131
Period size: 47 Copynumber: 2.5 Consensus size: 49
32677 GGTGTGGGAA
* * *
32687 TTGTCATTGCGGCCTCAATCTTTCCCTTCATATCTTTAAGGTATAAGGT
1 TTGTCATTGCGGCTTCAATCTTTCCCTTCATATCTTTAAGGTAAAAGAT
** * * * * * *
32736 TTACCGTTGGGGCTTCAACCTTTCCC-TCCT-TTTTTATGGTAAAAGAT
1 TTGTCATTGCGGCTTCAATCTTTCCCTTCATATCTTTAAGGTAAAAGAT
32783 TTGTCATTGCGGCTTCAATCTTTCCC
1 TTGTCATTGCGGCTTCAATCTTTCCC
32809 ATTTATATTT
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
47 34 0.60
48 3 0.05
49 20 0.35
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (49 bp):
TTGTCATTGCGGCTTCAATCTTTCCCTTCATATCTTTAAGGTAAAAGAT
Found at i:32926 original size:49 final size:50
Alignment explanation
Indices: 32693--33502 Score: 153
Period size: 49 Copynumber: 16.4 Consensus size: 50
32683 GGAATTGTCA
* * ** *
32693 TTGCGGCCTCAATCTTTCCCTTCATATCTTTA-AGGTATAAGGTTTACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGGTTCACCG
* * * * * ** * *** *
32742 TTGGGGCTTCAACCTTTCCC-TCCT-TTTTTAT-GGTAAAAGATTTGTCA
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGGTTCACCG
* * * * * * * * * *
32789 TTGCGGCTTCAATCTTTCCCATTTATATTTTCAT-TGTACTAGATCCGCTG
1 TTGCGGCCTCAACCTTTCCC-TTCATATCTTCATAGGTACCAGGTTCACCG
* * * **
32839 TTGCGGCCTCGATCTTTCCCATCACGTC-TC-TAAGGTACCAGGTTCACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-AGGTACCAGGTTCACCG
* *** *
32888 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATA-GTACC-GAATTTGTCA
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAG-GTTCACCG
* * * * * * * *
32937 TTGCAGCCCCAATCATTCCCATCACATCTTCTTAGGTACAAGGTTCACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGGTTCACCG
* * * **
32987 TTGTGGCCTCAACCTTTCCCTAT-ATATCTTTAT-GGTATC-GGATTCGTCG
1 TTGCGGCCTCAACCTTTCCCT-TCATATCTTCATAGGTACCAGG-TTCACCG
* * * * * * ***
33036 TTGCAGCCTCAATCC-TTCTCATCACATCTT-TTAAGGTA-TAGGGTTTGTCG
1 TTGCGGCCTCAA-CCTTTCCCTTCATATCTTCAT-AGGTACCA-GGTTCACCG
* * * * **
33086 TTGTGGCCTCAACCTTTCACTTCATATCTTCAT-GGAACCAGATTCGTCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGGTTCACCG
* * * * **
33135 TTACAGCCTCAATCC-TT-CCTATCACATCTTC-TAAGGTA-TAGGGTTCGTCG
1 TTGCGGCCTCAA-CCTTTCCCT-TCATATCTTCAT-AGGTACCA-GGTTCACCG
* * * * *
33185 TTGTGGCCTCAACCTTTCCCTTTATATCTTCAT-GATACC-GGATTCGCTG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGG-TTCACCG
* * * ** * * ***
33234 TTCCAGCCTCAATCTTT-CAATCACATCTT-TTAAGGTA-CATGGTTTGTCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-AGGTACCA-GGTTCACCG
* * **
33283 TTGCAGCCGT-AACCTTTCCCTTCATATCTTCAT-GGTATC-GGATTCACTA
1 TTGCGGCC-TCAACCTTTCCCTTCATATCTTCATAGGTACCAGG-TTCACCG
* * * ** * ** *
33332 TTGTGGACTAAATCC-TTCCAATCACATCTTCCA-AGGTA-CACGGTTTGCTG
1 TTGCGGCCTCAA-CCTTTCCCTTCATATCTT-CATAGGTACCA-GGTTCACCG
* * * * *
33382 TTGTGGCCTCAACCTTTCCCTTCATATCTTC-TTGGTATC-GGATTCGCTG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGG-TTCACCG
* * * * * * *
33431 TTGCGACCCCAGTCC-TTCCCATCACATCTTC-TAAGGTA-TATGGTTCACCA
1 TTGCGGCCTCA-ACCTTTCCCTTCATATCTTCAT-AGGTACCA-GGTTCACCG
33481 TTGCGGCCTCAACCTTTCCCTT
1 TTGCGGCCTCAACCTTTCCCTT
33503 TATTTCTATG
Statistics
Matches: 543, Mismatches: 162, Indels: 111
0.67 0.20 0.14
Matches are distributed among these distances:
47 36 0.07
48 29 0.05
49 259 0.48
50 204 0.38
51 15 0.03
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.36
Consensus pattern (50 bp):
TTGCGGCCTCAACCTTTCCCTTCATATCTTCATAGGTACCAGGTTCACCG
Found at i:32981 original size:99 final size:100
Alignment explanation
Indices: 32836--33502 Score: 663
Period size: 99 Copynumber: 6.8 Consensus size: 100
32826 ACTAGATCCG
* * * * * * *
32836 CTGTTGCGGCCTCGATCTTTCCCATCACGTC-TCTAAGGTACCAGGTTCACCGTTGCGGCCTCAA
1 CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCAA
* * *
32900 CCTTTCCCTTCATATCTTCATAGTACCGAATTTGT
66 CCTTTCCCTTCATATCTTCATGGTACCGGATTCGT
* * * * *
32935 C-ATTGCAGCCCCAATCATTCCCATCACATCTTCTTAGGTACAAGGTTCACCGTTGTGGCCTCAA
1 CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCAA
* *
32999 CCTTTCCCTAT-ATATCTTTATGGTATCGGATTCGT
66 CCTTTCCCT-TCATATCTTCATGGTACCGGATTCGT
* * * * * *
33034 C-GTTGCAGCCTCAATCCTTCTCATCACATCTTTTAAGGTATAGGGTTTGTCGTTGTGGCCTCAA
1 CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCAA
* * *
33098 CCTTTCACTTCATATCTTCATGGAACCAGATTCGT
66 CCTTTCCCTTCATATCTTCATGGTACCGGATTCGT
* * * * *
33133 C-GTTACAGCCTCAATCCTTCCTATCACATCTTCTAAGGTATAGGGTTCGTCGTTGTGGCCTCAA
1 CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCAA
* *
33197 CCTTTCCCTTTATATCTTCATGATACCGGATTCG-
66 CCTTTCCCTTCATATCTTCATGGTACCGGATTCGT
* * * * * * * **
33231 CTGTTCCAGCCTCAAT-CTTTCAATCACATCTTTTAAGGTACATGGTTTGTCGTTGCAGCCGT-A
1 CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCC-TCA
* *
33294 ACCTTTCCCTTCATATCTTCATGGTATCGGATTC-A
65 ACCTTTCCCTTCATATCTTCATGGTACCGGATTCGT
* ** * * * * * * *
33329 CTATTGTGGACTAAATCCTTCCAATCACATCTTCCAAGGTACACGGTTTGCTGTTGTGGCCTCAA
1 CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCAA
* *
33394 CCTTTCCCTTCATATCTTCTTGGTATCGGATTCG-
66 CCTTTCCCTTCATATCTTCATGGTACCGGATTCGT
* * * * * * *
33428 CTGTTGC-GACCCCAGTCCTTCCCATCACATCTTCTAAGGTATATGGTTCACCATTGCGGCCTCA
1 CTGTTGCAG-CCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCA
33492 ACCTTTCCCTT
65 ACCTTTCCCTT
33503 TATTTCTATG
Statistics
Matches: 476, Mismatches: 82, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
98 105 0.22
99 370 0.78
100 1 0.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (100 bp):
CTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTGGCCTCAA
CCTTTCCCTTCATATCTTCATGGTACCGGATTCGT
Found at i:33095 original size:50 final size:49
Alignment explanation
Indices: 32985--33200 Score: 172
Period size: 50 Copynumber: 4.4 Consensus size: 49
32975 CAAGGTTCAC
* * * *
32985 CGTTGTGGCCTCAACCTTTCCCTAT-ATATCTTTATGGTATCGGATTCGT
1 CGTTGTGGCCTCAACC-TTCTCTATCACATCTTTAAGGTATAGGATTCGT
** * *
33034 CGTTGCAGCCTCAATCCTTCTC-ATCACATCTTTTAAGGTATAGGGTTTGT
1 CGTTGTGGCCTCAA-CCTTCTCTATCACATC-TTTAAGGTATAGGATTCGT
* * * * * *
33084 CGTTGTGGCCTCAACCTTTCACT-TCATATCTTCATGGAACCA-GATTCGT
1 CGTTGTGGCCTCAACC-TTCTCTATCACATCTTTAAGGTA-TAGGATTCGT
*** *
33133 CGTTACAGCCTCAATCCTTC-CTATCACATCTTCTAAGGTATAGGGTTCGT
1 CGTTGTGGCCTCAA-CCTTCTCTATCACATCTT-TAAGGTATAGGATTCGT
33183 CGTTGTGGCCTCAACCTT
1 CGTTGTGGCCTCAACCTT
33201 TCCCTTTATA
Statistics
Matches: 127, Mismatches: 30, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
48 4 0.03
49 60 0.47
50 63 0.50
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (49 bp):
CGTTGTGGCCTCAACCTTCTCTATCACATCTTTAAGGTATAGGATTCGT
Found at i:33214 original size:50 final size:50
Alignment explanation
Indices: 32886--33502 Score: 212
Period size: 49 Copynumber: 12.5 Consensus size: 50
32876 CCAGGTTCAC
* ** ** *
32886 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATA-GTACCGAATTTGT
1 CGTTGTGGCCTCAACCTTTCCCTTCATATCTTCTA-AGGTATAGGGTTCGT
* ** * * * * * * * * **
32935 CATTGCAGCCCCAATCATTCCCATCACATCTTCTTAGGTACAAGGTTCAC
1 CGTTGTGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
* * *
32985 CGTTGTGGCCTCAACCTTTCCCTAT-ATATCTT-TATGGTATCGGATTCGT
1 CGTTGTGGCCTCAACCTTTCCCT-TCATATCTTCTAAGGTATAGGGTTCGT
** * * * * *
33034 CGTTGCAGCCTCAATCC-TTCTCATCACATCTTTTAAGGTATAGGGTTTGT
1 CGTTGTGGCCTCAA-CCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
* * * * *
33084 CGTTGTGGCCTCAACCTTTCACTTCATATCTTC-ATGGAACCA-GATTCGT
1 CGTTGTGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTA-TAGGGTTCGT
*** *
33133 CGTTACAGCCTCAATCC-TT-CCTATCACATCTTCTAAGGTATAGGGTTCGT
1 CGTTGTGGCCTCAA-CCTTTCCCT-TCATATCTTCTAAGGTATAGGGTTCGT
* * * ** *
33183 CGTTGTGGCCTCAACCTTTCCCTTTATATCTTC-ATGATACCGGATTCG-
1 CGTTGTGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
*** * ** * * * * *
33231 CTGTTCCAGCCTCAATCTTT-CAATCACATCTTTTAAGGTACATGGTTTGT
1 C-GTTGTGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
** * * * *
33281 CGTTGCAGCCGT-AACCTTTCCCTTCATATCTTC-ATGGTATCGGATTC-A
1 CGTTGTGGCC-TCAACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
* * * ** * * * * *
33329 CTATTGTGGACTAAATCC-TTCCAATCACATCTTCCAAGGTACACGGTTTG-
1 C-GTTGTGGCCTCAA-CCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
* * *
33379 CTGTTGTGGCCTCAACCTTTCCCTTCATATCTTCT-TGGTATCGGATTCG-
1 C-GTTGTGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
* * * * * * * **
33428 CTGTTGCGACCCCAGTCC-TTCCCATCACATCTTCTAAGGTATATGGTTCAC
1 C-GTTGTGGCCTCA-ACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
* *
33479 CATTGCGGCCTCAACCTTTCCCTT
1 CGTTGTGGCCTCAACCTTTCCCTT
33503 TATTTCTATG
Statistics
Matches: 399, Mismatches: 140, Indels: 57
0.67 0.23 0.10
Matches are distributed among these distances:
48 14 0.04
49 207 0.52
50 173 0.43
51 5 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (50 bp):
CGTTGTGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTATAGGGTTCGT
Found at i:33407 original size:296 final size:297
Alignment explanation
Indices: 32854--33505 Score: 745
Period size: 296 Copynumber: 2.2 Consensus size: 297
32844 GCCTCGATCT
* * *
32854 TTCCCATCACGTC-TCTAAGGTACCA-GGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCT
1 TTCCCATCACATCTTCTAAGGTA-TAGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTATATCT
* * *
32917 TCATAGTACCGAATTTGTCATTGCAGCCCCAATCATTCCCATCACATCTTCTTAGGTACAAGGTT
65 TCATAGTACCGAATTCGTCATTCCAGCCCCAATCATTCCAATCACATCTTCTTAGGTACAAGGTT
** * * * * *
32982 CACCGTTGTGGCCTCAACCTTTCCCTATATATCTTTATGGTATCGGATTCGTCGTTGCAGCCTCA
130 CACCGTTGCAGCCTCAACCTTTCCCTATATATCTTCATGGTATCGGATTCCTCATTGCAGACTAA
** * *
33047 ATCCTTCTCATCACATCTTTTAAGGTATAGGGTTTGTCGTTGTGGCCTCAACCTTTCACTTCATA
195 ATCCTTCTCATCACATCTTCCAAGGTACACGGTTTGTCGTTGTGGCCTCAACCTTTCACTTCATA
*
33112 TCTTCATGGAACCAGATTCG-TCGTTAC-AGCCTCAATCC
260 TCTTCATGGAACCAGATTCGCT-GTTACGA-CCCCAATCC
* ** *
33150 TTCCTATCACATCTTCTAAGGTATAGGGTTCGTCGTTGTGGCCTCAACCTTTCCCTTTATATCTT
1 TTCCCATCACATCTTCTAAGGTATAGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTATATCTT
* * * * *
33215 CAT-GATACCGGATTCG-CTGTTCCAGCCTCAATC-TTTCAATCACATCTT-TTAAGGTACATGG
66 CATAG-TACCGAATTCGTC-ATTCCAGCCCCAATCATTCCAATCACATCTTCTT-AGGTACAAGG
*** **
33276 TTTGTCGTTGCAGCCGT-AACCTTTCCCT-TCATATCTTCATGGTATCGGATTCACT-ATTGTGG
128 TTCACCGTTGCAGCC-TCAACCTTTCCCTAT-ATATCTTCATGGTATCGGATTC-CTCATTGCAG
*
33338 ACTAAATCCTTC-CAATCACATCTTCCAAGGTACACGGTTTG-CTGTTGTGGCCTCAACCTTTCC
190 ACTAAATCCTTCTC-ATCACATCTTCCAAGGTACACGGTTTGTC-GTTGTGGCCTCAACCTTTCA
* * * * * *
33401 CTTCATATCTTCTTGGTATCGGATTCGCTGTTGCGACCCCAGTCC
253 CTTCATATCTTCATGGAACCAGATTCGCTGTTACGACCCCAATCC
* *
33446 TTCCCATCACATCTTCTAAGGTATATGGTTCACCATTGCGGCCTCAACCTTTCCCTTTAT
1 TTCCCATCACATCTTCTAAGGTATAGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTAT
33506 TTCTATGGTG
Statistics
Matches: 299, Mismatches: 45, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
295 5 0.02
296 222 0.74
297 72 0.24
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (297 bp):
TTCCCATCACATCTTCTAAGGTATAGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTATATCTT
CATAGTACCGAATTCGTCATTCCAGCCCCAATCATTCCAATCACATCTTCTTAGGTACAAGGTTC
ACCGTTGCAGCCTCAACCTTTCCCTATATATCTTCATGGTATCGGATTCCTCATTGCAGACTAAA
TCCTTCTCATCACATCTTCCAAGGTACACGGTTTGTCGTTGTGGCCTCAACCTTTCACTTCATAT
CTTCATGGAACCAGATTCGCTGTTACGACCCCAATCC
Found at i:34212 original size:112 final size:115
Alignment explanation
Indices: 34033--34243 Score: 331
Period size: 112 Copynumber: 1.9 Consensus size: 115
34023 TTTTATATCG
* *
34033 TTAGACCACTAACTGTTATTTCAAATGCAAAAAATGTTTGAATCAAGATTGTAAGGTGGATGAAA
1 TTAGACCACTAACTGTTATTTCAAATGCAAAAAATGCTTGAATCAAGATTGTAAGGTGGATAAAA
* *
34098 TTGAATTTGATTGGAGGTAAAGCTTGCATGAATGAAAAGATTAAAAATCA
66 TTGAATTTGATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCA
*
34148 TTAGTCCACTAACTGTTATTTC-AATGC-AAAAATGCTTGAA-CATAG-TTGTAAGGTGGATAAA
1 TTAGACCACTAACTGTTATTTCAAATGCAAAAAATGCTTGAATCA-AGATTGTAAGGTGGATAAA
*
34209 ATTGAATTTTATTGGAGGCAAAGCTCGCATGAATG
65 ATTGAATTTGATTGGAGGCAAAGCTCGCATGAATG
34244 CAAACATTGA
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
112 49 0.55
113 14 0.16
114 5 0.06
115 21 0.24
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.31
Consensus pattern (115 bp):
TTAGACCACTAACTGTTATTTCAAATGCAAAAAATGCTTGAATCAAGATTGTAAGGTGGATAAAA
TTGAATTTGATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCA
Found at i:34580 original size:18 final size:17
Alignment explanation
Indices: 34553--34607 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
34543 CGACCTCTCC
34553 TTTTTT-TTTTCCTTCTT
1 TTTTTTCTTTTCCTT-TT
34570 TTTTTTCTTTTCCTTTT
1 TTTTTTCTTTTCCTTTT
*
34587 TCTTTTTCTCTT-CTTTT
1 T-TTTTTCTTTTCCTTTT
34604 TTTT
1 TTTT
34608 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 3 0.09
17 15 0.43
18 17 0.49
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTTCCTTTT
Found at i:34600 original size:32 final size:30
Alignment explanation
Indices: 34550--34621 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 30
34540 CCTCGACCTC
*
34550 TCCTTTTTTTTTTCCTTCTTTTTTTTCTTT
1 TCCTTTTTTTTTTCCTTCTTTTTTTTATTT
34580 TCCTTTTTCTTTTTCTCTTCTTTTTTTTATTT
1 TCCTTTTT-TTTTTC-CTTCTTTTTTTTATTT
**
34612 TTATTTTTTT
1 TCCTTTTTTT
34622 GGGTGAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.22
31 8 0.22
32 21 0.57
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (30 bp):
TCCTTTTTTTTTTCCTTCTTTTTTTTATTT
Found at i:35451 original size:16 final size:18
Alignment explanation
Indices: 35415--35451 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35405 TCATCTTAAC
*
35415 TTTCTTTTTTTCTTCCTT
1 TTTCTTTTCTTCTTCCTT
35433 TTTCTTTTCTTCTT-CTT
1 TTTCTTTTCTTCTTCCTT
35450 TT
1 TT
35452 ATTTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCTTTTCTTCTTCCTT
Found at i:39764 original size:19 final size:18
Alignment explanation
Indices: 39717--39765 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
39707 AATACGAGTA
39717 TGCAATTA-ATGAAAAAT
1 TGCAATTACATGAAAAAT
* *
39734 TG-AATAACATGAAGAAT
1 TGCAATTACATGAAAAAT
39751 GTGCAATTACATGAA
1 -TGCAATTACATGAA
39766 TAATAAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 10 0.38
18 2 0.08
19 10 0.38
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (18 bp):
TGCAATTACATGAAAAAT
Found at i:39983 original size:29 final size:29
Alignment explanation
Indices: 39950--40007 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
39940 ATAAGGAAAA
39950 AGGGGACAAAA-TGAAATTTTGGAAAGTTT
1 AGGGGACAAAACTGAAATTTTGG-AAGTTT
* * *
39979 AGGGGTCAAAACTTAATTTTTGGAAGTTT
1 AGGGGACAAAACTGAAATTTTGGAAGTTT
40008 GATGGTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (29 bp):
AGGGGACAAAACTGAAATTTTGGAAGTTT
Found at i:40002 original size:30 final size:29
Alignment explanation
Indices: 39966--40119 Score: 134
Period size: 30 Copynumber: 5.1 Consensus size: 29
39956 CAAAATGAAA
39966 TTTTGGAAAGTTTAGGGGTCAAAACTTAAT
1 TTTTGGAAAGTTT-GGGGTCAAAACTTAAT
* *
39996 TTTTGG-AAGTTTGATGGTTAAAA-TATAAT
1 TTTTGGAAAGTTTG-GGGTCAAAACT-TAAT
* * * *
40025 TTTCGAAAAGTTTGATGGTCAAAACATAAT
1 TTTTGGAAAGTTTG-GGGTCAAAACTTAAT
*
40055 TTTTGGAAAGTTTGGGGGTCAAATA-TGAAT
1 TTTTGGAAAGTTT-GGGGTCAAA-ACTTAAT
* *
40085 TTTTGGATAGTTTGGGGGTCCAAAACATAAT
1 TTTTGGAAAGTTT-GGGGT-CAAAACTTAAT
40116 TTTT
1 TTTT
40120 AAATAAAACA
Statistics
Matches: 102, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.02
29 21 0.21
30 66 0.65
31 13 0.13
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (29 bp):
TTTTGGAAAGTTTGGGGTCAAAACTTAAT
Found at i:40079 original size:59 final size:60
Alignment explanation
Indices: 39964--40119 Score: 167
Period size: 59 Copynumber: 2.6 Consensus size: 60
39954 GACAAAATGA
* * * *
39964 AATTTT-GGAAAGTTT-AGGGGTCAAAACTTAATTTTTGGAAGTTTGATGGTTAAAATAT-
1 AATTTTCGAAAAGTTTGA-GGGTCAAAACATAATTTTTGGAAGTTTGAGGGGTAAAATATG
* *
40022 AATTTTCGAAAAGTTTGATGGTCAAAACATAATTTTTGGAAAGTTTG-GGGGTCAAATATG
1 AATTTTCGAAAAGTTTGAGGGTCAAAACATAATTTTTGG-AAGTTTGAGGGGTAAAATATG
* * * *
40082 AATTTTTGGATAGTTTGGGGGTCCAAAACATAATTTTT
1 AATTTTCGAAAAGTTTGAGGGT-CAAAACATAATTTTT
40120 AAATAAAACA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
58 6 0.07
59 36 0.44
60 25 0.30
61 15 0.18
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (60 bp):
AATTTTCGAAAAGTTTGAGGGTCAAAACATAATTTTTGGAAGTTTGAGGGGTAAAATATG
Found at i:45272 original size:30 final size:29
Alignment explanation
Indices: 45238--45294 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
45228 CATATTGACA
*
45238 AATTAGTTAAATTAATAATTTTTATTAAAT
1 AATTAGTTAAATTAAT-ATTTGTATTAAAT
* * *
45268 AATTATTTAATTTAGTATTTGTATTAA
1 AATTAGTTAAATTAATATTTGTATTAA
45295 TTGTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
AATTAGTTAAATTAATATTTGTATTAAAT
Found at i:45876 original size:13 final size:13
Alignment explanation
Indices: 45846--45888 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
45836 TGTTGGGTTA
45846 ATTTATTCTTTAAT
1 ATTTA-TCTTTAAT
45860 -TTTATCTTTAAT
1 ATTTATCTTTAAT
* *
45872 ATTTATTTTTATT
1 ATTTATCTTTAAT
45885 ATTT
1 ATTT
45889 TTTCTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTATCTTTAAT
Found at i:46033 original size:17 final size:17
Alignment explanation
Indices: 46002--46070 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
45992 TTTTTAAAAA
*
46002 AATTTATGAACTTTTTTT
1 AATTT-TGAAATTTTTTT
46020 AATTTTGAAATTTTTTT
1 AATTTTGAAATTTTTTT
* * *
46037 ATTTTTGGATATTTTTAT
1 AATTTT-GAAATTTTTTT
*
46055 AACATTT-AAATTTTTT
1 AA-TTTTGAAATTTTTT
46071 GCTGACATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 23 0.56
18 15 0.37
19 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
AATTTTGAAATTTTTTT
Found at i:47120 original size:18 final size:17
Alignment explanation
Indices: 47076--47121 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
47066 AAAAATTATT
47076 TTAAAAATTATAAAATA
1 TTAAAAATTATAAAATA
*
47093 GTAAACAATTATAAAATTA
1 TTAAA-AATTATAAAA-TA
47112 TTAAAAATTA
1 TTAAAAATTA
47122 ATAATGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAATTATAAAATA
Found at i:47759 original size:28 final size:27
Alignment explanation
Indices: 47711--47764 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
47701 TTTTTATAAG
*
47711 TTTTTAGAATTTCTATAAATTGTTTAA
1 TTTTTAGAATTTCTATAAATTATTTAA
* * *
47738 TTTTTAGATTTTTTTTATAATTATTTA
1 TTTTTAGAATTTCTATA-AATTATTTA
47765 GAATGTCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (27 bp):
TTTTTAGAATTTCTATAAATTATTTAA
Found at i:52468 original size:17 final size:17
Alignment explanation
Indices: 52448--52490 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
52438 AAATGAACTA
*
52448 ACAAGTAAAATGCAACG
1 ACAACTAAAATGCAACG
* *
52465 ACAACTAAAATGTAATG
1 ACAACTAAAATGCAACG
*
52482 ACAATTAAA
1 ACAACTAAA
52491 TAAGATGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.14, G:0.12, T:0.19
Consensus pattern (17 bp):
ACAACTAAAATGCAACG
Found at i:59120 original size:18 final size:18
Alignment explanation
Indices: 59099--59133 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59089 CATCTGATTT
*
59099 TGTGATCGTATCTGGTCA
1 TGTGATCGCATCTGGTCA
*
59117 TGTGATTGCATCTGGTC
1 TGTGATCGCATCTGGTC
59134 TGATTGCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (18 bp):
TGTGATCGCATCTGGTCA
Found at i:65203 original size:3 final size:3
Alignment explanation
Indices: 65195--65254 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
65185 AGAGATGACT
65195 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65243 TTA TTA TTA TTA
1 TTA TTA TTA TTA
65255 AACATAGTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67786 original size:27 final size:28
Alignment explanation
Indices: 67726--67787 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 28
67716 TCACCAACAA
67726 CATATTTCTTAACTCCATCATCATCGGCTC
1 CATATTTCTTAACTCCATCATCAT--GCTC
*
67756 CATATTTCTTAACTCCATCATCAT-CTT
1 CATATTTCTTAACTCCATCATCATGCTC
67783 CATAT
1 CATAT
67788 CTTCCGTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 7 0.23
30 24 0.77
ACGTcount: A:0.26, C:0.31, G:0.03, T:0.40
Consensus pattern (28 bp):
CATATTTCTTAACTCCATCATCATGCTC
Found at i:81947 original size:22 final size:22
Alignment explanation
Indices: 81922--81978 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
81912 ATTTGAAAAC
*
81922 ATTTCTTTTAAAATGGAAATAA
1 ATTTCTATTAAAATGGAAATAA
81944 ATTTCTATTAAAATGGAAATAA
1 ATTTCTATTAAAATGGAAATAA
81966 ATTTCTATTAAAA
1 ATTTCTATTAAAA
81979 ATTCATTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
ATTTCTATTAAAATGGAAATAA
Found at i:82058 original size:14 final size:15
Alignment explanation
Indices: 82041--82072 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
82031 TTTTAAATTT
82041 TTTAAAATAA-TTAA
1 TTTAAAATAATTTAA
82055 TTTAAAATAATTTAA
1 TTTAAAATAATTTAA
82070 TTT
1 TTT
82073 GACATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAATAATTTAA
Found at i:83064 original size:31 final size:30
Alignment explanation
Indices: 83027--83105 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
83017 TTTTTTGTCC
*
83027 AATTTGGTACTCAAACTTGACACTTTTTCTT
1 AATTTGGTACTCAAACTTGACACTTATT-TT
*
83058 AATTTGGTAC-CTAAACTTGATACTTATTTT
1 AATTTGGTACTC-AAACTTGACACTTATTTT
* *
83088 AAGTTGGTACTTAAACTT
1 AATTTGGTACTCAAACTT
83106 TTTTTGATCC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 18 0.43
31 24 0.57
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.44
Consensus pattern (30 bp):
AATTTGGTACTCAAACTTGACACTTATTTT
Found at i:83356 original size:26 final size:28
Alignment explanation
Indices: 83327--83445 Score: 81
Period size: 28 Copynumber: 4.3 Consensus size: 28
83317 ATTGAATCTA
*
83327 AAAAAAATA-TTAGGTACCAAATTAGG-
1 AAAAAAATAGTTAGATACCAAATTAGGT
* * * *
83353 AAAAAAATGTCAAGTTTAGGTACTAGATTGGGT
1 AAAAAAA--T--AG-TTAGATACCAAATTAGGT
*
83386 AAAAAAA-AGTTTAGATACCAAATTGGGT
1 AAAAAAATAG-TTAGATACCAAATTAGGT
83414 AAAAAAAT--TTAGATACCAAATTA-G-
1 AAAAAAATAGTTAGATACCAAATTAGGT
83438 AAAAAAAT
1 AAAAAAAT
83446 GTCAAATTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
24 8 0.10
25 1 0.01
26 21 0.27
28 26 0.33
30 1 0.01
32 14 0.18
33 7 0.09
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (28 bp):
AAAAAAATAGTTAGATACCAAATTAGGT
Found at i:83398 original size:28 final size:28
Alignment explanation
Indices: 83364--83435 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
83354 AAAAAATGTC
* * *
83364 AAGTTTAGGTACTAGATTGGGTAAAAAA
1 AAGTTTAGATACCAAATTGGGTAAAAAA
83392 AAGTTTAGATACCAAATTGGGT-AAAAA
1 AAGTTTAGATACCAAATTGGGTAAAAAA
83419 AA-TTTAGATACCAAATT
1 AAGTTTAGATACCAAATT
83436 AGAAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.37
27 7 0.17
28 19 0.46
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (28 bp):
AAGTTTAGATACCAAATTGGGTAAAAAA
Found at i:84126 original size:23 final size:24
Alignment explanation
Indices: 84099--84143 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
84089 TATTACATGC
84099 TATTTTTGTT-TTTT-AATTTTTAT
1 TATTTTT-TTATTTTAAATTTTTAT
84122 TATTTTTTTATTTTAAATTTTT
1 TATTTTTTTATTTTAAATTTTT
84144 TAAAAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (24 bp):
TATTTTTTTATTTTAAATTTTTAT
Found at i:84135 original size:24 final size:23
Alignment explanation
Indices: 84099--84143 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
84089 TATTACATGC
*
84099 TATTTTTGTTTTTTAATTTTTAT
1 TATTTTTGTTTTTAAATTTTTAT
*
84122 TATTTTTTTATTTTAAATTTTT
1 TATTTTTGT-TTTTAAATTTTT
84144 TAAAAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
TATTTTTGTTTTTAAATTTTTAT
Found at i:92570 original size:19 final size:19
Alignment explanation
Indices: 92548--92595 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
92538 TAGCACACAT
92548 AGCGCAT-TCTAGCACATGA
1 AGCGCATCT-TAGCACATGA
*
92567 AGCGCATCTTGGCACATGA
1 AGCGCATCTTAGCACATGA
*
92586 AGCACATCTT
1 AGCGCATCTT
92596 GACACACGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (19 bp):
AGCGCATCTTAGCACATGA
Found at i:92596 original size:19 final size:19
Alignment explanation
Indices: 92559--92601 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
92549 GCGCATTCTA
*
92559 GCACATGAAGCGCATCTTG
1 GCACATGAAGCACATCTTG
92578 GCACATGAAGCACATCTTG
1 GCACATGAAGCACATCTTG
*
92597 ACACA
1 GCACA
92602 CGAGGTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.19
Consensus pattern (19 bp):
GCACATGAAGCACATCTTG
Found at i:93063 original size:18 final size:18
Alignment explanation
Indices: 93042--93081 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
93032 CAAAATCGTA
93042 GTTACTCATCAACGACTC
1 GTTACTCATCAACGACTC
93060 GTTACTCATCAACGACTC
1 GTTACTCATCAACGACTC
93078 -TTAC
1 GTTAC
93082 CTTTCCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.30
Consensus pattern (18 bp):
GTTACTCATCAACGACTC
Found at i:93987 original size:11 final size:11
Alignment explanation
Indices: 93973--94019 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
93963 CTTAATCAAA
93973 TTTTAATATAT
1 TTTTAATATAT
*
93984 TTTTACATAAAT
1 TTTTA-ATATAT
93996 TTTATAA-ATAT
1 TTT-TAATATAT
*
94007 TTTTATTATAT
1 TTTTAATATAT
94018 TT
1 TT
94020 ACGGACTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 2 0.07
11 17 0.57
12 9 0.30
13 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:94701 original size:57 final size:58
Alignment explanation
Indices: 94613--94798 Score: 223
Period size: 60 Copynumber: 3.1 Consensus size: 58
94603 ATAATATAAT
* *
94613 ATTTGGTACTTAAACTTGACACTTTTTTCTAA-TTGGTACCTAAACTTTTTT-GATCCA
1 ATTTGATACTTAAACTTGACA-TTTTTTCTAATTTAGTACCTAAACTTTTTTAGATCCA
* *
94670 ATTTGATACTTAAACTTGACATTTTTTTCTAATTTAGTACCTGAACTTTTTGTAGACCCA
1 ATTTGATACTTAAACTTGACA-TTTTTTCTAATTTAGTACCTAAACTTTTT-TAGATCCA
* * * * *
94730 ATTTGGTACTTGAACTTGTCATTTTTTCTTAATTTAGTACCTAAGCCTTTTTTTAGATTCA
1 ATTTGATACTTAAACTTGACATTTTTTC-TAATTTAGTACCTAA-AC-TTTTTTAGATCCA
94791 ATTTGATA
1 ATTTGATA
94799 TTGAGCTATG
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
57 30 0.27
58 16 0.15
59 8 0.07
60 37 0.34
61 14 0.13
62 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (58 bp):
ATTTGATACTTAAACTTGACATTTTTTCTAATTTAGTACCTAAACTTTTTTAGATCCA
Found at i:95970 original size:9 final size:9
Alignment explanation
Indices: 95945--96032 Score: 54
Period size: 10 Copynumber: 9.4 Consensus size: 9
95935 CTTTAACTAA
95945 TTTTATATT
1 TTTTATATT
95954 TCTTTATATT
1 T-TTTATATT
95964 TTTTATAATT
1 TTTTAT-ATT
* *
95974 TTCTTACA-A
1 TT-TTATATT
* **
95983 GTTTATAAAA
1 TTTTAT-ATT
95993 TTTTATAATT
1 TTTTAT-ATT
96003 TTTTATA-T
1 TTTTATATT
* *
96011 TTCTATATA
1 TTTTATATT
96020 TTTTATATT
1 TTTTATATT
96029 TTTT
1 TTTT
96033 TTCGATTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
8 10 0.16
9 20 0.32
10 29 0.47
11 3 0.05
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATATT
Found at i:95996 original size:29 final size:27
Alignment explanation
Indices: 95964--96060 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 27
95954 TCTTTATATT
95964 TTTTATAATTTTCTTACAAGTTTATAAAA
1 TTTTATAATTTT-TTACAA-TTTATAAAA
* * *
95993 TTTTATAATTTTTTA-TATTTCTATATA
1 TTTTATAATTTTTTACAATTTATA-AAA
* * *
96020 TTTTATATTTTTTTTCGATTTTTATAAAA
1 TTTTATAATTTTTTAC-A-ATTTATAAAA
96049 TTTTATAATTTT
1 TTTTATAATTTT
96061 GTTATAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 5 0.09
27 16 0.30
28 3 0.06
29 25 0.46
30 5 0.09
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTATAATTTTTTACAATTTATAAAA
Found at i:96003 original size:56 final size:54
Alignment explanation
Indices: 95942--96060 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 54
95932 ATTCTTTAAC
*
95942 TAATTTTATATTTCTTTATATTTTTTATAATTTTCTTAC-AAGTTTATAAAATTTTA
1 TAATTTTATATTTC--TATATATTTTAT-ATTTTCTTACGAAGTTTATAAAATTTTA
* * **
95998 TAATTTTTTATATTTCTATATATTTTATATTTTTTTTCGATTTTTATAAAATTTTA
1 TAA--TTTTATATTTCTATATATTTTATATTTTCTTACGAAGTTTATAAAATTTTA
96054 TAATTTT
1 TAATTTT
96061 GTTATAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
54 4 0.07
55 8 0.15
56 32 0.58
58 11 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (54 bp):
TAATTTTATATTTCTATATATTTTATATTTTCTTACGAAGTTTATAAAATTTTA
Found at i:96346 original size:22 final size:22
Alignment explanation
Indices: 96294--96349 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
96284 GATAATATTG
* *
96294 CTCACTATTCATGCTAAAGAAT
1 CTCACTGTTCATGCCAAAGAAT
* *
96316 ATCATTGTTCATGCCAGAA-AAT
1 CTCACTGTTCATGCCA-AAGAAT
96338 CTCACTGTTCAT
1 CTCACTGTTCAT
96350 TTTGTTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (22 bp):
CTCACTGTTCATGCCAAAGAAT
Found at i:96398 original size:56 final size:56
Alignment explanation
Indices: 96312--96418 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 56
96302 TCATGCTAAA
* *
96312 GAATATCATTGTTCATGCCAGAAAATCTCACTGTTCATTTTGTTTTTTCTTGTAAG
1 GAATATCATTGTTCATGCCAGAAAATCTCACTGCTCATTTTATTTTTTCTTGTAAG
96368 GAATATCATTGTTCATGCCA-AAGAATCTCACTGCTCATTTTATTTTTTCTT
1 GAATATCATTGTTCATGCCAGAA-AATCTCACTGCTCATTTTATTTTTTCTT
96419 ACAGGGAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
55 2 0.04
56 46 0.96
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (56 bp):
GAATATCATTGTTCATGCCAGAAAATCTCACTGCTCATTTTATTTTTTCTTGTAAG
Found at i:96427 original size:56 final size:56
Alignment explanation
Indices: 96312--96430 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 56
96302 TCATGCTAAA
* * **
96312 GAATATCATTGTTCATGCCAGAAAATCTCACTGTTCATTTTGTTTTTTCTTGTAAG
1 GAATATCATTGTTCATGCCAGAAAATCTCACTGCTCATTTTATTTTTTCTTACAAG
*
96368 GAATATCATTGTTCATGCCA-AAGAATCTCACTGCTCATTTTATTTTTTCTTACAGG
1 GAATATCATTGTTCATGCCAGAA-AATCTCACTGCTCATTTTATTTTTTCTTACAAG
96424 GAATATC
1 GAATATC
96431 TCCTGTTCAG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 2 0.04
56 55 0.96
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (56 bp):
GAATATCATTGTTCATGCCAGAAAATCTCACTGCTCATTTTATTTTTTCTTACAAG
Found at i:100538 original size:26 final size:27
Alignment explanation
Indices: 100509--100561 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
100499 CATTTTATTG
100509 TTTTATCTATTTTATTTTCT-TATTTT
1 TTTTATCTATTTTATTTTCTATATTTT
* * * *
100535 TTTTGTTTCTTTTCTTTTCTATATTTT
1 TTTTATCTATTTTATTTTCTATATTTT
100562 CTATACTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTATCTATTTTATTTTCTATATTTT
Found at i:103615 original size:10 final size:10
Alignment explanation
Indices: 103561--103626 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
103551 CAAATTGAAT
103561 ATTTTT-ATA
1 ATTTTTAATA
**
103570 ATTTTTTTGTA
1 A-TTTTTAATA
*
103581 ATTTTTATTA
1 ATTTTTAATA
** *
103591 AAATTTAACA
1 ATTTTTAATA
103601 A-TTTTAATA
1 ATTTTTAATA
103610 ATTTTTAATA
1 ATTTTTAATA
103620 ATTTTTA
1 ATTTTTA
103627 TTTTTATCAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
9 8 0.18
10 34 0.76
11 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:106948 original size:21 final size:21
Alignment explanation
Indices: 106903--106951 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
106893 AGTCGTGATG
*
106903 TTGAAGGCTGGTGTCGCAACG
1 TTGAAGGCTGGTGTCGCAACA
* **
106924 TTGAAGGCTGGTGTTGTGACA
1 TTGAAGGCTGGTGTCGCAACA
106945 TTGAAGG
1 TTGAAGG
106952 AAAATTCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.12, G:0.39, T:0.29
Consensus pattern (21 bp):
TTGAAGGCTGGTGTCGCAACA
Found at i:107077 original size:19 final size:19
Alignment explanation
Indices: 107053--107090 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
107043 CATGATGATG
107053 TTCATTTACACATTTCCAT
1 TTCATTTACACATTTCCAT
*
107072 TTCATTTAGACATTTCCAT
1 TTCATTTACACATTTCCAT
107091 CCTTTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (19 bp):
TTCATTTACACATTTCCAT
Done.