Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2192
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: 72827
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:6163 original size:27 final size:27
Alignment explanation
Indices: 6132--6188 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
6122 TTTATAAAAA
6132 AAATAGAAATTAATT-TTAATA-TTAAAT
1 AAATAGAAATT-ATTCTTAATACTT-AAT
**
6159 AAATATTAATTATTCTTAATACTTAAT
1 AAATAGAAATTATTCTTAATACTTAAT
6186 AAA
1 AAA
6189 AATATGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 3 0.12
27 21 0.81
28 2 0.08
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (27 bp):
AAATAGAAATTATTCTTAATACTTAAT
Found at i:6322 original size:15 final size:16
Alignment explanation
Indices: 6290--6323 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6280 TATTTTTTTA
6290 TTAATTTAATAAATAT
1 TTAATTTAATAAATAT
*
6306 TTAATTTTA-AAATAT
1 TTAATTTAATAAATAT
6321 TTA
1 TTA
6324 TCAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTTAATAAATAT
Found at i:6494 original size:34 final size:34
Alignment explanation
Indices: 6427--6642 Score: 274
Period size: 34 Copynumber: 6.4 Consensus size: 34
6417 ATATATTTTC
* * *
6427 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
6460 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
6494 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
6527 TGTTGATTAAATGGAAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
6561 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
6595 TGTTGACTAAATAGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
6629 TGTTGATTAAATGG
1 TGTTGATTAAATGG
6643 TGGTTTTTAC
Statistics
Matches: 158, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
33 40 0.25
34 118 0.75
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:6535 original size:67 final size:66
Alignment explanation
Indices: 6427--6644 Score: 292
Period size: 67 Copynumber: 3.2 Consensus size: 66
6417 ATATATTTTC
* * *
6427 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTGCC
6492 AT
65 AT
* * * * * *
6494 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGAAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTGCC
6559 AT
65 AT
* * *
6561 TGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATAGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTGC
6626 CAT
64 CAT
6629 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
6645 GTTTTTACCA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
67 71 0.54
68 60 0.46
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (66 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTGCCA
T
Found at i:6601 original size:101 final size:101
Alignment explanation
Indices: 6427--6642 Score: 344
Period size: 101 Copynumber: 2.1 Consensus size: 101
6417 ATATATTTTC
** * * *
6427 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGAAATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
6492 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
*
6527 TGTTGATTAAATGGAAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATGG-AAATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
* *
6592 CATTGTTGACTAAATAGGAGATTTGGTAGGTTGCCAT
65 CATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
6629 TGTTGATTAAATGG
1 TGTTGATTAAATGG
6643 TGGTTTTTAC
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 14 0.13
101 59 0.56
102 33 0.31
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.40
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
Found at i:11101 original size:34 final size:34
Alignment explanation
Indices: 11032--11215 Score: 221
Period size: 34 Copynumber: 5.5 Consensus size: 34
11022 AAGTGGGAGA
* * *
11032 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* *
11065 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* * *
11099 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
11132 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* * * *
11166 ATTGTTGACTAAATAGGAGATTTGGTAGG-TTGCC
1 ATTGTTGATTAAATGGGTGATTTGGT-GGCTTACC
*
11200 ATTGTTAATTAAATGG
1 ATTGTTGATTAAATGG
11216 TGGTTTTTAC
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
33 42 0.32
34 86 0.66
35 2 0.02
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
Found at i:11140 original size:67 final size:67
Alignment explanation
Indices: 11032--11215 Score: 278
Period size: 67 Copynumber: 2.7 Consensus size: 67
11022 AAGTGGGAGA
* * * * * *
11032 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
11097 CC
66 CC
11099 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
1 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
11164 CC
66 CC
* * *
11166 ATTGTTGACTAAATAGGAGATTTGGTAGGTTGCCATTGTTAATTAAATGG
1 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACCATTGTTGATTAAATGG
11216 TGGTTTTTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 75 0.70
68 32 0.30
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (67 bp):
ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CC
Found at i:11170 original size:101 final size:100
Alignment explanation
Indices: 11032--11215 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 100
11022 AAGTGGGAGA
* * * *
11032 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGT-GGTTT
1 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGACTAAATAGGAGATTTGGTAGG-TT
*
11096 GCCATTGTTGACTAAATGGAGATTTGGTAGCTTACC
65 GCCATTGTTAACTAAATGGAGATTTGGTAGCTTACC
* *
11132 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATAGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTAGTAGCTTACCATTGTTGACTAAATAGGAGATTTGGTAGGTT
*
11197 GCCATTGTTAATTAAATGG
65 GCCATTGTTAACTAAATGG
11216 TGGTTTTTAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 14 0.19
101 58 0.78
102 2 0.03
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (100 bp):
ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGACTAAATAGGAGATTTGGTAGGTTG
CCATTGTTAACTAAATGGAGATTTGGTAGCTTACC
Found at i:12839 original size:20 final size:20
Alignment explanation
Indices: 12814--12855 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
12804 ATTTCTTAAC
12814 ATGATAACCTTAAGCAACTA
1 ATGATAACCTTAAGCAACTA
12834 ATGATAACCTTAAGCAACTA
1 ATGATAACCTTAAGCAACTA
12854 AT
1 AT
12856 TAGCAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (20 bp):
ATGATAACCTTAAGCAACTA
Found at i:13527 original size:12 final size:12
Alignment explanation
Indices: 13510--13550 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
13500 TATTATTTTT
13510 TATTTTAATATA
1 TATTTTAATATA
13522 TATTTT--TAT-
1 TATTTTAATATA
*
13531 TATTTTAATAAA
1 TATTTTAATATA
13543 TATTTTAA
1 TATTTTAA
13551 AAATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 6 0.24
10 3 0.12
11 2 0.08
12 14 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTTTAATATA
Found at i:13535 original size:21 final size:20
Alignment explanation
Indices: 13505--13548 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
13495 AAGTCTATTA
*
13505 TTTTTTATTTTAATATATAT
1 TTTTTTATTTTAATAAATAT
13525 TTTTATTATTTTAATAAATAT
1 TTTT-TTATTTTAATAAATAT
13546 TTT
1 TTT
13549 AAAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTATTTTAATAAATAT
Found at i:14289 original size:13 final size:13
Alignment explanation
Indices: 14273--14297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14263 ACATGAAAAA
14273 GATACTTGAGAGG
1 GATACTTGAGAGG
14286 GATACTTGAGAG
1 GATACTTGAGAG
14298 AGAAGAGAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (13 bp):
GATACTTGAGAGG
Found at i:14424 original size:27 final size:27
Alignment explanation
Indices: 14392--14461 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
14382 ATATGCCATC
*
14392 ATTTTTAACAAATAAAAAGAAACCACA
1 ATTTTTAACAAACAAAAAGAAACCACA
* * *
14419 ATTTTTTAA-AAACATAAAGTAACCACC
1 A-TTTTTAACAAACAAAAAGAAACCACA
*
14446 ATTTTTGACAAACAAA
1 ATTTTTAACAAACAAA
14462 TGGTGGCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 6 0.17
27 22 0.63
28 7 0.20
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (27 bp):
ATTTTTAACAAACAAAAAGAAACCACA
Found at i:16384 original size:21 final size:22
Alignment explanation
Indices: 16346--16391 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
16336 ATCTGTTGAA
* **
16346 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
16367 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
16389 ACT
1 ACT
16392 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:24459 original size:7 final size:7
Alignment explanation
Indices: 24447--24471 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24437 AAATCAAATA
24447 AATTATT
1 AATTATT
24454 AATTATT
1 AATTATT
24461 AATTATT
1 AATTATT
24468 AATT
1 AATT
24472 TAATCAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTATT
Found at i:25029 original size:15 final size:17
Alignment explanation
Indices: 24998--25031 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
24988 GATTAAAGTG
24998 TTAATATTTTAATATAT
1 TTAATATTTTAATATAT
25015 TTAATA-TTT-ATATAT
1 TTAATATTTTAATATAT
25030 TT
1 TT
25032 TAAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATATTTTAATATAT
Found at i:26009 original size:110 final size:113
Alignment explanation
Indices: 25782--26064 Score: 360
Period size: 110 Copynumber: 2.5 Consensus size: 113
25772 ATTATTTTAT
* * *
25782 AATAAAAAATAATATTTAATTAATTTTAAAAAATTTTGCATTAATAAATTAAAATATTAATTATT
1 AATAAAAAATAATATTTAATTAAATTTAAAAAA-TTTACATTAACAAATTAAAATATTAATTATT
*
25847 TTTTAAAATAAAAAATTAAATTAAAAAGGGTTTATTATTATTATTTTTTAATAA
65 TTTT---AT-AAAAA-TAAATTAAAAAGGATTTATTATTATTATTTTTTAATAA
* *
25901 AATTAAAAATAATATTTAATTAAATTTAAAAAA-TAACATTAACAAATTAAAATATTAATTATAT
1 AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTAT-T
* * *
25965 GTTTT-T-ATAA-AAA-TAAAAAGTATTTTTTATTATTATTTTTTAATAA
65 -TTTTATAAAAATAAATTAAAAAGGATTTATTATTATTATTTTTTAATAA
*
26011 AATAAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 AATAAAAAATAATATTTAATTAAATTT-AAAAAATTTACATTAACAAATTAAAA
26065 AAATAACATT
Statistics
Matches: 148, Mismatches: 12, Indels: 15
0.85 0.07 0.09
Matches are distributed among these distances:
110 55 0.37
111 9 0.06
112 18 0.12
113 3 0.02
115 1 0.01
117 26 0.18
118 1 0.01
119 35 0.24
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (113 bp):
AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTT
TTTATAAAAATAAATTAAAAAGGATTTATTATTATTATTTTTTAATAA
Found at i:26062 original size:23 final size:23
Alignment explanation
Indices: 26036--26113 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
26026 TTAATTAAAT
26036 TTAAAAAAATTTACATTAACAAA
1 TTAAAAAAATTTACATTAACAAA
* **
26059 TTAAAAAAA-TAACATTTAAGGAA
1 TTAAAAAAATTTACA-TTAACAAA
*
26082 TTAAAAAAATTTATCATTATTCAAA
1 TTAAAAAAATTTA-CATTA-ACAAA
26107 -TAAAAAA
1 TTAAAAAA
26114 CCATCTATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.09
23 24 0.55
24 12 0.27
25 4 0.09
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (23 bp):
TTAAAAAAATTTACATTAACAAA
Found at i:26574 original size:124 final size:122
Alignment explanation
Indices: 26375--26718 Score: 443
Period size: 124 Copynumber: 2.8 Consensus size: 122
26365 AAAATGTTAT
*
26375 TTTTTA-TTT-AAATTTTTTATTTTTAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAA
1 TTTTTATTTTAAAATTTTTTATTTTTAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
* *
26438 TTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAA-AAAACC
66 TTTTAAACTTAATTAAATATTATTTTTTATTTAATTAAAAATAATAATAATAAAACC
26494 TTTTTATTTTAAAATTTTTTATTTTTATAAAAAACATAATAATTAA-ATTTTAATTTGTTAATGT
1 TTTTTATTTTAAAATTTTTTA-TTTT-T--AAAACATAATAATTAATATTTTAATTTGTTAATGT
* * *
26558 -AATTTTTAAAATTTAATTAAATATTATTTTTAATTTAATTAAAAATAATAATAATAAACCC
62 AAATTTTT-AAACTTAATTAAATATTATTTTTTATTTAATTAAAAATAATAATAATAAAACC
*
26619 TTTTTATTTTTATTTAAAATTTTTTATTTTT-AAA-A-AATAATTAATATTTTAATTTGTTAATA
1 TTTTTA----T-TTTAAAATTTTTTATTTTTAAAACATAATAATTAATATTTTAATTTGTTAATG
* *
26681 TAAATTTCTTTAAAGTTAATTAAATTTTATTTTTTATT
61 TAAA-TT-TTTAAACTTAATTAAATATTATTTTTTATT
26719 AAAAATAATA
Statistics
Matches: 198, Mismatches: 10, Indels: 27
0.84 0.04 0.11
Matches are distributed among these distances:
119 6 0.03
120 3 0.02
121 10 0.05
122 4 0.02
123 16 0.08
124 78 0.39
125 32 0.16
126 26 0.13
127 3 0.02
128 1 0.01
129 5 0.03
130 14 0.07
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (122 bp):
TTTTTATTTTAAAATTTTTTATTTTTAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
TTTTAAACTTAATTAAATATTATTTTTTATTTAATTAAAAATAATAATAATAAAACC
Found at i:26763 original size:124 final size:121
Alignment explanation
Indices: 26376--26764 Score: 400
Period size: 124 Copynumber: 3.1 Consensus size: 121
26366 AAATGTTATT
*
26376 TTTTATTTAAATTTTTTATTTTTAAAACATAATAATTAATATTTTAATTTGTTAATGTAAA-ATT
1 TTTTATTTAAATTTTTTATTTTT-AAA-A-AATAATTAATATTTTAATTTGTTAATGTAAATTTT
* * *
26440 TTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTATAATAAAAAACCTTTTT-A
63 TTAAACTTAATTAAATATTATTTTTTA-TTTA-AAAAAATAATAATAATAAACCTTTTTAA
26500 TTTTA---AAATTTTTTATTTTTATAAAAA-ACATAATAATTAAATTTTAATTTGTTAATGT-AA
1 TTTTATTTAAATTTTTTATTTTTA-AAAAATA-AT--TAA-T--ATTTTAATTTGTTAATGTAAA
* * *
26560 TTTTTAAAATTTAATTAAATATTATTTTTAATTTAATTAAAAATAATAATAATAAACCCTTTTTA
59 TTTTTTAAACTTAATTAAATATTATTTTTTATTTAA--AAAAATAATAATAATAAA-CCTTTTTA
*
26625 T
121 A
*
26626 TTTTATTTAAAATTTTTTATTTTTAAAAAATAATTAATATTTTAATTTGTTAATATAAATTTCTT
1 TTTTATTT-AAATTTTTTATTTTTAAAAAATAATTAATATTTTAATTTGTTAATGTAAATTT-TT
* * * * *
26691 TAAAGTTAATTAAATTTTATTTTTTA-TTAAAAATAATAATTAATACATTATCATTTTTTAA
64 TAAACTTAATTAAATATTATTTTTTATTTAAAAA-AATAA-TAATA-ATAAAC-CTTTTTAA
26752 TTTT-TTTAAATTT
1 TTTTATTTAAATTT
26765 AATTAATTTA
Statistics
Matches: 225, Mismatches: 17, Indels: 46
0.78 0.06 0.16
Matches are distributed among these distances:
118 1 0.00
119 4 0.02
120 2 0.01
121 20 0.09
122 1 0.00
123 9 0.04
124 93 0.41
125 25 0.11
126 43 0.19
127 3 0.01
129 7 0.03
130 17 0.08
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (121 bp):
TTTTATTTAAATTTTTTATTTTTAAAAAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTA
AACTTAATTAAATATTATTTTTTATTTAAAAAAATAATAATAATAAACCTTTTTAA
Found at i:27456 original size:91 final size:92
Alignment explanation
Indices: 27330--27801 Score: 599
Period size: 91 Copynumber: 5.2 Consensus size: 92
27320 AAGCGGATTT
*
27330 TTTTTTAT-GAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAAACTAAT
1 TTTTTTATAG-AAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAAT
27394 GCATGAATTATATCTGAGAATC-AATTC
65 GCATGAATTATATCTGAGAATCGAATTC
* * * * *
27421 TTTTTTATAGAAAAAAAGAAAAGTTGACTGCTTGTAAATGTTA-ACCTGCAAGTATTAGACTAGT
1 TTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGA-CTGCAAGGATTAGACTAAT
* * *
27485 GCATGAATCATAACTGAGAATCGGATTC
65 GCATGAATTATATCTGAGAATCGAATTC
* * *
27513 TTTTTTATAG----AAA-AAAAGTTGACTGATTGTAAATGTCAAACTACAAGGATTAGACTAATG
1 TTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATG
*
27573 CATGAATTATATTTGAGAATCGAATTC
66 CATGAATTATATCTGAGAATCGAATTC
*
27600 TTTTTTTTA-AAAAAAAG-AAAGATTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAAT
1 TTTTTTATAGAAAAAAAGAAAAG-TTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAAT
* *
27663 GTATGAATTATATCTGAGAATCGGATTC
65 GCATGAATTATATCTGAGAATCGAATTC
* * * *
27691 TTTTTTATAGAAAAAAAAAGAAAA-CTGATTAATTGTAAATGTTAGACTGCAAAGATTAGACTAA
1 TTTTTTATAG--AAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAA
* * *
27755 TGCATAAATTATATCTGAGAATTGAATTT
64 TGCATGAATTATATCTGAGAATCGAATTC
*
27784 TTTTTTATA-AAAATAAGA
1 TTTTTTATAGAAAAAAAGA
27802 TTGCAAGGAT
Statistics
Matches: 331, Mismatches: 36, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
87 71 0.21
88 4 0.01
90 16 0.05
91 145 0.44
92 15 0.05
93 69 0.21
94 8 0.02
95 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (92 bp):
TTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATG
CATGAATTATATCTGAGAATCGAATTC
Found at i:27544 original size:178 final size:179
Alignment explanation
Indices: 27343--27801 Score: 602
Period size: 178 Copynumber: 2.5 Consensus size: 179
27333 TTTATGAAAA
*
27343 AAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAAACTAATGCATGAATTATATC
1 AAAA-AAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATC
* *
27408 TGAGAATCAATTCTTTTTTATAGAAAAAAAGAAAAG-TTGACTGCTTGTAAATGTTA-ACCTGCA
65 TGAGAATCAATTCTTTTTTATA-AAAAAAAGAAAAGATTGACTGATTGTAAATGTCAGA-CTGCA
* *
27471 AGTATTAGACTAGTGCATGAATCATAACTGAGAATCGGATTCTTTTTTATAG
128 AGGATTAGACTAATGCATGAATCATAACTGAGAATCGGATTCTTTTTTATAG
* * * *
27523 -AAAAAAAGTTGACTGATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATTT
1 AAAAAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCT
* *
27587 GAGAATCGAATTCTTTTTTTTAAAAAAAAG-AAAGATTGATTGATTGTAAATGTCAGACTGCAAG
66 GAGAATC-AATTCTTTTTTATAAAAAAAAGAAAAGATTGACTGATTGTAAATGTCAGACTGCAAG
* * *
27651 GATTAGACTAATGTATGAATTATATCTGAGAATCGGATTCTTTTTTATAG
130 GATTAGACTAATGCATGAATCATAACTGAGAATCGGATTCTTTTTTATAG
* * * * *
27701 AAAAAAAAAGAAAACTGATTAATTGTAAATGTTAGACTGCAAAGATTAGACTAATGCATAAATTA
1 -AAAAAAAAG----TTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTA
* * *
27766 TATCTGAGAATTGAATTTTTTTTTATAAAAATAAGA
61 TATCTGAGAA-TCAATTCTTTTTTATAAAAAAAAGA
27802 TTGCAAGGAT
Statistics
Matches: 241, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
177 4 0.02
178 140 0.58
179 17 0.07
180 8 0.03
184 71 0.29
185 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.34
Consensus pattern (179 bp):
AAAAAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCT
GAGAATCAATTCTTTTTTATAAAAAAAAGAAAAGATTGACTGATTGTAAATGTCAGACTGCAAGG
ATTAGACTAATGCATGAATCATAACTGAGAATCGGATTCTTTTTTATAG
Found at i:27981 original size:70 final size:70
Alignment explanation
Indices: 27734--28008 Score: 329
Period size: 70 Copynumber: 4.0 Consensus size: 70
27724 TGTAAATGTT
* * * *
27734 AGACTGCAAAGATTAGACTAATGCATAAATTATATCTGAGAAT-TGAATT-TTTTTT-TA--TAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAG-ATTCTTTTTTATAGGAAA
*
27794 AAA-TA
65 AAAGAA
* *
27799 AGATTGCAAGGATTAGATTAATGCATGAATTATATCTGAGAAT-AGGATTCTTTTTTATAGGAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-GATTCTTTTTTATAGGAAA
27863 AAAGAA
65 AAAGAA
* *
27869 AGACTGCAAAGATTAGACTAATGCATGAATTATATCTAAGAATCAGATTCTTTTTTATAGGAAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGGAAAA
27934 AAGAA
66 AAGAA
* *
27939 AGACTGCAAGGATTAGACTAATACATGAATTGTA-CATGAGAATCAGATTTCTTTTGTTA-A--A
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCAGA-TTCTTTT-TTATAGGA
28000 AAAAAGAA
63 AAAAAGAA
28008 A
1 A
28009 AGTTGGTTGA
Statistics
Matches: 185, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
65 42 0.23
66 7 0.04
67 2 0.01
69 16 0.09
70 106 0.57
71 9 0.05
72 3 0.02
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (70 bp):
AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGGAAAA
AAGAA
Found at i:28006 original size:135 final size:132
Alignment explanation
Indices: 27734--28008 Score: 313
Period size: 135 Copynumber: 2.0 Consensus size: 132
27724 TGTAAATGTT
* * * *
27734 AGACTGCAAAGATTAGACTAATGCATAAATTATATCTGAGAATTGAATTTTTTTTTATAAAAATA
1 AGACTGCAAAGATTAGACTAATGCATAAATTATATCTAAGAATAGAATTTTTTTTTAAAAAAAAA
* * * *
27799 AGATTGCAAGGATTAGATTAATGCATGAATTATATCTGAGAATAGGATTCTTTTTTATAGGAAAA
66 AGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATAGGATTCTTTTGTAT---AAAA
27864 AAGAA
128 AAGAA
*
27869 AGACTGCAAAGATTAGACTAATGCATGAATTATATCTAAGAATCAG-ATTCTTTTTTATAGGAAA
1 AGACTGCAAAGATTAGACTAATGCATAAATTATATCTAAGAAT-AGAATT-TTTTTT-TA--AAA
*
27933 AAAGAAAGACTGCAAGGATTAGACTAATACATGAATTGTA-CATGAGAATCA-GATTTCTTTTGT
61 AAA-AAAGACTGCAAGGATTAGACTAATACATGAATTATATC-TGAGAAT-AGGA-TTCTTTTG-
*
27996 TAAAAAAAAGAA
121 TATAAAAAAGAA
28008 A
1 A
28009 AGTTGGTTGA
Statistics
Matches: 119, Mismatches: 11, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
135 44 0.37
136 7 0.06
137 2 0.02
139 16 0.13
140 40 0.34
141 8 0.07
142 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (132 bp):
AGACTGCAAAGATTAGACTAATGCATAAATTATATCTAAGAATAGAATTTTTTTTTAAAAAAAAA
AGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATAGGATTCTTTTGTATAAAAAAG
AA
Found at i:28145 original size:92 final size:91
Alignment explanation
Indices: 27975--28146 Score: 204
Period size: 92 Copynumber: 1.9 Consensus size: 91
27965 GAATTGTACA
* * * *
27975 TGAGAATCAGATTTCTTTTGTTAAAAAAAAGAAAAGTTGGTTGATTATAAGTATGACATTGCAAA
1 TGAGAATCAGATTTCTTTTGATAAAAAAAAGAAAAGTTGATTGATTATAAATATCACATTGCAAA
* *
28040 AATTAGACTAATGCATAAATTTTATT
66 AATGAGACAAATGCATAAATTTTATT
***
28066 TGAGAATCAGA-TTCTTTTTGATAGAAAAGCTGAAAAGTTGATTGATTATAAATATCACAGTTG-
1 TGAGAATCAGATTTC-TTTTGATA-AAAAAAAGAAAAGTTGATTGATTATAAATATCACA-TTGC
* *
28129 AAAGATGGGACAAATGCA
63 AAAAATGAGACAAATGCA
28147 GATATTTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
90 3 0.04
91 18 0.27
92 43 0.64
93 3 0.04
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (91 bp):
TGAGAATCAGATTTCTTTTGATAAAAAAAAGAAAAGTTGATTGATTATAAATATCACATTGCAAA
AATGAGACAAATGCATAAATTTTATT
Found at i:32364 original size:124 final size:125
Alignment explanation
Indices: 32112--32466 Score: 426
Period size: 124 Copynumber: 2.9 Consensus size: 125
32102 TTATTTTTAA
* * *
32112 TAAAAATAGTATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAATATTAATTATT-T-
1 TAAAAATAATATTTAATTAAATTTAAA-AAATTTACATTAACAAATTAAAATATTAATTATTATG
** * *** * * *
32175 TTAATAAAAAAATTTTAAA---TAAAA-ATAAAAGGTTTATTATTATTATTTTTAATAAAAG
65 TTTTTATAAAAATAAAAAATTTTAAAATAAAAAAGATTT-TTATTATAATTTTTAATAAAAG
* *
32233 TAGAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAAT-TTAATTATTATGT
1 TAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
32297 TTTTATAAAAATAAAAAATTTTAAAATAAAAAAGATTTTTATTATAATTTTTAATAAAA-
66 TTTTATAAAAATAAAAAATTTTAAAATAAAAAAGATTTTTATTATAATTTTTAATAAAAG
* *
32356 TAAAAAATAATATTTAATTCAGTTT-AAAAATTTACATTAACAAATTAAAATATTAATTATTATG
1 T-AAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATG
* * * *
32420 -CTTT-TAAAAATAAAAAATTTTAGATTAAAAAAGTTTTTTATTATAAT
65 TTTTTATAAAAATAAAAAATTTTAAAATAAAAAAGATTTTTATTATAAT
32467 AATATTTTTT
Statistics
Matches: 204, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
119 9 0.04
120 23 0.11
121 37 0.18
122 40 0.20
123 29 0.14
124 57 0.28
125 9 0.04
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (125 bp):
TAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
TTTTATAAAAATAAAAAATTTTAAAATAAAAAAGATTTTTATTATAATTTTTAATAAAAG
Found at i:32789 original size:46 final size:46
Alignment explanation
Indices: 32739--32843 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
32729 GAATAGAGGG
* ** * *
32739 TTTTTTATTTGTATAATGATAAATTTTTTTAA-TTCCTTAAATGTTA
1 TTTTTTATTTGTATAAT-ATAAATTTTTTAAATTTAATTAAATATCA
32785 TTTTTTAATTTGT-TAATATAAATTTTTTAAATTTAATTAAATATCA
1 TTTTTT-ATTTGTATAATATAAATTTTTTAAATTTAATTAAATATCA
32831 TTTTTTA-TTGTAT
1 TTTTTTATTTGTAT
32844 TAAAAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
44 4 0.08
45 15 0.29
46 26 0.51
47 6 0.12
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (46 bp):
TTTTTTATTTGTATAATATAAATTTTTTAAATTTAATTAAATATCA
Found at i:32811 original size:23 final size:23
Alignment explanation
Indices: 32739--32818 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
32729 GAATAGAGGG
32739 TTTTTT-ATTTGTATAATGATAAAT
1 TTTTTTAATTTGT-TAAT-ATAAAT
** **
32763 TTTTTTAATTCCTTAA-AT-GTT
1 TTTTTTAATTTGTTAATATAAAT
32784 ATTTTTTAATTTGTTAATATAAAT
1 -TTTTTTAATTTGTTAATATAAAT
*
32808 TTTTTAAATTT
1 TTTTTTAATTT
32819 AATTAAATAT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
21 1 0.02
22 16 0.37
23 12 0.28
24 10 0.23
25 4 0.09
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTTTTAATTTGTTAATATAAAT
Found at i:32824 original size:24 final size:23
Alignment explanation
Indices: 32760--32837 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 23
32750 TATAATGATA
* ** *
32760 AATTTTTTTAATTCCTTAAATGT
1 AATTTTTTAAATTTATTAAATAT
* *
32783 TATTTTTT-AATTTGTT-AATAT
1 AATTTTTTAAATTTATTAAATAT
32804 AAATTTTTTAAATTTAATTAAATAT
1 -AATTTTTTAAATTT-ATTAAATAT
*
32829 CATTTTTTA
1 AATTTTTTA
32838 TTGTATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.09
22 13 0.30
23 12 0.27
24 10 0.23
25 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (23 bp):
AATTTTTTAAATTTATTAAATAT
Found at i:32982 original size:112 final size:111
Alignment explanation
Indices: 32787--32991 Score: 313
Period size: 112 Copynumber: 1.8 Consensus size: 111
32777 AAATGTTATT
*
32787 TTTTAATTTGTTAATATAAATTTTTTAAATTTAATTAAATATCATTTTTTATTGTATTAAAAAAT
1 TTTTAATTTGTTAATATAAATTTTTTAAATTTAATTAAATATCATTTTTAATTGTATTAAAAAAT
* *
32852 AATAATACAAAATACTTTTTATTTTAATAAAAACATATAATTAATA
66 AATAATACAAAACACTTTTTAATTTAATAAAAACATATAATTAATA
* * * *
32898 TTTTAATTTGTTAATGTAATTTTTTTAAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAA
1 TTTTAATTTGTTAATATAAATTTTTT-AAATTTAATTAAATATCATTTTTAATTGTATTAAAAAA
*
32963 TAATAATA-ATAAACCCTTTTTAATTTAAT
65 TAATAATACA-AAACACTTTTTAATTTAAT
32992 TTTTTATTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
111 25 0.30
112 59 0.70
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (111 bp):
TTTTAATTTGTTAATATAAATTTTTTAAATTTAATTAAATATCATTTTTAATTGTATTAAAAAAT
AATAATACAAAACACTTTTTAATTTAATAAAAACATATAATTAATA
Found at i:33984 original size:21 final size:20
Alignment explanation
Indices: 33951--33991 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
33941 CTATTTGAGT
33951 TTTATTTTTTTATTTTAATA
1 TTTATTTTTTTATTTTAATA
33971 TTTATTTTTATTATTTTAATA
1 TTTATTTTT-TTATTTTAATA
33992 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATTTTTTTATTTTAATA
Found at i:34019 original size:21 final size:19
Alignment explanation
Indices: 33990--34046 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
33980 ATTATTTTAA
*
33990 TAAAATTAAAAAAAATTAATT
1 TAAATTTAAAAAAAA-TAA-T
*
34011 TAAATTTAAATAGAAATAAT
1 TAAATTTAAA-AAAAATAAT
34031 TAAATTTAAAATAAAA
1 TAAATTTAAAA-AAAA
34047 CATCCAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.03
20 14 0.45
21 12 0.39
22 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAATTTAAAAAAAATAAT
Found at i:35368 original size:27 final size:28
Alignment explanation
Indices: 35334--35399 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
35324 GCCACCTATT
35334 TGTTTGTCAAAAATGATGG-TTATTTTG
1 TGTTTGTCAAAAATGATGGTTTATTTTG
* *
35361 TGTTTGTCAAAAATGGTGGTTTCTTTTG
1 TGTTTGTCAAAAATGATGGTTTATTTTG
*
35389 TATTTGTCAAA
1 TGTTTGTCAAA
35400 TATGGAGGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (28 bp):
TGTTTGTCAAAAATGATGGTTTATTTTG
Found at i:35388 original size:28 final size:27
Alignment explanation
Indices: 35334--35404 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
35324 GCCACCTATT
*
35334 TGTTTGTCAAAAATGATGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
*
35361 TGTTTGTCAAAAATGGTGGTTTCTTTTG
1 TGTTTGTCAAAAATGGTGG-TTATTTTG
* *
35389 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
35405 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 18 0.46
28 21 0.54
ACGTcount: A:0.24, C:0.06, G:0.23, T:0.48
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:35506 original size:20 final size:20
Alignment explanation
Indices: 35481--35525 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
35471 AAATAGAGGC
*
35481 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
35501 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
35521 TCCCT
1 TCCCT
35526 ATTCAATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.49, G:0.04, T:0.36
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:39692 original size:24 final size:24
Alignment explanation
Indices: 39660--39714 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
39650 ATTTTGTACG
*
39660 AGAAATTCTGAATGAAGGTGGAGT
1 AGAAATTCTGAATGAAAGTGGAGT
39684 AGAAATTCTGAATGAAAGTGGAGT
1 AGAAATTCTGAATGAAAGTGGAGT
39708 AGAAATT
1 AGAAATT
39715 TAGAAGATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (24 bp):
AGAAATTCTGAATGAAAGTGGAGT
Found at i:39986 original size:28 final size:27
Alignment explanation
Indices: 39931--40001 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
39921 GCTACCCATT
39931 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
*
39958 TGTTTGTAAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
39986 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
40002 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:40103 original size:20 final size:20
Alignment explanation
Indices: 40078--40122 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40068 AAATAGAGGC
*
40078 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
40098 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
40118 TCCCT
1 TCCCT
40123 ATTCAATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.49, G:0.04, T:0.36
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:44521 original size:12 final size:11
Alignment explanation
Indices: 44504--44537 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
44494 AACTTTTAAA
44504 ATAAAAAATAT
1 ATAAAAAATAT
44515 ATAAAAAATAAT
1 ATAAAAAAT-AT
44527 ATAAATAAATA
1 ATAAA-AAATA
44538 CATTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 8 0.38
13 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:44965 original size:15 final size:14
Alignment explanation
Indices: 44945--44978 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44935 ATTTTTATCG
44945 ATAATTTTTAATATA
1 ATAATTTTT-ATATA
*
44960 ATAATTTTTATTTA
1 ATAATTTTTATATA
44974 ATAAT
1 ATAAT
44979 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATAATTTTTATATA
Found at i:45891 original size:32 final size:32
Alignment explanation
Indices: 45855--45927 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
45845 GATAAGTTTG
* * * *
45855 AATTTTAATTTAGTTGGTTTTGAATTTATTCA
1 AATTTAAATTTAGTTGATTTTAAATTAATTCA
* *
45887 AATTTAAATTTATTTGATTTTAAATTAATTTA
1 AATTTAAATTTAGTTGATTTTAAATTAATTCA
45919 AATTTAAAT
1 AATTTAAAT
45928 GTTTTCAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (32 bp):
AATTTAAATTTAGTTGATTTTAAATTAATTCA
Found at i:45896 original size:16 final size:16
Alignment explanation
Indices: 45877--45967 Score: 85
Period size: 16 Copynumber: 5.7 Consensus size: 16
45867 GTTGGTTTTG
45877 AATTTATTCAAATTTA
1 AATTTATTCAAATTTA
** *
45893 AATTTATTTGATTTTA
1 AATTTATTCAAATTTA
* *
45909 AATTAATTTAAATTTA
1 AATTTATTCAAATTTA
*
45925 AATGTT-TTCAAGTTTA
1 AAT-TTATTCAAATTTA
* *
45941 AATTTATTTAGATTTA
1 AATTTATTCAAATTTA
*
45957 AATTTTTTCAA
1 AATTTATTCAA
45968 TTTCAGACTT
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
15 2 0.03
16 55 0.95
17 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.54
Consensus pattern (16 bp):
AATTTATTCAAATTTA
Found at i:45902 original size:26 final size:25
Alignment explanation
Indices: 45873--45924 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
45863 TTTAGTTGGT
45873 TTTGAATTT-ATTCAAATTTAAATTTA
1 TTTGAATTTAATT--AATTTAAATTTA
*
45899 TTTGATTTTAAATTAATTTAAATTTA
1 TTTGAATTT-AATTAATTTAAATTTA
45925 AATGTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 20 0.87
28 3 0.13
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTGAATTTAATTAATTTAAATTTA
Found at i:45941 original size:32 final size:32
Alignment explanation
Indices: 45905--45967 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
45895 TTTATTTGAT
45905 TTTAAATTAATTTAAATTTAAATGTTTTCAAG
1 TTTAAATTAATTTAAATTTAAATGTTTTCAAG
* * *
45937 TTTAAATTTATTTAGATTTAAATTTTTTCAA
1 TTTAAATTAATTTAAATTTAAATGTTTTCAA
45968 TTTCAGACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (32 bp):
TTTAAATTAATTTAAATTTAAATGTTTTCAAG
Found at i:45980 original size:32 final size:32
Alignment explanation
Indices: 45905--45988 Score: 91
Period size: 32 Copynumber: 2.6 Consensus size: 32
45895 TTTATTTGAT
*
45905 TTTAAA-TTAATTTAAATTTAAATGTTTTCAAG
1 TTTAAACTT-ATTTAGATTTAAATGTTTTCAAG
* *
45937 TTTAAATTTATTTAGATTTAAATTTTTTCAA-
1 TTTAAACTTATTTAGATTTAAATGTTTTCAAG
* *
45968 TTTCAGACTTATTCAGATTTA
1 TTT-AAACTTATTTAGATTTA
45989 GGTTCAAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
31 3 0.07
32 40 0.89
33 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (32 bp):
TTTAAACTTATTTAGATTTAAATGTTTTCAAG
Found at i:46894 original size:16 final size:15
Alignment explanation
Indices: 46867--46896 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46857 ATTTTAACTT
46867 TATATTCTATTCTAG
1 TATATTCTATTCTAG
46882 TATATTGCTATTCTA
1 TATATT-CTATTCTA
46897 AGTGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAG
Found at i:47400 original size:16 final size:16
Alignment explanation
Indices: 47353--47407 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
47343 TGGGTCAGTC
* * *
47353 TCGAGTTTAAATTCTC
1 TCGAGTTCAGATTCTT
* *
47369 TCGAATTCAGGTTCTT
1 TCGAGTTCAGATTCTT
47385 TCGAGTTCAGATTCTT
1 TCGAGTTCAGATTCTT
*
47401 TCAAGTT
1 TCGAGTT
47408 TAAGCTTTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (16 bp):
TCGAGTTCAGATTCTT
Found at i:47468 original size:16 final size:16
Alignment explanation
Indices: 47421--47471 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
47411 GCTTTGTTGG
*
47421 GTTCGAACTT-TCTCGA
1 GTTCGAA-TTATCTTGA
47437 GTTCGAATTATCTTGA
1 GTTCGAATTATCTTGA
*
47453 GTTCGAATTATTTTGA
1 GTTCGAATTATCTTGA
47469 GTT
1 GTT
47472 TGGATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 2 0.06
16 30 0.94
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.45
Consensus pattern (16 bp):
GTTCGAATTATCTTGA
Found at i:54104 original size:19 final size:20
Alignment explanation
Indices: 54030--54103 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
54020 GTTAGAAGCA
*
54030 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTGATC
54050 ATGTATCGATACAATTG-TCC
1 ATGTATCGATACAATTGAT-C
54070 ATGTATCGATACAA-TGATC
1 ATGTATCGATACAATTGATC
54089 ATGTATCGATACAAT
1 ATGTATCGATACAAT
54104 GTATCGATGC
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTGATC
Found at i:54131 original size:33 final size:32
Alignment explanation
Indices: 54070--54134 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
54060 ACAATTGTCC
* *
54070 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
*
54102 ATGTATCGATGCAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
54135 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:56434 original size:20 final size:21
Alignment explanation
Indices: 56404--56449 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
56394 TCGTTTTTGT
56404 TGAAGATTTTG-A-TGAAAAA
1 TGAAGATTTTGAAGTGAAAAA
56423 TGAAGTATTTTGAAGTGAAAAA
1 TGAAG-ATTTTGAAGTGAAAAA
56445 T-AAGA
1 TGAAGA
56450 AATTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 7 0.29
21 4 0.17
22 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (21 bp):
TGAAGATTTTGAAGTGAAAAA
Found at i:56454 original size:22 final size:20
Alignment explanation
Indices: 56404--56482 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 20
56394 TCGTTTTTGT
56404 TGAAG-ATTTTGATGAAAAA
1 TGAAGAATTTTGATGAAAAA
*
56423 TGAAGTATTTTGAAGTGAAAAA
1 TGAAGAATTTTG-A-TGAAAAA
*
56445 T-AAGAAATTTGA--AAAAGA
1 TGAAGAATTTTGATGAAAA-A
*
56463 TTTGATGAATTTTGATGAAA
1 --TGAAGAATTTTGATGAAA
56483 GGATGTTAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 5 0.11
20 8 0.17
21 18 0.38
22 8 0.17
23 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (20 bp):
TGAAGAATTTTGATGAAAAA
Found at i:56455 original size:21 final size:22
Alignment explanation
Indices: 56416--56457 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
56406 AAGATTTTGA
* *
56416 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
56438 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
56458 AAAGATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:56727 original size:18 final size:20
Alignment explanation
Indices: 56685--56727 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
56675 CTATAGACCC
* *
56685 TAATTCACATCAAACAAGTA
1 TAATTCACATAAAACAAGCA
56705 TAATTCA-ATAAAACAA-CA
1 TAATTCACATAAAACAAGCA
56723 TAATT
1 TAATT
56728 GAACATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (20 bp):
TAATTCACATAAAACAAGCA
Found at i:59138 original size:97 final size:97
Alignment explanation
Indices: 58972--59165 Score: 352
Period size: 97 Copynumber: 2.0 Consensus size: 97
58962 AATTGGCCTA
* * **
58972 ATCATAGCTCGGTTTATAATATAGCATGCGGTATTAATGGCTTCTGTCCAAAAATATCTTGGTAA
1 ATCATAGCTCGATTTATAATATAGCATGCAGTATTAATGGCTTCTACCCAAAAATATCTTGGTAA
59037 ATTATTTTCACAAAGCATGGTTCTAGCCATTT
66 ATTATTTTCACAAAGCATGGTTCTAGCCATTT
59069 ATCATAGCTCGATTTATAATATAGCATGCAGTATTAATGGCTTCTACCCAAAAATATCTTGGTAA
1 ATCATAGCTCGATTTATAATATAGCATGCAGTATTAATGGCTTCTACCCAAAAATATCTTGGTAA
59134 ATTATTTTCACAAAGCATGGTTCTAGCCATTT
66 ATTATTTTCACAAAGCATGGTTCTAGCCATTT
59166 CTTCAAAAGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (97 bp):
ATCATAGCTCGATTTATAATATAGCATGCAGTATTAATGGCTTCTACCCAAAAATATCTTGGTAA
ATTATTTTCACAAAGCATGGTTCTAGCCATTT
Found at i:61182 original size:3 final size:3
Alignment explanation
Indices: 61168--61236 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
61158 TCCGAGTCAC
* * *
61168 CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT CAT CTT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
* *
61216 CAT CAT CAT CTT TAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT
61237 TGATGGTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:62911 original size:20 final size:21
Alignment explanation
Indices: 62886--62926 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
62876 CTGCCAGTTT
62886 CATGTATCGATACAAT-TATC
1 CATGTATCGATACAATGTATC
62906 CATGTATCGATACAATGTATC
1 CATGTATCGATACAATGTATC
62927 GATACAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATGTATC
Found at i:62925 original size:13 final size:13
Alignment explanation
Indices: 62907--62933 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62897 ACAATTATCC
62907 ATGTATCGATACA
1 ATGTATCGATACA
62920 ATGTATCGATACA
1 ATGTATCGATACA
62933 A
1 A
62934 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:64139 original size:21 final size:21
Alignment explanation
Indices: 64113--64168 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
64103 ACATTTTTGT
64113 TTAAATGTATCGATACATTTC
1 TTAAATGTATCGATACATTTC
*
64134 TTAAATGTATTGATACATTTC
1 TTAAATGTATCGATACATTTC
64155 TTAAATGTATCGAT
1 TTAAATGTATCGAT
64169 CCAAGGTCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (21 bp):
TTAAATGTATCGATACATTTC
Found at i:64249 original size:20 final size:21
Alignment explanation
Indices: 64209--64262 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
64199 TTCTACGATT
*
64209 TGTATCGATACATTTAGTGAA
1 TGTATCGATACATTAAGTGAA
*
64230 TGTATCGATATA-TAAGTGAA
1 TGTATCGATACATTAAGTGAA
64250 TGTATCGATACAT
1 TGTATCGATACAT
64263 GTCTCAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTAAGTGAA
Found at i:65632 original size:4 final size:4
Alignment explanation
Indices: 65614--65673 Score: 51
Period size: 4 Copynumber: 16.2 Consensus size: 4
65604 TTTAACATAT
* *
65614 ATAA A-AA AT-A ATAA ATAA ATAA ATAA ATAA A-AGT ATAT ATAA A-AA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA
65659 ATAA A-AA A-AA ATAA A
1 ATAA ATAA ATAA ATAA A
65674 AAAAGAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
3 16 0.33
4 31 0.65
5 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:65636 original size:8 final size:8
Alignment explanation
Indices: 65614--65673 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 8
65604 TTTAACATAT
65614 ATAAA-AA
1 ATAAATAA
65621 AT-AATAA
1 ATAAATAA
65628 ATAAATAA
1 ATAAATAA
65636 ATAAATAA
1 ATAAATAA
* *
65644 A-AGTATAT
1 ATA-AATAA
65652 ATAAA-AA
1 ATAAATAA
65659 ATAAA-AA
1 ATAAATAA
65666 A-AAATAA
1 ATAAATAA
65673 A
1 A
65674 AAAAGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 5 0.11
7 19 0.43
8 19 0.43
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
ATAAATAA
Found at i:65653 original size:38 final size:37
Alignment explanation
Indices: 65610--65682 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
65600 TTTATTTAAC
* * *
65610 ATATATAAAAAATAATAAATAAATAAATAAATAAAAGT
1 ATATATAAAAAATAA-AAAAAAATAAAAAAAGAAAAGT
65648 ATATATAAAAAATAAAAAAAAATAAAAAAAGAAAA
1 ATATATAAAAAATAAAAAAAAATAAAAAAAGAAAA
65683 AAACCCGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (37 bp):
ATATATAAAAAATAAAAAAAAATAAAAAAAGAAAAGT
Found at i:65752 original size:14 final size:14
Alignment explanation
Indices: 65733--65853 Score: 85
Period size: 14 Copynumber: 8.9 Consensus size: 14
65723 TATTTTTATG
65733 CATTTCATGCATTA
1 CATTTCATGCATTA
*
65747 CATTTCATGCA-TG
1 CATTTCATGCATTA
* * *
65760 CATTTCACGTAATTTG
1 CATTTCATG-CA-TTA
65776 CATTTCATGCATTA
1 CATTTCATGCATTA
*
65790 CATTTCATGCA-TG
1 CATTTCATGCATTA
*
65803 CATTT--TACA-TA
1 CATTTCATGCATTA
*
65814 -ATGTTCATTTCA-TA
1 CAT-TTCA-TGCATTA
*
65828 CATTGCATGCATTA
1 CATTTCATGCATTA
65842 CATTTCATGCAT
1 CATTTCATGCAT
65854 GTTTCACGCC
Statistics
Matches: 85, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
10 2 0.02
11 6 0.07
13 18 0.21
14 46 0.54
15 3 0.04
16 10 0.12
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (14 bp):
CATTTCATGCATTA
Found at i:65761 original size:18 final size:18
Alignment explanation
Indices: 65738--65806 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 18
65728 TTATGCATTT
65738 CATGCATTACATTTCATG
1 CATGCATTACATTTCATG
*
65756 CATGCATTTCACGTAATTTGCATTT
1 CATGCA-TT-AC---ATTT-CA-TG
65781 CATGCATTACATTTCATG
1 CATGCATTACATTTCATG
65799 CATGCATT
1 CATGCATT
65807 TTACATAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
18 15 0.36
19 4 0.10
20 6 0.14
23 6 0.14
24 4 0.10
25 7 0.17
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (18 bp):
CATGCATTACATTTCATG
Found at i:65779 original size:43 final size:44
Alignment explanation
Indices: 65731--65831 Score: 161
Period size: 43 Copynumber: 2.3 Consensus size: 44
65721 CATATTTTTA
*
65731 TGCATTTCATGCATTACATTTCATGCATGCATTTCACGTAAT-T
1 TGCATTTCATGCATTACATTTCATGCATGCATTTCACATAATGT
*
65774 TGCATTTCATGCATTACATTTCATGCATGCATTTTACATAATGT
1 TGCATTTCATGCATTACATTTCATGCATGCATTTCACATAATGT
*
65818 T-CATTTCATACATT
1 TGCATTTCATGCATT
65832 GCATGCATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 52 0.96
44 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (44 bp):
TGCATTTCATGCATTACATTTCATGCATGCATTTCACATAATGT
Found at i:66035 original size:25 final size:26
Alignment explanation
Indices: 66001--66062 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 26
65991 AGTTGAAATA
66001 ATGCAATGAAGAAGCAATTAAGCTG-
1 ATGCAATGAAGAAGCAATTAAGCTGC
*
66026 ATGCAATGAAGAAGCAATTAAGTTGC
1 ATGCAATGAAGAAGCAATTAAGCTGC
66052 A-GCAATGAAGA
1 ATGCAATGAAGA
66063 CACCAACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.19
Consensus pattern (26 bp):
ATGCAATGAAGAAGCAATTAAGCTGC
Found at i:66565 original size:33 final size:32
Alignment explanation
Indices: 66528--66598 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
66518 CATCGAAAAG
*
66528 CAAGCAAACCA-GCAATGAAACAGCCCAAGCAAA
1 CAAGCAAACCAGGC-A-GAAACAGCACAAGCAAA
* *
66561 CAAGCAAGCCATGGCAGCAACAGCACAAGCAAA
1 CAAGCAAACCA-GGCAGAAACAGCACAAGCAAA
66594 CAAGC
1 CAAGC
66599 CACAAGCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 30 0.91
34 1 0.03
35 2 0.06
ACGTcount: A:0.48, C:0.31, G:0.18, T:0.03
Consensus pattern (32 bp):
CAAGCAAACCAGGCAGAAACAGCACAAGCAAA
Done.