Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2340
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: 223142
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 2 of 3
Found at i:119938 original size:87 final size:87
Alignment explanation
Indices: 119764--120373 Score: 869
Period size: 87 Copynumber: 7.0 Consensus size: 87
119754 GATGGTTAAG
* * *
119764 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
*
119829 TCAAGGCCAGCGATATTAGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* *
119852 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAGGTGCCAATATTCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
*
119917 CAAGGCCAGTGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
119939 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGTCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
*
120004 TAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * * *
120026 ATGCCAAAGTGCTGATTCTAGGTCAGCGACATTGGTCTTAAAGATAAGGTACCAATATACTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
* *
120091 CAAGGCCAGCGACATTAGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * * *
120113 ATGCTAATGTGCTAATTCAAGGCTAGCGACATTGGTCTTAGAGATAAGGTGTCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
120178 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
** * * * *
120200 GTGCCAAAATGCTGATTCAAGGCTAACGACATTGGTCTTAAAGATAAGGTACCACTATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
* *
120265 TAAGGCCAGCGATATTAGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
120287 GTGCCAAAGTACTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAGGTGCCAATATACTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
120352 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
120374 AAAGGTGCCA
Statistics
Matches: 464, Mismatches: 58, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
87 422 0.91
88 42 0.09
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:120523 original size:33 final size:33
Alignment explanation
Indices: 120374--121049 Score: 603
Period size: 33 Copynumber: 20.9 Consensus size: 33
120364 TATTGGGCTT
* * * * *
120374 AAAGGTGCCACTGAGTTGCGAACTT-ACAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
120406 AAAGGGATGCCATGGAGGTGTGGCCTTAAAAGGGCAA
1 AAA--GATGCCACGGAGTTGTGGACTTAAAA-GG-AA
* * * *
120443 AATG-TGCTACGGAGTCGTGGACTTAAAAAG-A
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
120474 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
120507 CAAGATGCCACTGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
120540 AAAGATGCCACGGAGTTGTGGACTTAAAAGG--
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
120571 ---G-TGCCACAGAGTTATGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
120600 AAAGAGTGCCAAGGAATTGTGGACTTAAAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGAA
*
120634 AAAGATACCACGGAGTTGTGGACTT------AA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* **
120661 AAAGGTGCCATAGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* ** * *
120694 AAAGAGTGCCACAGAGTCATGGGCTTAAAAAG-A
1 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGAA
** *
120727 AAAGATGCCATAGAGTTATGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
120760 CAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
120793 AAAGATCCCACAGAGTTGT-GAGCTTACAAGGAA
1 AAAGATGCCACGGAGTTGTGGA-CTTAAAAGGAA
*
120826 AAAGATGCCACGGAGTTGTGGACTTTAAAGG--
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
*
120857 ---G-TGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
120886 AAAGAGTGCCACGGAATCCTGGGCTTAGAAA-GAA
1 AAAGA-TGCCACGGAGTTGTGGACTTA-AAAGGAA
120920 AAAGATGCCACGGAGTTGT-GACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
** *
120952 CAAAG-TGCCATAGAGTTGTGGACTTAAAAGAAA
1 -AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
120985 AAAGATGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
121019 AAAAATGCCACGAAGTTGTGGACTTAAAAGG
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGG
121050 GTGCCACAGA
Statistics
Matches: 523, Mismatches: 84, Indels: 73
0.77 0.12 0.11
Matches are distributed among these distances:
27 71 0.14
28 2 0.00
31 7 0.01
32 75 0.14
33 219 0.42
34 137 0.26
35 6 0.01
36 2 0.00
37 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:120873 original size:192 final size:193
Alignment explanation
Indices: 120375--121069 Score: 792
Period size: 192 Copynumber: 3.6 Consensus size: 193
120365 ATTGGGCTTA
* * * * ** *
120375 AAGGTGCCACTGAGTTGCGAACTT-ACAGGAAAAAGGGATGCCATGGAGGTGTGGCCTTAAAAGG
1 AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA--GATGCCACAGAGTTGTGG-CTTAAAA-G
* * * *
120439 GCAAAATG-TGCTACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCATG-GAGTTGTGGACTTAAA
62 G-AAAAAGATGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGAGAGTTGTGGACTTAAA
* * ** * *
120502 AGGAACAAGA-TGCCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTA
121 AGGAAAAAGAGTGCCACAGAGTCATGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTA
120566 AAA-G---
186 AAAGGAAC
* *
120570 --GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCA-AGGAATTGTGGACTTAAAAGG
1 AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACA-GAGTTGTGG-CTTAAAAGG
* * *
120632 AAAAAGATACCACGGAGTTGTGGACTTAAAAAGGTGCCA-TAGAGTTGTGGACTTAAAAGGAAAA
63 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGAGTTGTGGACTTAAAAGGAAAA
** *
120696 AGAGTGCCACAGAGTCATGGGCTTAAAAAG-AAAAGATGCCATAGAGTTATGGACTTAAAAGGAA
128 AGAGTGCCACAGAGTCATGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
120760 C
193 C
* *
120761 AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATCCCACAGAGTTGTGAGCTTACAAGGAA
1 AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTG-GCTTAAAAGGAA
*
120826 AAAGATGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGA-AGTTGTGGACTTAAAAGGAAAAAG
65 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGAGTTGTGGACTTAAAAGGAAAAAG
* * * *
120890 AGTGCCACGGAATCCTGGGCTTAGAAAGAAAAAGATGCCACGGAGTTGT-GACTTAAAAGGAAC
130 AGTGCCACAGAGTCATGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAC
* * * *
120953 AAAGTGCCATAGAGTTGTGGACTTAAAAGAAAAAAGATGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGT-GGC-TTAAAAGGA
* *
121018 AAAAAATGCCACGAAGTTGTGGACTTAAAAGGGTGCCAC-AGAGTTGTGGACT
64 AAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGAGTTGTGGACT
121070 GTGAAAGGGT
Statistics
Matches: 433, Mismatches: 48, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
187 59 0.14
188 22 0.05
191 9 0.02
192 188 0.43
193 146 0.34
194 9 0.02
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.20
Consensus pattern (193 bp):
AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGCTTAAAAGGAAA
AAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGAGTTGTGGACTTAAAAGGAAAAAGA
GTGCCACAGAGTCATGGGCTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAC
Found at i:121055 original size:286 final size:280
Alignment explanation
Indices: 120473--121069 Score: 803
Period size: 286 Copynumber: 2.1 Consensus size: 280
120463 ACTTAAAAAG
** * * *
120473 AAAA-GGTGCCATGGAGTTGTGGACTTAAAAGGAACAAGATGCCACTGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATCCCACAGAGTTGTGGACTTAAAAG
120537 GAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAA
66 GAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAA
** *
120602 AGAGTGCCAAGGAATTGTGGACTTAAAAGGAAAAAGATACCACGGAGTTGTGGACTTAAAAAGGT
131 AGAGTGCCAAGGAATCCTGGACTTAAAAGGAAAAAGATACCACGGAGTTGTGGACTTAAAAAAGT
* *
120667 GCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCATGGGCTTAAAAAGAAAAGA
196 GCCATAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAGAGTCATGGGCTTAAAAAGAAAAAA
*
120732 TGCCATAGAGTTATGGACTT
261 TGCCAGAGAGTTATGGACTT
120752 AAAAGGAACAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATCCCACAGAGTTGT-GAGC
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATCCCACAGAGTTGTGGA-C
* * *
120816 TTACAAGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAGGGTGCCAC-GAAGTTGTGGACTTAA
59 TTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG-AGTTATGGACTTAA
* * *
120880 AAGGAAAAAGAGTGCCACGGAATCCTGGGCTTAGAAA-GAAAAAGATGCCACGGAGTTGT-GACT
123 AAGGAAAAAGAGTGCCAAGGAATCCTGGACTTA-AAAGGAAAAAGATACCACGGAGTTGTGGACT
**
120943 TAAAAGGAACAAAGTGCCATAGAGTTGTGGACTTAAAAGAAAAAAGA-TGCCACAGAGTTGTGGG
187 T---A--AA-AAAGTGCCATAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAGAGTCATGGG
*
121007 CTTTAAAAAGAAAAAAATGCCACGA-AGTTGTGGACTT
246 C-TTAAAAAG-AAAAAATGCCA-GAGAGTTATGGACTT
121044 AAAAGGGTGCCACAGAGTTGTGGACT
1 AAAAGGGTGCCACAGAGTTGTGGACT
121070 GTGAAAGGGT
Statistics
Matches: 279, Mismatches: 20, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
279 4 0.01
285 8 0.03
286 175 0.63
287 3 0.01
288 1 0.00
290 18 0.06
291 44 0.16
292 25 0.09
293 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (280 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATCCCACAGAGTTGTGGACTTAAAAG
GAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAA
AGAGTGCCAAGGAATCCTGGACTTAAAAGGAAAAAGATACCACGGAGTTGTGGACTTAAAAAAGT
GCCATAGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACAGAGTCATGGGCTTAAAAAGAAAAAA
TGCCAGAGAGTTATGGACTT
Found at i:121090 original size:28 final size:27
Alignment explanation
Indices: 121024--121098 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 27
121014 AAGAAAAAAA
121024 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
121051 TGCCAC-AGAGTTGTGGACTGTGAAAGGG
1 TGCCACGA-AGTTGTGGACT-TAAAAGGG
121079 TGCCACGAAGTTGTGGACTT
1 TGCCACGAAGTTGTGGACTT
121099 TGGGAAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 1 0.02
27 18 0.41
28 24 0.55
29 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:121221 original size:32 final size:31
Alignment explanation
Indices: 121079--121359 Score: 248
Period size: 32 Copynumber: 8.9 Consensus size: 31
121069 TGTGAAAGGG
* * *
121079 TGCCACGAAGTTGTGGACTTTG-GGAAAAAGA
1 TGCCACTAAGTCGTGGACTTTGAAG-AAAAGA
** * *
121110 TGCCACTGTGTCATGGAATTTG-AGAAGAA-A
1 TGCCACTAAGTCGTGGACTTTGAAGAA-AAGA
* * * * *
121140 TGTCATTGAGTCATGGACTTTGAAGAAAAAAAA
1 TGCCACTAAGTCGTGGACTTTGAAG--AAAAGA
*
121173 TGCCACTAAGTCGTGGACTTGGAAGAAAAGGA
1 TGCCACTAAGTCGTGGACTTTGAAGAAAA-GA
* *
121205 TGGCACTAAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTAAGTCGTGGACTTTGAAGAAAAGA
*
121236 TGCCAC-AGAGTCGTGGACTTTGGGAA-AAGAGA
1 TGCCACTA-AGTCGTGGACTTT--GAAGAAAAGA
* ** *
121268 TGCCACTGAGTTATGGACTTTGAAGAAGAGA
1 TGCCACTAAGTCGTGGACTTTGAAGAAAAGA
*
121299 TTGCCACTAAGTTGTGGACTTTGAAGAAAAGA
1 -TGCCACTAAGTCGTGGACTTTGAAGAAAAGA
*
121331 TGCCACAAAGTCGTGGACTTTGAAGAAAA
1 TGCCACTAAGTCGTGGACTTTGAAGAAAA
121360 AAAGAGCTTT
Statistics
Matches: 207, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
30 25 0.12
31 77 0.37
32 79 0.38
33 26 0.13
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (31 bp):
TGCCACTAAGTCGTGGACTTTGAAGAAAAGA
Found at i:121252 original size:63 final size:63
Alignment explanation
Indices: 121153--121359 Score: 251
Period size: 63 Copynumber: 3.3 Consensus size: 63
121143 CATTGAGTCA
* *
121153 TGGACTTTGAAGAAAAAAAATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGGCACTAAGTTG
1 TGGACTTTGAAG--AAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTTG
*
121218 TGGACTTTGAAGAAAAGATGCCAC-AGAGTCGTGGACTTTGG--GAAAAGAGATGCCACTGAGTT
1 TGGACTTTGAAGAAAAGATGCCACTA-AGTCGTGGAC-TTGGAAGAAAAG-GATGCCACTAAGTT
*
121280 A
63 G
* * * * *
121281 TGGACTTTGAAGAAGAGATTGCCACTAAGTTGTGGACTTTGAAGAAAA-GATGCCACAAAGTCG
1 TGGACTTTGAAGAAAAGA-TGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTTG
121344 TGGACTTTGAAGAAAA
1 TGGACTTTGAAGAAAA
121360 AAAGAGCTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
62 7 0.06
63 79 0.64
64 19 0.15
65 18 0.15
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (63 bp):
TGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTTG
Found at i:121271 original size:95 final size:96
Alignment explanation
Indices: 121147--121362 Score: 310
Period size: 95 Copynumber: 2.3 Consensus size: 96
121137 AAATGTCATT
* * *
121147 GAGTCATGGACTTTGAAGAAAAAAAATGCCACTAAGTCGTGGACTTGGAAGAAAAGGA-TGGCAC
1 GAGTCGTGGACTTTGAAGAAAAAAAATGCCACTAAGTCATGGACTTGGAAGAAAA-GATTGCCAC
121211 TAAGTTGTGGACTTTGAAGAAAAGATGCCACA
65 TAAGTTGTGGACTTTGAAGAAAAGATGCCACA
* * * * * * *
121243 GAGTCGTGGACTTTG-GGAAAAGAGATGCCACTGAGTTATGGACTTTGAAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAAAATGCCACTAAGTCATGGACTTGGAAGAAAAGATTGCCACT
121307 AAGTTGTGGACTTTGAAGAAAAGATGCCACA
66 AAGTTGTGGACTTTGAAGAAAAGATGCCACA
*
121338 AAGTCGTGGACTTTGAAGAAAAAAA
1 GAGTCGTGGACTTTGAAGAAAAAAA
121363 GAGCTTTGAA
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
94 2 0.02
95 82 0.79
96 20 0.19
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (96 bp):
GAGTCGTGGACTTTGAAGAAAAAAAATGCCACTAAGTCATGGACTTGGAAGAAAAGATTGCCACT
AAGTTGTGGACTTTGAAGAAAAGATGCCACA
Found at i:122642 original size:22 final size:22
Alignment explanation
Indices: 122617--122665 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
122607 TTTGCACTTT
* *
122617 TTTTTTGTGTTTTTTGTTTT-TG
1 TTTTTT-TCTTTTTTCTTTTGTG
122639 TTTTTTTCTTTTTTCTTTTGTG
1 TTTTTTTCTTTTTTCTTTTGTG
122661 TTTTT
1 TTTTT
122666 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTTTTTTCTTTTGTG
Found at i:122677 original size:21 final size:20
Alignment explanation
Indices: 122634--122678 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
122624 TGTTTTTTGT
* **
122634 TTTTGTTTTTTTCTTTTTTC
1 TTTTGTTTTTTACTTTTGAC
122654 TTTTGTGTTTTTACTTTTGAC
1 TTTTGT-TTTTTACTTTTGAC
122675 TTTT
1 TTTT
122679 TCATCATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.04, C:0.09, G:0.09, T:0.78
Consensus pattern (20 bp):
TTTTGTTTTTTACTTTTGAC
Found at i:122679 original size:35 final size:34
Alignment explanation
Indices: 122614--122679 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
122604 GCCTTTGCAC
** *
122614 TTTTTTTTTGTGTTTTTTGTTTTTGTTTTTTTCT
1 TTTTTTTTTGTGTTTTTTACTTTTGCTTTTTTCT
122648 TTTTTCTTTTGTG-TTTTTACTTTTGACTTTTT
1 TTTTT-TTTTGTGTTTTTTACTTTTG-CTTTTT
122680 CATCATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 15 0.56
35 12 0.44
ACGTcount: A:0.03, C:0.06, G:0.11, T:0.80
Consensus pattern (34 bp):
TTTTTTTTTGTGTTTTTTACTTTTGCTTTTTTCT
Found at i:125338 original size:19 final size:19
Alignment explanation
Indices: 125314--125352 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
125304 CAATGCAAAT
125314 GCAATTATCGCCCTGATGG
1 GCAATTATCGCCCTGATGG
*
125333 GCAATTATTGCCCTGATGG
1 GCAATTATCGCCCTGATGG
125352 G
1 G
125353 TAAGACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (19 bp):
GCAATTATCGCCCTGATGG
Found at i:130153 original size:20 final size:19
Alignment explanation
Indices: 130130--130190 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
130120 ATGTATTAAC
*
130130 ACATTGAAGAATGTATCGAT
1 ACATTGAA-AATATATCGAT
* *
130150 ACATTCATACATATATCGAT
1 ACATTGA-AAATATATCGAT
130170 ACATTGAAAAATATATCGAT
1 ACATTG-AAAATATATCGAT
130190 A
1 A
130191 TATCTGGGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (19 bp):
ACATTGAAAATATATCGAT
Found at i:132030 original size:49 final size:49
Alignment explanation
Indices: 131966--132091 Score: 200
Period size: 49 Copynumber: 2.6 Consensus size: 49
131956 GAGATGAATG
* * *
131966 CCAATGTGCCAATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCCAAGGGAAAAGTGGA
*
132015 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCCAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCCAAGGGAAAAGTGGA
*
132064 -CAATATGCTAATTCAAGGCCAGCGACAT
1 CCAATGTGCTAATTCAAGGCCAGCGACAT
132092 CGAGCTAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
48 26 0.37
49 45 0.63
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.17
Consensus pattern (49 bp):
CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCCAAGGGAAAAGTGGA
Found at i:132292 original size:28 final size:28
Alignment explanation
Indices: 132255--133291 Score: 538
Period size: 28 Copynumber: 35.8 Consensus size: 28
132245 CACCAACTTG
* * *
132255 TGTGGGCTTTGAAAGGGTGCCACTAAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
132283 TGTAGGCTTTGAAAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG---AAAG-GATGCCACTGAC-T
*
132316 GTGTGGGCTTTGAAAGGATACCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
132345 TGTGGGCTTTGAAAATGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
132374 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
132403 TGTGGGCTTTGAAAAGATGCTACT-ATCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* * *
132431 TGTGGGCTTTGAAAATG-TGCCACTCATT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
**
132459 TGCAGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* **
132489 TGTGGACTTTGAAATAATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
132517 TGTGGGCTTTGAAATGGGTTGCCACCGATTT
1 TGTGGGCTTTGAAA--GGATGCCACTGA-CT
* *
132548 GTGTGGGCTTTGAAATGGGTTGCCACCGACT
1 -TGTGGGCTTTGAAA--GGATGCCACTGACT
* * *
132579 TGTCTGGGCTTTCAAATGAGTTACCA-TCGACTT
1 TG--TGGGCTTTGAAA-G-GATGCCACT-GAC-T
* * *
132612 GTGTGGGCTTTCAAATAAGTTGCCA-TCGACTT
1 -TGTGGGCTTT-GAA-AGGATGCCACT-GAC-T
* ** *
132644 GTGTGGGCTTTGAAATGGGTTGCCACCAATT
1 -TGTGGGCTTTGAAA--GGATGCCACTGACT
*
132675 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
132703 TATAGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
132731 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * ** * *
132762 GTGTGGGCTATGAAATGGGTTACGCCGACTT
1 -TGTGGGCTTTGAAA-GGATGCCACTGAC-T
* * *
132793 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
*
132825 GTGTGGGCTTGGAAAAGG-TGCCACTGACT
1 -TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
132854 TGTGGGCTTGGAAAAGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
132882 TGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
132910 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
132938 AGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
132966 TGTGGGCTTTGAAATGG-TGCCACTGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
132994 TGT-GGATTTTAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * *
133022 TGT-GGATTTTAAAAGAGTGCCACTGAAGT
1 TGTGGGCTTTGAAAGGA-TGCCACTG-ACT
* * * * *
133051 TGTGGACTTTAAAAGGGTACCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * * * * * *
133079 TATGGACTTTAAAAGGGTACAACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
133107 TGTGGACTTTAAAAGCATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * * *
133135 TGTGGAC-TTAAAAGGATACCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
133162 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
133189 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * *
133216 TGTAGACTTTAAAAGGGTGCTACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
133244 TGTGGACTTT-AAA-GATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
133270 TGTGGACTTTAAAAGGATGCCA
1 TGTGGGCTTTGAAAGGATGCCA
133292 TGGAGTTGTG
Statistics
Matches: 846, Mismatches: 117, Indels: 92
0.80 0.11 0.09
Matches are distributed among these distances:
26 22 0.03
27 96 0.11
28 379 0.45
29 75 0.09
30 82 0.10
31 42 0.05
32 130 0.15
33 7 0.01
34 13 0.02
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:132697 original size:214 final size:203
Alignment explanation
Indices: 132403--132982 Score: 657
Period size: 214 Copynumber: 2.8 Consensus size: 203
132393 GCCACTGACT
** * * **
132403 TGTGGGCTTTGAAAAGATGCTACT-ATCTTGTGGGCTTTGAAAATGTGCCACTCATTTGCAGGCT
1 TGTGGGCTTCAAAAAGGTGCCACTGA-CTTGTGGGCTTTG-AAATGTGCCAC-CATTTGTGGGCT
* **
132467 TTGAAAGGGTATGCCACTGACTTGTGGACTTTGAAATAATGCCACTGACTTGTGGGCTTTGAAAT
63 TTGAAA-TG-ATGCCACTGACTTGTGG-CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAT
*
132532 GGGTTGCCACCGATTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTCTGGGCTTTCAAATG
125 GGGTTGCCACCGA-TTGTGTGGGCTTTGAAATGGGTT-ACACCGACTTGTCTGGGCTTTCAAATG
*
132597 AGTTACCATCGACTTG
188 AGTTACCACCGACTTG
*
132613 TGTGGGCTTTCAAATAAGTTGCCA-TCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAATTTG
1 TGTGGGC-TTCAAA-AAGGTGCCACT-GAC-T-TGTGGGCTTTGAAAT--G-TGCCACC-ATTTG
* *
132677 TGGGCTTTGAAATGATGCCACTGACTTATAGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG
57 TGGGCTTTGAAATGATGCCACTGACTTGT-GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
132742 AAATGGGTTGCCACCGACTTGTGTGGGCTATGAAATGGGTTACGCCGACTTGTGTGGGCTTTCAA
121 AAATGGGTTGCCACCGA-TTGTGTGGGCTTTGAAATGGGTTACACCGACTTGTCTGGGCTTTCAA
*
132807 ATGAGTTGCCACCGACTTG
185 ATGAGTTACCACCGACTTG
** * * * * *
132826 TGTGGGCTTGGAAAAGGTGCCACTGACTTGTGGGCTTGGAAAAGATACCACTGACTTGTGGGCTT
1 TGTGGGCTTCAAAAAGGTGCCACTGACTTGTGGGCTTTGAAATG-TGCCAC-CATTTGTGGGCTT
* * *
132891 TGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAA-GGG
64 TGAAATGATGCCACTGACTTGT-GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGG
* *
132955 -TGCCACTGACT-TGTGGGCTTTGAAATGG
128 TTGCCACCGATTGTGTGGGCTTTGAAATGG
132983 TGCCACTGAG
Statistics
Matches: 321, Mismatches: 36, Indels: 33
0.82 0.09 0.08
Matches are distributed among these distances:
203 16 0.05
204 1 0.00
205 8 0.02
206 3 0.01
207 72 0.22
209 13 0.04
210 8 0.02
211 16 0.05
212 13 0.04
213 51 0.16
214 94 0.29
215 5 0.02
216 21 0.07
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (203 bp):
TGTGGGCTTCAAAAAGGTGCCACTGACTTGTGGGCTTTGAAATGTGCCACCATTTGTGGGCTTTG
AAATGATGCCACTGACTTGTGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTG
CCACCGATTGTGTGGGCTTTGAAATGGGTTACACCGACTTGTCTGGGCTTTCAAATGAGTTACCA
CCGACTTG
Found at i:133297 original size:28 final size:28
Alignment explanation
Indices: 132837--133390 Score: 475
Period size: 28 Copynumber: 20.0 Consensus size: 28
132827 GTGGGCTTGG
* * * *
132837 AAAAGG-TGCCACTGACTTGTGGGCTTGG
1 AAAAGGATGCCACGGAGTTGTGGACTT-T
* * * *
132865 AAAA-GATACCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * ** * *
132892 GAAATGATGCCACTAACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * * * *
132920 GAAAGGGTGCCACTGACTAGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * * *
132948 GAAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * *
132976 GAAATGG-TGCCACTGAGTTGTGGATTTT
1 -AAAAGGATGCCACGGAGTTGTGGACTTT
* *
133004 AAAA-GAGTGCCACAGAGTTGTGGATTTT
1 AAAAGGA-TGCCACGGAGTTGTGGACTTT
*
133032 AAAA-GAGTGCCACTGAAGTTGTGGACTTT
1 AAAAGGA-TGCCAC-GGAGTTGTGGACTTT
* * * *
133061 AAAAGGGTACCACGAAGTTATGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * *
133089 AAAAGGGTACAACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
133117 AAAAGCATGCCATGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
133144 AAAAGGATACCACAGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
133171 AAAAGGATGCCACGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
133198 AAAAGGATGCCACGGAGTTGTAGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
133226 AAAAGGGTGCTACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
133254 -AAA-GATGCCACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
133280 AAAAGGATGCCATGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
133307 AAAAGGTTGCCACGGAGTTGTAGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * **
133334 AAAAGGTTGCCACAGAGTTGTGGACTCA
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * *
133362 AAAAGGAATGCCACTGAATCGTGGACTTT
1 AAAAGG-ATGCCACGGAGTTGTGGACTTT
133391 GAAGAGGTTA
Statistics
Matches: 457, Mismatches: 57, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.05
27 136 0.30
28 257 0.56
29 41 0.09
30 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
AAAAGGATGCCACGGAGTTGTGGACTTT
Found at i:137054 original size:18 final size:18
Alignment explanation
Indices: 137031--137088 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
137021 GGATGCAGAC
137031 ATAATTTCCATGAGCTTT
1 ATAATTTCCATGAGCTTT
* *
137049 ATAA-TT---TGGGCTTGC
1 ATAATTTCCATGAGCTT-T
137064 ATAATTTCCATGAGCTTT
1 ATAATTTCCATGAGCTTT
137082 ATAATTT
1 ATAATTT
137089 GGGCTTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 6 0.19
15 4 0.13
16 2 0.06
17 2 0.06
18 11 0.35
19 6 0.19
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (18 bp):
ATAATTTCCATGAGCTTT
Found at i:137068 original size:33 final size:33
Alignment explanation
Indices: 137030--137098 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
137020 CGGATGCAGA
137030 CATAATTTCCATGAGCTTTATAATTTGGGCTTG
1 CATAATTTCCATGAGCTTTATAATTTGGGCTTG
137063 CATAATTTCCATGAGCTTTATAATTTGGGCTTG
1 CATAATTTCCATGAGCTTTATAATTTGGGCTTG
137096 CAT
1 CAT
137099 CTCATCCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (33 bp):
CATAATTTCCATGAGCTTTATAATTTGGGCTTG
Found at i:139676 original size:97 final size:97
Alignment explanation
Indices: 139538--139777 Score: 367
Period size: 97 Copynumber: 2.5 Consensus size: 97
139528 TTGAAAAACA
* * * * *
139538 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGCGTCCCCGATGATGACAATTTAAGTGAGA
1 GGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGGAGTGTCCCCGATGATAACAATTTAAGTAAGA
*
139603 AT-AGAATTTAAATTTTGATGCGTTTAAAAGCG
66 ATAAG-ATTTAAATTTTGATACGTTTAAAAGCG
*
139635 GGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGAAGTGTCCCCGATGATAACAATTTAAGTAAGA
1 GGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGGAGTGTCCCCGATGATAACAATTTAAGTAAGA
*
139700 ATAAGATTTAAATTTTGATATGTTTAAAAGCG
66 ATAAGATTTAAATTTTGATACGTTTAAAAGCG
*
139732 AGGTTGGAGTATCCCCTC-AGAGGAATAGGGTTGGAGTGTCCCCGAT
1 GGGTTGGAGTATCCCCTCGA-AGGAATAGGGTTGGAGTGTCCCCGAT
139778 AAATAAAATT
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 1 0.01
97 128 0.98
98 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGGAGTGTCCCCGATGATAACAATTTAAGTAAGA
ATAAGATTTAAATTTTGATACGTTTAAAAGCG
Found at i:143868 original size:14 final size:14
Alignment explanation
Indices: 143845--143884 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
143835 TAATAAGTAG
143845 AAAT-AAAACAAAA
1 AAATCAAAACAAAA
143858 AAATCAAAACAAAA
1 AAATCAAAACAAAA
143872 AAATCAAAA-AAAA
1 AAATCAAAACAAAA
143885 TAAAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.07
Consensus pattern (14 bp):
AAATCAAAACAAAA
Found at i:143879 original size:9 final size:9
Alignment explanation
Indices: 143863--143920 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 9
143853 CAAAAAAATC
143863 AAAA-CAAA
1 AAAATCAAA
143871 AAAATCAAAA
1 AAAATC-AAA
143881 AAAAT-AAA
1 AAAATCAAA
143889 AAAATCAAA
1 AAAATCAAA
*
143898 GAAAT-AAA
1 AAAATCAAA
143906 AAAATTCCAAA
1 AAAA-T-CAAA
143917 AAAA
1 AAAA
143921 GTGAAAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 18 0.43
9 9 0.21
10 8 0.19
11 7 0.17
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAATCAAA
Found at i:143889 original size:18 final size:18
Alignment explanation
Indices: 143863--143920 Score: 73
Period size: 17 Copynumber: 3.2 Consensus size: 18
143853 CAAAAAAATC
*
143863 AAAACAAAAAAATCAAAA
1 AAAATAAAAAAATCAAAA
143881 AAAATAAAAAAATC-AAA
1 AAAATAAAAAAATCAAAA
*
143898 GAAATAAAAAAATTCCAAAA
1 AAAATAAAAAAA-T-CAAAA
143918 AAA
1 AAA
143921 GTGAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 14 0.41
18 14 0.41
19 1 0.03
20 5 0.15
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.10
Consensus pattern (18 bp):
AAAATAAAAAAATCAAAA
Found at i:144754 original size:64 final size:65
Alignment explanation
Indices: 144645--144772 Score: 168
Period size: 64 Copynumber: 2.0 Consensus size: 65
144635 CTAGCAGCTC
* *
144645 CAGCAGCTTCCAGCAGCAACATCATCCACCAACAGCAGCAGCAGCTTCCAGCCTCCGAACACCGG
1 CAGCAGCTTCCAGCAGCAACAGCATCCACCAACAGCAGCAACAGCTTCCAGCCTCCGAACACCGG
* * * * * * *
144710 CAGCAGC-TCTAGCAGCGACAGCATCCACCAATAGTAGTAACAGCTTTCAGCCTGCGAACACCG
1 CAGCAGCTTCCAGCAGCAACAGCATCCACCAACAGCAGCAACAGCTTCCAGCCTCCGAACACCG
144773 ATAGTAGCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
64 47 0.87
65 7 0.13
ACGTcount: A:0.30, C:0.38, G:0.20, T:0.13
Consensus pattern (65 bp):
CAGCAGCTTCCAGCAGCAACAGCATCCACCAACAGCAGCAACAGCTTCCAGCCTCCGAACACCGG
Found at i:148565 original size:52 final size:52
Alignment explanation
Indices: 148485--148613 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
148475 CGAAATATGA
* *
148485 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCACAGTGTATCGATACATCTGGGC
*
148537 AAATTTGCCTGTATGTATCGATACATTTCACAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCACAGTGTATCGATACATCTGGGC
*
148589 AAATTTGCCTGCGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
148614 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCACAGTGTATCGATACATCTGGGC
Found at i:148623 original size:52 final size:52
Alignment explanation
Indices: 148485--148630 Score: 190
Period size: 52 Copynumber: 2.8 Consensus size: 52
148475 CGAAATATGA
*
148485 AAATTTGCCTGCATGTATCGATA-AATTTCAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAA--ACATCAGTGTATCGATACATCTGGGC
* **
148537 AAATTTGCCTGTATGTATCGATACATTTCA-CAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-AACATCAGTGTATCGATACATCTGGGC
* *
148589 AAATTTGCCTGCGTGTATCGATACAAAGATCAGTGTATCGAT
1 AAATTTGCCTGCATGTATCGATACAAACATCAGTGTATCGAT
148631 GCATTTGAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
51 1 0.01
52 81 0.98
53 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAAACATCAGTGTATCGATACATCTGGGC
Found at i:148705 original size:19 final size:19
Alignment explanation
Indices: 148677--148740 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
148667 TAGCTTCATT
*
148677 TGTATAGATACAACACTTA
1 TGTATCGATACAACACTTA
148696 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
148709 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
148728 TGTATCGATACAA
1 TGTATCGATACAA
148741 ATCGTTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:148713 original size:32 final size:32
Alignment explanation
Indices: 148676--148739 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
148666 GTAGCTTCAT
148676 TTGTATAGATACAACACTTATGTATCGATACA
1 TTGTATAGATACAACACTTATGTATCGATACA
*
148708 TTGTATCGATACAACACTTATGTATCGATACA
1 TTGTATAGATACAACACTTATGTATCGATACA
148740 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
TTGTATAGATACAACACTTATGTATCGATACA
Found at i:148714 original size:13 final size:13
Alignment explanation
Indices: 148696--148720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148686 ACAACACTTA
148696 TGTATCGATACAT
1 TGTATCGATACAT
148709 TGTATCGATACA
1 TGTATCGATACA
148721 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:149704 original size:49 final size:49
Alignment explanation
Indices: 149556--150218 Score: 764
Period size: 43 Copynumber: 14.1 Consensus size: 49
149546 CTTAGGAATG
* * * *
149556 TTAAAGATGAAGGTGCCGATGTGTTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* * * *
149605 TTAAAAGATGACAAAGGCGCAAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* * *
149658 TTAAAGATGAAGGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
** * *
149707 TTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* *
149756 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
*
149799 TTAAAGATG-AGGTGCCAATATGCTGGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCT-GATTCAAGGCCAGCTATATTGGAC
* *
149848 TTAAAGGTG-AGGTGACAATGTGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
149896 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* *
149939 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* *
149982 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* *
150031 TT----A--AAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
*
150074 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* *
150117 TTAAAGATG-AGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
* *
150165 TTAAAGGTG-AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
150213 TTAAAG
1 TTAAAG
150219 GTGATGCCAC
Statistics
Matches: 547, Mismatches: 43, Indels: 49
0.86 0.07 0.08
Matches are distributed among these distances:
43 200 0.37
45 2 0.00
47 3 0.01
48 128 0.23
49 164 0.30
50 7 0.01
52 7 0.01
53 36 0.07
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC
Found at i:149828 original size:92 final size:91
Alignment explanation
Indices: 149565--150221 Score: 812
Period size: 92 Copynumber: 7.1 Consensus size: 91
149555 GTTAAAGATG
* * * * *
149565 AAGGTGCCGATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCGCAAATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATG----AGGTGCCAATA
*
149630 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
61 TGCTGATTCAAGGCCAGCTATATTGGACTT----A
* * **
149665 TGAAGGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATG
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TGAGGTGCCAATATG
*
149730 CTGATTCAAGGCCAGCGATATTGGACTTA
63 CTGATTCAAGGCCAGCTATATTGGACTTA
*
149759 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGGTGCCAATATGCTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCT-
149824 GATTCAAGGCCAGCTATATTGGACTTAA
65 GATTCAAGGCCAGCTATATTGGACTT-A
* * *
149852 AGGTGAGGTGACAATGTGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AGGTGCCAATGT
1 A----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATAT
149912 GCTGATTCAAGGCCAGCTATATTGGACTTA
62 GCTGATTCAAGGCCAGCTATATTGGACTTA
*
149942 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATATGCT
*
150007 GATTCAAGGCCAGCTATATTAGACTTA
65 GATTCAAGGCCAGCTATATTGGACTTA
* *
150034 AAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTT--A-A--AGGTGCCAATGTGCTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCTG
*
150094 ATTCAAGGCCAGCTACATTGGACTTAAA
66 ATTCAAGGCCAGCTATATTGGACTT--A
* * * *
150122 GATGAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGTGAGGTGCCAATATG
1 -A--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATG
150187 CTGATTCAAGGCCAGCTATATTGGACTTA
63 CTGATTCAAGGCCAGCTATATTGGACTTA
150216 AAGGTG
1 AAGGTG
150222 ATGCCACCAA
Statistics
Matches: 501, Mismatches: 31, Indels: 57
0.85 0.05 0.10
Matches are distributed among these distances:
86 76 0.15
88 2 0.00
89 3 0.01
90 3 0.01
91 83 0.17
92 164 0.33
93 4 0.01
94 3 0.01
95 1 0.00
96 39 0.08
97 38 0.08
98 39 0.08
101 5 0.01
102 41 0.08
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (91 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTTA
Found at i:149907 original size:24 final size:24
Alignment explanation
Indices: 149880--149950 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
149870 CTGATTCAAG
149880 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
149904 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
149923 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
149947 GCCA
1 GCCA
149951 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:149923 original size:21 final size:21
Alignment explanation
Indices: 149899--149966 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
149889 ATTGGACTTA
149899 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
149920 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
149942 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
149963 AAGG
1 AAGG
149967 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:149945 original size:22 final size:22
Alignment explanation
Indices: 149877--149945 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
149867 GTGCTGATTC
149877 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
149899 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
149920 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
149942 AAGG
1 AAGG
149946 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:150080 original size:22 final size:22
Alignment explanation
Indices: 150055--150122 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
150045 GTGTTGATTC
150055 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
150077 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
150098 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
150120 AAG
1 AAG
150123 ATGAGGTGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:150424 original size:35 final size:35
Alignment explanation
Indices: 150248--150522 Score: 343
Period size: 34 Copynumber: 8.1 Consensus size: 35
150238 TGGGTTTTTG
*
150248 AAAAGGAGAAAGA-TGCCACGGAGTTGTGGACTTA
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
* * * *
150282 AAAAGGAAAAA-AATGTCACAGAGTTATGGACTT-
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
* * *
150315 AGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT-
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
* *
150349 -AAATGAAAAAG-GTGCCACAGAGTTGTGGACTT-
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
*
150381 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
*
150416 AAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTA
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
*
150451 AAAAGGAAAAAG-GTTGTCACGGAGTTGTGGACTTA
1 AAAAGGAAAAAGAG-TGCCACGGAGTTGTGGACTTA
* *
150486 AAAAGGGAAAAG-GTGCCACGGAGTTGTGGGCTTA
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
150520 AAA
1 AAA
150523 GAAAAGGATG
Statistics
Matches: 209, Mismatches: 26, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
32 18 0.09
33 29 0.14
34 86 0.41
35 76 0.36
ACGTcount: A:0.39, C:0.11, G:0.31, T:0.19
Consensus pattern (35 bp):
AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
Found at i:150502 original size:69 final size:68
Alignment explanation
Indices: 150248--150536 Score: 356
Period size: 66 Copynumber: 4.3 Consensus size: 68
150238 TGGGTTTTTG
* * * *
150248 AAAAGGAGAAAGA-TGCCACGGAGTTGTGGACTTAAAAAGGAAAAAAATGTCACAGAGTTATGGA
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGGAAAAAAGTGCCACAGAGTTGTGGA
150312 CTT
66 CTT
* * * * *
150315 AGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT--AAATGAAAAAGGTGCCACAGAGTTGTGGA
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGGAAAAAAGTGCCACAGAGTTGTGGA
150378 CTT
66 CTT
* *
150381 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGGAAAAAAAGTGCCACGGAGTTGTGG
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGG-AAAAAAGTGCCACAGAGTTGTGG
150446 ACTT
65 ACTT
* * * *
150450 AAAAAGGAAAAAG-GTTGTCACGGAGTTGTGGACTTAAAAAGGGAAAAGGTGCCACGGAGTTGTG
1 -AAAAGGAAAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGGAAAAAAGTGCCACAGAGTTGTG
*
150514 GGCTT
64 GACTT
*
150519 AAAA-GAAAAGGA-TGCCAC
1 AAAAGGAAAAAGAGTGCCAC
150537 TATGTCGTGG
Statistics
Matches: 194, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
66 64 0.33
67 17 0.09
68 26 0.13
69 50 0.26
70 37 0.19
ACGTcount: A:0.39, C:0.11, G:0.31, T:0.18
Consensus pattern (68 bp):
AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGGAAAAAAGTGCCACAGAGTTGTGGA
CTT
Found at i:150601 original size:31 final size:30
Alignment explanation
Indices: 150523--150736 Score: 206
Period size: 31 Copynumber: 7.0 Consensus size: 30
150513 GGGCTTAAAA
150523 GAAAAG-GATGCCACT-ATGTCGTGGACTTT
1 GAAAAGAGATGCCACTGA-GTCGTGGACTTT
* *
150552 GAAGAAAAGGATGCCACTGAGTCGTGGACTAT
1 GAA-AAGA-GATGCCACTGAGTCGTGGACTTT
150584 GAAAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTCGTGGACTTT
* * *
150615 GGGACAA-A-ATGCCACTGAGTTGTGGGCTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
150645 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTCGTGGACTTT
* * *
150676 AGGACAA-A-ATGCCACTGAGTCATGGGCTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
150706 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTCGTGGACTTT
150737 AAGAAGGTAT
Statistics
Matches: 154, Mismatches: 16, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
28 8 0.05
29 5 0.03
30 44 0.29
31 63 0.41
32 25 0.16
33 9 0.06
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (30 bp):
GAAAAGAGATGCCACTGAGTCGTGGACTTT
Found at i:150714 original size:122 final size:124
Alignment explanation
Indices: 150499--150736 Score: 324
Period size: 122 Copynumber: 1.9 Consensus size: 124
150489 AGGGAAAAGG
150499 TGCCACGGAGTTGTGGGCTTAAAAGAAAAGGATGCCACTATGTCGTGGACTTTGAAGAAAAGGAT
1 TGCCACGGAGTTGTGGGCTTAAAAGAAAAGGATGCCACTATGTCGTGGACTTTGAAGAAAA-GAT
*
150564 GCCACTGAGTCGTGGACTATGAAAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
65 GCCACTGAGTCATGGACTATGAAAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
* ** * *
150624 TGCCACTGAGTTGTGGGCTT-TGAGAAGA-GATTGCCACTGA-GTCGTGGACTTT-AGGACAAA-
1 TGCCACGGAGTTGTGGGCTTAAAAGAAAAGGA-TGCCACT-ATGTCGTGGACTTTGAAGA-AAAG
* * *
150684 ATGCCACTGAGTCATGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTT
63 ATGCCACTGAGTCATGGACTATGAAAAGAGATTGCCACTGAGTCGTGGACTTT
150737 AAGAAGGTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
122 49 0.49
123 5 0.05
124 27 0.27
125 20 0.20
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (124 bp):
TGCCACGGAGTTGTGGGCTTAAAAGAAAAGGATGCCACTATGTCGTGGACTTTGAAGAAAAGATG
CCACTGAGTCATGGACTATGAAAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
Found at i:150737 original size:61 final size:61
Alignment explanation
Indices: 150531--150737 Score: 301
Period size: 61 Copynumber: 3.4 Consensus size: 61
150521 AAGAAAAGGA
* * * *
150531 TGCCACT-ATGTCGTGGACTTTGAAGA-AAAGGATGCCACTGAGTCGTGGACTATGAAAAGAGAT
1 TGCCACTGA-GTCGTGGACTTT-AGGACAAA--ATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
* *
150594 TGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTTGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
*
150655 TGCCACTGAGTCGTGGACTTTAGGACAAAATGCCACTGAGTCATGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
150716 TGCCACTGAGTCGTGGACTTTA
1 TGCCACTGAGTCGTGGACTTTA
150738 AGAAGGTATT
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
61 108 0.81
62 2 0.02
63 22 0.17
64 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
Found at i:154417 original size:78 final size:79
Alignment explanation
Indices: 154315--154538 Score: 272
Period size: 78 Copynumber: 2.8 Consensus size: 79
154305 AACAAAATTG
* *
154315 GGGTTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTT
*
154380 TGAAAATAAAACTA
66 TGAAAATAAAACCA
* * * ** * *
154394 -GGTTGGAGTATCTCCACGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTT
**
154458 CAAAAATAAAACCA
66 TGAAAATAAAACCA
* ** * *
154472 GGGTTGGAGCATCCCCTTAAAAATAACGGGGTTAGAGTATCCTCGATTATGGAAAATC-GATATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAG-TATT
154536 TTG
65 TTG
154539 CTTTTGAAAA
Statistics
Matches: 117, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
78 67 0.57
79 50 0.43
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTT
TGAAAATAAAACCA
Found at i:156288 original size:24 final size:27
Alignment explanation
Indices: 156237--156294 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 27
156227 GTTTTCCTCT
*
156237 TTGCTCGCTGTTCTTCCTTCGTCGATGC
1 TTGCT-GCTGTTCTTCCTTCGTCAATGC
156265 TTGCTGCTG-TCTT-CTT-GTCAATGC
1 TTGCTGCTGTTCTTCCTTCGTCAATGC
156289 -TGCTGC
1 TTGCTGC
156295 CGTTTCTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.21
24 7 0.24
25 3 0.10
26 4 0.14
27 4 0.14
28 5 0.17
ACGTcount: A:0.05, C:0.29, G:0.22, T:0.43
Consensus pattern (27 bp):
TTGCTGCTGTTCTTCCTTCGTCAATGC
Found at i:157001 original size:18 final size:16
Alignment explanation
Indices: 156958--157051 Score: 79
Period size: 17 Copynumber: 5.8 Consensus size: 16
156948 ATTATTTTGA
156958 TTTTTGATTTTTTGAAT
1 TTTTTGATTTTTT-AAT
156975 TTTTTGATTTCTTTAAT
1 TTTTTGATTT-TTTAAT
156992 TTTCTTGATTTTTTTAATT
1 TTT-TTGA-TTTTTTAA-T
* * *
157011 TTTTTAAATATTT--T
1 TTTTTGATTTTTTAAT
*
157025 TTATT-ATTTTTT-AT
1 TTTTTGATTTTTTAAT
157039 TTTTTGATTTTTT
1 TTTTTGATTTTTT
157052 TGTTTTGTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
13 5 0.08
14 10 0.16
15 7 0.11
17 20 0.31
18 15 0.23
19 7 0.11
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTGATTTTTTAAT
Found at i:157065 original size:8 final size:9
Alignment explanation
Indices: 156958--157057 Score: 82
Period size: 9 Copynumber: 11.2 Consensus size: 9
156948 ATTATTTTGA
156958 TTTTTGA-T
1 TTTTTGATT
*
156966 TTTTTGAAT
1 TTTTTGATT
156975 TTTTTGATT
1 TTTTTGATT
* *
156984 TCTTTAATT
1 TTTTTGATT
*
156993 TTCTTGATT
1 TTTTTGATT
*
157002 TTTTTAATT
1 TTTTTGATT
*
157011 TTTTTAAATAT
1 TTTTT-GAT-T
157022 TTTTT-ATT
1 TTTTTGATT
*
157030 ATTTTTTA-T
1 -TTTTTGATT
157039 TTTTTGATT
1 TTTTTGATT
157048 TTTTTG-TT
1 TTTTTGATT
157056 TT
1 TT
157058 GTTTTTTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
8 18 0.23
9 49 0.64
10 4 0.05
11 6 0.08
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (9 bp):
TTTTTGATT
Found at i:157077 original size:15 final size:15
Alignment explanation
Indices: 157059--157108 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
157049 TTTTGTTTTG
157059 TTTTTTTATTTCTAA
1 TTTTTTTATTTCTAA
*
157074 TTTTTTTATTACTATA
1 TTTTTTTATTTCTA-A
*
157090 TTATTATTATTT-TAA
1 TT-TTTTTATTTCTAA
157105 TTTT
1 TTTT
157109 ATATCGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.07
15 16 0.53
16 5 0.17
17 7 0.23
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTTATTTCTAA
Found at i:158561 original size:20 final size:20
Alignment explanation
Indices: 158536--158577 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
158526 TTCTATTCAT
158536 TTTGATTAGGTT-ATTTTAAA
1 TTTGATTA-GTTAATTTTAAA
158556 TTTGATTAGTTAATTTTAAA
1 TTTGATTAGTTAATTTTAAA
158576 TT
1 TT
158578 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (20 bp):
TTTGATTAGTTAATTTTAAA
Found at i:160650 original size:21 final size:21
Alignment explanation
Indices: 160617--160656 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
160607 ATTTAGAATT
160617 TTTTAAATATAAAATATTTTA
1 TTTTAAATATAAAATATTTTA
* * *
160638 TTTTGAATTTAAATTATTT
1 TTTTAAATATAAAATATTT
160657 AAATCATACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTAAATATAAAATATTTTA
Found at i:160961 original size:2 final size:2
Alignment explanation
Indices: 160954--160986 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
160944 TACAATAGTG
*
160954 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
160987 CTTGAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:161156 original size:14 final size:14
Alignment explanation
Indices: 161137--161173 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
161127 AATTATTAAA
161137 ATTTATATAAATAT
1 ATTTATATAAATAT
*
161151 ATTTATTTAAATAT
1 ATTTATATAAATAT
*
161165 AATTATATA
1 ATTTATATA
161174 TGAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTATATAAATAT
Found at i:161805 original size:15 final size:14
Alignment explanation
Indices: 161787--161828 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
161777 AATTTAGATG
*
161787 AAAATATTAAATTT
1 AAAAAATTAAATTT
161801 AAAAAA-TAAATTTTT
1 AAAAAATTAAA--TTT
161816 AAAAAATTAAATT
1 AAAAAATTAAATT
161829 ATGAAATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 9 0.38
16 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAAATTAAATTT
Found at i:161912 original size:12 final size:12
Alignment explanation
Indices: 161897--161941 Score: 53
Period size: 10 Copynumber: 4.1 Consensus size: 12
161887 TAGTATAGTA
*
161897 AAATTTATATTT
1 AAATTTAGATTT
161909 AAATTTAGATTT
1 AAATTTAGATTT
161921 -AATTT-GATTT
1 AAATTTAGATTT
161931 -AATTT-GATTT
1 AAATTTAGATTT
161941 A
1 A
161942 TTTATTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 15 0.48
11 5 0.16
12 11 0.35
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (12 bp):
AAATTTAGATTT
Found at i:161931 original size:10 final size:10
Alignment explanation
Indices: 161905--161949 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
161895 TAAAATTTAT
161905 ATTTAAATTTAG
1 ATTT-AATTT-G
161917 ATTTAATTTG
1 ATTTAATTTG
161927 ATTTAATTTG
1 ATTTAATTTG
161937 ATTT-ATTT-
1 ATTTAATTTG
161945 ATTTA
1 ATTTA
161950 TTTTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
10 15 0.47
11 5 0.16
12 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (10 bp):
ATTTAATTTG
Found at i:163686 original size:28 final size:30
Alignment explanation
Indices: 163621--163689 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 30
163611 ATGTGTTATA
*
163621 TATTTATATAAATTTTGATATGTTACTAAAT
1 TATTTATATAAATTTTGATACGTTA-TAAAT
*
163652 TATTTTATATAAATTTTGATACG-T-TAATT
1 TA-TTTATATAAATTTTGATACGTTATAAAT
163681 TATTTATAT
1 TATTTATAT
163690 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 7 0.20
29 6 0.17
31 3 0.09
32 19 0.54
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (30 bp):
TATTTATATAAATTTTGATACGTTATAAAT
Found at i:163694 original size:5 final size:5
Alignment explanation
Indices: 163680--163720 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
163670 ATACGTTAAT
*
163680 TTAT- TTATA TTATA TATATA TT-TT TTATA TTATA TTATA TT
1 TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TT
163721 TTATATCGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 7 0.22
5 20 0.62
6 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TTATA
Found at i:163720 original size:19 final size:19
Alignment explanation
Indices: 163678--163744 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 19
163668 TGATACGTTA
163678 ATTTATTTATATTATATATAT
1 ATTT-TTTATATTATAT-TAT
163699 ATTTTTTATATTATATTAT
1 ATTTTTTATATTATATTAT
** *
163718 A--TTTTATATCGTATTTT
1 ATTTTTTATATTATATTAT
163735 ATTTTTTATA
1 ATTTTTTATA
163745 ATGTCATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 14 0.34
19 11 0.27
20 12 0.29
21 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (19 bp):
ATTTTTTATATTATATTAT
Found at i:167530 original size:14 final size:15
Alignment explanation
Indices: 167483--167530 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
167473 TAGACTAGTC
167483 TAATCTAT-AGAAAT
1 TAATCTATCAGAAAT
* *
167497 TGAATCTATCATAAAA
1 T-AATCTATCAGAAAT
167513 TAAT-TATCAGAAAT
1 TAATCTATCAGAAAT
167527 TAAT
1 TAAT
167531 GAAATAGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.46
15 10 0.36
16 5 0.18
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (15 bp):
TAATCTATCAGAAAT
Found at i:168812 original size:46 final size:45
Alignment explanation
Indices: 168732--168837 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 45
168722 TATTATTTAA
* * *
168732 AAATAAAATAAAAATAACATAACTTAAATCTAAATATTTAT-GAAAT
1 AAATAATATAAAAATAACATAACTGAAA-CTAAAT-TATATCGAAAT
168778 AAATAATATAAAAATAACATAAACATGAAA-TAAATTATATCGAAAT
1 AAATAATATAAAAATAACAT-AAC-TGAAACTAAATTATATCGAAAT
* *
168824 ATAT-ATAAAAAAAT
1 AAATAATATAAAAAT
168838 TATATTCATT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
45 13 0.25
46 32 0.62
47 3 0.06
48 4 0.08
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (45 bp):
AAATAATATAAAAATAACATAACTGAAACTAAATTATATCGAAAT
Found at i:168824 original size:57 final size:56
Alignment explanation
Indices: 168729--168842 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 56
168719 ATATATTATT
* * * *
168729 TAAAAATAAAATAAAAATAACATAACTTAAATCTAAATATTTATGAAATAAATAATA
1 TAAAAATAAAATAAAAATAACATAAATTAAATCGAAATATATAT-AAAAAAATAATA
* * * *
168786 TAAAAATAACATAAACATGAA-ATAAATTATATCGAAATATATATAAAAAAATTATA
1 TAAAAATAAAATAAAAAT-AACATAAATTAAATCGAAATATATATAAAAAAATAATA
168842 T
1 T
168843 TCATTTTGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
56 11 0.23
57 35 0.73
58 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (56 bp):
TAAAAATAAAATAAAAATAACATAAATTAAATCGAAATATATATAAAAAAATAATA
Found at i:169407 original size:20 final size:21
Alignment explanation
Indices: 169371--169409 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
169361 ATTGCATTAA
169371 AATTTTAAATATGAAATAAGT
1 AATTTTAAATATGAAATAAGT
*
169392 AATTTT-AATATTAAATAA
1 AATTTTAAATATGAAATAA
169410 ATATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
AATTTTAAATATGAAATAAGT
Found at i:169862 original size:23 final size:23
Alignment explanation
Indices: 169836--169891 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
169826 TATATAAAAA
*
169836 TTAATATAATAAATACGATATAT
1 TTAATATAATAAATACAATATAT
* *
169859 TTAA-ATAAATTAATATAATATAT
1 TTAATAT-AATAAATACAATATAT
169882 TTAATA-AATA
1 TTAATATAATA
169892 TATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 5 0.19
23 21 0.78
24 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAATATAATAAATACAATATAT
Found at i:169891 original size:13 final size:14
Alignment explanation
Indices: 169794--169895 Score: 53
Period size: 13 Copynumber: 8.0 Consensus size: 14
169784 ATTTTAAACA
* * *
169794 TAATATAAAAAATA
1 TAATATAATATATT
169808 TAATATAA-ATATT
1 TAATATAATATATT
*
169821 TAATAT-ATATA-A
1 TAATATAATATATT
* *
169833 AAAT-TAATATAAT
1 TAATATAATATATT
* **
169846 AAATACGATATATT
1 TAATATAATATATT
169860 TAA-AT-A-A-A-T
1 TAATATAATATATT
169869 TAATATAATATATT
1 TAATATAATATATT
169883 TAATA-AATATATT
1 TAATATAATATATT
169896 ATTTTTATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 19
0.70 0.10 0.19
Matches are distributed among these distances:
9 4 0.06
10 3 0.04
11 3 0.04
12 11 0.16
13 26 0.38
14 22 0.32
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (14 bp):
TAATATAATATATT
Found at i:169915 original size:16 final size:16
Alignment explanation
Indices: 169896--169938 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
169886 TAAATATATT
169896 ATTTTTATATTTAAAA
1 ATTTTTATATTTAAAA
* * *
169912 ATTTTAAAATTTAATA
1 ATTTTTATATTTAAAA
169928 ATTATTTATAT
1 ATT-TTTATAT
169939 CATATTTATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTATATTTAAAA
Found at i:172560 original size:23 final size:23
Alignment explanation
Indices: 172534--172580 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
172524 AAAAATAATA
172534 TTTAATAAATT-TAATTTTTAAAT
1 TTTAAT-AATTATAATTTTTAAAT
* *
172557 TTTAATATTTATAATTTTTTAAT
1 TTTAATAATTATAATTTTTAAAT
172580 T
1 T
172581 AAAAAGTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTAATAATTATAATTTTTAAAT
Found at i:172575 original size:16 final size:15
Alignment explanation
Indices: 172529--172574 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
172519 TTTTAAAAAA
*
172529 TAATATTTAATAAATT
1 TAATATTT-ATAATTT
*
172545 TAATTTTTA-AATTT
1 TAATATTTATAATTT
172559 TAATATTTATAATTT
1 TAATATTTATAATTT
172574 T
1 T
172575 TTAATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:173636 original size:11 final size:11
Alignment explanation
Indices: 173620--173733 Score: 69
Period size: 11 Copynumber: 10.2 Consensus size: 11
173610 TATAATTACG
173620 TAATATAAATA
1 TAATATAAATA
173631 TAATATAAAAATA
1 TAATAT--AAATA
173644 TAAT-TAAAATA
1 TAATAT-AAATA
173655 TAATATAAAATA
1 TAATAT-AAATA
*
173667 TAATAT-GATA
1 TAATATAAATA
* *
173677 AAAAAT-AATA
1 TAATATAAATA
173687 TAA-ATACAATA
1 TAATATA-AATA
173698 TGAATATATGAATA
1 T-AATATA--AATA
*
173712 TATTA-AAAT-
1 TAATATAAATA
*
173721 TTATATAAATA
1 TAATATAAATA
173732 TA
1 TA
173734 TAATATTTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
9 5 0.06
10 19 0.23
11 22 0.27
12 17 0.20
13 15 0.18
14 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (11 bp):
TAATATAAATA
Found at i:173681 original size:17 final size:17
Alignment explanation
Indices: 173626--173683 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
173616 TACGTAATAT
173626 AAATATAATATAA-AAA
1 AAATATAATATAATAAA
* *
173642 TATAATTAAAATATAATATA
1 -A-AA-TATAATATAATAAA
*
173662 AAATATAATATGATAAA
1 AAATATAATATAATAAA
173679 AAATA
1 AAATA
173684 ATATAAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 17 0.52
18 4 0.12
19 10 0.30
20 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATATAATATAATAAA
Found at i:173686 original size:27 final size:26
Alignment explanation
Indices: 173648--173700 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
173638 AAAATATAAT
* *
173648 TAAAATATAATATAAAATATAATATGA
1 TAAAAAATAATAT-AAATACAATATGA
173675 TAAAAAATAATATAAATACAATATGA
1 TAAAAAATAATATAAATACAATATGA
173701 ATATATGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (26 bp):
TAAAAAATAATATAAATACAATATGA
Found at i:173743 original size:20 final size:20
Alignment explanation
Indices: 173702--173794 Score: 57
Period size: 20 Copynumber: 4.5 Consensus size: 20
173692 ACAATATGAA
*
173702 TATATGAATATATTAA-AATT
1 TATATAAATATA-TAATAATT
*
173722 TATATAAATATATAATATTT
1 TATATAAATATATAATAATT
*
173742 TAAATATAAT-TATAATAGATT
1 TATATA-AATATATAATA-ATT
* *
173763 AAAATATAAAAATATAAT-ATGT
1 --TATATAAATATATAATAAT-T
173785 ATATATAAAT
1 -TATATAAAT
173795 TATCGAATCT
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
19 3 0.05
20 26 0.46
21 15 0.26
22 3 0.05
23 10 0.18
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TATATAAATATATAATAATT
Found at i:173756 original size:67 final size:68
Alignment explanation
Indices: 173609--173780 Score: 176
Period size: 67 Copynumber: 2.5 Consensus size: 68
173599 TTTCCATATG
173609 ATATAATTACGTAATATAAATATAATATAAAAATATAATTAAAATATAATATAAAATATAATATG
1 ATATAATTA--TAATATAAATATAATATAAAAATATAATTAAAATATAATATAAAATATAATATG
173674 ATAAA
64 ATAAA
* ** *
173679 AAATAA-TATAA-ATACAATATGAATATATGAATAT-ATTAAAAT-TTATATAAATATATAATAT
1 ATATAATTATAATATA-AATAT-AATATAAAAATATAATTAAAATATAATATAAA-ATATAATAT
* *
173740 -TTTAA
63 GATAAA
* * *
173745 ATATAATTATAATA-GATTAAAATATAAAAATATAAT
1 ATATAATTATAATATAAATATAATATAAAAATATAAT
173781 ATGTATATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
65 11 0.13
66 24 0.29
67 30 0.36
68 12 0.14
69 2 0.02
70 5 0.06
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (68 bp):
ATATAATTATAATATAAATATAATATAAAAATATAATTAAAATATAATATAAAATATAATATGAT
AAA
Found at i:174604 original size:17 final size:16
Alignment explanation
Indices: 174579--174634 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 16
174569 AAATTTTTAC
174579 AATAT-AAATTATTTT
1 AATATAAAATTATTTT
* *
174594 AATATCAAAATTTATATA
1 AATAT-AAAA-TTATTTT
174612 AATATAAAA-TATTTT
1 AATATAAAATTATTTT
174627 AAATATAA
1 -AATATAA
174635 TATAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 9 0.27
16 7 0.21
17 7 0.21
18 10 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAAAATTATTTT
Found at i:174608 original size:18 final size:17
Alignment explanation
Indices: 174594--174634 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
174584 AAATTATTTT
174594 AATATCAAAATTTATATA
1 AATAT-AAAATTTATATA
174612 AATATAAAATATT-T-TA
1 AATATAAAAT-TTATATA
174628 AATATAA
1 AATATAA
174635 TATAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.41
17 6 0.27
18 7 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATAAAATTTATATA
Found at i:174662 original size:23 final size:24
Alignment explanation
Indices: 174607--174662 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
174597 ATCAAAATTT
*
174607 ATATAA-AT-ATAAAATATTTTAA
1 ATATAACATAATAAAATATTATAA
*
174629 ATATAATATAATAAAATA-TATAA
1 ATATAACATAATAAAATATTATAA
*
174652 ATATGACATAA
1 ATATAACATAA
174663 ATACATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.21
23 15 0.52
24 8 0.28
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
ATATAACATAATAAAATATTATAA
Found at i:174665 original size:24 final size:24
Alignment explanation
Indices: 174607--174655 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
174597 ATCAAAATTT
*
174607 ATATAA-AT-ATAAAATATTTTAA
1 ATATAATATAATAAAATATTATAA
174629 ATATAATATAATAAAATA-TATAA
1 ATATAATATAATAAAATATTATAA
174652 ATAT
1 ATAT
174656 GACATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 10 0.42
24 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAATATAATAAAATATTATAA
Found at i:175572 original size:13 final size:13
Alignment explanation
Indices: 175554--175588 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
175544 AATTAAATAG
175554 ATTTTTTATTAAT
1 ATTTTTTATTAAT
175567 ATTTTTTATTAAT
1 ATTTTTTATTAAT
175580 ATTCTTTTA
1 ATT-TTTTA
175589 AAAGTACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTATTAAT
Found at i:175895 original size:22 final size:24
Alignment explanation
Indices: 175865--175919 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
175855 TAAGTTAATA
175865 ATTAGTAAAATAAAT-TATAATTAT
1 ATTA-TAAAATAAATATATAATTAT
* *
175889 -TT-TTAAATATATATATAATTAT
1 ATTATAAAATAAATATATAATTAT
175911 ATTATAAAA
1 ATTATAAAA
175920 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 4 0.16
24 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTATAAAATAAATATATAATTAT
Found at i:176181 original size:21 final size:21
Alignment explanation
Indices: 176134--176208 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
176124 TTAGTAAAAT
*
176134 AAAAT-TATAATTATTGTTAT-
1 AAAATATATAATTA-TATTATA
*
176154 AACATATATAATTATATTATA
1 AAAATATATAATTATATTATA
* *
176175 AAAATATA-AATTTTATAATA
1 AAAATATATAATTATATTATA
*
176195 AAAAAATATTAATT
1 AAAATATA-TAATT
176209 TGAACCAGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 26 0.58
21 15 0.33
22 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
AAAATATATAATTATATTATA
Found at i:176199 original size:22 final size:22
Alignment explanation
Indices: 176165--176209 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
176155 ACATATATAA
* *
176165 TTATATTATAAAAATATAAATT
1 TTATAATAAAAAAATATAAATT
*
176187 TTATAATAAAAAAATATTAATT
1 TTATAATAAAAAAATATAAATT
176209 T
1 T
176210 GAACCAGGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATAATAAAAAAATATAAATT
Found at i:177775 original size:17 final size:18
Alignment explanation
Indices: 177743--177781 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
177733 TTATTTTATG
*
177743 TTTTTAAATTTTTAAATTA
1 TTTTTAAA-TTTTAAATCA
177762 TTTTTAAA-TTTAAATCA
1 TTTTTAAATTTTAAATCA
177779 TTT
1 TTT
177782 CAATTTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTAAATTTTAAATCA
Found at i:177992 original size:16 final size:16
Alignment explanation
Indices: 177970--178014 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
177960 AATCATTCAA
177970 ATTATTTTAAATTTA-
1 ATTATTTTAAATTTAG
* *
177985 AGTTATTTCAAATTTCG
1 A-TTATTTTAAATTTAG
178002 ATTATTTTAAATT
1 ATTATTTTAAATT
178015 CCTAATTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
ATTATTTTAAATTTAG
Found at i:178076 original size:16 final size:16
Alignment explanation
Indices: 178033--178078 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
178023 CAAGTTTATT
*
178033 TCATTTTAAACTCAAA
1 TCATTTTAAATTCAAA
* **
178049 TCATTTTGAATTTTAA
1 TCATTTTAAATTCAAA
178065 TCATTTTAAATTCA
1 TCATTTTAAATTCA
178079 GTTTGTTAAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (16 bp):
TCATTTTAAATTCAAA
Found at i:178311 original size:17 final size:17
Alignment explanation
Indices: 178261--178312 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
178251 AATTTGATAT
*
178261 TTTAAATGA-TATTTAAA
1 TTTAAATTATTATTT-AA
*
178278 TTTAAATT-TAATTTAA
1 TTTAAATTATTATTTAA
178294 TTTAAATTATTATTTAA
1 TTTAAATTATTATTTAA
178311 TT
1 TT
178313 AATAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAAATTATTATTTAA
Found at i:178321 original size:21 final size:22
Alignment explanation
Indices: 178283--178363 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 22
178273 TTAAATTTAA
**
178283 ATTTAATTTAATTTAAATTATT
1 ATTTAATTTAATAAAAATTATT
*
178305 ATTTAA-TTAATAAAAATTTTT
1 ATTTAATTTAATAAAAATTATT
178326 ATTTAAATTTAATTATAAAA-TATT
1 ATTT-AATTTAA-TA-AAAATTATT
178350 -TTATAATTATAATA
1 ATT-TAATT-TAATA
178364 TTTAAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 16 0.33
22 8 0.16
23 12 0.24
24 9 0.18
25 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTAATTTAATAAAAATTATT
Found at i:178322 original size:27 final size:28
Alignment explanation
Indices: 178292--178377 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 28
178282 AATTTAATTT
178292 AATTTAAATTAT-TATTTAATTAATAAA
1 AATTTAAATTATATATTTAATTAATAAA
** *
178319 AATTTTTATT-TAAATTTAATT-ATAAA
1 AATTTAAATTATATATTTAATTAATAAA
*
178345 ATATTTTATAATTATAATATTTAAATAATAAA
1 A-A-TTTA-AATTAT-ATATTTAATTAATAAA
178377 A
1 A
178378 TAAAATTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
26 7 0.16
27 17 0.38
28 3 0.07
29 3 0.07
30 1 0.02
31 8 0.18
32 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTTAAATTATATATTTAATTAATAAA
Found at i:178339 original size:17 final size:17
Alignment explanation
Indices: 178270--178337 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
178260 TTTTAAATGA
178270 TATTTAAATTTAAA-TTT
1 TATTT-AATTTAAATTTT
* *
178287 AATTTAATTTAAATTAT
1 TATTTAATTTAAATTTT
178304 TATTTAATTAATAAAAATTTT
1 TATTTAATT--T--AAATTTT
178325 TATTTAAATTTAA
1 TATTT-AATTTAA
178338 TTATAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 8 0.20
17 14 0.34
18 2 0.05
19 1 0.02
20 1 0.02
21 11 0.27
22 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAATTTAAATTTT
Found at i:178379 original size:16 final size:15
Alignment explanation
Indices: 178332--178379 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
178322 TTTTATTTAA
*
178332 ATTTAATTATAAAAT
1 ATTTAATAATAAAAT
* *
178347 ATTTTATAATTATAAT
1 ATTTAATAA-TAAAAT
178363 ATTTAAATAATAAAAT
1 ATTT-AATAATAAAAT
178379 A
1 A
178380 AAATTTAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 7 0.27
16 15 0.58
17 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAATAATAAAAT
Found at i:179031 original size:25 final size:24
Alignment explanation
Indices: 178984--179032 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
178974 TTTTATATTT
**
178984 AATTTTTTAATTAAATTTAAATAA
1 AATTTTTTAATTAAATAAAAATAA
*
179008 AATTTTTTTATTAAATAAATAATAA
1 AATTTTTTAATTAAATAAA-AATAA
179033 TATCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTTTTAATTAAATAAAAATAA
Found at i:179170 original size:8 final size:8
Alignment explanation
Indices: 179122--179221 Score: 51
Period size: 8 Copynumber: 11.8 Consensus size: 8
179112 ATTTAATATT
179122 ATATAAAA
1 ATATAAAA
*
179130 ATAATTAAA
1 AT-ATAAAA
179139 ATATATAAA
1 ATATA-AAA
* *
179148 TTATGATATA
1 ATAT-A-AAA
179158 ATATAAAA
1 ATATAAAA
*
179166 ATATAAAT
1 ATATAAAA
*
179174 ATATAAAT
1 ATATAAAA
179182 ATATTAAAA
1 ATA-TAAAA
*
179191 TTTATATATAA
1 ---ATATAAAA
*
179202 ATAT-ATA
1 ATATAAAA
179209 ATAT-AAA
1 ATATAAAA
179216 ATATAA
1 ATATAA
179222 TTATAATATG
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
7 11 0.15
8 29 0.40
9 18 0.25
10 7 0.10
11 4 0.06
12 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
ATATAAAA
Found at i:179219 original size:20 final size:21
Alignment explanation
Indices: 179137--179240 Score: 76
Period size: 22 Copynumber: 5.0 Consensus size: 21
179127 AAAATAATTA
**
179137 AAATATATAA-ATTATGATAT
1 AAATATATAATATTAAAATAT
*
179157 -AATATA-AAAATATAAATATAT
1 AAATATATAATAT-TAAA-ATAT
* * *
179178 AAATATATTAAAATTTATATAT
1 AAATATA-TAATATTAAAATAT
179200 AAATATATAATA-TAAAATAT
1 AAATATATAATATTAAAATAT
179220 -AAT-TATAATATGTAAAATAT
1 AAATATATAATAT-TAAAATAT
179240 A
1 A
179241 GGAACAACAC
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
18 9 0.13
19 11 0.16
20 16 0.24
21 8 0.12
22 17 0.25
23 2 0.03
24 5 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATATATAATATTAAAATAT
Found at i:179220 original size:22 final size:24
Alignment explanation
Indices: 179116--179220 Score: 78
Period size: 25 Copynumber: 4.2 Consensus size: 24
179106 ATATCTATTT
179116 AATATTATATAAA-A-ATAAT-TAA
1 AATA-TATATAAATATATAATATAA
179138 AATATATA-AATTATGATATAATATAA
1 AATATATATAA--AT-ATATAATATAA
*
179164 AA-ATATA-AATATATAAATATATTAA
1 AATATATATAA-ATATATA-ATA-TAA
179189 AATTTATATATAAATATATAATATAA
1 AA--TATATATAAATATATAATATAA
179215 AATATA
1 AATATA
179221 ATTATAATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
20 2 0.03
21 4 0.06
22 5 0.07
23 4 0.06
24 11 0.16
25 17 0.25
26 10 0.14
27 3 0.04
28 11 0.16
29 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (24 bp):
AATATATATAAATATATAATATAA
Found at i:180261 original size:23 final size:23
Alignment explanation
Indices: 180215--180267 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
180205 TATTTTCTAA
* * * *
180215 ATTAAATGAATTTGTTTATGAAC
1 ATTAAATGAATATATTCATAAAC
180238 ATTAAATGAATATATTCATAAAC
1 ATTAAATGAATATATTCATAAAC
*
180261 ATAAAAT
1 ATTAAAT
180268 CAAAACATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (23 bp):
ATTAAATGAATATATTCATAAAC
Found at i:180367 original size:12 final size:11
Alignment explanation
Indices: 180349--180378 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
180339 ATATAAAATA
180349 ATAATTATATT
1 ATAATTATATT
180360 ATTAATTATATT
1 A-TAATTATATT
180372 ATAATTA
1 ATAATTA
180379 AACAATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATTATATT
Found at i:181133 original size:14 final size:14
Alignment explanation
Indices: 181116--181159 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
181106 GATATATAAA
181116 TATTAATATAAAGT
1 TATTAATATAAAGT
** * *
181130 TATTTTTATTAATT
1 TATTAATATAAAGT
181144 TATTAATATAAAGT
1 TATTAATATAAAGT
181158 TA
1 TA
181160 ATATTAATAT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (14 bp):
TATTAATATAAAGT
Found at i:181598 original size:23 final size:23
Alignment explanation
Indices: 181559--181602 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
181549 GAGTTTTTAA
181559 TATTATAATTTAAATTTTAAATT
1 TATTATAATTTAAATTTTAAATT
*
181582 TATTAT-ATATTATATTTTAAA
1 TATTATAAT-TTAAATTTTAAA
181603 AATAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATAATTTAAATTTTAAATT
Found at i:183225 original size:22 final size:23
Alignment explanation
Indices: 183200--183270 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 23
183190 ACCTATTTAA
183200 TAATTAAAAAATTATTTAAT-TT
1 TAATTAAAAAATTATTTAATATT
*
183222 TAATTATAAAA-TATATTAATATT
1 TAATTAAAAAATTAT-TTAATATT
* *
183245 TATATAAAAATAATT-TTTATTATT
1 TA-ATTAAAA-AATTATTTAATATT
183269 TA
1 TA
183271 TAAACAGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 3 0.08
22 15 0.38
23 4 0.10
24 14 0.35
25 3 0.08
26 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTAAAAAATTATTTAATATT
Found at i:187525 original size:2 final size:2
Alignment explanation
Indices: 187520--187544 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
187510 TCCTTCTCTC
187520 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
187545 CCTATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:187740 original size:16 final size:16
Alignment explanation
Indices: 187721--187757 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
187711 AAAATCTACT
187721 ATTTTAAAAATTATTC
1 ATTTTAAAAATTATTC
* *
187737 ATTTAAAAAATTATTT
1 ATTTTAAAAATTATTC
187753 ATTTT
1 ATTTT
187758 TTTTACATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAAAAATTATTC
Found at i:188455 original size:22 final size:23
Alignment explanation
Indices: 188423--188471 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
188413 TAAATAACAT
*
188423 ATTTATATTTATAAAT-TATTTAA
1 ATTTATATTTA-AAATAAATTTAA
188446 ATTTA-ATTTAAAATAAATTTAA
1 ATTTATATTTAAAATAAATTTAA
188468 ATTT
1 ATTT
188472 GAGTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 15 0.62
23 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTATATTTAAAATAAATTTAA
Found at i:191457 original size:2 final size:2
Alignment explanation
Indices: 191450--191481 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
191440 TCTTTGTAAA
191450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
191482 TGTTCTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:191677 original size:24 final size:22
Alignment explanation
Indices: 191647--191694 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
191637 CATTTTAACA
191647 TAAATATA-AAAATATAAT-CTTT
1 TAAATATATAAAA-A-AATACTTT
191669 TAAATATATAAAAAAATACTTT
1 TAAATATATAAAAAAATACTTT
191691 TAAA
1 TAAA
191695 AAATTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 17 0.71
23 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATATAAAAAAATACTTT
Found at i:191702 original size:22 final size:23
Alignment explanation
Indices: 191633--191702 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 23
191623 ATTAATATTC
191633 AATACATTTTAACATAAATATAAAAA
1 AATAC-TTTTAA-A-AAATATAAAAA
* *
191659 TATAATCTTTT-AAATATATAAAAA
1 AAT-A-CTTTTAAAAAATATAAAAA
191683 AATACTTTTAAAAAAT-TAAA
1 AATACTTTTAAAAAATATAAA
191703 TATATTCACG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
22 9 0.24
23 6 0.16
24 12 0.32
25 1 0.03
26 3 0.08
27 5 0.14
28 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.36
Consensus pattern (23 bp):
AATACTTTTAAAAAATATAAAAA
Found at i:192714 original size:8 final size:9
Alignment explanation
Indices: 192700--192764 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 9
192690 AAAATGAGTT
192700 TAAAAAATA
1 TAAAAAATA
192709 -AAAAAATA
1 TAAAAAATA
*
192717 -ATATAAATA
1 TA-AAAAATA
192726 TGATAAAAATA
1 T-A-AAAAATA
192737 TATAAAAATA
1 TA-AAAAATA
192747 TAAAAAATTA
1 TAAAAAA-TA
*
192757 CAAAAAAT
1 TAAAAAAT
192765 TTATTATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
8 9 0.18
9 12 0.24
10 19 0.39
11 9 0.18
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (9 bp):
TAAAAAATA
Found at i:192719 original size:11 final size:11
Alignment explanation
Indices: 192705--192753 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
192695 GAGTTTAAAA
*
192705 AATAAAAAAAT
1 AATAAAAATAT
*
192716 AATATAAATAT
1 AATAAAAATAT
*
192727 GATAAAAATAT
1 AATAAAAATAT
192738 -ATAAAAATAT
1 AATAAAAATAT
192748 AA-AAAA
1 AATAAAA
192754 TTACAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 14 0.42
11 19 0.58
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAAAAATAT
Found at i:192739 original size:19 final size:19
Alignment explanation
Indices: 192702--192752 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
192692 AATGAGTTTA
*
192702 AAAAATAAAAAAATAATAT
1 AAAAATATAAAAATAATAT
*
192721 AAATATGATAAAAAT-ATAT
1 AAAAAT-ATAAAAATAATAT
192740 AAAAATATAAAAA
1 AAAAATATAAAAA
192753 ATTACAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
20 7 0.25
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATATAAAAATAATAT
Found at i:192753 original size:19 final size:18
Alignment explanation
Indices: 192702--192754 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 18
192692 AATGAGTTTA
192702 AAAAATA-AAAAAATAAT
1 AAAAATATAAAAAATAAT
*
192719 ATAAATATGATAAAAATATAT
1 AAAAATAT-A-AAAAATA-AT
192740 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
192755 TACAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.20
19 7 0.23
20 8 0.27
21 9 0.30
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAAATAAT
Found at i:192811 original size:19 final size:19
Alignment explanation
Indices: 192789--192825 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
192779 AATTTTATAT
* *
192789 AATAATTTAAATATAAAAA
1 AATAATATAAACATAAAAA
192808 AATAATATAAACATAAAA
1 AATAATATAAACATAAAA
192826 TACAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAATATAAACATAAAAA
Found at i:193119 original size:17 final size:15
Alignment explanation
Indices: 193097--193144 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
193087 CTTACAATTA
193097 TAAATTTTAATATAT
1 TAAATTTTAATATAT
*
193112 TAATAATTT-ATATTAT
1 TAA-ATTTTAATA-TAT
193128 ATAAATTTTAATATAT
1 -TAAATTTTAATATAT
193144 T
1 T
193145 TATATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.26
16 14 0.52
17 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATTTTAATATAT
Found at i:193132 original size:32 final size:33
Alignment explanation
Indices: 193095--193159 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
193085 TACTTACAAT
193095 TATAAATTTTAATATATTAATA-ATTTATATTA
1 TATAAATTTTAATATATTAATATATTTATATTA
*
193127 TATAAATTTTAATATATTTATATATTTATATTA
1 TATAAATTTTAATATATTAATATATTTATATTA
193160 ATTTTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TATAAATTTTAATATATTAATATATTTATATTA
Found at i:193142 original size:14 final size:14
Alignment explanation
Indices: 193095--193143 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
193085 TACTTACAAT
193095 TATAAATTTTAATA
1 TATAAATTTTAATA
*
193109 TATTAATAATTTATATTA
1 TA-T-A-AATTT-TAATA
193127 TATAAATTTTAATA
1 TATAAATTTTAATA
193141 TAT
1 TAT
193144 TTATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 2 0.07
17 6 0.21
18 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATAAATTTTAATA
Found at i:193154 original size:17 final size:17
Alignment explanation
Indices: 193102--193216 Score: 56
Period size: 16 Copynumber: 7.2 Consensus size: 17
193092 AATTATAAAT
*
193102 TTTAATATATTAATA-A
1 TTTAATATATTTATATA
* *
193118 TTT-ATAT-TATATAAA
1 TTTAATATATTTATATA
193133 TTTTAATATATTTATATA
1 -TTTAATATATTTATATA
193151 TTT-ATATTAATTT-TATA
1 TTTAATA-T-ATTTATATA
193168 -TT--TATA-TTATAT-
1 TTTAATATATTTATATA
*
193180 TTTAAT-TATTTTTTATA
1 TTTAATATA-TTTATATA
* *
193197 TTAAAT-TATTTATAAA
1 TTTAATATATTTATATA
193213 TTTA
1 TTTA
193217 TTAAATAATA
Statistics
Matches: 77, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
12 2 0.03
13 6 0.08
14 7 0.09
15 8 0.10
16 25 0.32
17 19 0.25
18 10 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAATATATTTATATA
Found at i:193204 original size:28 final size:30
Alignment explanation
Indices: 193107--193205 Score: 77
Period size: 28 Copynumber: 3.5 Consensus size: 30
193097 TAAATTTTAA
* *
193107 TATATTAATAATT-TATA-TTATATAAATTT
1 TATATTTA-AATTATATATTTATATTAATTT
* *
193136 TA-ATAT-ATTTATATATTTATATTAATTT
1 TATATTTAAATTATATATTTATATTAATTT
*
193164 TATATTTATATTATAT-TTTA-ATT-ATTT
1 TATATTTAAATTATATATTTATATTAATTT
*
193191 TTTATATTAAATTAT
1 TATAT-TTAAATTAT
193206 TTATAAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
26 3 0.05
27 12 0.21
28 26 0.46
29 9 0.16
30 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TATATTTAAATTATATATTTATATTAATTT
Found at i:195489 original size:20 final size:21
Alignment explanation
Indices: 195445--195489 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
195435 TATGAGTTAT
195445 TAATATATTAAAATTTATGTA
1 TAATATATTAAAATTTATGTA
195466 -AATATA-TAAAA-TTATGATA
1 TAATATATTAAAATTTATG-TA
195485 TAATA
1 TAATA
195490 AAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATATATTAAAATTTATGTA
Found at i:195881 original size:15 final size:14
Alignment explanation
Indices: 195839--195888 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
195829 TAAAATTTAA
195839 AATTTAATTTAAT-T
1 AATTT-ATTTAATAT
*
195853 AATTTATATAAATAT
1 AATTTAT-TTAATAT
195868 AATTATATTTAATAT
1 AATT-TATTTAATAT
195883 AATTTA
1 AATTTA
195889 ATAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 2 0.06
14 11 0.35
15 15 0.48
16 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTTATTTAATAT
Found at i:195887 original size:10 final size:10
Alignment explanation
Indices: 195843--195891 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
195833 ATTTAAAATT
195843 TAATTTAAT-
1 TAATTTAATA
195852 TAATTT-ATA
1 TAATTTAATA
*
195861 TAAATATAAT-
1 T-AATTTAATA
195871 TATATTTAATA
1 TA-ATTTAATA
195882 TAATTTAATA
1 TAATTTAATA
195892 ATTTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
8 2 0.06
9 8 0.24
10 19 0.58
11 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TAATTTAATA
Found at i:195900 original size:29 final size:29
Alignment explanation
Indices: 195832--195901 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
195822 TTTAAAATAA
195832 AATTTAAAATTTAATTTAATTAATTTATAT
1 AATTT-AAATTTAATTTAATTAATTTATAT
*
195862 AA-ATATAA-TTATATTTAATATAATTTA-AT
1 AATTTA-AATTTA-ATTTAAT-TAATTTATAT
195891 AATTTAAATTT
1 AATTTAAATTT
195902 TAAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
28 4 0.12
29 16 0.48
30 13 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
AATTTAAATTTAATTTAATTAATTTATAT
Found at i:196150 original size:19 final size:19
Alignment explanation
Indices: 196111--196150 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
196101 AATTAATATT
*
196111 TATATTTTATATATTTAAA
1 TATATTTTATATATTGAAA
196130 TATATTTTATAT-TTGACAA
1 TATATTTTATATATTGA-AA
196149 TA
1 TA
196151 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATTTTATATATTGAAA
Found at i:196593 original size:22 final size:22
Alignment explanation
Indices: 196553--196594 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
196543 TAAAATTTAT
*
196553 ATAATATAAATTACTAACATAC
1 ATAATATAAATTACAAACATAC
196575 ATAATA-AAATATACAAACAT
1 ATAATATAAAT-TACAAACAT
196595 TATATAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAATATAAATTACAAACATAC
Found at i:196891 original size:29 final size:29
Alignment explanation
Indices: 196854--196909 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
196844 TAACTCAATA
* **
196854 TTAAATTTTATTACTTTATTTTTATTTGC
1 TTAAATTTTATCACTAAATTTTTATTTGC
*
196883 TTAAATTTTGTCACTAAATTTTTATTT
1 TTAAATTTTATCACTAAATTTTTATTT
196910 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (29 bp):
TTAAATTTTATCACTAAATTTTTATTTGC
Found at i:197287 original size:18 final size:19
Alignment explanation
Indices: 197264--197300 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
197254 GTCAAGTGGC
*
197264 AAAGTTCAATAA-AAAATT
1 AAAGTTAAATAACAAAATT
197282 AAAGTTAAATAACAAAATT
1 AAAGTTAAATAACAAAATT
197301 TAATAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAGTTAAATAACAAAATT
Found at i:198522 original size:2 final size:2
Alignment explanation
Indices: 198515--198540 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
198505 TAGTTTAAAT
198515 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
198541 ACCAAAAAAA
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):
TA
Found at i:199290 original size:21 final size:20
Alignment explanation
Indices: 199231--199281 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
199221 GATTTATAAA
*
199231 TAAAA-TATTATAAAA-TAT
1 TAAAATTATTTTAAAATTAT
*
199249 CATAAATTATTTTAAAATTAT
1 TA-AAATTATTTTAAAATTAT
199270 TAAAATTATTTT
1 TAAAATTATTTT
199282 TATAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 19 0.70
21 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAATTATTTTAAAATTAT
Done.