Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 85 of 208
Found at i:24987462 original size:50 final size:50
Alignment explanation
Indices: 24987387--24987628 Score: 249
Period size: 50 Copynumber: 4.9 Consensus size: 50
24987377 CATTTGGGTA
* * *
24987387 AAGAGGTCTCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
24987437 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
24987487 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
24987537 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGA-GAT
* * *
24987588 AACA--TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24987629 TGTTATTATT
Statistics
Matches: 163, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
49 33 0.20
50 125 0.77
51 3 0.02
52 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:24992390 original size:18 final size:18
Alignment explanation
Indices: 24992369--24992416 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
24992359 TCCATCAATT
*
24992369 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
24992387 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
24992405 TGAACATCATTT
1 TGAACATCATTT
24992417 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:24995943 original size:16 final size:15
Alignment explanation
Indices: 24995918--24995951 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
24995908 ATGATTTCAG
24995918 TTTTAGAGATGTGAT
1 TTTTAGAGATGTGAT
24995933 TTTTCAGAGATGTGAT
1 TTTT-AGAGATGTGAT
24995949 TTT
1 TTT
24995952 GAATAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTTAGAGATGTGAT
Found at i:24997339 original size:34 final size:35
Alignment explanation
Indices: 24997295--24997361 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24997285 CAGTAAAATA
* *
24997295 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
24997329 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
24997362 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:24997347 original size:20 final size:20
Alignment explanation
Indices: 24997310--24997349 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24997300 CGTAAAATGA
**
24997310 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
24997330 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
24997350 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:24998449 original size:19 final size:18
Alignment explanation
Indices: 24998410--24998451 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
24998400 ATGGCAAAGT
* *
24998410 TGAGAAATGATTATGAGA
1 TGAGAAATGAATATGAAA
24998428 TGAGAAATGAAATATGAAA
1 TGAGAAATG-AATATGAAA
24998447 TGAGA
1 TGAGA
24998452 TGAGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (18 bp):
TGAGAAATGAATATGAAA
Found at i:25005418 original size:21 final size:21
Alignment explanation
Indices: 25005392--25005437 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
25005382 GTAATTAAAG
25005392 TGTTTCCTGATACGACTCCAA
1 TGTTTCCTGATACGACTCCAA
25005413 TGTTTCCTGATACGACTCCAA
1 TGTTTCCTGATACGACTCCAA
25005434 TGTT
1 TGTT
25005438 AATGTCTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTTTCCTGATACGACTCCAA
Found at i:25009455 original size:14 final size:15
Alignment explanation
Indices: 25009438--25009466 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25009428 GAGATGAGAG
25009438 ATGAAAT-ATGAAAT
1 ATGAAATAATGAAAT
25009452 ATGAAATAATGAAAT
1 ATGAAATAATGAAAT
25009467 GAGATGTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
ATGAAATAATGAAAT
Found at i:25011842 original size:24 final size:24
Alignment explanation
Indices: 25011786--25011843 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
25011776 TCGTATATAG
25011786 CATAAGTTCGCATAGAAGAATACAA
1 CATAAGTTCGCATA-AAGAATACAA
* *
25011811 CATGAGTTCGCAT-AAGACATACAG
1 CATAAGTTCGCATAAAGA-ATACAA
*
25011835 TATAAGTTC
1 CATAAGTTC
25011844 ACACAAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 12 0.43
25 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (24 bp):
CATAAGTTCGCATAAAGAATACAA
Found at i:25018296 original size:23 final size:23
Alignment explanation
Indices: 25018270--25018411 Score: 176
Period size: 23 Copynumber: 6.2 Consensus size: 23
25018260 AGTGTTATTG
25018270 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
25018293 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * **
25018316 TTCAGTGGTACCTACAACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
**
25018339 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
25018362 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
25018385 ATCAGTGGCAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
25018408 ATCA
1 ATCA
25018412 ATGTGGCACT
Statistics
Matches: 98, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:25018338 original size:46 final size:46
Alignment explanation
Indices: 25018271--25018407 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
25018261 GTGTTATTGA
25018271 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
* ** *
25018317 TCAGTGGTACCTACAACTACATATCAGTGGTAGCTTTGGCTACATT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
* * *
25018363 TCAGTGGTAGCTACGGCTACGTATCAGTGGCAGCTTCAGCTACAT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
25018408 ATCAATGTGG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (46 bp):
TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
Found at i:25018381 original size:69 final size:69
Alignment explanation
Indices: 25018270--25018411 Score: 194
Period size: 69 Copynumber: 2.1 Consensus size: 69
25018260 AGTGTTATTG
* * *
25018270 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTCAGTGGTACCTACAACT
1 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTACGGCTACATATCAGTGGCACCTACAACT
25018335 ACAT
66 ACAT
** * * * * *
25018339 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACGTATCAGTGGCAGCTTCAGCT
1 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTACGGCTACATATCAGTGGCACCTACAACT
25018404 ACAT
66 ACAT
25018408 ATCA
1 ATCA
25018412 ATGTGGCACT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (69 bp):
ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTACGGCTACATATCAGTGGCACCTACAACT
ACAT
Found at i:25024593 original size:35 final size:35
Alignment explanation
Indices: 25024550--25024621 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
25024540 ATAACATCCC
*
25024550 CAGTTTATCTGACCAGTGTAGGGCACAACTATTGT
1 CAGTTTATCCGACCAGTGTAGGGCACAACTATTGT
*
25024585 CAGTTTATCCGACCAGTGTAGGGCACAATTATTGT
1 CAGTTTATCCGACCAGTGTAGGGCACAACTATTGT
25024620 CA
1 CA
25024622 ATATATTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (35 bp):
CAGTTTATCCGACCAGTGTAGGGCACAACTATTGT
Found at i:25026270 original size:20 final size:20
Alignment explanation
Indices: 25026245--25026286 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
25026235 TGTAGTGGCT
25026245 TTGGGTGATAGTTCATTTTG
1 TTGGGTGATAGTTCATTTTG
25026265 TTGGGTGATAGTTCATTTTG
1 TTGGGTGATAGTTCATTTTG
25026285 TT
1 TT
25026287 CAGTAACTCT
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:0.14, C:0.05, G:0.29, T:0.52
Consensus pattern (20 bp):
TTGGGTGATAGTTCATTTTG
Found at i:25030833 original size:2 final size:2
Alignment explanation
Indices: 25030828--25030868 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
25030818 CATTCTTACA
*
25030828 TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25030869 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:25035421 original size:37 final size:36
Alignment explanation
Indices: 25035364--25035477 Score: 147
Period size: 37 Copynumber: 3.1 Consensus size: 36
25035354 TCCAACTAAG
*
25035364 ACATGTCAATCGCTCGTAAGAGCTAATCCACCCGATA
1 ACATGTCAAT-GCTCATAAGAGCTAATCCACCCGATA
* *
25035401 ACATGTCATATGCTCATAAGAGCTAATCTACCTGATA
1 ACATGTCA-ATGCTCATAAGAGCTAATCCACCCGATA
* * *
25035438 ATATGCCAGATGCTCACAAGAGCTAATCCACCCGATA
1 ACATGTCA-ATGCTCATAAGAGCTAATCCACCCGATA
25035475 ACA
1 ACA
25035478 CGCCACAACA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
37 64 0.97
38 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (36 bp):
ACATGTCAATGCTCATAAGAGCTAATCCACCCGATA
Found at i:25036767 original size:25 final size:26
Alignment explanation
Indices: 25036739--25036792 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
25036729 TCCAGTAAAT
*
25036739 TTTTTATGATTTTA-CCTTGGCAAAA
1 TTTTGATGATTTTACCCTTGGCAAAA
*
25036764 TTTTGATGATTTTACCCTTGGTAAAA
1 TTTTGATGATTTTACCCTTGGCAAAA
25036790 TTT
1 TTT
25036793 CGAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (26 bp):
TTTTGATGATTTTACCCTTGGCAAAA
Found at i:25038382 original size:8 final size:8
Alignment explanation
Indices: 25038369--25038397 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25038359 TGATTATGTT
25038369 ATTTTGTA
1 ATTTTGTA
25038377 ATTTTGTA
1 ATTTTGTA
25038385 ATTTTGTA
1 ATTTTGTA
25038393 ATTTT
1 ATTTT
25038398 TTGTATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (8 bp):
ATTTTGTA
Found at i:25045406 original size:45 final size:45
Alignment explanation
Indices: 25045336--25045421 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
25045326 AAACCTTATT
* * *
25045336 CTATTAACCCTCTAGTAGGGTATTTATCCTAAAAGTCTTACGGTC
1 CTATTAACCCTCTAGTAGGGCATTTATACTAAAACTCTTACGGTC
* *
25045381 CTATTAACCTTCTAGT-GGAGCATTTATACTAGAACTCTTAC
1 CTATTAACCCTCTAGTAGG-GCATTTATACTAAAACTCTTAC
25045422 TATTAACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 33 0.94
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (45 bp):
CTATTAACCCTCTAGTAGGGCATTTATACTAAAACTCTTACGGTC
Found at i:25046291 original size:15 final size:15
Alignment explanation
Indices: 25046273--25046303 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25046263 AAAATATTAA
25046273 ATTATAAAAATTTTC
1 ATTATAAAAATTTTC
*
25046288 ATTATGAAAATTTTC
1 ATTATAAAAATTTTC
25046303 A
1 A
25046304 ATGGGTTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTATAAAAATTTTC
Found at i:25051701 original size:34 final size:35
Alignment explanation
Indices: 25051657--25051723 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25051647 CAGTAAAATG
* *
25051657 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
25051691 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
25051724 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:25051727 original size:14 final size:15
Alignment explanation
Indices: 25051651--25051727 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25051641 GATTGCCAGT
* *
25051651 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
25051665 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
25051679 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
25051699 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
25051714 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
25051728 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:25053085 original size:35 final size:36
Alignment explanation
Indices: 25053039--25053107 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
25053029 TGTCAATCAT
25053039 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
*
25053074 TTCAATATCCAACAAGGTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
25053108 TCTAACAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:25053105 original size:27 final size:28
Alignment explanation
Indices: 25053075--25053144 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
25053065 AATAATAAAT
*
25053075 TCAATATCCAACAAGGTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
25053102 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
25053130 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
25053145 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:25056868 original size:14 final size:14
Alignment explanation
Indices: 25056851--25056880 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25056841 AGGTGAACTA
25056851 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
25056865 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
25056879 GC
1 GC
25056881 TGCAATCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:25056930 original size:33 final size:33
Alignment explanation
Indices: 25056893--25056958 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
25056883 CAATCGTTAG
*
25056893 GGTGAAGAGAGTGAAAAGAGGAGCTGTGGAAAA
1 GGTGAAAAGAGTGAAAAGAGGAGCTGTGGAAAA
* *
25056926 GGTGAAAAGAGTGAAGAGATGAGCTGTGGAAAA
1 GGTGAAAAGAGTGAAAAGAGGAGCTGTGGAAAA
25056959 TGTCTTACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.03, G:0.41, T:0.14
Consensus pattern (33 bp):
GGTGAAAAGAGTGAAAAGAGGAGCTGTGGAAAA
Found at i:25058086 original size:13 final size:13
Alignment explanation
Indices: 25058070--25058135 Score: 105
Period size: 13 Copynumber: 5.1 Consensus size: 13
25058060 TTTAAACCAA
25058070 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
25058083 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
25058096 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
25058109 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25058122 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25058135 A
1 A
25058136 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25058304 original size:17 final size:18
Alignment explanation
Indices: 25058280--25058317 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25058270 ACCCTTGGAG
*
25058280 TAAAAAAATTATTTCAAA
1 TAAAAAATTTATTTCAAA
25058298 TAAAAAATTTATTTCAAA
1 TAAAAAATTTATTTCAAA
25058316 TA
1 TA
25058318 CATTCTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAAAATTTATTTCAAA
Found at i:25061795 original size:25 final size:25
Alignment explanation
Indices: 25061766--25061815 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25061756 AAAATGAGTG
25061766 TTTCATACATATAATCTCATAGTTC
1 TTTCATACATATAATCTCATAGTTC
25061791 TTTCATACATATAATCTCATAGTTC
1 TTTCATACATATAATCTCATAGTTC
25061816 ACATATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (25 bp):
TTTCATACATATAATCTCATAGTTC
Found at i:25062077 original size:46 final size:45
Alignment explanation
Indices: 25061981--25062226 Score: 244
Period size: 46 Copynumber: 5.3 Consensus size: 45
25061971 TTACCCATTT
* * *
25061981 GGGTTAAACCTACAC-AAACAATGAATCATAGTGCCTGGTTACCCGTTA
1 GGGTTGAACCTACACGAATCAAT-AAT-A-A-TGCCTGGTCACCCGTTA
* * * * *
25062029 GGGTTAAACCTACATGAATCGAATGACAATGCCTGGTCACCCATTA
1 GGGTTGAACCTACACGAATC-AATAATAATGCCTGGTCACCCGTTA
* * * ** *
25062075 GGGTTGAACTTATACGAATCAGATAATACTGAATGGTCATCCGTTA
1 GGGTTGAACCTACACGAATCA-ATAATAATGCCTGGTCACCCGTTA
* *
25062121 GGGTTGAACCTACACGAATCAGATAATAATGCCTAGTCACTCGTTA
1 GGGTTGAACCTACACGAATCA-ATAATAATGCCTGGTCACCCGTTA
*
25062167 GGGTTGAACCTACACGAAT-AGGATAATAGTGCCTGGTCACCCGTTA
1 GGGTTGAACCTACACGAATCA--ATAATAATGCCTGGTCACCCGTTA
25062213 GGGTTGAACCTACA
1 GGGTTGAACCTACA
25062227 TAACAAATAG
Statistics
Matches: 166, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.01
46 141 0.85
47 1 0.01
48 15 0.09
49 4 0.02
50 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
GGGTTGAACCTACACGAATCAATAATAATGCCTGGTCACCCGTTA
Found at i:25065554 original size:19 final size:18
Alignment explanation
Indices: 25065521--25065556 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
25065511 AGTCAAAATA
25065521 CAAAAATGATATCGATAT
1 CAAAAATGATATCGATAT
*
25065539 CAAAAGATGGTATCGATA
1 CAAAA-ATGATATCGATA
25065557 GAAATACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (18 bp):
CAAAAATGATATCGATAT
Found at i:25070983 original size:16 final size:15
Alignment explanation
Indices: 25070945--25070975 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25070935 TAATAAAATG
25070945 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
25070960 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
25070975 G
1 G
25070976 GTTGAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:25075250 original size:17 final size:17
Alignment explanation
Indices: 25075221--25075253 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25075211 TATAAAATTT
25075221 ATTAAGATAAATATTAG
1 ATTAAGATAAATATTAG
25075238 ATTAA-ATATAATATTA
1 ATTAAGATA-AATATTA
25075254 AATCTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTAAGATAAATATTAG
Found at i:25076952 original size:14 final size:14
Alignment explanation
Indices: 25076919--25076945 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25076909 CTATGCATGC
25076919 AAAATATAAAAGAA
1 AAAATATAAAAGAA
25076933 AAAATATAAAAGA
1 AAAATATAAAAGA
25076946 CATAATAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAATATAAAAGAA
Found at i:25077877 original size:10 final size:11
Alignment explanation
Indices: 25077845--25077883 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25077835 AAACACAGTT
25077845 TTCAAGCAAAAA
1 TTCAA-CAAAAA
**
25077857 TTTGACAAAAA
1 TTCAACAAAAA
25077868 TTCAACAAAAA
1 TTCAACAAAAA
25077879 TTCAA
1 TTCAA
25077884 AATGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 20 0.87
12 3 0.13
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (11 bp):
TTCAACAAAAA
Found at i:25079091 original size:38 final size:37
Alignment explanation
Indices: 25079017--25079091 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
25079007 AACTTTCAAT
* * *
25079017 ACACCTGCACAAGCTTGCTAGGCACAAAGCCTGAATA
1 ACACCGGCACAAGCCTGCTAGGCACAAAGCCCGAATA
* *
25079054 ACACCGGCACAGAGCCTGCTAGGCGCATAGCCCGAATA
1 ACACCGGCACA-AGCCTGCTAGGCACAAAGCCCGAATA
25079092 GCATCATGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (37 bp):
ACACCGGCACAAGCCTGCTAGGCACAAAGCCCGAATA
Found at i:25086220 original size:22 final size:22
Alignment explanation
Indices: 25086166--25086220 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
25086156 AAGGCTGGTA
*
25086166 GGCACAAAGCCTGAATAACACC
1 GGCACAAAGCCCGAATAACACC
* * *
25086188 GACATAGAGCCCGAATAACACC
1 GGCACAAAGCCCGAATAACACC
25086210 GGCACAAAGCC
1 GGCACAAAGCC
25086221 TGCTAGGCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.20, T:0.07
Consensus pattern (22 bp):
GGCACAAAGCCCGAATAACACC
Found at i:25091620 original size:38 final size:38
Alignment explanation
Indices: 25091565--25091791 Score: 292
Period size: 38 Copynumber: 6.0 Consensus size: 38
25091555 AACGTAATGT
* *
25091565 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCTGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * **
25091603 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCAATGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
25091641 TATTCGGGCTCTGTTCATAGCAGACTTTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
*
25091679 TATTCGGGTTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
25091717 TATTCGGGCTCTTTGCCTAGTAGGCTTTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * * *
25091755 TATTCGAGTTCTGTGCCTAGTAGGCTTTATGCTGGTG
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTG
25091792 TGTTATATCA
Statistics
Matches: 162, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 162 1.00
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (38 bp):
TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:25091875 original size:19 final size:19
Alignment explanation
Indices: 25091831--25091875 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
25091821 TTTGTGCCAA
*
25091831 TGTATTCTATCAGGTAAGT
1 TGTATTGTATCAGGTAAGT
25091850 TGTATTGTATCAGGTAAGT
1 TGTATTGTATCAGGTAAGT
25091869 TGTATTG
1 TGTATTG
25091876 AAAATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (19 bp):
TGTATTGTATCAGGTAAGT
Found at i:25095163 original size:9 final size:9
Alignment explanation
Indices: 25095149--25095186 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
25095139 AGACATTGAC
25095149 ATTTTTAAA
1 ATTTTTAAA
25095158 ATTTTTAAA
1 ATTTTTAAA
*
25095167 TTTTTTAAA
1 ATTTTTAAA
25095176 ATTTTTAAA
1 ATTTTTAAA
25095185 AT
1 AT
25095187 CATGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:25098507 original size:2 final size:2
Alignment explanation
Indices: 25098500--25098532 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25098490 AAACAAAATG
25098500 AT AT AT AT 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 AT AT AT AT A
25098533 AATGTGAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25103554 original size:25 final size:25
Alignment explanation
Indices: 25103520--25103570 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
25103510 AAAGAAACAT
*
25103520 ACTTTCTCCTAGCCACCTTCTTTCC
1 ACTTTCTCCTAGCCACATTCTTTCC
25103545 ACTTTCTCCTAGCCACATTCTTTCC
1 ACTTTCTCCTAGCCACATTCTTTCC
25103570 A
1 A
25103571 AAGTAGGCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.41, G:0.04, T:0.39
Consensus pattern (25 bp):
ACTTTCTCCTAGCCACATTCTTTCC
Found at i:25104573 original size:30 final size:26
Alignment explanation
Indices: 25104538--25104669 Score: 69
Period size: 24 Copynumber: 5.1 Consensus size: 26
25104528 CTGGATCATG
25104538 ACCATCATCTTCTTCATCTTCATCTTCACC
1 ACCATCATCTTC-TCATCTTCATC--C-CC
* * *
25104568 TCCATCCATGTACTCATCTTCATCCCC
1 ACCAT-CATCTTCTCATCTTCATCCCC
* *
25104595 ACCATCATC-T-TCATCTTGATCTCC
1 ACCATCATCTTCTCATCTTCATCCCC
* * * *
25104619 ACCGTCGTC-T-TCATCTTGATCTCC
1 ACCATCATCTTCTCATCTTCATCCCC
* * *
25104643 ACTATCGTC-TC-CATCTTCATCTCC
1 ACCATCATCTTCTCATCTTCATCCCC
25104667 ACC
1 ACC
25104670 CTCAATTTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
24 56 0.65
26 3 0.03
27 6 0.07
28 1 0.01
30 15 0.17
31 5 0.06
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (26 bp):
ACCATCATCTTCTCATCTTCATCCCC
Found at i:25104608 original size:24 final size:24
Alignment explanation
Indices: 25104554--25104669 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
25104544 ATCTTCTTCA
*
25104554 TCTTCATCTTCACCTCCATCCAT-G
1 TCTTCATCTTCATCTCCA-CCATCG
* *
25104578 TAC-TCATCTTCATCCCCACCATCA
1 T-CTTCATCTTCATCTCCACCATCG
* *
25104602 TCTTCATCTTGATCTCCACCGTCG
1 TCTTCATCTTCATCTCCACCATCG
* *
25104626 TCTTCATCTTGATCTCCACTATCG
1 TCTTCATCTTCATCTCCACCATCG
*
25104650 TCTCCATCTTCATCTCCACC
1 TCTTCATCTTCATCTCCACC
25104670 CTCAATTTTG
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.06
24 71 0.92
25 1 0.01
ACGTcount: A:0.17, C:0.41, G:0.05, T:0.36
Consensus pattern (24 bp):
TCTTCATCTTCATCTCCACCATCG
Found at i:25106426 original size:23 final size:23
Alignment explanation
Indices: 25106396--25106441 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25106386 ATCTTTCCAC
25106396 CAACGAACTGATGAGTGTATGAT
1 CAACGAACTGATGAGTGTATGAT
25106419 CAACGAACTGATGAGTGTATGAT
1 CAACGAACTGATGAGTGTATGAT
25106442 TGAGTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (23 bp):
CAACGAACTGATGAGTGTATGAT
Found at i:25108346 original size:16 final size:15
Alignment explanation
Indices: 25108314--25108348 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25108304 TAATATTTAC
*
25108314 TTTTTTCAATTATAA
1 TTTTTTCAATTAAAA
25108329 TTTTTTCAATTACAAA
1 TTTTTTCAATTA-AAA
25108345 TTTT
1 TTTT
25108349 ACAACTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTCAATTAAAA
Found at i:25112746 original size:16 final size:16
Alignment explanation
Indices: 25112725--25112759 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25112715 CCAATATCTA
* *
25112725 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
25112741 ATTATCACATTTACAC
1 ATTATCACATTTACAC
25112757 ATT
1 ATT
25112760 TATATTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:25115384 original size:14 final size:13
Alignment explanation
Indices: 25115365--25115425 Score: 72
Period size: 14 Copynumber: 4.7 Consensus size: 13
25115355 AGATTCAATC
25115365 AATAAAAAAATCGA
1 AATAAAAAAAT-GA
*
25115379 AATAAAAAAAT-C
1 AATAAAAAAATGA
*
25115391 AATCAAAAAATGAA
1 AATAAAAAAATG-A
25115405 AATAAAAAAATGA
1 AATAAAAAAATGA
25115418 AA-AAAAAA
1 AATAAAAAA
25115426 CAAAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 16 0.39
13 3 0.07
14 22 0.54
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (13 bp):
AATAAAAAAATGA
Found at i:25115398 original size:26 final size:26
Alignment explanation
Indices: 25115361--25115444 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
25115351 CTTCAGATTC
25115361 AATCAATAAAAAAATCG-AAATAAAAA
1 AATCAATAAAAAAAT-GAAAATAAAAA
*
25115387 AATCAATCAAAAAATGAAAATAAAAA
1 AATCAATAAAAAAATGAAAATAAAAA
* ** *
25115413 AATGAA-AAAAAAACAAAAAAAGAAAA
1 AATCAATAAAAAAATGAAAATA-AAAA
25115439 AATCAA
1 AATCAA
25115445 AATCAAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 12 0.24
26 37 0.76
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (26 bp):
AATCAATAAAAAAATGAAAATAAAAA
Found at i:25115424 original size:18 final size:18
Alignment explanation
Indices: 25115403--25115440 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
25115393 TCAAAAAATG
*
25115403 AAAATAAAAAAATGAAAAA
1 AAAACAAAAAAA-GAAAAA
25115422 AAAACAAAAAAAGAAAAA
1 AAAACAAAAAAAGAAAAA
25115440 A
1 A
25115441 TCAAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.87, C:0.03, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAGAAAAA
Found at i:25115452 original size:14 final size:14
Alignment explanation
Indices: 25115365--25115452 Score: 71
Period size: 14 Copynumber: 6.5 Consensus size: 14
25115355 AGATTCAATC
*
25115365 AATAAAAAAATCGA
1 AATAAAAAAATCAA
25115379 AATAAAAAAATC--
1 AATAAAAAAATCAA
* *
25115391 AATCAAAAAATGAA
1 AATAAAAAAATCAA
*
25115405 AATAAAAAAATGAA
1 AATAAAAAAATCAA
25115419 AA-AAAAACAA--AA
1 AATAAAAA-AATCAA
25115431 AA-AGAAAAAATCAA
1 AATA-AAAAAATCAA
25115445 AATCAAAA
1 AAT-AAAA
25115453 TGAGAATGAG
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
12 17 0.27
13 9 0.14
14 33 0.52
15 3 0.05
16 1 0.02
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:25117752 original size:88 final size:88
Alignment explanation
Indices: 25117587--25117768 Score: 204
Period size: 88 Copynumber: 2.1 Consensus size: 88
25117577 ACAGATCAGA
* * * * *
25117587 GAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAGGACACTAGTCCTGCCTC
1 GAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAATCCTACCTC
** *
25117652 CATCGGTTGCAGTGGAGCAGATT
66 CATCGGCAGCAGTGGAACAGATT
* * * * *
25117675 GAAGATAGTAGATCTTGCCTTCCTGCA-TGGACAGCGAAGTAGATCGAAGATACCAATTCTATCT
1 GAAGATAGCAGATCTTGCCTTCCTGCACT-GACAGCGAAGCAGATCGAAGACACCAATCCTACCT
* * *
25117739 CCCTGGGCAGCAGTGGAATAGATT
65 CCATCGGCAGCAGTGGAACAGATT
25117763 GAAGAT
1 GAAGAT
25117769 TGTGAGTCCT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 1 0.01
88 76 0.99
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (88 bp):
GAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAATCCTACCTC
CATCGGCAGCAGTGGAACAGATT
Found at i:25117826 original size:44 final size:44
Alignment explanation
Indices: 25117733--25117855 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
25117723 GATACCAATT
* **
25117733 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTCAGAGTC
* *
25117777 CTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAA-ATTACAGA-TC
1 CTATCTCCCTAGGCAGCAGTGGAATAGATT-GAAGATT-CAGAGTC
* ** * * *
25117821 TTATCTCCCTAACCAGTAGTGGAGTAGATCGAAGA
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGA
25117856 CGGTGAATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.05
44 56 0.88
45 5 0.08
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTCAGAGTC
Found at i:25117915 original size:131 final size:131
Alignment explanation
Indices: 25117773--25118394 Score: 955
Period size: 131 Copynumber: 4.7 Consensus size: 131
25117763 GAAGATTGTG
* *
25117773 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAACCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
25117838 AGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
25117903 A
131 A
*
25117904 AGTCCTATCTCCCTGGTCAGCACTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * *
25117969 AATGGAGTAAATCAAAGACGGCGAATCTTATC-TCCCCTAGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCC-AGGAGTAGGGAAGCAGATTTAAGCCA
25118033 CA
130 CA
* * * * *
25118035 A-ACTCTATCTCCCTGGACAGCAGTGGAATATGTT-GAAGATTATAGACCTTATCTCCCTAAGCA
1 AGTC-CTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAA-ATTACAGATCTTATCTCCCTAAGCA
* * *
25118098 GTAGTAGAGCAGATCGAAGACGG-GAAATCTTATCGTCCCTAGGAGTAGGGAAGCAGATTTAAGC
64 GTAGTGGAGCAGATCGAAGACGGCG-AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGC
25118162 CACA
128 CACA
* *
25118166 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTCATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
*
25118231 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCTAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
25118296 A
131 A
*
25118297 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
25118362 AGTGGAGCAGATCGAAAATGGCAAATCTTATCT
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCT
25118395 CCCTGAGGTT
Statistics
Matches: 446, Mismatches: 37, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
130 10 0.02
131 427 0.96
132 9 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (131 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
A
Found at i:25118390 original size:44 final size:44
Alignment explanation
Indices: 25118211--25118398 Score: 123
Period size: 44 Copynumber: 4.3 Consensus size: 44
25118201 GAAATTAAAG
* * * *
25118211 ATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAA
* * ** ** *
25118255 ATCTTATCTTCCC-CAGGAGTAG-GGAAGCAGATTTAAGCT-ACAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCGAAAATGGCAA
* * * * ** * * * * *
25118298 GTCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGGAAATTGCAG
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAAATGGCAA
25118342 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAA
25118386 ATCTTATCTCCCT
1 ATCTTATCTCCCT
25118399 GAGGTTGCAG
Statistics
Matches: 103, Mismatches: 34, Indels: 14
0.68 0.23 0.09
Matches are distributed among these distances:
42 5 0.05
43 21 0.20
44 72 0.70
45 5 0.05
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAA
Found at i:25118652 original size:218 final size:218
Alignment explanation
Indices: 25118393--25119204 Score: 1239
Period size: 218 Copynumber: 3.7 Consensus size: 218
25118383 CAAATCTTAT
* * * * **
25118393 CTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCC-CATAATCCTATCTCCCTTAAGTTGCAGTTGA
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAC-TAATCCTATCTCCCTGAAGTTGCAGCGGA
* ** * * *
25118457 GCGGATAAAAATAATGGATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATCGCATCAAGTCTTAT
65 GCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTAT
* * *
25118522 CTCTCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCTCTGAAGTTGCAGTGGGG
130 CTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGG
*
25118587 CAGACTCAAGATGGCGGATTTTAC
195 CAGACTGAAGATGGCGGATTTTAC
* *
25118611 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAGGTTGTAGCGGAG
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
*
25118676 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTTTTATC
66 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
*
25118741 TCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
131 TCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
*
25118806 AGACTGAAGATGGAGGATTTTAC
196 AGACTGAAGATGGCGGATTTTAC
* * * * * *
25118829 GTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCACTAATCTTATCTCCCTGAGGTTGCAGCGGAG
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
*
25118894 CGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
66 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
* * * *
25118959 TCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGGGT
131 TCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
*
25119024 AGACTGAAGATGGCGAATTTTAC
196 AGACTGAAGATGGCGGATTTTAC
* **
25119047 CTCCCTGAGGTTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAG
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
* *
25119112 TGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
66 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
* * *
25119177 TCCCTGAAGTTGCAGTGGGGCAGACTGA
131 TCCCTGAGGTTGCAGCGGAGCAGACTGA
25119205 AGCTGGCGAA
Statistics
Matches: 540, Mismatches: 53, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
218 539 1.00
219 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (218 bp):
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
TCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
AGACTGAAGATGGCGGATTTTAC
Found at i:25118784 original size:44 final size:45
Alignment explanation
Indices: 25118515--25119032 Score: 204
Period size: 44 Copynumber: 11.8 Consensus size: 45
25118505 ATCGCATCAA
*
25118515 GTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTG-AGTAAGCAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * *
25118559 GTCTTATC-CCTCTGAAGTTGCAGTGGGGCAGACTCAAG-ATGGC-G
1 GTCTTATCTCC-CTGAGGTTGCAGTGGAGCAGACTGAAGTA-AGCAG
* * * * * * **
25118603 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-CTA-
1 G-TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGC-AG
* * * * * * * * *
25118648 ATCCTATCTCCCTGAGGTTGTAGCGGAGCGGATTAAAATAA-AAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * * * *
25118692 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCA-T---CAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAAGTAAGCAG
* *
25118733 GTTTTATCTCCCTGAGGTTGCAGCGGAGCAGACT-AAGTAAGCAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * * *
25118777 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* ** * * * **
25118821 GATTTTA-CGTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCA-CTA-
1 G-TCTTATC-TCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGC-AG
* * * * * *
25118866 ATCTTATCTCCCTGAGGTTGCAGCGGAGC-GAATTAAAATAA-AAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAG-ACTGAAGTAAGCAG
* * * * * *
25118910 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCA-T---CAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAAGTAAGCAG
** *
25118951 GTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTG-AGTAAGCAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * * *
25118995 GTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAG
25119033 ATGGCGAATT
Statistics
Matches: 340, Mismatches: 103, Indels: 61
0.67 0.20 0.12
Matches are distributed among these distances:
40 2 0.01
41 58 0.17
42 2 0.01
43 8 0.02
44 205 0.60
45 62 0.18
46 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (45 bp):
GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
Found at i:25119102 original size:89 final size:89
Alignment explanation
Indices: 25118999--25119283 Score: 274
Period size: 89 Copynumber: 3.2 Consensus size: 89
25118989 AAGCAGGTCT
* *
25118999 TATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGT
*
25119064 GGAATACATTGAAGCCACTAATCC
66 GGAGTACATTGAAGCCACTAATCC
* * * * * *** * * * * *
25119088 TATCTCCCTGAAGTTGCAGTAGAGTGGA-TTAAAAT-AAAAGATCTTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCGA-ATTTTACCTCCCTGAGGTTACAG
* * * * * *** *
25119151 TAGAGTAGATCGCA-TCA--GGGCT
65 TGGAGTACATTGAAGCCACTAATCC
* * *
25119173 TATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCTGGCGAATTTTACCTCCCTAAGGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGT
25119238 GGAGTACATTGAAGCCACTAATCC
66 GGAGTACATTGAAGCCACTAATCC
25119262 TATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGG
25119284 AGCGGATTAA
Statistics
Matches: 140, Mismatches: 50, Indels: 12
0.69 0.25 0.06
Matches are distributed among these distances:
85 25 0.18
86 31 0.22
87 6 0.04
88 32 0.23
89 46 0.33
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (89 bp):
TATCTCCCTGAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGT
GGAGTACATTGAAGCCACTAATCC
Found at i:25119105 original size:174 final size:173
Alignment explanation
Indices: 25118914--25119323 Score: 527
Period size: 174 Copynumber: 2.4 Consensus size: 173
25118904 TAAAAGATCT
* *** * * *
25118914 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCAT-CAGGTCTTATCTCCCTGAGGTTGCAGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAATAAAGATCTTATCTCCCTGAAGTTGCAGCAG
* *
25118977 AGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAAT
66 AGCAAA-T-AG-AAGCAGGGCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAAT
*
25119042 TTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCACTAATCC
128 TTTACCTCCCTAAGGTTACAGTGGAATACATTGAAGCCACTAATCC
* * *
25119088 TATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAT-AAAGATCTTATCTCCCTGAAGTTGCAGCA
* * * * * * * *
25119153 GAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCTGGCGAATTT
65 GAGCAAATAGAAGCAGGGCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTT
*
25119218 TACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCACTAATCC
130 TACCTCCCTAAGGTTACAGTGGAATACATTGAAGCCACTAATCC
* ** *
25119262 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAT-AAAGATCTTATCTCCCTGAAGTTGCA
25119324 ATAGAGTAGC
Statistics
Matches: 209, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
174 176 0.84
175 4 0.02
176 1 0.00
177 28 0.13
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAATAAAGATCTTATCTCCCTGAAGTTGCAGCAG
AGCAAATAGAAGCAGGGCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTT
ACCTCCCTAAGGTTACAGTGGAATACATTGAAGCCACTAATCC
Found at i:25119283 original size:44 final size:44
Alignment explanation
Indices: 25118996--25119285 Score: 140
Period size: 44 Copynumber: 6.6 Consensus size: 44
25118986 AGTAAGCAGG
* * * * *** *
25118996 TCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-CCACTAA
* * * * * *
25119041 TTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAA
* * * *** **
25119085 TCCTATCTCCCTGAAGTTGCAGTAGAGTGGATT-AAAATAAAAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTA-A
* * * * * **
25119129 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCA-TCA--GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAA
* * * * ** *
25119170 GCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCTGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC-CACTAA
* * * *
25119215 TTTTACCTCCCT-AAGGTTACAGTGGAGTACATTGAAGCCACTAA
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGTAGATTGAAGCCACTAA
*
25119259 TCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
25119286 CGGATTAAAA
Statistics
Matches: 172, Mismatches: 65, Indels: 17
0.68 0.26 0.07
Matches are distributed among these distances:
41 28 0.16
43 4 0.02
44 83 0.48
45 57 0.33
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAA
Found at i:25119308 original size:436 final size:433
Alignment explanation
Indices: 25118385--25119323 Score: 1217
Period size: 436 Copynumber: 2.2 Consensus size: 433
25118375 GAAAATGGCA
* * *
25118385 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCCATAATCCTATCTCCCTTAAGTTG
1 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAATAATCTTATCTCCCTGAAGTTG
** * ** *
25118450 CAGTTGAGCGGATAAAAATAATGGATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATCGCATCAA
66 CAGCGGAGCGAATAAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATCGCATCAA
* ** * * *
25118515 GTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCTCTGAAGTTGC
131 GTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGC
* *
25118580 AGTGGGGCAGACTCAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
196 AGTGGGGCAGACTCAAGATGGCGAATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCA
* * *
25118645 CTAATCCTATCTCCCTGAGGTTGTAGCGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGT
261 CTAATCCTATCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGT
** *
25118710 TGCAGTAGAGTAGATCGCATCAGGTTTTATCTCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGC
326 TGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGC
* * * *
25118775 AGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGG
391 AGATCTTATCCCCCTGAAGTTACAGTGGAGCACACTGAAGAT-G
* ** * * * *
25118819 AGGATTTTA-CGTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCACTAATCTTATCTCCCTGAGG
1 A--ATCTTATC-TCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAATAATCTTATCTCCCTGAAG
* *
25118883 TTGCAGCGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
63 TTGCAGCGGAGCGAATAAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATCGCAT
*
25118948 CAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGT
128 CAAGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGT
* *
25119013 TGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAG
193 TGCAGTGGGGCAGACTCAAGATGGCGAATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAG
* *
25119078 CCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATAAAAGATCTTATCTCTCTGA
258 CCACTAATCCTATCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATAAAAGATCTTATCTCTCTGA
* *
25119143 AGTTGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGC
323 AGTTGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCGGAGCAGACT-AAG-
* * * *
25119208 T-GGC-GAATTTTA-CCTCCCT-AAGGTTACAGTGGAGTACATTGAAGCCACT-
386 TAAGCAG-ATCTTATCC-CCCTGAA-GTTACAGTGGAGCACACTGAAG--A-TG
* * * *** * *
25119257 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAATA-ATCTTATCTCCCTGAAGTT
25119321 GCA
65 GCA
25119324 ATAGAGTAGC
Statistics
Matches: 430, Mismatches: 62, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
434 1 0.00
435 5 0.01
436 389 0.90
437 31 0.07
438 2 0.00
439 1 0.00
440 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (433 bp):
AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAATAATCTTATCTCCCTGAAGTTG
CAGCGGAGCGAATAAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATCGCATCAA
GTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGC
AGTGGGGCAGACTCAAGATGGCGAATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCA
CTAATCCTATCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGT
TGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGC
AGATCTTATCCCCCTGAAGTTACAGTGGAGCACACTGAAGATG
Found at i:25119319 original size:218 final size:218
Alignment explanation
Indices: 25118393--25119330 Score: 691
Period size: 218 Copynumber: 4.3 Consensus size: 218
25118383 CAAATCTTAT
* * * * ** * * * * *
25118393 CTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCCATAATCCTATCTCCCTTAAGTTGCAGTTGAG
1 CTCCCTGAAGTTACAGTGGAACACATTGAAAACAAAAATCTTATCTCCCTGAAGTTGCAGTAGAG
* * * ** * * * *
25118458 CGGATAAAAATAATGGATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATCGCATCAAGTCTTATC
66 TGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
* * ** * * * * * * *
25118523 TCTCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCTCTGAAGTTGCAGTGGGGC
131 TCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAGATCTTATCCCCCTAAAGTTACAGTGGAGT
* * *** * **
25118588 AGACTCAAGATGGCGGATTTTAC
196 ACACTGAAGACCACGAATCCTAC
* ** ** ** * * * **
25118611 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAGGTTGTAGCGGAG
1 CTCCCTGAAGTTACAGTGGAACACATTGAAAACAAAAATCTTATCTCCCTGAAGTTGCAGTAGAG
* * **
25118676 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTTTTATC
66 TGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
* * * * * * * * *
25118741 TCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
131 TCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAGATCTTATCCCCCTAAAGTTACAGTGGAGT
* ** * **
25118806 AGACTGAAGATGGA-GGATTTTAC
196 ACACTGAAGA-CCACGAATCCTAC
* * * * ** * ** ** * **
25118829 GTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCACTAATCTTATCTCCCTGAGGTTGCAGCGGAG
1 CTCCCTGAAGTTACAGTGGAACACATTGAAAACAAAAATCTTATCTCCCTGAAGTTGCAGTAGAG
* *
25118894 CGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
66 TGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
* * * *
25118959 TCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGGGT
131 TCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAGATCTTATCCCCCTAAAGTTACAGTGGAGT
* *** **
25119024 AGACTGAAGATGGCGAATTTTAC
196 ACACTGAAGACCACGAATCCTAC
* * ** ** *
25119047 CTCCCTGAGGTTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAG
1 CTCCCTGAAGTTACAGTGGAACACATTGAAAACAAAAATCTTATCTCCCTGAAGTTGCAGTAGAG
*
25119112 TGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
66 TGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
** * * * * *
25119177 TCCCTGAAGTTGCAGTGGGGCAGACTGAAGCT-GGC-GAATTTTA-CCTCCCTAAGGTTACAGTG
131 TCCCTGAAGTTGCAGCAGAGCAAACTG-AG-TAAGCAG-ATCTTATCC-CCCTAAAGTTACAGTG
* * *
25119239 GAGTACATTGAAG-CCACTAATCCTAT
192 GAGTACACTGAAGACCACGAATCCTAC
* * ** * * *
25119265 CTCCCTGAAGTTGCAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCTGAAGTTGCAATAGA
1 CTCCCTGAAGTTACAGTGGAACACATTGAAAACAAAA-ATCTTATCTCCCTGAAGTTGCAGTAGA
25119329 GT
65 GT
25119331 AGCTCGCATC
Statistics
Matches: 627, Mismatches: 86, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
217 5 0.01
218 588 0.94
219 33 0.05
220 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (218 bp):
CTCCCTGAAGTTACAGTGGAACACATTGAAAACAAAAATCTTATCTCCCTGAAGTTGCAGTAGAG
TGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
TCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAGATCTTATCCCCCTAAAGTTACAGTGGAGT
ACACTGAAGACCACGAATCCTAC
Found at i:25119331 original size:174 final size:174
Alignment explanation
Indices: 25118992--25119377 Score: 639
Period size: 174 Copynumber: 2.2 Consensus size: 174
25118982 ACTGAGTAAG
* * * *
25118992 CAGGTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTTACCTCCCTAAGG
*
25119057 TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAA
66 TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
*
25119122 TAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
131 TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT
* *
25119166 CAGGGCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCTGGCGAATTTTACCTCCCTAAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTTACCTCCCTAAGG
* *
25119231 TTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
66 TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
*
25119296 TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGCTCGCAT
131 TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT
* * *
25119340 CAGGTCTTATCTCCCTGAGGTTGTAGTGGAGCAG-CTGA
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGA
25119378 GAAAACAAGT
Statistics
Matches: 197, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
173 4 0.02
174 193 0.98
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (174 bp):
CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTTACCTCCCTAAGG
TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT
Found at i:25119556 original size:100 final size:100
Alignment explanation
Indices: 25119430--25119693 Score: 413
Period size: 100 Copynumber: 2.6 Consensus size: 100
25119420 GAAAATAGCG
* *
25119430 AATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAAAGATACAACGGTGAATCTTACTTTCCAG
1 AATCTTGCTTCCCCGACATTGGAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCAG
*
25119495 GCAGTGCAGTGGAACAGATTAAAGCCACAACGGCA
66 GCAGTGCAGTGGAACAGATTAAAGCCACAACGACA
* *
25119530 AATCTTGCTTCCCCGACATTGGAGTTAAAAACATTAAAGCTACAACGGTGAATCTTACTTCCCAG
1 AATCTTGCTTCCCCGACATTGGAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCAG
* *
25119595 GCGGTGCAGTGGAACATATTAAAGCCACAACGACA
66 GCAGTGCAGTGGAACAGATTAAAGCCACAACGACA
* * * *
25119630 AATCTTGCTTCCCCAACATTGCG-GTTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
1 AATCTTGCTTCCCCGACATTG-GAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCA
25119694 AAACTTACGA
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 149 0.99
101 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (100 bp):
AATCTTGCTTCCCCGACATTGGAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCAG
GCAGTGCAGTGGAACAGATTAAAGCCACAACGACA
Found at i:25119684 original size:50 final size:50
Alignment explanation
Indices: 25119427--25119685 Score: 207
Period size: 50 Copynumber: 5.2 Consensus size: 50
25119417 ACTGAAAATA
* * *
25119427 GCGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAAAGATACAACG
1 GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * * * ** * *
25119477 GTGAATCTTACTT-TCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACG
1 GCGAATCTTGCTTCCCCA-ACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * *
25119527 GCAAATCTTGCTTCCCCGACATTGGAGTTAAAAACATTAAAGCTACAACG
1 GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * ** ** * * *
25119577 GTGAATCTTACTT-CCCAGGCGGTGCAGTGGAACATATTAAAGCCACAACG
1 GCGAATCTTGCTTCCCCA-ACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * * *
25119627 ACAAATCTTGCTTCCCCAACATTGCGGTTAAAAAGATTGAAGCTACAATG
1 GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
25119677 GCGAATCTT
1 GCGAATCTT
25119686 ACTTTCCAAA
Statistics
Matches: 150, Mismatches: 55, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
49 5 0.03
50 139 0.93
51 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
Found at i:25128675 original size:20 final size:20
Alignment explanation
Indices: 25128650--25128689 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25128640 CATAAAATGA
*
25128650 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25128670 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25128690 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25131192 original size:18 final size:20
Alignment explanation
Indices: 25131154--25131194 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
25131144 AAAAAAAAAG
25131154 AGAAAAGAGAAAAGAAAATA
1 AGAAAAGAGAAAAGAAAATA
*
25131174 AGAAAAG-GAAGAG-AAATA
1 AGAAAAGAGAAAAGAAAATA
25131192 AGA
1 AGA
25131195 GAATTGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (20 bp):
AGAAAAGAGAAAAGAAAATA
Found at i:25135972 original size:61 final size:61
Alignment explanation
Indices: 25135904--25136213 Score: 241
Period size: 59 Copynumber: 5.2 Consensus size: 61
25135894 TTTATAAAGT
25135904 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * ** * * * * * * *
25135965 ATCATATATTTTAATTAAAATATATT--TAGTAATAATTATTTCA-AATT-A-TATTTTA-TAGT
1 ATCATATATTATGATTTTAGTAAATTCATA-TAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
25136024 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * * ** * * * * * * *
25136085 ATTATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTT-CTAGT
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-A
25136144 ATCATATATTATGATTTTAGTAAATTCATATAAG-ATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
*
25136204 ATTATATATT
1 ATCATATATT
25136214 TTAATTAAAA
Statistics
Matches: 182, Mismatches: 47, Indels: 41
0.67 0.17 0.15
Matches are distributed among these distances:
58 10 0.05
59 66 0.36
60 43 0.24
61 58 0.32
62 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (61 bp):
ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:25136103 original size:18 final size:17
Alignment explanation
Indices: 25136075--25136109 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25136065 ATTATTAAGA
*
25136075 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25136092 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25136110 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25136222 original size:18 final size:17
Alignment explanation
Indices: 25136194--25136228 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25136184 ATTATTAAGA
*
25136194 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25136211 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25136229 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25136238 original size:119 final size:120
Alignment explanation
Indices: 25135892--25136248 Score: 646
Period size: 120 Copynumber: 3.0 Consensus size: 120
25135882 CTTAATTTTA
25135892 ATTTTATAAAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAT
1 ATTTTAT--AGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAT
* *
25135957 TTTATTAAATCATATATTTTAATTAAAATATATTTAGTAATAATTAT-TTCAAATTAT
64 TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTAT
25136014 ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
1 ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
25136079 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
66 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
*
25136134 ATTTTCTAGTATCATATATTATGATTTTAGTAAATTCATATAAG-ATATTGATTATTAAGAATTT
1 ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
25136198 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
66 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
25136249 ATATGATTAA
Statistics
Matches: 231, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
119 71 0.31
120 151 0.65
121 2 0.01
122 7 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
Found at i:25136431 original size:39 final size:40
Alignment explanation
Indices: 25136375--25136479 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 40
25136365 TTCCCTTATG
* *
25136375 CTATTACACCTCCATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACGCCTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
25136414 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTG
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAATAGAATTA
25136459 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
25136480 ACCCCTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 14 0.25
40 5 0.09
43 1 0.02
44 18 0.33
45 17 0.31
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.31
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:25136448 original size:44 final size:45
Alignment explanation
Indices: 25136385--25136481 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
25136375 CTATTACACC
*
25136385 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
25136429 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
25136474 TCCATTAC
1 TCCATTAC
25136482 CCCTCTATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.48
45 24 0.50
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:25136486 original size:16 final size:16
Alignment explanation
Indices: 25136461--25136525 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
25136451 TTGAATTGCT
25136461 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
25136477 ATTACCCCTCTATTCC
1 ATTACGCCTCTATTCC
*
25136493 ATTACGCCTCTATTGC
1 ATTACGCCTCTATTCC
25136509 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
25136525 A
1 A
25136526 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.20, C:0.37, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:25138241 original size:25 final size:25
Alignment explanation
Indices: 25138180--25138250 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
25138170 AGCTCTTATC
* *
25138180 AGCTTCCCATTATTCAGCTTGCATG
1 AGCTTCCCGTTATTCAGCTCGCATG
*
25138205 AGCTTCCCGTTATTCAACTCGCATG
1 AGCTTCCCGTTATTCAGCTCGCATG
***
25138230 AGCTTTTTGTTATTCAGCTCG
1 AGCTTCCCGTTATTCAGCTCG
25138251 GAGAAGCTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (25 bp):
AGCTTCCCGTTATTCAGCTCGCATG
Found at i:25139269 original size:13 final size:13
Alignment explanation
Indices: 25139251--25139283 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25139241 AGCTCAAGGG
*
25139251 CATGTGGCTTGGC
1 CATGTGGCTAGGC
25139264 CATGT-GCTAGGC
1 CATGTGGCTAGGC
25139276 CATGTGGC
1 CATGTGGC
25139284 CCAAGTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.12, C:0.24, G:0.36, T:0.27
Consensus pattern (13 bp):
CATGTGGCTAGGC
Found at i:25145165 original size:36 final size:37
Alignment explanation
Indices: 25145101--25145174 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
25145091 GAACAAACAA
* *
25145101 TTTTAATTAAATTAAATTATTTATATATA-AAAATAT
1 TTTTAATTAAATTAAATTATTAAAATATATAAAATAT
* *
25145137 TTTTAATTAAATTTTAATTA-TAAAATATATGAAATAT
1 TTTTAATTAAA-TTAAATTATTAAAATATATAAAATAT
25145174 T
1 T
25145175 AGTGTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 18 0.56
37 14 0.44
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (37 bp):
TTTTAATTAAATTAAATTATTAAAATATATAAAATAT
Found at i:25155153 original size:20 final size:21
Alignment explanation
Indices: 25155114--25155155 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25155104 TATTGATTTA
* *
25155114 CAAAAATTATTGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
*
25155135 CAAAAAGTATCGATACTTTTT
1 CAAAAAGTATCGATACCTTTT
25155156 ACTAGGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:25158140 original size:33 final size:32
Alignment explanation
Indices: 25158103--25158165 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
25158093 TTATTAGCTT
* *
25158103 TAAATTTAAAATGAATTTTATATAGGGGGAGCC
1 TAAATTGAAAATGAATTTTAT-TAAGGGGAGCC
*
25158136 TAAATTGAAGATGAATTTTATTAAGGGGAG
1 TAAATTGAAAATGAATTTTATTAAGGGGAG
25158166 AAATTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (32 bp):
TAAATTGAAAATGAATTTTATTAAGGGGAGCC
Found at i:25158291 original size:22 final size:24
Alignment explanation
Indices: 25158248--25158291 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
25158238 TAATAATAAG
25158248 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
25158272 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
25158292 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:25160845 original size:25 final size:25
Alignment explanation
Indices: 25160816--25160898 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
25160806 CACAACTCTT
25160816 ATGAGCTTCCCGA-TACTCAGCTCGC
1 ATGAGCTTCCC-ATTACTCAGCTCGC
* *
25160841 ATGAGGTTCCCATTATTCAGCTCGC
1 ATGAGCTTCCCATTACTCAGCTCGC
* * *
25160866 ATGAGCTTCCCTTTATTCAGCTCGG
1 ATGAGCTTCCCATTACTCAGCTCGC
*
25160891 AGGAGCTT
1 ATGAGCTT
25160899 ACTGTTTACA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 50 0.98
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCATTACTCAGCTCGC
Found at i:25164334 original size:21 final size:20
Alignment explanation
Indices: 25164310--25164360 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
25164300 ACTAAGTTAA
*
25164310 AAGAGTTGAAAGCAGTTTTTC
1 AAGAGTTGAAA-CAGTTTTGC
25164331 AAGAGTTGGAAACAGTTTTGC
1 AAGAGTT-GAAACAGTTTTGC
25164352 AAGAGTTGA
1 AAGAGTTGA
25164361 CTGATAGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 2 0.07
21 22 0.79
22 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (20 bp):
AAGAGTTGAAACAGTTTTGC
Found at i:25165108 original size:15 final size:15
Alignment explanation
Indices: 25165088--25165117 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25165078 TTTGAATGGT
25165088 CTGATAAATGTCAGC
1 CTGATAAATGTCAGC
25165103 CTGATAAATGTCAGC
1 CTGATAAATGTCAGC
25165118 AAAGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
CTGATAAATGTCAGC
Found at i:25170279 original size:14 final size:14
Alignment explanation
Indices: 25170260--25170293 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
25170250 GCCTAATGTA
25170260 GCCTACCCCGTGTG
1 GCCTACCCCGTGTG
25170274 GCCTACCCCGTGTG
1 GCCTACCCCGTGTG
25170288 GCCTAC
1 GCCTAC
25170294 AAGGCCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.09, C:0.44, G:0.26, T:0.21
Consensus pattern (14 bp):
GCCTACCCCGTGTG
Found at i:25173802 original size:13 final size:13
Alignment explanation
Indices: 25173784--25173812 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25173774 TTTTTAGACT
25173784 TGATACAAGCGAA
1 TGATACAAGCGAA
25173797 TGATACAAGCGAA
1 TGATACAAGCGAA
25173810 TGA
1 TGA
25173813 CATGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (13 bp):
TGATACAAGCGAA
Found at i:25176372 original size:36 final size:36
Alignment explanation
Indices: 25176319--25176388 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
25176309 ATTTAAGGAG
* *
25176319 TTCGAATATAAGCATTTTTGTAATGTTTTAGTTATC
1 TTCGAATACAAGAATTTTTGTAATGTTTTAGTTATC
25176355 TTCGAATACAAGAATTTTTGTAATGTTTTAGTTA
1 TTCGAATACAAGAATTTTTGTAATGTTTTAGTTA
25176389 AGTTTTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (36 bp):
TTCGAATACAAGAATTTTTGTAATGTTTTAGTTATC
Found at i:25178099 original size:8 final size:8
Alignment explanation
Indices: 25178088--25178112 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25178078 CAACCACTAA
25178088 TCTTCAAT
1 TCTTCAAT
25178096 TCTTCAAT
1 TCTTCAAT
25178104 TCTTCAAT
1 TCTTCAAT
25178112 T
1 T
25178113 TGGCCCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCTTCAAT
Found at i:25181249 original size:25 final size:25
Alignment explanation
Indices: 25181220--25181284 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
25181210 ATGAGCTATA
* * *
25181220 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACAAGCTGAAT
*
25181245 AACGGTAAGCTCATACAAGCTGAGT
1 AACGGTAAGCTCATACAAGCTGAAT
*
25181270 ATCGGTAAGCTCATA
1 AACGGTAAGCTCATA
25181285 AGAGTTGGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACAAGCTGAAT
Found at i:25182762 original size:3 final size:3
Alignment explanation
Indices: 25182754--25182787 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25182744 GATTTTAATT
25182754 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25182788 ATATAACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25182841 original size:9 final size:10
Alignment explanation
Indices: 25182785--25182854 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 10
25182775 TTATTATTAT
25182785 TATATATA-A
1 TATATATACA
*
25182794 CATATATACA
1 TATATATACA
*
25182804 TATAT-TAAA
1 TATATATACA
25182813 CTATCATA-ACA
1 -TAT-ATATACA
*
25182824 TATATATATA
1 TATATATACA
25182834 TAATATATA-A
1 T-ATATATACA
25182844 TATATATACA
1 TATATATACA
25182854 T
1 T
25182855 TTACTCCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
9 20 0.41
10 18 0.37
11 11 0.22
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (10 bp):
TATATATACA
Found at i:25183053 original size:13 final size:13
Alignment explanation
Indices: 25183035--25183059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25183025 AATATGACTC
25183035 TGTAAATATTTAA
1 TGTAAATATTTAA
25183048 TGTAAATATTTA
1 TGTAAATATTTA
25183060 CAGGTCCAGT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGTAAATATTTAA
Found at i:25186519 original size:16 final size:17
Alignment explanation
Indices: 25186500--25186538 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
25186490 AAGAAATTTG
25186500 AAAAGAAATTCAAAAAAA
1 AAAAGAAATTC-AAAAAA
25186518 AAGAAGAAATTCAAAAAA
1 AA-AAGAAATTCAAAAAA
25186536 AAA
1 AAA
25186539 TTCAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.50
19 9 0.45
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAGAAATTCAAAAAA
Found at i:25186525 original size:31 final size:31
Alignment explanation
Indices: 25186482--25186552 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
25186472 AAATATTTTG
* ** *
25186482 AAAAAAACAAGAAATTTGAAAAGAAATTCAA
1 AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
25186513 AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
1 AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
25186544 AAAAAAAGA
1 AAAAAAAGA
25186553 GTGAAGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (31 bp):
AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
Found at i:25186526 original size:19 final size:19
Alignment explanation
Indices: 25186502--25186538 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25186492 GAAATTTGAA
25186502 AAGAAATTCAAAAAAAAAG
1 AAGAAATTCAAAAAAAAAG
25186521 AAGAAATTCAAAAAAAAA
1 AAGAAATTCAAAAAAAAA
25186539 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (19 bp):
AAGAAATTCAAAAAAAAAG
Found at i:25186547 original size:12 final size:12
Alignment explanation
Indices: 25186524--25186550 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25186514 AAAAAAGAAG
25186524 AAATTCAAAAAA
1 AAATTCAAAAAA
25186536 AAATTCAAAAAA
1 AAATTCAAAAAA
25186548 AAA
1 AAA
25186551 GAGTGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:25187726 original size:32 final size:32
Alignment explanation
Indices: 25187690--25187753 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
25187680 AACGAAAGTG
25187690 AAAAAGAAAA-AGAGCCTG-AAAAGAAATCGAGT
1 AAAAA-AAAAGAGAGCCTGTAAAAGAAA-CGAGT
25187722 AAAAAAAAAGAGAGCCTGTAAAAGAAACGAGT
1 AAAAAAAAAGAGAGCCTGTAAAAGAAACGAGT
25187754 GAAGAGAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 4 0.13
32 18 0.60
33 8 0.27
ACGTcount: A:0.59, C:0.09, G:0.22, T:0.09
Consensus pattern (32 bp):
AAAAAAAAAGAGAGCCTGTAAAAGAAACGAGT
Found at i:25192175 original size:29 final size:30
Alignment explanation
Indices: 25192138--25192196 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
25192128 GAATTGGATC
*
25192138 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAATTCATGTATAAAATTGCACA
* *
25192168 AAAT-AAAAATTCATGTTTACAATTGCACA
1 AAATCAAAAATTCATGTATAAAATTGCACA
25192197 TTAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAAATTCATGTATAAAATTGCACA
Found at i:25194051 original size:14 final size:13
Alignment explanation
Indices: 25194025--25194050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25194015 GTTTTGAATT
25194025 TATTTTTAAAAAA
1 TATTTTTAAAAAA
25194038 TATTTTTAAAAAA
1 TATTTTTAAAAAA
25194051 AAATTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTTTAAAAAA
Found at i:25200520 original size:14 final size:14
Alignment explanation
Indices: 25200501--25200530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25200491 TCCCATGTGT
*
25200501 TTGAAAATGAATTC
1 TTGAAAAAGAATTC
25200515 TTGAAAAAGAATTC
1 TTGAAAAAGAATTC
25200529 TT
1 TT
25200531 TTGGTCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (14 bp):
TTGAAAAAGAATTC
Found at i:25201856 original size:26 final size:26
Alignment explanation
Indices: 25201825--25201878 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
25201815 TTTGTATGTG
25201825 TATTTGAAATATTTCACATATAAAAA
1 TATTTGAAATATTTCACATATAAAAA
*
25201851 TATTTGAAATATTTTACATATAAAAA
1 TATTTGAAATATTTCACATATAAAAA
25201877 TA
1 TA
25201879 ATAATGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (26 bp):
TATTTGAAATATTTCACATATAAAAA
Found at i:25202325 original size:141 final size:139
Alignment explanation
Indices: 25202083--25202363 Score: 336
Period size: 141 Copynumber: 2.0 Consensus size: 139
25202073 CAATATATTT
* **
25202083 ATTAATTAAAAATAAAAAAAGTTTGAAACAACATAAAATAAAAAATACAAAAGGTGCTTAAAAGA
1 ATTAATTAAAAATAAAAAAAGTTTGAAACAACATAAAAAAAAAAATACAAAA-GTGAGTAAAAGA
* * *
25202148 GGAATTGAACCTAAGACTTAAGAATGAAATCACTATTATTTAAT-TATAACCAGATG-AGCTAAT
65 GAAATTGAACCTAAGACTTAAGAATAAAACCACTATTATTTAATATATAACCAGA-GAAGCTAAT
*
25202211 GTGTTAAAAAC
129 GTGTCAAAAAC
**
25202222 ATTAATTAAAAATAAAAAAAAGTTTGAAACAACATGAAATAAAAAAAATACAAATA-TGAGTAGG
1 ATTAATTAAAAAT-AAAAAAAGTTTGAAACAACAT-AAA-AAAAAAAATACAAA-AGTGAGTAAA
* * * * *
25202286 AGAGAAATTGAATCTGAGGCTTAA-AGATAAAACCACTATTATTTAATCATCTGACCAGAGAAGC
62 AGAGAAATTGAACCTAAGACTTAAGA-ATAAAACCACTATTATTTAAT-ATATAACCAGAGAAGC
25202350 TAATGTGTCAAAAA
125 TAATGTGTCAAAAA
25202364 AGTCAGAAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
139 13 0.11
140 22 0.18
141 46 0.38
142 14 0.12
143 25 0.21
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (139 bp):
ATTAATTAAAAATAAAAAAAGTTTGAAACAACATAAAAAAAAAAATACAAAAGTGAGTAAAAGAG
AAATTGAACCTAAGACTTAAGAATAAAACCACTATTATTTAATATATAACCAGAGAAGCTAATGT
GTCAAAAAC
Found at i:25203365 original size:4 final size:4
Alignment explanation
Indices: 25203356--25203381 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
25203346 CCTTCGCCTC
25203356 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
25203382 GTTGTTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:25203409 original size:2 final size:2
Alignment explanation
Indices: 25203402--25203434 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25203392 TTATGGCTAT
25203402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25203435 TCAAAATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25206263 original size:34 final size:38
Alignment explanation
Indices: 25206193--25206263 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 38
25206183 TACAGATGTC
* *
25206193 TAGGATTATAAGTTATCTTCAAGGTTTCAATTTAGGGA
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
25206231 TAGGATTATAAG-T-T-TT-AAGGTTTAAATCTAGGG
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGG
25206264 GTAGTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 15 0.48
35 2 0.06
36 1 0.03
37 1 0.03
38 12 0.39
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (38 bp):
TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
Found at i:25218438 original size:135 final size:137
Alignment explanation
Indices: 25218179--25218459 Score: 458
Period size: 135 Copynumber: 2.1 Consensus size: 137
25218169 GAGAACATAG
* *
25218179 ATATAATTAATATATGAATTTGATTAATACAAAATATGAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTAATACAAAATA-GAATTGTATATATTTTACCAAATTTATT
* *
25218244 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATCAATATTCTTT
65 AATATAAACAAGTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATCAATATTCTTT
*
25218309 TGGAAAGA
130 TGGAAAAA
*
25218317 ATATAATTAATATATGAATTTGATTCATACAAAATA-AATTGTATATATTTTACCAAATTTATTA
1 ATATAATTAATATATGAATTTGATTAATACAAAATAGAATTGTATATATTTTACCAAATTTATTA
* * *
25218381 ATATAAA-TAGTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTT
66 ATATAAACAAGTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATCAATATTCTTTT
25218445 GGAAAAA
131 GGAAAAA
25218452 ATATAATT
1 ATATAATT
25218460 TATTTTCTAA
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
135 66 0.49
136 33 0.25
138 35 0.26
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTAATACAAAATAGAATTGTATATATTTTACCAAATTTATTA
ATATAAACAAGTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATCAATATTCTTTT
GGAAAAA
Found at i:25218776 original size:288 final size:287
Alignment explanation
Indices: 25218409--25218979 Score: 1009
Period size: 288 Copynumber: 2.0 Consensus size: 287
25218399 TTAATTTCGA
25218409 TCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAAAATATAATTTATTTTCTAACTTT
1 TCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAAAATATAATTTATTTTCTAACTTT
*
25218474 CCATTTGCCTTCTCCATTAATAAAGGAATAATCCCGGTTTTCCTTTTTAATATGTGATATCAAAG
66 CCATTTGCCTTCTCCATTAATAAAGGAATAATCCCGATTTTCCTTTTTAATATGTGATATCAAAG
*
25218539 AGGATAAAAGGATGATAGTCCCTTAGTGTGTTAATGTTACCAACTTAATAATTTAAAAGGTCT-A
131 AGGATAAAAGGATGATAGTCCCTTAGTGTGTTAATGTTACCAACTCAATAATTTAAAAGGTCTAA
* *
25218603 GCAACTGTTTTTAATTCTCTTTGAAAAGTTCAAAAGAAAGTGGTTGTTCGTTTTTAACTGGGTGG
196 G-AACTGTTTTTAATTCTCTTTAAAAAGTTCAAAAGAAAGTGGTTGTTCGTTTTTAACGGGGTGG
*
25218668 ACTATGTAAAGGCCGAGACATTTTATTT
260 ACTACGTAAAGGCCGAGACATTTTATTT
* * *
25218696 TCAAAATTATAAAAGGCATGGAAATTAATATTCTTTTGGAAAGAATATAATTTCTTTTCTAACTT
1 TCAAAA-TATAAAAGACATGGAAATTAATATTCTTTTGGAAAAAATATAATTTATTTTCTAACTT
*
25218761 TCCATTTGCCTTCTCCATTAATAAAGGAATAGTCCCGATTTTCCTTTTTAATATGTGATATCAAA
65 TCCATTTGCCTTCTCCATTAATAAAGGAATAATCCCGATTTTCCTTTTTAATATGTGATATCAAA
25218826 GAGGATAAAAGGATGATAGTCCCTTAGTGTGTTAATGTTACCAACTCAATAATTTAAAAGGTCTA
130 GAGGATAAAAGGATGATAGTCCCTTAGTGTGTTAATGTTACCAACTCAATAATTTAAAAGGTCTA
*
25218891 AGAACTGTTTTTAATTCTCTTTAAAAAGTTCAAAAGAAAGTGGTTGTTTGTTTTTAACGGGGTGG
195 AGAACTGTTTTTAATTCTCTTTAAAAAGTTCAAAAGAAAGTGGTTGTTCGTTTTTAACGGGGTGG
* *
25218956 ACTACGTAGAGGCTGAGACATTTT
260 ACTACGTAAAGGCCGAGACATTTT
25218980 CGTTGTGGCT
Statistics
Matches: 270, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
287 6 0.02
288 262 0.97
289 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (287 bp):
TCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAAAATATAATTTATTTTCTAACTTT
CCATTTGCCTTCTCCATTAATAAAGGAATAATCCCGATTTTCCTTTTTAATATGTGATATCAAAG
AGGATAAAAGGATGATAGTCCCTTAGTGTGTTAATGTTACCAACTCAATAATTTAAAAGGTCTAA
GAACTGTTTTTAATTCTCTTTAAAAAGTTCAAAAGAAAGTGGTTGTTCGTTTTTAACGGGGTGGA
CTACGTAAAGGCCGAGACATTTTATTT
Found at i:25221777 original size:75 final size:75
Alignment explanation
Indices: 25221644--25221788 Score: 200
Period size: 75 Copynumber: 1.9 Consensus size: 75
25221634 ATGGAAATCA
* * ** * * *
25221644 ATATTCTTTTGGAAAGAATATAATTTATTTTTCTAACTTTCCCTTTGCATTCTTTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTGATTTTTCTAACTTTCCATCAGCATTATCTATTAATAAGA
25221709 GAATAATCCT
66 GAATAATCCT
* * *
25221719 ATATTCTTTTGGAAAGAATATAGTTGCTTTTTCTAACTTTCCATCAGCCTTATCTATTAATAAGA
1 ATATTCTTTTGGAAAGAATATAATTGATTTTTCTAACTTTCCATCAGCATTATCTATTAATAAGA
25221784 GAATA
66 GAATA
25221789 TTTTTAGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTGATTTTTCTAACTTTCCATCAGCATTATCTATTAATAAGA
GAATAATCCT
Found at i:25222974 original size:51 final size:53
Alignment explanation
Indices: 25222911--25223053 Score: 188
Period size: 51 Copynumber: 2.8 Consensus size: 53
25222901 TGAAAGTGAA
* *
25222911 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTAC-T-GGAT
1 AGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACATCAGAT
* *
25222962 AGCT-TTGATCACGTGTGTAGTACTATGTGCAGGCTACTA--CGTGCATCAGAT
1 AG-TGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACATCAGAT
* *
25223013 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 AGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
25223054 TGAACCGGTA
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
49 4 0.05
50 2 0.03
51 72 0.91
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (53 bp):
AGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACATCAGAT
Found at i:25223300 original size:16 final size:16
Alignment explanation
Indices: 25223279--25223310 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25223269 TGATTGAAAG
*
25223279 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
25223295 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
25223311 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:25230047 original size:51 final size:50
Alignment explanation
Indices: 25229976--25230092 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 50
25229966 AGATATACCA
* * **
25229976 TCCATAAACACACCTAGGCATTGAGTGCCAAGCCTGTAGGCTACACATCCC
1 TCCA-AAACACACCTAGGCATTGAATGCAAAGCCCATAGGCTACACATCCC
* *
25230027 TCCAGAAACACACCTGGGCATTGAATGCAAAGCCCATAGGCTACACATCTC
1 TCCA-AAACACACCTAGGCATTGAATGCAAAGCCCATAGGCTACACATCCC
25230078 TCCAAAACACACCTA
1 TCCAAAACACACCTA
25230093 AATCTCCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 10 0.17
51 48 0.83
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.18
Consensus pattern (50 bp):
TCCAAAACACACCTAGGCATTGAATGCAAAGCCCATAGGCTACACATCCC
Found at i:25237244 original size:22 final size:22
Alignment explanation
Indices: 25237216--25237260 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
25237206 GTAGCCTAAG
25237216 AATGTGCGCGAAGTGGAATAAA
1 AATGTGCGCGAAGTGGAATAAA
25237238 AATGTGCGCGAAGTGGAATAAA
1 AATGTGCGCGAAGTGGAATAAA
25237260 A
1 A
25237261 CTTGAGCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (22 bp):
AATGTGCGCGAAGTGGAATAAA
Found at i:25242928 original size:17 final size:17
Alignment explanation
Indices: 25242903--25242943 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
25242893 TGGCATCTGT
*
25242903 GAAGTATGCCAACTTAG
1 GAAGCATGCCAACTTAG
25242920 GAAGCATGCCAACTTAG
1 GAAGCATGCCAACTTAG
25242937 GAAGCAT
1 GAAGCAT
25242944 ATGAGGTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (17 bp):
GAAGCATGCCAACTTAG
Found at i:25245184 original size:13 final size:14
Alignment explanation
Indices: 25245166--25245194 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25245156 TGTGTGCAAG
25245166 TTATGTTTT-TAGA
1 TTATGTTTTCTAGA
25245179 TTATGTTTTCTAGA
1 TTATGTTTTCTAGA
25245193 TT
1 TT
25245195 TTTAGAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (14 bp):
TTATGTTTTCTAGA
Found at i:25248036 original size:536 final size:541
Alignment explanation
Indices: 25247021--25248052 Score: 1304
Period size: 536 Copynumber: 1.9 Consensus size: 541
25247011 ATCCAATAGA
* *
25247021 GATTTTGTTATTCCATATAAGCTTGTGAAAGCTATAACAAAATACCATCATCTCTCTAATGTACC
1 GATTTTGTTATTCCACATAAGCTTGTGAAAGCTATAACAAAATACCATAATCTCTCTAATGTACC
* * * * * *
25247086 AAATGCCCTATACCAAATAGCAAAATTCCTCGTGTATAATTAAATCTCTAATCAGATATCAAATG
66 AAATGCCCTATACCAAATAGCAAAATTCCTCGCGTATAATCAAATCTCTAACCAAATACCAAATA
* * * *
25247151 ATTTCTAATGATACAAAAATTACATATCAAATTCCAAATTTCCCGATCATTTCATCATCATCATC
131 ATTTCTAATGATACAAAAATTACATAACAAATTCCAAATTTCCCAATCAATTCACCATCATCATC
* *
25247216 ATCTTCCCTCAGGTGCCTGAATTTTCCAAAAAAATTTAAACAAAAATGCAAACATAACTTTTACT
196 ATCTTCCCTCAGATGCCTGAATTGTCC--AAAAA--TAAACAAAAATGCAAACA-AACTTTTACT
* * * *
25247281 TTATTTGGGGCAAGTACTCTCCTCCTCCTCCTCTTCTTTTTTTTTTCTTCTAATTCTAGACTACA
256 TTATTTGGGGCAAATACTCTCCT-CTCCTCCTCTTATTTTTTTTTTCTTCTAATTCTAAAATACA
* * * *
25247346 CAAAAATTTCCTCATCCATTTTCAAATGGGAGTTGCTTGCAATTCTTGCATGTTTTGTTATTCAT
320 CAAAAATAT-CTCATCCATTTTCAAATGGGAGTTGCTTGAAATTCATGCATGTTTTGTTATCCAT
* **
25247411 TAAAACACCGTGTATACCATAGATATTTGTGTACTACATTAGGGGTTTTGTATCCTTTAATTTAT
384 TAAAACACCATGTATACCATAGATATTTGTGTACTACATTAGGGGTTTTGTATCCTTT-ATCAAT
** *
25247476 TTTGTTATTCCATATAAATTTGTGAAATGTATAACAAAATACCATAATCTCTACATATTTTGGTA
448 TTTGTTATTCCATATAAATTTGTGAAAACTATAAAAAAATACCATAATCTCTACATATTTTGGTA
25247541 TAGCATTAGGTATTTTAGCATTTGATTGG
513 TAGCATTAGGTATTTTAGCATTTGATTGG
* *
25247570 GATTTTGTTATTCCACATAAGCTTGTGAAAGCTATAACAAAATACTATAATCTCTCTCATGTACC
1 GATTTTGTTATTCCACATAAGCTTGTGAAAGCTATAACAAAATACCATAATCTCTCTAATGTACC
* * * *
25247635 AAATGTCTTATACCAAAATAGCAAAATTCCTCGCGTATAATCAAATCTTTGACCAAATACCAAAT
66 AAATGCCCTATACC-AAATAGCAAAATTCCTCGCGTATAATCAAATCTCTAACCAAATACCAAAT
* ** *
25247700 AATTTCTAATGATACAAAAATTAC-TAACCAATTACTGAATTTCCCAATCAATTCACCATCTTTT
130 AATTTCTAATGATACAAAAATTACATAACAAATT-CCAAATTTCCCAATCAATTCACCATC---A
** * * **
25247764 TTTTCTTCTTCCCTCATATGCCTGAATCTGT-C-AAAA-AAA-AAAAA-G-AGTC-AACTTTTAC
191 TCATCATCTTCCCTCAGATGCCTGAAT-TGTCCAAAAATAAACAAAAATGCAAACAAACTTTTAC
25247822 TTTATTTGGGGCAAATACTCTCCT-T-CTCCTCTTATTCTTTTTTTT-TTCTAATTCTAAAATAC
255 TTTATTTGGGGCAAATACTCTCCTCTCCTCCTCTTATT-TTTTTTTTCTTCTAATTCTAAAATAC
*
25247884 AGAAAAA-AT-TCATCCATTTTCAAATGGGAGTTGCTTGAAATTCATGCA-GATTTTGTTATCCA
319 ACAAAAATATCTCATCCATTTTCAAATGGGAGTTGCTTGAAATTCATGCATG-TTTTGTTATCCA
* ** * * * *
25247946 TTACAACATTATGTATA-CATTAGATATTTGTGTATTGCATTAAGGGTTTTTGTGTCCTTT-TGC
383 TTAAAACACCATGTATACCA-TAGATATTTGTGTACTACATT-AGGGGTTTTGTATCCTTTAT-C
*
25248009 AATTTTGTTATTCCATATAAGTTTGTGAAAACTATAAAAAAATA
445 AATTTTGTTATTCCATATAAATTTGTGAAAACTATAAAAAAATA
25248053 TGATGGTCAC
Statistics
Matches: 419, Mismatches: 53, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
535 4 0.01
536 119 0.28
537 16 0.04
538 1 0.00
539 31 0.07
540 9 0.02
542 32 0.08
544 2 0.00
545 1 0.00
546 5 0.01
547 3 0.01
549 80 0.19
550 91 0.22
553 23 0.05
554 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (541 bp):
GATTTTGTTATTCCACATAAGCTTGTGAAAGCTATAACAAAATACCATAATCTCTCTAATGTACC
AAATGCCCTATACCAAATAGCAAAATTCCTCGCGTATAATCAAATCTCTAACCAAATACCAAATA
ATTTCTAATGATACAAAAATTACATAACAAATTCCAAATTTCCCAATCAATTCACCATCATCATC
ATCTTCCCTCAGATGCCTGAATTGTCCAAAAATAAACAAAAATGCAAACAAACTTTTACTTTATT
TGGGGCAAATACTCTCCTCTCCTCCTCTTATTTTTTTTTTCTTCTAATTCTAAAATACACAAAAA
TATCTCATCCATTTTCAAATGGGAGTTGCTTGAAATTCATGCATGTTTTGTTATCCATTAAAACA
CCATGTATACCATAGATATTTGTGTACTACATTAGGGGTTTTGTATCCTTTATCAATTTTGTTAT
TCCATATAAATTTGTGAAAACTATAAAAAAATACCATAATCTCTACATATTTTGGTATAGCATTA
GGTATTTTAGCATTTGATTGG
Found at i:25263687 original size:40 final size:40
Alignment explanation
Indices: 25263623--25263741 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
25263613 ATCCAGTGTT
*
25263623 CCATTTTATATATCTTTTTCCATATAACCGGTTCGTATAA
1 CCATTTTATATATCTTTTTCCATATAACCGATTCGTATAA
* * *
25263663 CTATTTCATATATCATTTTT-CATATAACCGATTTGTATAA
1 CCATTTTATATATC-TTTTTCCATATAACCGATTCGTATAA
* *
25263703 CCATTTTATATAT-TTATTTCCATATAACCAATTCATATA
1 CCATTTTATATATCTT-TTTCCATATAACCGATTCGTATA
25263742 TCATTTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 57 0.85
41 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (40 bp):
CCATTTTATATATCTTTTTCCATATAACCGATTCGTATAA
Found at i:25263770 original size:68 final size:67
Alignment explanation
Indices: 25263658--25263789 Score: 210
Period size: 68 Copynumber: 2.0 Consensus size: 67
25263648 AACCGGTTCG
* * * *
25263658 TATAACTATTTCATATATCATTTTTCATATAACCGATTTGTATAACCATTTTATATATTTATTTC
1 TATAACCAATTCATATATCATTTTTCAGATAACCGATTTGTATAACCATTTCATATATTTATTTC
25263723 CA
66 CA
*
25263725 TATAACCAATTCATATATCATTTTTTTAGATAACCGATTTGTATAACCATTTCATATATTTATTT
1 TATAACCAATTCATATATCA-TTTTTCAGATAACCGATTTGTATAACCATTTCATATATTTATTT
25263790 TCATTTACAC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
67 18 0.31
68 41 0.69
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.48
Consensus pattern (67 bp):
TATAACCAATTCATATATCATTTTTCAGATAACCGATTTGTATAACCATTTCATATATTTATTTC
CA
Found at i:25265030 original size:20 final size:20
Alignment explanation
Indices: 25264983--25265030 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
25264973 TAATCCATTT
*
25264983 AATTAATAAAATTCAATAGC
1 AATTAATTAAATTCAATAGC
25265003 AATTAATTAAATTCAATAGC
1 AATTAATTAAATTCAATAGC
25265023 AATTAATT
1 AATTAATT
25265031 TTTGCAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
AATTAATTAAATTCAATAGC
Found at i:25271527 original size:30 final size:30
Alignment explanation
Indices: 25271491--25271573 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
25271481 TCAGAATATG
*
25271491 GAAGCCTTTGTGGCTGTTCTCTGATAAGTA
1 GAAGCCTTTGTGGCTATTCTCTGATAAGTA
* ** *
25271521 GAAGCCTTTGTTGCTATTCTCAAATAAGTG
1 GAAGCCTTTGTGGCTATTCTCTGATAAGTA
*
25271551 GAAGCCTATGTGGCTATTCTCTG
1 GAAGCCTTTGTGGCTATTCTCTG
25271574 TTATACGTGA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (30 bp):
GAAGCCTTTGTGGCTATTCTCTGATAAGTA
Found at i:25271667 original size:55 final size:56
Alignment explanation
Indices: 25271572--25271693 Score: 192
Period size: 55 Copynumber: 2.2 Consensus size: 56
25271562 GGCTATTCTC
* * *
25271572 TGTTATACGTGAGCCGTTGTGGCTGATTCTGTTAAATGCGCCTTCGTGACAAAGTA
1 TGTTATATGTGAGCCATTGTGGCTGATTCTGTTAAATGCGCCTTCATGACAAAGTA
* *
25271628 TGTTATATGTGAGCCATTGT-GCTGATTTTGTTAAATGCGCCTTCATGACAAAGTC
1 TGTTATATGTGAGCCATTGTGGCTGATTCTGTTAAATGCGCCTTCATGACAAAGTA
25271683 TGTTATATGTG
1 TGTTATATGTG
25271694 GACTCTTTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
55 43 0.70
56 18 0.30
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (56 bp):
TGTTATATGTGAGCCATTGTGGCTGATTCTGTTAAATGCGCCTTCATGACAAAGTA
Found at i:25275711 original size:176 final size:177
Alignment explanation
Indices: 25275396--25275740 Score: 620
Period size: 176 Copynumber: 2.0 Consensus size: 177
25275386 TCGAATCTCG
*
25275396 ATTTTGGCTTACACAGGTTTTTTTTACTCAAGGAAATTTTTTAAAGTGTATAATGTCTCAACAAC
1 ATTTTGGCTTACACAGGTTTTTTTTACTCAAAGAAATTTTTTAAAGTGTATAATGTCTCAACAAC
25275461 AAACAATAAAGTAAAGACCCTCAAACAAGAAAATAAATAAAAGCCACAATTTCCACTTAGTAATA
66 AAACAATAAAGTAAAGACCCTCAAACAAGAAAATAAATAAAAGCCACAATTTCCACTTAGTAATA
25275526 AAAAATAAACAAGAGATAAATCATGTATCACATAAGACCCATATATT
131 AAAAATAAACAAGAGATAAATCATGTATCACATAAGACCCATATATT
* *
25275573 ATTTTGGCTTACACAGGTTTTTTTTACTCAAAGTAATTTTTTAGAGTGTATAATGTCTCAACAAC
1 ATTTTGGCTTACACAGGTTTTTTTTACTCAAAGAAATTTTTTAAAGTGTATAATGTCTCAACAAC
* * *
25275638 GAACAATAAAGTAAAGA-CCTCAAACAAGAAAATAAATAAAAGCCACAATTTCCATTTAGTAATC
66 AAACAATAAAGTAAAGACCCTCAAACAAGAAAATAAATAAAAGCCACAATTTCCACTTAGTAATA
*
25275702 AACAATAAACAAGAGATAAATCATGTATCACATAAGACC
131 AAAAATAAACAAGAGATAAATCATGTATCACATAAGACC
25275741 GATACATCAA
Statistics
Matches: 161, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
176 83 0.52
177 78 0.48
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (177 bp):
ATTTTGGCTTACACAGGTTTTTTTTACTCAAAGAAATTTTTTAAAGTGTATAATGTCTCAACAAC
AAACAATAAAGTAAAGACCCTCAAACAAGAAAATAAATAAAAGCCACAATTTCCACTTAGTAATA
AAAAATAAACAAGAGATAAATCATGTATCACATAAGACCCATATATT
Done.