Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 75 of 235
Found at i:25826701 original size:40 final size:40
Alignment explanation
Indices: 25826657--25826918 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
25826647 GCTCCTCGTT
* *
25826657 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25826697 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25826737 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25826776 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
25826815 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
25826854 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
25826895 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25826919 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:25834106 original size:89 final size:89
Alignment explanation
Indices: 25833955--25834132 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
25833945 TGTGTATTAA
25833955 AAGGATATTAAATAAAAATAAAACATAACAAAACATGCATGTGTTCATCTTGGTTGTCAAAACTG
1 AAGGATATTAAATAAAAATAAAACATAACAAAACATGCATGTGTTCATCTTGGTTGTCAAAACTG
25834020 AAAAAGGAAAGAGAAAAAAAAGAG
66 AAAAAGGAAAGAGAAAAAAAAGAG
*
25834044 AAGGATATTAAATAAAAATAAAACATAACAAAACATGCATGTGTTCATCTTGGTTGTCAAAACTT
1 AAGGATATTAAATAAAAATAAAACATAACAAAACATGCATGTGTTCATCTTGGTTGTCAAAACTG
25834109 AAAAAGGAAAGAGAAAAAAAAGAG
66 AAAAAGGAAAGAGAAAAAAAAGAG
25834133 TTTTAAATGA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (89 bp):
AAGGATATTAAATAAAAATAAAACATAACAAAACATGCATGTGTTCATCTTGGTTGTCAAAACTG
AAAAAGGAAAGAGAAAAAAAAGAG
Found at i:25835096 original size:43 final size:42
Alignment explanation
Indices: 25834952--25835096 Score: 116
Period size: 42 Copynumber: 3.4 Consensus size: 42
25834942 TGTTATTTTG
* * * * *
25834952 TGTAAGACCACGTCAGGGACGTTGGCATCGATTTGTGATTTACA
1 TGTAAGACCACATCTGGGAC-ATGGCATCGATATGAGA-TTACA
*** * *
25834996 TGTAAGACCGTGTCTGGAACATCGGCATCGTATATGAG-TT-CG
1 TGTAAGACCACATCTGGGACAT-GGCATCG-ATATGAGATTACA
*
25835038 TGTAAGACC-CTATCTGGGACAATGGCATCGATATGCGATTACA
1 TGTAAGACCAC-ATCTGGGAC-ATGGCATCGATATGAGATTACA
25835081 TGTAAGACCACATCTG
1 TGTAAGACCACATCTG
25835097 AGACGTTGGC
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
41 6 0.07
42 26 0.32
43 20 0.25
44 24 0.30
45 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATGGCATCGATATGAGATTACA
Found at i:25835843 original size:54 final size:54
Alignment explanation
Indices: 25835785--25836046 Score: 251
Period size: 54 Copynumber: 4.9 Consensus size: 54
25835775 ATTAGGGTTT
* * * *
25835785 AAGGATACCAAGTAAGACCATGGCAAGGCATGGCATTGGTAAGTTTTACAATGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTTACAAGGC
* *
25835839 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTTACAAGGC
* * * * * * *** *
25835893 AAGGAAATCATGTAAGACCATGTTAAGATATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT-AAGTTTTACAAGGC
* * * * * * *
25835948 GAA-GATCCCATGTACGACCATG-CTAAGGCATGGCAATGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAGTTTTACAAGGC
* *
25836001 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTT
25836047 GAAAAGGAAA
Statistics
Matches: 169, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
52 2 0.01
53 40 0.24
54 89 0.53
55 36 0.21
56 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTTACAAGGC
Found at i:25835853 original size:27 final size:27
Alignment explanation
Indices: 25835823--25835908 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
25835813 CATGGCATTG
25835823 GTAAGTTTTACAATGCAAGGAAATCAT
1 GTAAGTTTTACAATGCAAGGAAATCAT
* *
25835850 GTAAG----ACCATGTCAA-GACATGGCATT
1 GTAAGTTTTACAATG-CAAGGAAAT--CA-T
*
25835876 GGTAAGTTTTACAAGGCAAGGAAATCAT
1 -GTAAGTTTTACAATGCAAGGAAATCAT
25835904 GTAAG
1 GTAAG
25835909 ACCATGTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 20
0.64 0.07 0.29
Matches are distributed among these distances:
23 9 0.20
24 3 0.07
25 2 0.05
26 1 0.02
27 15 0.34
28 1 0.02
29 2 0.05
30 3 0.07
31 8 0.18
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (27 bp):
GTAAGTTTTACAATGCAAGGAAATCAT
Found at i:25838943 original size:38 final size:39
Alignment explanation
Indices: 25838897--25839005 Score: 119
Period size: 31 Copynumber: 3.0 Consensus size: 39
25838887 AATACTCCAT
25838897 AGTGTCCAATTACAACACGAAAATTATAACTAAGTCTAA
1 AGTGTCCAATTACAACACGAAAATTATAACTAAGTCTAA
* * *
25838936 AGT-TCCAAATTA-AAC-C---AATTA-AA-T-ACTCCAT
1 AGTGTCC-AATTACAACACGAAAATTATAACTAAGTCTAA
25838967 AGTGTCCAATTACAACACGAAAATTATAACTAAGTCTAA
1 AGTGTCCAATTACAACACGAAAATTATAACTAAGTCTAA
25839006 TACTAAATCC
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
31 12 0.22
32 7 0.13
33 3 0.06
34 5 0.09
36 5 0.09
37 3 0.06
38 7 0.13
39 12 0.22
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (39 bp):
AGTGTCCAATTACAACACGAAAATTATAACTAAGTCTAA
Found at i:25838948 original size:70 final size:70
Alignment explanation
Indices: 25838864--25839005 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
25838854 TGCAATGATA
25838864 AAAGTTACAAATTAAACCAATTAAATACTCCATAGTGTCCAATTACAACACGAAAATTATAACTA
1 AAAGTTACAAATTAAACCAATTAAATACTCCATAGTGTCCAATTACAACACGAAAATTATAACTA
25838929 AGTCT
66 AGTCT
*
25838934 AAAGTTCCAAATTAAACCAATTAAATACTCCATAGTGTCCAATTACAACACGAAAATTATAACTA
1 AAAGTTACAAATTAAACCAATTAAATACTCCATAGTGTCCAATTACAACACGAAAATTATAACTA
25838999 AGTCT
66 AGTCT
25839004 AA
1 AA
25839006 TACTAAATCC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27
Consensus pattern (70 bp):
AAAGTTACAAATTAAACCAATTAAATACTCCATAGTGTCCAATTACAACACGAAAATTATAACTA
AGTCT
Found at i:25838978 original size:31 final size:31
Alignment explanation
Indices: 25838873--25838978 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 31
25838863 AAAAGTTACA
25838873 AATTAAACCAATTAAATACTCCATAGTGTCC
1 AATTAAACCAATTAAATACTCCATAGTGTCC
* * *
25838904 AATTACAACACGAAAATTATAACTAAGTCTAAAGT-TCC
1 AATTA-AAC-C---AATTA-AA-T-ACTCCATAGTGTCC
25838942 AAATTAAACCAATTAAATACTCCATAGTGTCC
1 -AATTAAACCAATTAAATACTCCATAGTGTCC
25838974 AATTA
1 AATTA
25838979 CAACACGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
31 17 0.29
32 7 0.12
33 3 0.05
34 5 0.08
36 5 0.08
37 3 0.05
38 7 0.12
39 12 0.20
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (31 bp):
AATTAAACCAATTAAATACTCCATAGTGTCC
Found at i:25839434 original size:17 final size:17
Alignment explanation
Indices: 25839428--25839487 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
25839418 GAAAAATAAT
25839428 AGTTCATACAAAATATC
1 AGTTCATACAAAATATC
** **
25839445 AGTTCATACCGAATAAA
1 AGTTCATACAAAATATC
* * *
25839462 AATTCATGCAAAATAGC
1 AGTTCATACAAAATATC
25839479 AGTTCATAC
1 AGTTCATAC
25839488 TCCATCATAA
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (17 bp):
AGTTCATACAAAATATC
Found at i:25844825 original size:21 final size:21
Alignment explanation
Indices: 25844801--25844842 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25844791 TTCCAAGCAA
*
25844801 AAAGGG-GCACACGCCTGTGTG
1 AAAGGGTG-ACACGCCCGTGTG
25844822 AAAGGGTGACACGCCCGTGTG
1 AAAGGGTGACACGCCCGTGTG
25844843 TCTTCTTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.14
Consensus pattern (21 bp):
AAAGGGTGACACGCCCGTGTG
Found at i:25846437 original size:48 final size:48
Alignment explanation
Indices: 25846062--25846475 Score: 508
Period size: 48 Copynumber: 8.6 Consensus size: 48
25846052 GTAAATTGTT
* * ** ** *
25846062 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATGTCAAGGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCT-CATAACATTGCC
* * * * * * ** *
25846110 GAGGCCATGTACCAGACATGGCCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* * *
25846158 GATGCCATG-TCCTAGACATGGTCTTACTCTGGCTCTCGTAACATTGCC
1 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAACATTGCC
* *
25846206 GATGCGATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTACC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* * *
25846254 GATGCCATATTCCAAACATGGTCTTACACTGGCTCTCATAATATTGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* * *
25846302 GATGCCATGTTCCAAACGTGATCTTACACTAGCTCTCATAACATTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
* * **
25846350 GATGCCATGTTCCAAACAAGGTCTTACACTGGTTCTCATAACATTATC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
25846398 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
*
25846446 GATGCCATGTTCCAAATATGGTCTTACACT
1 GATGCCATGTTCCAAACATGGTCTTACACT
25846476 AGCACACATA
Statistics
Matches: 319, Mismatches: 44, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 2 0.01
48 313 0.98
49 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCC
Found at i:25855264 original size:46 final size:46
Alignment explanation
Indices: 25855197--25855555 Score: 208
Period size: 46 Copynumber: 7.7 Consensus size: 46
25855187 TGTAACCCGC
* * *
25855197 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
* * *
25855243 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCAT
* * *
25855293 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTC-GGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCAT
* *
25855336 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG--G-C--GTTCGCAT
* * * * *
25855386 -C-TCA-CGAACTCAGACTCAGCTAAACGAGTTC-GGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCAT
* * * * *
25855429 CCATTAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCAT
* * * *
25855479 -C-TCACG-G-ACTCGGACTCAATTCAACGAGTTCAGACGTCCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
* *
25855522 CCATAAGTGAACTCAGACTCAACTCAATGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
25855556 GGATGCCCAA
Statistics
Matches: 239, Mismatches: 43, Indels: 62
0.69 0.12 0.18
Matches are distributed among these distances:
42 8 0.03
43 10 0.04
44 10 0.04
45 7 0.03
46 99 0.41
47 70 0.29
48 7 0.03
49 9 0.04
50 10 0.04
51 9 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
Found at i:25855315 original size:47 final size:47
Alignment explanation
Indices: 25855251--25855509 Score: 228
Period size: 47 Copynumber: 5.6 Consensus size: 47
25855241 ATCCATAAGT
*
25855251 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
25855298 GAACTCGGACTCAACTCAATGAGTTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
* *
25855344 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * * * * *
25855391 GAACTCAGACTCAGCTAAACGAGTTCGGACG-TTCGCATCCAT-T-AGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA-C
* *
25855437 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
25855484 GGACTCGGACTCAATTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
25855510 AGACGTCCGC
Statistics
Matches: 163, Mismatches: 35, Indels: 28
0.72 0.15 0.12
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 3 0.02
46 58 0.36
47 83 0.51
48 3 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25855317 original size:93 final size:93
Alignment explanation
Indices: 25855204--25855562 Score: 540
Period size: 93 Copynumber: 3.9 Consensus size: 93
25855194 CGCCCATAAG
* * *
25855204 CGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
25855268 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
25855297 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
25855362 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * * *
25855390 CGAACTCAGACTCAGCTAAACGAGTTCGGACGTTCGCATCCATTAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
25855455 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
25855483 CGGACTCGGACTCAATTCAACGAGTTCAGACGTCCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
25855548 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
25855563 CAAATATCTG
Statistics
Matches: 240, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 2 0.01
93 238 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:25860423 original size:75 final size:74
Alignment explanation
Indices: 25860300--25860448 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 74
25860290 AAAGCACTTA
*
25860300 TTTATAGTCTAAGCCCGACTTACCTCTCCATTGTATGATCATGGTGGTTCGAGGAGTTTATACTC
1 TTTATAGTCTAAGCCCGACTTACCTCTCCATTGAATGATCATGGTGGTTCGAGGAGTTTATACTC
25860365 CTCATTCCT
66 CTCATTCCT
* * * * * *
25860374 NTTTATAGTCTAAGCTCGACTTATCTCTCCGTTGAAT-AGTCATGGTGGTTTGAGGAGTTTTTTC
1 -TTTATAGTCTAAGCCCGACTTACCTCTCCATTGAATGA-TCATGGTGGTTCGAGGAGTTTATAC
25860438 TCCTCATTCCT
64 TCCTCATTCCT
25860449 GCTGTCAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 1 0.02
75 65 0.98
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (74 bp):
TTTATAGTCTAAGCCCGACTTACCTCTCCATTGAATGATCATGGTGGTTCGAGGAGTTTATACTC
CTCATTCCT
Found at i:25871198 original size:99 final size:98
Alignment explanation
Indices: 25871016--25871247 Score: 279
Period size: 99 Copynumber: 2.3 Consensus size: 98
25871006 TCTATTGTGA
* * ** * *
25871016 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATAC-T-TACCCAAAAACTGTGATCACGTGTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTAC--TACGTGTACCGGATAA-T-TGGTCACGTGTGT
* **
25871079 AGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
62 AGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
*
25871116 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGT
* *
25871181 ACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 ACTAAGTGCAAGCTACTACGTGTACCAGATAATT
* *
25871215 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
25871248 TGCGTACCTG
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 30 0.26
99 47 0.41
100 2 0.02
101 35 0.31
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGTA
CTAAGTGCAAGCTACTACGTGTACCAGATAATT
Found at i:25871255 original size:49 final size:49
Alignment explanation
Indices: 25871069--25871247 Score: 277
Period size: 49 Copynumber: 3.6 Consensus size: 49
25871059 AAAACTGTGA
* * * **
25871069 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GG
25871119 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
25871168 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
* * *
25871217 TCGCATGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
25871248 TGCGTACCTG
Statistics
Matches: 121, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 79 0.65
50 42 0.35
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
Found at i:25874279 original size:15 final size:14
Alignment explanation
Indices: 25874259--25874312 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
25874249 GTATCTTGGG
25874259 TTTCTTTACTCTGGA
1 TTTCTTTA-TCTGGA
*
25874274 TTTCTTTATTCTGGG
1 TTTCTTTA-TCTGGA
*
25874289 TTTCTCTATCTTGGA
1 TTTCTTTATC-TGGA
*
25874304 TTTATTTAT
1 TTTCTTTAT
25874313 TCGGTTTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 2 0.06
15 30 0.94
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.59
Consensus pattern (14 bp):
TTTCTTTATCTGGA
Found at i:25874291 original size:30 final size:30
Alignment explanation
Indices: 25874255--25874323 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
25874245 TATCGTATCT
*
25874255 TGGGTTTCTTTA-CTCTGGATTTCTTTATTC
1 TGGGTTTCTTTATCT-TGGATTTATTTATTC
*
25874285 TGGGTTTCTCTATCTTGGATTTATTTATTC
1 TGGGTTTCTTTATCTTGGATTTATTTATTC
*
25874315 -GGTTTTCTT
1 TGGGTTTCTT
25874324 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 25 0.74
31 2 0.06
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTTATTTATTC
Found at i:25876569 original size:49 final size:51
Alignment explanation
Indices: 25876454--25876602 Score: 176
Period size: 49 Copynumber: 3.0 Consensus size: 51
25876444 TCTATTGTGA
* * * *
25876454 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATACGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
* * * * * * *
25876505 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
*
25876554 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAACT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACT
25876603 TTGGCTACAA
Statistics
Matches: 79, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 40 0.51
50 2 0.03
51 37 0.47
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGT
Found at i:25878767 original size:13 final size:13
Alignment explanation
Indices: 25878749--25878774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25878739 TACTTACTAC
25878749 CACAATTCACAGT
1 CACAATTCACAGT
25878762 CACAATTCACAGT
1 CACAATTCACAGT
25878775 TACATCATGA
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
CACAATTCACAGT
Found at i:25882384 original size:185 final size:185
Alignment explanation
Indices: 25882072--25882444 Score: 719
Period size: 185 Copynumber: 2.0 Consensus size: 185
25882062 GTTTCTAGGA
*
25882072 AATCTCGATGGGATACCCATTATCTGTCAATTCATTCAAATGATCTTTCTATATATGCACTTCCG
1 AATCTCGATGGAATACCCATTATCTGTCAATTCATTCAAATGATCTTTCTATATATGCACTTCCG
*
25882137 CGAACCTCACGTCATATTGCAGGATTACTAGTCCAAGCTAAATCCCCAATTATATGAACTCATAA
66 CGAACCTCACATCATATTGCAGGATTACTAGTCCAAGCTAAATCCCCAATTATATGAACTCATAA
25882202 GGTGATGTCGGGATTGTCAGTCCAGGCTAAATCCCTTATAACGACAATCACCCTT
131 GGTGATGTCGGGATTGTCAGTCCAGGCTAAATCCCTTATAACGACAATCACCCTT
25882257 AATCTCGATGGAATACCCATTATCTGTCAATTCATTCAAATGATCTTTCTATATATGCACTTCCG
1 AATCTCGATGGAATACCCATTATCTGTCAATTCATTCAAATGATCTTTCTATATATGCACTTCCG
*
25882322 CGAACCTCACATCATATTGCAGGATTACTAGTCCAAGCTAAATCCCCCATTATATGAACTCATAA
66 CGAACCTCACATCATATTGCAGGATTACTAGTCCAAGCTAAATCCCCAATTATATGAACTCATAA
25882387 GGTGATGTCGGGATTGTCAGTCCAGGCTAAATCCCTTATAACGACAATCACCCTT
131 GGTGATGTCGGGATTGTCAGTCCAGGCTAAATCCCTTATAACGACAATCACCCTT
25882442 AAT
1 AAT
25882445 GAGCTAAGAT
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 185 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (185 bp):
AATCTCGATGGAATACCCATTATCTGTCAATTCATTCAAATGATCTTTCTATATATGCACTTCCG
CGAACCTCACATCATATTGCAGGATTACTAGTCCAAGCTAAATCCCCAATTATATGAACTCATAA
GGTGATGTCGGGATTGTCAGTCCAGGCTAAATCCCTTATAACGACAATCACCCTT
Found at i:25882877 original size:152 final size:152
Alignment explanation
Indices: 25882601--25882908 Score: 607
Period size: 152 Copynumber: 2.0 Consensus size: 152
25882591 GAGATCACGG
25882601 ATTACCCGTACGAGCTAAATCCTTACTGCAACACATGCAGGATCTCTTTTTACATGTAAAACATG
1 ATTACCCGTACGAGCTAAATCCTTACTGCAACACATGCAGGATCTCTTTTTACATGTAAAACATG
25882666 GCTTATCCATCGAATTCCCTTTTAACCTCAACCGAGACGGCTATCAACAAGTTATTATCAAAGAC
66 GCTTATCCATCGAATTCCCTTTTAACCTCAACCGAGACGGCTATCAACAAGTTATTATCAAAGAC
25882731 GCATTTCATGCATTTTCATGCT
131 GCATTTCATGCATTTTCATGCT
25882753 ATTACCCGTACGAGCTAAATCCTTACTGCAACACATGCAGGATCTCTTTTTACATGTAAAACATG
1 ATTACCCGTACGAGCTAAATCCTTACTGCAACACATGCAGGATCTCTTTTTACATGTAAAACATG
25882818 GCTTATCCATCGAATTCCCTTTTAACCTCAACCGAGACGGCTATCAACAAGTTATTATCAAAGAC
66 GCTTATCCATCGAATTCCCTTTTAACCTCAACCGAGACGGCTATCAACAAGTTATTATCAAAGAC
*
25882883 GCATTTCATGCGTTTTCATGCT
131 GCATTTCATGCATTTTCATGCT
25882905 ATTA
1 ATTA
25882909 ATAATGCAAT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 155 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (152 bp):
ATTACCCGTACGAGCTAAATCCTTACTGCAACACATGCAGGATCTCTTTTTACATGTAAAACATG
GCTTATCCATCGAATTCCCTTTTAACCTCAACCGAGACGGCTATCAACAAGTTATTATCAAAGAC
GCATTTCATGCATTTTCATGCT
Found at i:25885053 original size:246 final size:246
Alignment explanation
Indices: 25884618--25885111 Score: 934
Period size: 246 Copynumber: 2.0 Consensus size: 246
25884608 CTACGACAAT
*
25884618 AATTTAAAAGGCCTTCATCCAAGCACCCAAGGTTTTATTAACTTAAAACTAAACTTTTTGCTAAA
1 AATTTAAAAAGCCTTCATCCAAGCACCCAAGGTTTTATTAACTTAAAACTAAACTTTTTGCTAAA
25884683 GCCCAGGTTTGAACCCAAGACTTTTCCAACTCCCCTCAGGACCCTTAACTACTTGAGTAGACATT
66 GCCCAGGTTTGAACCCAAGACTTTTCCAACTCCCCTCAGGACCCTTAACTACTTGAGTAGACATT
*
25884748 TAATTGTGTCATTTCCTGACACAATTAAATACTTATATACAACCTCCTTACGGACCCACACTAAA
131 TAATTGTGTCATTTCCTGACACAATTAAATACTTATATACAACCTCCTTACGAACCCACACTAAA
25884813 GGCCCAATACTTCTAGGCCCAAATTTGGGGCGTTACAATCTACCCCCTTAA
196 GGCCCAATACTTCTAGGCCCAAATTTGGGGCGTTACAATCTACCCCCTTAA
*
25884864 AATTTAAAAAGCCTTCATCCAAGCACCCAGGGTTTTATTAACTTAAAACTAAACTTTTTGCTAAA
1 AATTTAAAAAGCCTTCATCCAAGCACCCAAGGTTTTATTAACTTAAAACTAAACTTTTTGCTAAA
25884929 GCCCAGGTTTGAACCCAAGACTTTTCCAACTCCCCTCAGGACCCTTAACTACTTGAGTAGACATT
66 GCCCAGGTTTGAACCCAAGACTTTTCCAACTCCCCTCAGGACCCTTAACTACTTGAGTAGACATT
*
25884994 TAATTGTGTCATTTCCTTACACAATTAAATACTTATATACAACCTCCTTACGAACCCACACTAAA
131 TAATTGTGTCATTTCCTGACACAATTAAATACTTATATACAACCTCCTTACGAACCCACACTAAA
* *
25885059 GGGCCAATACTTCTAGGCCCAAATTTGGGGCGTTACAATCTACCTCCTTAA
196 GGCCCAATACTTCTAGGCCCAAATTTGGGGCGTTACAATCTACCCCCTTAA
25885110 AA
1 AA
25885112 AAATTTCGTC
Statistics
Matches: 242, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
246 242 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (246 bp):
AATTTAAAAAGCCTTCATCCAAGCACCCAAGGTTTTATTAACTTAAAACTAAACTTTTTGCTAAA
GCCCAGGTTTGAACCCAAGACTTTTCCAACTCCCCTCAGGACCCTTAACTACTTGAGTAGACATT
TAATTGTGTCATTTCCTGACACAATTAAATACTTATATACAACCTCCTTACGAACCCACACTAAA
GGCCCAATACTTCTAGGCCCAAATTTGGGGCGTTACAATCTACCCCCTTAA
Found at i:25895672 original size:62 final size:62
Alignment explanation
Indices: 25895575--25895694 Score: 231
Period size: 62 Copynumber: 1.9 Consensus size: 62
25895565 AGGTCCATTC
25895575 CATGGGGGTAAAAATTTATGATAAGGGCAAAGCCACTTTCCTTTGCATTTTACTTATGCTCT
1 CATGGGGGTAAAAATTTATGATAAGGGCAAAGCCACTTTCCTTTGCATTTTACTTATGCTCT
*
25895637 CATGGGGGTAAAAATTTATGATAAGGGCAAAGCCACTTTCCTTTGCATTTTGCTTATG
1 CATGGGGGTAAAAATTTATGATAAGGGCAAAGCCACTTTCCTTTGCATTTTACTTATG
25895695 TTCTTTCCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (62 bp):
CATGGGGGTAAAAATTTATGATAAGGGCAAAGCCACTTTCCTTTGCATTTTACTTATGCTCT
Found at i:25896896 original size:12 final size:13
Alignment explanation
Indices: 25896878--25896914 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
25896868 ACTTAATGAT
25896878 TAATTAAATTATA
1 TAATTAAATTATA
25896891 -AATT-AA-TATA
1 TAATTAAATTATA
25896901 TAATTAAATTATA
1 TAATTAAATTATA
25896914 T
1 T
25896915 TTTAACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 6 0.29
13 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAAATTATA
Found at i:25896919 original size:23 final size:23
Alignment explanation
Indices: 25896870--25896913 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
25896860 ATACAATCAC
25896870 TTAATGATTAATTAAATTATAAA
1 TTAATGATTAATTAAATTATAAA
25896893 TTAAT-ATATAATTAAATTATA
1 TTAATGAT-TAATTAAATTATA
25896914 TTTTAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAATGATTAATTAAATTATAAA
Found at i:25896956 original size:29 final size:29
Alignment explanation
Indices: 25896900--25896958 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
25896890 AAATTAATAT
* * *
25896900 ATAATTAAATTATATTTTAACCTTTCAAA
1 ATAATAAAATTATATTTTAACATCTCAAA
*
25896929 ATAATAAAATTATATTTTAATATCTCAAA
1 ATAATAAAATTATATTTTAACATCTCAAA
25896958 A
1 A
25896959 ATTTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAATAAAATTATATTTTAACATCTCAAA
Found at i:25902214 original size:16 final size:16
Alignment explanation
Indices: 25902175--25902214 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
25902165 TATTTTTTAA
* *
25902175 ATAAAATAATGCACAT
1 ATAAAATTATGAACAT
*
25902191 ATAAAATTATGAATAT
1 ATAAAATTATGAACAT
25902207 ATAAAATT
1 ATAAAATT
25902215 TAATTTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAAAATTATGAACAT
Found at i:25904752 original size:16 final size:16
Alignment explanation
Indices: 25904733--25904766 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
25904723 ATTTAACTTC
25904733 AAAAATTATAAATA-TT
1 AAAAATTA-AAATAGTT
25904749 AAAAATTAAAATAGTT
1 AAAAATTAAAATAGTT
25904765 AA
1 AA
25904767 TTGAGATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAATTAAAATAGTT
Found at i:25909817 original size:18 final size:17
Alignment explanation
Indices: 25909796--25909843 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
25909786 AAAGAAGAGC
*
25909796 AAAAGTACAAAATAAATA
1 AAAAGTA-AAAACAAATA
*
25909814 AAAAATAAAAAACAAATA
1 AAAAGT-AAAAACAAATA
*
25909832 AATAGTAAAAAC
1 AAAAGTAAAAAC
25909844 CCACATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 18 0.72
19 1 0.04
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAAGTAAAAACAAATA
Found at i:25911611 original size:21 final size:20
Alignment explanation
Indices: 25911582--25911621 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25911572 TTTCCTTTAA
*
25911582 ACATATTCTTATATTATATT
1 ACATATTCTTATAATATATT
25911602 ACATAATTCTTATAATATAT
1 ACAT-ATTCTTATAATATAT
25911622 CTTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATATTCTTATAATATATT
Found at i:25911667 original size:14 final size:14
Alignment explanation
Indices: 25911648--25911678 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25911638 ATGCAAGCGT
25911648 ATATACATTTATCG
1 ATATACATTTATCG
25911662 ATATACATTTATCG
1 ATATACATTTATCG
25911676 ATA
1 ATA
25911679 CCTACCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATACATTTATCG
Found at i:25912695 original size:130 final size:131
Alignment explanation
Indices: 25912531--25912778 Score: 372
Period size: 130 Copynumber: 1.9 Consensus size: 131
25912521 ATGCGAGATT
*
25912531 TGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAA
1 TGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGATTGCTCAAA
* * * *
25912596 ATAATCGAATATCACTTCAAAATTTCACTTATGTCTT-TTAAAATCCCTTAAACGAAGGTGATGT
66 ATAATCAAATATCACTTCAAAATTTCACTAAGGTCTTCTAAAAATCCCTTAAACGAAGGTGATGT
25912660 G
131 G
* ** * * *
25912661 TGATATTTTGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGATTGCTTAAA
1 TGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGATTGCTCAAA
* *
25912726 ATAATCAAATATCCCTTCAAAATTTCACTAAGGTCTTCTAAAAATCCTTTAAA
66 ATAATCAAATATCACTTCAAAATTTCACTAAGGTCTTCTAAAAATCCCTTAAA
25912779 ATGAAGGTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 91 0.88
131 13 0.12
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (131 bp):
TGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGATTGCTCAAA
ATAATCAAATATCACTTCAAAATTTCACTAAGGTCTTCTAAAAATCCCTTAAACGAAGGTGATGT
G
Found at i:25912868 original size:131 final size:129
Alignment explanation
Indices: 25912531--25912873 Score: 368
Period size: 130 Copynumber: 2.6 Consensus size: 129
25912521 ATGCGAGATT
** * *
25912531 TGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAA
1 TGATATTTAACAATTCA-GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
* * * * * *
25912596 ATAATCGAATATCACTTCAAAATTTCACTTATGTCTTTTAAAATCCCTTAAACGAAGGTGATGTG
65 ATAATCGAATATCCCTTCAAAATTTCACTAAGGTCTTTAAAAATCCCTTAAACGAAGGTAATCTG
** * * *
25912661 TGATATTTTGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGATTGCTT-AA
1 TGATATTTAACAATTC-AGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTG-TTCAA
* * *
25912725 AATAATCAAATATCCCTTCAAAATTTCACTAAGGTCTTCTAAAAATCCTTTAAAATGAAGGTAAT
64 AATAATCGAATATCCCTTCAAAATTTCACTAAGGTCTT-TAAAAATCCCTT-AAACGAAGGTAAT
25912790 ACTCG
127 -CT-G
* * * * **
25912795 -G-TGTTTAATAATTCAGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAA
1 TGATATTTAACAATTCAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAA
* *
25912858 CAATCGAATATTCCTT
66 TAATCGAATATCCCTT
25912874 TAGGTTTTCA
Statistics
Matches: 177, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
130 91 0.51
131 63 0.36
132 20 0.11
133 2 0.01
134 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (129 bp):
TGATATTTAACAATTCAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAA
TAATCGAATATCCCTTCAAAATTTCACTAAGGTCTTTAAAAATCCCTTAAACGAAGGTAATCTG
Found at i:25924607 original size:87 final size:87
Alignment explanation
Indices: 25924505--25924701 Score: 394
Period size: 87 Copynumber: 2.3 Consensus size: 87
25924495 ATCTTGGCTT
25924505 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
25924570 CTAAAATTTTAGATCCTGTTTC
66 CTAAAATTTTAGATCCTGTTTC
25924592 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
25924657 CTAAAATTTTAGATCCTGTTTC
66 CTAAAATTTTAGATCCTGTTTC
25924679 CCTGAAGTTGCAGTGAAGCAGAT
1 CCTGAAGTTGCAGTGAAGCAGAT
25924702 CCAAGACGGT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 110 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
CTAAAATTTTAGATCCTGTTTC
Found at i:25924643 original size:43 final size:43
Alignment explanation
Indices: 25924509--25924644 Score: 105
Period size: 43 Copynumber: 3.1 Consensus size: 43
25924499 TGGCTTCCTG
25924509 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTA
1 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTA
* * * * * ** *** * * * *
25924552 AAGTTGTAATGGAGTAGGCTAAAATTTTA-GATCCT-GTTTCCCTG
1 AAGTTGCAGTGAAGCA-GATTTAA-GCCACCAACCTAG-CTCCCTA
25924596 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTA
1 AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTA
25924639 AAGTTG
1 AAGTTG
25924645 TAATGGAGTA
Statistics
Matches: 60, Mismatches: 28, Indels: 10
0.61 0.29 0.10
Matches are distributed among these distances:
42 1 0.02
43 32 0.53
44 26 0.43
45 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTA
Found at i:25924728 original size:132 final size:132
Alignment explanation
Indices: 25924592--25924965 Score: 615
Period size: 132 Copynumber: 2.8 Consensus size: 132
25924582 ATCCTGTTTC
25924592 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
25924657 CTAAAATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCCAAGACGGTGAATCTTGGC
66 CTAAAATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCCAAGACGGTGAATCTTGGC
25924722 TT
131 TT
* * * *
25924724 CCTGAAGTTACAGTAAAGCAGATTTAAGCCATCAACCTAGCTCTCTAAAGTTGTAATGGAGTAGG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
** * * *
25924789 CTAAAATTTTAGATATTGTTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGTGGATCTTGGC
66 CTAAAATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCCAAGACGGTGAATCTTGGC
25924854 TT
131 TT
*
25924856 CTTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGA-GGAGTAG
1 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTA-ATGGAGTAG
* * *
25924920 GCTGAAATTTTAGATCCTGTTTTCCTGAAGTCGCAGTGAAGCAGAT
65 GCTAAAATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGAT
25924966 TTAAGCCACC
Statistics
Matches: 221, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 220 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAATGGAGTAGG
CTAAAATTTTAGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCCAAGACGGTGAATCTTGGC
TT
Found at i:25927135 original size:21 final size:20
Alignment explanation
Indices: 25927106--25927145 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
25927096 TTTCCTTTAA
*
25927106 ACATATTCTTATATTATATT
1 ACATATTCTTATAATATATT
25927126 ACATAATTCTTATAATATAT
1 ACAT-ATTCTTATAATATAT
25927146 CTTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATATTCTTATAATATATT
Found at i:25927828 original size:15 final size:15
Alignment explanation
Indices: 25927808--25927838 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25927798 TACTTGATTA
25927808 TTAGTCCATCATTTT
1 TTAGTCCATCATTTT
*
25927823 TTAGTCCATTATTTT
1 TTAGTCCATCATTTT
25927838 T
1 T
25927839 GTATCTTGTT
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:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (15 bp):
TTAGTCCATCATTTT
Found at i:25928383 original size:132 final size:133
Alignment explanation
Indices: 25928179--25928516 Score: 371
Period size: 132 Copynumber: 2.6 Consensus size: 133
25928169 ATTATTCATT
* * * * *
25928179 TAAAAATTCTTTAAAACGGAGACGAGATTTGATATTTGGCAAATTCGCGGAATCGTGCCCTAACG
1 TAAAAATCCTTTAAAACGAAGACGAGATTCGATATTTGACAAATTCACGGAATCGTGCCCTAACG
* * *
25928244 TGTTGGGTTGCAATTTCGCATTTGCTCAAAATGATCGAATATCCCTCCAAAATTTCATTCATGTC
66 TGCTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATATCCCTCCAAAATCTCATTCATGTC
25928309 TTC
131 TTC
* *
25928312 TAAAAATCCTTTAAAACGAAGGCGATG-TTCGATATTTGAC-AATTCACTGAATCGTGCCCTAAC
1 TAAAAATCCTTTAAAACGAAGACGA-GATTCGATATTTGACAAATTCACGGAATCGTGCCCTAAC
* * * * ** * *
25928375 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATCTCGTTCATGT
65 GTGCTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATATCCCTCCAAAATCTCATTCATGT
25928440 CTTC
130 CTTC
* ** * * * * * * *
25928444 TAAAAA-CTCTTTAAAACAAAGAAAATACTCGATGTTTGGCAATTTGA--GAATCGTGCCCTATC
1 TAAAAATC-CTTTAAAACGAAGACGAGATTCGATATTTGACAAATTCACGGAATCGTGCCCTAAC
25928506 GTGCTGGGTTG
65 GTGCTGGGTTG
25928517 TGATTCCCCG
Statistics
Matches: 172, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
131 26 0.15
132 108 0.63
133 37 0.22
134 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (133 bp):
TAAAAATCCTTTAAAACGAAGACGAGATTCGATATTTGACAAATTCACGGAATCGTGCCCTAACG
TGCTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATATCCCTCCAAAATCTCATTCATGTC
TTC
Found at i:25933669 original size:35 final size:35
Alignment explanation
Indices: 25933623--25933798 Score: 352
Period size: 35 Copynumber: 5.0 Consensus size: 35
25933613 AACTCAGCAC
25933623 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25933658 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25933693 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25933728 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25933763 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25933798 A
1 A
25933799 CATTGCCTTC
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 141 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (35 bp):
AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
Found at i:25937219 original size:176 final size:175
Alignment explanation
Indices: 25936513--25937743 Score: 1608
Period size: 176 Copynumber: 7.0 Consensus size: 175
25936503 GCAACTTCAA
* ** * * * *
25936513 GGAGATAAGATCTGCTATCTTCAGTCTGTTACCTTACTGCTTAGGGGGTTAAGG-TTCACCGTCT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTT-GCCTTCT
* ** * *
25936577 TTGATCTGCTCCACTACTGCTTA-GG-G---AGATCTGTAATCTTTAGCCTGTTACCCTACTACT
65 TCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACT
* * * * *
25936637 TAAGGGGTTAAGGGGTTAAGGCTTGCTTCTTCGATTTGGTCCACTATTGTTTAG
130 T-A---G----GGGGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
25936691 GGAGACAAGATCT-ACAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTG-CTTCT
1 GGAGACAAGATCTGA-AATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCT
* * * * * *
25936754 TCGATTTGGTCCACTATTGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCTTACTACT
65 TCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACT
* * * * *
25936819 TAGGGGGTTAAGGCTTGCTTCTTCGATTTGGTCCACTATTGTTTAG
130 TAGGGGGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
25936865 GGAGACAAGATCT-ACAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTG-CTTCT
1 GGAGACAAGATCTGA-AATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCT
* * * * *
25936928 TCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTAATCTTTAACCTGTTACCCTACTACT
65 TCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACT
* * * *
25936991 TAGGGGGTTAAAGCTTGCTTCTTCGATTTTCTCCACTACTATTTAG
130 TAGGGGGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
* * *
25937037 GGAGACAAGAT-TTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCCGTCT
1 GGAGACAAGATCTGA-AATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCT
* * * * *
25937101 TTGATCTGTTCCACT-GTAACTTCAGGGAGACAAGATCTGCAATCTTCAGCTTGTTACCCTACTA
65 TCGATCTGCTCCACTACT-A-TTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTA
* **
25937165 CTTTGGGAATTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
128 CTTAGGGGGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
* *
25937213 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCTT
* *
25937278 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTT
66 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTT
*
25937343 AGGGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAG
131 AGGGGGTTAAGGCTTGCTTT-TTCGATCTGCTCCACTACTATTTAG
* *
25937389 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCTT
* *
25937454 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTT
66 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTT
*
25937519 AGGGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAG
131 AGGGGGTTAAGGCTTGCTTT-TTCGATCTGCTCCACTACTATTTAG
* *
25937565 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCTT
* *
25937630 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTATTT
66 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTT
* * * * *
25937695 AGGAGGTTAAGGCTTGCTTTCTTCTATCTACTCCACTAATGTTTAG
131 AGGGGGTTAAGGCTTGCTTT-TTCGATCTGCTCCACTACTATTTAG
25937741 GGA
1 GGA
25937744 TAAGATTTGT
Statistics
Matches: 962, Mismatches: 75, Indels: 34
0.90 0.07 0.03
Matches are distributed among these distances:
171 1 0.00
172 129 0.13
173 19 0.02
174 129 0.13
175 61 0.06
176 512 0.53
177 25 0.03
178 51 0.05
179 3 0.00
181 1 0.00
182 31 0.03
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (175 bp):
GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCCTTCTT
CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTT
AGGGGGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
Found at i:25937337 original size:88 final size:88
Alignment explanation
Indices: 25936648--25937743 Score: 1608
Period size: 88 Copynumber: 12.5 Consensus size: 88
25936638 AAGGGGTTAA
* * * *
25936648 GGGGTTAAGGCTTGC-TTCTTCGATTTGGTCCACTATTGTTTAGGGAGACAAGATCT-ACAATCT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCT
25936711 TCAGCCTGTTACCTTACTACTTAG
65 TCAGCCTGTTACCTTACTACTTAG
* * * *
25936735 GGGGTTAAGGCTTGC-TTCTTCGATTTGGTCCACTATTGTTTAGGGAGACAAGATCT-ACAATCT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCT
25936798 TCAGCCTGTTACCTTACTACTTAG
65 TCAGCCTGTTACCTTACTACTTAG
* * * *
25936822 GGGGTTAAGGCTTGC-TTCTTCGATTTGGTCCACTATTGTTTAGGGAGACAAGATCT-ACAATCT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCT
25936885 TCAGCCTGTTACCTTACTACTTAG
65 TCAGCCTGTTACCTTACTACTTAG
* * *
25936909 GGGGTTAAGGCTTGC-TTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTAATCTT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
* * *
25936971 TAACCTGTTACCCTACTACTTAG
66 CAGCCTGTTACCTTACTACTTAG
* * * *
25936994 GGGGTTAAAGCTTGC-TTCTTCGATTTTCTCCACTACTATTTAGGGAGACAAGAT-TTACAATCT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCT
*
25937057 TCAGCCTGTTACCCTACTACTTAG
65 TCAGCCTGTTACCTTACTACTTAG
** * * * * *
25937081 GGGGTTAAGGCTTGCCGTCTTTGATCTGTTCCACT-GTAACTTCAGGGAGACAAGATCTGCAATC
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACT-A-TTTAGGGAGACAAGATCTGAAATC
* * *
25937145 TTCAGCTTGTTACCCTACTACTTTG
64 TTCAGCCTGTTACCTTACTACTTAG
**
25937170 GGAATTAAGGCTTGCTTT-TTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
25937234 CAGCCTGTTACCTTACTACTTAG
66 CAGCCTGTTACCTTACTACTTAG
*
25937257 GGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
25937322 CAGCCTGTTACCTTACTACTTAG
66 CAGCCTGTTACCTTACTACTTAG
*
25937345 GGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
25937410 CAGCCTGTTACCTTACTACTTAG
66 CAGCCTGTTACCTTACTACTTAG
*
25937433 GGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
25937498 CAGCCTGTTACCTTACTACTTAG
66 CAGCCTGTTACCTTACTACTTAG
*
25937521 GGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
25937586 CAGCCTGTTACCTTACTACTTAG
66 CAGCCTGTTACCTTACTACTTAG
*
25937609 GGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCT-ACAATCT
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCT
* *
25937673 TCAGCCTGTTACCCTACTATTTAG
65 TCAGCCTGTTACCTTACTACTTAG
* * * * *
25937697 GAGGTTAAGGCTTGCTTTCTTCTATCTACTCCACTAATGTTTAGGGA
1 GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGA
25937744 TAAGATTTGT
Statistics
Matches: 946, Mismatches: 52, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
85 73 0.08
86 5 0.01
87 322 0.34
88 488 0.52
89 57 0.06
90 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (88 bp):
GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTT
CAGCCTGTTACCTTACTACTTAG
Found at i:25937459 original size:264 final size:263
Alignment explanation
Indices: 25936513--25937743 Score: 1650
Period size: 264 Copynumber: 4.7 Consensus size: 263
25936503 GCAACTTCAA
* ** * * * * *
25936513 GGAGATAAGATCTGCTATCTTCAGTCTGTTACCTTACTGCTTAGGGGGTTAAGGTTCACCGTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCCTTCTT
* ** * *
25936578 TGATCTGCTCCACTACTGCTTA-GG-G---AGATCTGTAATCTTTAGCCTGTTACCCTACTACTT
66 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTT
* * *
25936638 AAGGGGTTAAGGGGTTAAGGCTTGC-TTCTTCGATTTGGTCCACTATTGTTTAGGGAGACAAGAT
131 -A---G----GGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGAT
* * *
25936702 CT-ACAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGGTCC
188 CTGA-AATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTCTTCGATCTGCTCC
* *
25936766 ACTATTGTTTAG
252 ACTACTATTTAG
*
25936778 GGAGACAAGATCT-ACAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTTG-CTTCT
1 GGAGACAAGATCTGA-AATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCCTTCT
* * * * *
25936841 TCGATTTGGTCCACTATTGTTTAGGGAGACAAGATCT-ACAATCTTCAGCCTGTTACCTTACTAC
65 TCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCTTCAGCCTGTTACCCTACTAC
* *
25936905 TTAGGGGGTTAAGGCTTGC-TTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTAA
129 TTAGGGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGAAA
* * * * * * *
25936967 TCTTTAACCTGTTACCCTACTACTTAGGGGGTTAAAGCTTGCTTCTTCGATTTTCTCCACTACTA
194 TCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTCTTCGATCTGCTCCACTACTA
25937032 TTTAG
259 TTTAG
* * * *
25937037 GGAGACAAGAT-TTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCCGTCT
1 GGAGACAAGATCTGA-AATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCCTTCT
* * * * * *
25937101 TTGATCTGTTCCACT-GTAACTTCAGGGAGACAAGATCTGCAATCTTCAGCTTGTTACCCTACTA
65 TCGATCTGCTCCACTACT-A-TTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTA
* ** *
25937165 CTTTGGGAATTAAGGCTTGCTTT-TTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAA
128 CTTAGGGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGAA
25937229 ATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTAC
193 ATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGC-TTCTTCGATCTGCTCCACTAC
25937294 TATTTAG
257 TATTTAG
*
25937301 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCCTTCTT
*
25937366 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTT
66 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTT
* *
25937431 AGGGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATC
131 AGGGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGAAATC
25937496 TTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTTCGATCTGCTCCACTACTAT
196 TTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGC-TTCTTCGATCTGCTCCACTACTAT
25937561 TTAG
260 TTAG
*
25937565 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCCTTCTT
*
25937630 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCT-ACAATCTTCAGCCTGTTACCCTACTATT
66 CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGA-AATCTTCAGCCTGTTACCCTACTACT
* * * *
25937694 TAGGAGGTTAAGGCTTGCTTTCTTCTATCTACTCCACTAATGTTTAGGGA
130 TAGGGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTGTTTAGGGA
25937744 TAAGATTTGT
Statistics
Matches: 867, Mismatches: 78, Indels: 43
0.88 0.08 0.04
Matches are distributed among these distances:
258 1 0.00
259 129 0.15
260 18 0.02
261 118 0.14
262 4 0.00
263 109 0.13
264 400 0.46
265 55 0.06
266 1 0.00
268 1 0.00
269 31 0.04
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (263 bp):
GGAGACAAGATCTGAAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCCTTCTT
CGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTT
AGGGGGTTAAGGCTTGCTTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGAAATC
TTCAGCCTGTTACCTTACTACTTAGGGGGTTAAGGCTCGCTTCTTCGATCTGCTCCACTACTATT
TAG
Found at i:25937895 original size:22 final size:24
Alignment explanation
Indices: 25937870--25937914 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
25937860 AACTAGATAT
25937870 GATGCTTATG-TC-AAAT-AATTAG
1 GATGC-TATGATCGAAATGAATTAG
25937892 GATGCTATGATCGAAATGAATTA
1 GATGCTATGATCGAAATGAATTA
25937915 AATGCTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 4 0.20
24 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (24 bp):
GATGCTATGATCGAAATGAATTAG
Found at i:25937996 original size:64 final size:64
Alignment explanation
Indices: 25937811--25937996 Score: 309
Period size: 64 Copynumber: 2.9 Consensus size: 64
25937801 ATGCCTATGT
* * * *
25937811 TTATGCCAAATGATTAGGATGCTATGATCAAAATGAATTAAATGCTCCTAACTAGATATGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
25937875 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
* * *
25937939 TTATGTTAAATAATTAAGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATG
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATG
25937997 CGTTATGAAT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 115 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
Found at i:25938259 original size:4 final size:4
Alignment explanation
Indices: 25938250--25938280 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
25938240 AGGGGAATAA
25938250 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
25938281 ATTATTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:25943456 original size:35 final size:35
Alignment explanation
Indices: 25943410--25943480 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
25943400 AACTCAGCAC
25943410 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25943445 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
1 AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
25943480 A
1 A
25943481 CATTGCCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (35 bp):
AGTAGGGCATGATTCCTCGAGTTTCCAAACATTGA
Found at i:25946882 original size:17 final size:17
Alignment explanation
Indices: 25946847--25946885 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25946837 ATATATGTTC
*
25946847 TATTGTTGGAATTGAAT
1 TATTGTTGGAAATGAAT
25946864 TATTGTTGGAAAT-ATAT
1 TATTGTTGGAAATGA-AT
25946881 TATTG
1 TATTG
25946886 AATTTAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAAATGAAT
Found at i:25947097 original size:21 final size:21
Alignment explanation
Indices: 25947071--25947153 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
25947061 CGGGTGGATT
*
25947071 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
25947092 AGCTCTCATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
* * * * *
25947113 AACCCTTTTGAGGTCCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
25947134 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
25947154 GGCGTGTTCG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:25948156 original size:45 final size:45
Alignment explanation
Indices: 25948097--25948185 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
25948087 CGATCGGGTT
* *
25948097 GGAAGCTTGTCGGAGTTATATCATACTTTCCATCGGTTCTATCGG
1 GGAAGCTTGTCGGAGTTATATCACACTTTCCATAGGTTCTATCGG
25948142 GGAAGCTTGTCGGAGTTATATCACACTTTCCATAGGTTCTATCG
1 GGAAGCTTGTCGGAGTTATATCACACTTTCCATAGGTTCTATCG
25948186 ATACTTGCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (45 bp):
GGAAGCTTGTCGGAGTTATATCACACTTTCCATAGGTTCTATCGG
Found at i:25948797 original size:120 final size:120
Alignment explanation
Indices: 25948584--25948946 Score: 726
Period size: 120 Copynumber: 3.0 Consensus size: 120
25948574 TGCATATAAG
25948584 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
25948649 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
25948704 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
25948769 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
25948824 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
25948889 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
25948944 TTA
1 TTA
25948947 TTTTGGATGT
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 243 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (120 bp):
TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
Found at i:25948925 original size:60 final size:59
Alignment explanation
Indices: 25948617--25948927 Score: 173
Period size: 60 Copynumber: 5.2 Consensus size: 59
25948607 GAACACATGA
25948617 ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
1 ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
* * * * ** * ** *
25948676 ATACTACATGTT-TAAAGAT-TGATTTTACTTAGT-TATA--CATA-TGAATATAT-TGAACACA
1 ATAC-ACATGTTAT-AAGCTATCAATTGAGGT-GTCTAAAGGCATATTGGTTGTATGTG---A-A
25948734 T
59 T
25948735 GAATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
1 --ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
* * * * ** * ** *
25948796 ATACTACATGTT-TAAAGAT-TGATTTTACTTAGT-TATA--CATA-TGAATATAT-TGAACACA
1 ATAC-ACATGTTAT-AAGCTATCAATTGAGGT-GTCTAAAGGCATATTGGTTGTATGTG---A-A
25948854 T
59 T
25948855 GAATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
1 --ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
25948916 ATACTACATGTT
1 ATAC-ACATGTT
25948928 TAAAGATTGA
Statistics
Matches: 179, Mismatches: 40, Indels: 65
0.63 0.14 0.23
Matches are distributed among these distances:
55 4 0.02
56 12 0.07
57 8 0.04
58 2 0.01
59 36 0.20
60 59 0.33
61 32 0.18
62 2 0.01
63 8 0.04
64 12 0.07
65 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (59 bp):
ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
Found at i:25950062 original size:120 final size:120
Alignment explanation
Indices: 25949849--25950210 Score: 724
Period size: 120 Copynumber: 3.0 Consensus size: 120
25949839 TGCATATAAG
25949849 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
25949914 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
25949969 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
25950034 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
25950089 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
25950154 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
25950209 TT
1 TT
25950211 GTTTTGGATG
Statistics
Matches: 242, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 242 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (120 bp):
TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTATCAATTGAGGTGT
CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
Found at i:25950190 original size:60 final size:59
Alignment explanation
Indices: 25949882--25950192 Score: 173
Period size: 60 Copynumber: 5.2 Consensus size: 59
25949872 GAACACATGA
25949882 ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
1 ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
* * * * ** * ** *
25949941 ATACTACATGTT-TAAAGAT-TGATTTTACTTAGT-TATA--CATA-TGAATATAT-TGAACACA
1 ATAC-ACATGTTAT-AAGCTATCAATTGAGGT-GTCTAAAGGCATATTGGTTGTATGTG---A-A
25949999 T
59 T
25950000 GAATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
1 --ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
* * * * ** * ** *
25950061 ATACTACATGTT-TAAAGAT-TGATTTTACTTAGT-TATA--CATA-TGAATATAT-TGAACACA
1 ATAC-ACATGTTAT-AAGCTATCAATTGAGGT-GTCTAAAGGCATATTGGTTGTATGTG---A-A
25950119 T
59 T
25950120 GAATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
1 --ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
25950181 ATACTACATGTT
1 ATAC-ACATGTT
25950193 TAAAGATTGA
Statistics
Matches: 179, Mismatches: 40, Indels: 65
0.63 0.14 0.23
Matches are distributed among these distances:
55 4 0.02
56 12 0.07
57 8 0.04
58 2 0.01
59 36 0.20
60 59 0.33
61 32 0.18
62 2 0.01
63 8 0.04
64 12 0.07
65 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (59 bp):
ATACACATGTTATAAGCTATCAATTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAAT
Found at i:25959239 original size:3 final size:3
Alignment explanation
Indices: 25959225--25959263 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
25959215 GGTTTGTCCC
*
25959225 CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
25959264 TTAATCATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:25966467 original size:21 final size:22
Alignment explanation
Indices: 25966441--25966499 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
25966431 GTTTTAAGAA
*
25966441 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
25966462 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
25966484 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
25966500 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:25966514 original size:26 final size:24
Alignment explanation
Indices: 25966470--25966519 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
25966460 ATTTGTTTTA
*
25966470 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
25966494 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
25966520 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:25971969 original size:22 final size:20
Alignment explanation
Indices: 25971944--25971983 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25971934 TAAATTCAAA
25971944 AGAAAGTTGTAAAGATTATTCC
1 AGAAA-TTGTAAA-ATTATTCC
*
25971966 AGAAATTTTAAAATTATT
1 AGAAATTGTAAAATTATT
25971984 TTTTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (20 bp):
AGAAATTGTAAAATTATTCC
Found at i:25977584 original size:49 final size:48
Alignment explanation
Indices: 25977454--25977597 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
25977444 TCTATTGTGA
*
25977454 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* * * * *
25977505 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
25977554 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
25977598 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.06
49 40 0.49
50 2 0.02
51 34 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:25979572 original size:31 final size:31
Alignment explanation
Indices: 25979531--25979589 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
25979521 CCGTACGTTG
25979531 CTTTTATTGATCTTTATAATCAAATTTATTA
1 CTTTTATTGATCTTTATAATCAAATTTATTA
*
25979562 CTTTTCTTGATCTTTATAATCAAATTTA
1 CTTTTATTGATCTTTATAATCAAATTTA
25979590 ACTCATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.54
Consensus pattern (31 bp):
CTTTTATTGATCTTTATAATCAAATTTATTA
Found at i:25982171 original size:46 final size:46
Alignment explanation
Indices: 25982121--25982296 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
25982111 TGGTTGAGCA
25982121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
25982167 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAT-ATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25982212 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25982260 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25982297 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25982277 original size:93 final size:93
Alignment explanation
Indices: 25982118--25982289 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25982108 GGATGGTTGA
* *
25982118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25982183 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
*
25982211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25982276 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25982290 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:25997546 original size:39 final size:40
Alignment explanation
Indices: 25997451--25997712 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
25997441 TTGAATGATG
*
25997451 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
25997489 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
25997530 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
25997569 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25997608 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
25997647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
25997686 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25997713 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25998275 original size:51 final size:51
Alignment explanation
Indices: 25998199--25998299 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
25998189 ATGTATAGTG
*
25998199 TCTGAGAGATATTTTTATAAAGGGTTTAAAGTCTGCTAACACCTCGTGTTT
1 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCTGCTAACACCTCGTGTTT
25998250 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCTGCTAACACCTCGTGTT
1 TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCTGCTAACACCTCGTGTT
25998300 CGACTCCGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (51 bp):
TCTGAGAAATATTTTTATAAAGGGTTTAAAGTCTGCTAACACCTCGTGTTT
Found at i:26002666 original size:13 final size:13
Alignment explanation
Indices: 26002648--26002672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26002638 GAAGGACATG
26002648 GGCCAGGCACACT
1 GGCCAGGCACACT
26002661 GGCCAGGCACAC
1 GGCCAGGCACAC
26002673 GGACGTGTGC
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:0.24, C:0.40, G:0.32, T:0.04
Consensus pattern (13 bp):
GGCCAGGCACACT
Found at i:26009257 original size:46 final size:45
Alignment explanation
Indices: 26009087--26009302 Score: 138
Period size: 46 Copynumber: 4.7 Consensus size: 45
26009077 TGTTTGAGCT
* * * *
26009087 AGTGTAAGACATGTCTAGGACATGCATCGACC-AC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTACGA-GA-GA-AGCC
* * * * * *
26009133 AGTGTAAGACCATGTCTGGGATATAGCATTGGCATA-GGGACAAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATA-CATCGGCCTACGAGAGAA--GCC
* * * *
26009181 AGTGTAAGACTTGTTTGGGACATGCTTCGGCCT-CGAGAGGTAAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGA-G-AAGCC
* * *
26009227 AGTGTAAGACATGTCTGGGACATTCATCGG-CTACGAGAGATGTC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGAGAAGCC
26009271 AGTGTAAGACCATGTCT-GGACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGC
26009303 ACCTGACCCT
Statistics
Matches: 130, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
44 18 0.14
45 16 0.12
46 52 0.40
47 24 0.18
48 19 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGAGAAGCC
Found at i:26011651 original size:19 final size:18
Alignment explanation
Indices: 26011629--26011671 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
26011619 ACAAATTAAA
*
26011629 AAAATTCAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
**
26011648 AAAATTTTAAATATTTAT
1 AAAATTCAAAATATTTAT
26011666 AAAATT
1 AAAATT
26011672 TATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:26011668 original size:18 final size:19
Alignment explanation
Indices: 26011637--26011672 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26011627 AAAAAATTCA
*
26011637 AAATAATTTTTAAAATTTT
1 AAATAATTTATAAAATTTT
26011656 AAAT-ATTTATAAAATTT
1 AAATAATTTATAAAATTT
26011673 ATATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATAATTTATAAAATTTT
Found at i:26011704 original size:18 final size:18
Alignment explanation
Indices: 26011681--26011717 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26011671 TTATATTTTA
26011681 AAAAAATCATAAA-ATTAT
1 AAAAAATC-TAAAGATTAT
26011699 AAAAAATCTAAAGATTAT
1 AAAAAATCTAAAGATTAT
26011717 A
1 A
26011718 TAAAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAAAATCTAAAGATTAT
Found at i:26011735 original size:25 final size:24
Alignment explanation
Indices: 26011700--26011756 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
26011690 TAAAATTATA
* *
26011700 AAAAATCT-AAAGATTATATAAAGTT
1 AAAAATTTAAAAGATT-TATAAA-AT
*
26011725 AAAAATTTAAAAGATTTCTAAAAT
1 AAAAATTTAAAAGATTTATAAAAT
26011749 AAAAATTT
1 AAAAATTT
26011757 TGGGATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.32
25 12 0.43
26 7 0.25
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (24 bp):
AAAAATTTAAAAGATTTATAAAAT
Found at i:26017611 original size:25 final size:25
Alignment explanation
Indices: 26017570--26017622 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
26017560 CATATAAGCT
* *
26017570 TACCGATTTACAGCTCGTAAGAGCA
1 TACCGATTCACAACTCGTAAGAGCA
*
26017595 TACCGATTCACAACTCGTATGAGCA
1 TACCGATTCACAACTCGTAAGAGCA
26017620 TAC
1 TAC
26017623 ATGTACATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (25 bp):
TACCGATTCACAACTCGTAAGAGCA
Found at i:26025632 original size:26 final size:26
Alignment explanation
Indices: 26025576--26025636 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
26025566 TTTTAGTCTA
*
26025576 GTAAAATTTTGACGATTTTACTCCCG
1 GTAAAATTTTAACGATTTTACTCCCG
* *
26025602 ATAAAATTTTAACGATTTTAC-CATCG
1 GTAAAATTTTAACGATTTTACTC-CCG
26025628 GTAAAATTT
1 GTAAAATTT
26025637 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (26 bp):
GTAAAATTTTAACGATTTTACTCCCG
Found at i:26027988 original size:49 final size:49
Alignment explanation
Indices: 26027926--26028053 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
26027916 TGTTGTGTAT
* * *
26027926 CAGTGTAATACCTGTCTGAGACATGGCATCAACATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGAGACATGGCATCAACATCGATACATGAAAGC
* * * * *
26027975 CAGTGTAAGACCTGTCTGGGACACGGCATCAGCCTCGATACATGAAAGT
1 CAGTGTAAGACCTGTCTGAGACATGGCATCAACATCGATACATGAAAGC
* **
26028024 CAGTGTAAGACATGTCTTTGACATGGCATC
1 CAGTGTAAGACCTGTCTGAGACATGGCATC
26028054 GACTTTGTTG
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGAGACATGGCATCAACATCGATACATGAAAGC
Found at i:26038738 original size:55 final size:55
Alignment explanation
Indices: 26038671--26038783 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 55
26038661 CGAGCCTGCC
* *
26038671 AAAACAACACGGGCGTGCGACACACCCGTGTGGAAGAACCGTGGGTGAACCTGTT
1 AAAACAACACGGGCGTGCGACACACCCGTATGGAACAACCGTGGGTGAACCTGTT
* ** * * *
26038726 AAAACAGCACGGGCGTTTGACACGCCCGTATGGAACACCCGTGGTTGAACCTGTT
1 AAAACAACACGGGCGTGCGACACACCCGTATGGAACAACCGTGGGTGAACCTGTT
26038781 AAA
1 AAA
26038784 TTAACACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACACCCGTATGGAACAACCGTGGGTGAACCTGTT
Found at i:26044110 original size:28 final size:28
Alignment explanation
Indices: 26044070--26044140 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
26044060 TGGTACTCAG
* *
26044070 TGTACGAAATATTGAGAATGGCACTTAA
1 TGTACAAAATATTGAGAATGACACTTAA
* * *
26044098 TGTGCAAGATATTGAGAATGACACTTAG
1 TGTACAAAATATTGAGAATGACACTTAA
26044126 TGTACAAAATATTGA
1 TGTACAAAATATTGA
26044141 ATGATTAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (28 bp):
TGTACAAAATATTGAGAATGACACTTAA
Found at i:26044257 original size:39 final size:39
Alignment explanation
Indices: 26044213--26044435 Score: 322
Period size: 39 Copynumber: 5.7 Consensus size: 39
26044203 GACTTTATAA
*
26044213 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
26044252 TGGTGTTATATCCAGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
26044291 TGGTGTTATACCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
26044330 TGGTGTTCTATCCGGGCTAAGTCCCGACGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
26044369 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
26044408 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
26044436 CATGCTTTGT
Statistics
Matches: 166, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 145 0.87
40 21 0.13
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:26052722 original size:37 final size:36
Alignment explanation
Indices: 26052666--26052774 Score: 148
Period size: 37 Copynumber: 3.0 Consensus size: 36
26052656 ACACAAATAG
*
26052666 TCCAACCGA-AACATGCCAAACGCTCATAAGAGCTAA
1 TCCAACC-ATAACATGCCAAATGCTCATAAGAGCTAA
* *
26052702 TCCAACCAATAACGTGCCAAATGCTCATAAGATCTAA
1 TCCAACC-ATAACATGCCAAATGCTCATAAGAGCTAA
*
26052739 TCCAACCATAAACACGCCAAATGCTCATAAGAGCTA
1 TCCAACCAT-AACATGCCAAATGCTCATAAGAGCTA
26052775 TACATTCGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
36 10 0.16
37 54 0.84
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.17
Consensus pattern (36 bp):
TCCAACCATAACATGCCAAATGCTCATAAGAGCTAA
Found at i:26055386 original size:27 final size:26
Alignment explanation
Indices: 26055355--26055438 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 26
26055345 AATTTATAAA
26055355 TTGAGTTTAAGAAGGGTAAGTTTATGT
1 TTGAGTTTAA-AAGGGTAAGTTTATGT
* * **
26055382 TTGAG-TTAATA-CG-AA-TTTATAAA
1 TTGAGTTTAAAAGGGTAAGTTTAT-GT
26055405 TTGAGTTTAATAAGGGTAAGTTTATGT
1 TTGAGTTTAA-AAGGGTAAGTTTATGT
*
26055432 TTAAGTT
1 TTGAGTT
26055439 AATACGAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
22 5 0.12
23 7 0.17
24 5 0.12
25 2 0.05
26 5 0.12
27 13 0.31
28 5 0.12
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (26 bp):
TTGAGTTTAAAAGGGTAAGTTTATGT
Found at i:26055420 original size:50 final size:50
Alignment explanation
Indices: 26055345--26055446 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
26055335 TGTTATGCAT
*
26055345 AATTTATAAATTGAGTTTAAGAAGGGTAAGTTTATGTTTGAGTTAATACG
1 AATTTATAAATTGAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATACG
*
26055395 AATTTATAAATTGAGTTTAATAAGGGTAAGTTTATGTTTAAGTTAATACG
1 AATTTATAAATTGAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATACG
26055445 AA
1 AA
26055447 CTTACTAAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (50 bp):
AATTTATAAATTGAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATACG
Found at i:26056496 original size:20 final size:20
Alignment explanation
Indices: 26056471--26056509 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
26056461 AATATATATC
26056471 TTGGCTAGGTTTGTAATGAT
1 TTGGCTAGGTTTGTAATGAT
26056491 TTGGCTAGGTTTGTAATGA
1 TTGGCTAGGTTTGTAATGA
26056510 GTCTTAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGCTAGGTTTGTAATGAT
Found at i:26057487 original size:5 final size:5
Alignment explanation
Indices: 26057477--26057501 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26057467 GGTTTTTATA
26057477 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
26057502 TCAGGAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:26059736 original size:27 final size:25
Alignment explanation
Indices: 26059700--26059764 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
26059690 ATGAGAGTAC
*
26059700 ATAATCAGGAAGCACCCTCTCGAGCCAT
1 ATAA-CAGGAAGC-CCATCT-GAGCCAT
* *
26059728 ATAACAGGAAGCTCATGTGAGCCAT
1 ATAACAGGAAGCCCATCTGAGCCAT
*
26059753 GTAACAGGAAGC
1 ATAACAGGAAGC
26059765 TTATCAGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.55
26 3 0.09
27 8 0.24
28 4 0.12
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (25 bp):
ATAACAGGAAGCCCATCTGAGCCAT
Found at i:26063408 original size:16 final size:15
Alignment explanation
Indices: 26063387--26063435 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
26063377 TTGAACTTTA
26063387 TATTTTATATATTATT
1 TATTTTATAT-TTATT
*
26063403 TATTTTTATTTTTATT
1 TA-TTTTATATTTATT
*
26063419 TATCTTATGATTTATT
1 TATTTTAT-ATTTATT
26063435 T
1 T
26063436 CAAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.18
16 16 0.57
17 7 0.25
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTTATATTTATT
Found at i:26064959 original size:46 final size:48
Alignment explanation
Indices: 26064851--26064973 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 48
26064841 AAGCTGACGC
*
26064851 CATGTCCCAGACAGGTCTTACACTAGCT-TGTATATTCTAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTG-ATATTCTAAGGCCGATG
* *
26064899 CATGTCCCAGACATGTCTTACACTAGCTCTCG-TA-TC-AATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-GATATTCTAAGGCCGATG
* *
26064945 CATGTCCTAGACATGTCTTACACTGGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
26064974 ACATACCACC
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 35 0.51
47 2 0.03
48 29 0.43
49 1 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTGATATTCTAAGGCCGATG
Found at i:26071298 original size:27 final size:27
Alignment explanation
Indices: 26071267--26071370 Score: 113
Period size: 27 Copynumber: 3.8 Consensus size: 27
26071257 CTGCCAGAAT
* *
26071267 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
* *
26071294 AGATAATCGTGGCAGAGCCACTAGA-AT
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
26071321 AGAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
26071348 AGATAATTGTGGCATAGCCACCA
1 AGATAA-TGTGGCAGAGCCACCA
26071371 AGACGCTTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 1 0.02
27 47 0.73
28 16 0.25
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:26071354 original size:54 final size:54
Alignment explanation
Indices: 26071262--26071368 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
26071252 CATGGCTGCC
* *
26071262 AGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAATAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
* * *
26071316 AGAATAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCAC
1 AGAATAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
26071369 CAAGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (54 bp):
AGAATAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
Found at i:26072101 original size:18 final size:19
Alignment explanation
Indices: 26072069--26072104 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26072059 AGGACACAGA
26072069 ATTTTTAAAATTTTCCAAC
1 ATTTTTAAAATTTTCCAAC
26072088 ATTTTTAAAA-TTTCCAA
1 ATTTTTAAAATTTTCCAA
26072105 AAATTGGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTTAAAATTTTCCAAC
Found at i:26073306 original size:47 final size:46
Alignment explanation
Indices: 26073235--26073365 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 46
26073225 ATAGGGTATA
* * * *
26073235 ATGCCAATGCCATGTCCCAAACATGTCTTACACTAGCTCTCGT-CTCG
1 ATGCCGATGCCATGT-CCAGACATGTCTTACACTAGCTCTCATAAT-G
* *
26073282 ATGCCGATGCCATGTGCCAGACATGGTCTAACACTGGCTCTCATAATG
1 ATGCCGATGCCATGT-CCAGACAT-GTCTTACACTAGCTCTCATAATG
* *
26073330 TTGCTGATG-CATGTCCTAGACATGTCTTACACTAGC
1 ATGCCGATGCCATGTCC-AGACATGTCTTACACTAGC
26073366 ACACAAATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
46 13 0.19
47 32 0.46
48 24 0.34
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCAGACATGTCTTACACTAGCTCTCATAATG
Found at i:26079517 original size:13 final size:13
Alignment explanation
Indices: 26079499--26079524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26079489 CTCGGCAGGA
26079499 ACACGCCCGTGTG
1 ACACGCCCGTGTG
26079512 ACACGCCCGTGTG
1 ACACGCCCGTGTG
26079525 CGATTTCTTA
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:26082191 original size:30 final size:30
Alignment explanation
Indices: 26082155--26082214 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
26082145 TGGCCATGGT
26082155 GGTTCGAGGAGTTTATACTCCTCATTCCTG
1 GGTTCGAGGAGTTTATACTCCTCATTCCTG
*
26082185 GGTTCGAGGAGTTTATACTCCTTATTCCTG
1 GGTTCGAGGAGTTTATACTCCTCATTCCTG
26082215 CTATGAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (30 bp):
GGTTCGAGGAGTTTATACTCCTCATTCCTG
Found at i:26086525 original size:14 final size:14
Alignment explanation
Indices: 26086506--26086537 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
26086496 TTTGCTGAAT
26086506 CTCACAAACTCACG
1 CTCACAAACTCACG
26086520 CTCACAAACTCACG
1 CTCACAAACTCACG
26086534 CTCA
1 CTCA
26086538 TACTCTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.44, G:0.06, T:0.16
Consensus pattern (14 bp):
CTCACAAACTCACG
Found at i:26088329 original size:46 final size:47
Alignment explanation
Indices: 26088243--26088458 Score: 223
Period size: 46 Copynumber: 4.6 Consensus size: 47
26088233 ATTAACACAT
* * *
26088243 CTGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTA-G
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTAGG
26088289 CTGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-AGG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTAGG
* * * *
26088335 CTGATGCATGTCCCAGACATGTCTTATACTAGCTCTCATCTC-AATG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGG
* * *
26088381 TTGATCCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GG
1 CTGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGTAGG
*
26088429 CCGATGCATGTCCCAGACATGTCTTACACT
1 CTGATGCATGTCCCAGACATGTCTTACACT
26088459 AGCATACAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 68 0.47
47 29 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGG
Found at i:26098247 original size:22 final size:21
Alignment explanation
Indices: 26098198--26098248 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26098188 GTCCTTGTTT
* *
26098198 CACACGGGTGTGTACCTCTTC
1 CACATGGGTGTGTACCTCCTC
* *
26098219 CAAATGGGTGTGTGCCTTCCTC
1 CACATGGGTGTGTACC-TCCTC
26098241 CACATGGG
1 CACATGGG
26098249 CATTTTGACC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.27
Consensus pattern (21 bp):
CACATGGGTGTGTACCTCCTC
Found at i:26104283 original size:44 final size:44
Alignment explanation
Indices: 26104214--26104302 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
26104204 GCCATTTTTC
26104214 ACCATTTGTGCAAATGAATCAAAAATAACCAAAATTCATAAAAA
1 ACCATTTGTGCAAATGAATCAAAAATAACCAAAATTCATAAAAA
** *
26104258 ACCATTTGTGCAAATGTGTCGAAAATAACCAAAATTCATAAAAA
1 ACCATTTGTGCAAATGAATCAAAAATAACCAAAATTCATAAAAA
26104302 A
1 A
26104303 TAATTATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.24
Consensus pattern (44 bp):
ACCATTTGTGCAAATGAATCAAAAATAACCAAAATTCATAAAAA
Found at i:26106738 original size:49 final size:50
Alignment explanation
Indices: 26106641--26106739 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 50
26106631 TGCTATAAAT
* *
26106641 AGAATATTATGGTCGAACCACCAGATAATTACAGATATACTATCAGATAC
1 AGAATATTATGGTCGAACCACCAGAAAATTACAGATATACTACCAGATAC
* * *
26106691 AGAATATTGTGGTC-AAGCCACCA-AAAATTACAGATATATTGCCAGATAC
1 AGAATATTATGGTCGAA-CCACCAGAAAATTACAGATATACTACCAGATAC
26106740 TTCCTCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 24 0.56
50 19 0.44
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (50 bp):
AGAATATTATGGTCGAACCACCAGAAAATTACAGATATACTACCAGATAC
Found at i:26106897 original size:35 final size:35
Alignment explanation
Indices: 26106850--26106948 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
26106840 TTTAACACAG
* * * **
26106850 TGGCATGTTTAACATGCGAATCAGAATCAGAATTA
1 TGGCATGCTTAACATGTGAATCATAATCAGAACAA
**
26106885 TGGCATGCTTAACATGTGAATCATAGGCAGAACAA
1 TGGCATGCTTAACATGTGAATCATAATCAGAACAA
* *
26106920 TAGCATACTTAACATGTGAATCATAATCA
1 TGGCATGCTTAACATGTGAATCATAATCA
26106949 AAATATTCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (35 bp):
TGGCATGCTTAACATGTGAATCATAATCAGAACAA
Found at i:26108648 original size:14 final size:14
Alignment explanation
Indices: 26108629--26108659 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26108619 ACGAATAGTC
26108629 ATGGCGGACTATCA
1 ATGGCGGACTATCA
*
26108643 ATGGCGGACTCTCA
1 ATGGCGGACTATCA
26108657 ATG
1 ATG
26108660 TAAAGATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (14 bp):
ATGGCGGACTATCA
Found at i:26110949 original size:21 final size:22
Alignment explanation
Indices: 26110925--26110981 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 22
26110915 TATATAATTT
26110925 TTTGGAAAATTATTTAATAT-G
1 TTTGGAAAATTATTTAATATGG
*
26110946 TTTGTGTAAA-TATTT-ATATGG
1 TTTG-GAAAATTATTTAATATGG
*
26110967 TTT--AAAATGATTTAA
1 TTTGGAAAATTATTTAA
26110982 ACCTATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
18 3 0.10
19 4 0.14
20 5 0.17
21 13 0.45
22 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TTTGGAAAATTATTTAATATGG
Found at i:26112714 original size:161 final size:162
Alignment explanation
Indices: 26112448--26112773 Score: 557
Period size: 161 Copynumber: 2.0 Consensus size: 162
26112438 TGATATTGGT
*
26112448 GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAGTAGCAAGAATGGTGGTTTTCCCTG
1 GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAGTAGCAAGAATGGTGATTTTCCCTG
* *
26112513 GAAAGATAAACATCCAAATAATTCCACATTTGTAGATCAGGCTACTGTTGGTTCTTTGACTTTCA
66 GAAAGATAAACATACAAATAATTCCACATTTGTAGATCAGGCTACCGTTGGTTCTTTGACTTTCA
*
26112578 ATGTTATTGATGCTTCATGTTTGAAATCATCA
131 ATGTTATTAATGCTTCATGTTTGAAATCATCA
* *
26112610 GGTATTGCCATTAAAGAC-AATCCTCAAACTGCAGCGATAGTAGTAAGAATGGTGATTTTCCCTG
1 GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAGTAGCAAGAATGGTGATTTTCCCTG
* *
26112674 GAAAGATAAACATACAAATAATGT-TACCTTTGTAGATCAGGCTACCGTTGGTTCTTTGACTTTC
66 GAAAGATAAACATACAAATAAT-TCCACATTTGTAGATCAGGCTACCGTTGGTTCTTTGACTTTC
26112738 AATGTTATTAATGCTTCATGTTTGAAATCATCA
130 AATGTTATTAATGCTTCATGTTTGAAATCATCA
26112771 GGT
1 GGT
26112774 GAATCATCAA
Statistics
Matches: 155, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
161 136 0.88
162 19 0.12
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (162 bp):
GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAGTAGCAAGAATGGTGATTTTCCCTG
GAAAGATAAACATACAAATAATTCCACATTTGTAGATCAGGCTACCGTTGGTTCTTTGACTTTCA
ATGTTATTAATGCTTCATGTTTGAAATCATCA
Found at i:26114831 original size:17 final size:18
Alignment explanation
Indices: 26114800--26114834 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26114790 TGTTCTTTAT
26114800 TGCTTATGGCGCCAAAAG
1 TGCTTATGGCGCCAAAAG
*
26114818 TGCTT-TGGCTCCAAAAG
1 TGCTTATGGCGCCAAAAG
26114835 CACTTTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
TGCTTATGGCGCCAAAAG
Found at i:26115139 original size:17 final size:17
Alignment explanation
Indices: 26115117--26115149 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26115107 CAAGCCACAT
26115117 AGGAGACTGAAG-ATTTG
1 AGGAGA-TGAAGCATTTG
26115134 AGGAGATGAAGCATTT
1 AGGAGATGAAGCATTT
26115150 TTAGGACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (17 bp):
AGGAGATGAAGCATTTG
Found at i:26118915 original size:22 final size:22
Alignment explanation
Indices: 26118871--26118915 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
26118861 AAACCACAAG
* **
26118871 GAAAAATAAAAGCATTAGTAAA
1 GAAAAATAAAAGCAATAAAAAA
*
26118893 GAAAAATAAAAGTAATAAAAAA
1 GAAAAATAAAAGCAATAAAAAA
26118915 G
1 G
26118916 TTAAAATTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.16
Consensus pattern (22 bp):
GAAAAATAAAAGCAATAAAAAA
Found at i:26120183 original size:29 final size:30
Alignment explanation
Indices: 26120139--26120208 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
26120129 TTATGACGAT
26120139 AAATGAAATCTAACTGGTAACCCATGAGA-
1 AAATGAAATCTAACTGGTAACCCATGAGAG
* *
26120168 AAATGAAATCTGACTGGTAACCTATGAGAG
1 AAATGAAATCTAACTGGTAACCCATGAGAG
26120198 AAAT-AAA-CTAA
1 AAATGAAATCTAA
26120209 AAGAATGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.08
29 30 0.81
30 4 0.11
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (30 bp):
AAATGAAATCTAACTGGTAACCCATGAGAG
Found at i:26121293 original size:53 final size:54
Alignment explanation
Indices: 26121216--26121367 Score: 193
Period size: 53 Copynumber: 2.9 Consensus size: 54
26121206 GACTATATAT
* ** *
26121216 TGTAAGACCTAGTCTGGGATTATGGCATCATATGGGGATGA-AAGACCATAAAG
1 TGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAAAAGAAGACCACAAAG
* * *
26121269 TGTAAGACCTAGTTTGAGG-CTATGGCATCATATAGGGAAAAGAAGACCACATAG
1 TGTAAGACCTAGTTTG-GGATTATGGCATCATATGGGGAAAAGAAGACCACAAAG
* *
26121323 TGTAAGACCTAGTTTGGGATTATGGCGTCATGTGGGG-AAAGAAGA
1 TGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAAAAGAAGA
26121368 TAAATGACAA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 43 0.51
54 42 0.49
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (54 bp):
TGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAAAAGAAGACCACAAAG
Found at i:26123921 original size:20 final size:18
Alignment explanation
Indices: 26123874--26123922 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
26123864 CAATATAAAC
26123874 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
26123891 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
26123911 ATTAAATTAATA
1 ATTAAATTAATA
26123923 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:26126812 original size:55 final size:55
Alignment explanation
Indices: 26126728--26126896 Score: 329
Period size: 55 Copynumber: 3.1 Consensus size: 55
26126718 AACGAGCTCG
26126728 AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAATCTATTCCCAAGGTTC
1 AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAATCTATTCCCAAGGTTC
26126783 AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAATCTATTCCCAAGGTTC
1 AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAATCTATTCCCAAGGTTC
*
26126838 AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAACCTATTCCCAAGGTTC
1 AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAATCTATTCCCAAGGTTC
26126893 AAAC
1 AAAC
26126897 GGGCTTTTTC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 113 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (55 bp):
AAACTCAAATATCTTAGTGACATGTCACTTGTATTCTAATCTATTCCCAAGGTTC
Found at i:26127295 original size:30 final size:30
Alignment explanation
Indices: 26127261--26127320 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
26127251 CTTTAATACG
26127261 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* **
26127291 AACTTTTGCTTAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
26127321 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:26136581 original size:40 final size:39
Alignment explanation
Indices: 26136483--26136705 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 39
26136473 TCCTCGTTCA
* * * *
26136483 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
26136522 AATGCCTTCGGGACATAACCCGGATTT-GATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAG-TAACTCGCAC
*
26136561 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
26136601 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
* * * * *
26136641 AAATGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
26136682 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26136706 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 39 0.25
40 104 0.66
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:26136647 original size:80 final size:79
Alignment explanation
Indices: 26136481--26136705 Score: 249
Period size: 80 Copynumber: 2.8 Consensus size: 79
26136471 GCTCCTCGTT
* * * * * *
26136481 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
26136545 ATTTGATAACTCGCA
65 ATTTGATAACTCGCA
* *
26136560 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
*
26136625 AATTTG-TATCTCGCA
64 AATTTGATAACTCGCA
* * * * *
26136640 CAAATGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
26136704 GA
63 GA
26136706 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.31
80 70 0.56
81 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTGATAACTCGCA
Found at i:26139055 original size:49 final size:49
Alignment explanation
Indices: 26138950--26139862 Score: 1785
Period size: 49 Copynumber: 18.7 Consensus size: 49
26138940 ATGATAGTAT
*
26138950 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26138997 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139046 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139095 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139144 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139193 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139242 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139291 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139340 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139389 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139438 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139487 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139536 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139585 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139634 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139683 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139732 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
26139781 GGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
26139830 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
26139863 CCCGAAGGGC
Statistics
Matches: 860, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
47 33 0.04
49 824 0.96
50 3 0.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:26140036 original size:37 final size:37
Alignment explanation
Indices: 26139980--26140058 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
26139970 CCGAGCTCTA
* *
26139980 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
26140017 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
26140054 AAGAC
1 AAGAC
26140059 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:26141611 original size:30 final size:30
Alignment explanation
Indices: 26141577--26141633 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
26141567 TAACTCAAAC
26141577 TTTTGAAAAATTACAATTTTGCCCCTAAAT
1 TTTTGAAAAATTACAATTTTGCCCCTAAAT
* * * *
26141607 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
26141634 GGCTCAGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAT
Found at i:26142502 original size:39 final size:39
Alignment explanation
Indices: 26142448--26142548 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
26142438 GGCTATTACA
* *
26142448 CTATGTGCTGGAATTATATCCGGACTTAAGGTCTGCAGG
1 CTATGTGCTGGAATTATATCCGGACCTAAGGTCTCCAGG
* * *
26142487 CTATGTGTTGGAATTATAACCGGACCTAAGGTTTCCAGG
1 CTATGTGCTGGAATTATATCCGGACCTAAGGTCTCCAGG
* * *
26142526 CTACGTGCTGGAAATATGTCCGG
1 CTATGTGCTGGAATTATATCCGG
26142549 GCTAAAGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (39 bp):
CTATGTGCTGGAATTATATCCGGACCTAAGGTCTCCAGG
Found at i:26144100 original size:16 final size:16
Alignment explanation
Indices: 26144079--26144109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26144069 ATATGCATGC
*
26144079 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
26144095 AAAATACAAAAGACA
1 AAAATACAAAAGACA
26144110 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:26149394 original size:42 final size:42
Alignment explanation
Indices: 26149331--26149457 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
26149321 CTTCGTTTTC
** * *
26149331 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
26149374 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
26149415 TCGATGCCATAGCCCAGCTACGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
26149456 TC
1 TC
26149458 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:26149517 original size:47 final size:46
Alignment explanation
Indices: 26149417--26149539 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 46
26149407 TTCATATATC
* * * * * * *
26149417 GATGCCATAGCCCAGCTACGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACA
* *
26149463 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACA
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACA
26149510 GATGCCATATCCCAGATATGGTCTTATACG
1 GATGCCATATCCCAGATATGGTCTTATACG
26149540 GAAATCACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACA
Found at i:26149599 original size:31 final size:31
Alignment explanation
Indices: 26149564--26149712 Score: 230
Period size: 31 Copynumber: 4.8 Consensus size: 31
26149554 CTTGTCACTT
*
26149564 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
26149595 GTAGCCGAAGCTACCA-TATTTCACTGATCAG
1 GTAGCCGAAGCTACCACT-TTTCACTGATCAG
*
26149626 GTAGCCGGAA-CTACCACTTTTCACTGACCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
26149657 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
26149688 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
26149713 TGTCATTTGT
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
30 4 0.04
31 101 0.93
32 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:26149794 original size:50 final size:51
Alignment explanation
Indices: 26149688--26149816 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
26149678 CACTGATCAG
* * *
26149688 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
26149739 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
26149789 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
26149817 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Done.