Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 40 of 373
Found at i:11523176 original size:46 final size:46
Alignment explanation
Indices: 11523109--11523376 Score: 255
Period size: 46 Copynumber: 5.8 Consensus size: 46
11523099 TGTAACCCGC
* *
11523109 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
11523155 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
11523205 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
11523248 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * **
11523298 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
11523341 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
11523377 ATGCTTAAAT
Statistics
Matches: 179, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 2 0.01
45 4 0.02
46 89 0.50
47 53 0.30
48 5 0.03
49 2 0.01
50 6 0.03
51 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:11523230 original size:93 final size:93
Alignment explanation
Indices: 11523117--11523380 Score: 474
Period size: 93 Copynumber: 2.8 Consensus size: 93
11523107 GCCCATAAGT
* * * *
11523117 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11523182 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
11523210 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
11523275 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
11523303 GAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11523368 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11523381 TTAAATATCC
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11523231 original size:47 final size:47
Alignment explanation
Indices: 11523163--11523329 Score: 214
Period size: 47 Copynumber: 3.6 Consensus size: 47
11523153 ATCCATAAGT
*
11523163 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * *
11523210 GAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
*
11523256 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
11523303 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
11523330 AACGTTCGCA
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 34 0.35
47 60 0.61
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11528075 original size:46 final size:46
Alignment explanation
Indices: 11528008--11528229 Score: 277
Period size: 46 Copynumber: 4.8 Consensus size: 46
11527998 TGTAACCCGC
* * * * *
11528008 CCATAAGCGAACTAGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * *
11528054 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
11528100 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
11528147 TCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
11528193 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11528230 TGCTCAAATA
Statistics
Matches: 150, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
45 2 0.01
46 112 0.75
47 34 0.23
48 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:11528122 original size:93 final size:93
Alignment explanation
Indices: 11528015--11528183 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
11528005 CGCCCATAAG
* * *
11528015 CGAACTAGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTAGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
11528080 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
11528108 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTAGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
11528173 ACGAGTTCGGA
66 ACGAGTTCGGA
11528184 CGTTCGCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTAGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:11530677 original size:56 final size:56
Alignment explanation
Indices: 11530610--11530764 Score: 231
Period size: 56 Copynumber: 2.8 Consensus size: 56
11530600 GAAAAATATG
11530610 TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
11530666 TGGCATCGATATGTGATTCTGATATACGTGTGCGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * * *
11530722 TGGCATCAATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACC
11530765 CTATCAGGGA
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 2 0.02
56 87 0.98
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
Found at i:11538694 original size:13 final size:15
Alignment explanation
Indices: 11538657--11538686 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11538647 AAAAATTAAC
11538657 CTCTAAGTTTTTTAG
1 CTCTAAGTTTTTTAG
11538672 CTCTAAGTTTTTTAG
1 CTCTAAGTTTTTTAG
11538687 TTCAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
CTCTAAGTTTTTTAG
Found at i:11542172 original size:22 final size:21
Alignment explanation
Indices: 11542138--11542180 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
11542128 AACATATGTA
11542138 TTTCACATCATTCAATACACAT
1 TTTCACATCATTCAATA-ACAT
*
11542160 TTTCAC-TCAATTCCATAACAT
1 TTTCACATC-ATTCAATAACAT
11542181 AATTCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.37
Consensus pattern (21 bp):
TTTCACATCATTCAATAACAT
Found at i:11556371 original size:24 final size:23
Alignment explanation
Indices: 11556327--11556372 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
11556317 AATAAAACTA
*
11556327 AACCCCAAAACCTGAAAACAAAG
1 AACCCCAAAACATGAAAACAAAG
11556350 AACCCTCAAAACAT-AAACACAAA
1 AACCC-CAAAACATGAAA-ACAAA
11556373 ATTCTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.59, C:0.30, G:0.04, T:0.07
Consensus pattern (23 bp):
AACCCCAAAACATGAAAACAAAG
Found at i:11556828 original size:29 final size:28
Alignment explanation
Indices: 11556796--11556855 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
11556786 TTAATTTTAA
*
11556796 TTTTATATTAAT-TTTTAGTTGAATTTATT
1 TTTTAT-TTAATATTTTAATT-AATTTATT
**
11556825 TTTTATTTTTTATTTTAATTAATTTATT
1 TTTTATTTAATATTTTAATTAATTTATT
11556853 TTT
1 TTT
11556856 CTATGAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (28 bp):
TTTTATTTAATATTTTAATTAATTTATT
Found at i:11557071 original size:21 final size:21
Alignment explanation
Indices: 11557047--11557087 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11557037 TATTTTTAAT
11557047 TAAAAATATATA-ATAAATAAA
1 TAAAAA-ATATAGATAAATAAA
11557068 TAAAAAATATAGATAAATAA
1 TAAAAAATATAGATAAATAA
11557088 TAAGAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAAATATAGATAAATAAA
Found at i:11558369 original size:22 final size:25
Alignment explanation
Indices: 11558320--11558369 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 25
11558310 ATACATAAGT
*
11558320 ATTTTCAAAAAATATATAATAATAA
1 ATTTTCAAAAAATATATAAAAATAA
*
11558345 ATTTT-AAAAAATA-A-AAAAATTA
1 ATTTTCAAAAAATATATAAAAATAA
11558367 ATT
1 ATT
11558370 GTTTACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 1 0.04
24 8 0.35
25 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTTTCAAAAAATATATAAAAATAA
Found at i:11558938 original size:106 final size:106
Alignment explanation
Indices: 11558753--11558964 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
11558743 GATTTAACGT
11558753 GTTATGTGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTAT
1 GTTATGTGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTAT
11558818 CTCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
66 CTCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
11558859 GTTATGTGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTAT
1 GTTATGTGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTAT
11558924 CTCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
66 CTCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
11558965 CCATGTTTGA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.51
Consensus pattern (106 bp):
GTTATGTGTCAAGTTATTTGTTAGTTAAATTATTCCACATGTTTGAATGTGTTCATATGTTTTAT
CTCTAAGTTGCTAAGTTAGTTTTAATGTGTGTGTTATTTTA
Found at i:11560272 original size:19 final size:19
Alignment explanation
Indices: 11560248--11560287 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11560238 TTCCCATGTA
11560248 TATGGTTCCAGCCTTGATT
1 TATGGTTCCAGCCTTGATT
11560267 TATGGTTCCAGCCTTGATT
1 TATGGTTCCAGCCTTGATT
11560286 TA
1 TA
11560288 GTTAGTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (19 bp):
TATGGTTCCAGCCTTGATT
Found at i:11562854 original size:13 final size:13
Alignment explanation
Indices: 11562836--11562861 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11562826 AAATATTCAG
11562836 CAAGTAAACTGCA
1 CAAGTAAACTGCA
11562849 CAAGTAAACTGCA
1 CAAGTAAACTGCA
11562862 GTACGAACAG
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:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CAAGTAAACTGCA
Found at i:11563976 original size:17 final size:17
Alignment explanation
Indices: 11563956--11563990 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11563946 AAAAATATGG
11563956 GACGGAATAAAACATTA
1 GACGGAATAAAACATTA
11563973 GACGGAATAAAACATTA
1 GACGGAATAAAACATTA
11563990 G
1 G
11563991 GAACTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.17
Consensus pattern (17 bp):
GACGGAATAAAACATTA
Found at i:11567382 original size:30 final size:30
Alignment explanation
Indices: 11567343--11567407 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
11567333 CACTCAACTC
11567343 TCCTCCTCCTCCTCC-CCCTTCTTCTTCCCTA
1 TCCTCCTCCTCCTCCTCCC--CTTCTTCCCTA
11567374 TCCT-CTCCTCCTCCTTCCCCTTCTTCCCTA
1 TCCTCCTCCTCCTCC-TCCCCTTCTTCCCTA
11567404 TCCT
1 TCCT
11567408 TTCTCTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 25 0.78
31 4 0.12
32 3 0.09
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (30 bp):
TCCTCCTCCTCCTCCTCCCCTTCTTCCCTA
Found at i:11568369 original size:14 final size:14
Alignment explanation
Indices: 11568350--11568377 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11568340 TTTAAAACTC
11568350 TTGCCTTTTAGTTT
1 TTGCCTTTTAGTTT
11568364 TTGCCTTTTAGTTT
1 TTGCCTTTTAGTTT
11568378 ATCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.14, T:0.64
Consensus pattern (14 bp):
TTGCCTTTTAGTTT
Found at i:11574680 original size:26 final size:26
Alignment explanation
Indices: 11574637--11574703 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
11574627 CCTTTACATA
* * *
11574637 TATGCTCTCACAAACTGTGAAAAGAG
1 TATGCTCACACGAGCTGTGAAAAGAG
*
11574663 TATGCTCACACGAGCTGTGAAATGAG
1 TATGCTCACACGAGCTGTGAAAAGAG
** *
11574689 CCTGCTCACATGAGC
1 TATGCTCACACGAGC
11574704 CATGGGTCGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
TATGCTCACACGAGCTGTGAAAAGAG
Found at i:11582110 original size:53 final size:53
Alignment explanation
Indices: 11582030--11582135 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
11582020 ATTATAAGTG
11582030 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
1 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
11582083 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
1 TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
11582136 AGCCCTTGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (53 bp):
TACATAGATGAAAATACTACACTTAGGGCACCAGATGTAAGAACATCACCCCT
Found at i:11585726 original size:160 final size:157
Alignment explanation
Indices: 11585470--11585772 Score: 412
Period size: 160 Copynumber: 1.9 Consensus size: 157
11585460 TAAAAAAGTA
* * *
11585470 ATTTCAATTTTTCGTGGCCATGGAATCAGATATTATTGATTTTTTTTTCTTGTTTATGACTTGCT
1 ATTTCAATTTTTCGTGGCCATGGAAACAGATATTATTGATTTTTTTTTCTTGTTTATAACTAGCT
* * * * * * *
11585535 TTATTCATGAAGGGAATTGATTTTTAAGAATGATCACAGTCACATCAACCATGAAAGGAGGATTG
66 CTATTCATAAAGGGAATTAATCTTTAAGAATGATCACAATCACATCAACCATAAAAGAAGGATTG
*
11585600 ATCCGTGTACTTTCTCAAGGAGTACTT
131 ATCAGTGTACTTTCTCAAGGAGTACTT
*
11585627 ATTTCAATTTTT-GTGGCCAT-GAAACAGATATTATTGATTTTATTTTATGTTTTGCTTTATAAC
1 ATTTCAATTTTTCGTGGCCATGGAAACAGATATTATTGA-TTT-TTTT-T-TCTTG-TTTATAAC
* * *
11585690 TAGCTCTATTCATAAATGGAATTAATCTTTAAGAATGATCATAATCACATCAACCTTAAAAGAAG
61 TAGCTCTATTCATAAAGGGAATTAATCTTTAAGAATGATCACAATCACATCAACCATAAAAGAAG
11585755 GATTGATCAGTGTACTTT
126 GATTGATCAGTGTACTTT
11585773 AGAAGGATTG
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
155 16 0.13
156 11 0.09
157 16 0.13
158 1 0.01
159 4 0.03
160 78 0.62
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (157 bp):
ATTTCAATTTTTCGTGGCCATGGAAACAGATATTATTGATTTTTTTTTCTTGTTTATAACTAGCT
CTATTCATAAAGGGAATTAATCTTTAAGAATGATCACAATCACATCAACCATAAAAGAAGGATTG
ATCAGTGTACTTTCTCAAGGAGTACTT
Found at i:11585776 original size:23 final size:23
Alignment explanation
Indices: 11585750--11585795 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11585740 CAACCTTAAA
11585750 AGAAGGATTGATCAGTGTACTTT
1 AGAAGGATTGATCAGTGTACTTT
11585773 AGAAGGATTGATCAGTGTACTTT
1 AGAAGGATTGATCAGTGTACTTT
11585796 CTCAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (23 bp):
AGAAGGATTGATCAGTGTACTTT
Found at i:11586305 original size:26 final size:26
Alignment explanation
Indices: 11586274--11586327 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11586264 GAAAGAATGC
11586274 AGCTGAATTGATAAGAAAGATTTCTT
1 AGCTGAATTGATAAGAAAGATTTCTT
11586300 AGCTGAATTGATAAGAAAGATTTCTT
1 AGCTGAATTGATAAGAAAGATTTCTT
11586326 AG
1 AG
11586328 GCTGCCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
AGCTGAATTGATAAGAAAGATTTCTT
Found at i:11587064 original size:21 final size:21
Alignment explanation
Indices: 11587017--11587071 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
11587007 ACCGCTATTT
* *
11587017 CTAATCTCATCGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
11587038 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
*
11587059 CTAATCTTACCGC
1 CTAATCTCACCGC
11587072 CACCGCTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.09, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:11592886 original size:25 final size:25
Alignment explanation
Indices: 11592857--11592907 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11592847 TATGTTTTTG
* *
11592857 TATAAATTAATTT-AATTATTTATAT
1 TATAAATAAATTTGAATCATTT-TAT
11592882 TATAAATAAATTTGAATCATTTTAT
1 TATAAATAAATTTGAATCATTTTAT
11592907 T
1 T
11592908 GCAAGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
TATAAATAAATTTGAATCATTTTAT
Found at i:11599084 original size:29 final size:30
Alignment explanation
Indices: 11599025--11599084 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11599015 GATAGAAGGG
* * * *
11599025 GAGTAAAAGTTTTGGGGGGAAAGTAGGAAA
1 GAGTAAAAATTTTGAGGGAAAAGTAGAAAA
11599055 GAGTAAAAATTTTGAGGGAAAAGTA-AAAA
1 GAGTAAAAATTTTGAGGGAAAAGTAGAAAA
11599084 G
1 G
11599085 GTTTGGGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (30 bp):
GAGTAAAAATTTTGAGGGAAAAGTAGAAAA
Found at i:11599089 original size:21 final size:21
Alignment explanation
Indices: 11599050--11599089 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11599040 GGGGAAAGTA
*
11599050 GGAAAGAGTAAAAATTTTGAG
1 GGAAAGAGTAAAAAGTTTGAG
11599071 GGAAA-AGTAAAAAGGTTTG
1 GGAAAGAGTAAAAA-GTTTG
11599090 GGAGTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GGAAAGAGTAAAAAGTTTGAG
Found at i:11599141 original size:9 final size:9
Alignment explanation
Indices: 11599127--11599163 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11599117 TATAGTTTAA
11599127 TATTCGAAT
1 TATTCGAAT
11599136 TATTCGAAT
1 TATTCGAAT
*
11599145 TATTCGAGT
1 TATTCGAAT
11599154 TATTCGAAT
1 TATTCGAAT
11599163 T
1 T
11599164 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11599784 original size:19 final size:20
Alignment explanation
Indices: 11599738--11599790 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 20
11599728 TAAACTAAGT
11599738 AAAAACTAAGAACGAAATATGC
1 AAAAACTAAGAACGAAATA--C
11599760 AAAAACTAAGAACGAAATA-
1 AAAAACTAAGAACGAAATAC
11599779 AAAAACTAAGAA
1 AAAAACTAAGAA
11599791 TGATTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.39
22 19 0.61
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAACTAAGAACGAAATAC
Found at i:11609394 original size:41 final size:41
Alignment explanation
Indices: 11609334--11609416 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
11609324 AGAGTGAACG
* *
11609334 AGTCTGTACTGAGGGGGTCAAATCCACGGTGTCACTCTATC
1 AGTCTGTACTGAGGAGGTCAAATCAACGGTGTCACTCTATC
*
11609375 AGTCTGTACTGAGGAGGTCAAATCAATGGTGTCACTCTATC
1 AGTCTGTACTGAGGAGGTCAAATCAACGGTGTCACTCTATC
11609416 A
1 A
11609417 TCCTCATGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
AGTCTGTACTGAGGAGGTCAAATCAACGGTGTCACTCTATC
Found at i:11610702 original size:26 final size:26
Alignment explanation
Indices: 11610641--11610697 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11610631 GAAATAACGC
*
11610641 AAAATAA-AATAGTAATAAAGAACTA
1 AAAATAATAATACTAATAAAGAACTA
*
11610666 AGAATAATAATACTAATAAA-AA-TA
1 AAAATAATAATACTAATAAAGAACTA
11610690 AAAATAAT
1 AAAATAAT
11610698 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.32
25 8 0.29
26 11 0.39
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAATAATAATACTAATAAAGAACTA
Found at i:11610915 original size:19 final size:18
Alignment explanation
Indices: 11610891--11610956 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
11610881 GGAGAAAGTC
11610891 AAAGAAAGAGGAAAGAAAG
1 AAAGAAA-AGGAAAGAAAG
*
11610910 AAAGAAAAGAGAAGGAAAG
1 AAAGAAAAG-GAAAGAAAG
*
11610929 AAAGAGAAGGGAAAG-AAG
1 AAAGA-AAAGGAAAGAAAG
11610947 -AAGAAAAGGA
1 AAAGAAAAGGA
11610957 GAGCAAGGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 5 0.12
17 4 0.10
18 5 0.12
19 24 0.59
20 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGGAAAGAAAG
Found at i:11610922 original size:15 final size:15
Alignment explanation
Indices: 11610891--11610954 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
11610881 GGAGAAAGTC
*
11610891 AAAGAAAGAGGAA-AG
1 AAAGAAAGA-AAAGAG
11610906 AAAGAAAGAAAAGAG
1 AAAGAAAGAAAAGAG
*
11610921 AAGGAAAG-AAAGAG
1 AAAGAAAGAAAAGAG
*
11610935 AAGGGAAAGAAGAAGA-
1 AA-AGAAAGAA-AAGAG
11610951 AAAG
1 AAAG
11610955 GAGAGCAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.24
15 25 0.60
16 3 0.07
17 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAGAG
Found at i:11610947 original size:14 final size:14
Alignment explanation
Indices: 11610901--11610945 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
11610891 AAAGAAAGAG
11610901 GAAAGA-AA-GAAA
1 GAAAGAGAAGGAAA
11610913 GAAAAGAGAAGGAAA
1 G-AAAGAGAAGGAAA
11610928 GAAAGAGAAGGGAAA
1 GAAAGAGAA-GGAAA
11610943 GAA
1 GAA
11610946 GAAGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 5 0.17
14 10 0.34
15 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAAGAGAAGGAAA
Found at i:11612057 original size:90 final size:90
Alignment explanation
Indices: 11611904--11612084 Score: 326
Period size: 90 Copynumber: 2.0 Consensus size: 90
11611894 TTTCTTCGTG
*
11611904 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCTTAGGGGACTCCT
1 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
*
11611969 ACAAAGAAGTTTAAGTTGTAATATT
66 ACAAAGAAGTTTAAGTTGTAACATT
*
11611994 AATCGCTCTGTTTTTGTGACATGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
1 AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
*
11612059 ACAAAGAAGTTTGAGTTGTAACATT
66 ACAAAGAAGTTTAAGTTGTAACATT
11612084 A
1 A
11612085 CTTAAATTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (90 bp):
AATCGCTCTGTTTTTGTGACACGGATTAGAATGAGGCTCCATCACGTTCTTCCTAGGGGACTCCT
ACAAAGAAGTTTAAGTTGTAACATT
Found at i:11615759 original size:30 final size:30
Alignment explanation
Indices: 11615725--11615782 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
11615715 CACGACCGTG
11615725 ACACACGGGCATGTGG-TCTACCCGTGTGTC
1 ACACACGGGCATGTGGATC-ACCCGTGTGTC
11615755 ACACACGGGCATGTGGATCACCCGTGTG
1 ACACACGGGCATGTGGATCACCCGTGTG
11615783 GAAGTGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGATCACCCGTGTGTC
Found at i:11634253 original size:17 final size:17
Alignment explanation
Indices: 11634231--11634265 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11634221 GAAATTTTTA
11634231 TATTTTTAGTTTTATTT
1 TATTTTTAGTTTTATTT
*
11634248 TATTTTTATTTTTATTT
1 TATTTTTAGTTTTATTT
11634265 T
1 T
11634266 TATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (17 bp):
TATTTTTAGTTTTATTT
Found at i:11634254 original size:6 final size:6
Alignment explanation
Indices: 11634226--11634268 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
11634216 TCTATGAAAT
*
11634226 TTTTATA TTTTTA GTTTTA -TTTTA TTTTTA TTTTTA TTTTTA T
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
11634269 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 5 0.15
6 25 0.74
7 4 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:11634254 original size:11 final size:11
Alignment explanation
Indices: 11634234--11634268 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
11634224 ATTTTTATAT
*
11634234 TTTTAGTTTTA
1 TTTTATTTTTA
11634245 TTTTATTTTTA
1 TTTTATTTTTA
11634256 TTTTTATTTTTA
1 -TTTTATTTTTA
11634268 T
1 T
11634269 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11635379 original size:6 final size:6
Alignment explanation
Indices: 11635368--11635411 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
11635358 GGCTTGGAGA
11635368 GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GG
1 GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GG
11635412 ATAGAAGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GGGTAG
Found at i:11638944 original size:43 final size:43
Alignment explanation
Indices: 11638886--11639001 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
11638876 CGTTCGTGCC
* *
11638886 AGAAACGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGGG
1 AGAAGCGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGAG
* * * **
11638929 GGAAGCGCCGCTAAAGGTCATGTTATTTAGTGGCGTTTGTGAG
1 AGAAGCGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGAG
*
11638972 AGAAGCGCTACTAAAGGTCATGTTCTTTAG
1 AGAAGCGCCACTAAAGGTCATGTTCTTTAG
11639002 CGGTGATTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (43 bp):
AGAAGCGCCACTAAAGGTCATGTTCTTTAGTGGAATTTGTGAG
Found at i:11639029 original size:43 final size:43
Alignment explanation
Indices: 11638896--11639049 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
11638886 AGAAACGCCA
* * * * * * *
11638896 CTAAAGGTCATGTTCTTTAGTGG-AATTTGTGGGGGAAGCGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGA-TTATGAGAGAAGCACTG
* * * * * *
11638939 CTAAAGGTCATGTTATTTAGTGGCGTTTGTGAGAGAAGCGCTA
1 CTAAAGGTCATGTTCTTTAGCGGCGATTATGAGAGAAGCACTG
* *
11638982 CTAAAGGTCATGTTCTTTAGCGGTGATTATGAG-GAAAGCATTG
1 CTAAAGGTCATGTTCTTTAGCGGCGATTATGAGAG-AAGCACTG
*
11639025 CTAAAGGTCATGTTCTATAGCGGCG
1 CTAAAGGTCATGTTCTTTAGCGGCG
11639050 TTTTTCCACA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 91 0.99
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (43 bp):
CTAAAGGTCATGTTCTTTAGCGGCGATTATGAGAGAAGCACTG
Found at i:11649024 original size:42 final size:42
Alignment explanation
Indices: 11648977--11649060 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
11648967 GAATGAGTAG
11648977 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
1 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
11649019 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
1 AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
11649061 TCATGCTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (42 bp):
AACTTTCGGCCATGATAGTTAATAAAAGATATGGTTATTGTT
Found at i:11650009 original size:38 final size:37
Alignment explanation
Indices: 11649958--11650036 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
11649948 GTAAAAGAAG
*
11649958 AAATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAA
1 AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
*
11649995 TAAATCGGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
1 -AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
11650033 AAAT
1 AAAT
11650037 ATCCGGGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (37 bp):
AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
Found at i:11650060 original size:39 final size:37
Alignment explanation
Indices: 11649958--11650060 Score: 100
Period size: 38 Copynumber: 2.7 Consensus size: 37
11649948 GTAAAAGAAG
* * * *
11649958 AAATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAT
1 AAATCGGGA-TTAAAGCCCGCAGGCTAAGTGCTGGAAA
*
11649996 AAATCGGGACTTAAAGTCCGCAGGCTAAGTGCTGGAAA
1 AAATCGGGA-TTAAAGCCCGCAGGCTAAGTGCTGGAAA
*
11650034 AATATCCGGG-TTAAGGACCCGCAGGCT
1 AA-AT-CGGGATTAAAG-CCCGCAGGCT
11650061 CATGCTAGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
38 42 0.74
39 11 0.19
40 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (37 bp):
AAATCGGGATTAAAGCCCGCAGGCTAAGTGCTGGAAA
Found at i:11657309 original size:38 final size:37
Alignment explanation
Indices: 11657258--11657336 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
11657248 GTAAAAGAAG
*
11657258 AAATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAA
1 AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
*
11657295 TAAATCGGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
1 -AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
11657333 AAAT
1 AAAT
11657337 ATCCGGGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (37 bp):
AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
Found at i:11657360 original size:39 final size:37
Alignment explanation
Indices: 11657258--11657360 Score: 100
Period size: 38 Copynumber: 2.7 Consensus size: 37
11657248 GTAAAAGAAG
* * * *
11657258 AAATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAT
1 AAATCGGGA-TTAAAGCCCGCAGGCTAAGTGCTGGAAA
*
11657296 AAATCGGGACTTAAAGTCCGCAGGCTAAGTGCTGGAAA
1 AAATCGGGA-TTAAAGCCCGCAGGCTAAGTGCTGGAAA
*
11657334 AATATCCGGG-TTAAGGACCCGCAGGCT
1 AA-AT-CGGGATTAAAG-CCCGCAGGCT
11657361 CATGCTAGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
38 42 0.74
39 11 0.19
40 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (37 bp):
AAATCGGGATTAAAGCCCGCAGGCTAAGTGCTGGAAA
Found at i:11661808 original size:19 final size:19
Alignment explanation
Indices: 11661780--11661818 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11661770 TAAATTAATT
11661780 ATTTTAG-AAATATATTAAA
1 ATTTTAGAAAATAT-TTAAA
*
11661799 ATTTTTGAAAATATTTAAA
1 ATTTTAGAAAATATTTAAA
11661818 A
1 A
11661819 ACTTTTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTTTAGAAAATATTTAAA
Found at i:11661999 original size:39 final size:40
Alignment explanation
Indices: 11661956--11662037 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 40
11661946 TATTTAATAC
* *
11661956 AATAAAATATTTATTATATTTAT-TTTTGTTTTTTAACAT
1 AATAAAAAATTTATTATATTTATGTTGTGTTTTTTAACAT
*
11661995 AATAAAAAATTTATTATATTTATGGTTGTGTTTTTTAATAT
1 AATAAAAAATTTATTATATTTAT-GTTGTGTTTTTTAACAT
11662036 AA
1 AA
11662038 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 22 0.58
41 16 0.42
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (40 bp):
AATAAAAAATTTATTATATTTATGTTGTGTTTTTTAACAT
Found at i:11662416 original size:7 final size:7
Alignment explanation
Indices: 11662404--11662428 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11662394 ACATTGATTT
11662404 GCAAGTG
1 GCAAGTG
11662411 GCAAGTG
1 GCAAGTG
11662418 GCAAGTG
1 GCAAGTG
11662425 GCAA
1 GCAA
11662429 CTCCTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.40, T:0.12
Consensus pattern (7 bp):
GCAAGTG
Found at i:11664427 original size:10 final size:9
Alignment explanation
Indices: 11664395--11664494 Score: 62
Period size: 10 Copynumber: 10.7 Consensus size: 9
11664385 CAAATCTGTA
11664395 AAAAATTAT
1 AAAAATTAT
* *
11664404 AAAATTTTT
1 AAAAATTAT
11664413 GAAAAATTACT
1 -AAAAATTA-T
11664424 AAAAATTAT
1 AAAAATTAT
11664433 -AAAA-TAT
1 AAAAATTAT
* *
11664440 AAAAAATACA
1 AAAAATTA-T
11664450 AAAAATTAATT
1 AAAAATT-A-T
*
11664461 AATAATTTAT
1 AA-AAATTAT
11664471 AAAAA-TAT
1 AAAAATTAT
*
11664479 AAAATTTAAT
1 AAAAATT-AT
11664489 AAAAAT
1 AAAAAT
11664495 GCACATCTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
7 3 0.04
8 15 0.21
9 13 0.19
10 30 0.43
11 5 0.07
12 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:11664436 original size:19 final size:19
Alignment explanation
Indices: 11664395--11664444 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
11664385 CAAATCTGTA
* *
11664395 AAAAATTATAAAATTTTTG
1 AAAAATTATAAAAATTATG
11664414 AAAAATTACTAAAAATTAT-
1 AAAAATTA-TAAAAATTATG
11664433 -AAAA-TATAAAAA
1 AAAAATTATAAAAA
11664445 ATACAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 2 0.07
18 4 0.14
19 8 0.29
20 8 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATTATG
Found at i:11665151 original size:16 final size:16
Alignment explanation
Indices: 11665130--11665179 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
11665120 ATATCTAATC
11665130 ATATAATAAATTATTA
1 ATATAATAAATTATTA
11665146 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
11665159 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
11665176 ATAT
1 ATAT
11665180 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:11665237 original size:15 final size:16
Alignment explanation
Indices: 11665188--11665237 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
11665178 ATTTTAATTT
11665188 TATT-TTAATAATAAA
1 TATTATTAATAATAAA
*
11665203 TATTTATTAAAATTATAAA
1 TA-TTATT--AATAATAAA
11665222 TA-TATTAATAATAAA
1 TATTATTAATAATAAA
11665237 T
1 T
11665238 TTTTTGTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 11 0.38
16 2 0.07
17 6 0.21
19 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATTAATAATAAA
Found at i:11667163 original size:30 final size:30
Alignment explanation
Indices: 11667129--11667191 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11667119 ACTTAACAAG
**
11667129 CAAATGTCTCTAAAATAATATTAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
11667159 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
11667189 CAA
1 CAA
11667192 TAAAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:11667629 original size:41 final size:41
Alignment explanation
Indices: 11667553--11667630 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
11667543 TTGTTTTTTT
* ** *
11667553 AGAGAGAAATGAAAATACGTCTTACAAGGTGCATTTTTAGG
1 AGAGAGAAATGAAAACACACCTTACAAGGTACATTTTTAGG
*
11667594 AGAGAGAAATGAAAACACACCTTA-TAGGATACATTTT
1 AGAGAGAAATGAAAACACACCTTACAAGG-TACATTTT
11667631 CAAATTGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.10
41 28 0.90
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (41 bp):
AGAGAGAAATGAAAACACACCTTACAAGGTACATTTTTAGG
Found at i:11668990 original size:45 final size:45
Alignment explanation
Indices: 11668926--11669014 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
11668916 GGATTGGATC
*
11668926 CGTGCATTTGGGTTGAGATGTCTTCTTGGAGTTCGAAAATCTATT
1 CGTGCATTTGGGTTGAGATGTCTTCATGGAGTTCGAAAATCTATT
11668971 CGTGCATTTGGGTTGAGATGTCTTCATGGAGTTCGAAAATCTAT
1 CGTGCATTTGGGTTGAGATGTCTTCATGGAGTTCGAAAATCTAT
11669015 CTCTTAGCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (45 bp):
CGTGCATTTGGGTTGAGATGTCTTCATGGAGTTCGAAAATCTATT
Found at i:11675124 original size:25 final size:25
Alignment explanation
Indices: 11675091--11675174 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 25
11675081 TTCATATTCA
11675091 GGAATGCTCATACGAGCATGTAAACG
1 GGAA-GCTCATACGAGCATGTAAACG
* * *
11675117 GGAAGCTCTTTCGAGCCATAT-AACG
1 GGAAGCTCATACGAG-CATGTAAACG
* **
11675142 GGAAGTTCATGTGAGC-TGTATAACG
1 GGAAGCTCATACGAGCATGTA-AACG
*
11675167 AGAAGCTC
1 GGAAGCTC
11675175 TTGCGAGCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 34 0.76
26 8 0.18
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (25 bp):
GGAAGCTCATACGAGCATGTAAACG
Found at i:11675182 original size:25 final size:25
Alignment explanation
Indices: 11675103--11675182 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
11675093 AATGCTCATA
*
11675103 CGAGCATGTA-AACGGGAAGCTCTTT
1 CGAGC-TGTATAACGGGAAGCTCTTG
** * *
11675128 CGAGCCATATAACGGGAAGTTCATG
1 CGAGCTGTATAACGGGAAGCTCTTG
* *
11675153 TGAGCTGTATAACGAGAAGCTCTTG
1 CGAGCTGTATAACGGGAAGCTCTTG
11675178 CGAGC
1 CGAGC
11675183 CATTTATCGG
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 2 0.05
25 40 0.95
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (25 bp):
CGAGCTGTATAACGGGAAGCTCTTG
Found at i:11675604 original size:10 final size:10
Alignment explanation
Indices: 11675589--11675632 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11675579 TATACAAATG
11675589 AATTTAATTC
1 AATTTAATTC
*
11675599 AATTTAATAC
1 AATTTAATTC
*
11675609 AATTCATATTC
1 AATTTA-ATTC
*
11675620 AATTTAATCC
1 AATTTAATTC
11675630 AAT
1 AAT
11675633 ACACATTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTAATTC
Found at i:11677241 original size:56 final size:56
Alignment explanation
Indices: 11677155--11677267 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
11677145 GTTACCGTTG
*
11677155 CCCTGAAAACACGTCTTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
1 CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
*
11677211 CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTTTGTAAGAGGTGTTTT
1 CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
11677267 C
1 C
11677268 ATTTTTCTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (56 bp):
CCCTGAAAACACGTCCTACAGTGCGTGTTTTCATTTCTTTCTGTAAGAGGTGTTTT
Found at i:11677758 original size:8 final size:8
Alignment explanation
Indices: 11677718--11677767 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
11677708 TTAAATGTGC
11677718 ATTTTTATT
1 ATTTTTA-T
11677727 ATTTTTAT
1 ATTTTTAT
*
11677735 ATATAATTAT
1 AT-T-TTTAT
11677745 -TTTTTAT
1 ATTTTTAT
11677752 ATTTTTAT
1 ATTTTTAT
11677760 ATTTTTAT
1 ATTTTTAT
11677768 TCTAGATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 4 0.11
8 19 0.53
9 9 0.25
10 4 0.11
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTAT
Found at i:11677842 original size:20 final size:19
Alignment explanation
Indices: 11677812--11677865 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
11677802 ACATATTGGA
11677812 AATTTTTATATTTTTTAGT
1 AATTTTTATATTTTTTAGT
*
11677831 AATTTTTAATATTTTTTA-C
1 AATTTTT-ATATTTTTTAGT
*
11677850 AATGTTTA-ATTTTTTA
1 AATTTTTATATTTTTTA
11677866 TAAGGTTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.25
18 1 0.03
19 13 0.41
20 10 0.31
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
AATTTTTATATTTTTTAGT
Found at i:11678467 original size:17 final size:16
Alignment explanation
Indices: 11678447--11678488 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
11678437 ATGAAATTAG
11678447 AATTTAATTAAGAAAAT
1 AATTTAATTAA-AAAAT
*
11678464 AATTTAACTTAAAAATT
1 AATTTAA-TTAAAAAAT
11678481 AA-TTAATT
1 AATTTAATT
11678489 TTAATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 4 0.17
17 13 0.57
18 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTAATTAAAAAAT
Found at i:11680174 original size:17 final size:18
Alignment explanation
Indices: 11680152--11680189 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11680142 AACATAATTT
11680152 AAAAA-TAAAAATTGTAA
1 AAAAATTAAAAATTGTAA
*
11680169 AAAAATTAAATATTGTAA
1 AAAAATTAAAAATTGTAA
11680187 AAA
1 AAA
11680190 TGTATGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATTAAAAATTGTAA
Found at i:11680551 original size:18 final size:18
Alignment explanation
Indices: 11680521--11680574 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
11680511 ATTTTATATA
*
11680521 TTTAATTTA--TTTACCT
1 TTTAATTTAGTTTTACAT
11680537 TTTAATTTAGTTTTACAT
1 TTTAATTTAGTTTTACAT
11680555 TTTAATTTAGTATTT-CAT
1 TTTAATTTAGT-TTTACAT
11680573 TT
1 TT
11680575 ACTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.26
18 22 0.65
19 3 0.09
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTAATTTAGTTTTACAT
Found at i:11682102 original size:37 final size:37
Alignment explanation
Indices: 11682041--11682186 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
11682031 TACGTATGAT
* *
11682041 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
11682076 CACCTATCACTTTGTTTCTTGATCAGATAACTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11682113 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11682150 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11682187 TAAAGCTATC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 88 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11682203 original size:46 final size:46
Alignment explanation
Indices: 11682150--11682516 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
11682140 TAAGTGCAGC
* * **
11682150 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11682196 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
11682242 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11682294 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11682340 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11682392 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
11682438 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
11682490 CACTTATCATTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11682517 AGTACTCAAA
Statistics
Matches: 285, Mismatches: 18, Indels: 36
0.84 0.05 0.11
Matches are distributed among these distances:
46 154 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 125 0.44
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:11682269 original size:52 final size:52
Alignment explanation
Indices: 11682193--11682510 Score: 435
Period size: 52 Copynumber: 6.3 Consensus size: 52
11682183 TAGCTAAAGC
* *
11682193 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11682246 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11682298 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11682344 TATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11682396 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
11682442 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11682494 TATCATTTTATCACTTG
1 TATCACTTT-TCACTTG
11682511 ATCAGAAGTA
Statistics
Matches: 237, Mismatches: 15, Indels: 26
0.85 0.05 0.09
Matches are distributed among these distances:
46 82 0.35
47 4 0.02
48 2 0.01
50 2 0.01
51 5 0.02
52 124 0.52
53 18 0.08
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11682315 original size:98 final size:98
Alignment explanation
Indices: 11682161--11682516 Score: 595
Period size: 98 Copynumber: 3.6 Consensus size: 98
11682151 ACTTATCACT
* * * * *
11682161 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
* *
11682226 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
11682259 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
11682324 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
11682357 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
11682422 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* * * *
11682455 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGA
11682517 AGTACTCAAA
Statistics
Matches: 245, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 245 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:11685700 original size:49 final size:49
Alignment explanation
Indices: 11685645--11685790 Score: 211
Period size: 49 Copynumber: 3.0 Consensus size: 49
11685635 TTCGTTTTCT
* * * *
11685645 CGATGCCAGAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
* * *
11685694 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
*
11685743 CGATGCCACAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACA-AATCACAT
11685791 GTTCACATGT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 80 0.93
50 6 0.07
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (49 bp):
CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:11687105 original size:37 final size:37
Alignment explanation
Indices: 11687044--11687189 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
11687034 TACGTATGAT
* *
11687044 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11687079 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11687116 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11687153 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11687190 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11687206 original size:46 final size:46
Alignment explanation
Indices: 11687153--11687519 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
11687143 TAAGTGCAGC
* * **
11687153 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
11687199 CACTTATCACTTTGTCTCTTGATCAGGTAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11687245 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11687297 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11687343 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11687395 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
11687441 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
11687493 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11687520 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 19, Indels: 36
0.84 0.06 0.11
Matches are distributed among these distances:
46 154 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 124 0.44
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:11687254 original size:7 final size:7
Alignment explanation
Indices: 11687242--11687275 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
11687232 TAGCCGAAGC
11687242 TATCACT
1 TATCACT
11687249 TATCACT
1 TATCACT
*
11687256 TTTCACT
1 TATCACT
11687263 TATCACT
1 TATCACT
11687270 TGATCA
1 T-ATCA
11687276 GATAAGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:11687276 original size:52 final size:52
Alignment explanation
Indices: 11687196--11687517 Score: 407
Period size: 52 Copynumber: 6.4 Consensus size: 52
11687186 TAGCTAAAGC
* * * *
11687196 TATCACTTATCACTTTGTCTCTTGATCAGGTAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11687249 TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11687301 TATCAC---T---TTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
11687347 TATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11687399 TATCAC---T---TTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
11687445 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11687497 TATCACTTTATCACTTGATCA
1 TATCACTTT-TCACTT-ATCA
11687518 GAAGTACTCA
Statistics
Matches: 235, Mismatches: 20, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
46 87 0.37
49 1 0.00
52 127 0.54
53 17 0.07
54 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11687318 original size:98 final size:98
Alignment explanation
Indices: 11687164--11687519 Score: 586
Period size: 98 Copynumber: 3.6 Consensus size: 98
11687154 ACTTATCACT
* * * * * *
11687164 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGGTAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
* *
11687229 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* *
11687262 TTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
11687327 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
11687360 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
11687425 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* * *
11687458 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGA
11687520 AGTACTCAAA
Statistics
Matches: 243, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 243 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:11693204 original size:13 final size:11
Alignment explanation
Indices: 11693176--11693214 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
11693166 CACACTAAAA
11693176 TTCTCTCAAAT
1 TTCTCTCAAAT
11693187 TTCTCTCAAAT
1 TTCTCTCAAAT
11693198 TTCTCTCAAAT
1 TTCTCTCAAAT
*
11693209 CTCTCT
1 TTCTCT
11693215 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:11694918 original size:30 final size:30
Alignment explanation
Indices: 11694882--11694946 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
11694872 GATGACGACG
11694882 CGGGCCCATCAACAACACCCACACAATCAC
1 CGGGCCCATCAACAACACCCACACAATCAC
*** *
11694912 CGGGCCCATCAACAGTGCCCACACAGTCAC
1 CGGGCCCATCAACAACACCCACACAATCAC
11694942 CGGGC
1 CGGGC
11694947 TCAATGCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.45, G:0.18, T:0.08
Consensus pattern (30 bp):
CGGGCCCATCAACAACACCCACACAATCAC
Found at i:11695026 original size:18 final size:18
Alignment explanation
Indices: 11695003--11695040 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11694993 TGTCAGGTAC
*
11695003 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
11695021 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
11695039 GT
1 GT
11695041 TTTCTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:11695549 original size:8 final size:9
Alignment explanation
Indices: 11695532--11695593 Score: 63
Period size: 9 Copynumber: 6.6 Consensus size: 9
11695522 TTAAATAAGG
11695532 TAATATTTT
1 TAATATTTT
11695541 TAATATTTT
1 TAATATTTT
11695550 T-ATATTTT
1 TAATATTTT
11695558 TAATATATTT
1 TAATAT-TTT
*
11695568 GTACAAACTTTT
1 -TA-ATA-TTTT
*
11695580 TTATATTTT
1 TAATATTTT
11695589 TAATA
1 TAATA
11695594 AAATAAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 8 0.18
9 22 0.50
10 5 0.11
11 3 0.07
12 5 0.11
13 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TAATATTTT
Found at i:11695598 original size:86 final size:86
Alignment explanation
Indices: 11695491--11695648 Score: 280
Period size: 86 Copynumber: 1.8 Consensus size: 86
11695481 TATAATTTAC
* * *
11695491 TTTTTATATTTTTAATAAAATAAAAGTTTTTTTAAATAAGGTAATATTTTTAATATTTTTATATT
1 TTTTTATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATT
11695556 TTTAATATATTTGTACAAACT
66 TTTAATATATTTGTACAAACT
*
11695577 TTTTTATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATT
1 TTTTTATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATT
11695642 TTTAATA
66 TTTAATA
11695649 AAATATAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.54
Consensus pattern (86 bp):
TTTTTATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATT
TTTAATATATTTGTACAAACT
Found at i:11695635 original size:8 final size:9
Alignment explanation
Indices: 11695619--11695648 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11695609 TGAATAAGGC
11695619 AATATTTTT
1 AATATTTTT
11695628 AATATTTTT
1 AATATTTTT
11695637 -ATATTTTT
1 AATATTTTT
11695645 AATA
1 AATA
11695649 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:11695674 original size:86 final size:86
Alignment explanation
Indices: 11695496--11695675 Score: 211
Period size: 86 Copynumber: 2.1 Consensus size: 86
11695486 TTTACTTTTT
* * *
11695496 ATATTTTTAATAAAATAAAAGTTTTTTTAAATAAGGTAATATTTTTAATATTTTTATATTTTTAA
1 ATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
** * * *****
11695561 TATATTTGTACAAACTTTTTT
66 TATAAATATACAAAATGCAAC
*
11695582 ATATTTTTAATAAAATAAAACTTCTTTTGAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
1 ATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
11695647 TA-AAATATA-AATAATGCAAC
66 TATAAATATACAA-AATGCAAC
*
11695667 ATAATTTTA
1 ATATTTTTA
11695676 TTACAACAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
84 2 0.03
85 14 0.18
86 63 0.80
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (86 bp):
ATATTTTTAATAAAATAAAACTTCTTTTAAATAAGGCAATATTTTTAATATTTTTATATTTTTAA
TATAAATATACAAAATGCAAC
Found at i:11698841 original size:126 final size:126
Alignment explanation
Indices: 11698678--11699434 Score: 992
Period size: 126 Copynumber: 6.1 Consensus size: 126
11698668 CCAAATAGGA
* *
11698678 ACTACTGTAGAAAAA-AGTGTCCACGTGGGAGATTTTTTTCAGTAATTTTGCTGACAGTGCATCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAG-CTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
11698742 TGCTTGAAGCGTTTTGGACACTATTTGTTTAGAAACGTCTTCTTAAAATTATTTTTTCAGAT
65 TGCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *
11698804 ACTATTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
11698869 GCTTAAAGCGTTTTAGACACTATTTGTTGAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
11698930 ACTACTATAGAAAAAGAGCT-TCCACATGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCC
1 ACTACTGTAGAAAAAGAG-TGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
11698994 TGCTTGAAGTGTTTTAAACACTATTTGTTCAGAAATGTCTTCTCAAAATTATCTTTTT-AGAT
65 TGCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTAT-TTTTTCAGAT
* * *
11699056 ACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGTTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
11699121 GTTTGAAGC------G-------TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *** ** *
11699169 ACTACTGTACAAAAAGAACATCCACGTAAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
11699234 ACCTGAAGCGTTTT-GCACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTAG-ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * ** *
11699295 ACTACTATAGAAAAAAAGCATCCACGTGGGAGC-TTTTTCAATAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * *
11699359 ACTTGAAGAGTTTTCGAAACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
11699420 ACTACTGTAGAAAAA
1 ACTACTGTAGAAAAA
11699435 AAATAAAAAG
Statistics
Matches: 560, Mismatches: 52, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
112 5 0.01
113 92 0.16
118 1 0.00
125 100 0.18
126 340 0.61
127 22 0.04
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTAGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:11699216 original size:113 final size:117
Alignment explanation
Indices: 11699018--11699359 Score: 369
Period size: 113 Copynumber: 2.9 Consensus size: 117
11699008 TAAACACTAT
* *** *
11699018 TTGTTCAGAAATGTCTTCTCAAAATTATCTTTTT-AGATACTACTGTAGAAAAAGAGTGTCCACA
1 TTGTTCAGAAACGTCTTCTCAAAATTAT-TTTTTCAGATACTACTGTAGAAAAAGAACATCCACG
*
11699082 TGGGAGCTTTTTTT-AGTAATTTTGTTGACAGTGCATCCT-G-TTTG-A-AGC-G
65 TGGGAG-TTTTTTTCAGTAATTTTGCTGACAGTGCATCCTAGTTTTGCACA-CAG
*
11699131 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTACAAAAAGAACATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAACATCCACGT
** *
11699196 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACACTAT
66 GGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCA---T-CCT--A--GTTTTGCACAC-AG
* * *
11699257 TTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAA-AAGCATCCACG
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAA-CATCCACG
* *
11699321 TGGGAG-CTTTTTCAATAATTTTGCTGACAGTGCATCCTA
65 TGGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTA
11699360 CTTGAAGAGT
Statistics
Matches: 194, Mismatches: 18, Indels: 28
0.81 0.08 0.12
Matches are distributed among these distances:
112 12 0.06
113 76 0.39
116 1 0.01
117 3 0.02
119 1 0.01
121 3 0.02
122 2 0.01
123 4 0.02
124 2 0.01
125 29 0.15
126 61 0.31
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (117 bp):
TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAACATCCACGT
GGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTAGTTTTGCACACAG
Found at i:11699327 original size:239 final size:238
Alignment explanation
Indices: 11698892--11699358 Score: 675
Period size: 239 Copynumber: 2.0 Consensus size: 238
11698882 TAGACACTAT
* * * *
11698892 TTGTTGAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGAAAAAGAGCTTCCACAT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATACAAAAAGAACATCCACAT
** * * *
11698957 GGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCTTGAAGTGTTTTAAACACTATTTGT
66 AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAAACACTATTTGT
** * * * **
11699022 TCAGAAATGTCTTCTCAAAATTATCTTTTTAGATACTACTGTAGAAAAAGAGTGTCCACATGGGA
131 TCAGAAACATCTTCTCAAAATTATCTTTTTAAATACTACTATAGAAAAAAAGCATCCACATGGGA
* * *
11699087 GCTTTTTTTAGTAATTTTGTTGACAGTGCATCCTGTTTGAAGCG
196 GC-TTTTTCAATAATTTTGCTGACAGTGCATCCTGTTTGAAGCG
* *
11699131 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTACAAAAAGAACATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATACAAAAAGAACATCCACAT
* * **
11699196 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACACTATTTGT
66 AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAAACACTATTTGT
*
11699261 TCAGAAACATCTTCTCAAAATTAT-TTTTTCAAATACTACTATAGAAAAAAAGCATCCACGTGGG
131 TCAGAAACATCTTCTCAAAATTATCTTTTT-AAATACTACTATAGAAAAAAAGCATCCACATGGG
11699325 AGCTTTTTCAATAATTTTGCTGACAGTGCATCCT
195 AGCTTTTTCAATAATTTTGCTGACAGTGCATCCT
11699359 ACTTGAAGAG
Statistics
Matches: 201, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
238 33 0.16
239 168 0.84
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (238 bp):
TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATACAAAAAGAACATCCACAT
AAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTACCTGAAGCGTTTTAAACACTATTTGT
TCAGAAACATCTTCTCAAAATTATCTTTTTAAATACTACTATAGAAAAAAAGCATCCACATGGGA
GCTTTTTCAATAATTTTGCTGACAGTGCATCCTGTTTGAAGCG
Found at i:11699381 original size:125 final size:125
Alignment explanation
Indices: 11699131--11699436 Score: 472
Period size: 125 Copynumber: 2.4 Consensus size: 125
11699121 GTTTGAAGCG
* *
11699131 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTACAAAAAGAACATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAA-AACATCCACGT
* * * *
11699196 AAGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACCTGAAGCGTTTTGCACACTAT
65 AAGAGTCTTTTTCAATAATTTTGCTGACAGTGCATCCTACCTGAAGAGTTTTGCAAACTAT
* *
11699257 TTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAATACTACTATAGAAAAAAAGCATCCACGT
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAA-CATCCACGT
** *
11699322 GGGAG-CTTTTTCAATAATTTTGCTGACAGTGCATCCTACTTGAAGAGTTTT-CGAAACTAT
65 AAGAGTCTTTTTCAATAATTTTGCTGACAGTGCATCCTACCTGAAGAGTTTTGC-AAACTAT
11699382 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAA
1 TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAA
11699437 ATAAAAAGTT
Statistics
Matches: 165, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
124 1 0.01
125 103 0.62
126 61 0.37
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (125 bp):
TTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAAACATCCACGTA
AGAGTCTTTTTCAATAATTTTGCTGACAGTGCATCCTACCTGAAGAGTTTTGCAAACTAT
Found at i:11699666 original size:21 final size:21
Alignment explanation
Indices: 11699640--11699691 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11699630 AAAATCTTAG
*
11699640 AACCCTAAACCTTAACTCTAA
1 AACCCTAAACCTTAACCCTAA
**
11699661 AACCCTAAATGTTAACCCTAA
1 AACCCTAAACCTTAACCCTAA
11699682 AA-CCTAAACC
1 AACCCTAAACC
11699692 AAGCAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
AACCCTAAACCTTAACCCTAA
Found at i:11702078 original size:21 final size:21
Alignment explanation
Indices: 11702052--11702094 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11702042 GGTTCGCTGT
*
11702052 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
11702073 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
11702094 A
1 A
11702095 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:11702094 original size:16 final size:16
Alignment explanation
Indices: 11702075--11702107 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11702065 TGTATTGGAT
*
11702075 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
11702091 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
11702107 T
1 T
11702108 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:11702152 original size:45 final size:44
Alignment explanation
Indices: 11702086--11702180 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
11702076 GGATTAGAGG
* *
11702086 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
11702131 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
11702175 TGTAAT
1 TGTAAT
11702181 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:11702363 original size:18 final size:17
Alignment explanation
Indices: 11702342--11702376 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11702332 TTATTATTTA
*
11702342 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11702360 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11702377 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11702370 original size:28 final size:27
Alignment explanation
Indices: 11702300--11702372 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
11702290 TTTATTATCA
*
11702300 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
11702328 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
11702355 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
11702373 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:11702489 original size:144 final size:147
Alignment explanation
Indices: 11702261--11702532 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
11702251 ATGATTATTG
11702261 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
11702326 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
11702391 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
11702410 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
11702472 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
11702533 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:11702527 original size:17 final size:18
Alignment explanation
Indices: 11702486--11702520 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11702476 TTATTATTAA
*
11702486 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
11702504 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
11702521 TTTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:11702566 original size:61 final size:61
Alignment explanation
Indices: 11702501--11702688 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
11702491 TTTTAATTAA
*
11702501 AATATATAATTTAATAAAATTTTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
11702562 AATATATGATACT-GTAAAA--TATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTTTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
*
11702621 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
11702682 AATATAT
1 AATATAT
11702689 GATTATAACT
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 37 0.40
62 6 0.06
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:11702600 original size:120 final size:120
Alignment explanation
Indices: 11702469--11702691 Score: 410
Period size: 120 Copynumber: 1.9 Consensus size: 120
11702459 ATCATATTTA
* * *
11702469 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11702534 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
11702589 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11702654 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
11702692 TATAACTAAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:11702627 original size:18 final size:17
Alignment explanation
Indices: 11702606--11702640 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11702596 TTATTATTAA
11702606 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
11702624 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
11702641 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:11702703 original size:17 final size:16
Alignment explanation
Indices: 11702681--11702727 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
11702671 ACTCAAATCA
11702681 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
11702698 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
11702712 TAAATATATGATTTAA
1 T-AATATATGATTTAA
11702728 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:11702728 original size:17 final size:17
Alignment explanation
Indices: 11702700--11702733 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11702690 ATTATAACTA
*
11702700 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
11702717 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
11702734 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:11702876 original size:93 final size:92
Alignment explanation
Indices: 11702766--11702960 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
11702756 GATTATAGTT
* * *
11702766 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
11702829 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
11702859 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
11702924 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
11702951 TATGAATTTA
1 TATGAATTTA
11702961 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:11711775 original size:17 final size:17
Alignment explanation
Indices: 11711753--11711786 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11711743 GTTAATAAAG
11711753 AAAATAAGAA-AAAAACA
1 AAAATAA-AATAAAAACA
11711770 AAAATAAAATAAAAACA
1 AAAATAAAATAAAAACA
11711787 GAATTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAATAAAATAAAAACA
Found at i:11724232 original size:870 final size:872
Alignment explanation
Indices: 11722573--11724240 Score: 2157
Period size: 870 Copynumber: 1.9 Consensus size: 872
11722563 GCTCATGCCA
* *
11722573 GCAGAAATGTGCACAAGATATGGAAGAGAAGAATTTATCCCTATTGCTTGAGTGTGGAAACTCCT
1 GCAGAAATGTGCACAAGATATCGAAGAGAAGAATTTATCCCTATTGC-TGAGTGTGCAAACTCCT
* * ** *
11722638 AGAAGCCTCCAATTTTTCTGAAAAACTTATCTCTGAATTGGAGCTCAGAAATTCCAAAAAGAGAT
65 AGAAGACTCCAATTTATCCAAAAAACTTATCTCTGAATTGGAGCTCAGAAATTCCAAAAACAGAT
* * * * *
11722703 GGAGATAAAATCCTTATTTGATCGAATTACTATACTGAGGATATGGCTTTATCAAATGCTGAAGG
130 GGAGATAAAATCCTTATCTGATCAAATCACTATACTGAGGATAGGGCTCTATCAAATGCTGAAGG
* *
11722768 CTCTTGAAATTGATGTCCATGGTTATGATGATGAGATCAAACAAGACCAATTAGTTTGACTGTAT
195 CTCTTGAAATTGATGTCCATGGTTATGATGATGAAATCAAACAAGACCAATCAGTTTGACTGTAT
* *
11722833 ATTTGGAGGGATCCAAAAGATGCAAAACTCACATTTAAAGTCTCTGGATGATAATCAGCAATTCA
260 ATCTGGAGGGATCCAAAAGATGCAAAACTCACATTTAAAGTCTCTGGATGAAAATCAGCAATTCA
*
11722898 TAATTGAGAATTCAGTTCTTATTGGATTGCTTGGGCAACTGAAACTTGAGGCAGAAAATCTTGCT
325 TAATTGAGAATTCAGTTCTTATTGGATTGCTTGGGCAACTGAAACTAGAGGCAGAAAATCTTGCT
* * * * *
11722963 ACCAGAGAAGAACTCACTGCACCAGGAGTTGAAGGTTCAATCGAGCAGTTCCAGAATTGAAGACT
390 AACAGAAAAGAACTCACTGCACCAGGAGATGAAGGTTCAATCGAGCAGTTCCAGAAGTGAAGACA
* *
11723028 TCCCTTTTTAATACAAATGCTGAACTTGAAATATCAAGAGCAAAACTTAAGAGCTTAGAAAGTTC
455 TCCCTTTGTAATACAAATGCTGAACTTGAAATATCAAGAGCAAAAATTAAGAGCTTAGAAAGTTC
* *
11723093 ATGCCTGCTGCTTGGTGAAGAGAAGTCTAGCCTGCTAACACAGAGAAAGGTTTGATATCTGAGTT
520 ATACCAGCTGCTTGGTGAAGAGAAGTCTAGCCTGCTAACACAGAGAAAGGTTTGATATCTGAGTT
* * * * *
11723158 GAATGTCAGTCAGAAAAGGTTGGAAGATTTGGAGGAAAGAAATCAAGGATTAGAGGAAAAATATG
585 GAATGTCAGCCAGAAAAGGCTGAAAGATTTGGAGAAAAGAAATCAAGGATTAGAAGAAAAATATG
** * *
11723223 TGGGTCTGGAGAAAGAGAGAATCAACACTTTGTGAAGTAGAAGAGCTACAAAAGTCACTAGATGT
650 TGGGTCTGGAGAAAGAGAGAATCAACACTTCATGAAGTACAAAAGCTACAAAAGTCACTAGATGT
* *
11723288 GGAAAAGCAAGAATATGCTAGATTTGTGAAGTCGAATGAAGCCGAGTCACTTCTATGGAATCTCA
715 GGAAAAGCAAGAACATGCTAGATTTGTGAAGTCGAATGAACCCGAGTCACTTCTATGGAATCTCA
11723353 AATCCATTTTCTACAAGGAGAAAGTCTATGCAGGAAGAAAGAATACGAGAGGAATGACAAGGCCA
780 AATCCATTTTCTACAAGGAGAAAGTCTATGCAGGAAGAAAGAATACGAGAGGAATGACAAGGCCA
11723418 TGATTGCTCATGTAGAAACCTTCATTTT
845 TGATTGCTCATGTAGAAACCTTCATTTT
* * * *
11723446 GCAGAGATGTGCACAAGATCTCGAAGCGAAGAATTTATCCCTATTGC-GAGTGTAGCAAACTCTT
1 GCAGAAATGTGCACAAGATATCGAAGAGAAGAATTTATCCCTATTGCTGAGTGT-GCAAACTCCT
* * *
11723510 GGAAGACTCCAGA-TTATCCAAAAAACTTATCTC-GAGTTGGAGCT-TGAAATTCCCAAAAACAG
65 AGAAGACTCCA-ATTTATCCAAAAAACTTATCTCTGAATTGGAGCTCAGAAATT-CCAAAAACAG
* * * * *
11723572 GTGGAGATAGAAT-CTTATCTGATCAAATCACT-TA-TGAGGATGGGGCTCTATCAGATGTTG-A
128 ATGGAGATAAAATCCTTATCTGATCAAATCACTATACTGAGGATAGGGCTCTATCAAATGCTGAA
** *
11723633 GGACTCTTGATTTTGATGGTATCCATGGTTATGATGAT-ACAATCAAACAAGATCAATCAGTTCT
193 GG-CTCTTGAAATTGAT-G--TCCATGGTTATGATGATGA-AATCAAACAAGACCAATCAG-T-T
** *
11723697 TGACTGTATATCTGGCA-GTCTCCAAAAGATGCAAAA-T-TC-TTTAAAGTCTCTGGATGAAAAT
251 TGACTGTATATCTGG-AGGGATCCAAAAGATGCAAAACTCACATTTAAAGTCTCTGGATGAAAAT
11723758 CAGCAATTCATAATTGAGAATTCAGTTCTTATTGGATTGCTTGGGCAACTG-AACTAGAGGCTA-
315 CAGCAATTCATAATTGAGAATTCAGTTCTTATTGGATTGCTTGGGCAACTGAAACTAGAGGC-AG
* * * * *
11723821 AAAATCTTGC-AACAGAAAATAA-TCACTGCATCAGGA-ATGAAGGTTCAGTCTGAGCAATTTTC
379 AAAATCTTGCTAACAGAAAAGAACTCACTGCACCAGGAGATGAAGGTTCAATC-GAGC-AGTTCC
* * * * * *
11723883 AGAAGTG-AGA-ATCATCTTTGTGATGCAAATGCTGAAGTTGAAGGT-TGAAG-G-AAAAATTAA
442 AGAAGTGAAGACATC-CCTTTGTAATACAAATGCTGAACTTGAA-ATATCAAGAGCAAAAATT-A
* * * * *
11723943 AGAGCTTAGAAATTTCATACCAGCTGCTTGGTGATGAGAAGTTTGGTCTGCTAACACAGAGAGAA
504 AGAGCTTAGAAAGTTCATACCAGCTGCTTGGTGAAGAGAAGTCTAGCCTGCTAACACAGAGA-AA
*
11724008 GGTTTGACT-TCTGAGTTGAATGTCAGCCAGAAAAGGCTGAAAGATTTGGA-AAAACGATATC-A
568 GGTTTGA-TATCTGAGTTGAATGTCAGCCAGAAAAGGCTGAAAGATTTGGAGAAAA-GAAATCAA
* * *
11724070 GGAATTAGAAGAAAAATATGTGGGTTTGGAGAAAGAGAGAGAATCAGCACTTCATGGAGTACAAA
631 GG-ATTAGAAGAAAAATATGTGGGTCTGGAG-AA-AGAGAGAATCAACACTTCATGAAGTACAAA
* * * * * *
11724135 AGCTACAAAAGTCATTGGATGCT-GAAATGGAAGAACATGCTAGTTTTGTGAAGTTGAATGAAAC
693 AGCTACAAAAGTCACTAGATG-TGGAAAAGCAAGAACATGCTAGATTTGTGAAGTCGAATG-AAC
* * *
11724199 CCGAGTTACTTCTATGGTATCTCAGATCCATTTTCTACAAGG
756 CCGAGTCACTTCTATGGAATCTCAAATCCATTTTCTACAAGG
11724241 GGAACTTGAC
Statistics
Matches: 686, Mismatches: 84, Indels: 53
0.83 0.10 0.06
Matches are distributed among these distances:
865 6 0.01
866 77 0.11
867 128 0.19
868 56 0.08
869 97 0.14
870 138 0.20
871 71 0.10
872 36 0.05
873 76 0.11
874 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (872 bp):
GCAGAAATGTGCACAAGATATCGAAGAGAAGAATTTATCCCTATTGCTGAGTGTGCAAACTCCTA
GAAGACTCCAATTTATCCAAAAAACTTATCTCTGAATTGGAGCTCAGAAATTCCAAAAACAGATG
GAGATAAAATCCTTATCTGATCAAATCACTATACTGAGGATAGGGCTCTATCAAATGCTGAAGGC
TCTTGAAATTGATGTCCATGGTTATGATGATGAAATCAAACAAGACCAATCAGTTTGACTGTATA
TCTGGAGGGATCCAAAAGATGCAAAACTCACATTTAAAGTCTCTGGATGAAAATCAGCAATTCAT
AATTGAGAATTCAGTTCTTATTGGATTGCTTGGGCAACTGAAACTAGAGGCAGAAAATCTTGCTA
ACAGAAAAGAACTCACTGCACCAGGAGATGAAGGTTCAATCGAGCAGTTCCAGAAGTGAAGACAT
CCCTTTGTAATACAAATGCTGAACTTGAAATATCAAGAGCAAAAATTAAGAGCTTAGAAAGTTCA
TACCAGCTGCTTGGTGAAGAGAAGTCTAGCCTGCTAACACAGAGAAAGGTTTGATATCTGAGTTG
AATGTCAGCCAGAAAAGGCTGAAAGATTTGGAGAAAAGAAATCAAGGATTAGAAGAAAAATATGT
GGGTCTGGAGAAAGAGAGAATCAACACTTCATGAAGTACAAAAGCTACAAAAGTCACTAGATGTG
GAAAAGCAAGAACATGCTAGATTTGTGAAGTCGAATGAACCCGAGTCACTTCTATGGAATCTCAA
ATCCATTTTCTACAAGGAGAAAGTCTATGCAGGAAGAAAGAATACGAGAGGAATGACAAGGCCAT
GATTGCTCATGTAGAAACCTTCATTTT
Found at i:11726491 original size:482 final size:483
Alignment explanation
Indices: 11725525--11726493 Score: 1499
Period size: 483 Copynumber: 2.0 Consensus size: 483
11725515 CTATCAAGAT
*
11725525 TGCAAAGGGCATATCAAAGTTCAATTGAAGAGAACCACAAGGTGCTAGACGAGAAAAGGACTTTG
1 TGCAAAGCGCATATCAAAGTTCAATTGAAGAGAACCACAAGGTGCTAGACGAGAAAAGGACTTTG
* * *
11725590 ATGAAGGAAGTTTCAGATTTGGGCAAGGAGAAACACAATCTAAAAGGAAAAATTGTGCTGTCTTT
66 ATGAAGGAAGTTTCAGACTTGGGCAAGGAGAAACACAATCTAAAAGGAAAAACTGCGCTGTCTTT
*
11725655 GCCGAAAGCAATATCTCAAAGTAACATTGCTCTTATTCTCCAAGAACATTATTACTGATAATTTT
131 GCCGAAAGCAATATCTCAAAGTAACATTGCGCTTATTCTCCAAGAACATTATTACTGATAATTTT
11725720 GTGGAAATAAAGCATTCTCAGTGCCAATCTGGATAAACTCAAATGTTTCAATGACAATCTTGAGG
196 GTGGAAATAAAGCATTCTCAGTGCCAATCTGGATAAACTCAAATGTTTCAATGACAATCTTGAGG
*
11725785 GAAAACTGAGGAATGGAGATCAAGCTTGAAGAAACACAAATGGTAAACTTACATCTCAAGGATAC
261 GAAAACTGAGGAATGGAGATCAAGCTTGAAGAAACACAAATGGTAAACTCACATCTCAAGGATAC
* *
11725850 AGTGCAGAACTTGGAGAATGGGCTAGTTTCAGTTAGATCTGTTTGCAATCAGTTAAATGATGAAG
326 AGTGCAGAACTTGGAGAATGGGCTAGTTTCAGTTAAATCTGTTTGCAATCAGTTAAATGACGAAG
* * * *
11725915 TTGTGAAGGGAAAGGATCTATTATGCCTGAAGGAGAGGAGCTTTTGGAAGCAGAGAAGATGCTCC
391 TCGTGAAGGGAAAGGATCTACTATGCCAGAAGGAGAGGAGCTTCTGGAAGCAGAGAAGATGCTCC
11725980 AGTGCAACTCAAGAGGAGAGAAACCAAC
456 AGTGCAACTCAAGAGGAGAGAAACCAAC
* *
11726008 TGCAAAGCGCATATCAAAGTTCAGTTGAAGAGAACCACAAGGTGCTAGATGAGAAAAGGACTTTG
1 TGCAAAGCGCATATCAAAGTTCAATTGAAGAGAACCACAAGGTGCTAGACGAGAAAAGGACTTTG
***
11726073 ATGAAGTTTGTTTCAGACTTGGGCAAGGAGAAACACAATCTAGAAGAGG-AAAACTGCGCTGTC-
66 ATGAAGGAAGTTTCAGACTTGGGCAAGGAGAAACACAATCTA-AA-AGGAAAAACTGCGCTGTCT
* * * *
11726136 TTGCTG-AAGCAGTATCTCAAAGTAACATTTCGCTTATTCT-CAAGGACATTATTACTGATAATT
129 TTGCCGAAAGCAATATCTCAAAGTAACATTGCGCTTATTCTCCAAGAACATTATTACTGATAATT
* **
11726199 TTGTTGAAATAAAGCA-TCTCA-TGGCCAATCTGGAT-AACTCAAATGTTTCAATGATGATCTTG
194 TTGTGGAAATAAAGCATTCTCAGT-GCCAATCTGGATAAACTCAAATGTTTCAATGACAATCTTG
* * *
11726261 AGGGAAAACTGAGGATAATGGGGATCAAGTTTGAAGAAACGCAAATGGTAAACTCACATCTCAAG
258 AGGGAAAACTGAGG--AATGGAGATCAAGCTTGAAGAAACACAAATGGTAAACTCACATCTCAAG
11726326 GATA-AGGTGCAGAACTTGGAGAATGGAGCTAGTTTCAAGTTAAATC-GTTTGCAATCAGTTAAA
321 GATACA-GTGCAGAACTTGGAGAATGG-GCTAGTTTC-AGTTAAATCTGTTTGCAATCAGTTAAA
* * *
11726389 TGACGAAGTCGTGAAGGGAAAGGATCTACTATGCCAGAAGGAGAATGAGCTTCTGGAAGCAGGGC
383 TGACGAAGTCGTGAAGGGAAAGGATCTACTATGCCAGAAGGAG-AGGAGCTTCTGGAAGCAGAGA
* *
11726454 AGCTGCT-CAGTGCAACTCAAGAGGAGAGAACCCAAC
447 AGATGCTCCAGTGCAACTCAAGAGGAGAGAAACCAAC
11726490 TGCA
1 TGCA
11726494 TGAATTGTGG
Statistics
Matches: 445, Mismatches: 32, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
479 40 0.09
480 18 0.04
481 106 0.24
482 128 0.29
483 136 0.31
484 14 0.03
485 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (483 bp):
TGCAAAGCGCATATCAAAGTTCAATTGAAGAGAACCACAAGGTGCTAGACGAGAAAAGGACTTTG
ATGAAGGAAGTTTCAGACTTGGGCAAGGAGAAACACAATCTAAAAGGAAAAACTGCGCTGTCTTT
GCCGAAAGCAATATCTCAAAGTAACATTGCGCTTATTCTCCAAGAACATTATTACTGATAATTTT
GTGGAAATAAAGCATTCTCAGTGCCAATCTGGATAAACTCAAATGTTTCAATGACAATCTTGAGG
GAAAACTGAGGAATGGAGATCAAGCTTGAAGAAACACAAATGGTAAACTCACATCTCAAGGATAC
AGTGCAGAACTTGGAGAATGGGCTAGTTTCAGTTAAATCTGTTTGCAATCAGTTAAATGACGAAG
TCGTGAAGGGAAAGGATCTACTATGCCAGAAGGAGAGGAGCTTCTGGAAGCAGAGAAGATGCTCC
AGTGCAACTCAAGAGGAGAGAAACCAAC
Found at i:11734494 original size:160 final size:162
Alignment explanation
Indices: 11734170--11734494 Score: 546
Period size: 160 Copynumber: 2.0 Consensus size: 162
11734160 AAGATTATCA
*
11734170 CCTTACACTCAATTATCAATTAGCACCTAATCTTAACATCCTAGTGTTAAGCTGAGTGGCTTATC
1 CCTTACACTCAATTATCAATTAGCACCTAATCTTAACATCCTAGTGTTAAGCTGAATGGCTTATC
*
11734235 ATGTTTTCAGATGATGGAATCACATATAAAGATAGATGCTTATTTCATATGCTACTTGTAGGACA
66 ATGTTTTCAGATGATGGAATCACA-ATAAAGATAAATGCTTATTTCATATGCTACTTGTAGGACA
* * * *
11734300 ATGAACTAGTATATATCTATGGTCTTGCATGTT
130 AGGAACCACTATATATCCATGGTCTTGCATGTT
* *
11734333 CCTTACACTCAATTATCAATTAGCACCTAATCTTAACATCCTAGTGTTATGTTGAATGGCTTATC
1 CCTTACACTCAATTATCAATTAGCACCTAATCTTAACATCCTAGTGTTAAGCTGAATGGCTTATC
*
11734398 ATG-TTTCAGATGATGGAATCAC-ATAAAGATAAATGCTTATTTCATATGCTACTTTTAGGACAA
66 ATGTTTTCAGATGATGGAATCACAATAAAGATAAATGCTTATTTCATATGCTACTTGTAGGACAA
11734461 GGAACCACTATATATCCATGGTCTTGCATGTT
131 GGAACCACTATATATCCATGGTCTTGCATGTT
11734493 CC
1 CC
11734495 ATAAATGGTC
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
160 69 0.45
162 19 0.12
163 65 0.42
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (162 bp):
CCTTACACTCAATTATCAATTAGCACCTAATCTTAACATCCTAGTGTTAAGCTGAATGGCTTATC
ATGTTTTCAGATGATGGAATCACAATAAAGATAAATGCTTATTTCATATGCTACTTGTAGGACAA
GGAACCACTATATATCCATGGTCTTGCATGTT
Found at i:11740853 original size:31 final size:31
Alignment explanation
Indices: 11740740--11740859 Score: 141
Period size: 31 Copynumber: 3.8 Consensus size: 31
11740730 TACAAATTAG
*
11740740 TTACCGAAATGGGTCGTTTGCTACATTATTAA
1 TTACCGAAATGGGTCGTTTGCTACAATA-TAA
* * * *
11740772 TTACTGAAATGGGTTGTTTGCTACGATATAG
1 TTACCGAAATGGGTCGTTTGCTACAATATAA
* *
11740803 CTACCGAAATGGGTTGTTTGCTACAATATAA
1 TTACCGAAATGGGTCGTTTGCTACAATATAA
* * *
11740834 TTACCAAAATGGGACGTTTGTTACAA
1 TTACCGAAATGGGTCGTTTGCTACAA
11740860 ATTTGTAGGG
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 50 0.68
32 24 0.32
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (31 bp):
TTACCGAAATGGGTCGTTTGCTACAATATAA
Found at i:11762690 original size:40 final size:40
Alignment explanation
Indices: 11762525--11762788 Score: 257
Period size: 40 Copynumber: 6.6 Consensus size: 40
11762515 TTGAATGCTG
* * * *
11762525 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
11762565 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
11762605 TTCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
11762645 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * **
11762685 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
11762725 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
11762764 ACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
11762789 AAACGAGGAG
Statistics
Matches: 198, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
39 35 0.18
40 155 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11762807 original size:79 final size:80
Alignment explanation
Indices: 11762642--11762822 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 80
11762632 GCGAGATACT
* * *
11762642 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
**** ** *
11762707 TTCGTGTGAGTTGTT
66 TTCAAACGAGGAGTC
* * *
11762722 AAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
*
11762786 TTTAAACGAGGAG-C
66 TTCAAACGAGGAGTC
*
11762800 AATATCC-GGTTAAATCCCGAAGG
1 AA-ATCCGGGTTAAGTCCCGAAGG
11762823 TACGTGATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.19
79 42 0.50
80 26 0.31
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
TTCAAACGAGGAGTC
Found at i:11766544 original size:18 final size:19
Alignment explanation
Indices: 11766507--11766547 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11766497 ATTTAGAATC
11766507 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
11766526 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
11766544 AAAA
1 AAAA
11766548 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:11766549 original size:31 final size:31
Alignment explanation
Indices: 11766473--11766546 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
11766463 TCAAGTTATC
*
11766473 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
11766505 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
11766535 TTAAATATAAAA
1 TTAAATATAAAA
11766547 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:11771930 original size:22 final size:21
Alignment explanation
Indices: 11771905--11771945 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11771895 TTTGGAATTT
*
11771905 TTTTTAATTTTAAATATTGAAC
1 TTTTTAA-TTAAAATATTGAAC
11771927 TTTTTAATTAAAATATTGA
1 TTTTTAATTAAAATATTGA
11771946 TTAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTTAATTAAAATATTGAAC
Found at i:11771965 original size:8 final size:8
Alignment explanation
Indices: 11771954--11772030 Score: 74
Period size: 8 Copynumber: 10.1 Consensus size: 8
11771944 GATTAAAATA
11771954 TTAATTTT
1 TTAATTTT
11771962 TTAATTTTT
1 TTAA-TTTT
11771971 TTAA--TT
1 TTAATTTT
11771977 TTAATTTT
1 TTAATTTT
11771985 TT-A-TTT
1 TTAATTTT
*
11771991 TTAAATTT
1 TTAATTTT
*
11771999 TTAAATTT
1 TTAATTTT
*
11772007 TTAAATTT
1 TTAATTTT
11772015 TT-ATTTT
1 TTAATTTT
*
11772022 TTTATTTT
1 TTAATTTT
11772030 T
1 T
11772031 GAGTTTATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
6 11 0.18
7 8 0.13
8 35 0.56
9 8 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTAATTTT
Found at i:11771980 original size:15 final size:14
Alignment explanation
Indices: 11771960--11772021 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
11771950 AATATTAATT
11771960 TTTTAATTTTTTTAA
1 TTTTAA-TTTTTTAA
*
11771975 TTTTAATTTTTTAT
1 TTTTAATTTTTTAA
*
11771989 TTTTAAATTTTTAAA
1 TTTT-AATTTTTTAA
*
11772004 TTTTTAAATTTTT-A
1 -TTTTAATTTTTTAA
11772018 TTTT
1 TTTT
11772022 TTTATTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 4 0.10
14 12 0.30
15 20 0.50
16 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:11771982 original size:23 final size:23
Alignment explanation
Indices: 11771954--11772030 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
11771944 GATTAAAATA
*
11771954 TTAATTTTTTAATTTTTTTAA-TT
1 TTAATTTTTTAA-TTTTTAAATTT
11771977 TTAATTTTTT-ATTTTTAAATTT
1 TTAATTTTTTAATTTTTAAATTT
* *
11771999 TTAAATTTTTAAATTTTT-ATTTT
1 TT-AATTTTTTAATTTTTAAATTT
*
11772022 TTTATTTTT
1 TTAATTTTT
11772031 GAGTTTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.15
22 11 0.23
23 23 0.49
24 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
TTAATTTTTTAATTTTTAAATTT
Found at i:11772006 original size:38 final size:38
Alignment explanation
Indices: 11771954--11772030 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
11771944 GATTAAAATA
* * *
11771954 TTAATTTTTTAATTTTTTTAA-TTTTAATTTTTTATTT
1 TTAAATTTTTAAATTTTTAAATTTTTAATTTTTTATTT
*
11771991 TTAAATTTTTAAATTTTTAAATTTTTATTTTTTTATTT
1 TTAAATTTTTAAATTTTTAAATTTTTAATTTTTTATTT
11772029 TT
1 TT
11772031 GAGTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (38 bp):
TTAAATTTTTAAATTTTTAAATTTTTAATTTTTTATTT
Found at i:11772022 original size:14 final size:14
Alignment explanation
Indices: 11771968--11772022 Score: 74
Period size: 14 Copynumber: 3.8 Consensus size: 14
11771958 TTTTTTAATT
* *
11771968 TTTTTAATTTTAAT
1 TTTTTATTTTTAAA
11771982 TTTTTATTTTTAAA
1 TTTTTATTTTTAAA
11771996 TTTTTAAATTTTTAAA
1 TTTTT--ATTTTTAAA
11772012 TTTTTATTTTT
1 TTTTTATTTTT
11772023 TTATTTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 23 0.62
16 14 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTATTTTTAAA
Found at i:11772029 original size:30 final size:29
Alignment explanation
Indices: 11771957--11772030 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
11771947 TAAAATATTA
* *
11771957 ATTTTTTAATTTTTTTAATTTTAATTTTTT
1 ATTTTTTAA-TTTTTAAATTTTAAATTTTT
*
11771987 ATTTTTAAATTTTTAAATTTTTAAATTTTT
1 ATTTTTTAATTTTTAAA-TTTTAAATTTTT
*
11772017 ATTTTTTTATTTTT
1 ATTTTTTAATTTTT
11772031 GAGTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (29 bp):
ATTTTTTAATTTTTAAATTTTAAATTTTT
Found at i:11772126 original size:23 final size:23
Alignment explanation
Indices: 11772099--11772146 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11772089 TTTAAATGTA
11772099 TAGTTGAAACTTTAATTTTGATT
1 TAGTTGAAACTTTAATTTTGATT
11772122 TAGTTGAAACTTTAATTTTGATT
1 TAGTTGAAACTTTAATTTTGATT
11772145 TA
1 TA
11772147 ATCATACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (23 bp):
TAGTTGAAACTTTAATTTTGATT
Found at i:11772805 original size:37 final size:37
Alignment explanation
Indices: 11772749--11772821 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
11772739 ATGTGATGTT
11772749 TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
1 TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
*
11772786 TTTTGGGGTTT-AGGTTTTTAGAGGTTATAGTTTAGT
1 TTTTGGGGTTTAAGG-TTTTAGAAGTTATAGTTTAGT
11772822 GTTCATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 3 0.09
37 31 0.91
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (37 bp):
TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
Found at i:11772922 original size:41 final size:41
Alignment explanation
Indices: 11772863--11773124 Score: 332
Period size: 41 Copynumber: 6.4 Consensus size: 41
11772853 GAGTAATATG
*
11772863 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCA
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCT
* *
11772904 ATTTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCCT
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCT
11772945 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCT-CT
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCT
* *
11772985 GACTTTTAGCGGCGTTTTACCGAAAGCGCCACTAATGCTCCG
1 -ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCT
* * *
11773027 ACTTTTAGCGGCATTTTACCAAAAGCGCCGCTATTGCT-CT
1 ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCT
** * ** * *
11773067 GTTTTTAGCAGCGTTTTAACAAAAAACGCCGCTATTGCT-CT
1 ACTTTTAGCGGCGTTTT-ACCGAAAGCGCCGCTAATGCTCCT
**
11773108 GTTTTTAGCGGCGTTTT
1 ACTTTTAGCGGCGTTTT
11773125 TGGTAAAACG
Statistics
Matches: 199, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 16 0.08
41 182 0.91
42 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (41 bp):
ACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCT
Done.