Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 7 of 172
Found at i:1881197 original size:33 final size:34
Alignment explanation
Indices: 1881129--1881202 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
1881119 ATATAATTTG
*
1881129 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
1881164 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
1881197 ATAATT
1 ATAATT
1881203 AATAATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
35 16 0.44
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:1881213 original size:83 final size:86
Alignment explanation
Indices: 1881102--1881270 Score: 281
Period size: 83 Copynumber: 2.0 Consensus size: 86
1881092 TTAATACAAT
1881102 TAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATA
1 TAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATA
1881167 ATTTTACTAACAAAATATTAG
66 ATTTTACTAACAAAATATTAG
** *
1881188 TAACAATTAATAA-TT-A-ATAATTTGATAATTTTTGTAACAATTAATACAATTAATAATTAATA
1 TAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATA
*
1881250 ATTTTACTAACAAAATGTTAG
66 ATTTTACTAACAAAATATTAG
1881271 ATTTTACAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
83 63 0.80
84 1 0.01
85 2 0.03
86 13 0.16
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (86 bp):
TAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATA
ATTTTACTAACAAAATATTAG
Found at i:1881230 original size:34 final size:34
Alignment explanation
Indices: 1881187--1881254 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
1881177 CAAAATATTA
*
1881187 GTAACAATTAAT-AATTAATAATTTGATAATTTTT
1 GTAACAATTAATAAATTAATAA-TTAATAATTTTT
1881221 GTAACAATTAATACAATTAATAATTAATAATTTT
1 GTAACAATTAATA-AATTAATAATTAATAATTTT
1881255 ACTAACAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 12 0.39
35 10 0.32
36 9 0.29
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (34 bp):
GTAACAATTAATAAATTAATAATTAATAATTTTT
Found at i:1881279 original size:43 final size:43
Alignment explanation
Indices: 1881149--1881279 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
1881139 TAACAATTAA
* *
1881149 TACAATTAACAATTAATAATTTTACTAACAAAATATTAG---T
1 TACAATTAATAATTAATAATTTTACTAACAAAATGTTAGATTT
* * **** * * *
1881189 AACAATTAATAATTAATAATTTGA-TAA-TTTTTGTAACAATTAA
1 TACAATTAATAATTAATAATTTTACTAACAAAATGTTA-GATT-T
1881232 TACAATTAATAATTAATAATTTTACTAACAAAATGTTAGATTT
1 TACAATTAATAATTAATAATTTTACTAACAAAATGTTAGATTT
1881275 TACAA
1 TACAA
1881280 AATGTTGACT
Statistics
Matches: 64, Mismatches: 20, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
38 3 0.05
39 3 0.05
40 21 0.33
43 27 0.42
44 6 0.09
45 4 0.06
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (43 bp):
TACAATTAATAATTAATAATTTTACTAACAAAATGTTAGATTT
Found at i:1881334 original size:16 final size:16
Alignment explanation
Indices: 1881315--1881371 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
1881305 AATTTGATAC
1881315 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
1881331 AATTTTGATAACAATT
1 AATTTTAATAACAATT
1881347 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
1881363 AGTTTTAAT
1 AATTTTAAT
1881372 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:1881354 original size:22 final size:23
Alignment explanation
Indices: 1881345--1881406 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
1881335 TTGATAACAA
* *
1881345 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
1881367 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
1881390 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
1881407 ATGGGCCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:1882094 original size:17 final size:17
Alignment explanation
Indices: 1882069--1882114 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1882059 GCAAGAGTGA
* *
1882069 ATTATTAAAATTATAAT
1 ATTAATAAAATTAAAAT
1882086 ATTAATAAAATTAAAAT
1 ATTAATAAAATTAAAAT
*
1882103 ATAAGATAAAAT
1 ATTA-ATAAAAT
1882115 GGATTAAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTAATAAAATTAAAAT
Found at i:1884270 original size:43 final size:44
Alignment explanation
Indices: 1884172--1884295 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 44
1884162 AGCTTGTACA
* * * *
1884172 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACAGATCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGAAAACACAAATCG
* * *
1884215 ACGCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACATAAATTG
1 ATGCCAAC-GTCCCAGACAGTGGTCTTACACGAAAACACAAATCG
*
1884258 ATGCCAACGTCCCAGA-AGTGGTATTACACGAAAACACA
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGAAAACACA
1884296 TATAAAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGTGGTCTTACACGAAAACACAAATCG
Found at i:1888653 original size:34 final size:33
Alignment explanation
Indices: 1888602--1888913 Score: 367
Period size: 34 Copynumber: 9.3 Consensus size: 33
1888592 AGTAAGAAAC
* *
1888602 ATGCGAACCCCATGTTATATAGTATGACTTAAT
1 ATGCGAACCCCATGTTATATAGTATGACATAGT
*
1888635 ATGCGAACTCTCATGTTATATAGTATGACATAGT
1 ATGCGAAC-CCCATGTTATATAGTATGACATAGT
*
1888669 ATGCAAACCCCAATGTTATATAGTATGAC--AGT
1 ATGCGAACCCC-ATGTTATATAGTATGACATAGT
* * *
1888701 ATACAAACCCTCAAGTTATATAGTATGACATAGT
1 ATGCGAACCC-CATGTTATATAGTATGACATAGT
** *
1888735 ATGCGAACCCTCACATTATATAGCATGACATAGT
1 ATGCGAACCC-CATGTTATATAGTATGACATAGT
* *
1888769 ATGTGAACCCCCATGTTATATAGAATGACATAGT
1 ATGCGAA-CCCCATGTTATATAGTATGACATAGT
* * *
1888803 ATACGAACCTTCATGTTATATAGTATGACAAAGT
1 ATGCGAACC-CCATGTTATATAGTATGACATAGT
*
1888837 ATGTGAACCCCTATGTTATATAGTATGACATAGT
1 ATGCGAACCCC-ATGTTATATAGTATGACATAGT
* * *
1888871 ATGCGAACATCCACGTTATTTAGTATGACATAGT
1 ATGCGAAC-CCCATGTTATATAGTATGACATAGT
1888905 ATGCGAACC
1 ATGCGAACC
1888914 TGATTTGCCA
Statistics
Matches: 240, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
32 28 0.12
33 14 0.06
34 193 0.80
35 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGCGAACCCCATGTTATATAGTATGACATAGT
Found at i:1889849 original size:15 final size:15
Alignment explanation
Indices: 1889825--1889863 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1889815 ACGTGAAAAA
*
1889825 AACCCTAGGTTTGAT
1 AACCCCAGGTTTGAT
1889840 AACCCCAGGTTTGAT
1 AACCCCAGGTTTGAT
1889855 AACCCCAGG
1 AACCCCAGG
1889864 AAGTTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (15 bp):
AACCCCAGGTTTGAT
Found at i:1890526 original size:15 final size:15
Alignment explanation
Indices: 1890515--1890572 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
1890505 AATATGTGTG
*
1890515 AACCTTATATGTGCA
1 AACCCTATATGTGCA
1890530 AACCCTATATGTGCA
1 AACCCTATATGTGCA
* * *
1890545 AACCTTGTATGTGCG
1 AACCCTATATGTGCA
1890560 AACCCTATATGTG
1 AACCCTATATGTG
1890573 AACTTGTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (15 bp):
AACCCTATATGTGCA
Found at i:1890541 original size:30 final size:30
Alignment explanation
Indices: 1890506--1890572 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
1890496 ATGTGATTTA
**
1890506 ATATGTGTGAACCTTATATGTGCAAACCCT
1 ATATGTGCAAACCTTATATGTGCAAACCCT
* *
1890536 ATATGTGCAAACCTTGTATGTGCGAACCCT
1 ATATGTGCAAACCTTATATGTGCAAACCCT
1890566 ATATGTG
1 ATATGTG
1890573 AACTTGTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (30 bp):
ATATGTGCAAACCTTATATGTGCAAACCCT
Found at i:1901239 original size:17 final size:18
Alignment explanation
Indices: 1901207--1901241 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1901197 CCAAAAAGTT
*
1901207 CGCCCGTGTGGGCCCACA
1 CGCCCATGTGGGCCCACA
1901225 CGCCCATGT-GGCCCACA
1 CGCCCATGTGGGCCCACA
1901242 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCATGTGGGCCCACA
Found at i:1905404 original size:22 final size:22
Alignment explanation
Indices: 1905379--1905435 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
1905369 TGGTTGTTTT
* *
1905379 CACGGTGGTGGATGGCAGCGAC
1 CACGGTAGTGGATAGCAGCGAC
**
1905401 CACGGTAGTGGATAGTGGCGAC
1 CACGGTAGTGGATAGCAGCGAC
*
1905423 CACGGTAGAGGAT
1 CACGGTAGTGGAT
1905436 GACGGTGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.19, G:0.42, T:0.16
Consensus pattern (22 bp):
CACGGTAGTGGATAGCAGCGAC
Found at i:1908148 original size:19 final size:19
Alignment explanation
Indices: 1908124--1908182 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
1908114 ATTCCGAAAA
*
1908124 TAATATTATTTTAATAGTT
1 TAATATTAATTTAATAGTT
1908143 TAATATTTAATTTAATAGTAT
1 TAATA-TTAATTTAATAGT-T
*
1908164 T-TTATTAATTTAATA-TT
1 TAATATTAATTTAATAGTT
1908181 TA
1 TA
1908183 TCTTGTAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 16 0.46
20 14 0.40
21 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TAATATTAATTTAATAGTT
Found at i:1908165 original size:31 final size:31
Alignment explanation
Indices: 1908124--1908182 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1908114 ATTCCGAAAA
* *
1908124 TAATATTATTTTAATAGTTTAATATTTAATT
1 TAATAGTATTTTAATAATTTAATATTTAATT
*
1908155 TAATAGTATTTTATTAATTTAATATTTA
1 TAATAGTATTTTAATAATTTAATATTTA
1908183 TCTTGTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
TAATAGTATTTTAATAATTTAATATTTAATT
Found at i:1910275 original size:25 final size:24
Alignment explanation
Indices: 1910247--1910306 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1910237 TAATCATTGG
*
1910247 CTCAAGGCCTGATAGACAACACCGA
1 CTCAAGGCCTGATAAAC-ACACCGA
*
1910272 CTCAAGGCCAGATAAACACACCGA
1 CTCAAGGCCTGATAAACACACCGA
* *
1910296 CACAAAGCCTG
1 CTCAAGGCCTG
1910307 CTAGGCACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.38, C:0.33, G:0.18, T:0.10
Consensus pattern (24 bp):
CTCAAGGCCTGATAAACACACCGA
Found at i:1921028 original size:14 final size:14
Alignment explanation
Indices: 1921009--1921046 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1920999 GTTTGCCAGT
*
1921009 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
1921023 AAAATGATTTCTGG
1 AAAATGATTTCCGG
1921037 AAAATGATTT
1 AAAATGATTT
1921047 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:1921164 original size:20 final size:20
Alignment explanation
Indices: 1921139--1921176 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1921129 GTTTTTACAT
1921139 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
1921159 ATATTAATAAATTTATAT
1 ATATTAATAAATTTATAT
1921177 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:1922457 original size:26 final size:28
Alignment explanation
Indices: 1922428--1922517 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 28
1922418 TTCAATATCC
1922428 AACAAGCTTAAAACATAATAAATT-TA-
1 AACAAGCTTAAAACATAATAAATTATAT
1922454 AACAAGCTTAAAACATAATAAATTCAATATCT
1 AACAAGCTTAAAACATAATAAATT--ATA--T
* *
1922486 AACAAGCTTAAAACATAATCAA-TATCT
1 AACAAGCTTAAAACATAATAAATTATAT
1922513 AACAA
1 AACAA
1922518 ATTCAAGACA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
26 24 0.43
27 6 0.11
29 4 0.07
31 1 0.02
32 21 0.38
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.26
Consensus pattern (28 bp):
AACAAGCTTAAAACATAATAAATTATAT
Found at i:1922490 original size:32 final size:31
Alignment explanation
Indices: 1922418--1922504 Score: 121
Period size: 26 Copynumber: 2.9 Consensus size: 31
1922408 TGTCAATCAT
1922418 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATAT-CAACAAGCTTAAAACATAATAAA
1922450 TT---TA--AACAAGCTTAAAACATAATAAA
1 TTCAATATCAACAAGCTTAAAACATAATAAA
1922476 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATC-AACAAGCTTAAAACATAAT
1922505 CAATATCTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
26 24 0.49
29 4 0.08
32 21 0.43
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (31 bp):
TTCAATATCAACAAGCTTAAAACATAATAAA
Found at i:1922528 original size:27 final size:27
Alignment explanation
Indices: 1922419--1922531 Score: 88
Period size: 27 Copynumber: 4.0 Consensus size: 27
1922409 GTCAATCATT
* *
1922419 TCAATATCCAACAAGCTTAAAACATAA
1 TCAATATCTAACAAGATTAAAACATAA
* *
1922446 T-AA-ATTTAAACAAGCTTAAAACATAATAAA
1 TCAATATCT-AACAAGATTAAAAC---AT-AA
*
1922476 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
1922504 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
1922531 T
1 T
1922532 AATTTCAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
25 2 0.03
26 18 0.25
27 24 0.33
28 2 0.03
29 4 0.06
30 2 0.03
31 1 0.01
32 16 0.22
33 3 0.04
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:1925792 original size:2 final size:2
Alignment explanation
Indices: 1925785--1925817 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1925775 AAACAAGGCG
1925785 CA CA CA CA CA CA CA CA CA CA CA CA CA CA -A CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1925818 ACCATCAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1936874 original size:21 final size:21
Alignment explanation
Indices: 1936830--1936875 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1936820 CTTAAACTCG
* *
1936830 TAAGGGTTGAACAGAAGCTCA
1 TAAGAGTTGAACAGAACCTCA
1936851 TAAGAGTTGAACAGAAACCT-A
1 TAAGAGTTGAACAG-AACCTCA
1936872 TAAG
1 TAAG
1936876 GGTTAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (21 bp):
TAAGAGTTGAACAGAACCTCA
Found at i:1936876 original size:42 final size:41
Alignment explanation
Indices: 1936830--1936924 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
1936820 CTTAAACTCG
* * *
1936830 TAAGGGTTGAAC-AGAAGCTCATAAGAGTTGAACAGAAACCTA
1 TAAGGGTTAAACTA-AAGCTCAAAAGAGCTGAAC-GAAACCTA
*
1936872 TAAGGGTTAAACTAAAGCTCAAAAGAGCTGAACGAAAACCCA
1 TAAGGGTTAAACTAAAGCTCAAAAGAGCTGAACG-AAACCTA
*
1936914 TTAGGGTTAAA
1 TAAGGGTTAAA
1936925 TGGAAACTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (41 bp):
TAAGGGTTAAACTAAAGCTCAAAAGAGCTGAACGAAACCTA
Found at i:1940870 original size:12 final size:12
Alignment explanation
Indices: 1940849--1940883 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1940839 CCTGATAAAT
1940849 TGAT-AAATTGA
1 TGATAAAATTGA
1940860 TGATAAAATTGA
1 TGATAAAATTGA
1940872 TGATAAAATTGA
1 TGATAAAATTGA
1940884 GATTGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (12 bp):
TGATAAAATTGA
Found at i:1941163 original size:42 final size:42
Alignment explanation
Indices: 1941097--1941190 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
1941087 GGTTTACCCG
*
1941097 ATGATGCACTTACGTGCTAATATATATT-CTTCGATACATCCA
1 ATGATGCACTTACATGCTAATATAT-TTGCTTCGATACATCCA
* * ** *
1941139 ATGATGCACTTACAT-CTTACTATATTTGCTTCGGTTTATCCG
1 ATGATGCACTTACATGC-TAATATATTTGCTTCGATACATCCA
1941181 ATGATGCACT
1 ATGATGCACT
1941191 ATACGTGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 3 0.07
42 41 0.93
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (42 bp):
ATGATGCACTTACATGCTAATATATTTGCTTCGATACATCCA
Found at i:1942992 original size:39 final size:39
Alignment explanation
Indices: 1942943--1943119 Score: 266
Period size: 39 Copynumber: 4.5 Consensus size: 39
1942933 TGTTTTATAT
* *
1942943 GTATTGTGATATACGCTTAAATGTTATGTGATTATATAA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
*
1942982 GTATTATGATATATGCTTAAATGTTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
1943021 TTATTGTGATATAAGCTTAAATGTTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
1943060 GTATTGTGATATATGCTTAAA-GTTTATGTAATTATATGT
1 GTATTGTGATATATGCTTAAATG-TTATGTGATTATATGA
*
1943099 GTAATGTGATATATGCTTAAA
1 GTATTGTGATATATGCTTAAA
1943120 AGTGAATATG
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 1 0.01
39 125 0.99
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
Found at i:1943142 original size:23 final size:23
Alignment explanation
Indices: 1943116--1943171 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
1943106 GATATATGCT
*
1943116 TAAAAGTGAA-TATGCTTCCTATG
1 TAAAAG-GAACTATGATTCCTATG
1943139 TAAAA-GAACTATGATTCCTATG
1 TAAAAGGAACTATGATTCCTATG
*
1943161 CAAAA-GAACTA
1 TAAAAGGAACTA
1943172 GAAAATAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 22 0.73
23 5 0.17
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (23 bp):
TAAAAGGAACTATGATTCCTATG
Found at i:1943156 original size:22 final size:22
Alignment explanation
Indices: 1943126--1943171 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1943116 TAAAAGTGAA
* *
1943126 TATGCTTCCTATGTAAAAGAAC
1 TATGATTCCTATGCAAAAGAAC
1943148 TATGATTCCTATGCAAAAGAAC
1 TATGATTCCTATGCAAAAGAAC
1943170 TA
1 TA
1943172 GAAAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (22 bp):
TATGATTCCTATGCAAAAGAAC
Found at i:1947571 original size:30 final size:30
Alignment explanation
Indices: 1947501--1947571 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
1947491 AGTAACCTTG
* * **
1947501 ATATAATGTCGGCTTCTGCGAGCAATTCTA
1 ATATAATGTCAGCTTATGCGAGCAACCCTA
*
1947531 TTATAATGTCAGCTTATGCGAGCAACCCTA
1 ATATAATGTCAGCTTATGCGAGCAACCCTA
*
1947561 ATATATTGTCA
1 ATATAATGTCA
1947572 ACTTGTGCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (30 bp):
ATATAATGTCAGCTTATGCGAGCAACCCTA
Found at i:1947663 original size:17 final size:18
Alignment explanation
Indices: 1947641--1947674 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1947631 CGATGTTCAA
*
1947641 TTAAATGGAAA-TGGAAC
1 TTAAATGAAAATTGGAAC
1947658 TTAAATGAAAATTGGAA
1 TTAAATGAAAATTGGAA
1947675 ATGCAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (18 bp):
TTAAATGAAAATTGGAAC
Found at i:1950843 original size:3 final size:3
Alignment explanation
Indices: 1950835--1950874 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1950825 GGTTTTCATC
1950835 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1950875 CATCATCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1950879 original size:3 final size:3
Alignment explanation
Indices: 1950873--1950916 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
1950863 TATTATTATT
* * * *
1950873 ATC ATC ATC ATC ATC ATC ATC ATT ATT ATC ATT ATC ATT ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1950917 TTATTTAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (3 bp):
ATC
Found at i:1950917 original size:6 final size:6
Alignment explanation
Indices: 1950835--1950917 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
1950825 GGTTTTCATC
* * * * * * *
1950835 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATCA TCATCA
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA
* *
1950883 TCATCA TCATCA -T-T-A TTATCA TTATCA TTATCA TT
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TT
1950918 TATTTAATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 1 0.01
6 67 0.94
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (6 bp):
TTATCA
Found at i:1951369 original size:45 final size:45
Alignment explanation
Indices: 1951320--1951412 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
1951310 TCAAAATTGC
1951320 AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
1 AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
* *
1951365 AATAATGGTAGTTGGAAATGACTAAGTTTTTATATGAATTGGTTA
1 AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
1951410 AAT
1 AAT
1951413 TGAATTGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.39
Consensus pattern (45 bp):
AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
Found at i:1964931 original size:27 final size:27
Alignment explanation
Indices: 1964901--1964956 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
1964891 AGATGAAATA
* **
1964901 TAATATGGCAATTTGTTATGTGGTACG
1 TAATATGACAATCAGTTATGTGGTACG
1964928 TAATATGACAATCAGTTATGTGGTACG
1 TAATATGACAATCAGTTATGTGGTACG
1964955 TA
1 TA
1964957 GTGTAAGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
TAATATGACAATCAGTTATGTGGTACG
Found at i:1969015 original size:42 final size:42
Alignment explanation
Indices: 1968969--1969079 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 42
1968959 TCGAAGTTGG
*
1968969 GACACACAGCCATGTCCCAGCCCGTGTAACTTACTGACCTGA
1 GACACACAGCCATGTCCCAGCCCGTGTAACTCACTGACCTGA
* * * * * * *
1969011 GACACACTG-CAGTGTCTCTGCCCATATAACTCACTGACTTGG
1 GACACACAGCCA-TGTCCCAGCCCGTGTAACTCACTGACCTGA
* * * *
1969053 GTCACACGGCCATGTCGCAGACCGTGT
1 GACACACAGCCATGTCCCAGCCCGTGT
1969080 GGCTCTTGAC
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
41 2 0.04
42 48 0.92
43 2 0.04
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (42 bp):
GACACACAGCCATGTCCCAGCCCGTGTAACTCACTGACCTGA
Found at i:1973182 original size:837 final size:838
Alignment explanation
Indices: 1971394--1973405 Score: 2533
Period size: 837 Copynumber: 2.4 Consensus size: 838
1971384 GGGTCGTTAC
** * * *
1971394 AGCATCTTTCCAATTGGACTTGATAAACGGCATATTATTCTTTCAATTGATTTGCTCATTTCCAA
1 AGCATCTCCCCAATTGGACTTGATAGACGGCATATTAATCTTTCAATCGATTTGCTCATTT-CAA
* * * * * *
1971459 TTAGACTAAGGACATGTTTAGGTTCGTCTATTAATATAAGTTATATTTTCGCATTACAATTTGAC
65 TTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTACAATCTGAC
** *
1971524 CACGTAATATTACTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCCAATCTTTGCTTCTATT
130 CACGTAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCCAATATTTGCTTCTATT
* * * *
1971589 TT-TCTTTGCATGCAAAAATCATTTGAGAACAATATACAAAGGGAATTAATGAAATTCATGAATA
195 TTGT-TTTGCATGCAAAAACCA-TTAAGGACAATATACAAAGGGAATTAATGTAATTCATGAATA
* * **
1971653 ATTTTATTACCCAGTCTGTTCGAAAAAATTACAAGTGTACATAAATGAAAACACTACACTTAGAG
258 ATTTTATTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAAACAAAAACACTACACTTAGAG
*
1971718 CACCAAATCGAACAATTAAGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAAT
323 CACCAAATCGAACAATTAAGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAAC
* * *
1971783 CATTACATCTACCTTCATGAAAATTCAATTACTATCAAATAGTAATTAAGTTACCCATCACAAAG
388 CATTACATCTACCTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCACCCATCACAAAG
* ** *
1971848 ACAAACGATCTGTGGCCACGTTTACTTTTCATCTATCATGTAATGTTAACAGGAGGATATTATTT
453 ACAAACGATCTGTGGCCACGTTTAATTTTCATCTATCATGTAATGCCAACAGGAGGATATCATTT
* * * * * **
1971913 ACCCATATCTTGGGCTATGAATTCCACTATTGTTAATGACGCTACATACTACAGAAGTTGTATAC
518 ACCCATATCTTAGGCTATGAATTCAACTACTGTGAATAACGCTACATACTACAGAAGTCATATAC
** * * *
1971978 CCAATTCACTAGCTTTCAGTTCCTTATCTATTTGAACTCATGTTTTTACTTACGTCAAAGCATAC
583 CCAACGCACTAGCTTTCAGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGCATAC
* *
1972043 AAGTCACACATACATAGTCCATCATCCATTCAAGATTAAGGTATGTCGCATTATGAACGTCACAA
648 AAGTCACACATACATAGTCCATCATCCATTCAAGATTAAGGTAGGTCGCACTATGAACGTCACAA
* * * * *
1972108 GTGAATAAATCTATAAACGAATTCAGGATCTATTCTACTTGGGTCTTGGTCGATGTACTATCAAT
713 GTAAATAAACCCATAAACAAATTCAAGATCTATTCTACTTGGGTCTTGGTCGATGTACTATCAAT
* * * ** **** * *
1972173 CTAGTTAGTCACATCTATGTCTCTATCTTCTGGGAATCATTTGGTCCAATGCTTAAGAAAA
778 CCAATCAGTCACATCTATGTCTCTATCTTCTAAGAATCATCCACTCCAATACTCAAGAAAA
* * ** * * *
1972234 AGCATCTCCTCAATTAGACTTGATAGACAACATATTAATCTTTCAATCAATTTGCTTATTTCTGA
1 AGCATCTCCCCAATTGGACTTGATAGACGGCATATTAATCTTTCAATCGATTTGCTCATTTC-AA
* * * * * *
1972299 TTAAACTAAGGACATGATTAGGTTTATTTTATAATATAAATTGTCTTTTCGTATTACAATCTGAC
65 TTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTACAATCTGAC
1972364 CACGTAATATCGCTTAGTATTAGTTTAAACATTAGA-AACCAGTGAGCCAATATTTGCTTCTATT
130 CACGTAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCCAATATTTGCTTCTATT
*
1972428 TTGTTTTGCATGCAAAAACCATATAAGGACAATATACAAAGGGCATTAATGTAATTCATGAATAA
195 TTGTTTTGCATGCAAAAACCAT-TAAGGACAATATACAAAGGGAATTAATGTAATTCATGAATAA
* * * *
1972493 TTTTATTAACCAATCTATTCGAAAAAATTACAAGTGTACATAGACAAAAATACTACACTTAGAGT
259 TTTTATTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAAACAAAAACACTACACTTAGAGC
* ** * ** * * *
1972558 ACCAAATCCG-ACACTTGGGATAGATTTGTTCTCTCAATATTATCCTATTTTATCTCATGGTAAC
324 ACCAAAT-CGAACAATTAAGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAAC
* * **
1972622 CATTACATCTTCTTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCATTCATCACAAAG
388 CATTACATCTACCTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCACCCATCACAAAG
* * * *
1972687 ACAAATGA-CTTGTTGTCACGTTTAATTTTCATC-ATCATGTAATGCC-A-ATGAGAGATATCAT
453 ACAAACGATC-TGTGGCCACGTTTAATTTTCATCTATCATGTAATGCCAACAGGAG-GATATCAT
* * * * *
1972748 TTACCCATGTCTTAGGCTATGAATTCAACTACTGTGAATAATGCTACATGCTGCATAAGTCATAT
516 TTACCCATATCTTAGGCTATGAATTCAACTACTGTGAATAACGCTACATACTACAGAAGTCATAT
* ** *
1972813 ACCCAACGGACTAGCTTTTGGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGTAT
581 ACCCAACGCACTAGCTTTCAGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGCAT
* *
1972878 ACAAGTCACGCATACATAGTCCATCATCCATTCAAGATTATGGTAGGTCGCACTATGAACGTCAC
646 ACAAGTCACACATACATAGTCCATCATCCATTCAAGATTAAGGTAGGTCGCACTATGAACGTCAC
* * * * *
1972943 AAGTAAATAAACCCATAAATAAATTTAAGATCTTTTCTACTTGGGTCTT-GTCCGATTTACTGTC
711 AAGTAAATAAACCCATAAACAAATTCAAGATCTATTCTACTTGGGTCTTGGT-CGATGTACTATC
* * * *
1973007 AATCCAATCAGTCATATCTATGTCTCTATCTTCTAAGAGTCATCCACTCCGATACTCAAGACAA
775 AATCCAATCAGTCACATCTATGTCTCTATCTTCTAAGAATCATCCACTCCAATACTCAAGAAAA
* * * *
1973071 AGCATCTCCCCAACTGGACTTGATGGATGGCATATTAGTCTTTCAATCGATTTGCTCATTCTCAA
1 AGCATCTCCCCAATTGGACTTGATAGACGGCATATTAATCTTTCAATCGATTTGCTCATT-TCAA
* * * *
1973136 TTAGACTAGGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTCCGTATTACGAA-CAGG
65 TTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTAC-AATCTGA
* * * * * * *
1973200 CCACATAATATCGCTTAATATTAG-CTAAACATTAGATAACCAATGAGCTAATATTTGCTTCCAT
129 CCACGTAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCCAATATTTGCTTCTAT
* * * *
1973264 TTTGATTTT-CATGCAAAAACAATTAAGGACAATATAGAAATGGTATTAATGTAATTCATGAATA
194 TTTG-TTTTGCATGCAAAAACCATTAAGGACAATATACAAAGGGAATTAATGTAATTCATGAATA
* * * *
1973328 ATTTTACTAAACCAATCTGTTCCAAAACA-TACAAGTGTAC--AAACGAATAAC-CTACACTTAG
258 ATTTTA-TTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAAAC-AAAAACACTACACTTAG
* *
1973389 GGCACCAAATCCAACAA
321 AGCACCAAATCGAACAA
1973406 CTTCCTCTAA
Statistics
Matches: 1001, Mismatches: 157, Indels: 34
0.84 0.13 0.03
Matches are distributed among these distances:
833 1 0.00
834 24 0.02
835 4 0.00
836 72 0.07
837 461 0.46
838 21 0.02
839 277 0.28
840 141 0.14
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (838 bp):
AGCATCTCCCCAATTGGACTTGATAGACGGCATATTAATCTTTCAATCGATTTGCTCATTTCAAT
TAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTACAATCTGACC
ACGTAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCCAATATTTGCTTCTATTT
TGTTTTGCATGCAAAAACCATTAAGGACAATATACAAAGGGAATTAATGTAATTCATGAATAATT
TTATTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAAACAAAAACACTACACTTAGAGCAC
CAAATCGAACAATTAAGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAACCAT
TACATCTACCTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCACCCATCACAAAGACA
AACGATCTGTGGCCACGTTTAATTTTCATCTATCATGTAATGCCAACAGGAGGATATCATTTACC
CATATCTTAGGCTATGAATTCAACTACTGTGAATAACGCTACATACTACAGAAGTCATATACCCA
ACGCACTAGCTTTCAGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGCATACAAG
TCACACATACATAGTCCATCATCCATTCAAGATTAAGGTAGGTCGCACTATGAACGTCACAAGTA
AATAAACCCATAAACAAATTCAAGATCTATTCTACTTGGGTCTTGGTCGATGTACTATCAATCCA
ATCAGTCACATCTATGTCTCTATCTTCTAAGAATCATCCACTCCAATACTCAAGAAAA
Found at i:1976022 original size:27 final size:28
Alignment explanation
Indices: 1975914--1976013 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 28
1975904 CTGATGGACA
*
1975914 ATCCCGTGTTTAATGTCTC-AACAGACT
1 ATCCCGTGTTTAGTGTCTCTAACAGACT
1975941 ATCCCGTGTTTA-TCGTC-CTAACA-AGCT
1 ATCCCGTGTTTAGT-GTCTCTAACAGA-CT
* * ****
1975968 ATCCCATGTTTAGTG-CCCTGGTGGACT
1 ATCCCGTGTTTAGTGTCTCTAACAGACT
1975995 ATCCCGTGTTTAGTGTCTC
1 ATCCCGTGTTTAGTGTCTC
1976014 GGCAGACTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
26 4 0.07
27 51 0.86
28 4 0.07
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (28 bp):
ATCCCGTGTTTAGTGTCTCTAACAGACT
Found at i:1979462 original size:20 final size:20
Alignment explanation
Indices: 1979434--1979473 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1979424 ACCCAATGTA
*
1979434 TATGGCCTTGATTTTAGCCG
1 TATGACCTTGATTTTAGCCG
1979454 TATGACCTTGATTTTAGCCG
1 TATGACCTTGATTTTAGCCG
1979474 AGGAGCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
TATGACCTTGATTTTAGCCG
Found at i:1983503 original size:30 final size:31
Alignment explanation
Indices: 1983438--1983507 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
1983428 ACTGTTAATA
*
1983438 AGTGACTGATTTGTCACTTTTTAATAACGAT
1 AGTGACTGATTTGTCACTTTTTAATAAAGAT
* * *
1983469 AGTGACTGTTTTGTCA-TTTTT-CTAAAGTT
1 AGTGACTGATTTGTCACTTTTTAATAAAGAT
1983498 GAGTGACTGA
1 -AGTGACTGA
1983508 AATGAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 13 0.39
31 15 0.45
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (31 bp):
AGTGACTGATTTGTCACTTTTTAATAAAGAT
Found at i:1984422 original size:16 final size:16
Alignment explanation
Indices: 1984375--1984423 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1984365 CGGTGAATCC
1984375 AAAAATATATTTTTTT
1 AAAAATATATTTTTTT
* *
1984391 AAATATAAATTCTTTTT
1 AAAAATATATT-TTTTT
*
1984408 AAAAAT-TATTATTTT
1 AAAAATATATTTTTTT
1984423 A
1 A
1984424 TTATTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 5 0.19
16 12 0.44
17 10 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAAATATATTTTTTT
Found at i:1984426 original size:8 final size:8
Alignment explanation
Indices: 1984413--1984440 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1984403 TTTTTAAAAA
1984413 TTATTATT
1 TTATTATT
1984421 TTATTATT
1 TTATTATT
1984429 TTATTATT
1 TTATTATT
1984437 TTAT
1 TTAT
1984441 AAATGGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:1992071 original size:84 final size:84
Alignment explanation
Indices: 1991930--1992097 Score: 255
Period size: 84 Copynumber: 2.0 Consensus size: 84
1991920 TTTACCTTAG
** * * *
1991930 AAATCTTAAAGGTTTCTTAATTTCTCCAAGATTGGGTTTCTCTTCCAACACAAGCTCAAGAATTA
1 AAATCTTAAACATTACTTAACTCCTCCAAGATTGGGTTTCTCTTCCAACACAAGCTCAAGAATTA
1991995 TATGAGTGGCATAAAAAAA
66 TATGAGTGGCATAAAAAAA
* * *
1992014 AAATCTTAAACATTACTTAACTCCTCGAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTC
1 AAATCTTAAACATTACTTAACTCCTCCAAGATTGGGTTTCTCTTCCAACACAAGCTCAAGAATTA
*
1992079 TATGGGTGGCATAAAAAAA
66 TATGAGTGGCATAAAAAAA
1992098 TCAGGGTTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (84 bp):
AAATCTTAAACATTACTTAACTCCTCCAAGATTGGGTTTCTCTTCCAACACAAGCTCAAGAATTA
TATGAGTGGCATAAAAAAA
Found at i:1994934 original size:3 final size:3
Alignment explanation
Indices: 1994926--1994957 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1994916 AGGTCTGTTA
1994926 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1994958 AATACCTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1997494 original size:129 final size:127
Alignment explanation
Indices: 1997092--1997518 Score: 479
Period size: 129 Copynumber: 3.3 Consensus size: 127
1997082 TTGTCACTAA
* * ** *
1997092 CAAGAGTAAATATTGAATCTTCGAGCTGTTTAACCTTTGATTTTTATTTTCA-GAAAAGAAAAG-
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTAGTATTATCAGGAAAAGAAAAGA
1997155 -AAAAGGCCTGCTTGGTCCCTTTACCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAG
66 AAAAAGGCCTGCTTGGTCCC-TT-CCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAG
*
1997218 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTAGTATTATCAGAAAAAGAAAGA
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGC-TTAGTATTATCAGGAAAAG-AA-A
* * * * *
1997283 AGAAAAATGGCCTGCTTGGTACCCAT-CTAAGAAATTGCTCTTGCTGATTGATATTCGATCACCA
63 AGAAAAAAGGCCTGCTTGGT-CCCTTCCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCA
1997347 G
127 G
* * * * *
1997348 CAAGGGTAAAGACTGAATCTTTGAGCTGTTTAACCTTTGCTTAGAATTCTCAGGAAAAGAAAAGG
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTAGTATTATCAGGAAAAGAAAA-G
* * ** ** *
1997413 AAAAAAGGCCAT-CTTGTTGTCCCTGCCT-AGAAAGTGCTCCAGCTGATTGGTGGTCAATCACTA
65 AAAAAAGGCC-TGCTTG--GTCCCTTCCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCA
1997476 G
127 G
* * **
1997477 CAAGAGCAAACATTGAATCTTCGAGCCATTTAACCTTTGCTT
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTT
1997519 TCTGTTCCAT
Statistics
Matches: 254, Mismatches: 35, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
126 38 0.15
127 11 0.04
128 21 0.08
129 85 0.33
130 80 0.31
132 16 0.06
133 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (127 bp):
CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTAGTATTATCAGGAAAAGAAAAGA
AAAAAGGCCTGCTTGGTCCCTTCCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAG
Found at i:2000551 original size:22 final size:21
Alignment explanation
Indices: 2000524--2000571 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2000514 TTTTGATTAA
2000524 TTTTTAAAAGTTCAATAAATAT
1 TTTTTAAAAGTTCAA-AAATAT
* * *
2000546 TTTTTATAATTTTAAAAATAT
1 TTTTTAAAAGTTCAAAAATAT
2000567 TTTTT
1 TTTTT
2000572 TAATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTTAAAAGTTCAAAAATAT
Found at i:2000579 original size:21 final size:21
Alignment explanation
Indices: 2000540--2000578 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2000530 AAAGTTCAAT
2000540 AAATATTTTTTATAATTTTAA
1 AAATATTTTTTATAATTTTAA
2000561 AAATATTTTTT-TAATTTT
1 AAATATTTTTTATAATTTT
2000579 TTTAATCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AAATATTTTTTATAATTTTAA
Found at i:2004087 original size:29 final size:30
Alignment explanation
Indices: 2004031--2004093 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
2004021 TTCTTATTTA
2004031 AACACTTTGTAAAAGTTAGGCCCTTATATG
1 AACACTTTGTAAAAGTTAGGCCCTTATATG
* *
2004061 AACACTTTG-AAAGGTTTGGCCCTTATATG
1 AACACTTTGTAAAAGTTAGGCCCTTATATG
2004090 AACA
1 AACA
2004094 ACCCCTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (30 bp):
AACACTTTGTAAAAGTTAGGCCCTTATATG
Found at i:2008905 original size:44 final size:46
Alignment explanation
Indices: 2008803--2008915 Score: 133
Period size: 47 Copynumber: 2.5 Consensus size: 46
2008793 ATATATATTA
* *
2008803 ATATATTTTTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATGAAAATGAATTAAACTATA-CTGAATGTAT
* *
2008850 ATGTAATTGTTATGCA-GAGAAATGAATTAAACTAT-C-GAATGTAT
1 ATATATTTGTTATGCATGA-AAATGAATTAAACTATACTGAATGTAT
*
2008894 ATATATTTGTTATACATTGAAA
1 ATATATTTGTTATGCA-TGAAA
2008916 TAAATTATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
44 21 0.38
45 3 0.05
46 4 0.07
47 28 0.50
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (46 bp):
ATATATTTGTTATGCATGAAAATGAATTAAACTATACTGAATGTAT
Found at i:2008916 original size:44 final size:45
Alignment explanation
Indices: 2008803--2008922 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 45
2008793 ATATATATTA
* *
2008803 ATATATTTTTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATG-AAATGAATTAAACTATA-CTGAATGTAT
* * *
2008850 ATGTAATTGTTATGCAGAGAAATGAATTAAACTAT-C-GAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATACTGAATGTAT
* *
2008894 ATATATTTGTTATACATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATGAATTA
2008923 TTTGAAATTA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
44 31 0.51
45 1 0.02
47 28 0.46
48 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (45 bp):
ATATATTTGTTATGCATGAAATGAATTAAACTATACTGAATGTAT
Found at i:2008960 original size:61 final size:61
Alignment explanation
Indices: 2008886--2009048 Score: 272
Period size: 61 Copynumber: 2.6 Consensus size: 61
2008876 TTAAACTATC
*
2008886 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATAGGTTATGGCT
1 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATACGTTATGGCT
2008947 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATACGTTATGGCT
1 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATACGTTATGGCT
*
2009008 GAATGTATATATATATATTTGTTATACATTGAAATGAATTA
1 GAATG----TATATATATTTGTTATACATTGAAATAAATTA
2009049 ATCTATAGCT
Statistics
Matches: 96, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
61 65 0.68
65 31 0.32
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (61 bp):
GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATACGTTATGGCT
Found at i:2009089 original size:47 final size:49
Alignment explanation
Indices: 2009015--2009129 Score: 144
Period size: 47 Copynumber: 2.4 Consensus size: 49
2009005 GCTGAATGTA
** ** * *
2009015 TATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATG
1 TATATATATATTTGTTATGTAGAGAAATGAATTAAACTATAGCCGAATG
* *
2009064 TATATGTA-A-TTGTTATGTAGAGAAATGAATTAAACTATGGCCGAATG
1 TATATATATATTTGTTATGTAGAGAAATGAATTAAACTATAGCCGAATG
2009111 TATATATATATTTGTTATG
1 TATATATATATTTGTTATG
2009130 CATTGAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 38 0.69
48 2 0.04
49 15 0.27
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (49 bp):
TATATATATATTTGTTATGTAGAGAAATGAATTAAACTATAGCCGAATG
Found at i:2009297 original size:41 final size:41
Alignment explanation
Indices: 2009252--2009353 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
2009242 TGTAAGTTCG
*
2009252 GGCTTTATGCCTAGCAGGCTCTGTGTCAGTGAAATGTATCA
1 GGCTTTATGCCTAGCAGGCTCTGTGCCAGTGAAATGTATCA
* *
2009293 GGCTTTATGCCTAGCAGACTCTGTGCCAGTGAAATGTATCG
1 GGCTTTATGCCTAGCAGGCTCTGTGCCAGTGAAATGTATCA
*
2009334 GGCTTTGTGCCTAGCAGGCT
1 GGCTTTATGCCTAGCAGGCT
2009354 TTATGCCGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTCTGTGCCAGTGAAATGTATCA
Found at i:2013040 original size:68 final size:69
Alignment explanation
Indices: 2012964--2013098 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 69
2012954 TGTAATATAT
* *
2012964 TTAATATTAAATTTAAAT-TAATATTTATCTTAAT-ATTATTTTATTAAGTTAATATTAAAGTGA
1 TTAATATTAAATTT-AATCTAATATTTATCTTAATAAGTATTATATTAAGTTAATATTAAAGTGA
2013027 TTATC
65 TTATC
* *
2013032 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAAGTTAATATTAAAGTGAT
2013097 TA
66 TA
2013099 AGTTTAATCA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 3 0.05
68 29 0.48
69 29 0.48
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAAGTTAATATTAAAGTGAT
TATC
Found at i:2014782 original size:29 final size:31
Alignment explanation
Indices: 2014740--2014817 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
2014730 TATGAATACT
* **
2014740 GGTACAAAGTACCTGATAAT-AT-AGTCACC
1 GGTACATAGTACCTGATAATAATCAACCACC
* *
2014769 GGTACATAGCACCTAAT-ATAATGCAACCACC
1 GGTACATAGTACCTGATAATAAT-CAACCACC
2014800 GGTACATAGTACCTGATA
1 GGTACATAGTACCTGATA
2014818 CTTTAAACCC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.05
29 16 0.42
31 20 0.53
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (31 bp):
GGTACATAGTACCTGATAATAATCAACCACC
Found at i:2016780 original size:32 final size:32
Alignment explanation
Indices: 2016735--2016796 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2016725 GGAGGTTAAT
*
2016735 GTTCTTATTTATGTATGTATATTTTGGTGATC
1 GTTCTTATCTATGTATGTATATTTTGGTGATC
*
2016767 GTTCTTATCTATGTGTGTATATTTTGGTGA
1 GTTCTTATCTATGTATGTATATTTTGGTGA
2016797 AATGTTAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.06, G:0.21, T:0.55
Consensus pattern (32 bp):
GTTCTTATCTATGTATGTATATTTTGGTGATC
Found at i:2020479 original size:34 final size:34
Alignment explanation
Indices: 2020441--2020508 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2020431 TTTGAAGCTT
2020441 CACTTCTTTGCATGCTGAGTGGGTGAAGGGAGAA
1 CACTTCTTTGCATGCTGAGTGGGTGAAGGGAGAA
2020475 CACTTCTTTGCATGCTGAGTGGGTGAAGGGAGAA
1 CACTTCTTTGCATGCTGAGTGGGTGAAGGGAGAA
2020509 AGCATATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (34 bp):
CACTTCTTTGCATGCTGAGTGGGTGAAGGGAGAA
Found at i:2023857 original size:18 final size:19
Alignment explanation
Indices: 2023831--2023866 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2023821 GTGTGACCCC
*
2023831 TGTTTTCCC-AAATTTTCA
1 TGTTCTCCCAAAATTTTCA
2023849 TGTTCTCCCAAAATTTTC
1 TGTTCTCCCAAAATTTTC
2023867 TTATTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (19 bp):
TGTTCTCCCAAAATTTTCA
Found at i:2024430 original size:38 final size:38
Alignment explanation
Indices: 2024312--2024422 Score: 159
Period size: 38 Copynumber: 2.9 Consensus size: 38
2024302 ACATGATTTG
* * * *
2024312 CATGCCTACTGTCAATAATGAATTGAGTACATATTAAA
1 CATGTCTACTGTTAATAATGAATTGAGCACATGTTAAA
* * *
2024350 CATGTCTACTGTTAATGATAAATTGAGCCCATGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGCACATGTTAAA
2024388 CATGTCTACTGTTAATAATGAATTGAGCACATGTT
1 CATGTCTACTGTTAATAATGAATTGAGCACATGTT
2024423 GTACATGTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATGAATTGAGCACATGTTAAA
Found at i:2026713 original size:22 final size:23
Alignment explanation
Indices: 2026671--2026713 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
2026661 TCTTAATAGA
2026671 ATTTTCTCTTCATCTTTCTTTTT
1 ATTTTCTCTTCATCTTTCTTTTT
2026694 ATTTTCT-TTC-TCGTTTCTTT
1 ATTTTCTCTTCATC-TTTCTTT
2026714 ACACCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 10 0.53
23 7 0.37
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (23 bp):
ATTTTCTCTTCATCTTTCTTTTT
Found at i:2027589 original size:38 final size:38
Alignment explanation
Indices: 2027538--2027662 Score: 169
Period size: 38 Copynumber: 3.3 Consensus size: 38
2027528 TCATAATTTG
* *
2027538 CATGTCTATTGTTAATAATAAATTGAGTACGTGTTAAA
1 CATGTCTACTGTTAATAATAAATTGAGTACATGTTAAA
* * *
2027576 CATGTCTACTGTTAATGATGAATTGAGTATATGTTAAA
1 CATGTCTACTGTTAATAATAAATTGAGTACATGTTAAA
** **
2027614 CATGTCTACTGTTAATAATAAATTGAACACATGTTGTA
1 CATGTCTACTGTTAATAATAAATTGAGTACATGTTAAA
2027652 CATGTCTACTG
1 CATGTCTACTG
2027663 CTAGTGTTGA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATAAATTGAGTACATGTTAAA
Found at i:2027676 original size:38 final size:38
Alignment explanation
Indices: 2027538--2027676 Score: 134
Period size: 38 Copynumber: 3.7 Consensus size: 38
2027528 TCATAATTTG
* * * ** *
2027538 CATGTCTATTGTTAATAATAAATTGAGTACGTGTTAAA
1 CATGTCTACTGTTAATGATGAATTGAACACATGTTAAA
** *
2027576 CATGTCTACTGTTAATGATGAATTGAGTATATGTTAAA
1 CATGTCTACTGTTAATGATGAATTGAACACATGTTAAA
* * **
2027614 CATGTCTACTGTTAATAATAAATTGAACACATGTTGTA
1 CATGTCTACTGTTAATGATGAATTGAACACATGTTAAA
* * *
2027652 CATGTCTACTGCTAGTGTTGAATTG
1 CATGTCTACTGTTAATGATGAATTG
2027677 TTCTATTACA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (38 bp):
CATGTCTACTGTTAATGATGAATTGAACACATGTTAAA
Found at i:2027895 original size:45 final size:44
Alignment explanation
Indices: 2027858--2027950 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 44
2027848 GTTGTGTTTT
* * * *
2027858 CATAGCTAGAGGTTGATTTTATCTGCGAGATTTTTGTTGTGCATC
1 CATAGCCAGAGGTAGATTCTAACTGCGAGA-TTTTGTTGTGCATC
* *
2027903 CATAGCCAGAGGTAGATTCTAACTGCGGGATTTTGTTGTGCGTC
1 CATAGCCAGAGGTAGATTCTAACTGCGAGATTTTGTTGTGCATC
2027947 CATA
1 CATA
2027951 ACCACTAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.40
45 25 0.60
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.37
Consensus pattern (44 bp):
CATAGCCAGAGGTAGATTCTAACTGCGAGATTTTGTTGTGCATC
Found at i:2030164 original size:21 final size:21
Alignment explanation
Indices: 2030140--2030181 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2030130 AATAAATATA
2030140 TTTTATAATTAAATA-TAATAC
1 TTTTATAA-TAAATATTAATAC
* *
2030161 TTTTTTTATAAATATTAATAC
1 TTTTATAATAAATATTAATAC
2030182 ATCTAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTATAATAAATATTAATAC
Found at i:2035069 original size:16 final size:16
Alignment explanation
Indices: 2035048--2035079 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2035038 GAAAAAGATT
2035048 GCTTAATTGGGTTGAA
1 GCTTAATTGGGTTGAA
2035064 GCTTAATTGGGTTGAA
1 GCTTAATTGGGTTGAA
2035080 AGATTATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
GCTTAATTGGGTTGAA
Found at i:2055910 original size:18 final size:18
Alignment explanation
Indices: 2055882--2055926 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2055872 CGTTCGTTTC
*
2055882 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
2055899 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
2055918 CAAAACGTT
1 CAAAACGTT
2055927 TTCTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:2058761 original size:102 final size:102
Alignment explanation
Indices: 2058583--2058782 Score: 364
Period size: 102 Copynumber: 2.0 Consensus size: 102
2058573 GATGTTTTTG
*
2058583 TATGTGTTTGAAGCCTTGTGATCACGTGTTTTGTATTGGTTTAGGTACCTATGCAATTGGGTGAA
1 TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGGTACCTATGCAATTGGGTGAA
* *
2058648 ATTTAAGCTTGAAGTAGGACATTTTTTGGCTCATACA
66 ATTTAACCTTGAAGTAGGACATTTTTGGGCTCATACA
2058685 TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGGTACCTATGCAATTGGGTGAA
1 TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGGTACCTATGCAATTGGGTGAA
*
2058750 ATTTGACCTTGAAGTAGGACATTTTTGGGCTCA
66 ATTTAACCTTGAAGTAGGACATTTTTGGGCTCA
2058783 CACGGCTTGA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (102 bp):
TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGGTACCTATGCAATTGGGTGAA
ATTTAACCTTGAAGTAGGACATTTTTGGGCTCATACA
Found at i:2065894 original size:21 final size:21
Alignment explanation
Indices: 2065868--2065917 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2065858 CTACAACTTA
*
2065868 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGGG
2065889 AAGCAGAGGCCGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGGG
2065910 AAGCAGAG
1 AAGCAGAG
2065918 CAGACCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.48, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGGG
Found at i:2066344 original size:42 final size:43
Alignment explanation
Indices: 2066293--2066375 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
2066283 CACTATTTTT
* *
2066293 CATGTTCTTTAGCGGCG-TTTTTATCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGAGGCGTTTTTTATCTAAGCGCCGCTAAAGAA
*
2066335 CATGGTCTTTAGAGGCGTTTTTTTTCTAAGCGCCGCTAAAG
1 CATGGTCTTTAGAGGCGTTTTTTATCTAAGCGCCGCTAAAG
2066376 GCCTAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 15 0.41
43 22 0.59
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (43 bp):
CATGGTCTTTAGAGGCGTTTTTTATCTAAGCGCCGCTAAAGAA
Found at i:2066955 original size:17 final size:16
Alignment explanation
Indices: 2066918--2066956 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2066908 AATAAAAAAT
2066918 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
2066933 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
2066951 TAAATT
1 TAAATT
2066957 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:2068097 original size:22 final size:22
Alignment explanation
Indices: 2068066--2068116 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2068056 GCAAACTGAT
* *
2068066 CATTTTTGTTAAAAATTTCATC
1 CATTTCTGTTAAAAATTTCATA
2068088 CATTTCTGTTAAAAATTTCATA
1 CATTTCTGTTAAAAATTTCATA
2068110 CATTTCT
1 CATTTCT
2068117 ATTGTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (22 bp):
CATTTCTGTTAAAAATTTCATA
Found at i:2074212 original size:60 final size:59
Alignment explanation
Indices: 2074134--2074251 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 59
2074124 TTTGAGAGGC
* * *
2074134 CCTTATTTGAGCACTTTTA-AAAAGGCTAGGCCCTTCTCTGACCATTTTGAAAGGTTTGA
1 CCTTATTTGAGCACTTTTATAAAA-GCTAGGCCCTTATATGACCATCTTGAAAGGTTTGA
* *
2074193 CCTTCATTTGAGCACTTTTATAAAAGTTAGGCTCTTATATGACCATCTTGAAAGGTTTG
1 CCTT-ATTTGAGCACTTTTATAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTG
2074252 GTTCTTATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 4 0.08
60 44 0.85
61 4 0.08
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (59 bp):
CCTTATTTGAGCACTTTTATAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGA
Found at i:2079329 original size:26 final size:27
Alignment explanation
Indices: 2079300--2079351 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
2079290 TTTGTTTTTC
*
2079300 TATTTCCCA-AAATAAAATTCTCAATA
1 TATTTCCAATAAATAAAATTCTCAATA
*
2079326 TATTTCCAATTAAATAATATTCTCAA
1 TATTTCCAA-TAAATAAAATTCTCAA
2079352 GCCAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAAATTCTCAATA
Found at i:2079595 original size:57 final size:57
Alignment explanation
Indices: 2079521--2079694 Score: 208
Period size: 62 Copynumber: 2.9 Consensus size: 57
2079511 GTCATTTTCT
* * *
2079521 TTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCTATTTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTCCA
* *
2079578 TTTTAATTTTGGAGAAAACCATAATCATTTTCAAATGATT-CATTTCCCCATTTCCATTTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTT---C---TCCATTTCCA
*
2079640 TTTCCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCCTATTTCTCCATTT
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA-TTCC-ATTTCTCCATTT
2079695 TCACCATTTC
Statistics
Matches: 100, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
56 5 0.05
57 36 0.36
58 7 0.07
59 1 0.01
61 2 0.02
62 44 0.44
63 1 0.01
64 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (57 bp):
TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTCCA
Found at i:2081165 original size:39 final size:39
Alignment explanation
Indices: 2081117--2081194 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
2081107 GTATACGCCA
2081117 AACTCCTAAGATGTCCTCTATATTCATAATAACCCAAAC
1 AACTCCTAAGATGTCCTCTATATTCATAATAACCCAAAC
2081156 AACTCCTAAGATGTCCTCTATATTCATAATAACCCAAAC
1 AACTCCTAAGATGTCCTCTATATTCATAATAACCCAAAC
2081195 TCGCTGTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.28
Consensus pattern (39 bp):
AACTCCTAAGATGTCCTCTATATTCATAATAACCCAAAC
Found at i:2081722 original size:20 final size:21
Alignment explanation
Indices: 2081694--2081735 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2081684 ACACTTACAG
2081694 AATACGCCACAAAGGCA-CAT
1 AATACGCCACAAAGGCATCAT
*
2081714 AATATGCCACAAAGGCATCAT
1 AATACGCCACAAAGGCATCAT
2081735 A
1 A
2081736 GATAACCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.45, C:0.26, G:0.14, T:0.14
Consensus pattern (21 bp):
AATACGCCACAAAGGCATCAT
Found at i:2083399 original size:49 final size:48
Alignment explanation
Indices: 2083245--2083399 Score: 141
Period size: 49 Copynumber: 3.1 Consensus size: 48
2083235 CCATGCCTCA
* *
2083245 AGACTTGCCTCATCAGCTTCAAACTTTAACTTCAAAGTTCTATGTCTCG
1 AGACTTACCTC-TCAACTTCAAACTTTAACTTCAAAGTTCTATGTCTCG
* * * * * *
2083294 AGACGTTAACCTC-CAAGTCCAAAGACTTTAGCTTCGAAGTTTTATGTCTTG
1 AGAC-TT-ACCTCTCAACTTC-AA-ACTTTAACTTCAAAGTTCTATGTCTCG
* * * *
2083345 GGACTTACCTCTTCATCTTCAAATTTTACCTTCAAAGTTCTATGTCTCG
1 AGACTTACCTC-TCAACTTCAAACTTTAACTTCAAAGTTCTATGTCTCG
2083394 AGACTT
1 AGACTT
2083400 TGGAGTTATG
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
49 40 0.49
50 8 0.10
51 34 0.41
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (48 bp):
AGACTTACCTCTCAACTTCAAACTTTAACTTCAAAGTTCTATGTCTCG
Found at i:2087133 original size:22 final size:22
Alignment explanation
Indices: 2087105--2087149 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2087095 AAATTGAAAG
2087105 AAAGGTTTTTTTTATAAACTAT
1 AAAGGTTTTTTTTATAAACTAT
2087127 AAAGGTTTTTTTTATAAACTAT
1 AAAGGTTTTTTTTATAAACTAT
2087149 A
1 A
2087150 CGAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
AAAGGTTTTTTTTATAAACTAT
Found at i:2089901 original size:6 final size:6
Alignment explanation
Indices: 2089890--2089921 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
2089880 AAATTAAATA
2089890 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
2089922 CACCAAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:2093039 original size:12 final size:12
Alignment explanation
Indices: 2093024--2093057 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2093014 TTAGTTTAAG
2093024 GATGTGTTTTTA
1 GATGTGTTTTTA
2093036 GATGTGTTTTTA
1 GATGTGTTTTTA
*
2093048 GATGAGTTTT
1 GATGTGTTTT
2093058 CTCTCAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (12 bp):
GATGTGTTTTTA
Found at i:2097391 original size:23 final size:23
Alignment explanation
Indices: 2097367--2097462 Score: 156
Period size: 23 Copynumber: 4.2 Consensus size: 23
2097357 GTTATTGATT
*
2097367 AGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTTCGGCTACATTTC
2097390 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTTCGGCTACATTTC
* *
2097413 AGTGGTAGCTACGGCTACATATC
1 AGTGGTAGCTTCGGCTACATTTC
*
2097436 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATTTC
2097459 AGTG
1 AGTG
2097463 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATTTC
Found at i:2101364 original size:106 final size:108
Alignment explanation
Indices: 2101099--2101365 Score: 380
Period size: 107 Copynumber: 2.5 Consensus size: 108
2101089 GAAAAACTTT
* *
2101099 AAAATTTTTAAATTTTTTCGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAATTTTTTTT
1 AAAATTTTTAAATTTTTTCGTATACTGGTGTCGGCCAATGACAACCCAAAATGTAAATTTTTTTT
* * * * *
2101164 TTACATAAAGGTGGTGCTGGCCATTGCCAGGCCACCACTAAAA
66 TTACATAAAGGTGGCGCCGACAATTGCCAGGCCACCACCAAAA
* * * **
2101207 AAAAATTTTGAATTTTTTCGTATACTGGTGTCGACCAATGAC-ACGAAAAAAT-TCAAA-TTTTT
1 AAAATTTTTAAATTTTTTCGTATACTGGTGTCGGCCAATGACAAC-CCAAAATGT-AAATTTTTT
2101269 TTTTACATAAAGGTGGCGCCGACAATTGCCAGGCCACCACCAAAA
64 TTTTACATAAAGGTGGCGCCGACAATTGCCAGGCCACCACCAAAA
2101314 AAAATTTTTAAATTTTTT-GTATACTGGTGTCGGCCAATGACAACCCAAAATG
1 AAAATTTTTAAATTTTTTCGTATACTGGTGTCGGCCAATGACAACCCAAAATG
2101366 AAAAAAAAAT
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
106 27 0.20
107 65 0.47
108 46 0.33
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (108 bp):
AAAATTTTTAAATTTTTTCGTATACTGGTGTCGGCCAATGACAACCCAAAATGTAAATTTTTTTT
TTACATAAAGGTGGCGCCGACAATTGCCAGGCCACCACCAAAA
Found at i:2108118 original size:75 final size:76
Alignment explanation
Indices: 2108018--2108160 Score: 184
Period size: 75 Copynumber: 1.9 Consensus size: 76
2108008 TCATACTTGA
* * **
2108018 TCTTTTTTGGCGTTAAGAGGGACAAGACCTCTCACCTT-AGCTAATTCATC-AAAGTTATAAGAC
1 TCTTCTTTGGCGTTAAGAGGGACAAGACCTCTCA-CTTAAGCCAATTCATCTAAAGGGATAAGAC
2108081 CTCTCACATTGG
65 CTCTCACATTGG
* * *
2108093 TCTTCTTTGGTGTTAA-AGGAGACAAGACCTTTCACTTAAGCCAATTCATCTAAGGGGATAAGAC
1 TCTTCTTTGGCGTTAAGAGG-GACAAGACCTCTCACTTAAGCCAATTCATCTAAAGGGATAAGAC
2108157 CTCT
65 CTCT
2108161 GGTATTGGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
74 6 0.10
75 38 0.66
76 14 0.24
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (76 bp):
TCTTCTTTGGCGTTAAGAGGGACAAGACCTCTCACTTAAGCCAATTCATCTAAAGGGATAAGACC
TCTCACATTGG
Found at i:2123419 original size:19 final size:19
Alignment explanation
Indices: 2123383--2123421 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2123373 AGTAAAATTG
* **
2123383 TATTATTTTGAGGGTATTT
1 TATTATTTTAAGAATATTT
2123402 TATTATTTTAAGAATATTT
1 TATTATTTTAAGAATATTT
2123421 T
1 T
2123422 TATCATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (19 bp):
TATTATTTTAAGAATATTT
Found at i:2125658 original size:24 final size:25
Alignment explanation
Indices: 2125615--2125665 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
2125605 TTCCAGAAGG
*
2125615 TAAAAGTGCGGCCCTATGTTTTTTT
1 TAAAAGTGCGGCCCTATGTTCTTTT
2125640 TAAAAGTG-GGCCC-ATTGTTCTTTT
1 TAAAAGTGCGGCCCTA-TGTTCTTTT
2125664 TA
1 TA
2125666 GGGATTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 15 0.62
25 8 0.33
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (25 bp):
TAAAAGTGCGGCCCTATGTTCTTTT
Found at i:2131158 original size:51 final size:51
Alignment explanation
Indices: 2131030--2131174 Score: 186
Period size: 50 Copynumber: 2.9 Consensus size: 51
2131020 AGTGAAAGTG
* * *
2131030 ATGGTCACGTGTGTAGCACTATGTGCAGGTTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* * *
2131081 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* * *
2131130 AATGGTCACATGTGTAGTACTATGTGCAGACTACTATGTGAACCG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
2131175 AACATCATTG
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
49 4 0.05
50 39 0.48
51 38 0.47
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
Found at i:2131227 original size:45 final size:45
Alignment explanation
Indices: 2131171--2131265 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
2131161 TACTATGTGA
* *
2131171 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTGC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGATTGC
* * *
2131216 ACCGGACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGATTGC
2131261 ACCGA
1 ACCGA
2131266 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGATTGC
Found at i:2134587 original size:50 final size:50
Alignment explanation
Indices: 2134533--2134726 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
2134523 TATTAAGGTT
*
2134533 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * *
2134583 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * *
2134633 AT-A-AGGACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGG--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AG
* * ** * * *
2134682 AGGAAACATCCCATGCAAGATCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
2134727 TGTTATTATC
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.03
49 35 0.29
50 80 0.67
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:2134951 original size:20 final size:20
Alignment explanation
Indices: 2134926--2134964 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2134916 CATGAGTATT
2134926 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
2134946 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
2134965 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:2138424 original size:20 final size:20
Alignment explanation
Indices: 2138399--2138437 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2138389 TACTTTCTTC
2138399 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
2138419 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
2138438 AATACTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:2138823 original size:50 final size:50
Alignment explanation
Indices: 2138637--2138831 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
2138627 GATAATAACA
* * ** * *
2138637 TGCCAAAGCCATGTCCCAGAAATGGTCTTACATGGGATGTTTCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * * *
2138686 TACCAATGCCTTATCCTAGATATGGTCTTACATGGGA-GTCCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATATCGG
* * ** *
2138736 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
2138786 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
2138832 ACCTTAATAA
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
48 3 0.03
49 36 0.30
50 80 0.67
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:2138844 original size:50 final size:50
Alignment explanation
Indices: 2138741--2138846 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
2138731 ATCGGTGCCC
* * ** * **
2138741 ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAACCGTAACA
* * *
2138791 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTTAATA
1 ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAACCGTAACA
2138841 ATGCCA
1 ATGCCA
2138847 ATGCCATGTC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAACCGTAACA
Found at i:2140340 original size:40 final size:40
Alignment explanation
Indices: 2140274--2140382 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
2140264 TGTACCTGAA
**
2140274 TAGCAGGCTTTGTGCCGGTGAATTTATCGGGCTTTGTGCC
1 TAGCAGGCTTTGTGCCGGTGTGTTTATCGGGCTTTGTGCC
* *
2140314 TAGCAGGCTTTGTGCTGGTGTGTTTATCGGGTTTTGTGCC
1 TAGCAGGCTTTGTGCCGGTGTGTTTATCGGGCTTTGTGCC
* *
2140354 TAGCAGGCCTTGTTCCGGTGTTGTTTATC
1 TAGCAGGCTTTGTGCCGGTG-TGTTTATC
2140383 AGGCCTTGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
40 53 0.87
41 8 0.13
ACGTcount: A:0.10, C:0.18, G:0.32, T:0.39
Consensus pattern (40 bp):
TAGCAGGCTTTGTGCCGGTGTGTTTATCGGGCTTTGTGCC
Found at i:2143365 original size:13 final size:13
Alignment explanation
Indices: 2143347--2143378 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2143337 TTTCCAGCAA
2143347 TTATGAATTTATT
1 TTATGAATTTATT
2143360 TTATGAATTTATT
1 TTATGAATTTATT
*
2143373 TGATGA
1 TTATGA
2143379 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2143586 original size:50 final size:50
Alignment explanation
Indices: 2143473--2143714 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2143463 ATTTGGGTAA
* * *
2143473 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2143529 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2143579 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2143629 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2143679 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2143715 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2143662 original size:100 final size:103
Alignment explanation
Indices: 2143473--2143722 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2143463 ATTTGGGTAA
2143473 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2143538 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2143579 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2143641 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2143679 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2143723 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2150487 original size:13 final size:13
Alignment explanation
Indices: 2150469--2150500 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2150459 TTTCCAGCAA
2150469 TTATGAATTTATT
1 TTATGAATTTATT
2150482 TTATGAATTTATT
1 TTATGAATTTATT
*
2150495 TGATGA
1 TTATGA
2150501 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2150708 original size:50 final size:50
Alignment explanation
Indices: 2150595--2150836 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2150585 ATTTGGGTAA
* * *
2150595 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2150651 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2150701 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2150751 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2150801 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2150837 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2150784 original size:100 final size:103
Alignment explanation
Indices: 2150595--2150844 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2150585 ATTTGGGTAA
2150595 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2150660 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2150701 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2150763 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2150801 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2150845 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2156049 original size:32 final size:32
Alignment explanation
Indices: 2156002--2156066 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2155992 TTAAAGGGAG
** * *
2156002 ATAGTTTGTTGTGGATATTATATTAAGAGCTC
1 ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
2156034 ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
1 ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
2156066 A
1 A
2156067 ATTCAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (32 bp):
ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
Found at i:2156784 original size:91 final size:91
Alignment explanation
Indices: 2156670--2156855 Score: 372
Period size: 91 Copynumber: 2.0 Consensus size: 91
2156660 GGGTAATGTC
2156670 ATAGTGACTTAAATCATTTAGCAAGTAAATGATTAATTTACATCATGGTATATATAATGAAATTT
1 ATAGTGACTTAAATCATTTAGCAAGTAAATGATTAATTTACATCATGGTATATATAATGAAATTT
2156735 TAAGAAGAAATAATCGAAGTTGGTGA
66 TAAGAAGAAATAATCGAAGTTGGTGA
2156761 ATAGTGACTTAAATCATTTAGCAAGTAAATGATTAATTTACATCATGGTATATATAATGAAATTT
1 ATAGTGACTTAAATCATTTAGCAAGTAAATGATTAATTTACATCATGGTATATATAATGAAATTT
2156826 TAAGAAGAAATAATCGAAGTTGGTGA
66 TAAGAAGAAATAATCGAAGTTGGTGA
2156852 ATAG
1 ATAG
2156856 ATAAAACCTA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (91 bp):
ATAGTGACTTAAATCATTTAGCAAGTAAATGATTAATTTACATCATGGTATATATAATGAAATTT
TAAGAAGAAATAATCGAAGTTGGTGA
Found at i:2161062 original size:66 final size:66
Alignment explanation
Indices: 2160985--2161112 Score: 256
Period size: 66 Copynumber: 1.9 Consensus size: 66
2160975 GATAGTCTCG
2160985 CATGAAACAAATATGTTCAAATTACATTTCAAAAACTACAAGAAAATGGATCAAAAGAAATAAAT
1 CATGAAACAAATATGTTCAAATTACATTTCAAAAACTACAAGAAAATGGATCAAAAGAAATAAAT
2161050 A
66 A
2161051 CATGAAACAAATATGTTCAAATTACATTTCAAAAACTACAAGAAAATGGATCAAAAGAAATA
1 CATGAAACAAATATGTTCAAATTACATTTCAAAAACTACAAGAAAATGGATCAAAAGAAATA
2161113 CAACGGAAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.23
Consensus pattern (66 bp):
CATGAAACAAATATGTTCAAATTACATTTCAAAAACTACAAGAAAATGGATCAAAAGAAATAAAT
A
Found at i:2165690 original size:18 final size:18
Alignment explanation
Indices: 2165648--2165692 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
2165638 TTGAATTATT
2165648 ATTTAATTAAAAATATAAA
1 ATTTAA-TAAAAATATAAA
*
2165667 AATTAATAAAAAT-TAAA
1 ATTTAATAAAAATATAAA
2165684 ACTTTAATA
1 A-TTTAATA
2165693 TATTGTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 13 0.57
19 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTAATAAAAATATAAA
Found at i:2166509 original size:17 final size:18
Alignment explanation
Indices: 2166482--2166527 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
2166472 ATTTTAATAA
*
2166482 TTTTAATAATTTATATTT-
1 TTTTAA-AATTTAGATTTC
2166500 TTTTAAAA-TTAGATTTC
1 TTTTAAAATTTAGATTTC
*
2166517 TTTTTAAATTT
1 TTTTAAAATTT
2166528 TAATAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.29
17 9 0.38
18 8 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTAAAATTTAGATTTC
Found at i:2173229 original size:124 final size:124
Alignment explanation
Indices: 2173039--2173279 Score: 428
Period size: 124 Copynumber: 1.9 Consensus size: 124
2173029 CGAGTTGATG
*
2173039 TTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAATTCG
1 TTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
2173104 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
* * * *
2173163 TTTCTGAGTAAATAGTATAAATTCGCTTTTAGCATGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
2173228 CGGCCTCGTGGATGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
2173280 GTAGCGACCT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 111 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (124 bp):
TTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
Found at i:2173713 original size:17 final size:18
Alignment explanation
Indices: 2173687--2173720 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2173677 TTTTTTACAC
2173687 GAGAATTTTTGAAAACAA
1 GAGAATTTTTGAAAACAA
2173705 GAGAATTTTT-AAAACA
1 GAGAATTTTTGAAAACA
2173721 CGGAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (18 bp):
GAGAATTTTTGAAAACAA
Found at i:2173795 original size:18 final size:18
Alignment explanation
Indices: 2173772--2173839 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
2173762 AATCACCGGA
*
2173772 ATTTTTGGAAACACGAAG
1 ATTTTTGAAAACACGAAG
*
2173790 ATTTTTGAAAACATGAAGAG
1 ATTTTTGAAAACACG-A-AG
* *
2173810 ATTTTTTTAAAAACACGAAA
1 A--TTTTTGAAAACACGAAG
2173830 ATTTTT-AAAA
1 ATTTTTGAAAA
2173840 TACAAGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.10
18 18 0.44
19 1 0.02
20 5 0.12
21 1 0.02
22 12 0.29
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAG
Found at i:2173851 original size:18 final size:18
Alignment explanation
Indices: 2173813--2173848 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2173803 TGAAGAGATT
*
2173813 TTTTTAAAAACACGAAAA
1 TTTTTAAAAACAAGAAAA
2173831 TTTTTAAAATACAAGAAA
1 TTTTTAAAA-ACAAGAAA
2173849 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.31
Consensus pattern (18 bp):
TTTTTAAAAACAAGAAAA
Found at i:2173957 original size:18 final size:17
Alignment explanation
Indices: 2173916--2173958 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2173906 GCGAAAAGTA
*
2173916 AAAAATTTTGAAATACG
1 AAAATTTTTGAAATACG
*
2173933 AGTAATTTTTGAAAATACG
1 A-AAATTTTTG-AAATACG
2173952 AAAATTT
1 AAAATTT
2173959 GAAACACGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 12 0.57
19 8 0.38
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (17 bp):
AAAATTTTTGAAATACG
Found at i:2174754 original size:13 final size:13
Alignment explanation
Indices: 2174728--2174773 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
2174718 TTTTTTTTTA
2174728 TTTTTCTTTCCCCT
1 TTTTTCTTT-CCCT
2174742 TTTTTCTTTCCCT
1 TTTTTCTTTCCCT
2174755 TTTTT-TTT-CCT
1 TTTTTCTTTCCCT
*
2174766 TCTTTCTT
1 TTTTTCTT
2174774 ATCTGTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 7 0.23
12 5 0.17
13 9 0.30
14 9 0.30
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCTTTCCCT
Found at i:2174910 original size:19 final size:20
Alignment explanation
Indices: 2174888--2174951 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
2174878 TTCTCTTCTC
* *
2174888 TTTTTCTTCTTTGCTTGTTT
1 TTTTTCTTCTTTGCTTGCTG
2174908 TTTTTCTTC-TTGCTTGCTG
1 TTTTTCTTCTTTGCTTGCTG
2174927 TTTTT-TTCTTTGACTTTGCT-
1 TTTTTCTTCTTTG-C-TTGCTG
2174947 TTTTT
1 TTTTT
2174952 ATTTATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 3 0.08
19 16 0.41
20 15 0.38
21 5 0.13
ACGTcount: A:0.02, C:0.16, G:0.11, T:0.72
Consensus pattern (20 bp):
TTTTTCTTCTTTGCTTGCTG
Found at i:2174913 original size:20 final size:21
Alignment explanation
Indices: 2174888--2174936 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
2174878 TTCTCTTCTC
2174888 TTTTTCTTCTTTGCTTG-T-TT
1 TTTTTCTTC-TTGCTTGCTGTT
2174908 TTTTTCTTCTTGCTTGCTGTT
1 TTTTTCTTCTTGCTTGCTGTT
2174929 TTTTTCTT
1 TTTTTCTT
2174937 TGACTTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 10 0.37
ACGTcount: A:0.00, C:0.16, G:0.10, T:0.73
Consensus pattern (21 bp):
TTTTTCTTCTTGCTTGCTGTT
Found at i:2174945 original size:21 final size:22
Alignment explanation
Indices: 2174888--2174951 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 22
2174878 TTCTCTTCTC
2174888 TTTTTCTTCTTTGC-TTG-T-TT
1 TTTTTCTTC-TTGCTTTGCTGTT
2174908 TTTTTCTTCTTGC-TTGCTGTT
1 TTTTTCTTCTTGCTTTGCTGTT
2174929 TTTTTC-T-TTGACTTTGCT-TT
1 TTTTTCTTCTTG-CTTTGCTGTT
2174949 TTT
1 TTT
2174952 ATTTATTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.25
20 17 0.43
21 13 0.32
ACGTcount: A:0.02, C:0.16, G:0.11, T:0.72
Consensus pattern (22 bp):
TTTTTCTTCTTGCTTTGCTGTT
Found at i:2174950 original size:20 final size:18
Alignment explanation
Indices: 2174887--2174951 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 18
2174877 CTTCTCTTCT
*
2174887 CTTTTTCTTCTTTGCTTG
1 CTTTTTTTTCTTTGCTTG
2174905 -TTTTTTTTCTTCTTGCTTG
1 CTTTTTTTTC-T-TTGCTTG
2174924 CTGTTTTTTTCTTTGACTTTG
1 CT-TTTTTTTCTTTG-C-TTG
2174945 CTTTTTT
1 CTTTTTT
2174952 ATTTATTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 8 0.20
18 1 0.03
19 10 0.25
20 8 0.20
21 13 0.32
ACGTcount: A:0.02, C:0.17, G:0.11, T:0.71
Consensus pattern (18 bp):
CTTTTTTTTCTTTGCTTG
Found at i:2175067 original size:24 final size:24
Alignment explanation
Indices: 2175040--2175085 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2175030 GCGTGGGGCT
2175040 TTTTGCTGCTGTTTTTTTGCTTGA
1 TTTTGCTGCTGTTTTTTTGCTTGA
* * *
2175064 TTTTGTTGTTTTTTTTTTGCTT
1 TTTTGCTGCTGTTTTTTTGCTT
2175086 TCCTTGGCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.02, C:0.09, G:0.17, T:0.72
Consensus pattern (24 bp):
TTTTGCTGCTGTTTTTTTGCTTGA
Found at i:2175405 original size:29 final size:29
Alignment explanation
Indices: 2175345--2175500 Score: 159
Period size: 29 Copynumber: 5.3 Consensus size: 29
2175335 TGGGGCTAAG
* ***
2175345 ATGTAATTTATAGAAAGTTTAGGGGCCCAA
1 ATGTAATTTAGA-AAAGTTTAGGGGTTGAA
* * * **
2175375 ATGAAATTTAGAAAAGTTTAAGAGTAAAA
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
* *
2175404 ATGTAATTTTGATAAGTTTAGGGGTTGAA
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
*
2175433 ATGTAATTTTGAAAAGTTTAGGGGTTGAA
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
* ***
2175462 ATGTAATTTAGAAAAGTTCAGGGGCCAAA
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
2175491 ATGTAATTTA
1 ATGTAATTTA
2175501 TATTTTTGTA
Statistics
Matches: 106, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 96 0.91
30 10 0.09
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (29 bp):
ATGTAATTTAGAAAAGTTTAGGGGTTGAA
Found at i:2175968 original size:76 final size:75
Alignment explanation
Indices: 2175888--2176076 Score: 249
Period size: 75 Copynumber: 2.5 Consensus size: 75
2175878 ATATGACCTA
*
2175888 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGTGAAAACCAAAAATTGAAAAATACCCC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TGAAAAACAAAAATT-AAAAATACCCC
*
2175953 -GACGT-GACTCG
64 AG-CGTCGACCCG
* * * * *
2175964 AGGCTCAACTCACATCTCGCAATATGAGTTTA-TTTTTGAAAAACAGAAATTTAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAAATACCCCAG
*
2176028 GGTGCGACCCG
66 CGT-CGACCCG
2176039 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
2176077 AATGTTGAGT
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
73 11 0.11
74 14 0.14
75 39 0.39
76 35 0.35
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAAATACCCCAG
CGTCGACCCG
Found at i:2176057 original size:75 final size:74
Alignment explanation
Indices: 2175816--2176075 Score: 247
Period size: 76 Copynumber: 3.4 Consensus size: 74
2175806 GGTCCAAAAT
* * ** * * * * *
2175816 TCAACTCACTTCTC-AAATTATGAGTTGAGCTTTGAAAAATAGAAATTGAAGAATACCTCGGCAT
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACC-CAG-AC
* **
2175880 ATGACCTAAGGC
63 GTGACCCGAGGC
* *
2175892 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGTGAAAACCAAAAATTGAAAAATACCCCGACG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTT-TGAAAAACAAAAATTGAAAAATACCCAGACG
*
2175957 TGACTCGAGGC
64 TGACCCGAGGC
* * * * *
2175968 TCAACTCACATCTCGCAATATGAGTTTATTTTTGAAAAACAGAAATT-TAAAATACCTCAG-GGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACC-CAGACGT
2176031 GCGACCCGAGGC
65 --GACCCGAGGC
2176043 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
2176076 TAATGTTGAG
Statistics
Matches: 154, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
73 10 0.06
74 15 0.10
75 44 0.29
76 58 0.38
77 6 0.04
78 21 0.14
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCCAGACGTG
ACCCGAGGC
Done.