Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 187 of 325
Found at i:59118482 original size:10 final size:10
Alignment explanation
Indices: 59118467--59118516 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
59118457 TAATTTTAGG
59118467 ATTTAT-TTT
1 ATTTATCTTT
59118476 CATTTATCTTT
1 -ATTTATCTTT
*
59118487 AATTATCTTT
1 ATTTATCTTT
59118497 ATTTAT-TTGT
1 ATTTATCTT-T
59118507 ATTTATCTTT
1 ATTTATCTTT
59118517 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:59124110 original size:5 final size:5
Alignment explanation
Indices: 59124100--59124126 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
59124090 GTCTAACTAC
59124100 CCTTA CCTTA CCTTA CCTTA CCTTA CC
1 CCTTA CCTTA CCTTA CCTTA CCTTA CC
59124127 CGTAGTCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (5 bp):
CCTTA
Found at i:59124848 original size:21 final size:20
Alignment explanation
Indices: 59124824--59124865 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
59124814 TGGTAATGAA
*
59124824 TGATAAATTATTTATTTATTT
1 TGATAAATTAATTATTT-TTT
*
59124845 TGATAATTTAATTATTTTTT
1 TGATAAATTAATTATTTTTT
59124865 T
1 T
59124866 CGTTTTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TGATAAATTAATTATTTTTT
Found at i:59126083 original size:31 final size:31
Alignment explanation
Indices: 59126048--59126110 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
59126038 GTATTTACAA
59126048 CATATTTCACATTCTAGTTTCAATTCACTAT
1 CATATTTCACATTCTAGTTTCAATTCACTAT
* * * *
59126079 CATATTTTATATTCTATTTTCAATTTACTAT
1 CATATTTCACATTCTAGTTTCAATTCACTAT
59126110 C
1 C
59126111 TCATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.51
Consensus pattern (31 bp):
CATATTTCACATTCTAGTTTCAATTCACTAT
Found at i:59126226 original size:22 final size:22
Alignment explanation
Indices: 59126192--59126260 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
59126182 TATGCACTAT
*
59126192 TAAACAAAGAGCACTAAAGTGC
1 TAAACAAAGAGCACTAATGTGC
* * *
59126214 TATATAGAA-AGCACGAATGTGC
1 TAAACA-AAGAGCACTAATGTGC
59126236 TAAACAAAGAGCACTAATGTGC
1 TAAACAAAGAGCACTAATGTGC
59126258 TAA
1 TAA
59126261 TAATCGGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (22 bp):
TAAACAAAGAGCACTAATGTGC
Found at i:59126295 original size:25 final size:25
Alignment explanation
Indices: 59126243--59126295 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
59126233 TGCTAAACAA
* * *
59126243 AGAGCACTAATGTGCTAATAATCGG
1 AGAGCACTAACGTGCTAATAACCAG
*
59126268 AGAGCACTAACGTGCTAATTACCAG
1 AGAGCACTAACGTGCTAATAACCAG
59126293 AGA
1 AGA
59126296 ACACGCTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
AGAGCACTAACGTGCTAATAACCAG
Found at i:59127261 original size:5 final size:5
Alignment explanation
Indices: 59127251--59127286 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
59127241 TTGTTTTATT
59127251 ATATA ATATA ATATA ATATA ATATA ATAT- ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
59127287 GTATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:59130795 original size:60 final size:58
Alignment explanation
Indices: 59130680--59130831 Score: 162
Period size: 61 Copynumber: 2.6 Consensus size: 58
59130670 TTGAACCTAA
* * * *
59130680 AAAAAAAGCTCAAGTACCAAATTAGGAAAAAAATGCCAAGTTTAGGTGCCAAATTGGGCTC
1 AAAAAAAGTTTAAGTACCAAATTAGGAAAAAAAT-CCAAGTTCAGGTACCAAATTGGG--C
* ***
59130741 AAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTAT-CAAGTTCAGGTATTGAATTGGGC
1 AAAAAAAGTTTAAGTACCAAATTAGGAAAAA-AATCCAAGTTCAGGTACCAAATTGGGC
* *
59130799 AAAAAAAGTTTTAAATACCAAATTAAGAAAAAA
1 AAAAAAAG-TTTAAGTACCAAATTAGGAAAAAA
59130832 TGTCAAATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
58 9 0.12
59 21 0.27
60 17 0.22
61 29 0.37
62 2 0.03
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.22
Consensus pattern (58 bp):
AAAAAAAGTTTAAGTACCAAATTAGGAAAAAAATCCAAGTTCAGGTACCAAATTGGGC
Found at i:59138694 original size:6 final size:6
Alignment explanation
Indices: 59138683--59138716 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
59138673 TTGTGTGTTC
*
59138683 TTTATT TTTATT TTTATT TTTTTAT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTAT-T TTTATT TTT
59138717 TTCACATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:59138706 original size:14 final size:13
Alignment explanation
Indices: 59138683--59138718 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
59138673 TTGTGTGTTC
*
59138683 TTTATTTTTAT-T
1 TTTATTTTTTTAT
59138695 TTTATTTTTTTAT
1 TTTATTTTTTTAT
59138708 TTTATTTTTTT
1 TTTATTTTTTT
59138719 CACATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:59138997 original size:22 final size:21
Alignment explanation
Indices: 59138972--59139042 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
59138962 ATAAATTCTA
59138972 AAAAATATATTTTAGAATATAT
1 AAAAATATATTTTA-AATATAT
59138994 -AAAATATACTTTTAAAT-TCA-
1 AAAAATATA-TTTTAAATAT-AT
*
59139014 AGAAAATATATTTT-AATAAAT
1 A-AAAATATATTTTAAATATAT
59139035 AAAAATAT
1 AAAAATAT
59139043 TACGTGTAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
20 12 0.29
21 17 0.40
22 13 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAAATATATTTTAAATATAT
Found at i:59149330 original size:53 final size:52
Alignment explanation
Indices: 59149251--59149353 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
59149241 GACGGAAAAG
* *
59149251 ATGTGATATGTACTTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTACA
1 ATGTGATATGTACTTCCGTATAAGACCATAGCTAGGATATGACATCGGTACA
* * *
59149303 ATGTGATAATGTGA-TTCCGTGTAAGACCATATCTGGGATATGACATCGGTA
1 ATGTGAT-ATGT-ACTTCCGTATAAGACCATAGCTAGGATATGACATCGGTA
59149354 TGATATGTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 7 0.16
53 36 0.82
54 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTACTTCCGTATAAGACCATAGCTAGGATATGACATCGGTACA
Found at i:59149391 original size:46 final size:50
Alignment explanation
Indices: 59149264--59149398 Score: 129
Period size: 53 Copynumber: 2.7 Consensus size: 50
59149254 TGATATGTAC
*
59149264 TTCCGTATAAGACCATAGCTA-GGCTATGGCATCGGTACAATGTGATAATGTGA
1 TTCCGTATAAGACCATAG-TAGGGCTATGACATCGGT--AA-GTGATAATGTGA
* * *
59149317 TTCCGTGTAAGACCATA-TCTGGGATATGACATCGGT-A-TGAT-ATGTGA
1 TTCCGTATAAGACCATAGT-AGGGCTATGACATCGGTAAGTGATAATGTGA
* *
59149364 -TCCGTATAAGATCATAGTAGGGCTATGACTTCGGT
1 TTCCGTATAAGACCATAGTAGGGCTATGACATCGGT
59149399 GTGTGATGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
46 28 0.40
47 7 0.10
48 4 0.06
50 1 0.01
51 1 0.01
53 29 0.41
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
TTCCGTATAAGACCATAGTAGGGCTATGACATCGGTAAGTGATAATGTGA
Found at i:59160510 original size:40 final size:40
Alignment explanation
Indices: 59160433--59160654 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
59160423 ACACCAAGTA
** * *
59160433 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
59160472 TCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
59160512 CCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
59160552 CCTTAGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
59160592 CCTTCGGGACTTAGCCCGGATT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATG
59160632 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
59160655 CATCCGAATA
Statistics
Matches: 165, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 14 0.08
40 150 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:59169167 original size:13 final size:13
Alignment explanation
Indices: 59169144--59169179 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
59169134 GTGGATGATA
*
59169144 GACTATGTATGTGT
1 GACT-TGTATGCGT
59169158 GACTTGTATGCGT
1 GACTTGTATGCGT
59169171 GACTTGTAT
1 GACTTGTAT
59169180 ACTCTGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (13 bp):
GACTTGTATGCGT
Found at i:59170027 original size:16 final size:18
Alignment explanation
Indices: 59170000--59170032 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59169990 TAGAATTGAG
59170000 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
59170017 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
59170033 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:59170039 original size:9 final size:9
Alignment explanation
Indices: 59170023--59170069 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
59170013 TTAATTGAGA
59170023 AATTAATTT
1 AATTAATTT
*
59170032 AGTTAATTT
1 AATTAATTT
59170041 AATTAA-TT
1 AATTAATTT
*
59170049 AATTAAATT
1 AATTAATTT
* *
59170058 AACTAAATT
1 AATTAATTT
59170067 AAT
1 AAT
59170070 ATTTATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 8 0.24
9 25 0.76
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (9 bp):
AATTAATTT
Found at i:59178888 original size:15 final size:15
Alignment explanation
Indices: 59178866--59178907 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
59178856 TTAATTTTTT
59178866 AAAAATTATAAAGAT-
1 AAAAATTATAAA-ATA
*
59178881 ATAAATTATTAAAATA
1 AAAAATTA-TAAAATA
59178897 AAAAATTATAA
1 AAAAATTATAA
59178908 TAAAAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
AAAAATTATAAAATA
Found at i:59178902 original size:16 final size:16
Alignment explanation
Indices: 59178865--59178905 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
59178855 TTTAATTTTT
59178865 TAAAAATTA-TAAAGA
1 TAAAAATTATTAAAGA
*
59178880 TATAAATTATTAAA-A
1 TAAAAATTATTAAAGA
59178895 TAAAAAATTAT
1 T-AAAAATTAT
59178906 AATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
TAAAAATTATTAAAGA
Found at i:59179387 original size:20 final size:19
Alignment explanation
Indices: 59179357--59179423 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
59179347 TGTAATAGAC
*
59179357 TATTTTAATAATTTTTTTA
1 TATTTTTATAATTTTTTTA
* *
59179376 TAATTTTTATAAATTTTTAA
1 T-ATTTTTATAATTTTTTTA
*
59179396 TATTTTTAT-ATTTTATATA
1 TATTTTTATAATTTT-TTTA
59179415 TTATTTTTA
1 -TATTTTTA
59179424 GAACTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 24 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTATAATTTTTTTA
Found at i:59179401 original size:28 final size:29
Alignment explanation
Indices: 59179365--59179423 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
59179355 ACTATTTTAA
*
59179365 TAATTTTTTTATAATTTT-TATA-AATTTT
1 TAATATTTTTAT-ATTTTATATATAATTTT
*
59179393 TAATATTTTTATATTTTATATATTATTTT
1 TAATATTTTTATATTTTATATATAATTTT
59179422 TA
1 TA
59179424 GAACTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 5 0.19
28 15 0.56
29 7 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TAATATTTTTATATTTTATATATAATTTT
Found at i:59179408 original size:17 final size:21
Alignment explanation
Indices: 59179357--59179432 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 21
59179347 TGTAATAGAC
* *
59179357 TATTTTAATAATTTT-TTTAT
1 TATTTTTATAATTTTATATAT
*
59179377 AATTTTTATAAATTTT-TA-A-
1 TATTTTTAT-AATTTTATATAT
59179396 TATTTTTAT-ATTTTATATAT
1 TATTTTTATAATTTTATATAT
*
59179416 TATTTTTAGAACTTTTA
1 TATTTTTATAA-TTTTA
59179433 AAAATATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.11
18 2 0.04
19 9 0.20
20 16 0.36
21 8 0.18
22 5 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (21 bp):
TATTTTTATAATTTTATATAT
Found at i:59183492 original size:27 final size:25
Alignment explanation
Indices: 59183458--59183514 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
59183448 TTTAAAATTA
* *
59183458 TATATGAATTTTGATTTAATGTGCAAT
1 TATATGAACTTTAATTTAATGT--AAT
*
59183485 TATATGAACTTTAATTTTATGTAAT
1 TATATGAACTTTAATTTAATGTAAT
59183510 TATAT
1 TATAT
59183515 ACATGAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
27 19 0.70
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (25 bp):
TATATGAACTTTAATTTAATGTAAT
Found at i:59184281 original size:9 final size:9
Alignment explanation
Indices: 59184267--59184325 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
59184257 ATAAGTATAA
59184267 AATTAACCG
1 AATTAACCG
**
59184276 AATTAATTG
1 AATTAACCG
*
59184285 AATTACCCG
1 AATTAACCG
* *
59184294 AATTACCCA
1 AATTAACCG
*
59184303 AATTAATCG
1 AATTAACCG
*
59184312 AATTAACTG
1 AATTAACCG
59184321 AATTA
1 AATTA
59184326 TTTGTATAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:59184297 original size:27 final size:27
Alignment explanation
Indices: 59184267--59184325 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
59184257 ATAAGTATAA
* * *
59184267 AATTAACCGAATTAATTGAATTACCCG
1 AATTAACCAAATTAATCGAATTAACCG
* *
59184294 AATTACCCAAATTAATCGAATTAACTG
1 AATTAACCAAATTAATCGAATTAACCG
59184321 AATTA
1 AATTA
59184326 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTAACCAAATTAATCGAATTAACCG
Found at i:59184324 original size:18 final size:18
Alignment explanation
Indices: 59184267--59184325 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
59184257 ATAAGTATAA
*
59184267 AATTAACCGAATTAATTG
1 AATTAACCGAATTAACTG
* * **
59184285 AATTACCCGAATTACCCA
1 AATTAACCGAATTAACTG
*
59184303 AATTAATCGAATTAACTG
1 AATTAACCGAATTAACTG
59184321 AATTA
1 AATTA
59184326 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:59184360 original size:5 final size:6
Alignment explanation
Indices: 59184345--59184385 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
59184335 AATTATATGT
*
59184345 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
59184386 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:59184426 original size:13 final size:13
Alignment explanation
Indices: 59184410--59184434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59184400 AATTTTTATG
59184410 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
59184423 ATTGGGTTGGGT
1 ATTGGGTTGGGT
59184435 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:59184434 original size:18 final size:18
Alignment explanation
Indices: 59184411--59184448 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
59184401 ATTTTTATGA
59184411 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
59184429 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
59184447 TT
1 TT
59184449 AGTATATATT
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:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:59184853 original size:13 final size:13
Alignment explanation
Indices: 59184837--59184861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59184827 TTTCTTCAAA
59184837 ATAAAAAATTTAT
1 ATAAAAAATTTAT
59184850 ATAAAAAATTTA
1 ATAAAAAATTTA
59184862 AAAATGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAAAAAATTTAT
Found at i:59186793 original size:28 final size:28
Alignment explanation
Indices: 59186753--59186810 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
59186743 GGTCTACATG
59186753 TATGTATATGTTCGGGTTAATTCAGTTT
1 TATGTATATGTTCGGGTTAATTCAGTTT
*
59186781 TATGTATATGTTCGGGTTTATTCAGTTT
1 TATGTATATGTTCGGGTTAATTCAGTTT
59186809 TA
1 TA
59186811 GGTTAAACGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (28 bp):
TATGTATATGTTCGGGTTAATTCAGTTT
Found at i:59188086 original size:23 final size:24
Alignment explanation
Indices: 59188033--59188087 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
59188023 AGTAGGTTAT
* *
59188033 ATATTATTTTTATAATATTATATA
1 ATATGATTTTTATAATATCATATA
*
59188057 TTATGATTTTT-TAAT-TCATATA
1 ATATGATTTTTATAATATCATATA
59188079 ATACTGATT
1 ATA-TGATT
59188088 ATATTAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 8 0.31
23 9 0.35
24 9 0.35
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
ATATGATTTTTATAATATCATATA
Found at i:59188163 original size:26 final size:25
Alignment explanation
Indices: 59188106--59188163 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
59188096 AATTTTATTA
* * *
59188106 AATTATATAATATTTTATTAAATTGT
1 AATTA-ATAATATTATATTAAAATAT
*
59188132 ATTTAATAATAATTATATTAAAATAT
1 AATTAATAAT-ATTATATTAAAATAT
59188158 AATTAA
1 AATTAA
59188164 ATTATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTAATAATATTATATTAAAATAT
Found at i:59188207 original size:26 final size:25
Alignment explanation
Indices: 59188177--59188227 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
59188167 ATTTTTTTAT
*
59188177 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
59188203 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
59188228 CAATAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:59188404 original size:16 final size:16
Alignment explanation
Indices: 59188383--59188436 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
59188373 TGAATTACTG
59188383 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
59188399 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
59188415 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCA
59188431 ATTACA
1 ATTACA
59188437 TTGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:59190543 original size:40 final size:40
Alignment explanation
Indices: 59190495--59190696 Score: 279
Period size: 40 Copynumber: 5.1 Consensus size: 40
59190485 TCGGATTTAA
* * * *
59190495 CCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
59190535 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
59190575 CCGGA-ACTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
59190615 CCGGATAT-GTAACTCGCACAAATGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59190653 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
59190693 CCGG
1 CCGG
59190697 TTATCATCCA
Statistics
Matches: 149, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
37 1 0.01
38 15 0.10
39 41 0.28
40 91 0.61
41 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59190676 original size:78 final size:80
Alignment explanation
Indices: 59190520--59190696 Score: 304
Period size: 78 Copynumber: 2.2 Consensus size: 80
59190510 CGCTCGAATA
*
59190520 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
*
59190585 TAACTCGCACAAATG
66 TAACTAGCACAAATG
59190600 CCTTCGGGACTTAGCCCGGATAT-GTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* *
59190663 TCACTAGCGCAAATG
66 TAACTAGCACAAATG
59190678 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59190697 TTATCATCCA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
78 50 0.54
79 21 0.23
80 22 0.24
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTAGCACAAATG
Found at i:59204259 original size:40 final size:39
Alignment explanation
Indices: 59204192--59204267 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
59204182 ATATGGTATG
* * *
59204192 AAAATGGTAAGGTGGAAAAGAAGGAATTTA-TTTTGGTTC
1 AAAATAGTAAGATGGAAAAGAAAGAA-TTAGTTTTGGTTC
59204231 AAAATAGTAAGATGTGAAAAGAAAGAATTAGTTTTGG
1 AAAATAGTAAGATG-GAAAAGAAAGAATTAGTTTTGG
59204268 AACCAAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 15 0.47
40 17 0.53
ACGTcount: A:0.43, C:0.01, G:0.26, T:0.29
Consensus pattern (39 bp):
AAAATAGTAAGATGGAAAAGAAAGAATTAGTTTTGGTTC
Found at i:59206555 original size:15 final size:15
Alignment explanation
Indices: 59206506--59206547 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59206496 ATTTTCTTGT
*
59206506 AAAAAGAAAACG-AG
1 AAAAAGAAAAAGAAG
*
59206520 -AAAAGCAAAAGAAG
1 AAAAAGAAAAAGAAG
59206534 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
59206548 ATAAAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAG
Found at i:59206665 original size:12 final size:12
Alignment explanation
Indices: 59206645--59206700 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
59206635 GAAAAAGAAC
59206645 AAAAAGAGAGTG
1 AAAAAGAGAGTG
* *
59206657 AAAATGAGATTG
1 AAAAAGAGAGTG
* *
59206669 AAAAAGAAATTG
1 AAAAAGAGAGTG
* *
59206681 AAAAAGAAAATG
1 AAAAAGAGAGTG
59206693 AAAAAGAG
1 AAAAAGAG
59206701 TTTGAGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAGAGTG
Found at i:59206682 original size:24 final size:24
Alignment explanation
Indices: 59206645--59206699 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
59206635 GAAAAAGAAC
* * * *
59206645 AAAAAGAGAGTGAAAATGAGATTG
1 AAAAAGAAAGTGAAAAAGAAAATG
*
59206669 AAAAAGAAATTGAAAAAGAAAATG
1 AAAAAGAAAGTGAAAAAGAAAATG
59206693 AAAAAGA
1 AAAAAGA
59206700 GTTTGAGAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (24 bp):
AAAAAGAAAGTGAAAAAGAAAATG
Found at i:59215667 original size:39 final size:39
Alignment explanation
Indices: 59215605--59215725 Score: 127
Period size: 39 Copynumber: 3.1 Consensus size: 39
59215595 AGTGATGCAG
* * *
59215605 TATATCCGGACTTAAGGTTCGCAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
59215644 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
** * * * * *
59215683 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATAACCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
59215722 TATA
1 TATA
59215726 TCGGGTTTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 5 0.07
39 63 0.93
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:59218010 original size:13 final size:13
Alignment explanation
Indices: 59217992--59218022 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
59217982 TAGCACGTCT
59217992 AAAACATAACTTG
1 AAAACATAACTTG
*
59218005 AAAACATGACTTG
1 AAAACATAACTTG
59218018 AAAAC
1 AAAAC
59218023 TTGAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:59218186 original size:42 final size:42
Alignment explanation
Indices: 59218127--59218210 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
59218117 ATAGTTAACA
59218127 CACATTTGACTATTACTGGACACTTCACTGTCTCTTTAGCAT
1 CACATTTGACTATTACTGGACACTTCACTGTCTCTTTAGCAT
59218169 CACATTTGACTATTACTGGACACTTCACTGTCTCTTTAGCAT
1 CACATTTGACTATTACTGGACACTTCACTGTCTCTTTAGCAT
59218211 ACTTACTGAT
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:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (42 bp):
CACATTTGACTATTACTGGACACTTCACTGTCTCTTTAGCAT
Found at i:59224509 original size:24 final size:24
Alignment explanation
Indices: 59224482--59224527 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
59224472 CCCAACACGG
*
59224482 GCTACAATAAAATGCCATGGCCAT
1 GCTACAATAAAATGCCACGGCCAT
59224506 GCTACAATAAAATGCCACGGCC
1 GCTACAATAAAATGCCACGGCC
59224528 GTGCGACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (24 bp):
GCTACAATAAAATGCCACGGCCAT
Found at i:59225541 original size:27 final size:27
Alignment explanation
Indices: 59225500--59225698 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
59225490 TGGATAAGTT
* *
59225500 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
59225527 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
59225554 GTAG-ATTACCGAAATACCCCTGTTGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
59225580 ATAGAATTACCGAAATACCCTTTTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
59225607 GTAGAAATACTGAAATATCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
59225634 ATAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
59225661 GTAGAATTACC-AAGATACCGTTGTGGG
1 GTAGAATTACCGAA-ATACCCCTGTAGG
*
59225688 GTAAAATTACC
1 GTAGAATTACC
59225699 ATTTTTCCCT
Statistics
Matches: 146, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 23 0.16
27 123 0.84
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:59225690 original size:81 final size:80
Alignment explanation
Indices: 59225501--59225694 Score: 239
Period size: 80 Copynumber: 2.4 Consensus size: 80
59225491 GGATAAGTTG
* * * * * *
59225501 TAGAATTATCGAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGATTACCGA
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGGATAGATTACCGA
*
59225566 AATACCCCTGTTGGA
66 AATACCCCTGTAGGA
* * *
59225581 TAGAATTACCGAAATACCCTTTTAGGGTAGAAATACTGAAATATCCCTGTAGGATAGAATTACCG
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGGATAG-ATTACCG
*
59225646 AAATACCCCTGTAGGG
65 AAATACCCCTGTAGGA
* *
59225662 TAGAATTACC-AAGATACCGTTGTGGGGTA-AAAT
1 TAGAATTACCGAA-ATACCCTTGTAGGGTAGAAAT
59225695 TACCATTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
80 55 0.56
81 44 0.44
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (80 bp):
TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGGATAGATTACCGA
AATACCCCTGTAGGA
Found at i:59239971 original size:68 final size:67
Alignment explanation
Indices: 59239899--59240048 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
59239889 CATCATGTGT
* * * *
59239899 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
59239961 ATGTAG
62 ATGTAG
** * *
59239967 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
59240032 AG
66 AG
59240034 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
59240049 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:59240004 original size:64 final size:64
Alignment explanation
Indices: 59239923--59240106 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
59239913 AGACATTATG
* *
59239923 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
59239987 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59240052 AA
63 AA
* * * *
59240054 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
59240107 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59250051 original size:26 final size:26
Alignment explanation
Indices: 59250021--59250071 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
59250011 TTCAACTTAA
59250021 GTATTCTATAAGAATTAAACTTTTTG
1 GTATTCTATAAGAATTAAACTTTTTG
59250047 GTATTCTATAAGAATTAAACTTTTT
1 GTATTCTATAAGAATTAAACTTTTT
59250072 TTATTTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (26 bp):
GTATTCTATAAGAATTAAACTTTTTG
Found at i:59250977 original size:25 final size:26
Alignment explanation
Indices: 59250949--59250999 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59250939 TATTATTTTT
*
59250949 AATTT-ATTTTTTAATAA-TTTATATA
1 AATTTCATTTATTAA-AATTTTATATA
59250974 AATTTCATTTATTAAAATTTTATATA
1 AATTTCATTTATTAAAATTTTATATA
59251000 TAGGAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTCATTTATTAAAATTTTATATA
Found at i:59253137 original size:49 final size:49
Alignment explanation
Indices: 59253065--59253246 Score: 256
Period size: 49 Copynumber: 3.7 Consensus size: 49
59253055 CTAGTACGCA
*
59253065 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * * *
59253114 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
* *
59253165 TAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
*
59253214 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
59253247 TCACAATAGC
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 70 0.61
50 6 0.05
51 38 0.33
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:59253219 original size:100 final size:100
Alignment explanation
Indices: 59253058--59253244 Score: 338
Period size: 100 Copynumber: 1.9 Consensus size: 100
59253048 AAGCTATCTA
59253058 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
59253123 ACACTTAGTACTACACACGTGATCGAAGTTATCAG
66 ACACTTAGTACTACACACGTGATCGAAGTTATCAG
* *
59253158 GTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
* *
59253223 GCACTTAGTACTACACATGTGA
66 ACACTTAGTACTACACACGTGA
59253245 CCTCACAATA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
ACACTTAGTACTACACACGTGATCGAAGTTATCAG
Found at i:59258510 original size:19 final size:19
Alignment explanation
Indices: 59258486--59258522 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59258476 GTGTCATCAT
*
59258486 AAATTTATAGGCATAACTA
1 AAATTTATAGACATAACTA
*
59258505 AAATTTGTAGACATAACT
1 AAATTTATAGACATAACT
59258523 TACACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATTTATAGACATAACTA
Found at i:59265375 original size:15 final size:15
Alignment explanation
Indices: 59265355--59265386 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59265345 AGTCTTCATC
59265355 TACCCTACATACATG
1 TACCCTACATACATG
59265370 TACCCTACATACATG
1 TACCCTACATACATG
59265385 TA
1 TA
59265387 GCCATTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (15 bp):
TACCCTACATACATG
Found at i:59265583 original size:29 final size:29
Alignment explanation
Indices: 59265541--59265622 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
59265531 GTTCCAAAAA
59265541 GTATCACATAGTTCCAAAAAGTTTTAAAT
1 GTATCACATAGTTCCAAAAAGTTTTAAAT
59265570 GTATCACATAGTTCCAAAAAGTTTTAAAT
1 GTATCACATAGTTCCAAAAAGTTTTAAAT
59265599 GTATCACATAGTTCCAAAAAGTTT
1 GTATCACATAGTTCCAAAAAGTTT
59265623 GCCAAGTGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (29 bp):
GTATCACATAGTTCCAAAAAGTTTTAAAT
Found at i:59266058 original size:19 final size:19
Alignment explanation
Indices: 59266021--59266058 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
59266011 ACCTGTTAGA
*
59266021 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
59266040 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
59266059 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:59271436 original size:37 final size:37
Alignment explanation
Indices: 59271378--59271485 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
59271368 TAGCTCGAAT
* *
59271378 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
59271415 AATCTCCACACGTAGTCATCGGGTCTTACTCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
59271452 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59271486 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:59271680 original size:48 final size:48
Alignment explanation
Indices: 59271618--59271911 Score: 434
Period size: 48 Copynumber: 6.2 Consensus size: 48
59271608 CGGCCACAAT
* * *
59271618 ATATACACAACTCATACATATTTCACATTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
59271666 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* ** *
59271714 ATATATATATCTCATACATATTTCATGTTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
59271762 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
59271810 ATAT--ATA--TCATACATATTTCATATTAGCCATTCGACTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
**
59271854 ATATACATATCTCATACATATTTCACCCTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
59271902 ACATATATAT
1 ATATACATAT
59271912 ATTTATCTTG
Statistics
Matches: 221, Mismatches: 21, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
44 39 0.18
46 6 0.03
48 176 0.80
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:59271875 original size:92 final size:92
Alignment explanation
Indices: 59271629--59271909 Score: 456
Period size: 92 Copynumber: 3.0 Consensus size: 92
59271619 TATACACAAC
*
59271629 TCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TCATACATATTTCATATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACAT
*
59271694 TAGCCATTCGGATTTACCACATATATATA
66 TAGCCATTCGGCTTTACCAC--ATATATA
*
59271723 TCTCATACATATTTCATGTTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCAC
1 --TCATACATATTTCATATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCAC
59271788 ATTAGCCATTCGGCTTTACCACATATATA
64 ATTAGCCATTCGGCTTTACCACATATATA
*
59271817 TCATACATATTTCATATTAGCCATTC-GACTTTACCACATATACATATCTCATACATATTTCACC
1 TCATACATATTTCATATTAGCCATTCAG-CTTTACCACATATACATATCTCATACATATTTCACA
* *
59271881 CTAGCCATTCGGCTTTACCACACATATA
65 TTAGCCATTCGGCTTTACCACATATATA
59271909 T
1 T
59271910 ATATTTATCT
Statistics
Matches: 177, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
91 1 0.01
92 87 0.49
94 7 0.04
96 82 0.46
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (92 bp):
TCATACATATTTCATATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACAT
TAGCCATTCGGCTTTACCACATATATA
Found at i:59276554 original size:57 final size:57
Alignment explanation
Indices: 59276466--59276580 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
59276456 GAGGCTGAGA
* *
59276466 CTAGAAATTTGAAGAAAAGACCGATAAGTAGTGCATTCCCACCGTAAACTAGAAAAT
1 CTAGAAATTTGAAGAAAAGACCGATAAGTAGTACATTCCCACCGCAAACTAGAAAAT
*
59276523 CTAGAAATTTGAAGAAAAGACCGATGAGTAGTACATTCCCACCGCAAACTAGAAAAT
1 CTAGAAATTTGAAGAAAAGACCGATAAGTAGTACATTCCCACCGCAAACTAGAAAAT
59276580 C
1 C
59276581 CAGAGATATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (57 bp):
CTAGAAATTTGAAGAAAAGACCGATAAGTAGTACATTCCCACCGCAAACTAGAAAAT
Found at i:59287532 original size:42 final size:42
Alignment explanation
Indices: 59287473--59287557 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
59287463 CATTTAAACT
*
59287473 ATCATAATTTAAAACTAAACATACTTCTTTCATAATCACAAA
1 ATCATAATTTAAAACTAAACAGACTTCTTTCATAATCACAAA
*
59287515 ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
1 ATCATAATTTAAAACTAAACAGACTTCTTTCATAATCACAAA
59287557 A
1 A
59287558 CCATGCACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (42 bp):
ATCATAATTTAAAACTAAACAGACTTCTTTCATAATCACAAA
Found at i:59288139 original size:17 final size:17
Alignment explanation
Indices: 59288117--59288152 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
59288107 AGTCATTATC
59288117 TATTCAT-AACCTAAATA
1 TATTCATCAACC-AAATA
59288134 TATTCATCAACCAAATA
1 TATTCATCAACCAAATA
59288151 TA
1 TA
59288153 ACTAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (17 bp):
TATTCATCAACCAAATA
Found at i:59303993 original size:79 final size:82
Alignment explanation
Indices: 59303882--59304066 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59303872 GCTACTCGTT
* * *
59303882 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59303945 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59303962 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59304025 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59304042 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59304067 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59304066 original size:40 final size:40
Alignment explanation
Indices: 59303863--59304066 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59303853 CGGAATTTAA
** *
59303863 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59303903 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59303943 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59303982 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59304022 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59304062 CCGGA
1 CCGGA
59304067 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59306870 original size:29 final size:29
Alignment explanation
Indices: 59306828--59306939 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
59306818 ATACTATGAT
59306828 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * * *
59306857 TTGGGCTTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
59306886 CTGGGCC-ATATGGGCCATACGAATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* *
59306914 TTGGGCCCAATGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
59306940 ATGTAAGGGT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
28 22 0.34
29 43 0.66
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:59307724 original size:14 final size:15
Alignment explanation
Indices: 59307705--59307734 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
59307695 TTTTGACTTT
59307705 TTTTATCTTA-TAAG
1 TTTTATCTTATTAAG
59307719 TTTTATCTTATTAAG
1 TTTTATCTTATTAAG
59307734 T
1 T
59307735 ATGTTTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTTATCTTATTAAG
Found at i:59309815 original size:16 final size:16
Alignment explanation
Indices: 59309794--59309826 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59309784 AGGGGACACC
59309794 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
*
59309810 CCAAAAATCTTGAAAT
1 CCAAAAATCTCGAAAT
59309826 C
1 C
59309827 TTGAATTTTT
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:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:59311361 original size:29 final size:29
Alignment explanation
Indices: 59311319--59311430 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
59311309 ATAATATGAT
*
59311319 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* * *
59311348 TTGGGCCTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
59311377 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
*
59311405 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
59311431 ATGTAGGGGT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.33
29 46 0.67
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:59315648 original size:39 final size:40
Alignment explanation
Indices: 59315548--59315732 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
59315538 TTGAATGATG
* * * *
59315548 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59315588 TCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
59315628 TTTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59315667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59315708 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59315733 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 80 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59315714 original size:79 final size:81
Alignment explanation
Indices: 59315549--59315732 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
59315539 TGAATGATGT
*
59315549 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
59315613 GTGAGAGATACTAATT
66 GTGAGAGATACTAATA
** * * * **
59315629 TTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* *
59315691 TGTGCGAGTTACT-ATAA
65 TGTGAGAGATACTAAT-A
*
59315708 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59315733 AACGAGGAGC
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.63
80 29 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGAGAGATACTAATA
Found at i:59315746 original size:40 final size:40
Alignment explanation
Indices: 59315631--59315746 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 40
59315621 TACTAATTTT
** *
59315631 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA-CC
* ** *
59315670 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAACC
*
59315710 GGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
1 GGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATA
59315747 TCCGTTTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 8 0.12
40 58 0.85
41 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAACC
Found at i:59317613 original size:27 final size:26
Alignment explanation
Indices: 59317582--59317759 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
59317572 ATATTGAGTC
* *
59317582 CGCACACTCAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
* *
59317609 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACT
59317636 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
** * *
59317664 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACT
**
59317691 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCAACT
* *
59317718 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
59317745 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59317760 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:59317721 original size:82 final size:81
Alignment explanation
Indices: 59317603--59317758 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59317593 TGCTATATCA
* *
59317603 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59317668 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59317685 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59317749 CACTTAGTGC
65 CACTTAGTGC
59317759 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59328262 original size:79 final size:81
Alignment explanation
Indices: 59328126--59328308 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
59328116 TCGAATGATG
* *
59328126 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59328190 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59328205 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59328267 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59328285 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
59328309 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59328324 original size:40 final size:40
Alignment explanation
Indices: 59328127--59328310 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
59328117 CGAATGATGT
* * * *
59328127 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
59328167 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
59328207 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59328245 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59328286 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59328311 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59328332 original size:79 final size:79
Alignment explanation
Indices: 59328179--59328343 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59328169 GGACTAAGAT
* **
59328179 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
59328244 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
59328258 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
59328321 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59328337 CCGAAGG
1 CCGAAGG
59328344 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59331038 original size:16 final size:16
Alignment explanation
Indices: 59331017--59331051 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
59331007 ACATGCAAGC
59331017 TTATTAAGCTTTATGT
1 TTATTAAGCTTTATGT
59331033 TTATTAAGCTTTATGT
1 TTATTAAGCTTTATGT
59331049 TTA
1 TTA
59331052 CTCCCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (16 bp):
TTATTAAGCTTTATGT
Found at i:59334714 original size:17 final size:17
Alignment explanation
Indices: 59334692--59334726 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59334682 TCCATCAAAG
59334692 TGTAACTACTTAGCATT
1 TGTAACTACTTAGCATT
59334709 TGTAACTACTTAGCATT
1 TGTAACTACTTAGCATT
59334726 T
1 T
59334727 CATACTTCTT
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:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
TGTAACTACTTAGCATT
Found at i:59335979 original size:13 final size:14
Alignment explanation
Indices: 59335963--59335995 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
59335953 GTATAAACAC
59335963 TTCATATATC-AGT
1 TTCATATATCTAGT
*
59335976 TTCATATATCTATT
1 TTCATATATCTAGT
59335990 TTCATA
1 TTCATA
59335996 AAAACATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (14 bp):
TTCATATATCTAGT
Found at i:59338209 original size:13 final size:13
Alignment explanation
Indices: 59338191--59338216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59338181 TACGTGTAAT
59338191 ACATAACTTGAAA
1 ACATAACTTGAAA
59338204 ACATAACTTGAAA
1 ACATAACTTGAAA
59338217 GTAGAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
ACATAACTTGAAA
Found at i:59338815 original size:16 final size:16
Alignment explanation
Indices: 59338779--59338815 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
59338769 TGTTAAGGCA
59338779 ACTGATGAGCTTACAG
1 ACTGATGAGCTTACAG
* *
59338795 GCTGATGAGCTTGCAG
1 ACTGATGAGCTTACAG
59338811 ACTGA
1 ACTGA
59338816 AGAACTCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (16 bp):
ACTGATGAGCTTACAG
Found at i:59349837 original size:99 final size:99
Alignment explanation
Indices: 59349610--59349812 Score: 388
Period size: 99 Copynumber: 2.1 Consensus size: 99
59349600 ACTAGTTGGG
*
59349610 GAAATGATATTTGAAATGTGAACTATCTGAGTGTGACAGTTATGACTGGACAGATTTAGTAGTCT
1 GAAATGATATTTGAAATGTGAACTATCTGAGTGTGACAGTTATGACTGGACAGATTTAGCAGTCT
59349675 CTTTTGAGATGTTCTATGTGTTTACCTGTTCTCA
66 CTTTTGAGATGTTCTATGTGTTTACCTGTTCTCA
59349709 GAAATGATATTTGAAATGTGAACTATCTGAGTGTGACAGTTATGACTGGACAGATTTAGCAGTCT
1 GAAATGATATTTGAAATGTGAACTATCTGAGTGTGACAGTTATGACTGGACAGATTTAGCAGTCT
*
59349774 CTTTTGAGATGTTCTATGTGTTTACCTGTTCTTA
66 CTTTTGAGATGTTCTATGTGTTTACCTGTTCTCA
59349808 GAAAT
1 GAAAT
59349813 ATTTCTATGG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 102 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (99 bp):
GAAATGATATTTGAAATGTGAACTATCTGAGTGTGACAGTTATGACTGGACAGATTTAGCAGTCT
CTTTTGAGATGTTCTATGTGTTTACCTGTTCTCA
Found at i:59350209 original size:15 final size:15
Alignment explanation
Indices: 59350187--59350257 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
59350177 GTATCTTAGG
*
59350187 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
59350202 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
59350217 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
59350232 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
59350247 TTTCTTTATTC
1 TTTCTTTATTC
59350258 AGTTTTCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.09
15 39 0.83
16 4 0.09
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59350221 original size:30 final size:30
Alignment explanation
Indices: 59350178--59350255 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
59350168 CATAGTATCG
*
59350178 TATCTTAGG-TTTCTTTATCCTGGATCTT-TT
1 TATCTT-GGATTTCTTTATCCTGGAT-TTCTC
* *
59350208 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATCCTGGATTTCTC
59350238 TATCTTGGATTTCTTTAT
1 TATCTTGGATTTCTTTAT
59350256 TCAGTTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 5 0.12
30 35 0.85
31 1 0.02
ACGTcount: A:0.13, C:0.15, G:0.14, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATCCTGGATTTCTC
Found at i:59350607 original size:31 final size:31
Alignment explanation
Indices: 59350572--59350635 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
59350562 GATAAAAGAG
59350572 TAAATAGTCTGAACGAGAAGTGTATATTTAT
1 TAAATAGTCTGAACGAGAAGTGTATATTTAT
59350603 TAAATAGTCTGAACGAGAAGTGTATATTTAT
1 TAAATAGTCTGAACGAGAAGTGTATATTTAT
59350634 TA
1 TA
59350636 GAAAGAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (31 bp):
TAAATAGTCTGAACGAGAAGTGTATATTTAT
Found at i:59353411 original size:27 final size:27
Alignment explanation
Indices: 59353380--59353557 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59353370 TAAATTGTAC
59353380 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59353407 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59353433 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59353461 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59353489 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59353516 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59353543 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59353558 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59353494 original size:82 final size:81
Alignment explanation
Indices: 59353381--59353536 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59353371 AAATTGTACA
* *
59353381 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59353445 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59353462 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59353527 TGCGAGTTGA
65 TGCGAATTGA
59353537 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59353548 original size:82 final size:81
Alignment explanation
Indices: 59353377--59353557 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59353367 GATTAAATTG
* *
59353377 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59353442 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59353458 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59353522 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59353540 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59353558 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59361600 original size:27 final size:27
Alignment explanation
Indices: 59361569--59361746 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59361559 TAAATTGTAC
59361569 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59361596 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59361622 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59361650 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59361678 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59361705 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59361732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59361747 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59361683 original size:82 final size:81
Alignment explanation
Indices: 59361570--59361725 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59361560 AAATTGTACA
* *
59361570 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59361634 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59361651 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59361716 TGCGAGTTGA
65 TGCGAATTGA
59361726 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59361737 original size:82 final size:81
Alignment explanation
Indices: 59361566--59361746 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59361556 GATTAAATTG
* *
59361566 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59361631 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59361647 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59361711 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59361729 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59361747 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59364313 original size:46 final size:46
Alignment explanation
Indices: 59364260--59364432 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
59364250 TTAGGCATCC
59364260 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * * *
59364306 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
59364353 GAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
59364399 GAGCTCATTGAGTTGAGTCTGAGTTCTCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59364433 GCAGGTTACA
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 55 0.56
47 26 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:59364410 original size:93 final size:93
Alignment explanation
Indices: 59364251--59364424 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
59364241 CTGGGATATT
* * *
59364251 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTG
1 TAGGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCATTG
59364316 AGTTGAGTCTGAGTTCGTGAAATGTAAC
66 AGTTGAGTCTGAGTTCGTGAAATGTAAC
*
59364344 TAGGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCATTG
1 TAGGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCATTG
59364409 AGTTGAGTCTGAGTTC
66 AGTTGAGTCTGAGTTC
59364425 TCTTATGGGC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCATTG
AGTTGAGTCTGAGTTCGTGAAATGTAAC
Found at i:59368451 original size:21 final size:21
Alignment explanation
Indices: 59368427--59368468 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59368417 TCATCAGATC
*
59368427 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
59368448 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
59368469 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:59370191 original size:46 final size:46
Alignment explanation
Indices: 59370124--59370230 Score: 214
Period size: 46 Copynumber: 2.3 Consensus size: 46
59370114 CCATGTAGCC
59370124 ACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCA
1 ACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCA
59370170 ACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCA
1 ACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCA
59370216 ACTCAACGAGCTCGG
1 ACTCAACGAGCTCGG
59370231 ATGCCTAGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (46 bp):
ACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCA
Found at i:59375494 original size:22 final size:22
Alignment explanation
Indices: 59375456--59375500 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
59375446 GAAGTTCAAA
*
59375456 AATTCGAAACTATTAAAAAAAG
1 AATTCGAAAATATTAAAAAAAG
*
59375478 AATTACGAAAATATAAAAAAAAG
1 AATT-CGAAAATATTAAAAAAAG
59375501 TTGTACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (22 bp):
AATTCGAAAATATTAAAAAAAG
Found at i:59377705 original size:43 final size:43
Alignment explanation
Indices: 59377653--59377799 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
59377643 TATTCCATAT
* * *
59377653 ATGGTCTTACATGTTATCTACTATCAATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCTACTATCAATGCCAATGTCCCAGAC
* * * * *
59377696 AGGGTCTTACACGAAATCAATTAAT-GATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTACT-ATCAATGCCAATGTCCCAGAC
* * *
59377739 TTGGTCTTACACATAATCT-CAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTACTAT-CAATGCCAATGTCCCAGAC
*
59377782 ATGGTCTTACATGTAATC
1 ATGGTCTTACACGTAATC
59377800 ACATCTCGGT
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
41 2 0.02
43 78 0.95
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTACTATCAATGCCAATGTCCCAGAC
Found at i:59390516 original size:111 final size:113
Alignment explanation
Indices: 59390130--59390517 Score: 368
Period size: 114 Copynumber: 3.4 Consensus size: 113
59390120 TAAAGATTGA
* * * * ** * *
59390130 GCATTAGCGGTGATTCCCTCAAAACGCCGCAATAGATCGAGCATTAGCAGCACTTCCTCAAAAAA
1 GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCAG-TGTTTCT-AAGAAA
* ** * * * * * * *
59390195 TGCCGCCAAAAGATTCAGCCAAACAACATCTTTTACATTGAGCTTCCGTG
64 CGTTGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
* ** * * *
59390245 GCATTAGCGGTGCTTTCTTAAAAACACCGCAATAGATCGAGCAATAGCGGTGTTTTTAAGAAAGC
1 GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCAGTGTTTCTAAGAAA-C
* * *
59390310 GTTGCTAAAATATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCTGTG
65 GTTGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
* * * * *
59390359 GAATTAGCGGCGCTTTCC-TAATAATGCTGCAATAGATCGAGCATTAGCAGTGTTTCTAGGAAA-
1 GCATTAGCGGTGC-TTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCAGTGTTTCTAAGAAAC
**
59390422 G-TGCCAAAAGATTAAGCCGAACGACGTCGTTTATTTTGAGCTTCAGTG
65 GTTGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
* * * * *
59390470 GCATTAGCGGTGCTGCCTTAAAAATGCCACAAAAGATAGAGTATTAGC
1 GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGC
59390518 GGCATTTTTC
Statistics
Matches: 221, Mismatches: 49, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
110 3 0.01
111 77 0.35
112 1 0.00
113 5 0.02
114 89 0.40
115 46 0.21
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (113 bp):
GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCAGTGTTTCTAAGAAACG
TTGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
Found at i:59390533 original size:111 final size:109
Alignment explanation
Indices: 59390130--59390537 Score: 332
Period size: 111 Copynumber: 3.6 Consensus size: 109
59390120 TAAAGATTGA
* * * * * ** *
59390130 GCATTAGCGGTGATTCCCTCAAAACGCCGCAATAGATCGAGCATTAGCAGCACTTCCTCAAAAAA
1 GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGC-G--GTTTTTC-AGAAA
* * * * * * * *
59390195 TGCCGCCAAAAGATTCAGCCAAACAACATCTTTTACATTGAGCTTCCGTG
62 -G-TGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
* ** * *
59390245 GCATTAGCGGTGCTTTCTTAAAAACACCGCAATAGATCGAGCAATAGCGGTGTTTTTAAGAAAGC
1 GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGC-G-GTTTTTCAGAAA--
* * *
59390310 GTTGCTAAAATATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCTGTG
62 G-TGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
* * * * * *
59390359 GAATTAGCGGCGCTTTCC-TAATAATGCTGCAATAGATCGAGCATTAGCAGTGTTTCTAGGAAAG
1 GCATTAGCGGTGC-TTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCGGTTTTTC-A-GAAAG
**
59390423 TGCCAAAAGATTAAGCCGAACGACGTCGTTTATTTTGAGCTTCAGTG
63 TGCCAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
* * * * *
59390470 GCATTAGCGGTGCTGCCTTAAAAATGCCACAAAAGATAGAGTATTAGCGGCATTTTTCAGAAAGT
1 GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCGG--TTTTTCAGAAAGT
59390535 GCC
64 GCC
59390538 GCTATAGGTC
Statistics
Matches: 234, Mismatches: 52, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
110 3 0.01
111 87 0.37
112 7 0.03
113 10 0.04
114 81 0.35
115 46 0.20
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (109 bp):
GCATTAGCGGTGCTTCCTTAAAAATGCCGCAATAGATCGAGCATTAGCGGTTTTTCAGAAAGTGC
CAAAAGATTAAGCCGAACGACGTCGTTTAAATTGAGCTTCAGTG
Found at i:59391360 original size:66 final size:66
Alignment explanation
Indices: 59391229--59391394 Score: 169
Period size: 66 Copynumber: 2.5 Consensus size: 66
59391219 TTTAAAGCCC
* * *
59391229 AAACCCTAAATCTCTAATCATAAACCCAT-AAAACTATAAACACTAACCAATAACCCATTCAACA
1 AAACCCTAAATCTCAAATCATAAACCCTTAAAAACTATAAACAATAACCAATAACCC--TCAACA
59391293 CC-
64 CCT
* * * *
59391295 ACACCCTAAATCTCAAATCATAAACCCTTAAAATTACTCTAAACAATAAACC-CTAACCC-CTAC
1 AAACCCTAAATCTCAAATCATAAACCCTTAAAA--ACTATAAACAAT-AACCAATAACCCTCAAC
59391358 ACCT
63 ACCT
* * *
59391362 AAACACTAAATCTCAAATCATAAAACATTAAAA
1 AAACCCTAAATCTCAAATCATAAACCCTTAAAA
59391395 CTCCAAACAT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
66 32 0.38
67 32 0.38
69 16 0.19
70 4 0.05
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (66 bp):
AAACCCTAAATCTCAAATCATAAACCCTTAAAAACTATAAACAATAACCAATAACCCTCAACACC
T
Found at i:59391387 original size:22 final size:22
Alignment explanation
Indices: 59391362--59391409 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
59391352 CCCTACACCT
*
59391362 AAACACTAAATCT-CAAATCATA
1 AAACACTAAAACTCCAAA-CATA
*
59391384 AAACATTAAAACTCCAAACATA
1 AAACACTAAAACTCCAAACATA
59391406 AAAC
1 AAAC
59391410 CCCAACCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACACTAAAACTCCAAACATA
Found at i:59391450 original size:20 final size:19
Alignment explanation
Indices: 59391422--59391461 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
59391412 CAACCCCCTA
59391422 AACCTTAAA-CCATAACACT
1 AACCTTAAACCCATAA-ACT
59391441 AACCTCTAAACCCATAAACT
1 AACCT-TAAACCCATAAACT
59391461 A
1 A
59391462 TAGACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (19 bp):
AACCTTAAACCCATAAACT
Found at i:59391520 original size:29 final size:28
Alignment explanation
Indices: 59391488--59391548 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
59391478 AACCTAAACT
*
59391488 ATAAACCATAAATCATAAAATCTTAAAAA
1 ATAAACCATAAACCAT-AAATCTTAAAAA
* *
59391517 ATAAACCATAAACCCTAAATTTTAAAAA
1 ATAAACCATAAACCATAAATCTTAAAAA
59391545 ATAA
1 ATAA
59391549 GTTTCATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.25
Consensus pattern (28 bp):
ATAAACCATAAACCATAAATCTTAAAAA
Found at i:59393572 original size:10 final size:10
Alignment explanation
Indices: 59393557--59393582 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
59393547 GGTTAGTTAA
59393557 TCTTTTATTT
1 TCTTTTATTT
59393567 TCTTTTATTT
1 TCTTTTATTT
59393577 TCTTTT
1 TCTTTT
59393583 TTTAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TCTTTTATTT
Found at i:59393689 original size:12 final size:12
Alignment explanation
Indices: 59393656--59393696 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
59393646 GGTGTAATTT
*
59393656 AATTTTCCATCC
1 AATTTACCATCC
59393668 AATTTA--ATCC
1 AATTTACCATCC
*
59393678 ACTTTACCATCC
1 AATTTACCATCC
59393690 AATTTAC
1 AATTTAC
59393697 AATTTCTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTTACCATCC
Found at i:59394525 original size:16 final size:16
Alignment explanation
Indices: 59394501--59394532 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59394491 ATTCATGTGA
59394501 TTTTCCATGTGATTTT
1 TTTTCCATGTGATTTT
*
59394517 TTTTTCATGTGATTTT
1 TTTTCCATGTGATTTT
59394533 CCACATTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.66
Consensus pattern (16 bp):
TTTTCCATGTGATTTT
Found at i:59394779 original size:13 final size:13
Alignment explanation
Indices: 59394761--59394790 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
59394751 TTACATAATA
59394761 CATAAATATATAT
1 CATAAATATATAT
59394774 CATAAATATATAT
1 CATAAATATATAT
59394787 CATA
1 CATA
59394791 TCATAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:59399688 original size:27 final size:27
Alignment explanation
Indices: 59399633--59399690 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
59399623 GAGACCGAGG
*
59399633 TATTATGAATTTATTAATTCTGAAAAA
1 TATTATGAATTTATTAATTATGAAAAA
*
59399660 TATTAATGAATTTA-T-ATTATTAAATAA
1 TATT-ATGAATTTATTAATTATGAAA-AA
59399687 TATT
1 TATT
59399691 TTTACTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.26
27 11 0.41
28 9 0.33
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (27 bp):
TATTATGAATTTATTAATTATGAAAAA
Found at i:59400634 original size:31 final size:31
Alignment explanation
Indices: 59400574--59400634 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
59400564 TGTATTTTTT
* *
59400574 ATGCTACATTTGCTGTTATTGGTTGGATTTC
1 ATGCTACATTTGCTGTTATTGGCTAGATTTC
* * *
59400605 ATGCTATATTTTCTGTTTTTGGCTAGATTT
1 ATGCTACATTTGCTGTTATTGGCTAGATTT
59400635 AATACAGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.52
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTATTGGCTAGATTTC
Found at i:59400771 original size:43 final size:43
Alignment explanation
Indices: 59400710--59400889 Score: 198
Period size: 43 Copynumber: 4.2 Consensus size: 43
59400700 TGTAACAAAA
*
59400710 GACTTTTAGCAGCGCTTCCCCCACAAACGCCGCTAAAAGACAT
1 GACTTTTAGCAGAGCTTCCCCCACAAACGCCGCTAAAAGACAT
* * *
59400753 GACTTTTACCAGTGCTTCCCCCACAAACGCCGCTAAAAGCCAT
1 GACTTTTAGCAGAGCTTCCCCCACAAACGCCGCTAAAAGACAT
* * * **
59400796 GACTTTTAGCAGAACTTCCCCCAAAAACACCGCTAAAATTCAT
1 GACTTTTAGCAGAGCTTCCCCCACAAACGCCGCTAAAAGACAT
* * ** * ** *
59400839 GACTTTTAGCGGCGCTTTTCCAACAAACGTTGCTAAAAGTCAT
1 GACTTTTAGCAGAGCTTCCCCCACAAACGCCGCTAAAAGACAT
59400882 GATCTTTT
1 GA-CTTTT
59400890 GTGGAGTTTT
Statistics
Matches: 115, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 110 0.96
44 5 0.04
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (43 bp):
GACTTTTAGCAGAGCTTCCCCCACAAACGCCGCTAAAAGACAT
Found at i:59406730 original size:27 final size:27
Alignment explanation
Indices: 59406699--59406849 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
59406689 TAAATTGTAC
*
59406699 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** *
59406726 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
59406752 ATGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
59406780 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
59406808 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
59406835 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59406850 GACTTAATAT
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
27 83 0.75
28 27 0.25
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:59406814 original size:82 final size:81
Alignment explanation
Indices: 59406699--59406849 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
59406689 TAAATTGTAC
*
59406699 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGT
59406763 GTGCGAGTTGACTATGT
65 GTGCGAGTTGACTATGT
* ** * *
59406780 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGT
59406845 GTGCG
65 GTGCG
59406850 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 18 0.29
82 44 0.71
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
TGCGAGTTGACTATGT
Found at i:59406838 original size:55 final size:53
Alignment explanation
Indices: 59406699--59406849 Score: 203
Period size: 55 Copynumber: 2.8 Consensus size: 53
59406689 TAAATTGTAC
* *
59406699 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
** *
59406752 ATGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATG
1 A-GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * *
59406807 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
59406850 GACTTAATAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.01
54 40 0.46
55 45 0.52
56 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:59414620 original size:27 final size:27
Alignment explanation
Indices: 59414589--59414739 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
59414579 TAAATTGTAC
*
59414589 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** *
59414616 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
59414642 ATGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
59414670 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
59414698 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
59414725 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59414740 GACTTAATAT
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
27 83 0.75
28 27 0.25
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:59414704 original size:82 final size:81
Alignment explanation
Indices: 59414589--59414739 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
59414579 TAAATTGTAC
*
59414589 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGT
59414653 GTGCGAGTTGACTATGT
65 GTGCGAGTTGACTATGT
* ** * *
59414670 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGT
59414735 GTGCG
65 GTGCG
59414740 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 18 0.29
82 44 0.71
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
TGCGAGTTGACTATGT
Found at i:59414728 original size:55 final size:53
Alignment explanation
Indices: 59414589--59414739 Score: 203
Period size: 55 Copynumber: 2.8 Consensus size: 53
59414579 TAAATTGTAC
* *
59414589 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
** *
59414642 ATGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATG
1 A-GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * *
59414697 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
59414740 GACTTAATAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.01
54 40 0.46
55 45 0.52
56 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:59422157 original size:47 final size:47
Alignment explanation
Indices: 59422106--59422614 Score: 840
Period size: 47 Copynumber: 10.7 Consensus size: 47
59422096 TTAGGATTCT
* * *
59422106 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
59422153 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59422200 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
59422249 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
59422298 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59422345 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
59422392 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59422439 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59422486 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
59422533 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
59422580 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59422615 TCCCGAAGGG
Statistics
Matches: 440, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 344 0.78
49 95 0.22
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59422816 original size:37 final size:37
Alignment explanation
Indices: 59422733--59422876 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
59422723 CCGAGCTCTA
* *
59422733 AAGACTCGATGACTACATGTGGAGATTATGTCC-GGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
59422769 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
59422806 AAGACCCGATGACTACGTGTGGAGATTTTGTCTGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
59422843 AAGACCCGATAACTTCGTGTGGAGATTACGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCG
59422877 AGCTAAAGGT
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 31 0.32
37 67 0.68
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:59424348 original size:40 final size:40
Alignment explanation
Indices: 59424293--59424555 Score: 363
Period size: 40 Copynumber: 6.6 Consensus size: 40
59424283 TGGATGATAA
* * *
59424293 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
59424333 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
59424373 CCGAGCTAAGTCCTGAAGGCATTTGTGTGAGTTACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59424413 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59424453 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59424493 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
59424532 CC-GGTTAAATCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59424556 GCTTGGGAAT
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 16 0.08
39 19 0.09
40 166 0.83
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.