Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014628.1 Kokia drynarioides strain JFW-HI SEQ_129667, whole genome shotgun sequence
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: 761112
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 101 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:5784 original size:52 final size:52
Alignment explanation
Indices: 5706--5809 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
5696 TTTATAACTA
5706 TACTTATATACAAGTAGCTGTAAATGA-AAATTTTATTCAAGATTAAAATAAT
1 TACTTATATACAAGTAGCTGTAAATGACAAA-TTTATTCAAGATTAAAATAAT
*
5758 TACTTATATACAAGTAGCTGTAAATGACAAATTTATTCAAGATTCAAATAAT
1 TACTTATATACAAGTAGCTGTAAATGACAAATTTATTCAAGATTAAAATAAT
5810 GATACTATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 47 0.94
53 3 0.06
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (52 bp):
TACTTATATACAAGTAGCTGTAAATGACAAATTTATTCAAGATTAAAATAAT
Found at i:17656 original size:83 final size:82
Alignment explanation
Indices: 17517--17681 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 82
17507 CAGTCCCCGT
17517 GTGAAGTGTCATCCTACGAGCATTGTCGCAACATAGCCTATGTATGTCGCGAAAAGAAGTCAGTC
1 GTGAAGTGTCATCCTACGAGCATTGTCGCAACATAGCCTATGTATGTCGCGAAAAGAAGTCAGTC
17582 TTCGAAATCTCCAAATA
66 TTCGAAATCTCCAAATA
*
17599 NGTGAAGTGTCATCCTACGAGCATTGTCGCAACATAGCCTATGTTTGTCGCGAAAAGAAGTCAGT
1 -GTGAAGTGTCATCCTACGAGCATTGTCGCAACATAGCCTATGTATGTCGCGAAAAGAAGTCAGT
17664 CTTCGAAATCTCCAAATA
65 CTTCGAAATCTCCAAATA
17682 TGGTCCCTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (82 bp):
GTGAAGTGTCATCCTACGAGCATTGTCGCAACATAGCCTATGTATGTCGCGAAAAGAAGTCAGTC
TTCGAAATCTCCAAATA
Found at i:37623 original size:23 final size:23
Alignment explanation
Indices: 37593--37643 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
37583 GATCTAAACG
** *
37593 AAATTACAAACGGTTAGGATACA
1 AAATTACAAACAATTAGGATAAA
37616 AAATTACAAACAATTAGGATAAA
1 AAATTACAAACAATTAGGATAAA
37639 AAATT
1 AAATT
37644 GAGAGATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (23 bp):
AAATTACAAACAATTAGGATAAA
Found at i:45296 original size:13 final size:13
Alignment explanation
Indices: 45278--45303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45268 TCTTGCATTG
45278 CATCAAGGGATGC
1 CATCAAGGGATGC
45291 CATCAAGGGATGC
1 CATCAAGGGATGC
45304 GTTGACAATA
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:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (13 bp):
CATCAAGGGATGC
Found at i:50744 original size:15 final size:14
Alignment explanation
Indices: 50720--50758 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
50710 TACATATGCA
50720 TACATGCATT-CAT
1 TACATGCATTCCAT
50733 TAGCATTGCATTCCAT
1 TA-CA-TGCATTCCAT
50749 TACATGCATT
1 TACATGCATT
50759 AAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 8 0.35
15 8 0.35
16 5 0.22
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (14 bp):
TACATGCATTCCAT
Found at i:55882 original size:49 final size:49
Alignment explanation
Indices: 55796--56550 Score: 431
Period size: 49 Copynumber: 15.4 Consensus size: 49
55786 TCCTAGAGTT
* * * * * *
55796 GAAGGGGGATAG-GTGAAGCCGCAACGGCAGACCTAACACCATAAAATT
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * *
55844 GAAGAGGGATAGATTGAAGTCGTAATGGCAGATTTAACACCCTAAAATC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * *** * *
55893 AAAGAGGGAAAGATTGAAGCTGTAACGATGGATCTTACACCTTAAAATT
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * * * *
55942 GAATAGGAATAGGTTGAAGCCGTAATGGC-GAACCTAACACCTTAAAACC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAG-ATCTAACACCTTAAAATC
* ** * * *** *
55991 GAAGAGGGAAAGATCAAAGTCGCAACAATAGATCTTACACCTTAAAA-C
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * *
56039 TGAAGAGGGATAGGTTGAAGCCGTAACGGCAGACCTAACTCCCTAAAATC
1 -GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * ** * * * * * *
56089 AAAGAGGGA-AGGATTGAAGTCACAATGACAGATCTTACACCTTGAATTT
1 GAAGAGGGATA-GATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * * ** * * * * *
56138 GAGGAGGGATAGGTTGAAGTCGCAAAAGTAAACCTAACACCCTAAAACC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * **
56187 AAAGAGGGATAGATTGAAGCCGTAATGGTGGATCTAACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * ** *
56236 AAATAAGGGA-AGATTGAAACCGTAACAACAGATCTTACACCTTAAAATC
1 GAA-GAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * ** * * * *
56285 AAAGAGGGATAGGTTAAAGCCACAATGACGGACCTAACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * *
56334 GAAGAGGGATATATTGAAGCAGTAACGGCGGATCTAACACCTTAAAACC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * * * ** * *** *
56383 AAATAGTGAGAGATTAAAGCCACAATGATGGATCTTACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * * * * *
56432 GAATAGGGATAGGTTAAAGCCGTAATGACGGACCTAACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * * * * * * *
56481 AAATAGGGATAAATTGAAGCCATAACGACGGATCTAACACCCTAAAACC
1 GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
* * *
56530 AAAAAGTGAATAGATTGAAGC
1 GAAGAG-GGATAGATTGAAGC
56551 TGCAATGGCG
Statistics
Matches: 529, Mismatches: 168, Indels: 18
0.74 0.23 0.03
Matches are distributed among these distances:
48 19 0.04
49 490 0.93
50 20 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (49 bp):
GAAGAGGGATAGATTGAAGCCGTAACGGCAGATCTAACACCTTAAAATC
Found at i:55980 original size:98 final size:97
Alignment explanation
Indices: 55831--56527 Score: 552
Period size: 98 Copynumber: 7.1 Consensus size: 97
55821 GGCAGACCTA
* * * * ** *
55831 ACACCATAAAATTGAAGAGGGATAGATTGAAGTCGTAATGGCAGATTTAACACCCTAAAATCAAA
1 ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGCA-ACCTAACACCTTAAAATCAAA
*** *
55896 GAGGGAAAGATTGAAGCTGTAACGATGGATCTT
65 GAGGGAAAGATTGAAGCCACAATGATGGATCTT
* * * * *
55929 ACACCTTAAAATTGAATAGGAATAGGTTGAAGCCGTAATGGCGAACCTAACACCTTAAAACCGAA
1 ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGC-AACCTAACACCTTAAAATCAAA
** * * ** *
55994 GAGGGAAAGATCAAAGTCGCAACAATAGATCTT
65 GAGGGAAAGATTGAAGCCACAATGATGGATCTT
* * *
56027 ACACCTTAAAACTGAAGAGGGATAGGTTGAAGCCGTAACGGCAGACCTAACTCCCTAAAATCAAA
1 ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGCA-ACCTAACACCTTAAAATCAAA
* * **
56092 GAGGGAAGGATTGAAGTCACAATGACAGATCTT
65 GAGGGAAAGATTGAAGCCACAATGATGGATCTT
* * * * * * ** * *
56125 ACACCTTGAATTTGAGGAGGGATAGGTTGAAGTCGCAAAAGTAAACCTAACACCCTAAAACCAAA
1 ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCG-TAACGGCAACCTAACACCTTAAAATCAAA
* ** * *
56190 GAGGGATAGATTGAAGCCGTAATGGTGGATCTA
65 GAGGGAAAGATTGAAGCCACAATGATGGATCTT
** * * * ** * *
56223 ACACCTTAAAATCAAATAAGGGA-AGATTGAAACCGTAACAACAGATCTTACACCTTAAAATCAA
1 ACACCTTAAAATTGAA-GAGGGATAGGTTGAAGCCGTAACGGCA-ACCTAACACCTTAAAATCAA
* * * * * *
56287 AGAGGGATAGGTTAAAGCCACAATGACGGACCTA
64 AGAGGGAAAGATTGAAGCCACAATGATGGATCTT
* ** * * * *
56321 ACACCTTAAAATCGAAGAGGGATATATTGAAGCAGTAACGGCGGATCTAACACCTTAAAACCAAA
1 ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGC-AACCTAACACCTTAAAATCAAA
* * * *
56386 TAGTGAGAGATTAAAGCCACAATGATGGATCTT
65 GAGGGAAAGATTGAAGCCACAATGATGGATCTT
* * * * * *
56419 ACACCTTAAAATCGAATAGGGATAGGTTAAAGCCGTAATGACGGACCTAACACCTTAAAATCAAA
1 ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGC-AACCTAACACCTTAAAATCAAA
* * * * *
56484 TAGGGATAA-ATTGAAGCCATAACGACGGATCTA
65 GAGGGA-AAGATTGAAGCCACAATGATGGATCTT
*
56517 ACACCCTAAAA
1 ACACCTTAAAA
56528 CCAAAAAGTG
Statistics
Matches: 480, Mismatches: 111, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
97 9 0.02
98 460 0.96
99 11 0.02
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (97 bp):
ACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGTAACGGCAACCTAACACCTTAAAATCAAAG
AGGGAAAGATTGAAGCCACAATGATGGATCTT
Found at i:56129 original size:147 final size:147
Alignment explanation
Indices: 55894--56550 Score: 533
Period size: 147 Copynumber: 4.5 Consensus size: 147
55884 CCTAAAATCA
* * ** * ** * *
55894 AAGAGGGAAAGATTGAAGCTGTAACGATGGATCTTACACCTTAAAATTGAATAGGAATAGG-TTG
1 AAGAGGGATAGATTGAAGCCGTAACGGCGGATCTAACACCTTAAAATCAAAAAGGGA-AGGATTG
** * * * * * * *
55958 AAGCCGTAATGGC-GAACCTAACACCTTAAAACCGAAGAGGGAAAGATCAAAGTCGCAACAATAG
65 AAGCCACAATGACAG-ATCTTACACCTTAAAATCGAAGAGGGATAGGTTAAAGTCGCAACAATAG
* *
56022 ATCTTACACCTTAAAACTG
129 ACCTAACACCTTAAAACTG
* * * * * *
56041 AAGAGGGATAGGTTGAAGCCGTAACGGCAGACCTAACTCCCTAAAATCAAAGAGGGAAGGATTGA
1 AAGAGGGATAGATTGAAGCCGTAACGGCGGATCTAACACCTTAAAATCAAAAAGGGAAGGATTGA
* * * * * * *
56106 AGTCACAATGACAGATCTTACACCTTGAATTTGAGGAGGGATAGGTTGAAGTCGCAA-AAGTAAA
66 AGCCACAATGACAGATCTTACACCTTAAAATCGAAGAGGGATAGGTTAAAGTCGCAACAA-TAGA
* **
56170 CCTAACACCCTAAAACCA
130 CCTAACACCTTAAAACTG
* *
56188 AAGAGGGATAGATTGAAGCCGTAATGGTGGATCTAACACCTTAAAATCAAATAAGGGAA-GATTG
1 AAGAGGGATAGATTGAAGCCGTAACGGCGGATCTAACACCTTAAAATCAAA-AAGGGAAGGATTG
* ** ** *
56252 AAACCGTAACAACAGATCTTACACCTTAAAATCAAAGAGGGATAGGTTAAAG-C-C-ACAATGAC
65 AAGCCACAATGACAGATCTTACACCTTAAAATCGAAGAGGGATAGGTTAAAGTCGCAACAAT-A-
56314 GGACCTAACACCTTAAAA-TCG
128 -GACCTAACACCTTAAAACT-G
* * * * * *
56335 AAGAGGGATATATTGAAGCAGTAACGGCGGATCTAACACCTTAAAACCAAATAGTG-AGAGATTA
1 AAGAGGGATAGATTGAAGCCGTAACGGCGGATCTAACACCTTAAAATCAAAAAGGGAAG-GATTG
** * * * ** **
56399 AAGCCACAATGATGGATCTTACACCTTAAAATCGAATAGGGATAGGTTAAAGCCGTAATGACGGA
65 AAGCCACAATGACAGATCTTACACCTTAAAATCGAAGAGGGATAGGTTAAAGTCGCAACAATAGA
*
56464 CCTAACACCTTAAAA-TCA
130 CCTAACACCTTAAAACT-G
* * * * * * * *
56482 AATAGGGATAAATTGAAGCCATAACGACGGATCTAACACCCTAAAACCAAAAAGTGAATAGATTG
1 AAGAGGGATAGATTGAAGCCGTAACGGCGGATCTAACACCTTAAAATCAAAAAGGGAA-GGATTG
56547 AAGC
65 AAGC
56551 TGCAATGGCG
Statistics
Matches: 403, Mismatches: 91, Indels: 31
0.77 0.17 0.06
Matches are distributed among these distances:
144 2 0.00
145 5 0.01
146 9 0.02
147 368 0.91
148 17 0.04
150 2 0.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (147 bp):
AAGAGGGATAGATTGAAGCCGTAACGGCGGATCTAACACCTTAAAATCAAAAAGGGAAGGATTGA
AGCCACAATGACAGATCTTACACCTTAAAATCGAAGAGGGATAGGTTAAAGTCGCAACAATAGAC
CTAACACCTTAAAACTG
Found at i:56632 original size:51 final size:51
Alignment explanation
Indices: 56493--56632 Score: 120
Period size: 51 Copynumber: 2.8 Consensus size: 51
56483 ATAGGGATAA
** * * ** * *
56493 ATTGAAGCCATAACGACGGATCTAACACC-CTAAAACCAAAAAGTGAATAG
1 ATTGAAGCCGCAACGGCGGATCTTACACCTCTAAAAAAAAAAAGAGAACAG
* * * * * * **
56543 ATTGAAGCTGCAATGGCGAATCATACAGCTTTTGAAAAAAAAAGAGAACAG
1 ATTGAAGCCGCAACGGCGGATCTTACACCTCTAAAAAAAAAAAGAGAACAG
*
56594 ATTGAAGCCGCAACGGTGGATCTTACACCTCTAAAAAAA
1 ATTGAAGCCGCAACGGCGGATCTTACACCTCTAAAAAAA
56633 TTGTAAAAGG
Statistics
Matches: 64, Mismatches: 25, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
50 20 0.31
51 44 0.69
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (51 bp):
ATTGAAGCCGCAACGGCGGATCTTACACCTCTAAAAAAAAAAAGAGAACAG
Found at i:56937 original size:39 final size:39
Alignment explanation
Indices: 56801--57424 Score: 221
Period size: 39 Copynumber: 15.5 Consensus size: 39
56791 TTACATCATC
* * * **
56801 TCATCCAATCTATTAACTCGACCATGGGGCAGATTGAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* ** * * * * *
56840 TCATTCAATCTTTTACCCTAACCAGAAAGAAAATTAAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* * * * *
56879 ACACCATTCAATCTCTTACCCCGACCATTAGGCAAATTGAAG
1 ---TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
** * *
56921 TCATCCAATCTTTTACCCTAACTAGAAGGCAGATTGAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* **
56960 ACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG
1 ---TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
** * * *
57002 TCATCCAATCTTTTACCCTAACCAGAGGGTATG-TTGAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCA-GATTGAAG
* * * ** * *
57041 ACACCATCCAATCTCTT-CCCTTGACCATGGGGTAGATTAAAG
1 ---TCATCCAATCTTTTACCC-CGACCATAAGGCAGATTGAAG
* * * ** * * * *
57083 CCATCTAATATTTTACCCTAACCAGAAGGTAAATTAAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* * * *
57122 ACACCATCCAATCTCTTACCCCGACCATAAAGCAAATTGAAG
1 ---TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* ** * * * *
57164 CCATCCAATCTTTTACCCTAACTAGAGGGTAGATTGAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* * * ** *
57203 ACACCATTCAATCTCTTACCCCGACCATGGGGCAAATTGAAG
1 ---TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* * ** * * * *
57245 TTATCCAAACTTTTACCCTAACTAGAGGGTAGATTGAAG
1 TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* * * **
57284 ACACCATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAG
1 ---TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
* * **
57326 CCAACCAATCTTTTACCCTAACCGA-AAGGCAGATTGAAG
1 TCATCCAATCTTTTACCCCGACC-ATAAGGCAGATTGAAG
* * * * *
57365 ACACCATCTAATCTCTTACCCCGACCAT-GGGACAGATTGAAA
1 ---TCATCCAATCTTTTACCCCGACCATAAGG-CAGATTGAAG
*
57407 CCATCCAATCTTTTACCC
1 TCATCCAATCTTTTACCC
57425 TAACCAGAGG
Statistics
Matches: 437, Mismatches: 120, Indels: 56
0.71 0.20 0.09
Matches are distributed among these distances:
39 219 0.50
40 5 0.01
41 7 0.02
42 206 0.47
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (39 bp):
TCATCCAATCTTTTACCCCGACCATAAGGCAGATTGAAG
Found at i:56941 original size:81 final size:81
Alignment explanation
Indices: 56802--57501 Score: 850
Period size: 81 Copynumber: 8.6 Consensus size: 81
56792 TACATCATCT
* * * * *
56802 CATCCAATCTATTAACTCGACCATGGGGCAGATTGAAGTCATTCAATCTTTTACCCTAACCAGAA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
* * * *
56867 AGAAAATTAAAGACAC
66 GGTAGATTGAAGACAC
* ** * * *
56883 CATTCAATCTCTTACCCCGACCATTAGGCAAATTGAAGTCATCCAATCTTTTACCCTAACTAGAA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
* *
56948 GGCAGATTGAAGACAT
66 GGTAGATTGAAGACAC
* *
56964 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAGAG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
57029 GGTATG-TTGAAGACAC
66 GGTA-GATTGAAGACAC
* * * * *
57045 CATCCAATCTCTT-CCCTTGACCATGGGGTAGATTAAAGCCATCTAATATTTTACCCTAACCAGA
1 CATCCAATCTCTTACCC-CGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGA
* *
57109 AGGTAAATTAAAGACAC
65 AGGTAGATTGAAGACAC
*** * * *
57126 CATCCAATCTCTTACCCCGACCATAAAGCAAATTGAAGCCATCCAATCTTTTACCCTAACTAGAG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
57191 GGTAGATTGAAGACAC
66 GGTAGATTGAAGACAC
* * ** * * *
57207 CATTCAATCTCTTACCCCGACCATGGGGCAAATTGAAGTTATCCAAACTTTTACCCTAACTAGAG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
57272 GGTAGATTGAAGACAC
66 GGTAGATTGAAGACAC
* *
57288 CATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAGCCAACCAATCTTTTACCCTAACC-GAA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAG-A
*
57352 AGGCAGATTGAAGACAC
65 AGGTAGATTGAAGACAC
* * *
57369 CATCTAATCTCTTACCCCGACCATGGGACAGATTGAAACCATCCAATCTTTTACCCTAACCAG-A
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
57433 GGTTAGATTGAAGACAC
66 GG-TAGATTGAAGACAC
* * * * * * * * *
57450 TATCTAATCTCTTACTCTGACCATGGGGTAGATAGAAACCAACCAGTCTTTT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTT
57502 GCCCCTAATC
Statistics
Matches: 537, Mismatches: 75, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
80 7 0.01
81 525 0.98
82 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (81 bp):
CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACCAGAA
GGTAGATTGAAGACAC
Found at i:57864 original size:20 final size:21
Alignment explanation
Indices: 57839--57880 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
57829 ACAAAGCCCA
57839 AAAATAAAAAT-AAAAAACCT
1 AAAATAAAAATGAAAAAACCT
* *
57859 AAAATAAAGATGACAAAACCT
1 AAAATAAAAATGAAAAAACCT
57880 A
1 A
57881 CCAAATACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.69, C:0.12, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAATAAAAATGAAAAAACCT
Found at i:58323 original size:24 final size:25
Alignment explanation
Indices: 58289--58335 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
58279 TATTATTATT
58289 ATTTATATTTAATTG-TTTTTTTGAC
1 ATTTATATTT-ATTGATTTTTTTGAC
58314 ATTTA-ATTTATTGATTTTTTTG
1 ATTTATATTTATTGATTTTTTTG
58336 TTGATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (25 bp):
ATTTATATTTATTGATTTTTTTGAC
Found at i:60122 original size:104 final size:104
Alignment explanation
Indices: 59942--60152 Score: 395
Period size: 104 Copynumber: 2.0 Consensus size: 104
59932 CCTACGATGG
59942 ATAAGATTTATGCCTAATTGCATATTCTCATCAGCTTAGTGTGAGCAGCATCGTAGGAAACAGTT
1 ATAAGATTTATGCCTAATTGCATATTCTCATCAGCTTAGTGTGAGCAGCATCGTAGGAAACAGTT
60007 ATACCATAACGATGGTTGTGAGCAGCATCATATATTGGT
66 ATACCATAACGATGGTTGTGAGCAGCATCATATATTGGT
*
60046 ATAAGATTTATGCCTGATTGCATATTCTCATCAGCTTAGTGTGAGCAGCATCGTAGGAAACAGTT
1 ATAAGATTTATGCCTAATTGCATATTCTCATCAGCTTAGTGTGAGCAGCATCGTAGGAAACAGTT
* *
60111 ATACCGTAACGATGGTTGTGAGCAGCATCGTATATTGGT
66 ATACCATAACGATGGTTGTGAGCAGCATCATATATTGGT
60150 ATA
1 ATA
60153 GGCATGACCT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (104 bp):
ATAAGATTTATGCCTAATTGCATATTCTCATCAGCTTAGTGTGAGCAGCATCGTAGGAAACAGTT
ATACCATAACGATGGTTGTGAGCAGCATCATATATTGGT
Found at i:60206 original size:36 final size:36
Alignment explanation
Indices: 60155--60246 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 36
60145 TTGGTATAGG
* *
60155 CATGACCTTCA-GGTCAATATAGA-GTAAAATGAGCAT
1 CATGACCTT-AGGGTCAACAGAGAGGT-AAATGAGCAT
* *
60191 CATGACCTTTGGGTCAACAGGGAGGTAAATGAGCAT
1 CATGACCTTAGGGTCAACAGAGAGGTAAATGAGCAT
*
60227 CATGACCTCAGGGTCAACAG
1 CATGACCTTAGGGTCAACAG
60247 GGAATAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
36 46 0.96
37 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (36 bp):
CATGACCTTAGGGTCAACAGAGAGGTAAATGAGCAT
Found at i:60247 original size:36 final size:36
Alignment explanation
Indices: 60181--60249 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
60171 ATATAGAGTA
**
60181 AAATGAGCATCATGACCTTTGGGTCAACAGGGAGGT
1 AAATGAGCATCATGACCTCAGGGTCAACAGGGAGGT
60217 AAATGAGCATCATGACCTCAGGGTCAACAGGGA
1 AAATGAGCATCATGACCTCAGGGTCAACAGGGA
60250 ATAAAACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (36 bp):
AAATGAGCATCATGACCTCAGGGTCAACAGGGAGGT
Found at i:67465 original size:36 final size:35
Alignment explanation
Indices: 67425--67503 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 35
67415 TGGTAACAGG
*
67425 CATGACCTTCGAGTCAACA-AGGAGTAAAATGAGCAT
1 CATGACCTTCGAGTCAACAGA-AAG-AAAATGAGCAT
*
67461 CATGACCTTCGGGTCAACAGAAAGAAAATGAGCAT
1 CATGACCTTCGAGTCAACAGAAAGAAAATGAGCAT
67496 CATGACCT
1 CATGACCT
67504 CAAGGTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 19 0.47
36 20 0.50
37 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (35 bp):
CATGACCTTCGAGTCAACAGAAAGAAAATGAGCAT
Found at i:67496 original size:35 final size:36
Alignment explanation
Indices: 67425--67503 Score: 117
Period size: 35 Copynumber: 2.2 Consensus size: 36
67415 TGGTAACAGG
*
67425 CATGACCTTCGAGTCAACAAGGAGTAAAATGAGCAT
1 CATGACCTTCGAGTCAACAAGAAGTAAAATGAGCAT
*
67461 CATGACCTTCGGGTCAAC-AGAAAG-AAAATGAGCAT
1 CATGACCTTCGAGTCAACAAG-AAGTAAAATGAGCAT
67496 CATGACCT
1 CATGACCT
67504 CAAGGTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 21 0.52
36 19 0.47
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (36 bp):
CATGACCTTCGAGTCAACAAGAAGTAAAATGAGCAT
Found at i:67907 original size:3 final size:3
Alignment explanation
Indices: 67901--67956 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
67891 TATCGTTACA
*
67901 ATT ATT ATT ATT AATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
67947 ATT ATT ATT A
1 ATT ATT ATT A
67957 CTACTTTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:68673 original size:150 final size:149
Alignment explanation
Indices: 68506--69036 Score: 752
Period size: 150 Copynumber: 3.6 Consensus size: 149
68496 ATTTTTTTAG
* ** *
68506 AAAAGTTTAAATTTTTAAACAAAGTTTTTATTTTTTTTAACTATAACGAAATAAAAGTTTAGATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGA-TTTTTTTAACTATTTCGAAATAAAAATTTAGATT
*
68571 TTTAAG-AAAGTAGTGATTTTCATTACAAAAGGAGAAAGTTTATATTTTTTAAAAATAAAAATCT
65 TTTAAGTAAAGTAGTGATTTTCATTA-AAAAGAAGAAAGTTTATATTTTTTAAAAATAAAAATCT
68635 GTTTTTTAGTTGTTTTAAAGA
129 GTTTTTTAGTTGTTTTAAAGA
* *
68656 AAAAGTTTAAATTTTTAAAAAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTGGATTT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
* * * *
68721 TAAAGTAAAGTAGCGATTTTAATTAAAAAAGAAAGAGAGTTTATA-TTTTTAAAAATAAAAATCT
66 TTAAGTAAAGTAGTGATTTTCATT-AAAAAG-AAGAAAGTTTATATTTTTTAAAAATAAAAATCT
*
68785 GTTTTTTAGTTATTTTAAAGA
129 GTTTTTTAGTTGTTTTAAAGA
* * * * *
68806 AAAAGTTTAAATTTTTAAATAAATTTTTTATTTTTTTAACTACTTCGAAATAAAAGTTTAGATTT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
* * * *
68871 TTAAGTAAAGTAATGATTTTCATTAAAAA-AATAAAGTTTAGATTTTTAAAAAAT-AAAATCTGT
66 TTAAGTAAAGTAGTGATTTTCATTAAAAAGAAGAAAGTTTATATTTTTTAAAAATAAAAATCTGT
68934 TTTTTAG-TGATTTTAAA-A
131 TTTTTAGTTG-TTTTAAAGA
*
68952 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAATCTT-GATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAAT-TTAGATT
*
69016 TTGAAGTAAAGTAGTGATTTT
65 TTTAAGTAAAGTAGTGATTTT
69037 GTTTTAATCA
Statistics
Matches: 340, Mismatches: 35, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
146 76 0.22
147 35 0.10
148 10 0.03
149 40 0.12
150 167 0.49
151 12 0.04
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (149 bp):
AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
TTAAGTAAAGTAGTGATTTTCATTAAAAAGAAGAAAGTTTATATTTTTTAAAAATAAAAATCTGT
TTTTTAGTTGTTTTAAAGA
Found at i:68820 original size:51 final size:51
Alignment explanation
Indices: 68605--68824 Score: 143
Period size: 51 Copynumber: 4.4 Consensus size: 51
68595 ACAAAAGGAG
* * *
68605 AAAGTTTATATTTTTTAAAAATAAAAATCTGTTTTTTAGTTGTTTTAAAGAA
1 AAAGTTTA-AATTTTTAAAAATAAAAATCTGTTTTTTAATTATTTTAAAGAA
** * * * *
68657 AAAGTTTAAATTTTT-AAAA-AAAGTTTTGATTTTTTTAACTATTTCGAAATAA
1 AAAGTTTAAATTTTTAAAAATAAAAATCTG--TTTTTTAATTATTT-TAAAGAA
** * * * * **
68709 AAA-TTTGGA-TTTT-AAAGTAAAGTAGC-G-ATTTTAATTA--AAAAAGAA
1 AAAGTTTAAATTTTTAAAAATAAA-AATCTGTTTTTTAATTATTTTAAAGAA
* *
68754 AGAGAGTTTATATTTTTAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAA
1 A-A-AGTTTAAATTTTTAAAAATAAAAATCTGTTTTTTAATTATTTTAAAGAA
68807 AAAGTTTAAATTTTTAAA
1 AAAGTTTAAATTTTTAAA
68825 TAAATTTTTT
Statistics
Matches: 123, Mismatches: 31, Indels: 29
0.67 0.17 0.16
Matches are distributed among these distances:
45 6 0.05
46 1 0.01
47 1 0.01
48 12 0.10
49 12 0.10
50 19 0.15
51 48 0.39
52 17 0.14
53 7 0.06
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (51 bp):
AAAGTTTAAATTTTTAAAAATAAAAATCTGTTTTTTAATTATTTTAAAGAA
Found at i:68984 original size:19 final size:19
Alignment explanation
Indices: 68941--68986 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
68931 TGTTTTTTAG
*
68941 TGATTTTAAAAAAAAGTTT
1 TGATTTTTAAAAAAAGTTT
** *
68960 AAATTTTTAAACAAAGTTT
1 TGATTTTTAAAAAAAGTTT
68979 TGATTTTT
1 TGATTTTT
68987 TTAACTATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (19 bp):
TGATTTTTAAAAAAAGTTT
Found at i:73621 original size:4 final size:4
Alignment explanation
Indices: 73612--73679 Score: 82
Period size: 4 Copynumber: 17.0 Consensus size: 4
73602 GTGCCCCAAT
* * *
73612 TTCA TTCA TTCA CTCA CTCA TTCA TTCA TTCA TTCG TTCA TTCA TTCA
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA
* * *
73660 CTCA TTCA CTCA TTTA TTCA
1 TTCA TTCA TTCA TTCA TTCA
73680 GAAACATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.24, C:0.29, G:0.01, T:0.46
Consensus pattern (4 bp):
TTCA
Found at i:81915 original size:21 final size:21
Alignment explanation
Indices: 81891--81939 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
81881 TGATTAAATT
*
81891 AAGAA-AAAAATATAAAAAAAA
1 AAGAAGAAAAA-AGAAAAAAAA
81912 AAGAAGAAAAAAGAAAAAAATA
1 AAGAAGAAAAAAGAAAAAAA-A
81934 AA-AAGA
1 AAGAAGA
81940 GAGAACAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (21 bp):
AAGAAGAAAAAAGAAAAAAAA
Found at i:81919 original size:24 final size:24
Alignment explanation
Indices: 81891--81953 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 24
81881 TGATTAAATT
81891 AAGAAAAAA-ATATAAAAA-AAAAAG
1 AAGAAAAAAGA-A-AAAAATAAAAAG
81915 AAGAAAAAAGAAAAAAATAAAAAG
1 AAGAAAAAAGAAAAAAATAAAAAG
*
81939 AGAGAACAAGAGAAA
1 A-AGAA-AAAAGAAA
81954 GAAACTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 5 0.15
24 17 0.50
25 5 0.15
26 7 0.21
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (24 bp):
AAGAAAAAAGAAAAAAATAAAAAG
Found at i:82439 original size:42 final size:42
Alignment explanation
Indices: 82338--82962 Score: 756
Period size: 42 Copynumber: 14.9 Consensus size: 42
82328 AAGGAAAGCA
*
82338 TTCATTGCATTTAGAGGCCCAGGTGCGGAGGTCCATTTAC-T
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
82379 TTCATTGTATTTAGAGGCCTAGGTGTGGATGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
82421 TTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
82463 TTCATTGCATTTATAGGCCCAGATGTGGAGCTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
82505 TTTATTGCATTTAAAGGCCTAGGTGTTGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* **
82547 TTCATTGCATTTAGAGGCCTAGGTGTACAGGTCCATTTAC-T
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
82588 TTCATTGCATTTAGAGGCCTAGGTGTGGAGG-CTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTC-CATTTACTT
* * *** *
82630 TTCATTACATTTAGAGGCCCAAGTACAGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * ** *
82672 TTCATTGTATTTAAAGGCCCAGTTACGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
82714 TTCATTGCATTTAGAGGCCCAGATGCGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
82756 TTCATTACATTTAAAGGCCGAGGTGTGGAGGCCCAATTT-CTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCC-ATTTACTT
* *
82798 TTCATTGTATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
82840 TTCATTGCATTTAAAGGCCTAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
82882 TTTATTGCATTTAGAGGCTCAGGTGTGGAGG-CTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTC-CATTTACTT
* * * *
82924 TTTATTGCATTTAGAGGCCTAGGCGTAGAGGTCCATTTA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTA
82963 TTTATTTTTT
Statistics
Matches: 509, Mismatches: 67, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.00
41 78 0.15
42 424 0.83
43 6 0.01
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:83422 original size:3 final size:3
Alignment explanation
Indices: 83414--83501 Score: 140
Period size: 3 Copynumber: 29.3 Consensus size: 3
83404 AAAGGCCCAA
* * *
83414 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
83462 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
83502 GGGTTTCATG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:84346 original size:150 final size:151
Alignment explanation
Indices: 84030--84565 Score: 712
Period size: 149 Copynumber: 3.6 Consensus size: 151
84020 TTTTTTTTAG
* * * * *
84030 AAAAGTTTAAA-TTTTAAAAAAAGTTTTGATTTTTTTTAAACTATTTCAAAATAAAAGTTTAGTT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTT-AACTACTTCGAAATAAAAGTTTAGAT
* *
84094 TTTTAAG-AAAGTAGTGATTTTGATT-AAAAAAAAGAGAGTTTATAGTTTTTAAAAATAAAAATC
65 TTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATA-TTTTTAAAAATAAAAATC
* *
84157 T-ATTTTTAGTTATTTTGAAG-A
129 TGTTTTTTAGTTATTTTAAAGAA
* *
84178 AAAGGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTTAACTACTTCGAAATAAAAGTTTCGATT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTTAACTACTTCGAAATAAAAGTTTAGATT
*
84243 TTTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATATTTTTTAAAATAAAAATCTG
66 TTTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTG
*
84308 TTTTTTCGTTATTTTAAAGAA
131 TTTTTTAGTTATTTTAAAGAA
* * *
84329 AAAAATTT-AATTTTTAAATAAATTTTTAA-TTTTTTTAACTACTTCGAAATAAAAGTTTAAATT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTTAACTACTTCGAAATAAAAGTTTAGATT
* * *
84392 TTTAAGTAAAGTAGTGATTTTCATTAAAAGAAAAA-AAAGTTTAGACTTTTAAAAAGTAAAAAAC
66 TTTAAGTAAAGTAGTGATTTTCATTAAAA-AAAAAGAAAGTTTATATTTTTAAAAA-TAAAAATC
*
84456 TGTTTTTTTAGTAATTTTAAA-ACA
129 TG-TTTTTTAGTTATTTTAAAGA-A
* * * * *
84480 AAAAGTTTAAATATTTAAACAAAGTTTTAATTTTTTTTAATTATTTCGAAATAAAAGTTTTGATT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTTAACTACTTCGAAATAAAAGTTTAGATT
* *
84545 TTGAAGTAAAATAGTGATTTT
66 TTTAAGTAAAGTAGTGATTTT
84566 GTTTTAATCA
Statistics
Matches: 343, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
148 39 0.11
149 137 0.40
150 69 0.20
151 31 0.09
152 18 0.05
153 49 0.14
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.44
Consensus pattern (151 bp):
AAAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTTAACTACTTCGAAATAAAAGTTTAGATT
TTTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTG
TTTTTTAGTTATTTTAAAGAA
Found at i:86055 original size:238 final size:238
Alignment explanation
Indices: 85588--86067 Score: 793
Period size: 239 Copynumber: 2.0 Consensus size: 238
85578 AAATATTTTA
*
85588 AAATCATAATAATGATAAAAGATCGAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCAT
1 AAATCAGAATAATGATAAAAGATCGAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCAT
*
85653 TAGTAACTTTTAAGTTGTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTT
66 TAGTAACTTTTAAGTTGTTTTTAAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTT
*
85718 ACTAGAATCATTTAAGTATCTGTTAGGATTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTA
131 ACTAGAATCATTTAAGAATCTGTTAGGATTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTA
85783 AATTACATAAGTTTGGTGAACACGTCTTAGTCAAGTTACAAGT
196 AATTACATAAGTTTGGTGAACACGTCTTAGTCAAGTTACAAGT
* *
85826 AAATCAGAGTAATGATAAAAGATCGAATAATTTGTAGATGAATTTTAATATTTCTCTTAATTCAT
1 AAATCAGAATAATGATAAAAGATCGAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCAT
**
85891 TAGTATTTTTTTAAGGTT-TTTTTAAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATT
66 TAGTA-ACTTTTAA-GTTGTTTTTAAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATT
* * * * * **
85955 TTACTAGAATTATTTAGGAATCTTTTAGGGTTCTTATTAGGTGTAAAAATCTCTAATTTAAGTTT
129 TTACTAGAATCATTTAAGAATCTGTTAGGATTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTT
*
86020 TAAATTATATAAGTTTGGTGAACA-GTCTTAGTCAAGTTACAAGT
194 TAAATTACATAAGTTTGGTGAACACGTCTTAGTCAAGTTACAAGT
86064 AAAT
1 AAAT
86068 TGGAGGCATT
Statistics
Matches: 225, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
238 91 0.40
239 131 0.58
240 3 0.01
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (238 bp):
AAATCAGAATAATGATAAAAGATCGAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCAT
TAGTAACTTTTAAGTTGTTTTTAAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTT
ACTAGAATCATTTAAGAATCTGTTAGGATTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTA
AATTACATAAGTTTGGTGAACACGTCTTAGTCAAGTTACAAGT
Found at i:86893 original size:21 final size:20
Alignment explanation
Indices: 86851--86926 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
86841 GGAGTTTTTA
* *
86851 GTATCGGTAGATATATGACTT
1 GTATCGGTAGA-AGATCACTT
* *
86872 GTTTCGGTAGAAGAGTCTCTT
1 GTATCGGTAGAAGA-TCACTT
* *
86893 GTATCAGTAGAACTATCACTT
1 GTATCGGTAGAA-GATCACTT
86914 GTATCGGTAGAAG
1 GTATCGGTAGAAG
86927 TCTGTACTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.05
21 40 0.93
22 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (20 bp):
GTATCGGTAGAAGATCACTT
Found at i:87290 original size:32 final size:32
Alignment explanation
Indices: 87249--87310 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
87239 TCCTTAAAGC
87249 CATTAGTGAGTTGATTGGGTTGATGGTTAAGT
1 CATTAGTGAGTTGATTGGGTTGATGGTTAAGT
87281 CATTAGTGAGTTGATTGGGTTGATGGTTAA
1 CATTAGTGAGTTGATTGGGTTGATGGTTAA
87311 AATTGATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.03, G:0.34, T:0.40
Consensus pattern (32 bp):
CATTAGTGAGTTGATTGGGTTGATGGTTAAGT
Found at i:99335 original size:12 final size:12
Alignment explanation
Indices: 99318--99348 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
99308 GAAGAACAAG
*
99318 AGGATGAAGTGA
1 AGGATGAAGCGA
99330 AGGATGAAGCGA
1 AGGATGAAGCGA
99342 AGGATGA
1 AGGATGA
99349 CGAACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.42, T:0.13
Consensus pattern (12 bp):
AGGATGAAGCGA
Found at i:99801 original size:16 final size:17
Alignment explanation
Indices: 99780--99811 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99770 AGTTAGCATT
99780 CTTGCA-TTTTATTGTG
1 CTTGCATTTTTATTGTG
99796 CTTGCATTTTTATTGT
1 CTTGCATTTTTATTGT
99812 CACTACATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (17 bp):
CTTGCATTTTTATTGTG
Found at i:103244 original size:25 final size:25
Alignment explanation
Indices: 103215--103263 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
103205 CGCATGGTTA
103215 AGGTAATTAATAATGTTATATGGTG
1 AGGTAATTAATAATGTTATATGGTG
103240 AGGTAATTAATAATGTTATATGGT
1 AGGTAATTAATAATGTTATATGGT
103264 CAATTAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (25 bp):
AGGTAATTAATAATGTTATATGGTG
Found at i:103268 original size:21 final size:22
Alignment explanation
Indices: 103219--103269 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
103209 TGGTTAAGGT
*
103219 AATTAATAATGTTATATGGTGAGGT
1 AATTAATAATGTTATATGGT---GC
103244 AATTAATAATGTTATATGGT-C
1 AATTAATAATGTTATATGGTGC
103265 AATTA
1 AATTA
103270 GGGATGGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (22 bp):
AATTAATAATGTTATATGGTGC
Found at i:107389 original size:17 final size:16
Alignment explanation
Indices: 107366--107406 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
107356 ATAGTAAAAA
107366 TATAATTTTAT-TATT
1 TATAATTTTATATATT
107381 T-TAATAATTTATATATT
1 TATAAT--TTTATATATT
107398 TATAATTTT
1 TATAATTTT
107407 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.18
15 1 0.05
16 8 0.36
17 5 0.23
18 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:108282 original size:30 final size:32
Alignment explanation
Indices: 108234--108292 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
108224 ATTACCTAAA
**
108234 AAAATTTAAATATTAAATT-AA-AAAAATTGT
1 AAAATTTAAATACCAAATTGAATAAAAATTGT
*
108264 AAAATTTAAGTACCAAATTGAATAAAAAT
1 AAAATTTAAATACCAAATTGAATAAAAAT
108293 AAATGGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.67
31 2 0.08
32 6 0.25
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (32 bp):
AAAATTTAAATACCAAATTGAATAAAAATTGT
Found at i:109016 original size:29 final size:29
Alignment explanation
Indices: 108984--109040 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
108974 AAAATATTGT
108984 TTTTTTATA-TT-TAAATTTAAATAAAACA
1 TTTTTTATAGTTCTAAATTTAAA-AAAACA
109012 TTTTTTATAGTTCTAAATTTAAAAAAACA
1 TTTTTTATAGTTCTAAATTTAAAAAAACA
109041 CAAAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.33
29 8 0.30
30 10 0.37
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTTTTATAGTTCTAAATTTAAAAAAACA
Found at i:110526 original size:33 final size:33
Alignment explanation
Indices: 110487--110570 Score: 96
Period size: 41 Copynumber: 2.3 Consensus size: 33
110477 TATACGTATA
110487 GGATAAAATTACTCTAAGCAGGGTTACGAAAAT
1 GGATAAAATTACTCTAAGCAGGGTTACGAAAAT
110520 GGATAAAATTGAATTTATACTCTAAGCAGGGTTACGAAAAT
1 GGAT--AA---AA--T-TACTCTAAGCAGGGTTACGAAAAT
110561 GGATAAAATT
1 GGATAAAATT
110571 GAATTTATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
33 5 0.12
34 1 0.02
35 2 0.05
36 2 0.05
38 2 0.05
39 2 0.05
40 1 0.02
41 28 0.65
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (33 bp):
GGATAAAATTACTCTAAGCAGGGTTACGAAAAT
Found at i:110541 original size:41 final size:41
Alignment explanation
Indices: 110496--110578 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
110486 AGGATAAAAT
110496 TACTCTAAGCAGGGTTACGAAAATGGATAAAATTGAATTTA
1 TACTCTAAGCAGGGTTACGAAAATGGATAAAATTGAATTTA
110537 TACTCTAAGCAGGGTTACGAAAATGGATAAAATTGAATTTA
1 TACTCTAAGCAGGGTTACGAAAATGGATAAAATTGAATTTA
110578 T
1 T
110579 TGGTGATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (41 bp):
TACTCTAAGCAGGGTTACGAAAATGGATAAAATTGAATTTA
Found at i:122702 original size:23 final size:23
Alignment explanation
Indices: 122641--122693 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
122631 CACCAATTTA
* *
122641 ATATTTATAGTTAAATTAAGTTT
1 ATATTTATATTTTAATTAAGTTT
*
122664 ATGTTTATATTTTAATTAAGTTT
1 ATATTTATATTTTAATTAAGTTT
122687 A-ATTTAT
1 ATATTTAT
122694 TTAATTAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (23 bp):
ATATTTATATTTTAATTAAGTTT
Found at i:125784 original size:29 final size:29
Alignment explanation
Indices: 125727--126129 Score: 345
Period size: 30 Copynumber: 13.7 Consensus size: 29
125717 AGGAAAAAAA
* *
125727 TGGGGTTGAAAATG-AAGTTTTAG-AGAGTT
1 TGGGGTT-AAAATGTAA-TTTTGGAAAAGTT
125756 TGGGGTTAAAATGTAATTTTGGAAAAGTT
1 TGGGGTTAAAATGTAATTTTGGAAAAGTT
* * *
125785 TAGGGATAAAATCTAATTTTAGG-AAAGTT
1 TGGGGTTAAAATGTAATTTT-GGAAAAGTT
* * *
125814 TAGGGTTAAAAATATAATTTTGGAGAA-TT
1 TGGGGTT-AAAATGTAATTTTGGAAAAGTT
* * *
125843 TAGGGTTAAAATGTGATTTT-GAGAAGGTT
1 TGGGGTTAAAATGTAATTTTGGA-AAAGTT
* * * * *
125872 TGGGGTCAAAATGTGATTTTAGAGAACTT
1 TGGGGTTAAAATGTAATTTTGGAAAAGTT
* *
125901 TAAGGGTCAAAATGTAATTTT-GAGAAAGTTT
1 T-GGGGTTAAAATGTAATTTTGGA-AAAG-TT
* *
125932 TAGGGTT-AAATGTGATTTTGGAAAAGTT
1 TGGGGTTAAAATGTAATTTTGGAAAAGTT
* * *
125960 TGGTGGTGAAAATGTGATTTTGGAAAATTT
1 TGG-GGTTAAAATGTAATTTTGGAAAAGTT
125990 TGTGGGTTAAAATGTAATTTTGGAAAAGTT
1 TG-GGGTTAAAATGTAATTTTGGAAAAGTT
* * *
126020 AGGGGTTAAAATGTTATTTTGAAAAAGTT
1 TGGGGTTAAAATGTAATTTTGGAAAAGTT
* *
126049 TAAGGGTTAAAATGGAATTTTGGAAAAGTT
1 T-GGGGTTAAAATGTAATTTTGGAAAAGTT
*
126079 TAGGGGTTAAAAT-TAAAATTTGGAAAAGTT
1 T-GGGGTTAAAATGT-AATTTTGGAAAAGTT
* *
126109 TAGGGATTAAAATATAATTTT
1 T-GGGGTTAAAATGTAATTTT
126130 AAAAAATTTT
Statistics
Matches: 314, Mismatches: 42, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.01
28 27 0.09
29 123 0.39
30 157 0.50
31 5 0.02
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (29 bp):
TGGGGTTAAAATGTAATTTTGGAAAAGTT
Found at i:125921 original size:59 final size:55
Alignment explanation
Indices: 125753--126083 Score: 216
Period size: 59 Copynumber: 5.6 Consensus size: 55
125743 GTTTTAGAGA
* * *
125753 GTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGATAAAATCTAATTTT-AGGAAA
1 GTTTGGGG-TAAAATGTAATTTTGGAGAA-TTTAGGG-TAAAATGTAATTTTGA-GAAG
* * *
125811 GTTTAGGGTTAAAAATATAATTTTGGAGAATTTAGGGTTAAAATGTGATTTTGAGAAG
1 GTTT-GGGGT-AAAATGTAATTTTGGAGAATTTAGGG-TAAAATGTAATTTTGAGAAG
* *
125869 GTTTGGGGTCAAAATGTGATTTTAGAGAACTTTAAGGGTCAAAATGTAATTTTGAGAAAG
1 GTTTGGGGT-AAAATGTAATTTTGGAGAA-TTT-AGGGT-AAAATGTAATTTTGAG-AAG
* * * * * * * *
125929 TTTTAGGGTTAAATGTGATTTTGGAAAAGTTTGGTGGTGAAAATGTGATTTTG-GAAAA
1 GTTTGGGGTAAAATGTAATTTTGGAGAA-TTTAG-GGT-AAAATGTAATTTTGAG-AAG
* * * * * *
125987 TTTTGTGGGTTAAAATGTAATTTTGGAAAAGTTAGGGGTTAAAATGTTATTTTGAAAAA
1 GTTTG-GGG-TAAAATGTAATTTTGGAGAATTTA-GGG-TAAAATGTAATTTTGAGAAG
* * *
126046 GTTTAAGGGTTAAAATGGAATTTTGGAAAAGTTTAGGG
1 GTTT--GGGGTAAAATGTAATTTTGGAGAA-TTTAGGG
126084 GTTAAAATTA
Statistics
Matches: 223, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
57 20 0.09
58 44 0.20
59 123 0.55
60 35 0.16
61 1 0.00
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.37
Consensus pattern (55 bp):
GTTTGGGGTAAAATGTAATTTTGGAGAATTTAGGGTAAAATGTAATTTTGAGAAG
Found at i:126165 original size:30 final size:30
Alignment explanation
Indices: 126102--126200 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
126092 TAAAATTTGG
* * *
126102 AAAAGTTTAGGGATTAAAATATAATTT-TAA
1 AAAAGTTTAAGGAATAAAATATGATTTCT-A
* * *
126132 AAAATTTTAAGG-GTCAAAATTTGATTTCTA
1 AAAAGTTTAAGGAAT-AAAATATGATTTCTA
*
126162 AAAAGTTTAAGGAATAAAATATGATTTCTT
1 AAAAGTTTAAGGAATAAAATATGATTTCTA
*
126192 GAAAGTTTA
1 AAAAGTTTA
126201 GGGACCTATC
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 1 0.02
30 53 0.95
31 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.37
Consensus pattern (30 bp):
AAAAGTTTAAGGAATAAAATATGATTTCTA
Found at i:126180 original size:90 final size:89
Alignment explanation
Indices: 126008--126181 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 89
125998 AAAATGTAAT
* * * * * *
126008 TTTGGAAAAGTTAGGGGTTAAAATGTTATTTTGAAAAAGTTTAAGGGTTAAAATGGAATTTTGGA
1 TTTGGAAAAGTTAGGGATTAAAATATAATTTTAAAAAAGTTTAAGGGTCAAAATGGAATTTTGAA
* **
126073 AAAGTTTAGGGGTTAAAATTAAAA
66 AAAGTTTAAGGAATAAAATTAAAA
* *
126097 TTTGGAAAAGTTTAGGGATTAAAATATAATTTTAAAAAATTTTAAGGGTCAAAATTTG-ATTTCT
1 TTTGGAAAAG-TTAGGGATTAAAATATAATTTTAAAAAAGTTTAAGGGTCAAAA-TGGAATTT-T
126161 -AAAAAGTTTAAGGAATAAAAT
63 GAAAAAGTTTAAGGAATAAAAT
126182 ATGATTTCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
89 10 0.14
90 58 0.82
91 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (89 bp):
TTTGGAAAAGTTAGGGATTAAAATATAATTTTAAAAAAGTTTAAGGGTCAAAATGGAATTTTGAA
AAAGTTTAAGGAATAAAATTAAAA
Found at i:128920 original size:50 final size:50
Alignment explanation
Indices: 128862--128986 Score: 196
Period size: 50 Copynumber: 2.5 Consensus size: 50
128852 AACTATCTAG
**
128862 ACGTGTGCAAGTTGGCGAGCGTAAACGCATATATAAGATGACGAGTTTAA
1 ACGTGTGCAAGTTGGCGAGCGTAAACGCATATATAAGATGACGAGCATAA
* *
128912 ACGTGTGCAAGTTGGCGAGCGTAAACGCATATATAAGCTGATGAGCATAA
1 ACGTGTGCAAGTTGGCGAGCGTAAACGCATATATAAGATGACGAGCATAA
* *
128962 ATGTGTGCAAGCTGGCGAGCGTAAA
1 ACGTGTGCAAGTTGGCGAGCGTAAA
128987 TGTATGAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (50 bp):
ACGTGTGCAAGTTGGCGAGCGTAAACGCATATATAAGATGACGAGCATAA
Found at i:128936 original size:24 final size:24
Alignment explanation
Indices: 128862--128938 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
128852 AACTATCTAG
128862 ACGTGTGCAAGTTGGCGAGCGTAA
1 ACGTGTGCAAGTTGGCGAGCGTAA
* ** * * **
128886 ACGCATATATAAGATGACGAGTTTAA
1 ACG--TGTGCAAGTTGGCGAGCGTAA
128912 ACGTGTGCAAGTTGGCGAGCGTAA
1 ACGTGTGCAAGTTGGCGAGCGTAA
128936 ACG
1 ACG
128939 CATATATAAG
Statistics
Matches: 37, Mismatches: 14, Indels: 4
0.67 0.25 0.07
Matches are distributed among these distances:
24 20 0.54
26 17 0.46
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (24 bp):
ACGTGTGCAAGTTGGCGAGCGTAA
Found at i:129009 original size:24 final size:24
Alignment explanation
Indices: 128954--129010 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
128944 ATAAGCTGAT
* * * *
128954 GAGCATAAATGTGTGCAAGCTGGC
1 GAGCGTAAATGTATGAAAGCTAGC
*
128978 GAGCGTAAATGTATGAAAGCTAGT
1 GAGCGTAAATGTATGAAAGCTAGC
*
129002 GAGTGTAAA
1 GAGCGTAAA
129011 ACGCAATGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.23
Consensus pattern (24 bp):
GAGCGTAAATGTATGAAAGCTAGC
Found at i:129475 original size:25 final size:26
Alignment explanation
Indices: 129434--129485 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
129424 AAGAGAATGT
*
129434 TTATATAAAATGGTATG-TGAATTGA
1 TTATATAAAATGATATGATGAATTGA
129459 TTATATGAAAAT-ATATGTATGAATTGA
1 TTATAT-AAAATGATATG-ATGAATTGA
129486 GACATTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 10 0.43
26 5 0.22
27 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (26 bp):
TTATATAAAATGATATGATGAATTGA
Found at i:132851 original size:53 final size:53
Alignment explanation
Indices: 132771--133010 Score: 347
Period size: 53 Copynumber: 4.5 Consensus size: 53
132761 TTGTGCCAAA
132771 GATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACG
1 GATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACG
* * *
132824 GATTAAAGGTCCGATGACTTTGTGTCATCGTGAGTTATATGAATCCTATCATG
1 GATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACG
* * * * *
132877 GATTAAAGGTTTGACGACTATGTGTCATTGTGAGTTATATGAATCCTATTACG
1 GATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACG
* * * * *
132930 GATTAAAGGTTCGATGACTTTGTGTCACCGTGAGTTACACGAATCC-ATCATG
1 GATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACG
*
132982 GATTAAAGGTTCGATGAGTCTGTGTCATC
1 GATTAAAGGTTCGATGACTCTGTGTCATC
133011 ATCAATTATC
Statistics
Matches: 165, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
52 30 0.18
53 135 0.82
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (53 bp):
GATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCACG
Found at i:139639 original size:19 final size:19
Alignment explanation
Indices: 139590--139640 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
139580 TATACACATA
*
139590 TTTTTTTTCTTTGCCCTTT
1 TTTTTTTTCTTTTCCCTTT
** * *
139609 TTCCTTTCCTTTTCTCTTT
1 TTTTTTTTCTTTTCCCTTT
139628 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
139641 ACATGTGACT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCTTTTCCCTTT
Found at i:150981 original size:53 final size:53
Alignment explanation
Indices: 150901--151147 Score: 358
Period size: 53 Copynumber: 4.7 Consensus size: 53
150891 TTGTGCCAAA
* *
150901 GATTAAAGGT-CTGATGACTCTATGTCATCGTGAGTTATATGAATCCTATCATG
1 GATTAAAGGTCCT-ATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
150954 GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
1 GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* *
151007 GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTATATGAATCCTATTACG
1 GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* * * *
151060 GATTAAAGGTCCGATGAC--TGTGTCATCGTCAGTTACACGAATCC-ATCATG
1 GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* * *
151110 GATTAAAGGTCCGATGGCTCTGTGTCATCGTGAGTTAT
1 GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTAT
151148 CAAATGCAAA
Statistics
Matches: 178, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
50 21 0.12
51 23 0.13
52 16 0.09
53 116 0.65
54 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (53 bp):
GATTAAAGGTCCTATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
Found at i:151857 original size:21 final size:21
Alignment explanation
Indices: 151833--151881 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
151823 GAAGTAAGAT
* *
151833 TTGTTTCACTAGAAGAGTCAC
1 TTGTATCACTAGAACAGTCAC
* *
151854 TTGTATCAGTAGAACTGTCAC
1 TTGTATCACTAGAACAGTCAC
151875 TTGTATC
1 TTGTATC
151882 GATAGAGGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (21 bp):
TTGTATCACTAGAACAGTCAC
Found at i:154141 original size:10 final size:10
Alignment explanation
Indices: 154126--154150 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
154116 AAACAGATAG
154126 GAGAAGTTGA
1 GAGAAGTTGA
154136 GAGAAGTTGA
1 GAGAAGTTGA
154146 GAGAA
1 GAGAA
154151 ATCTGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.40, T:0.16
Consensus pattern (10 bp):
GAGAAGTTGA
Found at i:159086 original size:10 final size:10
Alignment explanation
Indices: 159073--159097 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
159063 AAACAGAGAG
159073 GAGAAGTTGA
1 GAGAAGTTGA
159083 GAGAAGTTGA
1 GAGAAGTTGA
159093 GAGAA
1 GAGAA
159098 ATCTGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.40, T:0.16
Consensus pattern (10 bp):
GAGAAGTTGA
Found at i:165751 original size:44 final size:44
Alignment explanation
Indices: 165685--165771 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
165675 GTATGTAAAA
* *
165685 TAATATTAAAATAACATGCACTAATCA-AATTTTGAGTGGGAAAC
1 TAATATTAAAATAACATACACTAATCAGAA-TTTAAGTGGGAAAC
*
165729 TAATATTAAAATAACTTACACTAATCAGAATTTAAGTGGGAAA
1 TAATATTAAAATAACATACACTAATCAGAATTTAAGTGGGAAA
165772 TTAAAAACAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACATACACTAATCAGAATTTAAGTGGGAAAC
Found at i:169387 original size:34 final size:34
Alignment explanation
Indices: 169349--169444 Score: 129
Period size: 34 Copynumber: 2.8 Consensus size: 34
169339 GTTACAGTGT
* *
169349 TTTGGTGTGTTGGATGGACTAGCTCTTATGAGCA
1 TTTGGTGTGTTGGATGGATTAGCTCTTATAAGCA
** *
169383 TTTGGTGTCATGGATGAATTAGCTCTTATAAGCA
1 TTTGGTGTGTTGGATGGATTAGCTCTTATAAGCA
* *
169417 TTTGGTGTGTTGGTTGGATTAACTCTTA
1 TTTGGTGTGTTGGATGGATTAGCTCTTA
169445 CAAGACCATG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (34 bp):
TTTGGTGTGTTGGATGGATTAGCTCTTATAAGCA
Found at i:172585 original size:23 final size:23
Alignment explanation
Indices: 172559--172606 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
172549 AGAAAAAATG
*
172559 ATTTAATTGAGTAAATTAAGTAA
1 ATTTAATTGAGTAAATTAAATAA
* * *
172582 ATTTATTTTAGTTAATTAAATAA
1 ATTTAATTGAGTAAATTAAATAA
172605 AT
1 AT
172607 AATATTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
ATTTAATTGAGTAAATTAAATAA
Found at i:172620 original size:23 final size:23
Alignment explanation
Indices: 172572--172627 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
172562 TAATTGAGTA
* * *
172572 AATTAAGTAAATTTATTTTAGTT
1 AATTAAATAAATATATTTTAGAT
172595 AATTAAATAAATAATATTTT-GAT
1 AATTAAATAAAT-ATATTTTAGAT
172618 AA-TAAA-AAAT
1 AATTAAATAAAT
172628 GAGTTATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 15 0.52
24 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
AATTAAATAAATATATTTTAGAT
Found at i:173227 original size:101 final size:101
Alignment explanation
Indices: 173102--173301 Score: 364
Period size: 101 Copynumber: 2.0 Consensus size: 101
173092 GGTGTAAATT
173102 ATCATTATTAACTCAACTTTTCTCGGTAATAAATTTTCACTTTAGTCCTCGTACTTTTAACTCTT
1 ATCATTATTAACTCAACTTTTCTCGGTAATAAATTTTCACTTTAGTCCTCGTACTTTTAACTCTT
*
173167 TCAATTTAGTCTTTTTTTCGACGTTCTAGATTCATA
66 TCAATTTAGTCTCTTTTTCGACGTTCTAGATTCATA
* *
173203 ATCATTATTAACTCGACTTTTCTCGGTAATAAATTTTCACTTTAGTCCTCGTACTTTTGACTCTT
1 ATCATTATTAACTCAACTTTTCTCGGTAATAAATTTTCACTTTAGTCCTCGTACTTTTAACTCTT
*
173268 TCAATTTAGTCTCTTTTTGGACGTTCTAGATTCA
66 TCAATTTAGTCTCTTTTTCGACGTTCTAGATTCA
173302 CTCTCATATT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (101 bp):
ATCATTATTAACTCAACTTTTCTCGGTAATAAATTTTCACTTTAGTCCTCGTACTTTTAACTCTT
TCAATTTAGTCTCTTTTTCGACGTTCTAGATTCATA
Found at i:174399 original size:21 final size:21
Alignment explanation
Indices: 174373--174422 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
174363 AGGTAAAATC
174373 TCTTCTGTTGTTTCATACCCA
1 TCTTCTGTTGTTTCATACCCA
*
174394 TCTTCTGCTGTTTCATACCCA
1 TCTTCTGTTGTTTCATACCCA
174415 TCTTCTGT
1 TCTTCTGT
174423 ACTTGGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.30, G:0.10, T:0.48
Consensus pattern (21 bp):
TCTTCTGTTGTTTCATACCCA
Found at i:179551 original size:24 final size:23
Alignment explanation
Indices: 179515--179568 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
179505 TTACATTATA
*
179515 CAATCCAATTCATA-TATCATTT
1 CAATTCAATTCATAGTATCATTT
*
179537 CACATTCAATATCATAGTCTCATTT
1 CA-ATTCAAT-TCATAGTATCATTT
179562 CAATTCA
1 CAATTCA
179569 TCTTCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 6 0.22
24 10 0.37
25 9 0.33
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (23 bp):
CAATTCAATTCATAGTATCATTT
Found at i:183821 original size:38 final size:37
Alignment explanation
Indices: 183720--183829 Score: 109
Period size: 38 Copynumber: 3.0 Consensus size: 37
183710 TTAGATAAAT
* * *
183720 AATCTACTGGATCTATGGAGCAACATCATGGAAAT--
1 AATCTACTGGATCTACGGAGCAACACCATGAAAATGG
* * ** *
183755 AGTCTACTGGCTCTACAAAGCGGA-ACCATGAAAATGG
1 AATCTACTGGATCTACGGAGC-AACACCATGAAAATGG
183792 CAATCTACTGGATCTACGGAGCAACACCATGAAAATGG
1 -AATCTACTGGATCTACGGAGCAACACCATGAAAATGG
183830 TCGATTGGTT
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
35 25 0.44
36 1 0.02
37 1 0.02
38 30 0.53
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (37 bp):
AATCTACTGGATCTACGGAGCAACACCATGAAAATGG
Found at i:184333 original size:28 final size:28
Alignment explanation
Indices: 184298--184357 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
184288 GCCAAAAAAG
184298 GGAA-GTCTGCCAAGAACTATCTTAAGT
1 GGAATGTCTGCCAAGAACTATCTTAAGT
* *
184325 GGAATGTCTGCCAAGGACTATCTTAGGT
1 GGAATGTCTGCCAAGAACTATCTTAAGT
184353 GGAAT
1 GGAAT
184358 ATCCTCTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (28 bp):
GGAATGTCTGCCAAGAACTATCTTAAGT
Found at i:185403 original size:217 final size:217
Alignment explanation
Indices: 185028--185463 Score: 863
Period size: 217 Copynumber: 2.0 Consensus size: 217
185018 GCCAGTGGAA
185028 TTGCGAGACCTTCTATGTTACTCAAGGAGTTTAATTATGTGCAATAATTCTTATTTACCCAAAAA
1 TTGCGAGACCTTCTATGTTACTCAAGGAGTTTAATTATGTGCAATAATTCTTATTTACCCAAAAA
185093 TTTGAGTCTTTTATGAATACTATTGTATAGGAATTTATTAAGTTCATTTGAACTTACGAGTGTGT
66 TTTGAGTCTTTTATGAATACTATTGTATAGGAATTTATTAAGTTCATTTGAACTTACGAGTGTGT
*
185158 AACATCTAGATTTCCTATGACATCGGAAACATTGGTTTCGGAACCGTCATTCCGATGTTTTAGTT
131 AACATCTAGATTTCCTATGACATCGGAAACATTGGTTTCAGAACCGTCATTCCGATGTTTTAGTT
185223 TGTAAATAATAAGTAACTGGTG
196 TGTAAATAATAAGTAACTGGTG
185245 TTGCGAGACCTTCTATGTTACTCAAGGAGTTTAATTATGTGCAATAATTCTTATTTACCCAAAAA
1 TTGCGAGACCTTCTATGTTACTCAAGGAGTTTAATTATGTGCAATAATTCTTATTTACCCAAAAA
185310 TTTGAGTCTTTTATGAATACTATTGTATAGGAATTTATTAAGTTCATTTGAACTTACGAGTGTGT
66 TTTGAGTCTTTTATGAATACTATTGTATAGGAATTTATTAAGTTCATTTGAACTTACGAGTGTGT
185375 AACATCTAGATTTCCTATGACATCGGAAACATTGGTTTCAGAACCGTCATTCCGATGTTTTAGTT
131 AACATCTAGATTTCCTATGACATCGGAAACATTGGTTTCAGAACCGTCATTCCGATGTTTTAGTT
185440 TGTAAATAATAAGTAACTGGTG
196 TGTAAATAATAAGTAACTGGTG
185462 TT
1 TT
185464 TGTTAAATCG
Statistics
Matches: 218, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 218 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (217 bp):
TTGCGAGACCTTCTATGTTACTCAAGGAGTTTAATTATGTGCAATAATTCTTATTTACCCAAAAA
TTTGAGTCTTTTATGAATACTATTGTATAGGAATTTATTAAGTTCATTTGAACTTACGAGTGTGT
AACATCTAGATTTCCTATGACATCGGAAACATTGGTTTCAGAACCGTCATTCCGATGTTTTAGTT
TGTAAATAATAAGTAACTGGTG
Found at i:186598 original size:21 final size:21
Alignment explanation
Indices: 186574--186621 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
186564 CACTCTAGTG
186574 CCCCTGTATGGCACTCCGGTA
1 CCCCTGTATGGCACTCCGGTA
* * * *
186595 CCCCTGTGTTGCACTTCGGTG
1 CCCCTGTATGGCACTCCGGTA
186616 CCCCTG
1 CCCCTG
186622 CGTGCTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.08, C:0.40, G:0.25, T:0.27
Consensus pattern (21 bp):
CCCCTGTATGGCACTCCGGTA
Found at i:201258 original size:33 final size:33
Alignment explanation
Indices: 201216--201281 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
201206 CTTGTCGACG
201216 CACCTACAAATGGTCCCTTGTTAGATTGCACTT
1 CACCTACAAATGGTCCCTTGTTAGATTGCACTT
201249 CACCTACAAATGGTCCCTTGTTAGATTGCACTT
1 CACCTACAAATGGTCCCTTGTTAGATTGCACTT
201282 ACACTGAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (33 bp):
CACCTACAAATGGTCCCTTGTTAGATTGCACTT
Found at i:206191 original size:195 final size:193
Alignment explanation
Indices: 205851--206295 Score: 504
Period size: 195 Copynumber: 2.3 Consensus size: 193
205841 GAAACTTATG
* * * * *
205851 CGATGGCTGAGGTACTGCATATGTTGCGAGT-TTTCGACAGCTCGTGTGAGAAACATCGTGTGTC
1 CGATGGCTGAGGTAC-GCATATGTTGCGAGTCCTT-GACAGCTCGTGTGAGCAGCATCATGAGTC
* * * *
205915 AGAAAAATGATATGAAATCCTAAAATGGATTACAAGCCCTACGATGGCTAAGATTTATGCTTGAA
64 AGAAAAAAGATATGAAATCCTAAAATGGATTACAAGCCCTACGATGGCTAAGACTTATGCATAAA
** * * * *
205980 TGCATATTCTCGATAGCTCGTGTGAGCAGCATCGTTAGG-GAATAG-TTATATGCACAGATACCG
129 TGCATACACCCGATAGCTCGTGTGAGCAGCATCGTTAGGAG-ATAGTTTATA-G-ACAAACACCA
* *
206043 TAT
191 AAC
*
206046 CGATGGCTGAGGTATCACATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCATGAGTC-
1 CGATGGCTGAGGTA-CGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCATGAGTCA
* * * * **
206110 GAAAAAAGAGATATG-AATCCTAGAATGGATTATAAGGCCTATGATGGCTGGGACTTATGCATAA
65 G-AAAAA-AGATATGAAATCCTAAAATGGATTACAAGCCCTACGATGGCTAAGACTTATGCATAA
* *
206174 ATGCATACACCCGATAGCTTGTGTGAGCAGCATCGTTAGGAGATAGTTTATAGACAAACATCAAA
128 ATGCATACACCCGATAGCTCGTGTGAGCAGCATCGTTAGGAGATAGTTTATAGACAAACACCAAA
206239 C
193 C
* * * *
206240 CAACGACTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCAT
1 CGATGGCTGAGGTA-CGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCAT
206296 TAGGTACTGC
Statistics
Matches: 212, Mismatches: 32, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
194 58 0.27
195 139 0.66
196 15 0.07
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (193 bp):
CGATGGCTGAGGTACGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCATGAGTCAG
AAAAAAGATATGAAATCCTAAAATGGATTACAAGCCCTACGATGGCTAAGACTTATGCATAAATG
CATACACCCGATAGCTCGTGTGAGCAGCATCGTTAGGAGATAGTTTATAGACAAACACCAAAC
Found at i:210324 original size:22 final size:22
Alignment explanation
Indices: 210299--210344 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
210289 TCGAAAATAG
210299 TGGTTTAAGACCACAACTTCGA
1 TGGTTTAAGACCACAACTTCGA
210321 TGGTTTAAGACCACAACTTCGA
1 TGGTTTAAGACCACAACTTCGA
210343 TG
1 TG
210345 AGTCAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (22 bp):
TGGTTTAAGACCACAACTTCGA
Found at i:212064 original size:13 final size:13
Alignment explanation
Indices: 212046--212070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212036 TAAGTTAAAA
212046 ATGCTAAAAATGC
1 ATGCTAAAAATGC
212059 ATGCTAAAAATG
1 ATGCTAAAAATG
212071 ATAAAATGGG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:212420 original size:17 final size:17
Alignment explanation
Indices: 212397--212435 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
212387 AATATAAATA
212397 TTTTTCTTTT-TTCTTT
1 TTTTTCTTTTCTTCTTT
212413 TCTTTTCTTTTCTTCTTT
1 T-TTTTCTTTTCTTCTTT
212431 TTTTT
1 TTTTT
212436 ATATGTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTCTTCTTT
Found at i:220994 original size:13 final size:13
Alignment explanation
Indices: 220976--221000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
220966 TAAGTTAAAA
220976 ATGCTAAAAATGC
1 ATGCTAAAAATGC
220989 ATGCTAAAAATG
1 ATGCTAAAAATG
221001 ATAAGATGGA
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:225754 original size:31 final size:31
Alignment explanation
Indices: 225713--225813 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 31
225703 ACACGGGATG
* *
225713 ACACATGGCCATGTGATCCTATTTCGAGTAT
1 ACACACGGCCATGTGACCCTATTTCGAGTAT
* * *
225744 ACACACGGCCATATGACCCTATTTTGACTATAT
1 ACACACGGCCATGTGACCCTATTTCGA--GTAT
** *
225777 ACACACGATCGTGTGACCCTATTTCGAGTAT
1 ACACACGGCCATGTGACCCTATTTCGAGTAT
225808 ACACAC
1 ACACAC
225814 AGCCTGGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
31 32 0.56
33 25 0.44
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
ACACACGGCCATGTGACCCTATTTCGAGTAT
Found at i:226845 original size:10 final size:9
Alignment explanation
Indices: 226814--227033 Score: 98
Period size: 10 Copynumber: 23.4 Consensus size: 9
226804 TAAAAATAGG
226814 AAAATTATA
1 AAAATTATA
*
226823 AAAA-TAAA
1 AAAATTATA
226831 AAAATTATTA
1 AAAATTA-TA
226841 AAAA-T-TA
1 AAAATTATA
*
226848 AATATTA-A
1 AAAATTATA
226856 AAAATTTGATA
1 AAAA-TT-ATA
226867 TAAAATTATA
1 -AAAATTATA
226877 AAAATTATAATA
1 AAAA-T-T-ATA
*
226889 AAAATAATA
1 AAAATTATA
* *
226898 ATAACTTGTA
1 A-AAATTATA
*
226908 AATATTATA
1 AAAATTATA
226917 AAAA-TATA
1 AAAATTATA
226925 ATAAATCTA-A
1 A-AAAT-TATA
*
226935 TAAATTATAA
1 AAAATTAT-A
*
226945 AAAAGTAT-
1 AAAATTATA
226953 AAAATTAATA
1 AAAATT-ATA
*
226963 AAACATATTTA
1 AAA-AT-TATA
*
226974 AAATTTTATA
1 AAA-ATTATA
*
226984 AAAACTTATT
1 AAAA-TTATA
*
226994 AAAATTCTAA
1 AAAATTAT-A
227004 AAAACTTATA
1 AAAA-TTATA
*
227014 AAAATCAT-
1 AAAATTATA
227022 AAAATTA-A
1 AAAATTATA
227030 AAAA
1 AAAA
227034 AAAGTGATAT
Statistics
Matches: 159, Mismatches: 27, Indels: 51
0.67 0.11 0.22
Matches are distributed among these distances:
7 5 0.03
8 34 0.21
9 40 0.25
10 50 0.31
11 18 0.11
12 12 0.08
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:226845 original size:18 final size:18
Alignment explanation
Indices: 226786--226845 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
226776 TATTTTCCCA
*
226786 TAAAAA-AATAAAAATCAT
1 TAAAAATAA-AAAAATTAT
**
226804 TAAAAATAGGAAAATTA-
1 TAAAAATAAAAAAATTAT
226821 TAAAAATAAAAAAATTAT
1 TAAAAATAAAAAAATTAT
226839 TAAAAAT
1 TAAAAAT
226846 TAAATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 15 0.43
18 19 0.54
19 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
TAAAAATAAAAAAATTAT
Found at i:226889 original size:20 final size:19
Alignment explanation
Indices: 226814--227025 Score: 113
Period size: 19 Copynumber: 11.1 Consensus size: 19
226804 TAAAAATAGG
226814 AAAATTATAAAAA-TA-AA
1 AAAATTATAAAAATTATAA
226831 AAAATTATTAAAAA-T-T-A
1 AAAATTA-TAAAAATTATAA
* *
226848 AATATTA-AAAAATTTGATAT
1 AAAATTATAAAAA-TT-ATAA
226868 AAAATTATAAAAATTATAATA
1 AAAATTATAAAAATTAT-A-A
* * *
226889 AAAATAATAATAACTTGT-A
1 AAAATTATAA-AAATTATAA
*
226908 AATATTATAAAAA-TATAA
1 AAAATTATAAAAATTATAA
* *
226926 TAAATCTA-ATAAATTATAA
1 AAAAT-TATAAAAATTATAA
*
226945 AAAAGTAT-AAAATTAATAA
1 AAAATTATAAAAATT-ATAA
*
226964 AACATATT-TAAAATTTTATAA
1 AA-A-ATTATAAAA-ATTATAA
* * *
226985 AAACTTATTAAAATTCTAA
1 AAAATTATAAAAATTATAA
*
227004 AAAACTTATAAAAATCATAA
1 AAAA-TTATAAAAATTATAA
227024 AA
1 AA
227026 TTAAAAAAAA
Statistics
Matches: 146, Mismatches: 27, Indels: 41
0.68 0.13 0.19
Matches are distributed among these distances:
15 5 0.03
17 17 0.12
18 24 0.16
19 38 0.26
20 30 0.21
21 25 0.17
22 7 0.05
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAATTATAA
Found at i:226954 original size:26 final size:27
Alignment explanation
Indices: 226911--226964 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
226901 ACTTGTAAAT
226911 ATTATAAAAATATAAT-AAATCTAATAA
1 ATTATAAAAATATAATAAAAT-TAATAA
226938 ATTATAAAAA-AGT-ATAAAATTAATAA
1 ATTATAAAAATA-TAATAAAATTAATAA
226964 A
1 A
226965 ACATATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
ATTATAAAAATATAATAAAATTAATAA
Found at i:227033 original size:28 final size:30
Alignment explanation
Indices: 226979--227035 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
226969 ATTTAAAATT
* **
226979 TTATAAAAACTTATTAAAATTCTAAAAAAC
1 TTATAAAAACTCATTAAAATTAAAAAAAAC
227009 TTATAAAAA-TCA-TAAAATTAAAAAAAA
1 TTATAAAAACTCATTAAAATTAAAAAAAA
227036 AGTGATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.54
29 2 0.08
30 9 0.38
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (30 bp):
TTATAAAAACTCATTAAAATTAAAAAAAAC
Found at i:227101 original size:33 final size:34
Alignment explanation
Indices: 227029--227102 Score: 109
Period size: 33 Copynumber: 2.2 Consensus size: 34
227019 CATAAAATTA
227029 AAAAAAAAGTGATATAAACATATAAAAAAAATTTT
1 AAAAAAAAGTGATATAAACATAT-AAAAAAATTTT
*
227064 --AAAAAAGTGATATAAACATAT-AAAAATTTTT
1 AAAAAAAAGTGATATAAACATATAAAAAAATTTT
227095 AAAAAAAA
1 AAAAAAAA
227103 TCATAAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 9 0.25
33 27 0.75
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (34 bp):
AAAAAAAAGTGATATAAACATATAAAAAAATTTT
Found at i:227697 original size:9 final size:9
Alignment explanation
Indices: 227680--227954 Score: 79
Period size: 10 Copynumber: 29.1 Consensus size: 9
227670 AGGGTTTAAA
*
227680 TATATTTTT
1 TATAATTTT
227689 TATAATTTT
1 TATAATTTT
227698 TAT-ATTATT
1 TATAATT-TT
227707 TATAAGTTTTT
1 TATAA--TTTT
*
227718 TATAAAATTT
1 TAT-AATTTT
227728 TA-AATATTT
1 TATAAT-TTT
*
227737 TAGATATATTT
1 TATA-AT-TTT
227748 TATTAA-TTT
1 TA-TAATTTT
227757 TATAAATATTT
1 TAT-AAT-TTT
*
227768 AATAATTTAT
1 TATAATTT-T
*
227778 TATATATTTA
1 TATA-ATTTT
**
227788 TATTTTTTT
1 TATAATTTT
*
227797 TATAATATT
1 TATAATTTT
*
227806 CAT--TTTT
1 TATAATTTT
*
227813 TATTATATGTAT
1 TA-TA-AT-TTT
227825 TAT-ATTTT
1 TATAATTTT
*
227833 TTTATATTTT
1 TATA-ATTTT
*
227843 TATAAATTTA
1 TAT-AATTTT
227853 TATCAATTTT
1 TAT-AATTTT
*
227863 AAT-ATATTT
1 TATAAT-TTT
227872 T-TAATATTT
1 TATAAT-TTT
*
227881 AATAATATTT
1 TATAAT-TTT
* *
227891 T-TGA-TTG
1 TATAATTTT
227898 T-TAATATTT
1 TATAAT-TTT
227907 TAT-ATTTT
1 TATAATTTT
227915 TATGAATTTT
1 TAT-AATTTT
227925 TATAAGTTTT
1 TATAA-TTTT
* *
227935 AAGAATTTT
1 TATAATTTT
227944 TATACATTTT
1 TATA-ATTTT
227954 T
1 T
227955 GTAAAATTTT
Statistics
Matches: 199, Mismatches: 35, Indels: 63
0.67 0.12 0.21
Matches are distributed among these distances:
7 9 0.05
8 20 0.10
9 67 0.34
10 68 0.34
11 26 0.13
12 9 0.05
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:227719 original size:11 final size:10
Alignment explanation
Indices: 227683--227786 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 10
227673 GTTTAAATAT
227683 ATTTTTTATA
1 ATTTTTTATA
227693 A-TTTTTAT-
1 ATTTTTTATA
*
227701 ATTATTTATA
1 ATTTTTTATA
227711 AGTTTTTTATA
1 A-TTTTTTATA
**
227722 AAATTTTA-A
1 ATTTTTTATA
* *
227731 ATATTTTAGA
1 ATTTTTTATA
*
227741 TATATTTTATTA
1 -ATTTTTTA-TA
*
227753 ATTTTATA-A
1 ATTTTTTATA
* *
227762 ATATTTAATA
1 ATTTTTTATA
*
227772 ATTTATTATA
1 ATTTTTTATA
227782 TATTT
1 -ATTT
227787 ATATTTTTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 1 0.01
9 27 0.38
10 16 0.22
11 27 0.38
12 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:227729 original size:39 final size:39
Alignment explanation
Indices: 227686--227805 Score: 108
Period size: 39 Copynumber: 3.1 Consensus size: 39
227676 TAAATATATT
227686 TTTTATAATTTTTATATTATTTATAAGTTTTTTATAAA-A
1 TTTTATAATTTTTATATTATTTATAA-TTTTTTATAAATA
*
227725 TTTTA-AATATTTTAGATATATTT-T-ATTAATTTTATAAATA
1 TTTTATAAT-TTTTATAT-TATTTATAATT--TTTTATAAATA
* *
227765 TTTAATAATTTATTATA-TATTTAT-ATTTTTTTTATAATA
1 TTTTATAATTT-TTATATTATTTATAATTTTTTATA-AATA
227804 TT
1 TT
227806 CATTTTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
37 2 0.03
38 10 0.15
39 33 0.49
40 16 0.24
41 7 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (39 bp):
TTTTATAATTTTTATATTATTTATAATTTTTTATAAATA
Found at i:227784 original size:19 final size:19
Alignment explanation
Indices: 227679--227787 Score: 64
Period size: 19 Copynumber: 5.6 Consensus size: 19
227669 AAGGGTTTAA
* *
227679 ATATATTTTTTATAATTTT
1 ATATATATTTAATAATTTT
227698 -TATATTATTT-ATAAGTTTT
1 ATATA-TATTTAATAA-TTTT
* *
227717 TTATAAAATTTTAA-ATATTTT
1 ATAT-ATA-TTTAATA-ATTTT
* *
227738 AGATATATTTTATTAATTTT
1 ATATATA-TTTAATAATTTT
*
227758 ATAAATATTTAATAA-TTT
1 ATATATATTTAATAATTTT
227776 ATTATATATTTA
1 A-TATATATTTA
227788 TATTTTTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
18 12 0.17
19 24 0.34
20 21 0.30
21 12 0.17
22 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATATATATTTAATAATTTT
Found at i:227799 original size:19 final size:19
Alignment explanation
Indices: 227777--227846 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
227767 TAATAATTTA
227777 TTATATATTTATATTTTTT
1 TTATATATTTATATTTTTT
* *
227796 TTATAATATTCAT-TTTTTA
1 TTAT-ATATTTATATTTTTT
*
227815 TTATATGTATTATA-TTTTT
1 TTATATAT-TTATATTTTTT
*
227834 TTATATTTTTATA
1 TTATATATTTATA
227847 AATTTATATC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.19
19 27 0.64
20 7 0.17
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (19 bp):
TTATATATTTATATTTTTT
Found at i:227853 original size:38 final size:38
Alignment explanation
Indices: 227740--227835 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 38
227730 AATATTTTAG
** *
227740 ATATATTT-TATTAATTTTATAAATATTTAATAATTTATT
1 ATATATTTATATTTTTTTTAT-AATA-TTCATAATTTATT
**
227779 ATATATTTATATTTTTTTTATAATATTCATTTTTTATT
1 ATATATTTATATTTTTTTTATAATATTCATAATTTATT
*
227817 ATATGTATTATATTTTTTT
1 ATATAT-TTATATTTTTTT
227836 ATATTTTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 15 0.31
39 24 0.49
40 10 0.20
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (38 bp):
ATATATTTATATTTTTTTTATAATATTCATAATTTATT
Found at i:228470 original size:15 final size:16
Alignment explanation
Indices: 228439--228475 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
228429 CTCACATGAC
228439 TTATTTTTTATAAAATT
1 TTATTTTTTAT-AAATT
*
228456 TTATTTTTTATAATTT
1 TTATTTTTTATAAATT
228472 TTAT
1 TTAT
228476 AAGTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTTTATAAATT
Found at i:228533 original size:10 final size:9
Alignment explanation
Indices: 228443--228529 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 9
228433 CATGACTTAT
228443 TTTTTATAAA
1 TTTTTAT-AA
*
228453 ATTTTAT--
1 TTTTTATAA
228460 TTTTTATAA
1 TTTTTATAA
228469 TTTTTATAA
1 TTTTTATAA
228478 GTTTATT-TCAA
1 -TTT-TTAT-AA
* *
228489 TCTTAAT-A
1 TTTTTATAA
228497 TTTGTTA-AA
1 TTT-TTATAA
228506 TATTTT-TAA
1 T-TTTTATAA
228515 TTTTTATAA
1 TTTTTATAA
228524 TTTTTA
1 TTTTTA
228530 ATAAAAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 23
0.67 0.07 0.26
Matches are distributed among these distances:
7 6 0.10
8 7 0.12
9 28 0.47
10 15 0.25
11 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:229147 original size:306 final size:307
Alignment explanation
Indices: 228594--229201 Score: 1137
Period size: 306 Copynumber: 2.0 Consensus size: 307
228584 TGCTTAAAAT
228594 TACCTATTGGACAAAACACGTTAGCGAACACATATAAATATAAATATTTAAATACAAGATCTGTA
1 TACCTATTGGACAAAACACGTTAGCGAACACATATAAATATAAATATTTAAATACAAGATCTGTA
228659 TAAAATAATATAAACAAATAATTTTTGTTTATAAAAAAACAGCAGATCTAAACAAAATTGAATTA
66 TAAAATAATATAAACAAATAATTTTTGTTTATAAAAAAACAGCAGATCTAAACAAAATTGAATTA
* *
228724 AATAAATATTTATTTTTATAGAAAAAATCATATCTAAAAAAACAATTTGAATAGCAGGATCTAAA
131 AATAAATAATTATTTTTATAGAAAAAATCAAATCTAAAAAAACAATTTGAATAGCAGGATCTAAA
*
228789 AATACCAAAAATTTAATTAGAGAATCAAGTTTACTAGATGTTGAGGCATGTTTTCACAGTTTTCT
196 AATACCAAAAATTGAATTAGAGAATCAAGTTTACTAGATGTTGAGGCATGTTTTCACAGTTTTCT
228854 TAAGACAGATTCGATCGCTCCTACGGTACTTGGAG-AACGTTAGAAC
261 TAAGACAGATTCGATCGCTCCTACGGTACTTGGAGAAACGTTAGAAC
*
228900 TACCTATTGGACAAAACACGTTAGCGAACATATATAAATATAAATATTTAAATACAAGATCTGTA
1 TACCTATTGGACAAAACACGTTAGCGAACACATATAAATATAAATATTTAAATACAAGATCTGTA
*
228965 TAAAATAATATAAACAAATAATTTTTGTTTATAAAAACACAGCAGATCTAAACAAAATTGAATTA
66 TAAAATAATATAAACAAATAATTTTTGTTTATAAAAAAACAGCAGATCTAAACAAAATTGAATTA
229030 AATAAATAATTATTTTTATAGAAAAAATCAAATCTAAAAAAACAATTTGAATAGCAGGATCTAAA
131 AATAAATAATTATTTTTATAGAAAAAATCAAATCTAAAAAAACAATTTGAATAGCAGGATCTAAA
* * *
229095 AATACCAGAAATTGAATTAGAGAATCGAGTTTACTAGATGTTGAGGCATGTTTTTACAGTTTTCT
196 AATACCAAAAATTGAATTAGAGAATCAAGTTTACTAGATGTTGAGGCATGTTTTCACAGTTTTCT
229160 TAAGACAGATTCGATCGCTCCTACGGTACTTGGAGAAACGTT
261 TAAGACAGATTCGATCGCTCCTACGGTACTTGGAGAAACGTT
229202 GGTCGTCTAT
Statistics
Matches: 293, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
306 287 0.98
307 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (307 bp):
TACCTATTGGACAAAACACGTTAGCGAACACATATAAATATAAATATTTAAATACAAGATCTGTA
TAAAATAATATAAACAAATAATTTTTGTTTATAAAAAAACAGCAGATCTAAACAAAATTGAATTA
AATAAATAATTATTTTTATAGAAAAAATCAAATCTAAAAAAACAATTTGAATAGCAGGATCTAAA
AATACCAAAAATTGAATTAGAGAATCAAGTTTACTAGATGTTGAGGCATGTTTTCACAGTTTTCT
TAAGACAGATTCGATCGCTCCTACGGTACTTGGAGAAACGTTAGAAC
Found at i:232688 original size:28 final size:30
Alignment explanation
Indices: 232657--232726 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 30
232647 TTACATCAAC
* *
232657 AAATAATTAAAAATTATA-AAAATATTCA-
1 AAATAATTAAAAAATACATAAAATATTCAT
232685 AAATAA--AATAAAATACATAAAATATTCAT
1 AAATAATTAA-AAAATACATAAAATATTCAT
232714 AAA-AATTAAAAAA
1 AAATAATTAAAAAA
232727 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 2 0.06
27 6 0.17
28 18 0.51
29 7 0.20
30 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (30 bp):
AAATAATTAAAAAATACATAAAATATTCAT
Found at i:233351 original size:16 final size:15
Alignment explanation
Indices: 233332--233361 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
233322 AATATATTTG
233332 AATCTAAATCAAAATA
1 AATCTAAAT-AAAATA
233348 AATCTAAATAAAAT
1 AATCTAAATAAAAT
233362 TCAGTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (15 bp):
AATCTAAATAAAATA
Found at i:234756 original size:11 final size:11
Alignment explanation
Indices: 234740--234782 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
234730 AGTTAAATAT
234740 TATTTTATTAA
1 TATTTTATTAA
234751 TATTTTACTT-A
1 TATTTTA-TTAA
*
234762 TATATTTATTAT
1 TAT-TTTATTAA
234774 TATTTTATT
1 TATTTTATT
234783 TAGAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:236538 original size:4 final size:4
Alignment explanation
Indices: 236529--236563 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
236519 TTACGTAATG
*
236529 AAAT AAAT AAGT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
236564 AGTATGGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:241427 original size:37 final size:37
Alignment explanation
Indices: 241375--241510 Score: 218
Period size: 37 Copynumber: 3.7 Consensus size: 37
241365 GTTCTTGGGT
* * *
241375 CACCGGCACAAAGCCTGCTAGGCATATAGCCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACACAGCCTGAAAA
*
241412 CCCCGGCACAAAGCCTACTAGGCACACAGCCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACACAGCCTGAAAA
*
241449 CATCGGCACAAAGCCTACTAGGCACACAGCCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACACAGCCTGAAAA
*
241486 CACCGGCACAAAGTCTACTAGGCAC
1 CACCGGCACAAAGCCTACTAGGCAC
241511 TAAAAATTGT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.35, C:0.34, G:0.20, T:0.11
Consensus pattern (37 bp):
CACCGGCACAAAGCCTACTAGGCACACAGCCTGAAAA
Found at i:241437 original size:16 final size:16
Alignment explanation
Indices: 241416--241480 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
241406 TGAAAACCCC
241416 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
* *
241432 GGCACACAGCCTGAAAACATC
1 GGCACAAAGCCT----AC-TA
241453 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
*
241469 GGCACACAGCCT
1 GGCACAAAGCCT
241481 GAAAACACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 23 0.59
17 2 0.05
20 2 0.05
21 12 0.31
ACGTcount: A:0.35, C:0.34, G:0.20, T:0.11
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:241456 original size:21 final size:21
Alignment explanation
Indices: 241432--241495 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
241422 AAGCCTACTA
241432 GGCACACAGCCTGAAAACATC
1 GGCACACAGCCTGAAAACATC
* *
241453 GGCACAAAGCCT----AC-TA
1 GGCACACAGCCTGAAAACATC
*
241469 GGCACACAGCCTGAAAACACC
1 GGCACACAGCCTGAAAACATC
241490 GGCACA
1 GGCACA
241496 AAGTCTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 12 0.36
17 2 0.06
20 2 0.06
21 17 0.52
ACGTcount: A:0.38, C:0.34, G:0.20, T:0.08
Consensus pattern (21 bp):
GGCACACAGCCTGAAAACATC
Found at i:248144 original size:37 final size:36
Alignment explanation
Indices: 248090--248232 Score: 205
Period size: 37 Copynumber: 3.9 Consensus size: 36
248080 TTGGGTCACT
* **
248090 GGCACAAAGCCTGCTAGGCACATAGCCTGAAAACAAT
1 GGCACAAAGCCTACTAGGCACA-AGCCTGAAAACACC
*
248127 GGCACAAAGCCTACTAGGCACACGCCTGAAAACACC
1 GGCACAAAGCCTACTAGGCACAAGCCTGAAAACACC
248163 GGCACAAAGCCTACTAGGCACACAGCCTGAAAACACC
1 GGCACAAAGCCTACTAGGCACA-AGCCTGAAAACACC
* *
248200 GGCAGAAAGCCTACTAGGCACAAAGCTTGAAAA
1 GGCACAAAGCCTACTAGGCAC-AAGCCTGAAAA
248233 TTGTGTAAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 33 0.34
37 63 0.65
38 1 0.01
ACGTcount: A:0.38, C:0.30, G:0.21, T:0.10
Consensus pattern (36 bp):
GGCACAAAGCCTACTAGGCACAAGCCTGAAAACACC
Found at i:251184 original size:43 final size:43
Alignment explanation
Indices: 251111--251192 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
251101 TGATTAAAAC
* *
251111 AAAATCACTAATTCACTTCAAAATCTAAACTTTTTTTTTAATG
1 AAAATCACTAATTCACTTAAAAATCTAAACTTTTATTTTAATG
* *
251154 AAAATCACTACTTTACTTAAAAAATC-AAACTTTTATTTT
1 AAAATCACTAATTCACTT-AAAAATCTAAACTTTTATTTT
251193 GAAATAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (43 bp):
AAAATCACTAATTCACTTAAAAATCTAAACTTTTATTTTAATG
Found at i:251403 original size:51 final size:50
Alignment explanation
Indices: 251318--251444 Score: 127
Period size: 51 Copynumber: 2.5 Consensus size: 50
251308 ACTACTTTAC
*
251318 TTAAAAATCTAAA-TTTTTATTTCGAAATAGTTAAAAAAATCA-AAATTT-TGT
1 TTAAAAATCTAAACTTTTT-TTT-AAAATAGTT-AAAAAA-CAGAAATTTATGT
* ** *
251369 TTAAAAATTTAAACTTTTTCTTTAAAAT-GATTAAAAAACAGATTTTTATTT
1 TTAAAAATCTAAACTTTTT-TTTAAAATAG-TTAAAAAACAGAAATTTATGT
251420 TTAAAAATCTAAACTTTTTTTTAAA
1 TTAAAAATCTAAACTTTTTTTTAAA
251445 GAAAATCACT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
49 2 0.03
50 17 0.26
51 38 0.58
52 8 0.12
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (50 bp):
TTAAAAATCTAAACTTTTTTTTAAAATAGTTAAAAAACAGAAATTTATGT
Found at i:251469 original size:144 final size:145
Alignment explanation
Indices: 251130--251507 Score: 589
Period size: 144 Copynumber: 2.6 Consensus size: 145
251120 AATTCACTTC
*
251130 AAAATCTAAACTTTTTTTTTAATGAAAATCACTACTTTACTTAAAAAATCAAACTTTTATTTTGA
1 AAAATCTAAAC-TTTTTTTTAATGAAAATCACTACTTTACTT-AAAAATCAAACTTTTATTTCGA
251195 AATAATTAAAAAAAAATCAAAACTTTGTTTAAAAAATTGAAACTTTTTCTTTAAAATGACTAAAA
64 AATAATT--AAAAAAATCAAAACTTTGTTTAAAAAATTGAAACTTTTTCTTTAAAATGACTAAAA
*
251260 AACATATTTTTATTTTTTA
127 AACAGATTTTTATTTTTTA
*
251279 AAAATCTAAACTTTTTTTTAATGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAA
1 AAAATCTAAACTTTTTTTTAATGAAAATCACTACTTTACTTAAAAATC-AAACTTTTATTTCGAA
* * * *
251344 ATAGTTAAAAAAATCAAAATTTTGTTT-AAAAATTTAAACTTTTTCTTTAAAATGATTAAAAAAC
65 ATAATTAAAAAAATCAAAACTTTGTTTAAAAAATTGAAACTTTTTCTTTAAAATGACTAAAAAAC
251408 AGATTTTTA-TTTTTA
130 AGATTTTTATTTTTTA
* *
251423 AAAATCTAAACTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAACTTTTATTTCGAAA
1 AAAATCTAAACTTTTTTTTAATGAAAATCACTACTTTACTTAAAAATCAAACTTTTATTTCGAAA
* *
251488 TTATTTAAAAAAACCAAAAC
66 -TAATTAAAAAAATCAAAAC
251508 ATTTCCCAAA
Statistics
Matches: 214, Mismatches: 13, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
143 16 0.07
144 68 0.32
145 43 0.20
146 20 0.09
147 7 0.03
148 49 0.23
149 11 0.05
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (145 bp):
AAAATCTAAACTTTTTTTTAATGAAAATCACTACTTTACTTAAAAATCAAACTTTTATTTCGAAA
TAATTAAAAAAATCAAAACTTTGTTTAAAAAATTGAAACTTTTTCTTTAAAATGACTAAAAAACA
GATTTTTATTTTTTA
Found at i:251940 original size:3 final size:3
Alignment explanation
Indices: 251932--251973 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
251922 GAAACCCAAA
* * *
251932 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
251974 TTGGGCCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:252474 original size:42 final size:42
Alignment explanation
Indices: 252422--252712 Score: 336
Period size: 42 Copynumber: 6.9 Consensus size: 42
252412 AAAAAAATAA
* * *
252422 TAAATGGACCTCTACGCCTAGGTCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* *
252464 TAAATGGACCTCCACACCTAGGCCTTTTAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * * *
252506 TAAATGGACCTCCACA-TTTGAGACTCTAAATGCAATGAAAAT
1 TAAATGGACCTCCACACCTAG-GCCTCTAAATGCAATGAAAAG
* * * * * *
252548 TAAATAGACCTCTATA-CTTGAGCCTCTAAATGCGATAAAAAG
1 TAAATGGACCTCCACACCTAG-GCCTCTAAATGCAATGAAAAG
*
252590 TAAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* *
252632 TAAAT-GAGCCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGA-CCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * * *
252674 TAAATTGACCTCTACATCTAGGCCTCTAAACGCAATGAA
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAA
252713 TGTTTTCCTT
Statistics
Matches: 214, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
41 4 0.02
42 205 0.96
43 5 0.02
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (42 bp):
TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
Found at i:252647 original size:126 final size:126
Alignment explanation
Indices: 252445--252709 Score: 381
Period size: 126 Copynumber: 2.1 Consensus size: 126
252435 ACGCCTAGGT
* * *
252445 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTTTTAATGCAATGAAAAGTAAA
1 CTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAA
* *
252510 TGGACCTCCACATTTGAGACTCTAAATGCAATGAAAATTAAATAGACCTCTATACTTGAGC
66 TGGACCTCCACACTTGAGACTCTAAATGCAATGAAAAGTAAATAGACCTCTATACTTGAGC
* *
252571 CTCTAAATGCGATAAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAA
1 CTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAA
* * * * *
252636 T-GAGCCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATTGACCTCTACATCTAG-GC
66 TGGA-CCTCCACACTTGAGACTCTAAATGCAATGAAAAGTAAATAGACCTCTATA-CTTGAGC
*
252697 CTCTAAACGCAAT
1 CTCTAAATGCAAT
252710 GAATGTTTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 2 0.02
126 118 0.96
127 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (126 bp):
CTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAA
TGGACCTCCACACTTGAGACTCTAAATGCAATGAAAAGTAAATAGACCTCTATACTTGAGC
Found at i:253176 original size:17 final size:16
Alignment explanation
Indices: 253120--253176 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
253110 TCTCTTTCTA
253120 TTTTTTTTATTCTTTTT
1 TTTTTTTTATT-TTTTT
* *
253137 TGTTTTTTTCTCTTTTT
1 T-TTTTTTTATTTTTTT
* * *
253154 TGTTTTTTGTTTTTGT
1 TTTTTTTTATTTTTTT
253170 TTTTTTT
1 TTTTTTT
253177 CTTGATTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 17 0.53
17 7 0.22
18 8 0.25
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (16 bp):
TTTTTTTTATTTTTTT
Found at i:255659 original size:17 final size:17
Alignment explanation
Indices: 255639--255724 Score: 127
Period size: 17 Copynumber: 5.1 Consensus size: 17
255629 CCAATTTTAA
*
255639 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
255656 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
255673 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
* *
255690 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
255707 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
255724 A
1 A
255725 ATTAAAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:255667 original size:6 final size:6
Alignment explanation
Indices: 255634--255725 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
255624 TGAACCCAAT
* * * *
255634 TTTAAA TTTTAAA TTTTAA TTT-AT TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
255681 TTTAAA CTT-AT TTTGAG TTTAAA TTT-AT TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
255726 TTAAAAAAGG
Statistics
Matches: 67, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
5 15 0.22
6 46 0.69
7 6 0.09
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:255681 original size:34 final size:34
Alignment explanation
Indices: 255639--255724 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
255629 CCAATTTTAA
*
255639 ATTTTAAATTTTAATTTATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
* *
255673 ATTTTAAATTTAAACTTATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
255707 ATTTTAAATTTAAATTTA
1 ATTTTAAATTTAAATTTA
255725 ATTAAAAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (34 bp):
ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
Found at i:256144 original size:23 final size:22
Alignment explanation
Indices: 256103--256154 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
256093 AAAAATCAAT
*
256103 ATAGAGAGTATTCAAAGTGG-A
1 ATAGAGAGTATACAAAGTGGTA
*
256124 ATTGAGAGTATACAGACAGTGGTA
1 ATAGAGAGTATACA-A-AGTGGTA
256148 ATAGAGA
1 ATAGAGA
256155 AGCATAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 5 0.20
24 7 0.28
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (22 bp):
ATAGAGAGTATACAAAGTGGTA
Found at i:257591 original size:30 final size:30
Alignment explanation
Indices: 257557--257927 Score: 180
Period size: 29 Copynumber: 12.5 Consensus size: 30
257547 TTAACGATCC
257557 CATTTTTACCCCTAAACTTTCCTAAAATTA
1 CATTTTTACCCCTAAACTTTCCTAAAATTA
* *
257587 CATTTTAATCCCTAAACTTTTCC-AAAATTA
1 CATTTTTACCCCTAAAC-TTTCCTAAAATTA
* * **
257617 CATTTTGA-CCCTAGAACTTT-TTCAAAATGG
1 CATTTTTACCCCTA-AACTTTCCT-AAAATTA
* * * * *
257647 TA-TTTTAACCATCGAAC-TTCCCAAAATTA
1 CATTTTTACCCCT-AAACTTTCCTAAAATTA
* *
257676 CA-TTATAACCCTAAACTTTCCTAAAATTA
1 CATTTTTACCCCTAAACTTTCCTAAAATTA
* * * *
257705 TA-TTTTAACCCTCAAACTTTTC-AAAATTG
1 CATTTTTACCCCT-AAACTTTCCTAAAATTA
* * * * * *
257734 TATTTTAACCTC-GAGCTTTCCCAAAATTA
1 CATTTTTACCCCTAAACTTTCCTAAAATTA
* * * *
257763 CATTTTAACCCC-AAAATTTATCTAAAATCA
1 CATTTTTACCCCTAAACTTT-CCTAAAATTA
* * * *
257793 CA-TTTTAACCCTAAAATTTCTCAAAAATTC
1 CATTTTTACCCCTAAACTTTC-CTAAAATTA
* *
257823 CATTTTGACCCC-AAACTTCTCC-AAAATTC
1 CATTTTTACCCCTAAACTT-TCCTAAAATTA
*
257852 CATTTTTACCCCTAAAACTTT-TTAAAAATTA
1 CATTTTTACCCCT-AAACTTTCCT-AAAATTA
* * * *
257883 CATTTTAACCCTTAAAATTTTCC-AAAATCA
1 CATTTTTACCCCT-AAACTTTCCTAAAATTA
*
257913 CA-TTTTAACCCTAAA
1 CATTTTTACCCCTAAA
257928 ATTACATTTT
Statistics
Matches: 262, Mismatches: 58, Indels: 44
0.72 0.16 0.12
Matches are distributed among these distances:
28 12 0.05
29 109 0.42
30 97 0.37
31 44 0.17
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (30 bp):
CATTTTTACCCCTAAACTTTCCTAAAATTA
Found at i:257712 original size:58 final size:58
Alignment explanation
Indices: 257560--257927 Score: 307
Period size: 60 Copynumber: 6.2 Consensus size: 58
257550 ACGATCCCAT
*
257560 TTTTACCCCTAAACTTTCCTAAAATTACATTTTAATCCCT-AAACTTTTCCAAAATTACA
1 TTTTAACCCTAAACTTTCCTAAAATTACATTTTAA-CCCTCAAAC-TTTCCAAAATTACA
* * *** * * *
257619 TTTTGACCCTAGAACTTT-TTCAAAATGGTATTTTAACCATCGAACTTCCCAAAATTACA
1 TTTTAACCCTA-AACTTTCCT-AAAATTACATTTTAACCCTCAAACTTTCCAAAATTACA
* * * **
257678 TTATAACCCTAAACTTTCCTAAAATTATATTTTAACCCTCAAACTTTTCAAAATTGTA
1 TTTTAACCCTAAACTTTCCTAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACA
* * * * * *
257736 TTTTAA-CCTCGAGCTTTCCCAAAATTACATTTTAACCC-CAAAATTTATCTAAAATCACA
1 TTTTAACCCT-AAACTTTCCTAAAATTACATTTTAACCCTC-AAACTT-TCCAAAATTACA
* * * * *
257795 TTTTAACCCTAAAATTTCTCAAAAATTCCATTTTGACCC-CAAACTTCTCCAAAATTCCA
1 TTTTAACCCTAAACTTTC-CTAAAATTACATTTTAACCCTCAAACTT-TCCAAAATTACA
* * * * *
257854 TTTTTACCCCTAAAACTTT-TTAAAAATTACATTTTAACCCTTAAAATTTTCCAAAATCACA
1 -TTTTAACCCT-AAACTTTCCT-AAAATTACATTTTAACCC-TCAAACTTTCCAAAATTACA
257915 TTTTAACCCTAAA
1 TTTTAACCCTAAA
257928 ATTACATTTT
Statistics
Matches: 242, Mismatches: 53, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
57 4 0.02
58 70 0.29
59 71 0.29
60 76 0.31
61 16 0.07
62 5 0.02
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (58 bp):
TTTTAACCCTAAACTTTCCTAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACA
Found at i:257928 original size:29 final size:29
Alignment explanation
Indices: 257560--257930 Score: 273
Period size: 30 Copynumber: 12.6 Consensus size: 29
257550 ACGATCCCAT
* *
257560 TTTTACCCCT-AAACTTTCCTAAAATTACA
1 TTTTAACCCTAAAATTTTCC-AAAATTACA
*
257589 TTTTAATCCCTAAACTTTTCCAAAATTACA
1 TTTTAA-CCCTAAAATTTTCCAAAATTACA
* * * ***
257619 TTTTGACCCTAGAACTTTTTCAAAATGGTA
1 TTTTAACCCTA-AAATTTTCCAAAATTACA
* ** * *
257649 TTTTAACCATCGAACTTCCCAAAATTACA
1 TTTTAACCCTAAAATTTTCCAAAATTACA
* * *
257678 TTATAACCCT-AAACTTTCCTAAAATTATA
1 TTTTAACCCTAAAATTTTCC-AAAATTACA
* **
257707 TTTTAACCCTCAAACTTTT-CAAAATTGTA
1 TTTTAACCCT-AAAATTTTCCAAAATTACA
* ** *
257736 TTTTAA-CCTCGAGCTTTCCCAAAATTACA
1 TTTTAACCCT-AAAATTTTCCAAAATTACA
* * *
257765 TTTTAACCCCAAAATTTATCTAAAATCACA
1 TTTTAACCCTAAAATTT-TCCAAAATTACA
* *
257795 TTTTAACCCTAAAATTTCTCAAAAATTCCA
1 TTTTAACCCTAAAATTT-TCCAAAATTACA
* * * * *
257825 TTTTGACCCCAAACTTCTCCAAAATTCCA
1 TTTTAACCCTAAAATTTTCCAAAATTACA
* **
257854 TTTTTACCCCTAAAACTTTTTAAAAATTACA
1 -TTTTAACCCTAAAA-TTTTCCAAAATTACA
*
257885 TTTTAACCCTTAAAATTTTCCAAAATCACA
1 TTTTAACCC-TAAAATTTTCCAAAATTACA
257915 TTTTAACCCTAAAATT
1 TTTTAACCCTAAAATT
257931 ACATTTTAAC
Statistics
Matches: 268, Mismatches: 62, Indels: 24
0.76 0.18 0.07
Matches are distributed among these distances:
28 16 0.06
29 95 0.35
30 129 0.48
31 28 0.10
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTTAACCCTAAAATTTTCCAAAATTACA
Found at i:257934 original size:19 final size:19
Alignment explanation
Indices: 257906--257942 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
257896 AAAATTTTCC
257906 AAAATCACATTTTAACCCT
1 AAAATCACATTTTAACCCT
*
257925 AAAATTACATTTTAACCC
1 AAAATCACATTTTAACCC
257943 CGAATTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATCACATTTTAACCCT
Found at i:258172 original size:19 final size:19
Alignment explanation
Indices: 258148--258189 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
258138 ATTTTGCTAA
* *
258148 TAAATTGCACATTCATGTT
1 TAAATTACACATTCATCTT
*
258167 TAAATTACGCATTCATCTT
1 TAAATTACACATTCATCTT
258186 TAAA
1 TAAA
258190 ATTAAATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (19 bp):
TAAATTACACATTCATCTT
Found at i:270068 original size:39 final size:38
Alignment explanation
Indices: 270025--270321 Score: 221
Period size: 39 Copynumber: 7.6 Consensus size: 38
270015 TCGTCTGATA
* *
270025 TTTTACCCTGAGCTTGGGGTAGATTGCAGCCATTCGATC
1 TTTTACCCCGAGCTTGGGGCAGATT-CAGCCATTCGATC
* *
270064 TTTTACCTCGAGCTTGGGGCAGATTGCAGTCATTCGATC
1 TTTTACCCCGAGCTTGGGGCAGATT-CAGCCATTCGATC
** * *
270103 TTTTACCCCGAGCCAGGGGTAGATT-A-CCATTAGTAGATC
1 TTTTACCCCGAGCTTGGGGCAGATTCAGCCA-T--TCGATC
* * *
270142 TTTTACCCTGAACTTGGGGCAGA-TCA-CCATTAGCCAATC
1 TTTTACCCCGAGCTTGGGGCAGATTCAGCCATT---CGATC
* * * * *
270181 TCTTACCCCGAGCCTAGGGTATATTGCAGCCATTCGATC
1 TTTTACCCCGAGCTTGGGGCAGATT-CAGCCATTCGATC
* * *
270220 TTTTACCCTGAGCCTGGGGCAGA-TCA-CCATTAGTCAATC
1 TTTTACCCCGAGCTTGGGGCAGATTCAGCCA-T--TCGATC
* *
270259 TTTTACCCCGAG-TCTGTGGCAGATTACAGTCATTCGATC
1 TTTTACCCCGAGCT-TGGGGCAGATT-CAGCCATTCGATC
*
270298 TTTTACCCCGAGCGTGGGGCAGAT
1 TTTTACCCCGAGCTTGGGGCAGAT
270322 CACCATCAGC
Statistics
Matches: 202, Mismatches: 38, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
36 6 0.03
37 5 0.02
38 3 0.01
39 174 0.86
40 2 0.01
41 5 0.02
42 7 0.03
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (38 bp):
TTTTACCCCGAGCTTGGGGCAGATTCAGCCATTCGATC
Found at i:270148 original size:117 final size:116
Alignment explanation
Indices: 270025--270321 Score: 341
Period size: 117 Copynumber: 2.5 Consensus size: 116
270015 TCGTCTGATA
* * *
270025 TTTTACCCTGAGCTTGGGGTAGATTGCAGCCATTCGATCTTTTACCTCGAGCTTGGGGCAGATTG
1 TTTTACCCTGAGCTTGGGGCAGATT-CAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATTG
* * *
270090 CAGTCATTCGATCTTTTACCCCGAGCCAGGGGTAGATTACCATTAGT-AGATC
65 CAGCCATTCGATCTTTTACCCCGAGCCAGGGGCAGATCACCATTAGTCA-ATC
* * * * * *
270142 TTTTACCCTGAACTTGGGGCAGA-TCA-CCATTAGCCAATCTCTTACCCCGAGCCTAGGGTATAT
1 TTTTACCCTGAGCTTGGGGCAGATTCAGCCATT---CGATCTTTTACCCCGAGCCTGGGGCAGAT
* *
270205 TGCAGCCATTCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATTAGTCAATC
63 TGCAGCCATTCGATCTTTTACCCCGAGCCAGGGGCAGATCACCATTAGTCAATC
* * * *
270259 TTTTACCCCGAG-TCTGTGGCAGATTACAGTCATTCGATCTTTTACCCCGAGCGTGGGGCAGAT
1 TTTTACCCTGAGCT-TGGGGCAGATT-CAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGAT
270322 CACCATCAGC
Statistics
Matches: 148, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
114 5 0.03
115 2 0.01
116 2 0.01
117 131 0.89
118 2 0.01
119 2 0.01
120 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (116 bp):
TTTTACCCTGAGCTTGGGGCAGATTCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATTGC
AGCCATTCGATCTTTTACCCCGAGCCAGGGGCAGATCACCATTAGTCAATC
Found at i:270322 original size:78 final size:79
Alignment explanation
Indices: 270027--270369 Score: 313
Period size: 78 Copynumber: 4.4 Consensus size: 79
270017 GTCTGATATT
* * * * * **
270027 TTACCCTGAG-CTTGGGGTAGATTGCAGCCATTCGATCTTTTACCTCGAGCTTGGGGCAGAT-TG
1 TTACCCCGAGCCTAGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCAC
** * *
270090 CAGTCATTCGATCTT
66 CA-TCAGCCAATCTC
* ** * * * *
270105 TTACCCCGAGCC-AGGGGTAGATTACCA-TTAGTAGATCTTTTACCCTGAACTTGGGGCAGATCA
1 TTACCCCGAGCCTAGGGGCAGATTA-CAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCA
*
270168 CCATTAGCCAATCTC
65 CCATCAGCCAATCTC
* * * * *
270183 TTACCCCGAGCCTA-GGGTATATTGCAGCCATTCGATCTTTTACCCTGAGCCTGGGGCAGATCAC
1 TTACCCCGAGCCTAGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCAC
* * *
270247 CATTAGTCAATCTT
66 CATCAGCCAATCTC
* * * *
270261 TTACCCCGAGTCT-GTGGCAGATTACAGTCATTCGATCTTTTACCCCGAGCGTGGGGCAGATCAC
1 TTACCCCGAGCCTAGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCAC
*
270325 CATCAGCCAAACTC
66 CATCAGCCAATCTC
* *
270339 TTACCTCGAG-CTAGGGGCAGATTACAACCAT
1 TTACCCCGAGCCTAGGGGCAGATTACAGCCAT
270370 CCAATATCTT
Statistics
Matches: 215, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
77 4 0.02
78 205 0.95
79 6 0.03
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (79 bp):
TTACCCCGAGCCTAGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCAC
CATCAGCCAATCTC
Found at i:270343 original size:39 final size:38
Alignment explanation
Indices: 270061--270360 Score: 180
Period size: 39 Copynumber: 7.7 Consensus size: 38
270051 CAGCCATTCG
* ** * *
270061 ATCTTTTACCTCGAGCTTGGGGCAGAT-TGCAGTCATTCG
1 ATCTTTTACCCCGAGC-TGGGGCAGATCACCA-TCAGTCA
* * * *
270100 ATCTTTTACCCCGAGCCAGGGGTAGATTACCATTAGT-A
1 ATCTTTTACCCCGAG-CTGGGGCAGATCACCATCAGTCA
* * * *
270138 GATCTTTTACCCTGAACTTGGGGCAGATCACCATTAGCCA
1 -ATCTTTTACCCCGAGC-TGGGGCAGATCACCATCAGTCA
* * * * *
270178 ATCTCTTACCCCGAGCCTAGGGTATATTGCAGCCAT---TCG
1 ATCTTTTACCCCGAG-CTGGGGCAGA-T-CA-CCATCAGTCA
* *
270217 ATCTTTTACCCTGAGCCTGGGGCAGATCACCATTAGTCA
1 ATCTTTTACCCCGAG-CTGGGGCAGATCACCATCAGTCA
* * * *
270256 ATCTTTTACCCCGAGTCTGTGGCAGATTA-CAGTCATTCG
1 ATCTTTTACCCCGAG-CTGGGGCAGATCACCA-TCAGTCA
*
270295 ATCTTTTACCCCGAGCGTGGGGCAGATCACCATCAGCCA
1 ATCTTTTACCCCGAGC-TGGGGCAGATCACCATCAGTCA
* * *
270334 AACTCTTACCTCGAGCTAGGGGCAGAT
1 ATCTTTTACCCCGAGCT-GGGGCAGAT
270361 TACAACCATC
Statistics
Matches: 202, Mismatches: 43, Indels: 32
0.73 0.16 0.12
Matches are distributed among these distances:
36 4 0.02
37 2 0.01
38 6 0.03
39 176 0.87
40 8 0.04
41 2 0.01
42 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (38 bp):
ATCTTTTACCCCGAGCTGGGGCAGATCACCATCAGTCA
Found at i:270898 original size:17 final size:17
Alignment explanation
Indices: 270878--270963 Score: 118
Period size: 17 Copynumber: 5.1 Consensus size: 17
270868 ATTGAACCCA
*
270878 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
270895 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
270912 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
* *
270929 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
270946 ATTTTAAATCTAAATTT
1 ATTTTAAATTTAAATTT
270963 A
1 A
270964 ATTAAAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:270906 original size:6 final size:6
Alignment explanation
Indices: 270880--270964 Score: 52
Period size: 6 Copynumber: 14.8 Consensus size: 6
270870 TGAACCCAAT
* * * *
270880 TTTAAA TTTTAA TTT-AT TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
270926 CTT-AT TTTGAG TTTAAA TTT-AT TTTAAA TCTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
270965 TTAAAAAAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
5 15 0.25
6 44 0.75
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:270916 original size:34 final size:34
Alignment explanation
Indices: 270878--270963 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 34
270868 ATTGAACCCA
*
270878 ATTTTAAATTTTAATTTATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
* *
270912 ATTTTAAATTTAAACTTATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
*
270946 ATTTTAAATCTAAATTTA
1 ATTTTAAATTTAAATTTA
270964 ATTAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (34 bp):
ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
Found at i:270917 original size:11 final size:12
Alignment explanation
Indices: 270877--270964 Score: 51
Period size: 11 Copynumber: 7.7 Consensus size: 12
270867 AATTGAACCC
270877 AATTTTAAATTTT
1 AATTTTAAA-TTT
*
270890 AA-TTT-ATTTT
1 AATTTTAAATTT
*
270900 AAGTTTAAATTT
1 AATTTTAAATTT
270912 -ATTTTAAATTT
1 AATTTTAAATTT
** *
270923 AAACTT-ATTTT
1 AATTTTAAATTT
* *
270934 GAGTTTAAATTT
1 AATTTTAAATTT
*
270946 -ATTTTAAATCT
1 AATTTTAAATTT
*
270957 AAATTTAA
1 AATTTTAA
270965 TTAAAAAAAG
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
10 5 0.09
11 30 0.53
12 20 0.35
13 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (12 bp):
AATTTTAAATTT
Done.