Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 60 of 128
Found at i:19125598 original size:27 final size:28
Alignment explanation
Indices: 19125568--19125621 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
19125558 ATTTTTGTTA
19125568 TATTTAACATATATTAA-CTTTA-ATAAT
1 TATTTAACATA-ATTAACCTTTATATAAT
* *
19125595 TATTTTACCTAATTAACCTTTATATAA
1 TATTTAACATAATTAACCTTTATATAA
19125622 ATAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 14 0.61
28 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
TATTTAACATAATTAACCTTTATATAAT
Found at i:19130387 original size:13 final size:13
Alignment explanation
Indices: 19130369--19130394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19130359 TATTATTAAT
19130369 ATTATTTTGTGTG
1 ATTATTTTGTGTG
19130382 ATTATTTTGTGTG
1 ATTATTTTGTGTG
19130395 CATTTGATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
ATTATTTTGTGTG
Found at i:19131902 original size:41 final size:42
Alignment explanation
Indices: 19131840--19131925 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 42
19131830 ATAAGGTGGT
*
19131840 TGAATGTAATACAGACTTTACGTCTAGCAGGCTTGATGCCGG
1 TGAATGTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGG
*
19131882 TGAA-GTAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
1 TGAATGTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGG
19131923 TGA
1 TGA
19131926 TACATTTCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAATGTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGG
Found at i:19131947 original size:41 final size:41
Alignment explanation
Indices: 19131840--19131965 Score: 121
Period size: 41 Copynumber: 3.0 Consensus size: 41
19131830 ATAAGGTGGT
* ** *
19131840 TGAATGTAATACAGACTTTACGTCTAGCAGGCTTGATGCCGG
1 TGAA-GTAATTCAGACTAAACGTCTAGCAGGCTTAATGCCGG
**
19131882 TGAAGTAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
1 TGAAGTAATTCAGACTAAACGTCTAGCAGGCTTAATGCCGG
* * * *
19131923 TG-A-TACATTTCGGACTAAATGTCTAGTAGGCTAAATGCCGG
1 TGAAGTA-A-TTCAGACTAAACGTCTAGCAGGCTTAATGCCGG
19131964 TG
1 TG
19131966 TACTGAATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 66 0.89
42 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (41 bp):
TGAAGTAATTCAGACTAAACGTCTAGCAGGCTTAATGCCGG
Found at i:19132882 original size:40 final size:43
Alignment explanation
Indices: 19132806--19132901 Score: 108
Period size: 41 Copynumber: 2.3 Consensus size: 43
19132796 GGGGTGTTAC
* * * * *
19132806 AAACGCCGCTATCGTTTTTAACCTTTTGCTATGTTTAT-GCAA
1 AAACGCCGCTATTGTCTTTAACCTTTCGCAACGTTTATGGCAA
*
19132848 AAACGCCGCTATTG-CTTT-ACCTTTCGCAACGTTTATGGGAA
1 AAACGCCGCTATTGTCTTTAACCTTTCGCAACGTTTATGGCAA
*
19132889 AAATGCCGCTATT
1 AAACGCCGCTATT
19132902 TTTGTTATAC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
40 15 0.33
41 18 0.39
42 13 0.28
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (43 bp):
AAACGCCGCTATTGTCTTTAACCTTTCGCAACGTTTATGGCAA
Found at i:19142562 original size:51 final size:51
Alignment explanation
Indices: 19142482--19142824 Score: 328
Period size: 51 Copynumber: 6.8 Consensus size: 51
19142472 TATTGATGAA
* *
19142482 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
* * * * * * *
19142533 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GT
* *
19142584 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGATAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGT
* * * * * * *
19142635 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TATC-GATAA-ATATTGGT
* * * *
19142686 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCATAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGT
* * *
19142736 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGT
19142785 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
19142825 ATGATAAAAA
Statistics
Matches: 236, Mismatches: 42, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
49 40 0.17
50 52 0.22
51 139 0.59
52 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
Found at i:19142658 original size:102 final size:101
Alignment explanation
Indices: 19142482--19142824 Score: 405
Period size: 102 Copynumber: 3.4 Consensus size: 101
19142472 TATTGATGAA
*
19142482 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAACT-ATGGTCACATGTGTAGTA
19142546 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAG-TTTGAG
* * * *
19142584 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGATAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACATGTGTAGTAC
19142649 TAAGTGAAGGCTACTATG-GATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTG-TACCGAG-AAG-TTTGAG
* * * * *
19142685 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCATAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAT-AAACTATGGTCACATGTGTAGT
* * * * ** *
19142748 ACTATGTGAAGGCTACTACGTGAACTGTA-AA-ACTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTGAG
19142785 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
19142825 ATGATAAAAA
Statistics
Matches: 208, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
99 35 0.17
100 3 0.01
101 42 0.20
102 127 0.61
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTGAG
Found at i:19149309 original size:25 final size:25
Alignment explanation
Indices: 19149281--19149355 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
19149271 TTTTACGAAA
19149281 TGATAAAAATTTTATACTCAATCCT
1 TGATAAAAATTTTATACTCAATCCT
19149306 TGATAAAAATTTTATACTCAATCCT
1 TGATAAAAATTTTATACTCAATCCT
19149331 TGATAAAAATTTTATACTCAATCCT
1 TGATAAAAATTTTATACTCAATCCT
19149356 CTATTTATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
TGATAAAAATTTTATACTCAATCCT
Found at i:19149754 original size:32 final size:32
Alignment explanation
Indices: 19149694--19149756 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
19149684 AAAAAAAAAA
* *
19149694 ATGAATTATCAAATTAAATTAATTAATTTATC
1 ATGAATTATCAAATTAAAGTAATCAATTTATC
* * *
19149726 ATGAGTTATTAAATTCAAGTAATCAATTTAT
1 ATGAATTATCAAATTAAAGTAATCAATTTAT
19149757 AAATTTATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATGAATTATCAAATTAAAGTAATCAATTTATC
Found at i:19149918 original size:16 final size:16
Alignment explanation
Indices: 19149897--19149939 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
19149887 GTGAAGTATA
*
19149897 AATATTTTATTAAGAT
1 AATATTTTATTAAAAT
19149913 AATATTTTAATTAAAAT
1 AATATTTT-ATTAAAAT
*
19149930 CAT-TTTTATT
1 AATATTTTATT
19149940 TAATACATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:19159442 original size:52 final size:53
Alignment explanation
Indices: 19159356--19159499 Score: 191
Period size: 52 Copynumber: 2.7 Consensus size: 53
19159346 AGGAGAAGGT
* * ***
19159356 ACCAAGGCAAAAACCCGCAAAGGGCGCTTCGAGTCTTGAAAAAAAAA-GAGAG
1 ACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAAAAAGGAGAG
*
19159408 ACCAAGGCGAAAACCCGCAAAGGGAGCTTTGAGTCCAAAAAAAAAAAGGAGAG
1 ACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAAAAAGGAGAG
* * * *
19159461 GCCAAGGTGAAAACCCGCGAAGGGCGCTTTGAGACCAAA
1 ACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCAAA
19159500 GGGGATTTGA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
52 41 0.51
53 39 0.49
ACGTcount: A:0.42, C:0.22, G:0.27, T:0.09
Consensus pattern (53 bp):
ACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAAAAAGGAGAG
Found at i:19160855 original size:44 final size:44
Alignment explanation
Indices: 19160706--19161361 Score: 436
Period size: 44 Copynumber: 14.9 Consensus size: 44
19160696 CATTATGGCG
* ** **
19160706 AATCTTATCTCCCTGAAGTTCCAGTGGAGCAGATCAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
19160749 TAATCCTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAG-T-TA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
** * *
19160792 TGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
19160836 AATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAA-ACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * * * * * **
19160880 AGTTTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* ** * *
19160924 AACCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* ** * *
19160968 AATCCTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
19161012 AATCTTATCTCTCTGAGGTTGCAGTAGAGCA-AAT-CATAT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * ** * * *
19161053 AACCTTATCTCCCTGAAGTTACAGTGGAATAGGTTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
19161097 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * * *
19161142 GATCTTATTTCTCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A----CA
* * * * * *
19161193 AATATTGTCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATAT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
19161234 AA-CATTATTTTCCTAAAGTTGCAGTAGAGCAGGTTGAAGTTACA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
19161278 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
* * * *
19161323 AAT-TTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAG
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
19161362 CTATAAATTA
Statistics
Matches: 466, Mismatches: 124, Indels: 43
0.74 0.20 0.07
Matches are distributed among these distances:
41 53 0.11
42 36 0.08
43 9 0.02
44 267 0.57
45 64 0.14
47 4 0.01
48 1 0.00
49 1 0.00
50 1 0.00
51 30 0.06
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:19161103 original size:85 final size:85
Alignment explanation
Indices: 19160884--19161308 Score: 269
Period size: 85 Copynumber: 4.8 Consensus size: 85
19160874 ACTACAAGTT
* * * * ** ** * *
19160884 TTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* *
19160949 AAAGCAAATTGA-AGCTACAAATCC
66 AGAGCAAA-TCATA--T-CAAA-CC
* * * * *
19160973 -TATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACAAATCTTATCTCTCTGAGGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
19161037 AGAGCAAATCATATCAAACC
66 AGAGCAAATCATATCAAACC
* * *
19161057 TTATCTCCCTGAAGTTACAGTGGAATAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* ** * * *
19161122 GGAGCAGACTGAAGATAGCAGATC
66 AGAGCA-A---ATCATATCAAACC
* * ** * * * * * *
19161146 TTATTTCTCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAGTTGCAAATATTGTCTCTCTGAAG
1 TTATCTCCCTGAAGTTACAGT-G----GAGT-AGGTTA-AAGTTACAAATCTTATCTCTCTGAAG
* *
19161211 TTGCAGTAGAGCAGATCATATCAAACA
59 TTGCAGTAGAGCAAATCATATCAAACC
* * * * * * * *
19161238 TTATTTTCCTAAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
*
19161303 GGAGCA
66 AGAGCA
19161309 GACTGAAGAT
Statistics
Matches: 261, Mismatches: 62, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
84 2 0.01
85 99 0.38
86 5 0.02
87 4 0.02
88 61 0.23
89 25 0.10
90 1 0.00
92 24 0.09
94 3 0.01
95 4 0.02
96 33 0.13
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
AGAGCAAATCATATCAAACC
Found at i:19161224 original size:96 final size:95
Alignment explanation
Indices: 19161089--19161406 Score: 295
Period size: 96 Copynumber: 3.4 Consensus size: 95
19161079 GAATAGGTTA
* * * *
19161089 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATTTCT
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATCTTATTTCT
*
19161154 CTGAAGTTGTAGTAGAACAGATTCAAGCTAT
66 CTAAAGTTGTAGTAGAACAGATT-AAGCTAT
* * * * * *
19161185 AAGTTGCAAATATTGTCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCA-AACATTATTT-
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATC-TTATTTC
* * *
19161244 TCCTAAAGTTGCAGTAGAGCAGGTT--G----
65 T-CTAAAGTTGTAGTAGAACAGATTAAGCTAT
* *
19161270 AAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC-GAAT-TTCATTT
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAG-ATCTT-ATTT
* *
19161333 CCCTAAAGTTGTAGTGGAACAGATTGAAGCTAT
64 CTCTAAAGTTGTAGTAGAACAGATT-AAGCTAT
* * *
19161366 AAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
19161407 TCATAGCAAA
Statistics
Matches: 174, Mismatches: 31, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
85 36 0.21
86 1 0.01
88 2 0.01
89 28 0.16
90 1 0.01
91 3 0.02
92 31 0.18
95 1 0.01
96 71 0.41
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (95 bp):
AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATCTTATTTCT
CTAAAGTTGTAGTAGAACAGATTAAGCTAT
Found at i:19161233 original size:181 final size:181
Alignment explanation
Indices: 19161008--19161528 Score: 650
Period size: 181 Copynumber: 2.9 Consensus size: 181
19160998 AGATTGAAGC
* * * *
19161008 TACAAATCTTATCTCTCTGAGGTTGCAGTAGAGCAAATCATATCAAACCTTATCTCCCTGAAGTT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTAAAGTT
* * *
19161073 ACAGTGGAATAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* *
19161138 AGC-AGATCTTATTTCTCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAGT
131 AGCGA-ATCTTATTTCCCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
* * * * *
19161189 TGCAAATATTGTCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACATTATTTTCCTAAAGTT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTAAAGTT
* * *
19161254 GCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* * * *
19161319 AACGAAT-TTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAAT
131 AGCGAATCTT-ATTTCCCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
* * * * * **
19161370 TACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATAGCAAACCCTATTTCCTTAAAACT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTAAAGTT
* * * * * * * * *
19161435 GCAATGGGGTAGATTGAAGTCACAAGTCTTATCTCCCTAAAGTTACAGTGGAGAAGATTGAAGGT
66 GCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* * *
19161500 AGTGAATCTTATCTCCCCGAAGTTGTAGT
131 AGCGAATCTTATTTCCCTGAAGTTGTAGT
19161529 GAGTTAGGAA
Statistics
Matches: 287, Mismatches: 50, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
180 2 0.01
181 282 0.98
182 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (181 bp):
TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTCCCTAAAGTT
GCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
AGCGAATCTTATTTCCCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
Found at i:19162852 original size:14 final size:13
Alignment explanation
Indices: 19162830--19162863 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
19162820 CCTTTTAAAG
19162830 TTTATTTTTTTTAT
1 TTTA-TTTTTTTAT
19162844 TCTTATTTTTTTAT
1 T-TTATTTTTTTAT
19162858 TTTATT
1 TTTATT
19162864 ATTATCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 11 0.58
15 3 0.16
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:19162893 original size:3 final size:3
Alignment explanation
Indices: 19162887--19162918 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19162877 TTTTTTGATT
19162887 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
19162919 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:19163116 original size:44 final size:44
Alignment explanation
Indices: 19163053--19163798 Score: 433
Period size: 44 Copynumber: 16.8 Consensus size: 44
19163043 NNNNNNNNNG
* *
19163053 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * *
19163097 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAA-ACTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAA
* * * * * **
19163141 TTTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAGCCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* ** * *
19163185 CCTTATCTCCCTGAAGTTGCAGTAAAGCAAATTGAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* ** * *
19163229 TCCTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * * * * *
19163273 TCTTATCTCTCTGAGGTTGCAGTAGAGCA-AAT-CATAT-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * ** * * * *
19163314 CCTTATCTCCCTGAAGTTACAGTGGAATAGGTTAAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* *
19163358 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAA
* * * * * *
19163403 TCTTATTTCTCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAGTTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A----CAAA
* * * * * *
19163454 TATTGTCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATAT-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * * * * * *
19163495 -CATTATTTTCCTAAAGTTGCAGTAGAGCAGGTTGAAGTTACAAG
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * *
19163539 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAA
* * * * *
19163584 T-TTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAATTACAGA
1 TCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACAAA
** * *
19163635 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAA
* * * * * * **
19163676 CCCTATTTTCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * * * * *
19163720 CCTTATCCCCCTGAAGTTGCAGTGGAGTAGGTTG-AGGT-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * *
19163762 TCTTATCTCCCTAAAGTCGCAGTGGAGTAGATTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
19163799 TTAGTGAGTC
Statistics
Matches: 524, Mismatches: 145, Indels: 67
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.00
41 80 0.15
42 37 0.07
43 11 0.02
44 263 0.50
45 65 0.12
47 4 0.01
48 1 0.00
49 1 0.00
50 2 0.00
51 55 0.10
52 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
Found at i:19163362 original size:85 final size:85
Alignment explanation
Indices: 19163143--19163567 Score: 269
Period size: 85 Copynumber: 4.8 Consensus size: 85
19163133 ACTACAAGTT
* * * * ** ** * *
19163143 TTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* *
19163208 AAAGCAAATTGA-AGCTACAAATCC
66 AGAGCAAA-TCATA--T-CAAA-CC
* * * * *
19163232 -TATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGCTACAAATCTTATCTCTCTGAGGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
19163296 AGAGCAAATCATATCAAACC
66 AGAGCAAATCATATCAAACC
* * *
19163316 TTATCTCCCTGAAGTTACAGTGGAATAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
* ** * * *
19163381 GGAGCAGACTGAAGATAGCAGATC
66 AGAGCA-A---ATCATATCAAACC
* * ** * * * * * *
19163405 TTATTTCTCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAGTTGCAAATATTGTCTCTCTGAAG
1 TTATCTCCCTGAAGTTACAGT-G----GAGT-AGGTTA-AAGTTACAAATCTTATCTCTCTGAAG
* *
19163470 TTGCAGTAGAGCAGATCATATCAAACA
59 TTGCAGTAGAGCAAATCATATCAAACC
* * * * * * * *
19163497 TTATTTTCCTAAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
*
19163562 GGAGCA
66 AGAGCA
19163568 GACTGAAGAT
Statistics
Matches: 261, Mismatches: 62, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
84 2 0.01
85 99 0.38
86 5 0.02
87 4 0.02
88 61 0.23
89 25 0.10
90 1 0.00
92 24 0.09
94 3 0.01
95 4 0.02
96 33 0.13
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
TTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGTTACAAATCTTATCTCTCTGAAGTTGCAGT
AGAGCAAATCATATCAAACC
Found at i:19163483 original size:96 final size:95
Alignment explanation
Indices: 19163348--19163665 Score: 295
Period size: 96 Copynumber: 3.4 Consensus size: 95
19163338 GAATAGGTTA
* * * *
19163348 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATTTCT
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATCTTATTTCT
*
19163413 CTGAAGTTGTAGTAGAACAGATTCAAGCTAT
66 CTAAAGTTGTAGTAGAACAGATT-AAGCTAT
* * * * * *
19163444 AAGTTGCAAATATTGTCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATCA-AACATTATTT-
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATC-TTATTTC
* * *
19163503 TCCTAAAGTTGCAGTAGAGCAGGTT--G----
65 T-CTAAAGTTGTAGTAGAACAGATTAAGCTAT
* *
19163529 AAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC-GAAT-TTCATTT
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAG-ATCTT-ATTT
* *
19163592 CCCTAAAGTTGTAGTGGAACAGATTGAAGCTAT
64 CTCTAAAGTTGTAGTAGAACAGATT-AAGCTAT
* * *
19163625 AAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
19163666 TCATAGCAAA
Statistics
Matches: 174, Mismatches: 31, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
85 36 0.21
86 1 0.01
88 2 0.01
89 28 0.16
90 1 0.01
91 3 0.02
92 31 0.18
95 1 0.01
96 71 0.41
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (95 bp):
AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAACAGATCTTATTTCT
CTAAAGTTGTAGTAGAACAGATTAAGCTAT
Found at i:19163492 original size:181 final size:181
Alignment explanation
Indices: 19163267--19163746 Score: 640
Period size: 181 Copynumber: 2.7 Consensus size: 181
19163257 AGATTGAAGC
* * * *
19163267 TACAAATCTTATCTCTCTGAGGTTGCAGTAGAGCAAATCATATCAAACCTTATCTCCCTGAAGTT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTTCCTGAAGTT
* **
19163332 ACAGTGGAATAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* * * *
19163397 AGC-AGATCTT-ATTTCTCTGAAGTTGTAGTAGAACAGATTCAAGCTATAAGT
131 AACGA-AT-TTCATTTCCCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
* * * * *
19163448 TGCAAATATTGTCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACATTATTTTCCTAAAGTT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTTCCTGAAGTT
* * *
19163513 GCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
* *
19163578 AACGAATTTCATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAAT
131 AACGAATTTCATTTCCCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
* * * *
19163629 TACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATAGCAAACCCTATTTTCCTGAAGTT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTTCCTGAAGTT
* * ** ** *
19163694 GTAGTGGAGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTGGAG
66 GCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
19163747 TAGGTTGAGG
Statistics
Matches: 257, Mismatches: 40, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
180 2 0.01
181 254 0.99
182 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (181 bp):
TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTATTTTCCTGAAGTT
GCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
AACGAATTTCATTTCCCTAAAGTTGTAGTAGAACAGATTCAAGCTATAAAT
Found at i:19165293 original size:255 final size:255
Alignment explanation
Indices: 19164841--19165312 Score: 700
Period size: 255 Copynumber: 1.8 Consensus size: 255
19164831 GGCTATGACC
* * * * * *
19164841 CGCGCGGTGACCCCACCCGAGGGAAGGATCTGCGTGTTTTTGATTAATGGGCAATCTGCGCATTT
1 CGCGCGGTGACCACACCCCAGGGAAGGATCCGCGTGCTTTTGATTAAGGGGCAATCTGCGCATCT
** * *
19164906 GGCCCCTTTGCATTTTTTAATTATTTTAATTCAATTTTTTTATTTTCTTCAATTGATGCTTTACA
66 GGCCCCTCCGCATTTTTTAATTATTTTAATTCAATTTTTTTAGTTTCTTCAATTGATACTTTACA
* * *
19164971 TTTTATTTGGTTTCTGATTTGGTCCTGGTGAAACGGTGCGTTTCAGGGGGCAGGAATATTTCCCC
131 TTTTATTTGGTTTCTGATTTGGACCTGGTGAAACGGCGCGTTTAAGGGGG-AGGAATATTTCCCC
19165036 ATTCGGTCCCTTTGAGTTATTCTCACGTTTTATTTTATTTACGTTTTTCCCTCTAATTTGT
195 ATTCGGTCCCTTTGAGTTATTCTCACGTTTTATTTTATTTACGTTTTTCCCTCTAATTTGT
* *
19165097 CGCGCGGTGACCAGACCCACAGGG-AGGATCCGCGTGCTTTTGATTAAGGGGCAATTTGCGCATC
1 CGCGCGGTGACCACACCC-CAGGGAAGGATCCGCGTGCTTTTGATTAAGGGGCAATCTGCGCATC
* * * *
19165161 TGGCCCCTCCGCA-TTTTTAATTATTTTAATTTAGTTTTTTTAGTTTCTTTAATTGATACTTTAG
65 TGGCCCCTCCGCATTTTTTAATTATTTTAATTCAATTTTTTTAGTTTCTTCAATTGATACTTTAC
19165225 ATTTTATTTGGTTTCTGATTTGGACCTGGTGAAACGGCGCGTCTTAAAGGGTGG-GG-ATATTTC
130 ATTTTATTTGGTTTCTGATTTGGACCTGGTGAAACGGCGCGT-TT-AAGGG-GGAGGAATATTTC
19165288 CCCATTCGGTCCCTTTGAGTTATTC
192 CCCATTCGGTCCCTTTGAGTTATTC
19165313 GCGCCTTTCA
Statistics
Matches: 193, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
255 117 0.61
256 66 0.34
257 8 0.04
258 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (255 bp):
CGCGCGGTGACCACACCCCAGGGAAGGATCCGCGTGCTTTTGATTAAGGGGCAATCTGCGCATCT
GGCCCCTCCGCATTTTTTAATTATTTTAATTCAATTTTTTTAGTTTCTTCAATTGATACTTTACA
TTTTATTTGGTTTCTGATTTGGACCTGGTGAAACGGCGCGTTTAAGGGGGAGGAATATTTCCCCA
TTCGGTCCCTTTGAGTTATTCTCACGTTTTATTTTATTTACGTTTTTCCCTCTAATTTGT
Found at i:19165555 original size:23 final size:22
Alignment explanation
Indices: 19165495--19165556 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
19165485 ATTAAGCTCA
* *
19165495 ATTATTATTTTAAATTTATTATT
1 ATTATTGTTTT-AATTTATCATT
** *
19165518 AACATTGTTTAAATTTATCATAT
1 ATTATTGTTTTAATTTATCAT-T
19165541 ATTATTGTTTTAATTT
1 ATTATTGTTTTAATTT
19165557 CCATCTATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (22 bp):
ATTATTGTTTTAATTTATCATT
Found at i:19176053 original size:16 final size:16
Alignment explanation
Indices: 19176032--19176075 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
19176022 TGGGTATAGC
19176032 TAGAGAAAAATAAAGA
1 TAGAGAAAAATAAAGA
*
19176048 TAGAGAAAAATAAAGC
1 TAGAGAAAAATAAAGA
19176064 TAGAGAGAAAAT
1 TAGAGA-AAAAT
19176076 GTTTCAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.20, T:0.14
Consensus pattern (16 bp):
TAGAGAAAAATAAAGA
Found at i:19181640 original size:51 final size:51
Alignment explanation
Indices: 19181564--19181664 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
19181554 AGCCAAAAAT
* *
19181564 TCCTATGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGTTAGTTAG
1 TCCTACGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTTAG
*
19181615 TCCTACGTGACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTTA
1 TCCTACGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTTA
19181665 TATGAGAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (51 bp):
TCCTACGTAACCTTGACAAGTCAATTTATGGATGAGTATCATGCTAGTTAG
Found at i:19184397 original size:46 final size:46
Alignment explanation
Indices: 19184276--19184399 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
19184266 TATAAATCAA
* * ** * *
19184276 TATGGTTTTCTTTACTAAAATACCATACCGACTTTTCACAACTCAG
1 TATGGTTTTCTTTACTGAAATACCATACCTACGATCCAAAACTCAG
*
19184322 TATGGTTTTCGTTACTGAAATACCATACCTACGATCCAAAACTCAG
1 TATGGTTTTCTTTACTGAAATACCATACCTACGATCCAAAACTCAG
*
19184368 TATGGTTTTCTTTACTGAATTACCATACCTAC
1 TATGGTTTTCTTTACTGAAATACCATACCTAC
19184400 ATTCCACACT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (46 bp):
TATGGTTTTCTTTACTGAAATACCATACCTACGATCCAAAACTCAG
Found at i:19191308 original size:46 final size:46
Alignment explanation
Indices: 19191186--19191313 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
19191176 ACAATGTTAT
* *
19191186 AACTTAGTATGGTTTTCTTCACT-AAATACCATACCTACTTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTCCAC
*
19191231 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACTTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTCCAC
* * * *
19191277 AACTCAGTATGGTTTTATTTATTGAATTACCACACCT
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCT
19191314 GAATTCCACA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 20 0.27
46 54 0.73
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTCCAC
Found at i:19192765 original size:13 final size:13
Alignment explanation
Indices: 19192747--19192771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19192737 TTAATGATAT
19192747 AAAATAAATAAAG
1 AAAATAAATAAAG
19192760 AAAATAAATAAA
1 AAAATAAATAAA
19192772 TATGAAAAAT
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAG
Found at i:19196346 original size:82 final size:82
Alignment explanation
Indices: 19196237--19196632 Score: 475
Period size: 82 Copynumber: 4.9 Consensus size: 82
19196227 TATGTTTTGA
*** * * * *
19196237 GATTTATTCCTATTGTTCAACAAATTTTATTCCATTTTGATTTTGTTTCCAAACAGGAATTAATT
1 GATTTATTCCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATT
*
19196302 GAATAATTCTATTTCGG
66 AAATAATTCTATTTCGG
* * **
19196319 GATTTATTCCTACCATTTAATAGATTTTATTCGATGTTGATTTTGTTTCCAAATGAGAATTAATT
1 GATTTATTCCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATT
* *
19196384 GAATAATTCTATTTCAG
66 AAATAATTCTATTTCGG
** ** *
19196401 GATTTATTCCCGCTGTTTAACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATT
1 GATTTATTCCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATT
*
19196466 AAATAATTCTATTTTGG
66 AAATAATTCTATTTCGG
* *
19196483 GATTTATT-CT-CGCTATTTAACA-A-ATT-TT--ATTTTGATTTTGTTTCCAAACAAGATTTAA
1 GATTTATTCCTAC-C-ATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAA
*
19196541 TTAAATAATTCTATTTTGG
64 TTAAATAATTCTATTTCGG
* * *
19196560 GATTTATTCC-ACCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGATTTAAT
1 GATTTATTCCTA-CCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAAT
19196624 TAAATAATT
65 TAAATAATT
19196633 TTTTTTCAAG
Statistics
Matches: 271, Mismatches: 33, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
77 62 0.23
78 3 0.01
79 5 0.02
80 5 0.02
81 2 0.01
82 194 0.72
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (82 bp):
GATTTATTCCTACCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATT
AAATAATTCTATTTCGG
Found at i:19196592 original size:159 final size:162
Alignment explanation
Indices: 19196255--19196632 Score: 516
Period size: 159 Copynumber: 2.3 Consensus size: 162
19196245 CCTATTGTTC
* * * *
19196255 AACAAATTTTATTCCATTTTGATTTTGTTTCCAAACAGGAATTAATTGAATAATTCTATTTCGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
* * ** *
19196320 ATTTATTCCTACCATTTAATAGATTTTATTCGATGTTGATTTTGTTTCCAAATGAGAATTAATTG
66 ATTTATTCCTACCATTTAACAAATTTTATT--ATGTTGATTTTGTTTCCAAACAAGAATTAATTA
*
19196385 AATAATTCTATTTCAGGATTTATTCCCGCTGTTT
129 AATAATTCTATTTCAGGATTTATTCCCGCCGTTT
* *
19196419 AACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTTGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
*
19196484 ATTTATT-CT-CGCTATTTAACAAATTTTA-T-T-TTGATTTTGTTTCCAAACAAGATTTAATTA
66 ATTTATTCCTAC-C-ATTTAACAAATTTTATTATGTTGATTTTGTTTCCAAACAAGAATTAATTA
**
19196544 AATAATTCTATTTTGGGATTTATTCCAC-CCGTTT
129 AATAATTCTATTTCAGGATTTATTCC-CGCCGTTT
* *
19196578 AACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATT
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATT
19196633 TTTTTTCAAG
Statistics
Matches: 193, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
159 107 0.55
160 2 0.01
162 1 0.01
163 4 0.02
164 79 0.41
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (162 bp):
AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGG
ATTTATTCCTACCATTTAACAAATTTTATTATGTTGATTTTGTTTCCAAACAAGAATTAATTAAA
TAATTCTATTTCAGGATTTATTCCCGCCGTTT
Found at i:19196646 original size:82 final size:81
Alignment explanation
Indices: 19196255--19196685 Score: 427
Period size: 82 Copynumber: 5.4 Consensus size: 81
19196245 CCTATTGTTC
* * * * * *
19196255 AACAAATTTTATTCCATTTTGATTTTGTTTCCAAACAGGAATTAATTGAATAATTCTATTTCGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
* *
19196320 ATTTATTCCTACCATTT
66 ATTTATTCC-CCCGTTT
* * ** * * * *
19196337 AATAGATTTTATTCGATGTTGATTTTGTTTCCAAATGAGAATTAATTGAATAATTCTATTTCAGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
*
19196402 ATTTATTCCCGCTGTTT
66 ATTTATTCCC-CCGTTT
* *
19196419 AACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTT-GG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATT-TTTTTTCGG
* **
19196483 GATTTATTCTCGCTATTT
65 GATTTATTC-CCCCGTTT
* * *
19196501 AACA-A-ATT-TT--ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTT-GG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATT-TTTTTTCGG
19196560 GATTTATTCCACCCGTTT
65 GATTTATTCC-CCCGTTT
* * **
19196578 AACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATTTTTTTTCAAG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
* **
19196643 ATTTAATCCTGTCGTTT
66 ATTTATTCC-CCCGTTT
19196660 AACAGA----ATT-GATTTTGATTTTGTTTC
1 AACAGATTTTATTCGATTTTGATTTTGTTTC
19196686 AAAATTTTAA
Statistics
Matches: 301, Mismatches: 38, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
76 1 0.00
77 81 0.27
78 4 0.01
79 4 0.01
80 4 0.01
81 6 0.02
82 197 0.65
83 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (81 bp):
AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
ATTTATTCCCCCGTTT
Found at i:19196661 original size:159 final size:158
Alignment explanation
Indices: 19196255--19196685 Score: 492
Period size: 159 Copynumber: 2.7 Consensus size: 158
19196245 CCTATTGTTC
* * * * * *
19196255 AACAAATTTTATTCCATTTTGATTTTGTTTCCAAACAGGAATTAATTGAATAATTCTATTTCGGG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
* * * * ** *
19196320 ATTTATTCCTACCATTTAATAGATTTTATTCGATGTTGATTTTGTTTCCAAATGAGAATTAATTG
66 ATTTAATCCT-GCATTTAACAAATTTTA-T---T-TTGATTTTGTTTCCAAACAAGAATTAATTA
*
19196385 AATAATTCTATTTCAGGATTTATTCCCGCTGTTT
125 AATAATTCTATTTCAGGATTTATTCCCGCCGTTT
* *
19196419 AACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTT-GG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATT-TTTTTTCGG
* *
19196483 GATTT-ATTCTCGCTATTTAACAAATTTTATTTTGATTTTGTTTCCAAACAAGATTTAATTAAAT
65 GATTTAATCCT-GC-ATTTAACAAATTTTATTTTGATTTTGTTTCCAAACAAGAATTAATTAAAT
**
19196547 AATTCTATTTTGGGATTTATTCCAC-CCGTTT
128 AATTCTATTTCAGGATTTATTCC-CGCCGTTT
* * **
19196578 AACAGATTTTATTCGATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATTTTTTTTCAAG
1 AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
* *
19196643 ATTTAATCCTGTCGTTTAACAGAA-TTGATTTTGATTTTGTTTC
66 ATTTAATCCTG-CATTTAACA-AATTTTATTTTGATTTTGTTTC
19196686 AAAATTTTAA
Statistics
Matches: 230, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
158 5 0.02
159 138 0.60
160 9 0.04
163 5 0.02
164 70 0.30
165 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (158 bp):
AACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTTTTTTTCGGG
ATTTAATCCTGCATTTAACAAATTTTATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAAT
TCTATTTCAGGATTTATTCCCGCCGTTT
Found at i:19199545 original size:16 final size:17
Alignment explanation
Indices: 19199511--19199545 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19199501 TTCAATCAGA
*
19199511 TTGATTTTCAATTTGAT
1 TTGATTTTCAAATTGAT
19199528 TTGA-TTTCAAATTGAT
1 TTGATTTTCAAATTGAT
19199544 TT
1 TT
19199546 AAAGGCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (17 bp):
TTGATTTTCAAATTGAT
Found at i:19203445 original size:15 final size:16
Alignment explanation
Indices: 19203416--19203446 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19203406 TCATCTCATC
19203416 TGCATTTAGGTTAATT
1 TGCATTTAGGTTAATT
19203432 TGCATTTA-GTTAATT
1 TGCATTTAGGTTAATT
19203447 AATTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (16 bp):
TGCATTTAGGTTAATT
Found at i:19211486 original size:3 final size:3
Alignment explanation
Indices: 19211478--19211503 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19211468 AGCCTGACTT
19211478 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
19211504 GGAAAGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19213404 original size:41 final size:43
Alignment explanation
Indices: 19213309--19213404 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 43
19213299 ATAAACACCG
* * *
19213309 CTAAAGGTCATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGGTCATGACCTTTAGCGGCGCTTTACACAAAAACGCCA
* * * *
19213352 CTAAAGATCATGACCTTTAGC-GCG-TTTAGATAAAAACGTCA
1 CTAAAGGTCATGACCTTTAGCGGCGCTTTACACAAAAACGCCA
19213393 CTAAAGGTCATG
1 CTAAAGGTCATG
19213405 TCACAAACGC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 22 0.49
42 3 0.07
43 20 0.44
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
CTAAAGGTCATGACCTTTAGCGGCGCTTTACACAAAAACGCCA
Found at i:19213493 original size:7 final size:7
Alignment explanation
Indices: 19213481--19213515 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
19213471 AAACATTTAA
19213481 AAATATT
1 AAATATT
19213488 AAATATT
1 AAATATT
19213495 AAATATT
1 AAATATT
19213502 AAA-ATT
1 AAATATT
*
19213508 AAACATT
1 AAATATT
19213515 A
1 A
19213516 TTAATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATATT
Found at i:19213500 original size:14 final size:13
Alignment explanation
Indices: 19213481--19213515 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
19213471 AAACATTTAA
19213481 AAATATTAAATATT
1 AAATATTAAA-ATT
19213495 AAATATTAAAATT
1 AAATATTAAAATT
*
19213508 AAACATTA
1 AAATATTA
19213516 TTAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATTAAAATT
Found at i:19213517 original size:23 final size:24
Alignment explanation
Indices: 19213491--19213547 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
19213481 AAATATTAAA
* *
19213491 TATTAAATAT-TAAAATTAAACAT
1 TATTAAATATAAAAAATTAAACAG
**
19213514 TATT-AATATAAAAAATTAATTAG
1 TATTAAATATAAAAAATTAAACAG
19213537 TATTAAATATA
1 TATTAAATATA
19213548 TACTTTTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 17 0.61
24 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TATTAAATATAAAAAATTAAACAG
Found at i:19219826 original size:29 final size:29
Alignment explanation
Indices: 19219789--19219846 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
19219779 CTTTTTAGGG
19219789 ATAGAATATTTTTGGTACTTTCAACGACC
1 ATAGAATATTTTTGGTACTTTCAACGACC
* *
19219818 ATAGGATATTTTTGGTGCTTTCAACGACC
1 ATAGAATATTTTTGGTACTTTCAACGACC
19219847 GTATCAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (29 bp):
ATAGAATATTTTTGGTACTTTCAACGACC
Found at i:19221297 original size:13 final size:14
Alignment explanation
Indices: 19221274--19221351 Score: 56
Period size: 15 Copynumber: 5.4 Consensus size: 14
19221264 CTAGTTAATC
19221274 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
19221288 TAAA-CTTAAACCC
1 TAAACCTTAAACCA
19221301 TAAAATCC-TAAACCCA
1 T-AAA-CCTTAAA-CCA
19221317 TAAACCCTT-AACACA
1 TAAA-CCTTAAAC-CA
*
19221332 T-AACCTTTAAACCT
1 TAAACC-TTAAACCA
19221346 TAAACC
1 TAAACC
19221352 CTAGCCTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
13 11 0.22
14 14 0.27
15 21 0.41
16 5 0.10
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:19221348 original size:21 final size:21
Alignment explanation
Indices: 19221274--19221378 Score: 81
Period size: 21 Copynumber: 4.9 Consensus size: 21
19221264 CTAGTTAATC
*
19221274 TAAACCTTAAACCATAAAC-T
1 TAAACCTTAAACCATAACCTT
* **
19221294 TAAACCCTAAAATCC-TAAACCCA
1 TAAA-CCTTAAA-CCAT-AACCTT
19221317 TAAACCCTT-AACACATAACCTT
1 TAAA-CCTTAAAC-CATAACCTT
* *
19221339 TAAACCTTAAACCCTAGCCTT
1 TAAACCTTAAACCATAACCTT
*
19221360 TAAACCATAAACCATAACC
1 TAAACCTTAAACCATAACC
19221379 CCAAACCTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.06
21 35 0.52
22 19 0.28
23 9 0.13
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACCATAACCTT
Found at i:19222960 original size:7 final size:7
Alignment explanation
Indices: 19222926--19222980 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
19222916 ATCCTTAAAT
19222926 CCTAACC
1 CCTAACC
*
19222933 CCTAAATC
1 CCT-AACC
*
19222941 CCTAACT
1 CCTAACC
*
19222948 CTTAACC
1 CCTAACC
19222955 CCTAACC
1 CCTAACC
*
19222962 CCTAACT
1 CCTAACC
*
19222969 ACTAACC
1 CCTAACC
19222976 CCTAA
1 CCTAA
19222981 ACCTTAAATC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (7 bp):
CCTAACC
Found at i:19222966 original size:21 final size:21
Alignment explanation
Indices: 19222927--19222980 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
19222917 TCCTTAAATC
*
19222927 CTAACCCCTAAATCCCTAACT-
1 CTAACCCCT-AACCCCTAACTA
19222948 CTTAACCCCTAACCCCTAACTA
1 C-TAACCCCTAACCCCTAACTA
19222970 CTAACCCCTAA
1 CTAACCCCTAA
19222981 ACCTTAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAACCCCTAACCCCTAACTA
Found at i:19222996 original size:21 final size:20
Alignment explanation
Indices: 19222972--19223012 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19222962 CCTAACTACT
*
19222972 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
19222993 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
19223013 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:19223287 original size:7 final size:7
Alignment explanation
Indices: 19223272--19223408 Score: 50
Period size: 7 Copynumber: 19.4 Consensus size: 7
19223262 AGTTAATCTA
19223272 AAACC-T
1 AAACCAT
19223278 AAACCAT
1 AAACCAT
19223285 AAACC-T
1 AAACCAT
*
19223291 AAACCTT
1 AAACCAT
*
19223298 AAAACCCT
1 -AAACCAT
*
19223306 AAAACCCT
1 -AAACCAT
*
19223314 AAACCCT
1 AAACCAT
*
19223321 TAACACAT
1 AAAC-CAT
*
19223329 -AACCTCT
1 AAACC-AT
19223336 AAACC-T
1 AAACCAT
*
19223342 AAACC-C
1 AAACCAT
* *
19223348 AAGCCTTT
1 AAACC-AT
*
19223356 AAATCAT
1 AAACCAT
19223363 AAACCAT
1 AAACCAT
*
19223370 AAATCAT
1 AAACCAT
* *
19223377 AACCCTT
1 AAACCAT
19223384 AAACCCAT
1 AAA-CCAT
*
19223392 AATCCAT
1 AAACCAT
*
19223399 AAACCTT
1 AAACCAT
19223406 AAA
1 AAA
19223409 ATTAACAAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
6 22 0.22
7 52 0.51
8 28 0.27
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCAT
Found at i:19223393 original size:22 final size:21
Alignment explanation
Indices: 19223362--19223408 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
19223352 CTTTAAATCA
*
19223362 TAAACCATAAAT-CATAACCCT
1 TAAACCAT-AATCCATAAACCT
19223383 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAATCCATAAACCT
19223405 TAAA
1 TAAA
19223409 ATTAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCATAATCCATAAACCT
Found at i:19223711 original size:42 final size:41
Alignment explanation
Indices: 19223563--19223839 Score: 294
Period size: 41 Copynumber: 6.8 Consensus size: 41
19223553 AATGTTTTTT
19223563 GCGGCGC-TTTTCTAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAACCCCGAGCATTA
*
19223604 ACGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
* * *
19223645 GCGGCACTTCTTT-AAAAACACCGCTAAAACCTTCGAGCATTA
1 GCGGCGCTT-TTTCAAAAACGCCGCTAAAACC-CCGAGCATTA
* * * * *
19223687 GCAGTGCTTTTTCAACATCGCCGCTAAAGCCCC-ATGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGA-GCATTA
** * *
19223728 GCAACGCTTTTT-AAAAACGCCACTAAAACCCCGAACATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
* * * *
19223768 GCGGCGCTTCTTCAAAAACGCCGTTAAAGCCCC-ATACATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGA-GCATTA
** *
19223809 GCGATGCTTTTTCAAAAACGCTGCTAAAACC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACC
19223840 TCGAAAACGC
Statistics
Matches: 196, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
40 32 0.16
41 127 0.65
42 37 0.19
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
Found at i:19223964 original size:40 final size:40
Alignment explanation
Indices: 19223920--19223998 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
19223910 GCGTTTTCCA
* *
19223920 AAAAGCACCTCTAATACTTGATCTTTAGCGGCATTTTTTG
1 AAAAGCACCGCTAATACTTAATCTTTAGCGGCATTTTTTG
* * * *
19223960 AAAAGCGCCGCTAATGCTTAATTTTTAGCGGCGTTTTTT
1 AAAAGCACCGCTAATACTTAATCTTTAGCGGCATTTTTT
19223999 TATCCAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (40 bp):
AAAAGCACCGCTAATACTTAATCTTTAGCGGCATTTTTTG
Found at i:19225245 original size:15 final size:15
Alignment explanation
Indices: 19225222--19225258 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
19225212 AGGTGTTATA
19225222 GAGGGGATGGGATGG
1 GAGGGGATGGGATGG
*
19225237 GATGGGATGGGATGG
1 GAGGGGATGGGATGG
19225252 GAGGGGA
1 GAGGGGA
19225259 GCAAAAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.65, T:0.14
Consensus pattern (15 bp):
GAGGGGATGGGATGG
Found at i:19225259 original size:5 final size:5
Alignment explanation
Indices: 19225225--19225258 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
19225215 TGTTATAGAG
*
19225225 GGGAT GGGAT GGGAT GGGAT GGGAT GGGAG GGGA
1 GGGAT GGGAT GGGAT GGGAT GGGAT GGGAT GGGA
19225259 GCAAAAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.65, T:0.15
Consensus pattern (5 bp):
GGGAT
Found at i:19225699 original size:22 final size:21
Alignment explanation
Indices: 19225632--19225704 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
19225622 CAAAAAAATT
* * *
19225632 AAAAATTTTAATCAAACCTTTC
1 AAAAATTTTAAT-GAATCTCTC
*
19225654 AAAAATTTT-A-GAATCCTCTT
1 AAAAATTTTAATGAAT-CTCTC
19225674 AAAAATTTTAATTGAATCTCTC
1 AAAAATTTTAA-TGAATCTCTC
*
19225696 AAAATTTTT
1 AAAAATTTT
19225705 GAAATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 2 0.05
20 12 0.29
21 2 0.05
22 21 0.51
23 4 0.10
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (21 bp):
AAAAATTTTAATGAATCTCTC
Found at i:19245400 original size:19 final size:19
Alignment explanation
Indices: 19245356--19245406 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
19245346 GGTTCCTATT
*
19245356 AAAAAAAGGAA-AAAGGAA
1 AAAAAAAAGAAGAAAGGAA
*
19245374 AAATAAAAGAAGAAA-GAA
1 AAAAAAAAGAAGAAAGGAA
*
19245392 AAGAAAAAAGGAGAA
1 AA-AAAAAAGAAGAA
19245407 TAAATATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAGAAAGGAA
Found at i:19247935 original size:307 final size:307
Alignment explanation
Indices: 19247345--19247959 Score: 813
Period size: 307 Copynumber: 2.0 Consensus size: 307
19247335 TTGATGCATT
* * *
19247345 CCGCTAGGTCTATTGTCATATGCCAATATCATAGACCCCAATTATACGATTGCGTCCACTAATCG
1 CCGCCAGGTCTATTGTCATATGCCAATATCATAGACCCCAATCATACGATTGCGTCCACTAATCA
* * ***
19247410 AAGGGTATGTTGGATTGGTAGCTCGCACCCGCATCATTAATGGCCCATAAGTTTTCCAACATTTC
66 AAGGGTATGTTGGATAGGTAGCTCCCACCCGCATCATTAACAACCCATAAGTTTTCCAACATTTC
** ** * *
19247475 ACAAAAAAGGTGTCGGGCAAGCTCATACCCTGTCGAGGAAAGTAAATAGGTTATCCACTAATCAG
131 ACAAAAAAGGTGTCGGAAAAGCTCATACCCTACCGAGAAAAGTAAATAGGGTATCCACTAATCAG
* *
19247540 AACATTTGCTGACCGATTAAATATCAAACAATTGATATAGTGACGAATATAAACCCATGTTCATC
196 AACATCTGCTGACCGATTAAATATCAAACAATTGATATAGTGACGAATACAAACCCATGTTCATC
*
19247605 ACTTGTGTGCACTGAGTTGTAGAATTGTACTATCAGTGGTAGTTCGA
261 ACTTGTGTGCACTGAGCTGTAGAATTGTACTATCAGTGGTAGTTCGA
* * * * * *
19247652 CCGCCAGGTCTGTTGTCA-AGTGCCCATATCGTAGACCCCCATCATATGATTGTGTCCACTAATC
1 CCGCCAGGTCTATTGTCATA-TGCCAATATCATAGACCCCAATCATACGATTGCGTCCACTAATC
* ** *
19247716 AAAGGTTATGTTGGATAGGTAGCTCCCACTTGCATCGTTAACAACCCATAAGTTTTCCAACATTT
65 AAAGGGTATGTTGGATAGGTAGCTCCCACCCGCATCATTAACAACCCATAAGTTTTCCAACATTT
** ** * * * *
19247781 CACGGAACTGGTGTCGGAAAAGTTCGTACCCTACCTAGAAAA-TGAAATAGGGTATCCATTAATC
130 CACAAAAAAGGTGTCGGAAAAGCTCATACCCTACCGAGAAAAGT-AAATAGGGTATCCACTAATC
* * *
19247845 AGTACATCTGCTGACTCG-TTAAATATCAAACAATTGATATAGTGGCGAATACAAACCCATGTTG
194 AGAACATCTGCTGAC-CGATTAAATATCAAACAATTGATATAGTGACGAATACAAACCCATGTTC
* * *
19247909 ATCACTTGTGTGCCCTGAGCTGTAGAATTGTATTGTCAGTGGTAGTTCGA
258 ATCACTTGTGTGCACTGAGCTGTAGAATTGTACTATCAGTGGTAGTTCGA
19247959 C
1 C
19247960 GCAACATGTC
Statistics
Matches: 264, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
306 2 0.01
307 260 0.98
308 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (307 bp):
CCGCCAGGTCTATTGTCATATGCCAATATCATAGACCCCAATCATACGATTGCGTCCACTAATCA
AAGGGTATGTTGGATAGGTAGCTCCCACCCGCATCATTAACAACCCATAAGTTTTCCAACATTTC
ACAAAAAAGGTGTCGGAAAAGCTCATACCCTACCGAGAAAAGTAAATAGGGTATCCACTAATCAG
AACATCTGCTGACCGATTAAATATCAAACAATTGATATAGTGACGAATACAAACCCATGTTCATC
ACTTGTGTGCACTGAGCTGTAGAATTGTACTATCAGTGGTAGTTCGA
Found at i:19249959 original size:15 final size:15
Alignment explanation
Indices: 19249909--19249965 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 15
19249899 ATAAAAATGT
19249909 TAAAAAATTAATATA
1 TAAAAAATTAATATA
19249924 TAAAGAAATATAA-ATTA
1 TAAA-AAAT-TAATA-TA
19249941 TAAAAAATTAATATA
1 TAAAAAATTAATATA
19249956 T-AAAAATTAA
1 TAAAAAATTAA
19249966 AAAAACTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.24
15 10 0.26
16 10 0.26
17 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
TAAAAAATTAATATA
Found at i:19249977 original size:25 final size:25
Alignment explanation
Indices: 19249931--19249988 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
19249921 ATATAAAGAA
19249931 ATAT-AAATTATAAAAAATTAATAT
1 ATATAAAATTATAAAAAATTAATAT
*
19249955 ATA-AAAATTA-AAAAAACTATAATTT
1 ATATAAAATTATAAAAAA-T-TAATAT
19249980 ATATAAAAT
1 ATATAAAAT
19249989 AGACTCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 6 0.21
24 10 0.34
25 8 0.28
26 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATAAAATTATAAAAAATTAATAT
Found at i:19252062 original size:15 final size:15
Alignment explanation
Indices: 19252012--19252068 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 15
19252002 ATAAAAATGT
19252012 TAAAAAATTAATATA
1 TAAAAAATTAATATA
19252027 TAAAGAAATATAA-ATTA
1 TAAA-AAAT-TAATA-TA
19252044 TAAAAAATTAATATA
1 TAAAAAATTAATATA
19252059 T-AAAAATTAA
1 TAAAAAATTAA
19252069 AAAAACTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.24
15 10 0.26
16 10 0.26
17 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
TAAAAAATTAATATA
Found at i:19252080 original size:25 final size:25
Alignment explanation
Indices: 19252034--19252091 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
19252024 ATATAAAGAA
19252034 ATAT-AAATTATAAAAAATTAATAT
1 ATATAAAATTATAAAAAATTAATAT
*
19252058 ATA-AAAATTA-AAAAAACTATAATTT
1 ATATAAAATTATAAAAAA-T-TAATAT
19252083 ATATAAAAT
1 ATATAAAAT
19252092 AGACTCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 6 0.21
24 10 0.34
25 8 0.28
26 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATAAAATTATAAAAAATTAATAT
Found at i:19254271 original size:40 final size:40
Alignment explanation
Indices: 19254182--19254282 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 40
19254172 AAAATCCTTG
* *
19254182 TTATAATTATTGTAATTATAA--TTTACGATCGAATATTA
1 TTATAATTATTGTAATTATAATTTTTACGATCAAACATTA
* * *
19254220 TTATAATTATTGTAATTGTAATTTTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTATAATTTTTACGATCAAACATTA
19254260 TTATAATTATTGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
19254283 ATAATACTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 20 0.36
40 35 0.64
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (40 bp):
TTATAATTATTGTAATTATAATTTTTACGATCAAACATTA
Found at i:19257180 original size:19 final size:20
Alignment explanation
Indices: 19257151--19257194 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
19257141 ACAACACCTC
19257151 ATTAACATATTTATTAATTT
1 ATTAACATATTTATTAATTT
*
19257171 -TTAACCTATTTATTAATTT
1 ATTAACATATTTATTAATTT
19257190 ATTAA
1 ATTAA
19257195 TTGCAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAACATATTTATTAATTT
Found at i:19259182 original size:42 final size:42
Alignment explanation
Indices: 19259135--19259362 Score: 246
Period size: 42 Copynumber: 5.4 Consensus size: 42
19259125 CTCGGTGGAT
* * *
19259135 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
19259177 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * *
19259220 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
19259262 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * * * *
19259305 TCAGCACTTA-CGAATCACCTTTAGAGTCAATAATTCGGGGAA
1 TCAGCACTTAGC-AACCACCTTTACAATCAATGATACGGGGAA
*
19259347 TCAACACTTAGCAACC
1 TCAGCACTTAGCAACC
19259363 CCTCAAGGAA
Statistics
Matches: 154, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
41 10 0.06
42 75 0.49
43 59 0.38
44 10 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:19259270 original size:85 final size:85
Alignment explanation
Indices: 19259127--19259365 Score: 381
Period size: 85 Copynumber: 2.8 Consensus size: 85
19259117 TTTCGTTACT
*
19259127 CGGTGGATTCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
19259192 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
19259212 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
19259277 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
* * * * * * * *
19259297 CGGTGGAATCAGCACTTA-CGAATCACCTTTAGAGTCAATAATTCGGGGAATCAACACTTAGCAA
1 CGGTGGAATCAGCACTTAGC-AACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAA
19259361 CCCCT
65 CCCCT
19259366 CAAGGAATCT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
84 1 0.01
85 143 0.99
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:19263573 original size:23 final size:24
Alignment explanation
Indices: 19263538--19263659 Score: 139
Period size: 23 Copynumber: 5.3 Consensus size: 24
19263528 AGTGTTATTG
19263538 ATCAGTGGTAGCTTCGGCTACAAT
1 ATCAGTGGTAGCTTCGGCTACAAT
* * *
19263562 -TCAATGGTAGCTACAGCTAC-AT
1 ATCAGTGGTAGCTTCGGCTACAAT
*
19263584 ATCAGTGGTAGCCTCGGCTAC-AT
1 ATCAGTGGTAGCTTCGGCTACAAT
*
19263607 TTCAGTGGTAGCTAT-GGCTAC-AT
1 ATCAGTGGTAGCT-TCGGCTACAAT
19263630 ATCAGTGGTAGCTTCGGCTAC-AT
1 ATCAGTGGTAGCTTCGGCTACAAT
*
19263653 ATTAGTG
1 ATCAGTG
19263660 TGGCACTTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.04
23 80 0.95
24 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (24 bp):
ATCAGTGGTAGCTTCGGCTACAAT
Found at i:19263652 original size:46 final size:46
Alignment explanation
Indices: 19263538--19263652 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
19263528 AGTGTTATTG
*
19263538 ATCAGTGGTAGCTTCGGCTACAATTCAATGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACAT
* * **
19263584 ATCAGTGGTAGCCTCGGCTACATTTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACAT
19263630 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19263653 ATTAGTGTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACAT
Found at i:19267462 original size:8 final size:8
Alignment explanation
Indices: 19267449--19267474 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19267439 CTAAAGAGCT
19267449 TTTTAGAA
1 TTTTAGAA
19267457 TTTTAGAA
1 TTTTAGAA
19267465 TTTTAGAA
1 TTTTAGAA
19267473 TT
1 TT
19267475 ATAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (8 bp):
TTTTAGAA
Found at i:19277473 original size:128 final size:128
Alignment explanation
Indices: 19277150--19277633 Score: 826
Period size: 128 Copynumber: 3.8 Consensus size: 128
19277140 CGGTGAAACT
* * *
19277150 ACAAGTCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGGAAATTACAAATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* *
19277215 AGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGACAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
19277278 ACAAG-CCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
*
19277342 AGTAGCGGAGCAGATCAAAGACGACAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGACAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
*
19277405 ACAAGTCCTATCTCCCTGGTCAGTAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* ** *
19277470 AGTAGCAGAGCAGATCGAAGACGGTAAATCTTATCTTCAAGAGTAAGGAAGCATATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGACAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
*
19277533 ACAAGTCCTATCTCTCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* * *
19277598 AGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCT
66 AGTAGCGGAGCAGATCGAAGACGACAAATCTTATCT
19277634 CCCTGAAGTT
Statistics
Matches: 337, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 121 0.36
128 216 0.64
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (128 bp):
ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
AGTAGCGGAGCAGATCGAAGACGACAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
Found at i:19277657 original size:45 final size:44
Alignment explanation
Indices: 19277601--19277688 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
19277591 CCTAAGCAGT
** *
19277601 AGTGGAGCAGATCGAAGATGGCA-AATCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATCGAAG-CCG-ATAATCCTATCTCCCTGAAGTTGC
*
19277646 AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AGTGGAGCAGATCGAAGCCGATAATCCTATCTCCCTGAAGTTG
19277689 TAGTAGAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 21 0.55
45 16 0.42
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
AGTGGAGCAGATCGAAGCCGATAATCCTATCTCCCTGAAGTTGC
Found at i:19277721 original size:44 final size:44
Alignment explanation
Indices: 19277624--19277742 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
19277614 GAAGATGGCA
* ** * *
19277624 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAGCCAAT
* * *
19277668 AATCCTATCTCCCTGAAGTTGTAGTAGAGTGGATTAAAG-TAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAGCCAAT
*
19277711 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTG
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGTG
19277743 AATCGCATCA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 3 0.05
44 60 0.95
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAGCCAAT
Found at i:19283035 original size:20 final size:21
Alignment explanation
Indices: 19282991--19283042 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
19282981 CTCAATTAAT
19282991 TGTTTAGCACTTATGTGCTCTC
1 TGTTT-GCACTTATGTGCTCTC
19283013 TGTTTGCACTT-TGGTGC-CTC
1 TGTTTGCACTTAT-GTGCTCTC
19283033 TGTTTGCACT
1 TGTTTGCACT
19283043 ACGGTGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.48
21 10 0.34
22 5 0.17
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (21 bp):
TGTTTGCACTTATGTGCTCTC
Found at i:19283048 original size:20 final size:20
Alignment explanation
Indices: 19283005--19283051 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
19282995 TAGCACTTAT
**
19283005 GTGCTCTCTGTTTGCACTTTG
1 GTGC-CTCTGTTTGCACTACG
19283026 GTGCCTCTGTTTGCACTACG
1 GTGCCTCTGTTTGCACTACG
19283046 GTGCCT
1 GTGCCT
19283052 TTGTACAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.06, C:0.28, G:0.26, T:0.40
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTACG
Found at i:19283957 original size:10 final size:10
Alignment explanation
Indices: 19283928--19283957 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
19283918 GTTTAAATGA
19283928 TATGTTTTGG
1 TATGTTTTGG
19283938 TATGTATTTGG
1 TATGT-TTTGG
19283949 TATGTTTTG
1 TATGTTTTG
19283958 TGCAGGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (10 bp):
TATGTTTTGG
Found at i:19285878 original size:36 final size:37
Alignment explanation
Indices: 19285831--19285926 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 37
19285821 GTCTCCAAAT
* *
19285831 TCACATTTCAATTCAATTCCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTCCACTTTTCCACTTTCAAG
*
19285867 TCACAATTCAATTCAAAATT-CACTTTTCCATTTTCAAG
1 TCACAATTCAATTC--AATTCCACTTTTCCACTTTCAAG
* *
19285905 TCA-ATATTCATTTCAGTTCCAC
1 TCACA-ATTCAATTCAATTCCAC
19285927 ACATATATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
36 16 0.32
37 19 0.38
38 15 0.30
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (37 bp):
TCACAATTCAATTCAATTCCACTTTTCCACTTTCAAG
Found at i:19289679 original size:45 final size:45
Alignment explanation
Indices: 19289569--19289680 Score: 190
Period size: 45 Copynumber: 2.5 Consensus size: 45
19289559 GAACGCGCCA
*
19289569 TCTATTTTATTACATCAAATAATATCAAAATAACTCAAATAAACT
1 TCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAACT
*
19289614 TCTATTTT-TTACATCAAAATAATATCAAAATAACTCAAAAAAATT
1 TCTATTTTATTACATC-AAATAATATCAAAATAACTCAAAAAAACT
19289659 TCTATTTTATTACATCAAATAA
1 TCTATTTTATTACATCAAATAA
19289681 ACTTCTATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 7 0.11
45 49 0.78
46 7 0.11
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (45 bp):
TCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAACT
Found at i:19290847 original size:7 final size:7
Alignment explanation
Indices: 19290837--19290862 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19290827 TTATATACAT
19290837 AATACTA
1 AATACTA
19290844 AATACTA
1 AATACTA
19290851 AATACTA
1 AATACTA
19290858 AATAC
1 AATAC
19290863 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:19291797 original size:51 final size:51
Alignment explanation
Indices: 19291721--19291823 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
19291711 AGGTAGTTAT
19291721 CTACCAACGGTGATGAAGGAGCATGCATATTCCAGATATTGCATTCCAATA
1 CTACCAACGGTGATGAAGGAGCATGCATATTCCAGATATTGCATTCCAATA
* * *
19291772 CTACCAACGGTGATGGAGGAGCATGCATATTCCGGATATTGCATTTCAATA
1 CTACCAACGGTGATGAAGGAGCATGCATATTCCAGATATTGCATTCCAATA
19291823 C
1 C
19291824 CTGATCTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (51 bp):
CTACCAACGGTGATGAAGGAGCATGCATATTCCAGATATTGCATTCCAATA
Found at i:19294819 original size:19 final size:20
Alignment explanation
Indices: 19294797--19294837 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
19294787 ACTGTTATAA
*
19294797 TATTTA-ATTTTATTTTTAT
1 TATTTATATTTTATATTTAT
*
19294816 TA-TTATTTTTTATATTTAT
1 TATTTATATTTTATATTTAT
19294835 TAT
1 TAT
19294838 AAATAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTATATTTTATATTTAT
Found at i:19298314 original size:3 final size:3
Alignment explanation
Indices: 19298306--19298332 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19298296 TTTTATAGTC
19298306 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
19298333 ACTACTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:19298337 original size:3 final size:3
Alignment explanation
Indices: 19298331--19298377 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
19298321 TCTTCTTCTT
19298331 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CT
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CT
19298378 GACCATGGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
CTA
Found at i:19303185 original size:25 final size:25
Alignment explanation
Indices: 19303095--19303191 Score: 101
Period size: 25 Copynumber: 3.9 Consensus size: 25
19303085 AAAGCTCTCT
*
19303095 TGAGCTTCCTGATACT-TGGCTCTTA
1 TGAGCTTCCTGATA-TATGGCTCATA
* * *
19303120 TGAGCTTCCTGATAAATTGCTCACA
1 TGAGCTTCCTGATATATGGCTCATA
19303145 TGAGCTT-CTCGATATATGGCTCATA
1 TGAGCTTCCT-GATATATGGCTCATA
*
19303170 TGAGCTTCC-GATTATATAGCTC
1 TGAGCTTCCTGA-TATATGGCTC
19303192 GGAAGAGCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
24 4 0.07
25 55 0.92
26 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (25 bp):
TGAGCTTCCTGATATATGGCTCATA
Found at i:19310614 original size:40 final size:40
Alignment explanation
Indices: 19310524--19310725 Score: 262
Period size: 40 Copynumber: 5.1 Consensus size: 40
19310514 AATTATTGAA
* * * *
19310524 TGATTGCACATGCGTGCTCCTGTTCGTACTTCGGCA-CCC
1 TGATTGCACATACGTGCCCCTATTCGTACTTCGGTACCCC
*
19310563 TGATTGCACATACGTGCCCCTATTCGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTCGTACTTCGGTACCCC
* *
19310603 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTCGTACTTCGGTACCCC
* ** * *
19310643 TAATTGCACATACGTATCCCTGTTCGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTCGTACTTCGGTACCCC
* * *
19310683 TGATTGCACATACGTGCCCTTATTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTCGTACTTCGGTACCCC
19310723 TGA
1 TGA
19310726 ACGCATTTAC
Statistics
Matches: 139, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.33
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTCGTACTTCGGTACCCC
Found at i:19310673 original size:80 final size:80
Alignment explanation
Indices: 19310524--19310723 Score: 294
Period size: 80 Copynumber: 2.5 Consensus size: 80
19310514 AATTATTGAA
* * * * * * * *
19310524 TGATTGCACATGCGTGCTCCTGTTCGTACTTCGGCA-CCCTGATTGCACATACGTGCCCCTATTC
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAATTGCACATACGTACCCCTATTC
19310588 GTACTTCAGTACCCC
66 GTACTTCAGTACCCC
* *
19310603 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAATTGCACATACGTATCCCTGTTC
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAATTGCACATACGTACCCCTATTC
19310668 GTACTTCAGTACCCC
66 GTACTTCAGTACCCC
*
19310683 TGATTGCACATACGTGCCCTTATTTGTACTTTGGTACCCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
19310724 GAACGCATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 30 0.28
80 79 0.72
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.34
Consensus pattern (80 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTAATTGCACATACGTACCCCTATTC
GTACTTCAGTACCCC
Found at i:19319698 original size:22 final size:23
Alignment explanation
Indices: 19319650--19319705 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
19319640 ATGAGGTTAT
* * *
19319650 GCTTAATTAAGTGGTTTAATCAG
1 GCTTAATTAAGTGATTTAATAAA
*
19319673 GCTTAATTAA-TGATTTATTAAA
1 GCTTAATTAAGTGATTTAATAAA
19319695 GCTTAATTAAG
1 GCTTAATTAAG
19319706 AAAGTTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (23 bp):
GCTTAATTAAGTGATTTAATAAA
Found at i:19320449 original size:37 final size:37
Alignment explanation
Indices: 19320368--19320462 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 37
19320358 TACTGAAAGT
* * * * *
19320368 AGCTCAAACGACCAAATTTTATTGTTATACTGAGTGA
1 AGCTCAAATGAGCAAATTCTATTGTTATACTAAATGA
* *
19320405 AGTTCAAATGAGCAAATTCTATTGTTATACTAAATGG
1 AGCTCAAATGAGCAAATTCTATTGTTATACTAAATGA
* *
19320442 AGCTCAAATGAGTAAAATCTA
1 AGCTCAAATGAGCAAATTCTA
19320463 CAGATATACT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (37 bp):
AGCTCAAATGAGCAAATTCTATTGTTATACTAAATGA
Found at i:19325122 original size:33 final size:33
Alignment explanation
Indices: 19325066--19325183 Score: 155
Period size: 33 Copynumber: 3.5 Consensus size: 33
19325056 ACATCGTTAG
* * *
19325066 TCCAACCAAACACACCAGATGCTCACACGAGCCAA
1 TCCAACC-AACACACCA-ATGCTCATAAGAGCTAA
** *
19325101 TCCCTCCAATACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
*
19325134 TCCAACCGACACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
19325167 TCCAACCAACACACCAA
1 TCCAACCAACACACCAA
19325184 ACAGAGAGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 59 0.82
34 8 0.11
35 5 0.07
ACGTcount: A:0.40, C:0.37, G:0.09, T:0.14
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCATAAGAGCTAA
Found at i:19333496 original size:12 final size:12
Alignment explanation
Indices: 19333463--19333497 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19333453 CAGGTGATGC
*
19333463 GCAAGACCAAGG
1 GCAAGAGCAAGG
19333475 GCAAGAGCAAGG
1 GCAAGAGCAAGG
*
19333487 GCAAGCGCAAG
1 GCAAGAGCAAG
19333498 TTGTGAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.37, T:0.00
Consensus pattern (12 bp):
GCAAGAGCAAGG
Found at i:19339059 original size:20 final size:21
Alignment explanation
Indices: 19339034--19339074 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
19339024 GATACGATTT
*
19339034 GTCCCATTACAGACA-TCATC
1 GTCCCATTAAAGACATTCATC
19339054 GTCCCATTAAAGACATTCATC
1 GTCCCATTAAAGACATTCATC
19339075 CCACGCGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.27
Consensus pattern (21 bp):
GTCCCATTAAAGACATTCATC
Found at i:19339913 original size:825 final size:825
Alignment explanation
Indices: 19338324--19340804 Score: 4379
Period size: 825 Copynumber: 3.0 Consensus size: 825
19338314 TTTTTAACAA
* * * * *
19338324 AAATGTTAAAAGAAATAACACCAATGACAAGAAAGAACAATAACTACGAAACTAATTGAAGCAAG
1 AAATGTTAAAA-AAATAACACCAATGACAACAAAGAACAATAATTGCGAAACGAATCGAAGCAAG
*
19338389 -AAACTTTGAAGATGCAGAAATCATCCCGGAAAACCAAATAAGACTAGAAAATCACCAACAAAAG
65 AAAACTTTGAAGATGCAGAAATCATCCCAGAAAACCAAATAAGACTAGAAAATCACCAACAAAAG
* *
19338453 ATGCAAAAATTTCAAATAGAAAAGGAGGAAATACAACTTCAAAGAAGAAAACCCATAATACATAG
130 ATGCAAAAATTTCAAATAGAAAAGGAGGCAATACAACTTCGAAGAAGAAAACCCATAATACATAG
* *
19338518 GCCTATTTCCCAAAACGCACTGTTTTCAAAGGCAAACAACATTTAATAGCATCTCACCACCATTT
195 GCCTATTTCCCAAAACGCACTGTTTTGAAAGACAAACAACATTTAATAGCATCTCACCACCATTT
* * *
19338583 CCAAAACGCTATTGTTCATCATTATCACGACTCCCTAGAAACGTAATCCTTAGAATACATTTATT
260 CCAAAAAGCTATTGTTCATCATTATCACGACTCCCTAGAAACGCAATCCTTAGAATACATTTATG
* * * *
19338648 GCATAATCTCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCACCAAACGGAGAAACCT
325 GCAAAATCTCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCTCCAACCGGAGCAACCT
*
19338713 ATAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAAGATCACTTTATAACCTTCCTCTCGAC
390 GTAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAAGATCACTTTATAACCTTCCTCTCGAC
*
19338778 TCGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGTAAGTAAAGAGAACA
455 TCGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGCAAGTAAAGAGAACA
*
19338843 CACAAACAGTAAAACAATTGACAATAAGCTGGAAGGTCATCTGTAACCCTTTACAAAGACTATTT
520 CACAAACAGTAAGACAATTGACAATAAGCTGGAAGGTCATCTGTAACCCTTTACAAAGACTATTT
*
19338908 GAACAAGCACATACTATCCGTCGTTCAGGTCCTTGAGCTTCATCGGGAACATGAAGTTGTAGGTC
585 GAACAAGCACATACTATCCATCGTTCAGGTCCTTGAGCTTCATCGGGAACATGAAGTTGTAGGTC
*
19338973 ACCAAATACCACGTGGGTTCAACATCTCCATACCATCAGATTAGAATAAATGATACGATTTGTCC
650 ACCAAATACCACGTGGGTTCAACATCTCCATACCATCAAATTAGAATAAATGATACGATTTGTCC
* *
19339038 CATTACAGACATCATCGTCCCATTAAAGACATTCATCCCACGCGTTCTGTAATGATGGCTTAATG
715 CATCACAGACATCATCGTCCCATTAAAGACATCCATCCCACGCGTTCTGTAATGATGGCTTAATG
19339103 GAAAGCCCAACACGTTAATGTGACCTTACATGGAACCCTCAACTAT
780 GAAAGCCCAACACGTTAATGTGACCTTACATGGAACCCTCAACTAT
*
19339149 AAATGTTAAAAAAATAACACCAATGACAACAAAGAACAATAATTGCGAAACGAATCGAAACAAGA
1 AAATGTTAAAAAAATAACACCAATGACAACAAAGAACAATAATTGCGAAACGAATCGAAGCAAGA
19339214 AAACTTTGAAGATGCAGAAATCATCCCAGAAAACCAAATAAGACTAGAAAATCACCAACAAAAGA
66 AAACTTTGAAGATGCAGAAATCATCCCAGAAAACCAAATAAGACTAGAAAATCACCAACAAAAGA
*
19339279 TGCAAAAATTTCAAATAGAAAAGGAGGCAATACAAATTCGAAGAAGAAAACCCATAATACATAGG
131 TGCAAAAATTTCAAATAGAAAAGGAGGCAATACAACTTCGAAGAAGAAAACCCATAATACATAGG
* * *
19339344 CCTATTTCCCAAAACACATTGTATTGAAAGACAAACAACATTTAATAGCATCTCACCACCATTTC
196 CCTATTTCCCAAAACGCACTGTTTTGAAAGACAAACAACATTTAATAGCATCTCACCACCATTTC
* *
19339409 AAAAAAGCTATTGTTCATCATTATCACGACTCCCTAGAAACACAATCCTTAGAATACATTTATGG
261 CAAAAAGCTATTGTTCATCATTATCACGACTCCCTAGAAACGCAATCCTTAGAATACATTTATGG
19339474 CAAAATCTCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCTCCAACCGGAGCAACCTG
326 CAAAATCTCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCTCCAACCGGAGCAACCTG
* *
19339539 TAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAATATCACTTTATAACCTTCCTCTCAACT
391 TAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAAGATCACTTTATAACCTTCCTCTCGACT
19339604 CGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGCAAGTAAAGAGAACAC
456 CGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGCAAGTAAAGAGAACAC
* *
19339669 ACAAACAGTAAGACAATTGACAATAAGTTGGAAGTTCATCTGTAACCCTTTACAAAGACTATTTG
521 ACAAACAGTAAGACAATTGACAATAAGCTGGAAGGTCATCTGTAACCCTTTACAAAGACTATTTG
*
19339734 AACAAGCACATACTATCCATCGTTCAGGTCCTTGAGCTTCATCGGCAACATGAAGTTGTAGGTCA
586 AACAAGCACATACTATCCATCGTTCAGGTCCTTGAGCTTCATCGGGAACATGAAGTTGTAGGTCA
*
19339799 CCAAATACTACGTGGGTTCAACATCTCCATACCATCAAATTAGAATAAATGATACGATTTGTCCC
651 CCAAATACCACGTGGGTTCAACATCTCCATACCATCAAATTAGAATAAATGATACGATTTGTCCC
*
19339864 ATCACAGACATCATCGTCCCATTAAAGACATCCATCCCACGCGTTCTGTAGTGATGGCTTAATGG
716 ATCACAGACATCATCGTCCCATTAAAGACATCCATCCCACGCGTTCTGTAATGATGGCTTAATGG
19339929 AAAGCCCAACACGTTAATGTGACCTTACATGGAACCCTCAACTAT
781 AAAGCCCAACACGTTAATGTGACCTTACATGGAACCCTCAACTAT
*
19339974 AAATGTTAAAAAAATAACACCAATGATAACAAAGAACAATAATTGCGAAACGAATCGAAGCAAGA
1 AAATGTTAAAAAAATAACACCAATGACAACAAAGAACAATAATTGCGAAACGAATCGAAGCAAGA
* *
19340039 AAACTTTGAAGATGTAGAAATCATCCTAGAAAACCAAATAAGACTAGAAAATCACCAACAAAAGA
66 AAACTTTGAAGATGCAGAAATCATCCCAGAAAACCAAATAAGACTAGAAAATCACCAACAAAAGA
19340104 TGCAAAAATTTCAAATAGAAAAGGAGGCAATACAACTTCGAAGAAGAAAACCCATAATACATAGG
131 TGCAAAAATTTCAAATAGAAAAGGAGGCAATACAACTTCGAAGAAGAAAACCCATAATACATAGG
* *
19340169 CCTATTTCCCAAAATGCACTATTTTGAAAGACAAACAACATTTAATAGCATCTCACCACCATTTC
196 CCTATTTCCCAAAACGCACTGTTTTGAAAGACAAACAACATTTAATAGCATCTCACCACCATTTC
*
19340234 CAAAAAGCTGTTGTTCATCATTATCACGACTCCCTAGAAACGCAATCCTTAGAATACATTTATGG
261 CAAAAAGCTATTGTTCATCATTATCACGACTCCCTAGAAACGCAATCCTTAGAATACATTTATGG
*
19340299 CAAAATATCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCTCCAACCGGAGCAACCTG
326 CAAAATCTCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCTCCAACCGGAGCAACCTG
* *
19340364 TAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAAGATCATTTTATAACCTTCCTATCGACT
391 TAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAAGATCACTTTATAACCTTCCTCTCGACT
*
19340429 CGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGCAAGTGAAGAGAACAC
456 CGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGCAAGTAAAGAGAACAC
* * * *
19340494 ACAAAAAGTAAGACAATTGACAATAAGCTGGAAGGTCATTTGCAATCCCCTTTACAAATACTATT
521 ACAAACAGTAAGACAATTGACAATAAGCTGGAAGGTCATCTGTAA--CCCTTTACAAAGACTATT
* * *
19340559 TGAACAAACACATACCATCCATCGTTCAGGTCCTTGAGCTTCATCGGGAACATGAAGTTGTTGGT
584 TGAACAAGCACATACTATCCATCGTTCAGGTCCTTGAGCTTCATCGGGAACATGAAGTTGTAGGT
* *
19340624 CAACAAATACCACATGGGTTCAACATCTCCATACCATCAAATTAGAATAAATGATACGATTTGTC
649 CACCAAATACCACGTGGGTTCAACATCTCCATACCATCAAATTAGAATAAATGATACGATTTGTC
* *
19340689 CCATCACAGACATCATTGTCCCATCAAAGACATCCATCCCACGCGTTCTGTAATGATGGCTTAAT
714 CCATCACAGACATCATCGTCCCATTAAAGACATCCATCCCACGCGTTCTGTAATGATGGCTTAAT
* *
19340754 GGAAAGTCCAACACGTTAATGTGACCTTACATGGAACCTTCAACTAT
779 GGAAAGCCCAACACGTTAATGTGACCTTACATGGAACCCTCAACTAT
19340801 AAAT
1 AAAT
19340805 ACCTCCAAGA
Statistics
Matches: 1578, Mismatches: 75, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
824 47 0.03
825 1280 0.81
827 251 0.16
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (825 bp):
AAATGTTAAAAAAATAACACCAATGACAACAAAGAACAATAATTGCGAAACGAATCGAAGCAAGA
AAACTTTGAAGATGCAGAAATCATCCCAGAAAACCAAATAAGACTAGAAAATCACCAACAAAAGA
TGCAAAAATTTCAAATAGAAAAGGAGGCAATACAACTTCGAAGAAGAAAACCCATAATACATAGG
CCTATTTCCCAAAACGCACTGTTTTGAAAGACAAACAACATTTAATAGCATCTCACCACCATTTC
CAAAAAGCTATTGTTCATCATTATCACGACTCCCTAGAAACGCAATCCTTAGAATACATTTATGG
CAAAATCTCAAAGGTTTTGATATAACGTTTCACTATAAAACAAAGTCTCCAACCGGAGCAACCTG
TAAAAGAGAAAGTTAATGAATTAGAGTGTCTCAAGGAAGATCACTTTATAACCTTCCTCTCGACT
CGAAAGGGGGAAATATTGTTATACCCCCCATCTGTGTCAAGACACATGGCAAGTAAAGAGAACAC
ACAAACAGTAAGACAATTGACAATAAGCTGGAAGGTCATCTGTAACCCTTTACAAAGACTATTTG
AACAAGCACATACTATCCATCGTTCAGGTCCTTGAGCTTCATCGGGAACATGAAGTTGTAGGTCA
CCAAATACCACGTGGGTTCAACATCTCCATACCATCAAATTAGAATAAATGATACGATTTGTCCC
ATCACAGACATCATCGTCCCATTAAAGACATCCATCCCACGCGTTCTGTAATGATGGCTTAATGG
AAAGCCCAACACGTTAATGTGACCTTACATGGAACCCTCAACTAT
Found at i:19340709 original size:20 final size:20
Alignment explanation
Indices: 19340684--19340722 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19340674 ATGATACGAT
*
19340684 TTGTCCCATCACAGACATCA
1 TTGTCCCATCAAAGACATCA
19340704 TTGTCCCATCAAAGACATC
1 TTGTCCCATCAAAGACATC
19340723 CATCCCACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (20 bp):
TTGTCCCATCAAAGACATCA
Found at i:19341431 original size:31 final size:32
Alignment explanation
Indices: 19341396--19341469 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
19341386 TAATTTTTTT
* *
19341396 TCAATTCTAATTTCTTCAAG-GTTTTTATTAA
1 TCAATTCTAATTTCTTCAAGAATTTATATTAA
19341427 TCAATTCTAATTTCTTCAAGAATTTATATTAA
1 TCAATTCTAATTTCTTCAAGAATTTATATTAA
19341459 TCAATCTCTAA
1 TCAAT-TCTAA
19341470 AAGTTATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 20 0.51
32 14 0.36
33 5 0.13
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (32 bp):
TCAATTCTAATTTCTTCAAGAATTTATATTAA
Found at i:19345184 original size:3 final size:3
Alignment explanation
Indices: 19345176--19345208 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19345166 NNNNNNNNNN
19345176 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19345209 TATTATTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19347979 original size:6 final size:6
Alignment explanation
Indices: 19347968--19347993 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19347958 TTTTAAAAGC
19347968 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
19347994 CTAAATGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:19353811 original size:15 final size:15
Alignment explanation
Indices: 19353791--19353823 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19353781 CTAGCTTTAT
19353791 ACATATAGTATAACC
1 ACATATAGTATAACC
19353806 ACATATAGTATAACC
1 ACATATAGTATAACC
19353821 ACA
1 ACA
19353824 CTCAACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (15 bp):
ACATATAGTATAACC
Found at i:19355372 original size:25 final size:25
Alignment explanation
Indices: 19355340--19355398 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
19355330 AGCTGTAATC
* *
19355340 GGTAAGCTCATACGAGCTGAGTAAA
1 GGTAAGCTCATACGAACTGAATAAA
**
19355365 GGTAAGCTCATACGAACTGAATATT
1 GGTAAGCTCATACGAACTGAATAAA
19355390 GGTAAGCTC
1 GGTAAGCTC
19355399 TCTCGAGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (25 bp):
GGTAAGCTCATACGAACTGAATAAA
Found at i:19359807 original size:13 final size:13
Alignment explanation
Indices: 19359786--19359851 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
19359776 CTTAAACCAA
* *
19359786 ACTTTTCAAAAGT
1 ACTTCTCAAAAGC
19359799 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
* * **
19359812 ACTTTTCCACTGC
1 ACTTCTCAAAAGC
* *
19359825 ACTTTTTAAAAGC
1 ACTTCTCAAAAGC
*
19359838 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
19359851 A
1 A
19359852 ATGCTAAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:19362016 original size:13 final size:13
Alignment explanation
Indices: 19361998--19362022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19361988 TTTTCAAATT
19361998 TTTTCTTTATTTC
1 TTTTCTTTATTTC
19362011 TTTTCTTTATTT
1 TTTTCTTTATTT
19362023 TTTATACTTT
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:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTATTTC
Found at i:19362076 original size:23 final size:23
Alignment explanation
Indices: 19362049--19362097 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
19362039 ACGAGATTTT
19362049 CTTATATGAGTCTTAAGGACCAA
1 CTTATATGAGTCTTAAGGACCAA
19362072 CTTATATGAGTCTTAAGGACCAA
1 CTTATATGAGTCTTAAGGACCAA
19362095 CTT
1 CTT
19362098 CGGGCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (23 bp):
CTTATATGAGTCTTAAGGACCAA
Found at i:19363092 original size:17 final size:15
Alignment explanation
Indices: 19363056--19363102 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
19363046 GTTCCAATCT
19363056 TTTATTTATTCTTATA
1 TTTATTTA-TCTTATA
19363072 TTTATTTATCTTAGTTA
1 TTTATTTATCTTA--TA
*
19363089 TTTATTTATTTTAT
1 TTTATTTATCTTAT
19363103 TTGACTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 14 0.50
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTATTTATCTTATA
Found at i:19363102 original size:13 final size:14
Alignment explanation
Indices: 19363055--19363104 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
19363045 TGTTCCAATC
19363055 TTTTATTTATTCTTA
1 TTTTATTTA-TCTTA
19363070 TATTTATTTATCTTA
1 T-TTTATTTATCTTA
*
19363085 -GTTATTTAT-TTA
1 TTTTATTTATCTTA
19363097 TTTTATTT
1 TTTTATTT
19363105 GACTTGGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 3 0.10
13 14 0.45
15 6 0.19
16 8 0.26
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTATTTATCTTA
Found at i:19364943 original size:387 final size:374
Alignment explanation
Indices: 19364344--19365102 Score: 1277
Period size: 387 Copynumber: 2.0 Consensus size: 374
19364334 GAATTTAAAC
19364344 ATTTTAATACCGAGACAGTAGATAGAGTGATGATCTTGCTAACGACCCCCCAACTTGAAGCTTGA
1 ATTTTAATACCGAGACAGTAGATAGAGTGATGATCTTGCTAACGACCCCCCAACTTGAAGCTTGA
* *
19364409 TTTTTAAATAGGAAAGACATAAACAAACAAAGTAAGCTTTTTATAGCTTAGTAAGTCTATAGCAT
66 TTTTTAAATAGGAAAGAAATAAACAAACAAAGTAAGCTTTTAATAGCTTAGTAAGTCTATAGCAT
19364474 AACTAAACATATATATATATATATATAATATAACTTTTAAATTTAATTCACTGAGATTGCAATTA
131 AACTAAACATATATATATATATATATAATATAACTTTTAAATTTAATTCACTGAGATTGCAATTA
19364539 ACACATATAATTAATATTCATGTATTTGCTATACTCAGACCATTTTATTTATAGTCAAATATGTG
196 ACACATATAATTAATATTCATGTATTTGCTATACTCAGACCATTTTATTTATAGTCAAATATGTG
* * * * *
19364604 TACCTGTCGAATGCGTTCATCTGAATATATGTATATTTATACCAAACAAAATTACAACCGAATGT
261 TACCTGCCAAATGCGTTCAACT-AA-AAATATATATTTATACCAAACAAAATTACAACCGAATGT
* *
19364669 ATATAACCGAGCATGTATATATATTTGTTAAATACATATCATATCTGATTGTA
324 ATATAACCGAGCA--TATATATATATGTTAAATACATATCATATCCGATTGTA
19364722 ATTTTAATACCGAGACAGTAGATAGAGTGATGATCTTGCTAACGACCCCCCAACTTGAAGCTTGA
1 ATTTTAATACCGAGACAGTAGATAGAGTGATGATCTTGCTAACGACCCCCCAACTTGAAGCTTGA
*
19364787 TTTTTAAATATATAAAACGGAAAGAAATAAACAAACAAAGTAAGC-TTTAATAGCTTAGTAGGTC
66 TTTTT--A-A-AT---A-GGAAAGAAATAAACAAACAAAGTAAGCTTTTAATAGCTTAGTAAGTC
19364851 TATAGCATAACTAAACATATATATATATATATATATAATATAACTTTTAAATTTAATTCACTGAG
123 TATAGCATAACTAAAC--ATATATATATATATATATAATATAACTTTTAAATTTAATTCACTGAG
19364916 ATTGCAATTAACACATATAATTAATATTCATGTATTTGCTATACTCAGACCATTTTATTTATAGT
186 ATTGCAATTAACACATATAATTAATATTCATGTATTTGCTATACTCAGACCATTTTATTTATAGT
*
19364981 CAAATATGTGTACCTGCCAAATGCGTTCAACTAAAAATATATATTTATACCAAACAACATTACAA
251 CAAATATGTGTACCTGCCAAATGCGTTCAACTAAAAATATATATTTATACCAAACAAAATTACAA
*
19365046 TCGAATGTATATAACCGAGCATATATATATATGTTAAATACATATCATATCCGATTG
316 CCGAATGTATATAACCGAGCATATATATATATGTTAAATACATATCATATCCGATTG
19365103 CGTATGTATA
Statistics
Matches: 359, Mismatches: 12, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
378 70 0.19
380 1 0.00
381 1 0.00
382 2 0.01
383 34 0.09
385 82 0.23
386 28 0.08
387 141 0.39
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (374 bp):
ATTTTAATACCGAGACAGTAGATAGAGTGATGATCTTGCTAACGACCCCCCAACTTGAAGCTTGA
TTTTTAAATAGGAAAGAAATAAACAAACAAAGTAAGCTTTTAATAGCTTAGTAAGTCTATAGCAT
AACTAAACATATATATATATATATATAATATAACTTTTAAATTTAATTCACTGAGATTGCAATTA
ACACATATAATTAATATTCATGTATTTGCTATACTCAGACCATTTTATTTATAGTCAAATATGTG
TACCTGCCAAATGCGTTCAACTAAAAATATATATTTATACCAAACAAAATTACAACCGAATGTAT
ATAACCGAGCATATATATATATGTTAAATACATATCATATCCGATTGTA
Found at i:19366612 original size:9 final size:9
Alignment explanation
Indices: 19366588--19366666 Score: 86
Period size: 9 Copynumber: 8.6 Consensus size: 9
19366578 TTTGGTTAAA
19366588 AATTACCCG
1 AATTACCCG
* *
19366597 AAATACCCT
1 AATTACCCG
*
19366606 AATTACCAG
1 AATTACCCG
19366615 AATTACCCG
1 AATTACCCG
* *
19366624 ATTTACCCA
1 AATTACCCG
19366633 AATTACCCG
1 AATTACCCG
19366642 AATTACCCG
1 AATTACCCG
*
19366651 AAAATTACCTG
1 --AATTACCCG
19366662 AATTA
1 AATTA
19366667 AATCACTACA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 49 0.86
11 8 0.14
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:19366630 original size:27 final size:27
Alignment explanation
Indices: 19366588--19366653 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
19366578 TTTGGTTAAA
*
19366588 AATTACCCGAAATACCCTAATTACCAG
1 AATTACCCGAAATACCCAAATTACCAG
** *
19366615 AATTACCCGATTTACCCAAATTACCCG
1 AATTACCCGAAATACCCAAATTACCAG
19366642 AATTACCCGAAA
1 AATTACCCGAAA
19366654 ATTACCTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.30, G:0.08, T:0.23
Consensus pattern (27 bp):
AATTACCCGAAATACCCAAATTACCAG
Found at i:19366708 original size:37 final size:37
Alignment explanation
Indices: 19366667--19366833 Score: 250
Period size: 37 Copynumber: 4.5 Consensus size: 37
19366657 ACCTGAATTA
*
19366667 AATCACTACATAATTAAAAATATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
19366704 AATCACTACATAATTAAAAATATTA-ATTAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACA-TAAGTCTTTG
19366741 AATCACTACATAATTAAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATT-AAAAATATTACATAAGTCTTTG
* *
19366779 AATCAGTACATAATTAAAAACATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
19366815 AATTAAC-ACATAATTAAAA
1 AA-TCACTACATAATTAAAA
19366834 TATAAGTCTT
Statistics
Matches: 121, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
36 18 0.15
37 68 0.56
38 34 0.28
39 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:19366777 original size:75 final size:74
Alignment explanation
Indices: 19366667--19366833 Score: 250
Period size: 75 Copynumber: 2.3 Consensus size: 74
19366657 ACCTGAATTA
*
19366667 AATCACTACATAATT-AAAAATATTACATAAATCTTTGAATCACTACATAATTAAAAATATTA-A
1 AATCACTACATAATTAAAAAATATTACATAAATCTTTGAATCACTACATAATTAAAAACATTACA
19366730 TTAAGTCTTTG
66 -TAAGTC-TTG
* *
19366741 AATCACTACATAATTAAAAAATATTACATAAGTCTTTGAATCAGTACATAATTAAAAACATTACA
1 AATCACTACATAATTAAAAAATATTACATAAATCTTTGAATCACTACATAATTAAAAACATTACA
19366806 TAAGTCTTG
66 TAAGTCTTG
*
19366815 AATTAAC-ACATAATTAAAA
1 AA-TCACTACATAATTAAAA
19366834 TATAAGTCTT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
74 32 0.37
75 53 0.62
76 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.34
Consensus pattern (74 bp):
AATCACTACATAATTAAAAAATATTACATAAATCTTTGAATCACTACATAATTAAAAACATTACA
TAAGTCTTG
Found at i:19371276 original size:36 final size:36
Alignment explanation
Indices: 19371235--19371308 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
19371225 ATAAACATAC
19371235 TGATTTAATAACATTAAATAGCTAATAAACTTACCT
1 TGATTTAATAACATTAAATAGCTAATAAACTTACCT
*
19371271 TGATTTAATAACATTAAATAGCTAATAGACTTACCT
1 TGATTTAATAACATTAAATAGCTAATAAACTTACCT
19371307 TG
1 TG
19371309 GACGGTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (36 bp):
TGATTTAATAACATTAAATAGCTAATAAACTTACCT
Found at i:19374262 original size:21 final size:21
Alignment explanation
Indices: 19374238--19374279 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19374228 GCAATTTTGT
19374238 AATT-AACTAGAAATTAAAACA
1 AATTAAACT-GAAATTAAAACA
*
19374259 AATTAAAGTGAAATTAAAACA
1 AATTAAACTGAAATTAAAACA
19374280 TTTTAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTAAACTGAAATTAAAACA
Found at i:19382862 original size:25 final size:23
Alignment explanation
Indices: 19382834--19382882 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
19382824 TACAGAGCAT
19382834 TACC-GAACAATTAGAATAATATTAA
1 TACCAGAAC-ATTA-AATAA-ATTAA
*
19382859 TACCATAACATTAAATAAATTAA
1 TACCAGAACATTAAATAAATTAA
19382882 T
1 T
19382883 CTCAATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.27
24 5 0.23
25 8 0.36
26 3 0.14
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (23 bp):
TACCAGAACATTAAATAAATTAA
Found at i:19391210 original size:9 final size:9
Alignment explanation
Indices: 19391196--19391243 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
19391186 CACTTCAACT
19391196 ATTACCCAC
1 ATTACCCAC
19391205 ATTACCCAC
1 ATTACCCAC
19391214 ATTA-CCAC
1 ATTACCCAC
*
19391222 -TT--CAAC
1 ATTACCCAC
19391228 TATTACCCAC
1 -ATTACCCAC
19391238 ATTACC
1 ATTACC
19391244 ACTATCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
6 3 0.09
7 2 0.06
8 6 0.18
9 19 0.58
10 3 0.09
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (9 bp):
ATTACCCAC
Found at i:19391227 original size:33 final size:32
Alignment explanation
Indices: 19391181--19391243 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 32
19391171 TAGACTCTTT
19391181 CATTCCACTTCAACTATTACCCACATTACCCA
1 CATTCCACTTCAACTATTACCCACATTACCCA
19391213 CATTACCACTTCAACTATTACCCACATTACC
1 CATT-CCACTTCAACTATTACCCACATTACC
19391244 ACTATCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.29
Consensus pattern (32 bp):
CATTCCACTTCAACTATTACCCACATTACCCA
Found at i:19393188 original size:36 final size:40
Alignment explanation
Indices: 19393147--19393230 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
19393137 ATAAAACATG
* *
19393147 AAAATATAAAT-ATC-ATAAAAA-AATATGA-ATG-TATAT
1 AAAATATAAATAAACTATAAAAATAAAATGATATGATA-AT
*
19393183 AAAATATATATAAACTATAAAAATAAAATGATATGATAAT
1 AAAATATAAATAAACTATAAAAATAAAATGATATGATAAT
19393223 AAAATATA
1 AAAATATA
19393231 TACGTACTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 10 0.25
37 2 0.05
38 7 0.17
39 6 0.15
40 13 0.32
41 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (40 bp):
AAAATATAAATAAACTATAAAAATAAAATGATATGATAAT
Found at i:19395021 original size:100 final size:100
Alignment explanation
Indices: 19394890--19396999 Score: 3065
Period size: 100 Copynumber: 21.1 Consensus size: 100
19394880 TCGTCGTTGA
* * * * * * **
19394890 AATCTGTTCAACTGCACTGCTAAGGAGGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTGATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
** * *
19394955 GCTGTCGGGGAAACCAGATCTGCCGCTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** *
19394990 AATCTGCTCCACTGCACTGCCAGGGAAGTAAGATCCATCGCTGTGGCTTCAATCCTTTT-AATTG
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAAT-CTTTTAAATTG
** *
19395054 CGCTGTCGGGGAAACCAGATCTGCCGTTGTGACTTC
65 CGCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* *
19395090 AATCTACTCCACTGCACCGCCAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* **
19395155 GCTATCGGGGAAACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* *
19395190 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
19395255 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* * * * *
19395290 AATCTGCTCCAATACACCGCCAGAGAACTAAGATCCGCCGTTGTGGCTTTAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
** *
19395355 GCTGTCGGGGAAACCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* *
19395390 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTAC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
*
19395455 GCTGTCGAAGAAACCAGATCCGCCGTTGTAACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* *
19395490 AATCTGCTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTTAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
**
19395555 GCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* * *
19395590 AATCTGCTCCACTGCACCGCCAAGGAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTTAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19395655 GCTGTCGAAGAAACTAGATACGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* *
19395690 AATCTGCTCCACTGCACCACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
*
19395755 GCTGTC-AGGGAAACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGA-AGAAACCAGATCCGCCGTTGTGACTTC
* * *
19395790 AATCTGCTCCACTGCACCACCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19395855 GCTGTCGAAGAAACTAGATACGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* *
19395890 AATCTACTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
** *
19395955 GCTGTCGGGGAGACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* * ** * * *
19395990 AATCTGCTCCGCTACAATGCCCA-GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTA
1 AATCTGCTCCACTGCACCG-CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTG
19396054 CGCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
65 CGCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
*
19396090 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19396155 GCTGTCGAAGAACCCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** * * *
19396190 AATCTGCTCCACTACACTACTAGGGAAGTAAGATCTGACGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19396255 GCTGTCGAAGAACCCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** * * *
19396290 AATCTGCTCCACTACACTACTAGGGAAGTAAGATCTGACGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19396355 GCTGTCGAAGAACCCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** * * *
19396390 AATCTGCTCCACTACACTACTAGGGAAGTAAGATCTGACGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19396455 GCTGTCGAAGAACCCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** * * *
19396490 AATCTGCTCCACTACACTACTAGGGAAGTAAGATCTGACGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
* *
19396555 GCTGTCGAAGAACCCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** * * *
19396590 AATCTGCTCCACTACACTACTAGGGAAGTAAGATCTGACGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
*
19396655 GCTGTCGAAGAAACCAGATCTGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* ** * * *
19396690 AATCTGCTCCACTACACTACTAGGGAAGTAAGATCTGACGTTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
**
19396755 GCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
* * *
19396790 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
*
19396855 GCTGTCGAAGAAACCAGAACCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
*
19396890 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTAAATTGC
1 AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
**
19396955 GCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTC
66 GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
19396990 AATCTGCTCC
1 AATCTGCTCC
19397000 GCTACAACGC
Statistics
Matches: 1868, Mismatches: 136, Indels: 12
0.93 0.07 0.01
Matches are distributed among these distances:
99 9 0.00
100 1850 0.99
101 9 0.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (100 bp):
AATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGC
GCTGTCGAAGAAACCAGATCCGCCGTTGTGACTTC
Found at i:19398377 original size:15 final size:15
Alignment explanation
Indices: 19398357--19398400 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
19398347 CCTTAGCCTC
19398357 TCCATTTTT-ACTTTT
1 TCCATTTTTCA-TTTT
19398372 TCCATTTTTCATTTT
1 TCCATTTTTCATTTT
19398387 T-CA-TTTTCATTTT
1 TCCATTTTTCATTTT
19398400 T
1 T
19398401 TCACATCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.39
14 2 0.07
15 14 0.50
16 1 0.04
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCATTTTTCATTTT
Found at i:19398379 original size:7 final size:7
Alignment explanation
Indices: 19398359--19398400 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
19398349 TTAGCCTCTC
19398359 CATTTTT
1 CATTTTT
19398366 -ACTTTTT
1 CA-TTTTT
19398373 CCATTTTT
1 -CATTTTT
19398381 CATTTTT
1 CATTTTT
19398388 CA-TTTT
1 CATTTTT
19398394 CATTTTT
1 CATTTTT
19398401 TCACATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 18 0.58
8 5 0.16
9 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:19402672 original size:14 final size:14
Alignment explanation
Indices: 19402650--19402685 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19402640 CATAGGTATC
19402650 TAAAAAAATGGAAA
1 TAAAAAAATGGAAA
* *
19402664 TAAATAAATGTAAA
1 TAAAAAAATGGAAA
19402678 TAAAAAAA
1 TAAAAAAA
19402686 AAGTAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (14 bp):
TAAAAAAATGGAAA
Found at i:19402843 original size:23 final size:23
Alignment explanation
Indices: 19402815--19402859 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19402805 ATATATTTGG
19402815 ACTATA-AAATATACATAAAACAA
1 ACTATACAAATAT-CATAAAACAA
*
19402838 ACTATACAAATATTATAAAACA
1 ACTATACAAATATCATAAAACA
19402860 GAAATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
ACTATACAAATATCATAAAACAA
Found at i:19409756 original size:21 final size:21
Alignment explanation
Indices: 19409732--19409800 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
19409722 GAACTGCAAT
*
19409732 CAACACACTCAGATTCATCCA
1 CAACACACTCAGATGCATCCA
*
19409753 CAACAAAGCT-AGATGCATCCA
1 CAACACA-CTCAGATGCATCCA
* * * *
19409774 CATCAGAATCAGATGCAACCA
1 CAACACACTCAGATGCATCCA
19409795 CAACAC
1 CAACAC
19409801 TCTTTAATGC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.92
22 2 0.05
ACGTcount: A:0.42, C:0.33, G:0.10, T:0.14
Consensus pattern (21 bp):
CAACACACTCAGATGCATCCA
Found at i:19418059 original size:19 final size:19
Alignment explanation
Indices: 19418035--19418073 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19418025 TACCCATGAT
19418035 TATTCATTTCGAACTCATA
1 TATTCATTTCGAACTCATA
19418054 TATTCATTTCGAACTCATA
1 TATTCATTTCGAACTCATA
19418073 T
1 T
19418074 TGTTTCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
TATTCATTTCGAACTCATA
Found at i:19418244 original size:25 final size:25
Alignment explanation
Indices: 19418200--19418337 Score: 120
Period size: 25 Copynumber: 5.5 Consensus size: 25
19418190 CAAGCATGTA
* ** *
19418200 AACGGGAAGCTCTTCCGAGCCATAT
1 AACGGGAAGCTCATATGAGCTATAT
* *
19418225 AACGGGATGCTCATATGAGCTA-AGC
1 AACGGGAAGCTCATATGAGCTATA-T
* *
19418250 AACGAGAAGCTCATACGAG-TCATAT
1 AACGGGAAGCTCATATGAGCT-ATAT
* *
19418275 ATCGGGAAGCTCATATGAGCTAGA-
1 AACGGGAAGCTCATATGAGCTATAT
*
19418299 AATCGGGAAGCTCATATGAGCTAAAT
1 AA-CGGGAAGCTCATATGAGCTATAT
*
19418325 ATCGGGAAGCTCA
1 AACGGGAAGCTCA
19418338 AGAGAGTTGT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
24 3 0.03
25 84 0.93
26 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATATGAGCTATAT
Found at i:19418259 original size:50 final size:50
Alignment explanation
Indices: 19418200--19418337 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
19418190 CAAGCATGTA
* * * *
19418200 AACGGGAAGCTCTTCCGAGCCATATAACGGGATGCTCATATGAGCTAAGC
1 AACGAGAAGCTCATACGAGCCATATAACGGGAAGCTCATATGAGCTAAGC
* * *
19418250 AACGAGAAGCTCATACGAGTCATATATCGGGAAGCTCATATGAGCT-AGA
1 AACGAGAAGCTCATACGAGCCATATAACGGGAAGCTCATATGAGCTAAGC
* * * * *
19418299 AATCGGGAAGCTCATATGAGCTAAATATCGGGAAGCTCA
1 AA-CGAGAAGCTCATACGAGCCATATAACGGGAAGCTCA
19418338 AGAGAGTTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 4 0.05
50 71 0.95
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (50 bp):
AACGAGAAGCTCATACGAGCCATATAACGGGAAGCTCATATGAGCTAAGC
Found at i:19421927 original size:15 final size:15
Alignment explanation
Indices: 19421907--19421940 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
19421897 GTGTGATACT
19421907 ATATACCATAAAATA
1 ATATACCATAAAATA
19421922 ATATACCATAAAATA
1 ATATACCATAAAATA
19421937 ATAT
1 ATAT
19421941 TAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATACCATAAAATA
Found at i:19425268 original size:17 final size:17
Alignment explanation
Indices: 19425246--19425279 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19425236 TCAAAAAATG
19425246 GGATAGTGTGAGCTTCT
1 GGATAGTGTGAGCTTCT
19425263 GGATAGTGTGAGCTTCT
1 GGATAGTGTGAGCTTCT
19425280 AGACAATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.35, T:0.35
Consensus pattern (17 bp):
GGATAGTGTGAGCTTCT
Done.