Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 148 of 235
Found at i:49726658 original size:17 final size:18
Alignment explanation
Indices: 49726636--49726669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49726626 TTGAACTAGT
*
49726636 GAAA-TTATGAATTAAAG
1 GAAATTTATAAATTAAAG
49726653 GAAATTTATAAATTAAA
1 GAAATTTATAAATTAAA
49726670 TGGGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
GAAATTTATAAATTAAAG
Found at i:49728316 original size:15 final size:16
Alignment explanation
Indices: 49728296--49728334 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
49728286 AAGATGACAA
49728296 GAAATCCAAAATA-AG
1 GAAATCCAAAATAGAG
*
49728311 GAAATCCGAAATAGAG
1 GAAATCCAAAATAGAG
49728327 G-AATCCAA
1 GAAATCCAA
49728335 GATACCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (16 bp):
GAAATCCAAAATAGAG
Found at i:49728759 original size:17 final size:18
Alignment explanation
Indices: 49728737--49728770 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49728727 TTGAACTAGT
*
49728737 GAAA-TTATGAATTAAAG
1 GAAATTTATAAATTAAAG
49728754 GAAATTTATAAATTAAA
1 GAAATTTATAAATTAAA
49728771 TGGGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
GAAATTTATAAATTAAAG
Found at i:49730072 original size:53 final size:52
Alignment explanation
Indices: 49729943--49730087 Score: 157
Period size: 52 Copynumber: 2.8 Consensus size: 52
49729933 GAAAAAGATA
** * * *
49729943 TGATATGTGCGCCCGTATAAGACCAGAGCTGGGCCATGGCATCGGTGCAATG
1 TGATATGTGTTCCCGTATAAGACCATAGTTGGGCCATGGCATCAGTGCAATG
* * **
49729995 TGATATGTGTTCCCGTATAAGACCATAGTTGGGCGATGGCGTCAGTGTGATG
1 TGATATGTGTTCCCGTATAAGACCATAGTTGGGCCATGGCATCAGTGCAATG
* * *
49730047 TGATAATGTGATT-CCGTATAAGACCATGGTAGGGCTATGGC
1 TGAT-ATGTG-TTCCCGTATAAGACCATAGTTGGGCCATGGC
49730088 TTCGATGTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 47 0.59
53 30 0.38
54 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (52 bp):
TGATATGTGTTCCCGTATAAGACCATAGTTGGGCCATGGCATCAGTGCAATG
Found at i:49736686 original size:53 final size:53
Alignment explanation
Indices: 49736616--49736824 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 53
49736606 CTTTTCTTTT
* * * *
49736616 TAAACTTACCATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * *
49736669 TGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * * *
49736722 TCATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTG
1 T-A-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * *
49736777 TAAAACTTACGAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
49736825 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:49742397 original size:10 final size:10
Alignment explanation
Indices: 49742382--49742422 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
49742372 ATTGCATGTT
49742382 TGAATAGAAA
1 TGAATAGAAA
49742392 TGAATAG-AA
1 TGAATAGAAA
*
49742401 CGAATAGAAA
1 TGAATAGAAA
49742411 --AATAGAAA
1 TGAATAGAAA
49742419 TGAA
1 TGAA
49742423 AAAAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:49742746 original size:26 final size:26
Alignment explanation
Indices: 49742676--49742750 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
49742666 CATATTTTCT
* *
49742676 CAAAATTTTCCTAGGGGTAAAATCGT
1 CAAAATTTTACTAGGGGTAAAATCGC
* **
49742702 CAAAATTTTACCAAAGGTAAAATCGC
1 CAAAATTTTACTAGGGGTAAAATCGC
* *
49742728 CAAAATTTTGCTGGGGGTAAAAT
1 CAAAATTTTACTAGGGGTAAAAT
49742751 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (26 bp):
CAAAATTTTACTAGGGGTAAAATCGC
Found at i:49748062 original size:12 final size:12
Alignment explanation
Indices: 49748045--49748069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49748035 TATCAAATTT
49748045 TTTGTTCTAACA
1 TTTGTTCTAACA
49748057 TTTGTTCTAACA
1 TTTGTTCTAACA
49748069 T
1 T
49748070 AATGTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGTTCTAACA
Found at i:49750614 original size:48 final size:48
Alignment explanation
Indices: 49750406--49750720 Score: 311
Period size: 48 Copynumber: 6.6 Consensus size: 48
49750396 GTAAAATGCT
* *
49750406 GATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATACATCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTG-GCC
* * * ** *
49750456 GATGCCATGTCCCAAACATGGTCTTACACTGAC-AT-ATAACAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTGGCC
* * * * * *
49750502 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATTGAGG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* *
49750549 GATGCCATGTCCTAGACAGGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * * *** *
49750597 GATGCCATGTCTCAGACATGGTCTTACACTAGCACACAT-ATCAACGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
49750645 GATGCCATGTCCCAGACATGGTCTTACACAT-GCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-TGGCTCTCATAATGTGGCC
49750693 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
49750721 GTAGCACACA
Statistics
Matches: 214, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
46 32 0.15
47 41 0.19
48 107 0.50
49 4 0.02
50 30 0.14
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:49750649 original size:143 final size:144
Alignment explanation
Indices: 49750406--49750720 Score: 408
Period size: 143 Copynumber: 2.2 Consensus size: 144
49750396 GTAAAATGCT
* *
49750406 GATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATACATCGGTGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCAA
* * * *
49750471 ACATGGTCTTACACTGACATATAACAATGCTGATGCCATGTTCCAAACATGGTCTTATAC-TGGC
66 ACATGGTCTTACACTGACACATAACAACGCTGATGCCATGTCCCAAACATGGTCTTACACAT-GC
*
49750535 TCACATATTGAGG-C
130 TCACATAATGAGGCC
* * *
49750549 GATGCCATGTCCTAGACAGGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATGCCATGTCTCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGT-GCCGATGCCATGTCCCA
* * *
49750611 GACATGGTCTTACACTAGCACACATATCAACG-TCGATGCCATGTCCCAGACATGGTCTTACACA
65 AACATGGTCTTACACT-G-ACACATAACAACGCT-GATGCCATGTCCCAAACATGGTCTTACACA
* *
49750675 TGCTCTCATAATGTGGCC
127 TGCTCACATAATGAGGCC
49750693 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
49750721 GTAGCACACA
Statistics
Matches: 149, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
140 2 0.01
141 31 0.21
142 4 0.03
143 84 0.56
144 28 0.19
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACATAACAACGCTGATGCCATGTCCCAAACATGGTCTTACACATGCT
CACATAATGAGGCC
Found at i:49750673 original size:96 final size:96
Alignment explanation
Indices: 49750406--49750737 Score: 363
Period size: 96 Copynumber: 3.5 Consensus size: 96
49750396 GTAAAATGCT
* * * *
49750406 GATGCCATGTCCCGGACATGGTCTTACACT-GTCTCTCATA-CATCGGTGCCGATGCCATGTCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CACACATATCAAC-GT--CGATGCCATGTCCC
* * * ** *
49750469 AAACATGGTCTTACACTGAC-AT-ATAACAAT-GCT
62 AGACATGGTCTTACACTGGCTCTCATAA-TGTGGCC
* * * * * ** * *
49750502 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATATTGA-GGCGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
*
49750566 AGGGTCTTACACTGGCTCTCATAATGTGGCC
66 ATGGTCTTACACTGGCTCTCATAATGTGGCC
*
49750597 GATGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
49750662 ATGGTCTTACACAT-GCTCTCATAATGTGGCC
66 ATGGTCTTACAC-TGGCTCTCATAATGTGGCC
*
49750693 GATGCCATGTCCCAGACATGGTCTTACAGTAGCACACATATCAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
49750738 CAAATGTCTT
Statistics
Matches: 199, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
93 30 0.15
94 2 0.01
95 43 0.22
96 122 0.61
97 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:49752635 original size:21 final size:21
Alignment explanation
Indices: 49752596--49752635 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49752586 GGACTAAACC
* *
49752596 GAAAACTTTGAGAAGTTTCAA
1 GAAAACTTAGAAAAGTTTCAA
*
49752617 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
49752636 CCATGGAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAA
Found at i:49754717 original size:49 final size:47
Alignment explanation
Indices: 49754606--49754725 Score: 143
Period size: 49 Copynumber: 2.5 Consensus size: 47
49754596 GATGCAGACG
* *
49754606 CCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCAATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATCAAACTCAATA
** * *
49754654 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGAACT-GATA
1 CCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATC-AAACTCAATA
49754703 CCATGTCCCAGACAGGTCTTACA
1 CCATGTCCCAGACAGGTCTTACA
49754726 TGACACACAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
47 17 0.27
48 15 0.24
49 28 0.44
50 3 0.05
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (47 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAACTCAATA
Found at i:49754807 original size:48 final size:46
Alignment explanation
Indices: 49754742--49754908 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
49754732 ACAACAAGCT
* * *
49754742 GATGCCATGT-CTCAGACAAGTCTTACACTAGCTTGT-ATATCTCGAGGCC
1 GATG-CATGTCCT-AGACATGTCTTACACTAG-TTCTCATA--TCAAGGCC
* *
49754791 GATGCATGTCCTAGACATGTCTTACACTAGTTCTCGTATCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGTTCTCATATCAAGGCC
* * * **
49754837 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCATGTCCTAGACATGTCTTACACTAGTTCTCAT-ATCAAGGCC
49754883 GATGCATGTCCCT-GACATGTCTTACA
1 GATGCATGT-CCTAGACATGTCTTACA
49754909 GTAGCACACA
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
46 64 0.63
47 7 0.07
48 24 0.24
49 6 0.06
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTAGTTCTCATATCAAGGCC
Found at i:49754853 original size:46 final size:45
Alignment explanation
Indices: 49754787--49754913 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
49754777 TATATCTCGA
* *
49754787 GGCCGATGCATGTCCTAGACATGTCTTACACTAGTTCTCGTATCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGT
*
49754834 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GT
* *
49754879 GGCCGATGCATGTCCCTGACATGTCTTACAGTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
49754914 ACACATATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
45 1 0.01
46 66 0.93
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGT
Found at i:49754923 original size:92 final size:91
Alignment explanation
Indices: 49754651--49754923 Score: 236
Period size: 92 Copynumber: 2.9 Consensus size: 91
49754641 ATCAAAGTCA
* * * * * *
49754651 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGAACTGATACCATGTCCCAGAC
1 ATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCAT-AATCGG-GCCGAT-GCATGTCCCTGAC
* *
49754716 AGGTCTTACAT-GACACACA-A-CAAGCTG
63 ATGTCTTACATAG-CACACATATCAAGCCG
* * * *
49754743 ATGCCATGTCTCAGACAAGTCTTACACTAGCT-TGTATATCTCGAGGCCGATGCATGT-CCTAGA
1 ATGCCATGTCCCAGACAAGTCTTACACTGGCTCT-CATA-ATCG-GGCCGATGCATGTCCCT-GA
** * *
49754806 CATGTCTTACACTAGTTCTCGTATCAATGCCG
62 CATGTCTTACA-TAGCACACATATCAA-GCCG
*
49754838 ATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCTGACAT
1 ATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATAATCG-GGCCGATGCATGTCCCTGACAT
49754901 GTCTTACAGTAGCACACATATCA
65 GTCTTACA-TAGCACACATATCA
49754924 TCGAATGTCA
Statistics
Matches: 143, Mismatches: 27, Indels: 22
0.74 0.14 0.11
Matches are distributed among these distances:
90 2 0.01
91 18 0.13
92 78 0.55
93 7 0.05
94 31 0.22
95 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (91 bp):
ATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATAATCGGGCCGATGCATGTCCCTGACATG
TCTTACATAGCACACATATCAAGCCG
Found at i:49757196 original size:8 final size:9
Alignment explanation
Indices: 49757169--49757197 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
49757159 AATTAAAAAA
49757169 TTATATTTT
1 TTATATTTT
49757178 TTATATTTT
1 TTATATTTT
49757187 TT-TATTTT
1 TTATATTTT
49757195 TTA
1 TTA
49757198 AATATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATATTTT
Found at i:49759037 original size:132 final size:131
Alignment explanation
Indices: 49758740--49759172 Score: 425
Period size: 131 Copynumber: 3.3 Consensus size: 131
49758730 TCTCAAATCG
* * * * * *
49758740 CCAAACATCGAATATCGACTTCGTTTTGTAAG-GTTTTTAATAA-ACATGAATGAAAAC-CTAAA
1 CCAAACATCAAATCTCGTCTTCG-TTTG-AAGAATTTTTAA-AAGACATGAATGAAATCTC-GAA
* * *** * * *
49758802 G-GAATATTCGATTA-TTTGAGCAAACGAG-AATCACAACCCAGCACGATAGGGCATGATTCC-C
62 GCG-ATACTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGC
49758863 GAATTA
126 GAATTA
* * * * * * * * * *
49758869 TCAAA-AGCCAAATATTGCCTTCGTTTTAAGTAATTTTTAGAAGATATGAATGAAATCTGGAAGG
1 CCAAACA-TCAAATCTCGTCTTCGTTTGAAG-AATTTTTAAAAGACATGAATGAAATCTCGAAGC
*
49758933 GATACTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGTGAA
64 GATACTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAA
49758998 TTA
129 TTA
* * * * *
49759001 CTAAATATCGAATGTCGTCTTCGTTTGGAAGAA-TTTTAAAAGACATGAATGAAATTTCGAAGCG
1 CCAAACATCAAATCTCGTCTTCGTTT-GAAGAATTTTTAAAAGACATGAATGAAATCTCGAAGCG
*
49759065 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
65 ATACTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
*
49759130 TG
130 TA
*
49759132 CCAAACATCAAATCTTGTCTTCGCTTTGAAGAATTTTTAAA
1 CCAAACATCAAATCTCGTCTTCG-TTTGAAGAATTTTTAAA
49759173 GGAATACTTA
Statistics
Matches: 249, Mismatches: 42, Indels: 23
0.79 0.13 0.07
Matches are distributed among these distances:
127 3 0.01
128 6 0.02
129 47 0.19
130 14 0.06
131 140 0.56
132 35 0.14
133 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (131 bp):
CCAAACATCAAATCTCGTCTTCGTTTGAAGAATTTTTAAAAGACATGAATGAAATCTCGAAGCGA
TACTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATT
A
Found at i:49761896 original size:44 final size:44
Alignment explanation
Indices: 49761832--49762310 Score: 652
Period size: 44 Copynumber: 10.9 Consensus size: 44
49761822 CTGTTATTTC
* * * * * *
49761832 CGATCTGCTCTTTGCCAATACAGAGATGTCAAGTCCGTTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
**
49761876 CGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
*
49761920 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
49761964 CGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCAATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
** * **
49762008 CGATCTGCTCTCCACCAATACAGAGATGATAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * **
49762052 TGATCTGCTCTCTGCCAATACAGAAACGCAAAATCTATTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * *
49762096 TGATCTGCTCTCCGCCAATACAGATACGCCAAATCTACTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
49762140 TGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
*
49762184 CAATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* ** *
49762228 CGATCTGTTCTCCACCAATACAGAGACGTCAAATCTGCTATCTT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
49762272 CGATCTGCTCTCCGCCAATACAGAGACGCAAAATCTGCT
1 CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
49762311 GGATTCACCA
Statistics
Matches: 389, Mismatches: 46, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 389 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (44 bp):
CGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTT
Found at i:49774107 original size:131 final size:129
Alignment explanation
Indices: 49773758--49774125 Score: 370
Period size: 131 Copynumber: 2.8 Consensus size: 129
49773748 ACCTAAAGGA
** *** * * *
49773758 ATATTCGATTA-TTTGAGCAAACAAG-AATCACAACCCAGCACGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * *
49773820 TATCAAAAGCCAAATATTG-CTTCGTTTTAAGTAATTTTTAGAAGATATGAACGAAATCTTGAAG
66 TACCAAAA-TCAAATCTTGTCTTCGTTTGAAG-AA-TTTTAAAAGACATGAACGAAATCTTGAAG
*
49773884 GG
128 CG
* * * * *
49773886 ATACTCGATTCTTCTGAGCAAATGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGTGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * *
49773951 TACTAAATATCGAATGC-CGTGTTCGTTTGGAAGAATTTTAAAAGACATGAATGAAAT-TTCGAA
66 TACCAAA-ATCAAAT-CTTGTCTTCGTTT-GAAGAATTTTAAAAGACATGAACGAAATCTT-GAA
49774014 GCG
127 GCG
49774017 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* *
49774082 TGCCAAACATCAAATCTTGTCTTCGTTTTGAAGAATTTTTAAAG
66 TACCAAA-ATCAAATCTTGTCTTCG-TTTGAAGAATTTTAAAAG
49774126 GAATACTTAT
Statistics
Matches: 193, Mismatches: 37, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
128 9 0.05
129 10 0.05
130 29 0.15
131 129 0.67
132 13 0.07
133 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (129 bp):
ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
TACCAAAATCAAATCTTGTCTTCGTTTGAAGAATTTTAAAAGACATGAACGAAATCTTGAAGCG
Found at i:49779041 original size:43 final size:43
Alignment explanation
Indices: 49778974--49779095 Score: 192
Period size: 43 Copynumber: 2.9 Consensus size: 43
49778964 TCTGAATTCG
* * *
49778974 TTCACCGGCATT-TCGCCAGCTAGGCTCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
* *
49779016 TTCACCGACATTATAGCCTGCTAGGCTCGAGGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
49779059 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA
49779096 ATGGTACCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 11 0.15
43 61 0.85
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
Found at i:49785351 original size:16 final size:14
Alignment explanation
Indices: 49785316--49785346 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49785306 ACTAAGAAGA
*
49785316 TAAATATAAATACT
1 TAAAAATAAATACT
49785330 TAAAAATAAATACT
1 TAAAAATAAATACT
49785344 TAA
1 TAA
49785347 GAAAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATAAATACT
Found at i:49790677 original size:27 final size:27
Alignment explanation
Indices: 49790615--49790680 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
49790605 AATATTTTAG
* *
49790615 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTCAAATACCCTCGA
* **
49790642 CTTGTAAAATTAC-CAAAGTACCCTCGA
1 TTTACAAAATTACTCAAA-TACCCTCGA
49790669 TTTACAAAATTA
1 TTTACAAAATTA
49790681 TCGTTTTACC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACTCAAATACCCTCGA
Found at i:49790690 original size:27 final size:27
Alignment explanation
Indices: 49790660--49790826 Score: 185
Period size: 27 Copynumber: 6.2 Consensus size: 27
49790650 ATTACCAAAG
* * *
49790660 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCATTT
** * *
49790687 TACCCTTAATTTACAAAATTA-CTATTT
1 TACCCTCGATTTATAGAATTATC-ATTT
* *
49790714 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCATTT
*
49790741 TACCCTTGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTATAGAATTATC-ATTT
* *
49790768 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTATCATTT
*
49790795 TACCTTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTATCATTT
49790822 TACCC
1 TACCC
49790827 GTTTTGCCCT
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 116 0.97
28 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTATCATTT
Found at i:49790806 original size:54 final size:54
Alignment explanation
Indices: 49790660--49790826 Score: 239
Period size: 54 Copynumber: 3.1 Consensus size: 54
49790650 ATTACCAAAG
* * * * *
49790660 TACCCTCGATTTACAAAATTATCGTTTTACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTATAGAATTACTATTT
*
49790714 TACCCTCAATTTATAGAATTATCGTTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTATAGAATTACTATTT
*
49790768 TACCCTCGATTTATAGAATTACCGTTTTA-CCTTCGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAGAATTATCGTTTTACCCTT-GATTTATAGAATTACT-ATTT
49790822 TACCC
1 TACCC
49790827 GTTTTGCCCT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
53 5 0.05
54 98 0.95
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTATCGTTTTACCCTTGATTTATAGAATTACTATTT
Found at i:49791133 original size:67 final size:67
Alignment explanation
Indices: 49791025--49791267 Score: 423
Period size: 67 Copynumber: 3.6 Consensus size: 67
49791015 GAGGAAGCGT
* *
49791025 TCTGGCAGCCTCACTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
49791090 TA
66 TA
* *
49791092 TCTGGTAACCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
49791157 TA
66 TA
49791159 TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
49791224 TA
66 TA
* * *
49791226 TCTGGCAGCCTCGCTGCAATCTGCTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATAT
49791268 ATATCTGTTC
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 167 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:49797691 original size:27 final size:27
Alignment explanation
Indices: 49797634--49797898 Score: 296
Period size: 27 Copynumber: 9.8 Consensus size: 27
49797624 ATTACTGAAA
* * ***
49797634 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* * *
49797661 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
49797688 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
49797715 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
49797742 TACCCTCAATTTATAAAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
49797769 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
49797796 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
49797823 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
49797850 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
49797877 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
49797899 TGAAATNNNN
Statistics
Matches: 205, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 205 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:49797751 original size:81 final size:81
Alignment explanation
Indices: 49797634--49797898 Score: 352
Period size: 81 Copynumber: 3.3 Consensus size: 81
49797624 ATTACTGAAA
* ***
49797634 TACCCTCGACTTATAAAATTACCAAAGTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
*
49797699 TACAGAATTACCGTTT
66 TATAGAATTACCGTTT
* **
49797715 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAAAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
*
49797780 TATAGAATTACCATTT
66 TATAGAATTACCGTTT
* * * * * * *
49797796 TACCCTTGATTTATAGAATTACTATTTTACCCTCGACTTACAGAATTA-CTGTTTTACCCTCAAT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATC-GTTTTACCCTCGAT
49797860 TTATAGAATTACCGTTT
65 TTATAGAATTACCGTTT
* *
49797877 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAAAATTAC
49797899 TGAAATNNNN
Statistics
Matches: 159, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 159 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
TATAGAATTACCGTTT
Found at i:49798178 original size:27 final size:26
Alignment explanation
Indices: 49798134--49798185 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49798124 CTCGCTGCAA
*
49798134 TCTGGTGGCCTCACCACATATATCTGT
1 TCTGGTGACCTCACCACA-ATATCTGT
* *
49798161 TCTGGTGACTTCATCACAATATCTG
1 TCTGGTGACCTCACCACAATATCTG
49798186 GTAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCACCACAATATCTGT
Found at i:49798231 original size:67 final size:67
Alignment explanation
Indices: 49798117--49798265 Score: 235
Period size: 67 Copynumber: 2.2 Consensus size: 67
49798107 GGAAGCGTTT
*
49798117 TGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCATCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCATCACAATA
49798182 TC
66 TC
* * * * * *
49798184 TGGTAGCCTTGCTGCAATCTGGTGGCTTCGCCAGATATATCTATTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCATCACAATA
49798249 TC
66 TC
49798251 TGGCAGCCTCGCTGC
1 TGGCAGCCTCGCTGC
49798266 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCATCACAATA
TC
Found at i:49799940 original size:27 final size:27
Alignment explanation
Indices: 49799902--49799960 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
49799892 NNNNNNNNAG
* *
49799902 AATTACCGTTTTACCCTCGATTTATAA
1 AATTACCATTTTACCCTCAATTTATAA
49799929 AATTACCATTTTACCCTCAATTTATAA
1 AATTACCATTTTACCCTCAATTTATAA
49799956 AATTA
1 AATTA
49799961 TTGTTCTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (27 bp):
AATTACCATTTTACCCTCAATTTATAA
Found at i:49800225 original size:6 final size:6
Alignment explanation
Indices: 49800214--49800248 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
49800204 NNNNNNNNNN
49800214 CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
49800249 AATGTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:49806037 original size:47 final size:47
Alignment explanation
Indices: 49805986--49806145 Score: 151
Period size: 47 Copynumber: 3.3 Consensus size: 47
49805976 AAAGATACCC
49805986 TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
1 TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
** * * ** * *
49806033 TGTAAGACCATGCCAATGCATGACATTG-ATAAGTTCTATAAGACAAGGATACCA
1 TGTAAGACCATG--TTTG-A-AACATGGCAT---TT-GGTAAGATAAGGATATCA
* *
49806087 TGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCG
1 TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
49806134 TGTAAGACCATG
1 TGTAAGACCATG
49806146 CCAAGACATG
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
47 37 0.43
48 2 0.02
49 2 0.02
50 8 0.09
51 7 0.08
52 2 0.02
53 2 0.02
54 26 0.30
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (47 bp):
TGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATATCA
Found at i:49806094 original size:101 final size:106
Alignment explanation
Indices: 49805970--49806424 Score: 467
Period size: 108 Copynumber: 4.4 Consensus size: 106
49805960 GCATTGGCAC
* * * * *
49805970 TAAGACAAAGATACCCTGTAAGACCATGTTTGAA-ACATGGCATT-TG-G-TAAGATAAGG-ATA
1 TAAGGCAAGGATACCATGTAAGACCATG-TTCAAGACATGGCATTATGAGTTAAGATAAGGAAAA
* *
49806030 -T-CATGTAAGACCATGCCAATGCATGACATTGATAAGTTCTA
65 GTCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-A
* ** *
49806071 TAAGACAAGGATACCATGTAAGACCATGTT-TGGAACATGGCATT-TG-G-TAAGATAAGG-ATA
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAG-ACATGGCATTATGAGTTAAGATAAGGAAAA
* * *
49806131 -T-CGTGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTA
65 GTCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-A
* * * **
49806172 TTAGGCAAGGAAATCATGTAAGACCATG-TCAAGACATGGCATTGATGAGTTACTATAAGGAAAA
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACATGGCATT-ATGAGTTAAGATAAGGAAAA
* *
49806236 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
65 -GT-CCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
**
49806280 TAAGGCAAGGATACCATGTAAGACCATG-TCAAGACATGGCATTGATGAGTTACTATAAGGAAAA
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACATGGCATT-ATGAGTTAAGATAAGGAAAA
* *
49806344 GGTTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
65 -G-TCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
*
49806388 TAAGGCAAGGATACCACGTAAGACCATG-TCAAGACAT
1 TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACAT
49806425 AGCAATGGTA
Statistics
Matches: 314, Mismatches: 27, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
100 13 0.04
101 113 0.36
102 2 0.01
103 1 0.00
104 8 0.03
105 2 0.01
107 1 0.00
108 140 0.45
109 34 0.11
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (106 bp):
TAAGGCAAGGATACCATGTAAGACCATGTTCAAGACATGGCATTATGAGTTAAGATAAGGAAAAG
TCCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCA
Found at i:49806324 original size:108 final size:108
Alignment explanation
Indices: 49806134--49806424 Score: 492
Period size: 108 Copynumber: 2.7 Consensus size: 108
49806124 AAGGATATCG
* * * * * * *
49806134 TGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATTAGGCAAGGAAATCATGTAAGACCAT
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCAT
49806199 GTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCA
65 GTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCA
49806243 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
*
49806308 TCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTTCCA
66 TCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCA
*
49806351 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
49806416 TCAAGACAT
66 TCAAGACAT
49806425 AGCAATGGTA
Statistics
Matches: 173, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
108 141 0.82
109 32 0.18
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (108 bp):
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
TCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCA
Found at i:49806440 original size:53 final size:54
Alignment explanation
Indices: 49806124--49806424 Score: 367
Period size: 55 Copynumber: 5.6 Consensus size: 54
49806114 TTGGTAAGAT
* * * * *
49806124 AAGGATATCGTGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATTAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
49806178 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
49806234 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
49806286 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
49806342 AAGG-TTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
49806394 AAGGATACCACGTAAGACCATGTCAAGACAT
1 AAGGATACCATGTAAGACCATGCCAAGACAT
49806425 AGCAATGGTA
Statistics
Matches: 212, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
52 8 0.04
53 70 0.33
54 43 0.20
55 83 0.39
56 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:49821279 original size:24 final size:21
Alignment explanation
Indices: 49821229--49821278 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
49821219 TTAAGCAGAA
*
49821229 GCTGCTGCAACCTTTTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
49821250 GCTGCTGCAACCTTCTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
49821271 GCTGCTGC
1 GCTGCTGC
49821279 TACAGTACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.32, G:0.18, T:0.42
Consensus pattern (21 bp):
GCTGCTGCAACCTTCTTTCTT
Found at i:49825244 original size:229 final size:229
Alignment explanation
Indices: 49821568--49825051 Score: 6695
Period size: 229 Copynumber: 15.2 Consensus size: 229
49821558 ATAAGTACTT
*
49821568 AAACACTTCAATTTGCAACA-TTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
1 AAACACTTCAATTTGCAACACTTTAA-CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAG
*
49821632 CA-TTCTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGT
65 CACTT-TTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGT
* *
49821696 CCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCA
129 CCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCA
* **
49821761 ATTTACAGCATTTAAATACTTCAATTTGCAGCATTC
194 ATTTACAGCATTTAAACACTTCAATTTATAGCATTC
49821797 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49821862 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
*
49821927 AGCAACTAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49821992 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49822026 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49822091 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49822156 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49822221 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49822255 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49822320 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49822385 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49822450 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49822484 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49822549 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49822614 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49822679 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49822713 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49822778 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49822843 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49822908 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49822942 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49823007 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49823072 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49823137 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49823171 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49823236 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49823301 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49823366 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49823400 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49823465 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49823530 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49823595 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49823629 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49823694 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49823759 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49823824 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49823858 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49823923 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49823988 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
*
49824053 TTACAGCATTTAAACACTTCAATTTGTAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
*
49824087 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49824152 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49824217 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49824282 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49824316 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49824381 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
49824446 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49824511 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49824545 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49824610 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
* ** * *
49824675 GGCAACTAAACACTTCAATTTTTAGTACTTAAACACTTCAATTTGCAATATTTAAGCACTTCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
49824740 TTACAGCATTTAAACACTTCAATTTATAGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
49824774 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
49824839 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
66 ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
* * *
49824904 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAATTTGCAACATTTAAACACTTCAAT
131 AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
**
49824969 TTACAGCATTTAAACACTTCAATTTACGGCATTC
196 TTACAGCATTTAAACACTTCAATTTATAGCATTC
* * * *
49825003 AAATACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTTAA
1 AAACACTTCAATTTGCAACACTTT-AACACTTCAATTTACAGCA-TTTAA
49825052 CATCTCAATT
Statistics
Matches: 3221, Mismatches: 30, Indels: 7
0.99 0.01 0.00
Matches are distributed among these distances:
228 3 0.00
229 3206 1.00
230 12 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (229 bp):
AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGC
ACTTTTACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCC
AGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAAT
TTACAGCATTTAAACACTTCAATTTATAGCATTC
Found at i:49825246 original size:183 final size:183
Alignment explanation
Indices: 49822185--49825336 Score: 785
Period size: 183 Copynumber: 17.2 Consensus size: 183
49822175 TTGCAGTACT
* * * *
49822185 TAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAG
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
* * * *
49822250 CATTCAAACACTTCAATTTGCAACACTT-TAACACTTCAATTTACAGCA-TTTAAGCA-CTTCAA
66 CATTCAAACACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA-CATC-TCAA
** * * * * * * * *
49822312 TTTGCAGCACTTT-TACATCTCAATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-
128 TTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAAC
* * * ** * * *
49822367 TAAA-ACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTG
1 TAAACAC-T-TCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTA
* * * * * ** *
49822430 CAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACA-CTTC
63 CAGCATTCAAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTT-TAACATC-TC
** * * * * *
49822493 AATTTGCAACACTTTA-ACACTTCAATTTACAGC-ATTTAAGCA-CTTCAATTTGCAGC-AC
126 AATTAACAACA-TTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
** ** * * * *
49822551 TTTTACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT
1 -TAAACACT-TCAATTTGCAACATTTAAACACTTCAATTTACAGC-ATTCAAACACT-TCAATTT
* * * * *
49822612 CCAGCA-ACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTGCAACA-TTTAAGCA-C
62 ACAGCATTC-AAACACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA-CATC
* * * * * * * * *
49822673 ATCAATTTACAGCATTTAAACACTTCAATTTATAGC-ATTCAAACA-CTTCAATTTGCAAC-AC
124 -TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
* * * * * ** *
49822734 TTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTT-TTACA-TCTCAATTAA
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACT-TCAATTTA
* * * * * * *
49822797 CAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGTCCAGCAAC-TAAACA-CT
63 CAGCATTCAAACACTTCAATTTACAGC-ATTAAAACACT-TCAATTTGCAGC-ACTTTAACATC-
** ** * * * * * * * * * **
49822857 TCAATTTGCAGTACTTAAACACTTCAATTTGCAAC-ATTTAAGCA-CATCAATTTACAGCATT
124 TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
** * * * * *
49822918 TAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAACACTT-TAACACTTCAATTTACA
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTACA
* * * ** ** * *
49822982 GCATTTAAGCACTTCAATTTGCAGCACTT-TTACA-TCTCAATTAACAACA-TTTATACACCTCA
65 GCATTCAAACACTTCAATTTACAGCA-TTAAAACACT-TCAATTTGCAGCACTTTA-ACATCTCA
* * * * * * * * *
49823044 ATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACA-CTTCAATTTGCAG-TAC
127 ATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
* * * *
49823100 TTAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTATA
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACA
* * * *
49823165 GCATTCAAACACTTCAATTTGCAACACTT-TAACACTTCAATTTACAGCA-TTTAAGCA-CTTCA
65 GCATTCAAACACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA-CATC-TCA
** * * * * * * * *
49823227 ATTTGCAGCACTTT-TACATCTCAATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-
127 ATTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAAC
* * * ** * * *
49823283 TAAA-ACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTG
1 TAAACAC-T-TCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTA
* * * * * ** *
49823346 CAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACA-CTTC
63 CAGCATTCAAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTT-TAACATC-TC
** * * * * *
49823409 AATTTGCAACACTTTA-ACACTTCAATTTACAGC-ATTTAAGCA-CTTCAATTTGCAGC-AC
126 AATTAACAACA-TTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
** ** * * * *
49823467 TTTTACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT
1 -TAAACACT-TCAATTTGCAACATTTAAACACTTCAATTTACAGC-ATTCAAACACT-TCAATTT
* * * * *
49823528 CCAGCA-ACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTGCAACA-TTTAAGCA-C
62 ACAGCATTC-AAACACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA-CATC
* * * * * * * * *
49823589 ATCAATTTACAGCATTTAAACACTTCAATTTATAGC-ATTCAAACA-CTTCAATTTGCAAC-AC
124 -TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
* * * * * ** *
49823650 TTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTT-TTACA-TCTCAATTAA
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACT-TCAATTTA
* * * * * * *
49823713 CAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGTCCAGCAAC-TAAACA-CT
63 CAGCATTCAAACACTTCAATTTACAGC-ATTAAAACACT-TCAATTTGCAGC-ACTTTAACATC-
** ** * * * * * * * * * **
49823773 TCAATTTGCAGTACTTAAACACTTCAATTTGCAAC-ATTTAAGCA-CATCAATTTACAGCATT
124 TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
** * * * * *
49823834 TAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAACACTT-TAACACTTCAATTTACA
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTACA
* * * ** ** * *
49823898 GCATTTAAGCACTTCAATTTGCAGCACTT-TTACA-TCTCAATTAACAACA-TTTATACACCTCA
65 GCATTCAAACACTTCAATTTACAGCA-TTAAAACACT-TCAATTTGCAGCACTTTA-ACATCTCA
* * * * * * * * *
49823960 ATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACA-CTTCAATTTGCAG-TAC
127 ATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
* * * **
49824016 TTAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTGTA
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACA
* * *
49824081 GCATTCAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTACAGCA-TTTAAGCA-CTTCA
65 GCATTCAAACACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA-CATC-TCA
** * * * * * * * *
49824143 ATTTGCAGCACTTT-TACATCTCAATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-
127 ATTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAAC
* * * ** * * *
49824199 TAAA-ACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTG
1 TAAACAC-T-TCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTA
* * * * * ** *
49824262 CAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACA-CTTC
63 CAGCATTCAAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTT-TAACATC-TC
** * * * * *
49824325 AATTTGCAACACTTTA-ACACTTCAATTTACAGC-ATTTAAGCA-CTTCAATTTGCAGC-AC
126 AATTAACAACA-TTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
** ** * * * *
49824383 TTTTACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT
1 -TAAACACT-TCAATTTGCAACATTTAAACACTTCAATTTACAGC-ATTCAAACACT-TCAATTT
* * * * *
49824444 CCAGCA-ACTAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTGCAACA-TTTAAGCA-C
62 ACAGCATTC-AAACACTTCAATTTACAGCA-TTAAAACACTTCAATTTGCAGCACTTTAA-CATC
* * * * * * * * *
49824505 ATCAATTTACAGCATTTAAACACTTCAATTTATAGC-ATTCAAACA-CTTCAATTTGCAAC-AC
124 -TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
* * * * * ** *
49824566 TTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTT-TTACA-TCTCAATTAA
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACT-TCAATTTA
* * * * * * * *
49824629 CAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGTCCGGCAAC-TAAACA-CT
63 CAGCATTCAAACACTTCAATTTACAGC-ATTAAAACACT-TCAATTTGCAGC-ACTTTAACATC-
*** ** * * * * * * * * **
49824689 TCAATTTTTAGTACTTAAACACTTCAATT--TGCAATATTTAAGCA-CTTCAATTTACAGCATT
124 TCAATTAACAACATTTATACACCTCAATTACAGCGATA---AAACATC-TCAATGTCCAGCAAC
** * * * * *
49824750 TAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAACACTT-TAACACTTCAATTTACA
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTACA
* * * ** ** * *
49824814 GCATTTAAGCACTTCAATTTGCAGCACTT-TTACA-TCTCAATTAACAACA-TTTATACACCTCA
65 GCATTCAAACACTTCAATTTACAGCA-TTAAAACACT-TCAATTTGCAGCACTTTA-ACATCTCA
* * * * * * * * *
49824876 ATT-ACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACA-CTTCAATTTGCAG-TAC
127 ATTAACAAC-ATTTATACACCTCAAT-TACAGCGA-TAAAACATC-TCAATGTCCAGCAAC
* * *
49824932 TTAAACACTTTAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACG
1 -TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACA
* *
49824997 GCATTCAAATACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATT
65 GCATTCAAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATCTCAATT
* *
49825062 AACAACATTTATACACCTCAATTATAGCGCTAAAACATCTCAATGTCCAGCAAC
130 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAAC
* * *
49825116 TAAACACTTCAATTTGCAACATTTTAGCACTTCAATTTACAGCATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
* *
49825181 CACTT-TAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATTTCAATT
66 CA-TTCAAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATCTCAATT
* *
49825245 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCTAGCAAC
130 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAAC
** *
49825299 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTT
1 TAAACACTTCAATTTGCAACATTTAAACACTTCAATTT
49825337 GCAACATTTA
Statistics
Matches: 2327, Mismatches: 482, Indels: 321
0.74 0.15 0.10
Matches are distributed among these distances:
180 3 0.00
181 7 0.00
182 71 0.03
183 1834 0.79
184 385 0.17
185 19 0.01
186 7 0.00
187 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (183 bp):
TAAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
CATTCAAACACTTCAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAAC
Found at i:49825310 original size:68 final size:69
Alignment explanation
Indices: 49821568--49825312 Score: 1379
Period size: 69 Copynumber: 54.5 Consensus size: 69
49821558 ATAAGTACTT
* * * * * * *
49821568 AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTT-AACACCTCAATTTACAG
*
49821632 CATTC
65 CATTA
* ** * * * * * ** * * *
49821637 TAACA-TCTCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCA
1 AAACACT-TCAATTTGCAGCACTTAAACACTTCAATTAACAAC-ACTTTAACACCTCAATTTACA
*
49821699 GCAACT-
64 GC-ATTA
* ** * *
49821705 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACA-TTTAAGAACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
*
49821769 CATTT
65 CATTA
* ** *
49821774 AAATACTTCAATTTGCAGCA-TTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTT-AAACACTTCAATTAACAACACTTTAACACCTCAATTTACAG
*
49821838 CATTT
65 CATTA
* **
49821843 AAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACA
1 AAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTTACA
49821905 GCGA-TA
64 GC-ATTA
* * ** ** * * *
49821911 AAACA-TCTCAATGTCCAGCAAC-TAAACACTTCAATTTTCAGTACTTAAACACTTCAATTTGCA
1 AAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACA
* *
49821974 ACATTT
64 GCATTA
* * * * * * * * * * *
49821980 AAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAA
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTT-TAACACCTCAATTTACAG
49822044 CACTT-
65 CA-TTA
* * * * ** * * * * *
49822049 TAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAAC
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
*
49822114 ATTT
66 ATTA
* * * * * * * * *
49822118 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT-CCAGCAAC-TAAACACTTCAATTTG
1 AAACACTTCAATTTGCAGC-ACTTAAACACT-TCAAT-TAACAAC-ACTTTAACACCTCAATTTA
*
49822178 CAGTACTT-
62 CAGCA-TTA
* * * * * * * *
49822186 AAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCA-TTTAAACACTTCAATTTATAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTT-AACACCTCAATTTACAG
*
49822250 CATTC
65 CATTA
* * * * * *
49822255 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
49822319 CACTT-
65 CA-TTA
** ** * * * * * ** * * *
49822324 TTACA-TCTCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCA
1 AAACACT-TCAATTTGCAGCACTTAAACACTTCAATTAACAAC-ACTTTAACACCTCAATTTACA
*
49822386 GCAACT-
64 GC-ATTA
* ** *
49822392 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACA-TTTAAGCACATCAATTTACAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
*
49822456 CATTT
65 CATTA
** ** *
49822461 AAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTT-AAACACTTCAATTAACAACACTTTAACACCTCAATTTACAG
*
49822525 CATTT
65 CATTA
* **
49822530 AAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACA
1 AAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTTACA
49822592 GCGA-TA
64 GC-ATTA
* * ** ** * * *
49822598 AAACA-TCTCAATGTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCA
1 AAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACA
* *
49822661 ACATTT
64 GCATTA
* * * * * * * * * * *
49822667 AAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAA
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTT-TAACACCTCAATTTACAG
49822731 CACTT-
65 CA-TTA
* * * * ** * * * * *
49822736 TAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAAC
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
*
49822801 ATTT
66 ATTA
* * * * * * * * *
49822805 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT-CCAGCAAC-TAAACACTTCAATTTG
1 AAACACTTCAATTTGCAGC-ACTTAAACACT-TCAAT-TAACAAC-ACTTTAACACCTCAATTTA
*
49822865 CAGTACTT-
62 CAGCA-TTA
* * * * * * * *
49822873 AAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCA-TTTAAACACTTCAATTTATAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTT-AACACCTCAATTTACAG
*
49822937 CATTC
65 CATTA
* * * * * *
49822942 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
49823006 CACTT-
65 CA-TTA
** ** * * * * * ** * * *
49823011 TTACA-TCTCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCA
1 AAACACT-TCAATTTGCAGCACTTAAACACTTCAATTAACAAC-ACTTTAACACCTCAATTTACA
*
49823073 GCAACT-
64 GC-ATTA
* ** *
49823079 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACA-TTTAAGCACATCAATTTACAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
*
49823143 CATTT
65 CATTA
** ** *
49823148 AAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTT-AAACACTTCAATTAACAACACTTTAACACCTCAATTTACAG
*
49823212 CATTT
65 CATTA
* **
49823217 AAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACA
1 AAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTTACA
49823279 GCGA-TA
64 GC-ATTA
* * ** ** * * *
49823285 AAACA-TCTCAATGTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCA
1 AAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACA
* *
49823348 ACATTT
64 GCATTA
* * * * * * * * * * *
49823354 AAGCACATCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAA
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTT-TAACACCTCAATTTACAG
49823418 CACTT-
65 CA-TTA
* * * * ** * * * * *
49823423 TAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAAC
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
*
49823488 ATTT
66 ATTA
* * * * * * * * *
49823492 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT-CCAGCAAC-TAAACACTTCAATTTG
1 AAACACTTCAATTTGCAGC-ACTTAAACACT-TCAAT-TAACAAC-ACTTTAACACCTCAATTTA
*
49823552 CAGTACTT-
62 CAGCA-TTA
* * * * * * * *
49823560 AAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCA-TTTAAACACTTCAATTTATAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTT-AACACCTCAATTTACAG
*
49823624 CATTC
65 CATTA
* * * * * *
49823629 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
49823693 CACTT-
65 CA-TTA
** ** * * * * * ** * * *
49823698 TTACA-TCTCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCA
1 AAACACT-TCAATTTGCAGCACTTAAACACTTCAATTAACAAC-ACTTTAACACCTCAATTTACA
*
49823760 GCAACT-
64 GC-ATTA
* ** *
49823766 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACA-TTTAAGCACATCAATTTACAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
*
49823830 CATTT
65 CATTA
** ** *
49823835 AAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTT-AAACACTTCAATTAACAACACTTTAACACCTCAATTTACAG
*
49823899 CATTT
65 CATTA
* **
49823904 AAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACA
1 AAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTTACA
49823966 GCGA-TA
64 GC-ATTA
* * ** ** * * *
49823972 AAACA-TCTCAATGTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCA
1 AAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACA
* *
49824035 ACATTT
64 GCATTA
* * * * *** * * * *
49824041 AAGCACATCAATTTACAGCATTTAAACACTTCAATTTGTAGCA-TTCAAACACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTT-TAACACCTCAATTTACAG
49824105 CACTT-
65 CA-TTA
* * * * ** * * * * *
49824110 TAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAAC
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
*
49824175 ATTT
66 ATTA
* * * * * * * * *
49824179 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT-CCAGCAAC-TAAACACTTCAATTTG
1 AAACACTTCAATTTGCAGC-ACTTAAACACT-TCAAT-TAACAAC-ACTTTAACACCTCAATTTA
*
49824239 CAGTACTT-
62 CAGCA-TTA
* * * * * * * *
49824247 AAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCA-TTTAAACACTTCAATTTATAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTT-AACACCTCAATTTACAG
*
49824311 CATTC
65 CATTA
* * * * * *
49824316 AAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
49824380 CACTT-
65 CA-TTA
** ** * * * * * ** * * *
49824385 TTACA-TCTCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAAAACATCTCAATGTCCA
1 AAACACT-TCAATTTGCAGCACTTAAACACTTCAATTAACAAC-ACTTTAACACCTCAATTTACA
*
49824447 GCAACT-
64 GC-ATTA
* ** *
49824453 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACA-TTTAAGCACATCAATTTACAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAA-CACCTCAATTTACAG
*
49824517 CATTT
65 CATTA
** ** *
49824522 AAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTT-AAACACTTCAATTAACAACACTTTAACACCTCAATTTACAG
*
49824586 CATTT
65 CATTA
* **
49824591 AAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACA
1 AAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACACTTTA-ACACCTCAATTTACA
49824653 GCGA-TA
64 GC-ATTA
* * * *** ** * * *
49824659 AAACA-TCTCAATGTCCGGCAAC-TAAACACTTCAATTTTTAGTACTTAAACACTTCAATTTGCA
1 AAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACA
** *
49824722 ATATTT
64 GCATTA
* * * * * * * * * *
49824728 AAGCACTTCAATTTACAGCATTTAAACACTTCAATTTATAGCA-TTCAAACACTTCAATTTGCAA
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTT-TAACACCTCAATTTACAG
49824792 CACTT-
65 CA-TTA
* * * * ** * * * * *
49824797 TAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAAC
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
*
49824862 ATTT
66 ATTA
* * * * * * * * *
49824866 ATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGT-CCAGCAAC-TAAACACTTCAATTTG
1 AAACACTTCAATTTGCAGC-ACTTAAACACT-TCAAT-TAACAAC-ACTTTAACACCTCAATTTA
*
49824926 CAGTACTT-
62 CAGCA-TTA
* * * * * * *
49824934 AAACACTTTAATTTGCAACATTTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACGG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTT-AACACCTCAATTTACAG
*
49824998 CATTC
65 CATTA
* * * ** * * * *
49825003 AAATACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAAC
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
*
49825068 ATTT
66 ATTA
* * * * * * * * *
49825072 ATACACCTCAATTAT--AGCGCTAAAACA-TCTCAATGT-CCAGCAAC-TAAACACTTCAATTTG
1 AAACACTTCAATT-TGCAGCACTTAAACACT-TCAAT-TAACAAC-ACTTTAACACCTCAATTTA
* *
49825132 CAACATTT
62 CAGCATTA
* * * ** * *
49825140 TAGCACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
1 AAACACTTCAATTTGCAGCACTT-AAACACTTCAATTAACAACACTTTAACACCTCAATTTACAG
49825204 CATTA
65 CATTA
* *
49825209 AAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACA-TTTATACACCTCAA-TTACAG
1 AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTA-ACACCTCAATTTACAG
49825272 CGA-TA
65 C-ATTA
49825277 AAACA-TCTCAATTT-CTAGCAAC-TAAACACTTCAATT
1 AAACACT-TCAATTTGC-AGC-ACTTAAACACTTCAATT
49825313 TGCAGTACTT
Statistics
Matches: 2870, Mismatches: 596, Indels: 421
0.74 0.15 0.11
Matches are distributed among these distances:
67 14 0.00
68 872 0.30
69 1912 0.67
70 72 0.03
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.32
Consensus pattern (69 bp):
AAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACACTTTAACACCTCAATTTACAGC
ATTA
Found at i:49826254 original size:18 final size:16
Alignment explanation
Indices: 49826205--49826258 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
49826195 GATTATAAAA
49826205 ATAACTCAACATCTTT
1 ATAACTCAACATCTTT
* *
49826221 ATCACTCTTAAGATCTTGT
1 ATAACTC--AACATCTT-T
49826240 ATAAACTCAACATCTTT
1 AT-AACTCAACATCTTT
49826257 AT
1 AT
49826259 TGAAAGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 14 0.47
19 3 0.10
20 4 0.13
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (16 bp):
ATAACTCAACATCTTT
Found at i:49827600 original size:7 final size:7
Alignment explanation
Indices: 49827588--49827672 Score: 98
Period size: 7 Copynumber: 12.0 Consensus size: 7
49827578 ATATGGACTA
*
49827588 AAATATT
1 AAATTTT
*
49827595 AAATATT
1 AAATTTT
*
49827602 AAGTTTTT
1 AAAT-TTT
*
49827610 AAGTTTT
1 AAATTTT
*
49827617 TAATTTT
1 AAATTTT
*
49827624 TAATTTT
1 AAATTTT
*
49827631 AAATATT
1 AAATTTT
49827638 AAATTTT
1 AAATTTT
49827645 AAATTTT
1 AAATTTT
49827652 AAATTTT
1 AAATTTT
49827659 AAATTTT
1 AAATTTT
49827666 AAATTTT
1 AAATTTT
49827673 TTTGAAGATT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
7 64 0.91
8 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:49827692 original size:9 final size:8
Alignment explanation
Indices: 49827600--49827699 Score: 72
Period size: 7 Copynumber: 12.9 Consensus size: 8
49827590 ATATTAAATA
*
49827600 TTAAGTTT
1 TTAAATTT
*
49827608 TTAAGTTT
1 TTAAATTT
49827616 TT-AATTT
1 TTAAATTT
49827623 TT-AA-TT
1 TTAAATTT
*
49827629 TTAAA-TA
1 TTAAATTT
49827636 TTAAA-TT
1 TTAAATTT
49827643 TTAAA-TT
1 TTAAATTT
49827650 TTAAA-TT
1 TTAAATTT
49827657 TTAAA-TT
1 TTAAATTT
49827664 TTAAATTTTT
1 TTAAA--TTT
49827674 TTGAAGATTT
1 TT-AA-ATTT
49827684 TTATAATTT
1 TTA-AATTT
49827693 TTAAATT
1 TTAAATT
49827700 AACATATAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
6 4 0.05
7 43 0.52
8 14 0.17
9 8 0.10
10 10 0.12
11 2 0.02
12 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:49828162 original size:22 final size:22
Alignment explanation
Indices: 49828118--49828194 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
49828108 CATAAACCCT
*
49828118 AAACACTAAAACCCTAACTATA
1 AAACACTAAAACCCAAACTATA
*
49828140 AAACACTAAATCCCAAA-TCATA
1 AAACACTAAAACCCAAACT-ATA
* * *
49828162 AACCA-T-AAACCATAAACTTTA
1 AAACACTAAAACC-CAAACTATA
49828183 AAACAC-AAAACC
1 AAACACTAAAACC
49828195 ATAAACTCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
20 4 0.09
21 11 0.26
22 28 0.65
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACACTAAAACCCAAACTATA
Found at i:49828387 original size:50 final size:50
Alignment explanation
Indices: 49828333--49828453 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
49828323 AACTCCTAAT
* * * *
49828333 CCCTAATCCCTAAATCATAAA-CCTTAAATCTTAAAACATAAACCCTGAAC
1 CCCTAATCCCTAAACCATAAATCC-CAAACCTTAAAACATAAACCCTAAAC
* * * *
49828383 CCCTAACCCCTAAACCTTAAATCCCAACCCTTAAAACATAATCCCTAAAC
1 CCCTAATCCCTAAACCATAAATCCCAAACCTTAAAACATAAACCCTAAAC
* * *
49828433 CCATAATCCATAAACCTTAAA
1 CCCTAATCCCTAAACCATAAA
49828454 ATAGTAACTC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 57 0.97
51 2 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (50 bp):
CCCTAATCCCTAAACCATAAATCCCAAACCTTAAAACATAAACCCTAAAC
Found at i:49828437 original size:15 final size:15
Alignment explanation
Indices: 49828419--49828448 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49828409 ACCCTTAAAA
*
49828419 CATAATCCCTAAACC
1 CATAATCCATAAACC
49828434 CATAATCCATAAACC
1 CATAATCCATAAACC
49828449 TTAAAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:49828453 original size:22 final size:21
Alignment explanation
Indices: 49828419--49828487 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
49828409 ACCCTTAAAA
* *
49828419 CATAATCCCTAAACCCATAATC
1 CATAAACCTTAAACCCATAA-C
**
49828441 CATAAACCTTAAA-ATAGTAAC
1 CATAAACCTTAAACCCA-TAAC
*
49828462 TCATAAACCTTAAACCCTTAAC
1 -CATAAACCTTAAACCCATAAC
49828484 CATA
1 CATA
49828488 TGCCCTAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
21 6 0.16
22 31 0.84
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
CATAAACCTTAAACCCATAAC
Found at i:49845697 original size:33 final size:33
Alignment explanation
Indices: 49845660--49845725 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
49845650 ATGCATGACT
*
49845660 ACTAGATACATCTATTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
49845693 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
49845726 GTAAAAGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:49848309 original size:17 final size:17
Alignment explanation
Indices: 49848289--49848338 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
49848279 AATAAAAAAA
49848289 TTTATATTTTTAAAATT
1 TTTATATTTTTAAAATT
**
49848306 TTTA-ATTGTTTTGAATT
1 TTTATATT-TTTAAAATT
49848323 TTTATATTTTTTAAAA
1 TTTATA-TTTTTAAAA
49848339 AATTGCTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 6 0.23
19 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTAAAATT
Found at i:49855870 original size:38 final size:38
Alignment explanation
Indices: 49855819--49855895 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
49855809 GAACGAGCAG
*
49855819 TTAAATTACATGGATAACAATCTTCGATCTCAAAACAA
1 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
49855857 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
1 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
49855895 T
1 T
49855896 CCTTATAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (38 bp):
TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
Found at i:49861661 original size:19 final size:19
Alignment explanation
Indices: 49861615--49861662 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
49861605 GTATATATTT
49861615 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
49861633 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
49861652 TAAGTTTTATT
1 TAAATTTTATT
49861663 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:49861724 original size:43 final size:43
Alignment explanation
Indices: 49861676--49861768 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
49861666 ATTCTAGAAA
49861676 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
49861719 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
49861762 TATTTTC
1 TATTTTC
49861769 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:49873410 original size:19 final size:19
Alignment explanation
Indices: 49873364--49873411 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
49873354 GTATATATTT
49873364 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
49873382 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
49873401 TAAGTTTTATT
1 TAAATTTTATT
49873412 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:49873473 original size:43 final size:43
Alignment explanation
Indices: 49873425--49873517 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
49873415 ATTCTAGAAA
49873425 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
49873468 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
49873511 TATTTTC
1 TATTTTC
49873518 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:49874563 original size:19 final size:17
Alignment explanation
Indices: 49874531--49874565 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
49874521 GAATTAGAAT
49874531 TAAATTGAGATTATTTG
1 TAAATTGAGATTATTTG
49874548 TAAATTTGAGGATTATTT
1 TAAA-TTGA-GATTATTT
49874566 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TAAATTGAGATTATTTG
Found at i:49874678 original size:30 final size:30
Alignment explanation
Indices: 49874638--49874731 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
49874628 CTATATCGAT
*
49874638 TAGTTGGGTGATCAAATTAAAAAAAATTGA
1 TAGTTAGGTGATCAAATTAAAAAAAATTGA
* ** * **
49874668 TAGTTAGGTGATAAAAAGGAAAAAAGA-CAA
1 TAGTTAGGTGAT-CAAATTAAAAAAAATTGA
*
49874698 TAATTAGGTGATCAAATT-AAAAAAATTGA
1 TAGTTAGGTGATCAAATTAAAAAAAATTGA
49874727 TAGTT
1 TAGTT
49874732 GAATGATTAA
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
28 6 0.13
29 8 0.17
30 23 0.49
31 10 0.21
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (30 bp):
TAGTTAGGTGATCAAATTAAAAAAAATTGA
Found at i:49874767 original size:59 final size:60
Alignment explanation
Indices: 49874638--49874767 Score: 176
Period size: 59 Copynumber: 2.2 Consensus size: 60
49874628 CTATATCGAT
*
49874638 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAGGTGATAAAAAGGAAAAAAGACAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAGATGATAAAAAGGAAAAAAGACAA
* * **
49874698 TAATTAGGTGATCAAATT-AAAAAAATTGATAGTT-GAATGATTAAAAAGGAAAGGAG-CAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAG-ATGA-TAAAAAGGAAAAAAGACAA
49874757 TAGTTGGGTGA
1 TAGTTGGGTGA
49874768 CTTGTATTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 31 0.51
60 29 0.48
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.25
Consensus pattern (60 bp):
TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTAGATGATAAAAAGGAAAAAAGACAA
Found at i:49875123 original size:21 final size:21
Alignment explanation
Indices: 49875099--49875142 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
49875089 TGCAGTTTCC
*
49875099 ACAACAGCAGCAGCAGCAACA
1 ACAACAACAGCAGCAGCAACA
49875120 ACAACAACAGCAGCAGCAACA
1 ACAACAACAGCAGCAGCAACA
49875141 AC
1 AC
49875143 CCCTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (21 bp):
ACAACAACAGCAGCAGCAACA
Found at i:49875470 original size:7 final size:7
Alignment explanation
Indices: 49875458--49875484 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49875448 TATGGCACTC
49875458 TGAGTAG
1 TGAGTAG
49875465 TGAGTAG
1 TGAGTAG
49875472 TGAGTAG
1 TGAGTAG
49875479 TGAGTA
1 TGAGTA
49875485 TTTTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (7 bp):
TGAGTAG
Found at i:49877544 original size:7 final size:7
Alignment explanation
Indices: 49877532--49877558 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49877522 TATGGCACTC
49877532 TGAGTAG
1 TGAGTAG
49877539 TGAGTAG
1 TGAGTAG
49877546 TGAGTAG
1 TGAGTAG
49877553 TGAGTA
1 TGAGTA
49877559 TTTTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (7 bp):
TGAGTAG
Found at i:49887426 original size:17 final size:17
Alignment explanation
Indices: 49887404--49887442 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
49887394 TTGCTTAGAG
49887404 TTGAAAAATGTATAGTT
1 TTGAAAAATGTATAGTT
49887421 TTGAAAAATGTATAGTT
1 TTGAAAAATGTATAGTT
49887438 TTGAA
1 TTGAA
49887443 CTAACATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (17 bp):
TTGAAAAATGTATAGTT
Found at i:49889243 original size:64 final size:64
Alignment explanation
Indices: 49889167--49889296 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
49889157 CTGTAAAACT
49889167 TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
1 TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
* *
49889231 TTCCCATGGTATGAGGGCTTGTTTCATTGAAAATAATACTTCATCCAAGCATTAGAAAACATAC
1 TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
49889295 TT
1 TT
49889297 TTTCGAAACA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (64 bp):
TTCCCATAGTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATAC
Found at i:49898728 original size:18 final size:18
Alignment explanation
Indices: 49898705--49898741 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
49898695 GACGAGGAAA
*
49898705 CTTGTTGTCCCGATGAGC
1 CTTGTTGTCCCAATGAGC
49898723 CTTGTTGTCCCAATGAGC
1 CTTGTTGTCCCAATGAGC
49898741 C
1 C
49898742 CTAAAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (18 bp):
CTTGTTGTCCCAATGAGC
Found at i:49900121 original size:24 final size:23
Alignment explanation
Indices: 49900094--49900170 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 23
49900084 CTTATTTACT
*
49900094 TTAATTAAATATTTAATTACTTAA
1 TTAATTAAA-ATTTAATGACTTAA
49900118 TTAACTT--AA-TTAA-GACTTAA
1 TTAA-TTAAAATTTAATGACTTAA
*
49900138 TTAATTAAAATTTAATCAC--AA
1 TTAATTAAAATTTAATGACTTAA
*
49900159 TTAATCAAAATT
1 TTAATTAAAATT
49900171 AGTAGAAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.04
20 10 0.22
21 19 0.42
22 5 0.11
23 3 0.07
24 4 0.09
25 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (23 bp):
TTAATTAAAATTTAATGACTTAA
Found at i:49904781 original size:48 final size:48
Alignment explanation
Indices: 49904623--49905006 Score: 326
Period size: 48 Copynumber: 8.0 Consensus size: 48
49904613 AGGGTAAAAT
** * **
49904623 GCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATA-CAACGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGA--G
* ** * ** *** *
49904672 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAACACATATAACAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* * * *
49904721 GCCAATGTCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* *
49904769 GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* * * *
49904817 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
* * * * **
49904865 ACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATACCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATAT-TGAG
* * * * * *
49904914 TGCCAATACCATGTCCTAGACATGGTCTTACATTGACAT---ATATCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCGCATATTGAG
* * *
49904961 GCTGATGCGATGTCCCAGACATGGTCTTACACTGGCTCTCATATTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTG
49905007 CCATGGTCCA
Statistics
Matches: 266, Mismatches: 61, Indels: 16
0.78 0.18 0.05
Matches are distributed among these distances:
45 1 0.00
46 29 0.11
47 3 0.01
48 165 0.62
49 1 0.00
50 63 0.24
51 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATTGAG
Found at i:49904888 original size:144 final size:145
Alignment explanation
Indices: 49904622--49905003 Score: 459
Period size: 144 Copynumber: 2.6 Consensus size: 145
49904612 AAGGGTAAAA
* *
49904622 TGCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATA-CAACGGTGCTGATGCCATGT
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGA--G-GCTGATGCCATGT
** * * * *
49904686 CCCAGACATGGTCTTACACTAACACATATAACAATGCCAATGTCATGTTCCAAACATGGTCTTAC
62 CCCAGACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTTCCAAACATGGTCTTAC
* **
49904751 ACTGGCTCGCATAT-TGAG
127 ACTGGCTCGAATATACCAG
* * * * *
49904769 -GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGAGGCTGATGCCATGTCCC
* *
49904833 AGACATGGTCTTACACTGGCTCACATAATAATACCGATGCCATGTTCCAAACATGGTCTTACACT
65 AGACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTTCCAAACATGGTCTTACACT
49904898 GGCTCGAATATACCAG
130 GGCTCGAATATACCAG
* * * * *
49904914 TGCCAATACCATGTCCTAGACATGGTCTTACATTGACAT--ATATCGAGGCTGATGCGATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TCCATATCGAGGCTGATGCCATGTCCC
*
49904977 AGACATGGTCTTACACTGGCTCTCATA
65 AGACATGGTCTTACACTGGCTCACATA
49905004 TTGCCATGGT
Statistics
Matches: 201, Mismatches: 30, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
144 129 0.64
145 3 0.01
146 67 0.33
147 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (145 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCATATCGAGGCTGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTTCCAAACATGGTCTTACACTG
GCTCGAATATACCAG
Found at i:49913324 original size:21 final size:22
Alignment explanation
Indices: 49913298--49913339 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49913288 CTTTTGAAAC
49913298 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCGACACGCCCGTGTGGA
49913319 AGGGGCGACACGCCCGTGTGG
1 AGGGGCGACACGCCCGTGTGG
49913340 CCTTCTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.17, C:0.29, G:0.45, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGA
Found at i:49914686 original size:47 final size:47
Alignment explanation
Indices: 49914616--49914750 Score: 189
Period size: 49 Copynumber: 2.8 Consensus size: 47
49914606 CGATGCCGAC
* *
49914616 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATCTAAGTCGAT
* *
49914664 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC--ATCTAAGTCGAT
* *
49914713 GCCATGTCCCAGACAGGTCTTACACTGGCACACACATC
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATC
49914751 ACCCAAATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
47 22 0.28
48 13 0.17
49 43 0.55
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCTAAGTCGAT
Found at i:49925574 original size:18 final size:18
Alignment explanation
Indices: 49925551--49925589 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
49925541 ATTAACTTCA
49925551 CAACTTAATCCATTATAC
1 CAACTTAATCCATTATAC
*
49925569 CAACTTAATCCATTGTAC
1 CAACTTAATCCATTATAC
49925587 CAA
1 CAA
49925590 TTATGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (18 bp):
CAACTTAATCCATTATAC
Found at i:49930064 original size:20 final size:20
Alignment explanation
Indices: 49930031--49930125 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
49930021 ATACATGGGA
49930031 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
49930049 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
49930069 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
*
49930089 TATGGTATGCACATGATATG
1 TATGATATGCACATGATATG
* *
49930109 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
49930126 GTATTCATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.12
20 57 0.86
21 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:49930083 original size:40 final size:40
Alignment explanation
Indices: 49930039--49930125 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
49930029 GATATGATAT
49930039 ACATGAT-TGGTATGATATGCACATGATATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGATATGTATAAAATGC
* *
49930079 ACATGATATGTATGGTATGCACATGATATGTATGAAATGC
1 ACATGATATGTATGATATGCACATGATATGTATAAAATGC
*
49930119 ACGTGAT
1 ACATGAT
49930126 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATAAAATGC
Found at i:49930204 original size:26 final size:26
Alignment explanation
Indices: 49930175--49930268 Score: 163
Period size: 26 Copynumber: 3.7 Consensus size: 26
49930165 GAGGAAGTGC
49930175 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
49930201 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTACCG
49930227 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
49930253 -AAAGGGCTTTTGCCCC
1 AAAAGGGCTTATGCCCC
49930269 TGTTATTAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 15 0.23
26 50 0.77
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:49931934 original size:18 final size:18
Alignment explanation
Indices: 49931900--49931935 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49931890 AACATTAGGT
*
49931900 AACTATATAACATAACCA
1 AACTATATAACAGAACCA
*
49931918 AACTATATAATAGAACCA
1 AACTATATAACAGAACCA
49931936 GCTATACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.03, T:0.22
Consensus pattern (18 bp):
AACTATATAACAGAACCA
Found at i:49935701 original size:27 final size:27
Alignment explanation
Indices: 49935663--49935819 Score: 133
Period size: 27 Copynumber: 5.8 Consensus size: 27
49935653 GATTCTCGAC
49935663 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
*
49935690 TTGTAAAATTACTAAAATA-CCCTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
* * * *
49935717 TTGTAAAATTATCGAAATA-CCCTCAAC
1 TTGTAAAATTACCAAAATACCCCT-GAT
* *
49935744 TTGTAAAATTACTAAAATACCCTTG-T
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
49935770 AATGTAAAATTACCGAAATACCCTTG-T
1 -TTGTAAAATTACCAAAATACCCCTGAT
** *
49935797 AGGGTAAAATTACCGAAATACCC
1 -TTGTAAAATTACCAAAATACCC
49935820 TTGTAGGGTA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
26 4 0.04
27 103 0.94
28 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:49935748 original size:54 final size:55
Alignment explanation
Indices: 49935657--49935793 Score: 181
Period size: 54 Copynumber: 2.5 Consensus size: 55
49935647 CGTTAAGATT
* * * *
49935657 CTCGACTTGTAAAATTACCAAAATACCC-CTGATTTGTAAAATTACTAAAATACC
1 CTCGATTTGTAAAATTACCGAAATACCCTCTAACTTGTAAAATTACTAAAATACC
*
49935711 CTCGATTTGTAAAATTATCGAAATACCCTC-AACTTGTAAAATTACTAAAATACC
1 CTCGATTTGTAAAATTACCGAAATACCCTCTAACTTGTAAAATTACTAAAATACC
* *
49935765 CTTG-TAATGTAAAATTACCGAAATACCCT
1 CTCGAT-TTGTAAAATTACCGAAATACCCT
49935794 TGTAGGGTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (55 bp):
CTCGATTTGTAAAATTACCGAAATACCCTCTAACTTGTAAAATTACTAAAATACC
Found at i:49935804 original size:54 final size:53
Alignment explanation
Indices: 49935664--49935833 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 53
49935654 ATTCTCGACT
* * * *
49935664 TGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATA-CCCTGACTTGTAAAATTACTAAAATACCCTTGTA-A
* *
49935718 TGTAAAATTATCGAAATACCCTCAACTTGTAAAATTACTAAAATACCCTTGTAA
1 TGTAAAATTACCGAAATACCCT-GACTTGTAAAATTACTAAAATACCCTTGTAA
** ** *
49935772 TGTAAAATTACCGAAATACCCTTGTA-GGGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCC-TG-ACTTGTAAAATTACTAAAATACCCTTGTAA
*
49935826 GGTAAAAT
1 TGTAAAAT
49935834 GACTGTTTTG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
53 4 0.04
54 91 0.93
55 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (53 bp):
TGTAAAATTACCGAAATACCCTGACTTGTAAAATTACTAAAATACCCTTGTAA
Found at i:49935804 original size:81 final size:81
Alignment explanation
Indices: 49935661--49935820 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 81
49935651 AAGATTCTCG
* * **
49935661 ACTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAAT
1 ACTTGTAAAATTACCAAAATACCCCTGATATGTAAAATTACCAAAATACCCTCGATGGGTAAAAT
*
49935726 TATCGAAATACCCTCA
66 TACCGAAATACCCTCA
* * * *
49935742 ACTTGTAAAATTACTAAAATACCCTTG-TAATGTAAAATTACCGAAATACCCTTG-TAGGGTAAA
1 ACTTGTAAAATTACCAAAATACCCCTGAT-ATGTAAAATTACCAAAATACCCTCGAT-GGGTAAA
49935805 ATTACCGAAATACCCT
64 ATTACCGAAATACCCT
49935821 TGTAGGGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 66 0.97
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
ACTTGTAAAATTACCAAAATACCCCTGATATGTAAAATTACCAAAATACCCTCGATGGGTAAAAT
TACCGAAATACCCTCA
Found at i:49935820 original size:27 final size:27
Alignment explanation
Indices: 49935746--49935833 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
49935736 CCCTCAACTT
** **
49935746 GTAAAATTACTAAAATACCCTTGTAAT
1 GTAAAATTACCGAAATACCCTTGTAGG
49935773 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCTTGTAGG
49935800 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCTTGTAGG
49935827 GTAAAAT
1 GTAAAAT
49935834 GACTGTTTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTTGTAGG
Found at i:49936306 original size:32 final size:32
Alignment explanation
Indices: 49936265--49936352 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
49936255 ATTTACCCAA
*
49936265 GGCTATGTGCCAATTATATTACCGTCACTGAT
1 GGCTATGTGCCAATTATAATACCGTCACTGAT
** * *
49936297 GGCTATGTGCCAAACATAATACAGTTACTGAT
1 GGCTATGTGCCAATTATAATACCGTCACTGAT
*
49936329 GGCTTTGTGCCAATTATAATACCG
1 GGCTATGTGCCAATTATAATACCG
49936353 CTACTGAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (32 bp):
GGCTATGTGCCAATTATAATACCGTCACTGAT
Found at i:49937293 original size:20 final size:20
Alignment explanation
Indices: 49937268--49937306 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49937258 GGATTTTCAT
* *
49937268 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
49937288 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
49937307 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:49937932 original size:22 final size:22
Alignment explanation
Indices: 49937906--49937948 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49937896 AAACCAAACC
49937906 ACTACTCCCTTTCTTTTCATCT
1 ACTACTCCCTTTCTTTTCATCT
*
49937928 ACTACTTCCTTTCTTTTCATC
1 ACTACTCCCTTTCTTTTCATC
49937949 ACCCTTGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (22 bp):
ACTACTCCCTTTCTTTTCATCT
Found at i:49938942 original size:25 final size:25
Alignment explanation
Indices: 49938914--49938962 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
49938904 TTAAAATATG
* * *
49938914 AAAAATGACTGTTTTGCCCCTAGGT
1 AAAAATGACTATTATACCCCTAGGT
49938939 AAAAATGACTATTATACCCCTAGG
1 AAAAATGACTATTATACCCCTAGG
49938963 GTTAAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (25 bp):
AAAAATGACTATTATACCCCTAGGT
Found at i:49939035 original size:21 final size:21
Alignment explanation
Indices: 49938999--49939049 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
49938989 ATTTTGATAT
49938999 ACATGATATGACATGA-TATGC
1 ACATGATATGACATGAGT-TGC
* **
49939020 ACGTGATATGTTATGAGTTGC
1 ACATGATATGACATGAGTTGC
49939041 ACATGATAT
1 ACATGATAT
49939050 ACTCATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (21 bp):
ACATGATATGACATGAGTTGC
Found at i:49939154 original size:24 final size:24
Alignment explanation
Indices: 49939122--49939168 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
49939112 TAGCTTACCA
**
49939122 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
49939145 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
49939169 ATGGTAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:49943872 original size:26 final size:26
Alignment explanation
Indices: 49943836--49943889 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
49943826 CAGGAGGGAG
49943836 TAAGATGTATCGAGACTTGCGAGAGC
1 TAAGATGTATCGAGACTTGCGAGAGC
49943862 TAAGATGTATCGAGACTTGCGAGAGC
1 TAAGATGTATCGAGACTTGCGAGAGC
49943888 TA
1 TA
49943890 TATTGGTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (26 bp):
TAAGATGTATCGAGACTTGCGAGAGC
Found at i:49945171 original size:20 final size:20
Alignment explanation
Indices: 49945146--49945184 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49945136 AGATTTTCAT
* *
49945146 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
49945166 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
49945185 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:49947382 original size:351 final size:352
Alignment explanation
Indices: 49946209--49947615 Score: 2591
Period size: 352 Copynumber: 4.0 Consensus size: 352
49946199 ACTATGGTAG
*
49946209 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
49946274 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
*
49946339 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAATGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
49946404 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
*
49946469 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGTCCCA
261 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
49946534 TTTGGATAAAATGGATAGAAAATGGAA
326 TTTGGATAAAATGGATAGAAAATGGAA
49946561 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
*
49946626 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* *
49946691 TAATATTCGCTGAAAAGCCGGAATACTAAAATTCTGGCATTTCAGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
*
49946756 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCAATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
*
49946821 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGTCCCA
261 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
49946886 TTTGGATAAAATGGATAGAAAATGGAA
326 TTTGGATAAAATGGATAGAAAATGGAA
49946913 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
49946978 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* * * *
49947043 TAATATTCGTTGAAATGCCGAAATACTAAAATTCCGGCATTTTGGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
*
49947108 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
* *
49947173 TTTGTGCACGATGGTAAGTTGGGCCTCAAT-GGTTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
261 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
*
49947237 TTTGGGTAAAATGGATAGAAAATGGAA
326 TTTGGATAAAATGGATAGAAAATGGAA
* *
49947264 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGATGATTAATTGTAGGTTGT
1 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
49947329 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
*
49947394 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTTGGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
*
49947459 GGTTTTAGATGTGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
* * *
49947524 TTTGTGCACGATGGTAAGTTGGGCCTGAATGGGCTGGAATTGGGCCCAATGGGCTTTCGGGCCCA
261 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
*
49947589 TTTGGGTAAAATGGATAGAAAATGGAA
326 TTTGGATAAAATGGATAGAAAATGGAA
49947616 CTTGGAAAAG
Statistics
Matches: 1025, Mismatches: 29, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
351 340 0.33
352 685 0.67
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (352 bp):
GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAACGTGAGATTTTGCATGT
GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
TTTGGATAAAATGGATAGAAAATGGAA
Found at i:49947557 original size:703 final size:704
Alignment explanation
Indices: 49946209--49947615 Score: 2591
Period size: 703 Copynumber: 2.0 Consensus size: 704
49946199 ACTATGGTAG
49946209 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
49946274 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* *
49946339 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGCATTTCGGGAATGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCCGGCATTTCGGGAACGTGAGATTTTGCATGT
*
49946404 GGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
*
49946469 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGTCCCA
261 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
49946534 TTTGGATAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
326 TTTGGATAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
* *
49946599 GAATGGTGGTGATTAATTGTAGGTTTTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
391 GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
*
49946664 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGGAATACTAAAATTCTGGC
456 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
49946729 ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
521 ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
49946794 GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
586 GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
*
49946859 ATTGGGCCCAATGGGCTTCCGGTCCCATTTGGATAAAATGGATAGAAAATGGAA
651 ATTGGGCCCAATGGGCTTCCGGGCCCATTTGGATAAAATGGATAGAAAATGGAA
*
49946913 GTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
1 GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
49946978 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
66 CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
* * *
49947043 TAATATTCGTTGAAATGCCGAAATACTAAAATTCCGGCATTTTGGGAACGTGAGATTTTGCATGT
131 TAATATTCGCTGAAAAGCCGAAATACTAAAATTCCGGCATTTCGGGAACGTGAGATTTTGCATGT
49947108 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
196 GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
* *
49947173 TTTGTGCACGATGGTAAGTTGGGCCTCAAT-GGTTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
261 TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
*
49947237 TTTGGGTAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
326 TTTGGATAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
*
49947302 GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTG
391 GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
49947367 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
456 TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
** *
49947432 ATTTTGGGAACGTGAGATTTTGCATGTGGTTTTAGATGTGATAAGTACGATATGATCGGTGTTTG
521 ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
* * *
49947497 GATCGATGAAACAGGTAAGAGCACAATTTTGTGCACGATGGTAAGTTGGGCCTGAATGGGCTGGA
586 GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
* *
49947562 ATTGGGCCCAATGGGCTTTCGGGCCCATTTGGGTAAAATGGATAGAAAATGGAA
651 ATTGGGCCCAATGGGCTTCCGGGCCCATTTGGATAAAATGGATAGAAAATGGAA
49947616 CTTGGAAAAG
Statistics
Matches: 679, Mismatches: 24, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
703 397 0.58
704 282 0.42
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (704 bp):
GTGGACTTTGGGTTTGATTAGCATGAACTATAAACTAAGAATGGTGGTGATTAATTGTAGGTTTT
CGTGGGAGACTTTGTTGGCGAACATCACAAAACAGGTGTGTAACAACCCTCGTAGTAGCTTAGGC
TAATATTCGCTGAAAAGCCGAAATACTAAAATTCCGGCATTTCGGGAACGTGAGATTTTGCATGT
GGTTTTAGATGCGATAAGTACAATATGATCGGTGTTTGGATCGATGAAACAGGTAAGAGCACAAT
TTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGAATTGGGCCCAATGGGCTTCCGGGCCCA
TTTGGATAAAATGGATAGAAAATGGAAGTGGACTTTGGGTTTGATTAGCATGAACTGTAAACTAA
GAATGGTGATGATTAATTGTAGGTTGTCGTGGGAGACTTTGTTGGCGAACATCACAAAACAGATG
TGTAACAACCCTCGTAGTAGCTTAGGCTAATATTCGCTGAAAAGCCGAAATACTAAAATTCTGGC
ATTTCAGGAACGTGAGATTTTGCATGTGGTTTTAGATGCGATAAGTACGATATGATCGGTGTTTG
GATCAATGAAACAGGTAAGAGCACAATTTTGAGCACGATGGTAAGTTGGGCCTCAATGGGCTGGA
ATTGGGCCCAATGGGCTTCCGGGCCCATTTGGATAAAATGGATAGAAAATGGAA
Found at i:49947949 original size:10 final size:10
Alignment explanation
Indices: 49947928--49947961 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
49947918 CATGAGATTT
49947928 TGATAT-ACA
1 TGATATGACA
49947937 TGATATGACA
1 TGATATGACA
49947947 TGATATGCACA
1 TGATATG-ACA
49947958 TGAT
1 TGAT
49947962 TTGTTATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 10 0.43
11 7 0.30
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:49947960 original size:21 final size:21
Alignment explanation
Indices: 49947934--49947984 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
49947924 ATTTTGATAT
*
49947934 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
* **
49947955 ACATGATTTGTTATGAGATGC
1 ACATGATATGACATGAGATGC
*
49947976 ACACGATAT
1 ACATGATAT
49947985 ACTCATTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:49948089 original size:24 final size:24
Alignment explanation
Indices: 49948033--49948103 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
49948023 GGAAGTGGGG
*
49948033 AAAG-GGCTTTGCCCCAGTTTACCA
1 AAAGAGGCTTTGCCCCAG-TTATCA
*
49948057 AAA-AGGGCTTTGCCCCAGTTATTA
1 AAAGA-GGCTTTGCCCCAGTTATCA
**
49948081 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
49948104 ATGATAAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 17 0.44
25 22 0.56
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTATCA
Found at i:49949001 original size:51 final size:51
Alignment explanation
Indices: 49948946--49949048 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
49948936 AAACTTCAAT
* *
49948946 GTGACACGTC-GGGTCCAGCTATAACGTCTGGGCCAGGTTTGGGGTGTTACA
1 GTGACACGTCAGAGTCCAGC-ATAACGTCTAGGCCAGGTTTGGGGTGTTACA
* * * * *
49948997 GTGACACGTCAGATTCGAGCCTAACTTCTAGGCCGGGTTTGGGGTGTTACA
1 GTGACACGTCAGAGTCCAGCATAACGTCTAGGCCAGGTTTGGGGTGTTACA
49949048 G
1 G
49949049 CTTGTACAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 38 0.86
52 6 0.14
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (51 bp):
GTGACACGTCAGAGTCCAGCATAACGTCTAGGCCAGGTTTGGGGTGTTACA
Found at i:49949123 original size:43 final size:42
Alignment explanation
Indices: 49949057--49949174 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
49949047 AGCTTGTACA
* * ** *
49949057 ATGCCAACGTCCCAGACGGGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAAGGTCTTACACGTAATCAAATAT-G
* * * *
49949100 ATGCCACTGTCCCAAACAAGGTCTTACCCGAAATCATATATG
1 ATGCCAATGTCCCAAACAAGGTCTTACACGTAATCAAATATG
* * *
49949142 ATGCCAATGTCCCAGACATGGTTTTACACGTAA
1 ATGCCAATGTCCCAAACAAGGTCTTACACGTAA
49949175 ATCTCAAATC
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACAAGGTCTTACACGTAATCAAATATG
Found at i:49954731 original size:18 final size:17
Alignment explanation
Indices: 49954710--49954751 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
49954700 AACATTAGGT
49954710 AACTATATAACATAACC
1 AACTATATAACATAACC
*
49954727 AAACTATATAATATAACC
1 -AACTATATAACATAACC
49954745 AACTATA
1 AACTATA
49954752 CTTTTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (17 bp):
AACTATATAACATAACC
Found at i:49956177 original size:43 final size:44
Alignment explanation
Indices: 49956130--49956281 Score: 136
Period size: 43 Copynumber: 3.5 Consensus size: 44
49956120 TCTCAAACGT
* * *
49956130 GGTCTTACATGTAATCAAATATCAATGCC-ACTATCCCAGACAG
1 GGTCTTACACGAAATCAAATATCAATGCCAACTGTCCCAGACAG
* * * * *
49956173 GGTCTTACACGAAATCATATA-CGATGCCGA-TGTTCCAGACAT
1 GGTCTTACACGAAATCAAATATCAATGCCAACTGTCCCAGACAG
* *
49956215 GGTCTTACATGTAAATCTCAA-ATCAATGCCAAC-GTCCCAGAC-G
1 GGTCTTACACG-AAATC-AAATATCAATGCCAACTGTCCCAGACAG
*
49956258 TGGTCTTACACGAAATCACATATC
1 -GGTCTTACACGAAATCAAATATC
49956282 GGAATCCTAT
Statistics
Matches: 85, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
42 26 0.31
43 33 0.39
44 26 0.31
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGAAATCAAATATCAATGCCAACTGTCCCAGACAG
Found at i:49956213 original size:42 final size:44
Alignment explanation
Indices: 49956150--49956275 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 44
49956140 GTAATCAAAT
* *
49956150 ATCAATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAT-AT
1 ATCAATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCATCAA
* * * * * *
49956193 A-CGATGCCGATGTTCCAGACATGGTCTTACATGTAAATC-TCAA
1 ATCAATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCATCAA
49956236 ATCAATGCCAACGTCCCAGAC-GTGGTCTTACACGAAATCA
1 ATCAATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCA
49956276 CATATCGGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
42 25 0.39
43 14 0.22
44 25 0.39
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATCAATGCCAACGTCCCAGACAGGGTCTTACACGAAATCATCAA
Found at i:49958898 original size:23 final size:23
Alignment explanation
Indices: 49958862--49958996 Score: 139
Period size: 23 Copynumber: 5.9 Consensus size: 23
49958852 GGACTCACCA
*
49958862 TAGCTCGTATGAGCTTACTGATT
1 TAGCTCGTAAGAGCTTACTGATT
*
49958885 TAGCTCGCAAGAGCTTACT-ATT
1 TAGCTCGTAAGAGCTTACTGATT
** * *
49958907 TCAAATCATTAGAGCTTACTGATT
1 T-AGCTCGTAAGAGCTTACTGATT
*
49958931 CAGCTCGTAAGAGCTTACTG-TT
1 TAGCTCGTAAGAGCTTACTGATT
* * *
49958953 TCAGTTCATTAGAGCTTACTGATT
1 T-AGCTCGTAAGAGCTTACTGATT
*
49958977 TAGCTCGCAAGAGCTTACTG
1 TAGCTCGTAAGAGCTTACTG
49958997 TTTCAACTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
22 6 0.07
23 76 0.86
24 6 0.07
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGCTCGTAAGAGCTTACTGATT
Found at i:49958943 original size:46 final size:46
Alignment explanation
Indices: 49958872--49959088 Score: 258
Period size: 46 Copynumber: 4.7 Consensus size: 46
49958862 TAGCTCGTAT
* *
49958872 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTATTTCAAATCATTA
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
* * **
49958918 GAGCTTACTGATTCAGCTCGTAAGAGCTTACTGTTTCAGTTCATTA
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
* *
49958964 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTTATTG
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
* * * *
49959010 GAGCTTACTGATTCATCTTG-ATAGAGCTTACTG-TTCAACTCAATA
1 GAGCTTACTGATTTAGCTCGCA-AGAGCTTACTGTTTCAACTCATTA
* * ***
49959055 GAGCTTACCGTTTTAGCTCATTAGAGCTTACTGT
1 GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGT
49959089 CCATCAATTC
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
45 35 0.24
46 109 0.76
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (46 bp):
GAGCTTACTGATTTAGCTCGCAAGAGCTTACTGTTTCAACTCATTA
Found at i:49959013 original size:23 final size:23
Alignment explanation
Indices: 49958894--49959088 Score: 162
Period size: 23 Copynumber: 8.5 Consensus size: 23
49958884 TTAGCTCGCA
* *
49958894 AGAGCTTACTATTTCAAATCATT
1 AGAGCTTACTGTTTCAACTCATT
* * * *
49958917 AGAGCTTACTGATTCAGCTCGTA
1 AGAGCTTACTGTTTCAACTCATT
**
49958940 AGAGCTTACTGTTTCAGTTCATT
1 AGAGCTTACTGTTTCAACTCATT
* ***
49958963 AGAGCTTACTGATTT-AGCTCGCA
1 AGAGCTTACTG-TTTCAACTCATT
*
49958986 AGAGCTTACTGTTTCAACTTATT
1 AGAGCTTACTGTTTCAACTCATT
* * * *
49959009 GGAGCTTACTGATTCATCTTGA-T
1 AGAGCTTACTGTTTCAAC-TCATT
*
49959032 AGAGCTTACTG-TTCAACTCAAT
1 AGAGCTTACTGTTTCAACTCATT
* * *
49959054 AGAGCTTACCGTTTTAGCTCATT
1 AGAGCTTACTGTTTCAACTCATT
49959077 AGAGCTTACTGT
1 AGAGCTTACTGT
49959089 CCATCAATTC
Statistics
Matches: 136, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
21 2 0.01
22 19 0.14
23 110 0.81
24 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAACTCATT
Found at i:49960110 original size:40 final size:40
Alignment explanation
Indices: 49960066--49960145 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
49960056 ATAATTAACA
*
49960066 TAATACTATAACCTAACATAATAATTCACAATAAATGGGT
1 TAATACTATAACCTAACATAATAATTCACAAGAAATGGGT
*
49960106 TAATACTATACCCTAACATAATAATTCACAAGAAATGGGT
1 TAATACTATAACCTAACATAATAATTCACAAGAAATGGGT
49960146 GAGTTTGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (40 bp):
TAATACTATAACCTAACATAATAATTCACAAGAAATGGGT
Found at i:49960387 original size:20 final size:18
Alignment explanation
Indices: 49960316--49960409 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 18
49960306 GTGATCACAT
49960316 CAGGGAGCACCATAGTGCAGAA
1 CAGGG-GCACCA-AGTGC--AA
* *
49960338 CAAGGGCACAGAAGTGCATA
1 CAGGGGCAC-CAAGTGCA-A
49960358 CAGGGGCACCTAAGTGCAA
1 CAGGGGCACC-AAGTGCAA
49960377 GCAGGGGCACCACAGTGCAA
1 -CAGGGGCACCA-AGTGCAA
*
49960397 CCAAGGGCACCAA
1 -CAGGGGCACCAA
49960410 TGTGTAAGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.07
20 43 0.70
21 9 0.15
22 5 0.08
ACGTcount: A:0.35, C:0.27, G:0.31, T:0.07
Consensus pattern (18 bp):
CAGGGGCACCAAGTGCAA
Found at i:49965349 original size:54 final size:54
Alignment explanation
Indices: 49965233--49965349 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 54
49965223 CAAGTCAGGT
* *
49965233 AGTTACACGGCCTAGCACACGACCTGCCACACAGGGGTGTGAGGCCATTTTTCGAG
1 AGTTACACGGCCTAGCACACGACCTG-CACACAGGGGTCTGAGGCCA-TTTCCGAG
* *
49965289 AGTTACACGGCCTAGTACACGGCCTG-ACACATGGGCGTCTGAGGCCA-TTCCGAG
1 AGTTACACGGCCTAGCACACGACCTGCACACA-GGG-GTCTGAGGCCATTTCCGAG
49965343 AGTTACA
1 AGTTACA
49965350 TAGCCTGACA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
54 18 0.33
55 3 0.05
56 34 0.62
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (54 bp):
AGTTACACGGCCTAGCACACGACCTGCACACAGGGGTCTGAGGCCATTTCCGAG
Found at i:49968212 original size:39 final size:39
Alignment explanation
Indices: 49968169--49968246 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
49968159 CCAAACTTAG
49968169 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
1 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
49968208 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
1 TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
49968247 GTAGCTCTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (39 bp):
TTTGCTATATATACCGAAGAGTCCGAGGGATAGTGTGAT
Found at i:49968748 original size:25 final size:25
Alignment explanation
Indices: 49968713--49968766 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
49968703 AGTTCAGAAT
49968713 GCTCTTACAAGCACATA-AATGGAAA
1 GCTCTTACAAGC-CATATAATGGAAA
* * *
49968738 GCTCTTTCAAGCTATATAATGGGAA
1 GCTCTTACAAGCCATATAATGGAAA
49968763 GCTC
1 GCTC
49968767 ATGTGAGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (25 bp):
GCTCTTACAAGCCATATAATGGAAA
Found at i:49968823 original size:24 final size:25
Alignment explanation
Indices: 49968754--49968823 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
49968744 TCAAGCTATA
*
49968754 TAATGGGAAGCTCATGTGAGCCATG
1 TAATGGGAAGCTCATATGAGCCATG
* *
49968779 TAATGGGAAGCAC-TAGAGAGCCAT-
1 TAATGGGAAGCTCATA-TGAGCCATG
*
49968803 TAATTGGAAGCTCATATGAGC
1 TAATGGGAAGCTCATATGAGC
49968824 TAATATAGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (25 bp):
TAATGGGAAGCTCATATGAGCCATG
Found at i:49980292 original size:53 final size:53
Alignment explanation
Indices: 49980212--49980318 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
49980202 GTCCAATCCT
49980212 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
1 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
49980265 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
1 ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
49980318 A
1 A
49980319 AAACATACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.44, C:0.28, G:0.04, T:0.24
Consensus pattern (53 bp):
ACAAGCAATAATATACAACATTCATACCAAAATTTCCAACCAATTCCATGCTC
Found at i:49985154 original size:13 final size:13
Alignment explanation
Indices: 49985146--49985170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49985136 CGAAATTAAT
49985146 AATAAAAATAAAA
1 AATAAAAATAAAA
49985159 AATAAAAATAAA
1 AATAAAAATAAA
49985171 CTTTATAAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:49991433 original size:13 final size:13
Alignment explanation
Indices: 49991415--49991440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49991405 GCTCGACAGG
49991415 GACACGCCCGTGT
1 GACACGCCCGTGT
49991428 GACACGCCCGTGT
1 GACACGCCCGTGT
49991441 TTGATTACTT
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:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:49991859 original size:20 final size:20
Alignment explanation
Indices: 49991834--49991873 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
49991824 ATGACATTTT
49991834 TCACCAAACAGATAGTGACG
1 TCACCAAACAGATAGTGACG
49991854 TCACCAAACAGATAGTGACG
1 TCACCAAACAGATAGTGACG
49991874 CCAAATCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
TCACCAAACAGATAGTGACG
Found at i:50004819 original size:42 final size:42
Alignment explanation
Indices: 50004706--50004878 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 42
50004696 AGAAAGGTTG
* * *
50004706 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
* *
50004748 TATCAATACC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAA
*
50004791 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACG-AAA--TCAAA
* ** *
50004836 TA-GATGCCAACGTCCCAGATGTGGTCTTACACAAAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
50004877 TA
1 TA
50004879 TCGAAAATCC
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
41 7 0.06
42 31 0.28
43 41 0.37
44 26 0.23
45 7 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:50009816 original size:43 final size:43
Alignment explanation
Indices: 50009768--50009890 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
50009758 ATTGAGATGT
* * *
50009768 GATTACATGTAAAACCATGTCTGGGACATTGGCATTGTCTTGA
1 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATTGA
* * *
50009811 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTGT
1 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATTGA
* * * * *
50009854 GATTTCGTGTAAAACCCTGTTTGGGATAGTGGCATCG
1 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCG
50009891 ATATGTATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:50018948 original size:43 final size:43
Alignment explanation
Indices: 50018900--50019022 Score: 183
Period size: 43 Copynumber: 2.9 Consensus size: 43
50018890 ATTGAGATGT
* * *
50018900 GATTACTTGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
*
50018943 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
50018986 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
50019023 ATATGTATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:50019040 original size:43 final size:43
Alignment explanation
Indices: 50018896--50019046 Score: 175
Period size: 43 Copynumber: 3.5 Consensus size: 43
50018886 GGTTATTGAG
* * *
50018896 ATGTGA-TTACTTGTAAGACCATGTTTGGGACATTGGCATTGT
1 ATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
*
50018938 AT-TGAGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
1 ATGTGA-TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
* *
50018981 ATTGTGATTT-CGTGTAAGACCCTGTCTGGGACAATGGCATCGAT
1 A-TGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
50019025 ATGT-ATTTACATGTAAAACCAT
1 ATGTGATTTACGTGTAAGACCAT
50019047 ACCTATGATA
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 77 0.82
44 5 0.05
45 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
ATGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:50022326 original size:24 final size:24
Alignment explanation
Indices: 50022299--50022383 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
50022289 ATCACAACCA
*
50022299 AATGAGATGCTCCGAAGAGCTATT
1 AATGAGAAGCTCCGAAGAGCTATT
* *
50022323 AATGGGAAGCT-CGCAAGAACTATAT
1 AATGAGAAGCTCCG-AAGAGCTAT-T
* ** *
50022348 AATGGGAAGCTCATAAGAGCTAAT
1 AATGAGAAGCTCCGAAGAGCTATT
* *
50022372 AACGAGATGCTC
1 AATGAGAAGCTC
50022384 TTTCAAGTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 2 0.04
24 27 0.56
25 19 0.40
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (24 bp):
AATGAGAAGCTCCGAAGAGCTATT
Found at i:50022365 original size:25 final size:25
Alignment explanation
Indices: 50022313--50022373 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
50022303 AGATGCTCCG
*
50022313 AAGAGCTAT-TAATGGGAAGCTCGC
1 AAGAGCTATATAATGGGAAGCTCAC
* *
50022337 AAGAACTATATAATGGGAAGCTCAT
1 AAGAGCTATATAATGGGAAGCTCAC
50022362 AAGAGCTA-ATAA
1 AAGAGCTATATAA
50022374 CGAGATGCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGAGCTATATAATGGGAAGCTCAC
Found at i:50029645 original size:79 final size:77
Alignment explanation
Indices: 50029562--50029861 Score: 244
Period size: 79 Copynumber: 3.8 Consensus size: 77
50029552 AAGAAATGAA
*
50029562 AAAAATTGAAATGAAATGAAATAAAAAAA-GAAGTGAAACTAAAAATTGAAATGAAATAAATTCA
1 AAAAATTGAAATGAAATGAAATAAAAAAATGAAATGAAACTAAAAATTGAAATGAAATAAA-T-A
50029626 AAAGGAAATTAAATG
64 AAAGGAAA-TAAATG
* *
50029641 AAAAATTGAAATTAAATGAAATAAATTAAAAAATGAAATGAAACTAAAAATTGAAATTAAATTAA
1 AAAAATTGAAATGAAATGAAAT--A--AAAAAATGAAATGAAACTAAAAATTGAAATGAAA-TAA
* * *
50029706 ATGAAATGAAATAAATT
61 ATAAAAGGAAATAAATG
* * *
50029723 AAAAA-TGAAATGAAATGAACAAAAAATTGAAATGAAAT-AAA-TAAAAATTGAAATGAAATGAG
1 AAAAATTGAAATGAAATGAA-ATAAAA---AAATGAAATGAAACTAAAAATTGAAATGAAATAAA
*
50029785 T----TGATAATGAAATG
62 TAAAAGGA-AAT-AAATG
* * * * *
50029799 AAAATTTCAAATGAAATGAAATGAAATAAAT-TAA--AAATTAAAAATTGAAATGAAATGAAATA
1 AAAAATTGAAATGAAATGAAAT-AAAAAAATGAAATGAAACTAAAAATTGAAATGAAAT-AAATA
50029861 A
64 A
50029862 TTTAAAAGTT
Statistics
Matches: 184, Mismatches: 19, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
72 3 0.02
73 20 0.11
74 9 0.05
75 3 0.02
76 9 0.05
77 16 0.09
78 6 0.03
79 37 0.20
80 4 0.02
81 23 0.12
82 11 0.06
83 13 0.07
84 26 0.14
85 4 0.02
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (77 bp):
AAAAATTGAAATGAAATGAAATAAAAAAATGAAATGAAACTAAAAATTGAAATGAAATAAATAAA
AGGAAATAAATG
Found at i:50029653 original size:45 final size:45
Alignment explanation
Indices: 50029564--50029712 Score: 152
Period size: 45 Copynumber: 3.4 Consensus size: 45
50029554 GAAATGAAAA
* *
50029564 AAATTGAAATGAAATGAAA-TAAAAAAAGAAGTGAAACTAAAAATTG
1 AAATT-AAATGAAAT-AAATTAAAAAAGGAAATGAAACTAAAAATTG
* *
50029610 -----AAATGAAATAAATT-CAAAAGGAAATTAAA-TGAAAAATTG
1 AAATTAAATGAAATAAATTAAAAAAGGAAATGAAACT-AAAAATTG
*
50029649 AAATTAAATGAAATAAATTAAAAAATGAAATGAAACTAAAAATTG
1 AAATTAAATGAAATAAATTAAAAAAGGAAATGAAACTAAAAATTG
*
50029694 AAATTAAATTAAATGAAAT
1 AAATTAAATGAAAT-AAAT
50029713 GAAATAAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
38 1 0.01
39 22 0.26
40 10 0.12
44 14 0.16
45 33 0.39
46 5 0.06
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.23
Consensus pattern (45 bp):
AAATTAAATGAAATAAATTAAAAAAGGAAATGAAACTAAAAATTG
Found at i:50029671 original size:27 final size:27
Alignment explanation
Indices: 50029630--50029891 Score: 143
Period size: 27 Copynumber: 9.4 Consensus size: 27
50029620 AATTCAAAAG
* *
50029630 GAAATTAAATGAAAAATTGAAATTAAAT
1 GAAA-TAAATTAAAAATTGAAATGAAAT
*
50029658 GAAATAAATTAAAAAATGAAATGAAACT
1 GAAATAAATTAAAAATTGAAATGAAA-T
*
50029686 AAAAATTGAAATT--AAATT-AAATGAAAT
1 -GAAA-T-AAATTAAAAATTGAAATGAAAT
50029713 GAAATAAATTAAAAA-TGAAATGAAAT
1 GAAATAAATTAAAAATTGAAATGAAAT
*
50029739 G--A-ACA--AAAAATTGAAATGAAAT
1 GAAATAAATTAAAAATTGAAATGAAAT
* **
50029761 -AAATAAAAATT-GAAA-TGAAATGAGTT
1 GAAAT--AAATTAAAAATTGAAATGAAAT
* *
50029787 GATAATGAAATGAAAATTTCAAATGAAATGAAAT
1 GA-AAT-AAAT-TAAA----AATTGAAATGAAAT
50029821 GAAATAAATTAAAAATTAAAAATTGAAATGAAAT
1 GAAATAAATT----A---AAAATTGAAATGAAAT
* *
50029855 GAAATAATTTAAAAGTTGAAATGAAAT
1 GAAATAAATTAAAAATTGAAATGAAAT
50029882 GAAATAAATT
1 GAAATAAATT
50029892 TATTATTTAA
Statistics
Matches: 182, Mismatches: 21, Indels: 63
0.68 0.08 0.24
Matches are distributed among these distances:
21 5 0.03
22 11 0.06
23 3 0.02
24 6 0.03
25 2 0.01
26 27 0.15
27 52 0.29
28 16 0.09
29 8 0.04
30 2 0.01
31 5 0.03
32 4 0.02
33 5 0.03
34 33 0.18
35 1 0.01
38 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.26
Consensus pattern (27 bp):
GAAATAAATTAAAAATTGAAATGAAAT
Found at i:50029701 original size:31 final size:32
Alignment explanation
Indices: 50029663--50029764 Score: 105
Period size: 26 Copynumber: 3.4 Consensus size: 32
50029653 TAAATGAAAT
50029663 AAATTAAA-AAATGAAATGAAACTAAAAATTG
1 AAATTAAATAAATGAAATGAAACTAAAAATTG
50029694 AAATTAAATTAAATGAAATGAAA-T--AAATT-
1 AAATTAAA-TAAATGAAATGAAACTAAAAATTG
*
50029723 -AA--AAATGAAATGAAATG-AACAAAAAATTG
1 AAATTAAAT-AAATGAAATGAAACTAAAAATTG
*
50029752 AAATGAAATAAAT
1 AAATTAAATAAAT
50029765 AAAAATTGAA
Statistics
Matches: 60, Mismatches: 1, Indels: 20
0.74 0.01 0.25
Matches are distributed among these distances:
25 3 0.05
26 13 0.22
28 7 0.12
30 7 0.12
31 12 0.20
32 5 0.08
33 13 0.22
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.24
Consensus pattern (32 bp):
AAATTAAATAAATGAAATGAAACTAAAAATTG
Found at i:50029728 original size:21 final size:22
Alignment explanation
Indices: 50029601--50029689 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
50029591 GAAGTGAAAC
50029601 TAAAAATTGAAATGAAAT-AAAT
1 TAAAAA-TGAAATGAAATAAAAT
* * *
50029623 TCAAAAGGAAATTAAATGAAAAAT
1 TAAAAATGAAATGAAAT--AAAAT
* *
50029647 T-GAAATTAAATGAAAT-AAAT
1 TAAAAATGAAATGAAATAAAAT
50029667 TAAAAAATGAAATGAAACTAAAA
1 T-AAAAATGAAATGAAA-TAAAA
50029690 ATTGAAATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
20 5 0.10
21 9 0.18
22 17 0.33
23 12 0.24
24 8 0.16
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (22 bp):
TAAAAATGAAATGAAATAAAAT
Done.