Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 54 of 214
Found at i:15058547 original size:281 final size:281
Alignment explanation
Indices: 15058029--15058585 Score: 706
Period size: 281 Copynumber: 2.0 Consensus size: 281
15058019 ATGCCTTAAT
* * * ** * *
15058029 GTATTCCTTAATACGGAACATGTTGCCTTTGTATGCCCTGGGTTTCTACAGTACCCGCATAACCT
1 GTATCCCTCAATACAGAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCT
* * * *
15058094 CTGTTGATTGCCTCTCTCCTGAATATCAATATTAGTACTTATCCGAGTAAAATTCGGATGACCTT
66 CTGTTGATTGCCTCTCTCCTGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTT
* * * ** * * * * *
15058159 TTGGGATGCAACACAAGTTCATGTTCGGGTCCAACTCGAACAGAGCTCTGGGCACTGGCAAACAC
131 TCGAGATACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAGCACTGGACACTGGCAAACAC
* *
15058224 ATACTCTCATCTGAGATAAGTGGGAATTTAGATATTCATACATTGTGCATGCC-TTCTAATTTGT
196 ATACTCTCATCTGAGATAAGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTC-AATTTGT
15058288 ACACATCGTTAATATAATATGG
260 ACACATCGTTAATATAATATGG
*
15058310 GTATCCCTCAATACAGAACATGTTGCCTTCATATGCTCTAGGTTTCTACAGTACCCACATAACCT
1 GTATCCCTCAATACAGAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCT
* * * * * *
15058375 CTGTTGATTGTCTCTCTCCTGAACATCCATATTGGTGA-GTATCCGAGTGAAATTTAGACGACGT
66 CTGTTGATTGCCTCTCTCCTGAACATCAATATTAGT-ACGTATCCGAGTAAAATTCAGACGACCT
* ** * **
15058439 TTCGAGATACGATGCAAGTAAATATTCGGGGCCAACTCAAAC-GGGACACTGGACACTGGCAGCC
130 TTCGAGATACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAG-CACTGGACACTGGCAAAC
* * * *
15058503 ACATACTCTTATCTGGGATAGGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTCAGTTTG
194 ACATACTCTCATCTGAGATAAGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTCAATTTG
15058568 TACACATCGTTAATATAA
259 TACACATCGTTAATATAA
15058586 GGTGTGTACT
Statistics
Matches: 233, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
280 2 0.01
281 227 0.97
282 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (281 bp):
GTATCCCTCAATACAGAACATGTTGCCTTCATATGCCCTAGGTTTCTACAGTACCCACATAACCT
CTGTTGATTGCCTCTCTCCTGAACATCAATATTAGTACGTATCCGAGTAAAATTCAGACGACCTT
TCGAGATACAACACAAGTAAATATTCGGGGCCAACTCAAACAGAGCACTGGACACTGGCAAACAC
ATACTCTCATCTGAGATAAGTGAGAATTTAGATATCCATACATTGTGCATGCCTTTCAATTTGTA
CACATCGTTAATATAATATGG
Found at i:15058949 original size:26 final size:26
Alignment explanation
Indices: 15058914--15058965 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
15058904 GAAAAGTATG
*
15058914 CTTCTTTGACAATCGAGGTTATTGGT
1 CTTCTTTGACAACCGAGGTTATTGGT
*
15058940 CTTCTTTGACAACCTAGGTTATTGGT
1 CTTCTTTGACAACCGAGGTTATTGGT
15058966 AAATGACGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
CTTCTTTGACAACCGAGGTTATTGGT
Found at i:15062121 original size:102 final size:103
Alignment explanation
Indices: 15061932--15062202 Score: 244
Period size: 102 Copynumber: 2.6 Consensus size: 103
15061922 CTAGTTGATT
* * **
15061932 TTTAAAGGTTAGCTGAGTTAAGCTCTCAACCTATTTTTTTTGAGGTAGCTGAGTCAAGCTCGCAA
1 TTTAAAGGTTAGCTAAGTTAAACTCTCAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGCAA
* *
15061997 CTCCGAAACAGCTCGCGGACCTACGTTCCCAACTAATG
66 CTCCGAAACAACTCGCGAACCTACGTTCCCAACTAATG
* * * *
15062035 TTTAAA-GTTCAGCTAAGTTAAACTCGT-AACCTAAATTTTTT-AGTTAGTTGAGTTAAGCTTGC
1 TTTAAAGGTT-AGCTAAGTTAAACTC-TCAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGC
* * * *** *
15062097 AACTCTGAAACAACTTGCGAACCTATGTTCCCTGGTTATG
64 AACTCCGAAACAACTCGCGAACCTACGTTCCCAACTAATG
* * * * * * * * * *
15062137 CTTAAAGGTTAGTTGAGTTAAGCT-TATAACTTAAATTTTTTGAGTTAACTGAGTTAAGCTCACA
1 TTTAAAGGTTAGCTAAGTTAAACTCT-CAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGCA
15062201 AC
65 AC
15062203 CCTAGCTATT
Statistics
Matches: 136, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
100 1 0.01
102 80 0.59
103 54 0.40
104 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (103 bp):
TTTAAAGGTTAGCTAAGTTAAACTCTCAACCTAAATTTTTTGAGGTAGCTGAGTCAAGCTCGCAA
CTCCGAAACAACTCGCGAACCTACGTTCCCAACTAATG
Found at i:15081997 original size:27 final size:25
Alignment explanation
Indices: 15081959--15082050 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
15081949 CATATGAGCA
*
15081959 CATA-AACAGGAAGCTCTCTCTCAAGC
1 CATATAACAGGAAGCT-TATCT-AAGC
* *
15081985 CATATAACGGGAAGCTTATGTAAGC
1 CATATAACAGGAAGCTTATCTAAGC
* ***
15082010 CATGTAACAGGAAGCTTATCCGGGC
1 CATATAACAGGAAGCTTATCTAAGC
*
15082035 CATATAACAAGAAGCT
1 CATATAACAGGAAGCT
15082051 CATGAGAACC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
25 37 0.69
26 7 0.13
27 10 0.19
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (25 bp):
CATATAACAGGAAGCTTATCTAAGC
Found at i:15082693 original size:21 final size:21
Alignment explanation
Indices: 15082669--15082710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15082659 TAAATTTAAC
*
15082669 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
15082690 TCAATTCCATTCAATTCACAT
1 TCAATTCAATACAATTCACAT
15082711 CTTAGGCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:15082700 original size:10 final size:11
Alignment explanation
Indices: 15082680--15082710 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
15082670 CAATTTAATA
15082680 CAATTCACATT
1 CAATTCACATT
15082691 CAATTC-CATT
1 CAATTCACATT
15082701 CAATTCACAT
1 CAATTCACAT
15082711 CTTAGGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (11 bp):
CAATTCACATT
Found at i:15090483 original size:46 final size:46
Alignment explanation
Indices: 15090411--15090550 Score: 235
Period size: 46 Copynumber: 3.0 Consensus size: 46
15090401 ACAATGCTAT
* * **
15090411 AACTCAGTATGGTTTCCTTCACTGAAATTCCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
*
15090457 AACTCTGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
15090503 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
15090549 AA
1 AA
15090551 TTTGTCATGG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
Found at i:15098683 original size:24 final size:24
Alignment explanation
Indices: 15098656--15098704 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15098646 TGAACTTCGA
15098656 TTTATTATGTTTTGATAGCTAACG
1 TTTATTATGTTTTGATAGCTAACG
15098680 TTTATTATGTTTTGATAGCTAACG
1 TTTATTATGTTTTGATAGCTAACG
15098704 T
1 T
15098705 GACAATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTATTATGTTTTGATAGCTAACG
Found at i:15098716 original size:23 final size:24
Alignment explanation
Indices: 15098662--15098718 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
15098652 TCGATTTATT
* **
15098662 ATGTTTTGATAGCTAACGTTTATT
1 ATGTTTTGATAGCTAACGTTGACA
15098686 ATGTTTTGATAGCTAACG-TGACA
1 ATGTTTTGATAGCTAACGTTGACA
15098709 ATGTTTTGAT
1 ATGTTTTGAT
15098719 CACTGGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (24 bp):
ATGTTTTGATAGCTAACGTTGACA
Found at i:15104214 original size:12 final size:11
Alignment explanation
Indices: 15104201--15104240 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
15104191 GAACAATGAG
15104201 AAGAAAAGAAA
1 AAGAAAAGAAA
*
15104212 GA-AAAAGAAA
1 AAGAAAAGAAA
15104222 AAGAAAAAGAAA
1 AAG-AAAAGAAA
15104234 AAGAAAA
1 AAGAAAA
15104241 ATGAGAACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.36
11 5 0.20
12 11 0.44
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:15104220 original size:6 final size:6
Alignment explanation
Indices: 15104209--15104241 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
15104199 AGAAGAAAAG
15104209 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
15104242 TGAGAACGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:15105844 original size:36 final size:37
Alignment explanation
Indices: 15105774--15105846 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
15105764 TATTTAAGTG
* *
15105774 TTTTATTTTTTATTTATCTACTTTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
15105811 TTTTAGTTTTTATTTATCTAC-CTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
15105847 CATTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (37 bp):
TTTTAGTTTTTATTTATCTACTCTTTATTTGTGTATA
Found at i:15136711 original size:36 final size:37
Alignment explanation
Indices: 15136640--15136712 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
15136630 TATTTAAGTG
*
15136640 TTTTAGTTTTTATTTATCTACTTTTTATTTATGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTATGTATA
*
15136677 TTTTAGTTTTTATTTATCTAC-CTTTATTTGTGTATA
1 TTTTAGTTTTTATTTATCTACTCTTTATTTATGTATA
15136713 CATTATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (37 bp):
TTTTAGTTTTTATTTATCTACTCTTTATTTATGTATA
Found at i:15144010 original size:12 final size:11
Alignment explanation
Indices: 15143971--15144016 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
15143961 AATTTTAAAC
15143971 TTTAAAACAAT
1 TTTAAAACAAT
*
15143982 TTTATAA-AAT
1 TTTAAAACAAT
*
15143992 ATTAAAACCAAT
1 TTTAAAA-CAAT
15144004 TTTAAAACAAT
1 TTTAAAACAAT
15144015 TT
1 TT
15144017 GAGGGCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.28
11 12 0.41
12 9 0.31
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (11 bp):
TTTAAAACAAT
Found at i:15149417 original size:125 final size:125
Alignment explanation
Indices: 15149178--15149601 Score: 627
Period size: 125 Copynumber: 3.4 Consensus size: 125
15149168 ACGTGGGCGC
* * *
15149178 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
15149243 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
* ** * *
15149303 GAAGAATTTGTTAAATCGCGCCCACGTGGACATGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * * * * *
15149367 TTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGATATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCACTTCTACCAGGATGCT-TTATGA
* * * * *
15149428 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACGGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
*
15149493 TTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
*
15149553 GAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
15149602 CATGTTTGGG
Statistics
Matches: 258, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
124 40 0.16
125 179 0.69
126 39 0.15
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTTTATGA
Found at i:15153291 original size:18 final size:18
Alignment explanation
Indices: 15153268--15153307 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15153258 GACTCGGAAA
* *
15153268 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
15153286 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
15153304 AGGA
1 AGGA
15153308 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:15155190 original size:11 final size:12
Alignment explanation
Indices: 15155176--15155228 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
15155166 TTAAATATGG
15155176 ATTTGAGA-GAA
1 ATTTGAGAGGAA
15155187 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
15155199 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
15155210 A-TTGAGAGAAA
1 ATTTGAGAGGAA
15155221 ATTTGAGA
1 ATTTGAGA
15155229 AAGGATTAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 4 0.11
11 18 0.49
12 15 0.41
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:15155212 original size:51 final size:51
Alignment explanation
Indices: 15155117--15155214 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
15155107 AATTATTTAA
* *
15155117 AAATAGGGATTTAAGAGAAATTTAAGAAGAACTTGTGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAAGAAGAAATTGAGAGCAAATTGAAATT
* * * *
15155168 AAATATGGATTTGAGAGAAATTT-TGAAGGAAATTGAGAGGAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAAGAA-GAAATTGAGAGCAAATTGA
15155215 GAGAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 3 0.08
51 37 0.93
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAAGAAATTGAGAGCAAATTGAAATT
Found at i:15156279 original size:21 final size:22
Alignment explanation
Indices: 15156241--15156284 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
15156231 TCTCTTATAC
*
15156241 TTTGTTCTTATTTGTTGT-TTG
1 TTTGTTCTTATTTCTTGTATTG
15156262 TTTGTTCATTA-TTCTTGTATTG
1 TTTGTTC-TTATTTCTTGTATTG
15156284 T
1 T
15156285 ATTTCTGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.09, C:0.07, G:0.16, T:0.68
Consensus pattern (22 bp):
TTTGTTCTTATTTCTTGTATTG
Found at i:15158746 original size:26 final size:26
Alignment explanation
Indices: 15158703--15158839 Score: 139
Period size: 26 Copynumber: 5.3 Consensus size: 26
15158693 TAAAAAACGA
*
15158703 AAGCCTTTGTGGTGTATTTAAAATGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
* * * *
15158729 AAGCCTTTTTGGCATATTTGAATTGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
* * *
15158755 AAGCCTTTGTAGCGTATCTAAATTGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
** * **
15158781 AAGTGTTTGTGGCGTATTTGAAATTA
1 AAGCCTTTGTGGCGTATTTAAAATGG
*
15158807 AAGCCTTTGTGGCGTATCTAAAATGG
1 AAGCCTTTGTGGCGTATTTAAAATGG
*
15158833 GAGCCTT
1 AAGCCTT
15158840 CGATTTTTTG
Statistics
Matches: 86, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 86 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (26 bp):
AAGCCTTTGTGGCGTATTTAAAATGG
Found at i:15158783 original size:52 final size:52
Alignment explanation
Indices: 15158702--15158839 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 52
15158692 CTAAAAAACG
* * *
15158702 AAAGCCTTTGTGGTGTATTTAAAATGGAAGCCTTTTTGGCATATTTG-AATT
1 AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCATATTTGAAATT
* * * ** *
15158753 GGAAGCCTTTGTAGCGTATCTAAATTGGAAGTGTTTGTGGCGTATTTGAAATT
1 -AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCATATTTGAAATT
*
15158806 AAAGCCTTTGTGGCGTATCTAAAATGGGAGCCTT
1 AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTT
15158840 CGATTTTTTG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (52 bp):
AAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCATATTTGAAATT
Found at i:15160852 original size:19 final size:19
Alignment explanation
Indices: 15160828--15160880 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
15160818 TATATATACT
15160828 AAATAAATTAATAATAAAA
1 AAATAAATTAATAATAAAA
* *
15160847 AAATAAAATAAT-TTAAAA
1 AAATAAATTAATAATAAAA
15160865 AAATCAAATTAA-AATA
1 AAAT-AAATTAATAATA
15160881 TTAATAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATTAATAATAAAA
Found at i:15160865 original size:18 final size:19
Alignment explanation
Indices: 15160828--15160873 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
15160818 TATATATACT
*
15160828 AAATAAATTAATAATAAAA
1 AAATAAAATAATAATAAAA
*
15160847 AAATAAAATAAT-TTAAAA
1 AAATAAAATAATAATAAAA
*
15160865 AAATCAAAT
1 AAATAAAAT
15160874 TAAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAATAATAATAAAA
Found at i:15162622 original size:49 final size:49
Alignment explanation
Indices: 15162553--15162653 Score: 130
Period size: 49 Copynumber: 2.1 Consensus size: 49
15162543 CTCGTTTTCT
* * * *
15162553 CGATACCATAGTCCAACTATGGTCTTACATGTAATCACTTATCACATAC
1 CGATACCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
* * * *
15162602 CGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACTTAC
1 CGATACCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
15162651 CGA
1 CGA
15162654 AAGTACTCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (49 bp):
CGATACCATAGCCCAACTATGGTCTTACACGGAATCACATATCACATAC
Found at i:15165315 original size:4 final size:4
Alignment explanation
Indices: 15165303--15165341 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
15165293 TAAAATTAGT
15165303 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
15165342 AAGGATAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:15165739 original size:31 final size:31
Alignment explanation
Indices: 15165646--15165741 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
15165636 GGCAAATTAC
* *
15165646 AAGAGTAATTGAATCCTAATAAAATTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15165677 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
15165709 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15165740 AA
1 AA
15165742 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:15168929 original size:23 final size:23
Alignment explanation
Indices: 15168903--15168965 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
15168893 TTTGCTTTTT
15168903 GCTTTTTTTTCTTTTTTTTTTGC
1 GCTTTTTTTTCTTTTTTTTTTGC
** **
15168926 GCTTTTTACTCACTTTTTTTTGC
1 GCTTTTTTTTCTTTTTTTTTTGC
* *
15168949 -ATTTTTTTTGTTTTTTT
1 GCTTTTTTTTCTTTTTTT
15168966 AAAGAATAAG
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.75
Consensus pattern (23 bp):
GCTTTTTTTTCTTTTTTTTTTGC
Found at i:15169605 original size:31 final size:31
Alignment explanation
Indices: 15169512--15169607 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
15169502 GGAAAATTAC
*
15169512 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15169543 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
15169575 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15169606 AA
1 AA
15169608 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:15172263 original size:43 final size:43
Alignment explanation
Indices: 15172215--15172327 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 43
15172205 GTGATTTCGC
* *
15172215 GTAAGACCACATCTGGGACGTTGGCATCGA-CTTGTGTTTTCAT
1 GTAAGACCACATCTGGGACGTTGGCATCGATC-TGTGATTACAT
*
15172258 GTAAGACC-CTATCTGGGACAG-CGGCATCGATCTGTGATTACAT
1 GTAAGACCAC-ATCTGGGAC-GTTGGCATCGATCTGTGATTACAT
* *
15172301 GTAAGACCACGTCTGGGACATTGGCAT
1 GTAAGACCACATCTGGGACGTTGGCAT
15172328 TGTACGAACC
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.02
43 55 0.93
44 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (43 bp):
GTAAGACCACATCTGGGACGTTGGCATCGATCTGTGATTACAT
Found at i:15173042 original size:10 final size:10
Alignment explanation
Indices: 15173022--15173056 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
15173012 AAAATCCTAA
15173022 GCCCGAGCTCG
1 GCCC-AGCTCG
15173033 GCCCAGCTCG
1 GCCCAGCTCG
15173043 GCCCAGCTCG
1 GCCCAGCTCG
15173053 GCCC
1 GCCC
15173057 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.09, C:0.51, G:0.31, T:0.09
Consensus pattern (10 bp):
GCCCAGCTCG
Found at i:15173103 original size:26 final size:28
Alignment explanation
Indices: 15173074--15173133 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
15173064 AATAAACACC
*
15173074 AAAAATTTATTTT-AAAAT-AAAAAATA
1 AAAAATGTATTTTAAAAATAAAAAAATA
*
15173100 AAAAAAGTATTTTAAAAATAAAAAAATA
1 AAAAATGTATTTTAAAAATAAAAAAATA
15173128 AAAAAT
1 AAAAAT
15173134 AAAAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.38
27 5 0.17
28 13 0.45
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAATGTATTTTAAAAATAAAAAAATA
Found at i:15173482 original size:19 final size:20
Alignment explanation
Indices: 15173444--15173483 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
15173434 TTTTGAGTGA
15173444 ATTATGGTTTAGGCATATTTTG
1 ATTATGGTTTA-G-ATATTTTG
15173466 ATTATGGTTTA-ATATTTT
1 ATTATGGTTTAGATATTTT
15173484 ATGGATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
22 11 0.61
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (20 bp):
ATTATGGTTTAGATATTTTG
Found at i:15177312 original size:20 final size:21
Alignment explanation
Indices: 15177273--15177312 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15177263 TTTGCTTTCA
* *
15177273 AATTTTACATTTTTTTTTGTT
1 AATTTTACATCTTATTTTGTT
15177294 AATTTTAC-TCTTATTTTGT
1 AATTTTACATCTTATTTTGT
15177313 AAAAGTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (21 bp):
AATTTTACATCTTATTTTGTT
Found at i:15179207 original size:23 final size:23
Alignment explanation
Indices: 15179167--15179214 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
15179157 TTCCTGATTA
* *
15179167 ATGGCTCTCTAGAGCTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCGAT
* *
15179190 ATGGCTCGCTTGAACTTCCTGAT
1 ATGGCTCGCTAGAACTTCCCGAT
15179213 AT
1 AT
15179215 ATGGCTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCGAT
Found at i:15179237 original size:73 final size:73
Alignment explanation
Indices: 15179154--15179293 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
15179144 ACTCTTTGTG
* *
15179154 AGCTTCCTGATTAATGGCTC-TCTAGAGCTTCCCGATA-TGGCTCGCTTGAACTTCCTGATATAT
1 AGCTTCCTGATTAATGGCTCTTC-AGAGCTACCCGATATTGGCTCGCATGAACTTCCTGA-ATAT
15179217 GGCTATTCGT
64 GGCTATTCGT
* *
15179227 AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGAATATGG
1 AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGATATTGGCTCGCATGAACTTCCTGAATATGG
15179292 CT
66 CT
15179294 CTTATGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
73 40 0.66
74 21 0.34
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (73 bp):
AGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGATATTGGCTCGCATGAACTTCCTGAATATGG
CTATTCGT
Found at i:15179255 original size:25 final size:25
Alignment explanation
Indices: 15179153--15179306 Score: 96
Period size: 25 Copynumber: 6.3 Consensus size: 25
15179143 GACTCTTTGT
15179153 GAGCTTCCTGATTAATGGCTC-TCTA
1 GAGCTTCCTGATTAATGGCTCTTC-A
*
15179178 GAGCTTCCCGA-T-ATGGCTCGCTT--
1 GAGCTTCCTGATTAATGGCT--CTTCA
* *
15179201 GAACTTCCTGA-TATATGGCTATTC-
1 GAGCTTCCTGATTA-ATGGCTCTTCA
15179225 GTAGCTTCCTGATTAATGGCTCTTCA
1 G-AGCTTCCTGATTAATGGCTCTTCA
* * * *
15179251 GAGCTACCCG-TTATTGGCTC-GCA
1 GAGCTTCCTGATTAATGGCTCTTCA
*
15179274 TGAGCTTCCTGAAT-ATGGCTCTT-A
1 -GAGCTTCCTGATTAATGGCTCTTCA
15179298 TGAGCTTCC
1 -GAGCTTCC
15179307 CGTTATACAA
Statistics
Matches: 102, Mismatches: 15, Indels: 25
0.72 0.11 0.18
Matches are distributed among these distances:
23 20 0.20
24 35 0.34
25 43 0.42
26 4 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTTCA
Found at i:15179353 original size:25 final size:25
Alignment explanation
Indices: 15179297--15179363 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
15179287 TATGGCTCTT
*
15179297 ATGAGCTTCCCGTTATACAACCCGA
1 ATGAGCTTCCTGTTATACAACCCGA
* * *
15179322 ATAAGCTTCCTGTTATACAGCTC-A
1 ATGAGCTTCCTGTTATACAACCCGA
*
15179346 CATGAGCTTCCTATTATA
1 -ATGAGCTTCCTGTTATA
15179364 TGGCTCGAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAACCCGA
Found at i:15182130 original size:9 final size:9
Alignment explanation
Indices: 15182098--15182149 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
15182088 TTATCACTAT
15182098 TATTATTAC
1 TATTATTAC
*
15182107 TACTT-TTAT
1 TA-TTATTAC
*
15182116 TATTATTAA
1 TATTATTAC
15182125 TATTATTAC
1 TATTATTAC
* *
15182134 TATTGTTGC
1 TATTATTAC
15182143 TATTATT
1 TATTATT
15182150 GATAATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:15182130 original size:15 final size:15
Alignment explanation
Indices: 15182095--15182137 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15182085 GTATTATCAC
* *
15182095 TATTATTATTACTAC
1 TATTATTATTATTAA
*
15182110 TTTTATTATTATTAA
1 TATTATTATTATTAA
*
15182125 TATTATTACTATT
1 TATTATTATTATT
15182138 GTTGCTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:15182146 original size:27 final size:27
Alignment explanation
Indices: 15182098--15182159 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
15182088 TTATCACTAT
*
15182098 TATTATTACTACTTTTATTATTATTAA
1 TATTATTACTACTTTTACTATTATTAA
* *
15182125 TATTATTACTA-TTGTTGCTATTATTGA
1 TATTATTACTACTT-TTACTATTATTAA
*
15182152 TAATATTA
1 TATTATTA
15182160 TTCGCTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (27 bp):
TATTATTACTACTTTTACTATTATTAA
Found at i:15185148 original size:21 final size:22
Alignment explanation
Indices: 15185122--15185168 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
15185112 CTTTATATGC
*
15185122 ATTTTTGAAGAGTGAGGATCAA
1 ATTTTTGAAGAGTAAGGATCAA
15185144 ATTTTTGAAGAGTAAGGATCAA
1 ATTTTTGAAGAGTAAGGATCAA
15185166 ATT
1 ATT
15185169 AACAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.34
Consensus pattern (22 bp):
ATTTTTGAAGAGTAAGGATCAA
Found at i:15206089 original size:44 final size:44
Alignment explanation
Indices: 15205771--15206108 Score: 200
Period size: 44 Copynumber: 7.7 Consensus size: 44
15205761 AGTGAAACCT
* * ** *
15205771 CAAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
** * * * * * **
15205815 GCAGGTCTTATCCCCCTGAATTTACAGTGGGGCAGACTGAAGATGG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTA
* * * * *
15205861 CGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGTCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * *
15205905 -ATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATGA
1 CA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
*** * * * * * *
15205949 TGGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCA--T-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
** * * ** *
15205990 CAGGTCTTATTTCCCTGAAGTTGCAGTAGAGCAGACCGAA-TAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA
* *
15206034 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* *
15206078 CAAATCCTATCTCCCTGACGTTGCAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
15206109 TGGACCGAAG
Statistics
Matches: 218, Mismatches: 68, Indels: 15
0.72 0.23 0.05
Matches are distributed among these distances:
41 31 0.14
44 126 0.58
45 61 0.28
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
Found at i:15206860 original size:23 final size:22
Alignment explanation
Indices: 15206829--15206872 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
15206819 GTTAGATGTC
15206829 TTACCTTCTGTTT-TTTTATTTAT
1 TTACCTTCT-TTTCTTTT-TTTAT
*
15206852 TTACTTTCTTTTCTTTTTTTA
1 TTACCTTCTTTTCTTTTTTTA
15206873 AAAAAGACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (22 bp):
TTACCTTCTTTTCTTTTTTTAT
Found at i:15209308 original size:19 final size:18
Alignment explanation
Indices: 15209284--15209320 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
15209274 TAGTTGCGTC
15209284 AAACTTAGAAATGTTGAAT
1 AAACTTAGAAATG-TGAAT
15209303 AAACTTAGAAATGTGAAT
1 AAACTTAGAAATGTGAAT
15209321 TCAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (18 bp):
AAACTTAGAAATGTGAAT
Found at i:15211394 original size:14 final size:15
Alignment explanation
Indices: 15211361--15211389 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15211351 TTAAACCGAA
15211361 AAAATAAAAAATTTC
1 AAAATAAAAAATTTC
15211376 AAAATAAAAAATTT
1 AAAATAAAAAATTT
15211390 TAAATTCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAAAAAATTTC
Found at i:15213684 original size:42 final size:42
Alignment explanation
Indices: 15213625--15213704 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
15213615 GGCGCTTGTA
15213625 CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
1 CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
* ** *
15213667 CAACAAATGCCGCTAAAGCACATGTTCTTTAGCGGCGC
1 CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGC
15213705 TTTCTTCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (42 bp):
CAACAAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
Found at i:15213726 original size:43 final size:42
Alignment explanation
Indices: 15213586--15213728 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 42
15213576 TTACAGAAAT
* ** *
15213586 AAACACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGTACAAC
1 AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGCTTCT-CAAC
* * ** * **
15213629 AAATGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC-CAAC
1 AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGC-TTCTCAAC
*
15213671 AAATGCCGCTAAAGCACATGTTCTTTAGCGGCGCTTTCTTC-AC
1 AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGC-TTC-TCAAC
15213714 AAACGCCGCTAAAGC
1 AAACGCCGCTAAAGC
15213729 TGCTAAAAGA
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 35 0.44
43 43 0.54
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGCACATGTTCTTTAGCGGCGCTTCTCAAC
Found at i:15214212 original size:21 final size:21
Alignment explanation
Indices: 15214188--15214238 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15214178 TTCTTTTGAA
* *
15214188 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTAGCTGCAG
**
15214209 CCTCTGCTTCCCTAGCTGTTG
1 CCTCTGCTTCCCTAGCTGCAG
15214230 CCTCTGCTT
1 CCTCTGCTT
15214239 TTAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCCCTAGCTGCAG
Found at i:15220720 original size:101 final size:101
Alignment explanation
Indices: 15220603--15220884 Score: 399
Period size: 101 Copynumber: 2.8 Consensus size: 101
15220593 AAAGTGATGG
*
15220603 TCACGTTTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
*
15220668 TATGTGCAGGCTACTATGCGTATCAGAGAGCTTCAA
66 TATGTGCAGGCTACTATGCGTACCAGAGAGCTTCAA
15220704 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
* * *
15220769 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCAGAGAGCTTCAA
* * * * * * * * *
15220805 TCACGTGTGTAGTAC--TGTGCAGGCTACTATGCGTACC-GGATAGCTTCGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAT-G-ATAGGTCGCATGTGTAGT
15220867 ACTATGTGCAGGCTACTA
64 ACTATGTGCAGGCTACTA
15220885 CGTCTACCGG
Statistics
Matches: 165, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
98 3 0.02
99 20 0.12
100 31 0.19
101 111 0.67
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAGAGAGCTTCAA
Found at i:15220857 original size:150 final size:152
Alignment explanation
Indices: 15220595--15220937 Score: 444
Period size: 150 Copynumber: 2.3 Consensus size: 152
15220585 TGAAAGTGAA
* * * * * * * * * * *
15220595 AGTGATGGTCACGTTTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATG-ATAGGTCGCA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GCTTCGATCACG
*
15220658 TGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGAGAGCTTCAATCACGTGTGTAGTACTATG
65 TGTGTAGTAC-ATGTGCAGGCTACTATGCGTACCAGAGAGCTTCAATCACGTGTGTAGTACTATG
* *
15220723 TGTAGGCTACTACGTGTACCAGA-
129 TGCAGGCTACTACGTCTACCAGAT
*
15220746 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
* * *
15220810 TGTGTAGTAC-TGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACGTGTGTAGTACTATGT
65 TGTGTAGTACATGTGCAGGCTACTATGCGTACCAGAGAGCTTCAATCACGTGTGTAGTACTATGT
*
15220874 GCAGGCTACTACGTCTACCGGAT
130 GCAGGCTACTACGTCTACCAGAT
*
15220897 AGTGATGGTCACATGTGTAGTACTATGTGCATGCTACTATG
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
15220938 TGAATCCGCA
Statistics
Matches: 166, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
150 73 0.44
151 73 0.44
152 20 0.12
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (152 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACGT
GTGTAGTACATGTGCAGGCTACTATGCGTACCAGAGAGCTTCAATCACGTGTGTAGTACTATGTG
CAGGCTACTACGTCTACCAGAT
Found at i:15220896 original size:51 final size:50
Alignment explanation
Indices: 15220603--15220935 Score: 309
Period size: 51 Copynumber: 6.6 Consensus size: 50
15220593 AAAGTGATGG
* * * * * *
15220603 TCACGTTTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA-GTTCGA
* * * * * *
15220653 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGAGAGCTTCAA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAG-TTCGA
* * * * *
15220704 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA-GTTCGA
* * * *
15220754 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAG-TTCGA
* *
15220805 TCACGTGTGTAGTAC--TGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAG-TTCGA
* *
15220854 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTC-TACCGGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACG-CGTACCAGATAGT--TCGA
* *
15220905 TCACATGTGTAGTACTATGTGCATGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
15220936 TGTGAATCCG
Statistics
Matches: 237, Mismatches: 36, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
49 49 0.21
50 76 0.32
51 110 0.46
52 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTTCGA
Found at i:15221025 original size:43 final size:43
Alignment explanation
Indices: 15220947--15221158 Score: 247
Period size: 43 Copynumber: 5.0 Consensus size: 43
15220937 GTGAATCCGC
* * * *
15220947 ATCATTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCATCGT
1 ATCATTGACTGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * *
15220990 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CTGC
1 ATCATTGACTGT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
15221032 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGACTGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
15221075 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATTGACTGT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
15221117 ATCATTGA-T-TATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGACTGTA-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
15221159 GTAACGGTTA
Statistics
Matches: 142, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 25 0.18
42 44 0.31
43 57 0.40
44 10 0.07
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCATTGACTGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:15221088 original size:85 final size:85
Alignment explanation
Indices: 15220943--15221158 Score: 380
Period size: 85 Copynumber: 2.6 Consensus size: 85
15220933 CTATGTGAAT
* *
15220943 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCATCGTATCCTTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
15221008 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
*
15221028 CTGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
15221093 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
* *
15221113 CCGTATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
15221159 GTAACGGTTA
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
84 30 0.24
85 95 0.76
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (85 bp):
CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
GGTTGCTATGTGCTGATTCC
Found at i:15222841 original size:7 final size:7
Alignment explanation
Indices: 15222831--15222940 Score: 94
Period size: 7 Copynumber: 14.0 Consensus size: 7
15222821 TGATATATTT
15222831 TTATGTA
1 TTATGTA
15222838 TTATGTAA
1 TTATGT-A
15222846 GTTATGTA
1 -TTATGTA
15222854 TTATGTAA
1 TTATGT-A
15222862 GTTATGTAA
1 -TTATGT-A
*
15222871 GTTGTGTA
1 -TTATGTA
15222879 TTATGTGA
1 TTATGT-A
15222887 GTTATGTA
1 -TTATGTA
*
15222895 GGTTGTGTA
1 --TTATGTA
15222904 TTATGTAA
1 TTATGT-A
15222912 GTTATGTA
1 -TTATGTA
15222920 TTATGTA
1 TTATGTA
15222927 TTATGTA
1 TTATGTA
15222934 TTATGTA
1 TTATGTA
15222941 AGTATTGTAA
Statistics
Matches: 90, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
7 43 0.48
8 8 0.09
9 39 0.43
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (7 bp):
TTATGTA
Found at i:15222852 original size:9 final size:9
Alignment explanation
Indices: 15222838--15223501 Score: 560
Period size: 9 Copynumber: 77.2 Consensus size: 9
15222828 TTTTTATGTA
15222838 TTATGTAAG
1 TTATGTAAG
15222847 TTATGT-A-
1 TTATGTAAG
15222854 TTATGTAAG
1 TTATGTAAG
15222863 TTATGTAAG
1 TTATGTAAG
*
15222872 TTGTGT-A-
1 TTATGTAAG
*
15222879 TTATGTGAG
1 TTATGTAAG
*
15222888 TTATGTAGG
1 TTATGTAAG
*
15222897 TTGTGT-A-
1 TTATGTAAG
15222904 TTATGTAAG
1 TTATGTAAG
15222913 TTATGT-A-
1 TTATGTAAG
15222920 TTATGT-A-
1 TTATGTAAG
15222927 TTATGT-A-
1 TTATGTAAG
15222934 TTATGTAAG
1 TTATGTAAG
15222943 -TATTGTAAG
1 TTA-TGTAAG
*
15222952 TAATGTAAG
1 TTATGTAAG
*
15222961 TTATATAAG
1 TTATGTAAG
*
15222970 TAATGT-A-
1 TTATGTAAG
15222977 TTATGTAAG
1 TTATGTAAG
*
15222986 TTGTGTATA-
1 TTATGTA-AG
*
15222995 ATAT-TAA-
1 TTATGTAAG
15223002 TTATGTAAG
1 TTATGTAAG
*
15223011 TTGTGT-A-
1 TTATGTAAG
*
15223018 TAATGTAAG
1 TTATGTAAG
*
15223027 TTA-GGAAGG
1 TTATGTAA-G
15223036 TTATGT-A-
1 TTATGTAAG
15223043 TTATGTAAG
1 TTATGTAAG
*
15223052 TTATTTAAG
1 TTATGTAAG
15223061 TTATGTAAG
1 TTATGTAAG
15223070 TTATGTAAG
1 TTATGTAAG
* *
15223079 TTATTTAAT
1 TTATGTAAG
15223088 TTATGTAAG
1 TTATGTAAG
15223097 TTATGTAAG
1 TTATGTAAG
15223106 TTATGTAAG
1 TTATGTAAG
* *
15223115 TTATTTAAT
1 TTATGTAAG
*
15223124 TTATGTAAA
1 TTATGTAAG
15223133 TTATGTAAG
1 TTATGTAAG
*
15223142 TTATGTAGG
1 TTATGTAAG
*
15223151 CTATGT-A-
1 TTATGTAAG
*
15223158 TTATGTAAA
1 TTATGTAAG
*
15223167 TAATGTAAG
1 TTATGTAAG
*
15223176 TTA-GGAAGG
1 TTATGTAA-G
15223185 TTATGT-A-
1 TTATGTAAG
15223192 TTATGTAAG
1 TTATGTAAG
15223201 TTATGTAAG
1 TTATGTAAG
15223210 TTATGTAAG
1 TTATGTAAG
* *
15223219 TTATCTAAT
1 TTATGTAAG
15223228 TTATGTAAG
1 TTATGTAAG
15223237 TTATGTAAG
1 TTATGTAAG
15223246 TTATGTAAG
1 TTATGTAAG
* *
15223255 TTATTTAAT
1 TTATGTAAG
15223264 TTATGTAAG
1 TTATGTAAG
*
15223273 TTAT-TTAG
1 TTATGTAAG
*** *
15223281 --AAAAAAA
1 TTATGTAAG
15223288 TTATGTAAG
1 TTATGTAAG
15223297 TTATGTACTAAG
1 TTATG---TAAG
15223309 TTATGT-A-
1 TTATGTAAG
*
15223316 TTATGTAAA
1 TTATGTAAG
*
15223325 TAATGTAAG
1 TTATGTAAG
*
15223334 TTA-GGAAGG
1 TTATGTAA-G
15223343 TTATGT-A-
1 TTATGTAAG
15223350 TTATGTAAG
1 TTATGTAAG
*
15223359 TTATTTAAG
1 TTATGTAAG
15223368 TTATGTAAG
1 TTATGTAAG
* *
15223377 TTATTTAAT
1 TTATGTAAG
15223386 TTATGTAAG
1 TTATGTAAG
15223395 TTATGTAAG
1 TTATGTAAG
* *
15223404 TTATTTAAT
1 TTATGTAAG
15223413 TTATGTAAG
1 TTATGTAAG
15223422 TTATGTAAG
1 TTATGTAAG
* *
15223431 TTATTTAAT
1 TTATGTAAG
15223440 TTATGTAAG
1 TTATGTAAG
15223449 TTATGTAAG
1 TTATGTAAG
*
15223458 TTATGTAGG
1 TTATGTAAG
*
15223467 CTATGT-A-
1 TTATGTAAG
*
15223474 TTATGTTA-
1 TTATGTAAG
*
15223482 TTATATAAG
1 TTATGTAAG
*
15223491 TTATGCAAG
1 TTATGTAAG
15223500 TT
1 TT
15223502 TATATATAAG
Statistics
Matches: 527, Mismatches: 87, Indels: 82
0.76 0.12 0.12
Matches are distributed among these distances:
6 1 0.00
7 84 0.16
8 43 0.08
9 385 0.73
10 5 0.01
12 9 0.02
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15223472 original size:158 final size:157
Alignment explanation
Indices: 15223017--15223479 Score: 680
Period size: 158 Copynumber: 3.0 Consensus size: 157
15223007 TAAGTTGTGT
15223017 ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAG--------TTAT
1 ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTAATTTAT
* *
15223074 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAATTATGT
66 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAATTATGT
15223139 AAGTTATGTAGGCTATGTATTATGTAA
131 AAGTTATGTAGGCTATGTATTATGTAA
*
15223166 ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATCTAATTTA
1 ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTAT-TAATTTA
* * **
15223231 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATTTAGA---A-AAAAATTAT
65 TGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTA-ATTTATGTAAATTAT
* *
15223292 GTAAGTTATGTACTAAGTTATGTATTATGTAA
129 GTAAGTTATG---TAGGCTATGTATTATGTAA
15223324 ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTA
1 ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTA-TTAATTTA
* * *
15223389 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATG
65 TGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAATTATG
15223454 TAAGTTATGTAGGCTATGTATTATGT
130 TAAGTTATGTAGGCTATGTATTATGT
15223480 TATTATATAA
Statistics
Matches: 277, Mismatches: 19, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
149 52 0.19
155 17 0.06
156 1 0.00
157 1 0.00
158 187 0.68
159 2 0.01
160 1 0.00
161 16 0.06
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (157 bp):
ATAATGTAAGTTAGGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTAATTTAT
GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAATTATGT
AAGTTATGTAGGCTATGTATTATGTAA
Found at i:15223689 original size:9 final size:9
Alignment explanation
Indices: 15223675--15223743 Score: 79
Period size: 9 Copynumber: 7.9 Consensus size: 9
15223665 TAAATATTTA
15223675 TAAGTTATG
1 TAAGTTATG
*
15223684 TAAGTTATT
1 TAAGTTATG
*
15223693 TAATTTATG
1 TAAGTTATG
15223702 TAAGTTATG
1 TAAGTTATG
15223711 TAAGTTATG
1 TAAGTTATG
* *
15223720 TAGGTAATG
1 TAAGTTATG
15223729 T-A-TTATG
1 TAAGTTATG
*
15223736 TTAGTTAT
1 TAAGTTAT
15223744 TATGTTATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.10
8 1 0.02
9 44 0.88
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:15223921 original size:17 final size:18
Alignment explanation
Indices: 15223889--15223922 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15223879 TGATTGATAA
15223889 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
15223907 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
15223923 TATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:15223937 original size:15 final size:15
Alignment explanation
Indices: 15223897--15223939 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
15223887 AAATTTTGAA
* *
15223897 AAAAATATAGATTTT
1 AAAAATATATATATT
15223912 AAAAATATATATATT
1 AAAAATATATATATT
*
15223927 AAAAATGTATATA
1 AAAAATATATATA
15223940 AATATGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAAATATATATATT
Found at i:15224024 original size:24 final size:23
Alignment explanation
Indices: 15223994--15224084 Score: 116
Period size: 23 Copynumber: 4.0 Consensus size: 23
15223984 TATATAAGTT
15223994 TATATTAAATTTTAAAAGTATATA
1 TATATTAAATTTTAAAA-TATATA
* *
15224018 TAAATTAAAATTTAAAATATATA
1 TATATTAAATTTTAAAATATATA
* *
15224041 CATATTAAATTTT-AAAGATATA
1 TATATTAAATTTTAAAATATATA
15224063 TATA-T-AATTTTAAAATATATA
1 TATATTAAATTTTAAAATATATA
15224084 T
1 T
15224085 TAATAAGTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.10
21 10 0.17
22 11 0.19
23 16 0.28
24 15 0.26
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAAATTTTAAAATATATA
Found at i:15224039 original size:21 final size:21
Alignment explanation
Indices: 15223997--15224083 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 21
15223987 ATAAGTTTAT
15223997 ATTAAATTTTAAAAGTATATATAA
1 ATTAAATTTT-AAA--ATATATAA
*
15224021 ATTAAAATTTAAAATATATACA
1 ATTAAATTTTAAAATATATA-A
*
15224043 TATTAAATTTTAAAGATATATAT
1 -ATTAAATTTTAAA-ATATATAA
15224066 A-T-AATTTTAAAATATATA
1 ATTAAATTTTAAAATATATA
15224084 TTAATAAGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
19 7 0.12
20 9 0.16
21 8 0.14
22 2 0.04
23 15 0.26
24 16 0.28
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAATTTTAAAATATATAA
Found at i:15224076 original size:43 final size:47
Alignment explanation
Indices: 15223995--15224083 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 47
15223985 ATATAAGTTT
15223995 ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATAC
1 ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATAC
* *
15224042 ATATTAAATTTT-AAAG-ATATATATA-T-AATTTTAAAATATATA
1 ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATA
15224084 TTAATAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 15 0.38
44 1 0.03
45 8 0.20
46 4 0.10
47 12 0.30
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (47 bp):
ATATTAAATTTTAAAAGTATATATAAATTAAAATTTAAAATATATAC
Found at i:15225676 original size:13 final size:13
Alignment explanation
Indices: 15225658--15225682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15225648 CTGAAACGAG
15225658 TTAGGGATTTCAC
1 TTAGGGATTTCAC
15225671 TTAGGGATTTCA
1 TTAGGGATTTCA
15225683 GATCAGAAAA
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:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (13 bp):
TTAGGGATTTCAC
Found at i:15242575 original size:15 final size:15
Alignment explanation
Indices: 15242555--15242595 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
15242545 CGGCACCGTC
15242555 CGAAACCGCTACTGT
1 CGAAACCGCTACTGT
15242570 CGAAACCGCTACTGT
1 CGAAACCGCTACTGT
15242585 CGAAACCGCTA
1 CGAAACCGCTA
15242596 TTATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (15 bp):
CGAAACCGCTACTGT
Found at i:15245488 original size:43 final size:42
Alignment explanation
Indices: 15245437--15245602 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 42
15245427 CGCTTACAGA
15245437 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
* *
15245479 AAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTTAGG
1 AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
* * * * *
15245522 AAGAAAACACCGCTAAA-AGTAATGTTCTATAGCGGCACT-TGG
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTAAGG
* *
15245564 TCAAAAATGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCT
1 -AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCT
15245603 TATTTCACAA
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 36 0.34
43 68 0.64
44 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGG
Found at i:15251592 original size:25 final size:25
Alignment explanation
Indices: 15251561--15251799 Score: 119
Period size: 25 Copynumber: 8.9 Consensus size: 25
15251551 ATTTTTCTCA
15251561 ATGTAAGTTATGTATTAAGTAAATT
1 ATGTAAGTTATGTATTAAGTAAATT
*
15251586 ATGTAAGTTATGTA-TATAGTATAAAAGAT
1 ATGTAAGTTATGTATTA-AG--T-AAA-TT
* *
15251615 ATGTAAGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
**
15251640 ATGTAAGTTATGTAGGTTATTA-TAAGCT
1 ATGTAAGTTATGTA--TTA--AGTAAATT
15251668 ATGTAAGTTATTATGTAAGTTAAGATATAATAT
1 ATGTAAG---TTATGT-A-TTAAG-TA-AAT-T
* *
15251701 ATGT-TGATTATGCATTAAGTAAATT
1 ATGTAAG-TTATGTATTAAGTAAATT
* * * *
15251726 ATGTAAGTTATGGAGTATGTAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
* **
15251751 ATATAAGTTATGTAAGTTATA-TAAGCT
1 ATGTAAGTTATGT-A-TTA-AGTAAATT
15251778 ATGTAAGTTAT-TATGTAAGTAA
1 ATGTAAGTTATGTAT-TAAGTAA
15251800 TGTATTAAAT
Statistics
Matches: 169, Mismatches: 21, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
24 4 0.02
25 67 0.40
26 8 0.05
27 24 0.14
28 20 0.12
29 18 0.11
30 8 0.05
31 12 0.07
32 3 0.02
33 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.42
Consensus pattern (25 bp):
ATGTAAGTTATGTATTAAGTAAATT
Found at i:15251596 original size:9 final size:9
Alignment explanation
Indices: 15251561--15251924 Score: 177
Period size: 9 Copynumber: 40.6 Consensus size: 9
15251551 ATTTTTCTCA
15251561 ATGTAAGTT
1 ATGTAAGTT
15251570 ATGT-A-TT
1 ATGTAAGTT
* *
15251577 AAGTAAATT
1 ATGTAAGTT
15251586 ATGTAAGTT
1 ATGTAAGTT
15251595 ATGTATA-TAGT
1 ATGTA-AGT--T
** *
15251606 ATAAAAGAT
1 ATGTAAGTT
15251615 ATGTAAGTT
1 ATGTAAGTT
15251624 ATGT-A-TT
1 ATGTAAGTT
15251631 ATGTAAGTT
1 ATGTAAGTT
15251640 ATGTAAGTT
1 ATGTAAGTT
*
15251649 ATGTAGGTT
1 ATGTAAGTT
* *
15251658 ATTATAAGCT
1 A-TGTAAGTT
15251668 ATGTAAGTTATT
1 ATGTAAG---TT
15251680 ATGTAAGTT
1 ATGTAAGTT
* *
15251689 AAGATATAATAT
1 ATG-TA-AGT-T
*
15251701 ATGT-TGATT
1 ATGTAAG-TT
*
15251710 ATG-CA-TT
1 ATGTAAGTT
* *
15251717 AAGTAAATT
1 ATGTAAGTT
15251726 ATGTAAGTT
1 ATGTAAGTT
*
15251735 ATG-GAG-T
1 ATGTAAGTT
15251742 ATGTAAGTT
1 ATGTAAGTT
*
15251751 ATATAAGTT
1 ATGTAAGTT
15251760 ATGTAAGTT
1 ATGTAAGTT
* *
15251769 ATATAAGCT
1 ATGTAAGTT
15251778 ATGTAAGTTATT
1 ATGTAAG---TT
*
15251790 ATGTAAGTA
1 ATGTAAGTT
15251799 ATGT-A-TT
1 ATGTAAGTT
**
15251806 AAATAAGTT
1 ATGTAAGTT
*
15251815 ATGT-ATTT
1 ATGTAAGTT
*
15251823 ATTTAAGTT
1 ATGTAAGTT
15251832 ATGT-A-TT
1 ATGTAAGTT
15251839 ATGTAAGTT
1 ATGTAAGTT
* *
15251848 ATATAAGCT
1 ATGTAAGTT
*
15251857 ATGTACCATTT
1 ATGTA--AGTT
15251868 AT-TAAGTT
1 ATGTAAGTT
*
15251876 ATGTATG-T
1 ATGTAAGTT
* *
15251884 ATGTGACTT
1 ATGTAAGTT
*
15251893 TTGTAAGTT
1 ATGTAAGTT
*
15251902 ATGTGAGTT
1 ATGTAAGTT
*
15251911 ATGTAAATT
1 ATGTAAGTT
15251920 ATGTA
1 ATGTA
15251925 TTAAATTAAA
Statistics
Matches: 262, Mismatches: 60, Indels: 66
0.68 0.15 0.17
Matches are distributed among these distances:
7 28 0.11
8 29 0.11
9 162 0.62
10 13 0.05
11 11 0.04
12 19 0.07
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:15251670 original size:19 final size:19
Alignment explanation
Indices: 15251630--15251681 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
15251620 AGTTATGTAT
* *
15251630 TATGTAAGTTA-TGTAAGT
1 TATGTAAGTTATTATAAGC
*
15251648 TATGTAGGTTATTATAAGC
1 TATGTAAGTTATTATAAGC
15251667 TATGTAAGTTATTAT
1 TATGTAAGTTATTAT
15251682 GTAAGTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (19 bp):
TATGTAAGTTATTATAAGC
Found at i:15251831 original size:17 final size:16
Alignment explanation
Indices: 15251614--15251849 Score: 109
Period size: 16 Copynumber: 14.8 Consensus size: 16
15251604 GTATAAAAGA
15251614 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
15251630 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
15251648 TATGTAGGTTAT-TA-
1 TATGTAAGTTATGTAT
* * *
15251662 TAAGCTATG-TAAGTTAT
1 TATG-TAAGTTATG-TAT
*
15251679 TATGTAAGTTAAGATAT
1 TATGTAAGTTATG-TAT
* * *
15251696 AATATATGTTGAT-TAT
1 TATGTAAGTT-ATGTAT
* *
15251712 GCAT-TAAG-TA--AAT
1 -TATGTAAGTTATGTAT
* *
15251725 TATGTAAGTTATGGAG
1 TATGTAAGTTATGTAT
*
15251741 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
15251759 TATGTAAGTTATATAAGC
1 TATGTAAGTTATGT-A-T
15251777 TATGTAAG---T-TAT
1 TATGTAAGTTATGTAT
*
15251789 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
**
15251805 TAAATAAGTTATGTATT
1 TATGTAAGTTATGTA-T
*
15251822 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
15251838 TATGTAAGTTAT
1 TATGTAAGTTAT
15251850 ATAAGCTATG
Statistics
Matches: 172, Mismatches: 28, Indels: 40
0.72 0.12 0.17
Matches are distributed among these distances:
12 10 0.06
13 7 0.04
14 9 0.05
15 6 0.03
16 66 0.38
17 36 0.21
18 38 0.22
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:15251854 original size:25 final size:25
Alignment explanation
Indices: 15251708--15251833 Score: 74
Period size: 25 Copynumber: 4.8 Consensus size: 25
15251698 TATATGTTGA
* * * *
15251708 TTATGCATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATATAAG
* *
15251733 TTATGGAGTATGTAAGTTATATAAG
1 TTATGTATTATGTAAGTTATATAAG
* * *
15251758 TTATGTAAGTTATATAAGCTATGTAAG
1 TTATGT-A-TTATGTAAGTTATATAAG
* *
15251785 TTAT-TATGTAAGTAATGTATTAAATAAG
1 TTATGTAT-TATGTAA-G--TTATATAAG
*
15251813 TTATGTATTTATTTAAGTTAT
1 TTATGTA-TTATGTAAGTTAT
15251834 GTATTATGTA
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
24 1 0.01
25 31 0.41
26 6 0.08
27 18 0.24
28 11 0.15
29 7 0.09
30 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATATAAG
Found at i:15253850 original size:173 final size:172
Alignment explanation
Indices: 15253561--15254076 Score: 758
Period size: 173 Copynumber: 3.0 Consensus size: 172
15253551 CGATTGTTAC
* * *
15253561 GGCAGAGGAGACCGATGGAGGGAGACGGTGATGCGCCAGAGGAAACAGCAACGTTGCAAGAGGTC
1 GGCAGAGGAGACCGACGGAGGGAGACGGTGATGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTC
* *
15253626 GGGTTTGGGGAAATGTGGATTAGGGGAAATTTCTCAATATTTTAGGGAGAAATAGATTTTGGGGA
66 -GGTTTGGGGAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATAGATTTTGGGGA
15253691 TAAGTCACAATAGTTGGGGTTTAAGTTTCGGTTAAATGTATGG
130 TAAGTCACAATAGTTGGGGTTTAAGTTTCGGTTAAATGTATGG
15253734 GGCAGAGGAGACCGACGGAGGGAGACGGTGATGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTC
1 GGCAGAGGAGACCGACGGAGGGAGACGGTGATGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTC
** * *
15253799 AGGTTCAGAGAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATGGATTTTGGGGA
66 -GGTTTGGGGAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATAGATTTTGGGGA
* **
15253864 AAAGTCACAATAGTTGGGGTTTAAGTTTCAATTAAATGTATGG
130 TAAGTCACAATAGTTGGGGTTTAAGTTTCGGTTAAATGTATGG
15253907 GGCAGAGGAGACCGACGGAGGGAGACGGTGATGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTC
1 GGCAGAGGAGACCGACGGAGGGAGACGGTGATGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTC
* ** **
15253972 GGCTTTGGGGAAATCTGGATTAGGGGAAA-TT-T-AGGGATTTGGGGGAG-AATGAGATTTTAGG
66 GG-TTTGGGGAAATATGGATTAGGGGAAATTTCTCA-ATATTTCAGGGAGAAAT-AGATTTT-GG
* *
15254033 GGATAAGTCACGATA---GGGGTTTAAGTTTCGGTAAAATGTATGG
127 GGATAAGTCACAATAGTTGGGGTTTAAGTTTCGGTTAAATGTATGG
15254076 G
1 G
15254077 AAAAAAACGA
Statistics
Matches: 312, Mismatches: 27, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
169 26 0.08
170 4 0.01
171 16 0.05
172 19 0.06
173 247 0.79
ACGTcount: A:0.30, C:0.11, G:0.36, T:0.23
Consensus pattern (172 bp):
GGCAGAGGAGACCGACGGAGGGAGACGGTGATGCGCCAAAGGAAACGGCAACGTTGCAAGAGGTC
GGTTTGGGGAAATATGGATTAGGGGAAATTTCTCAATATTTCAGGGAGAAATAGATTTTGGGGAT
AAGTCACAATAGTTGGGGTTTAAGTTTCGGTTAAATGTATGG
Found at i:15254672 original size:261 final size:261
Alignment explanation
Indices: 15254208--15254738 Score: 936
Period size: 261 Copynumber: 2.0 Consensus size: 261
15254198 AGAGTAAAAA
* * *
15254208 CGCCACTAATAACACGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGTGGCGCTT
1 CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
* * * * * *
15254273 TAGCTAAAGGGCCACTAATAAAAATAGGAAATGGTGTCGTTTCCTCAGCTCGTAATAAATATTTG
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTCCTCAGCTCGTAATAAATATTTC
15254338 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
15254403 GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCGTTTTTCAAAT
196 GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCGTTTTTCAAAT
15254468 G
261 G
15254469 CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
1 CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
*
15254534 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTTCTCAGCTCGTAATAAATATTTC
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTCCTCAGCTCGTAATAAATATTTC
*
15254599 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
* * *
15254664 GGAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCGTTTTTCAAAT
196 GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCGTTTTTCAAAT
15254729 G
261 G
15254730 CGCCACTAA
1 CGCCACTAA
15254739 AAGAAAACAA
Statistics
Matches: 256, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
261 256 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (261 bp):
CGCCACTAATAACACGGACAAAACGGCACCGCTATAAGATAACATTAAACATTTTTGCGGCGCTT
TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCATTTCCTCAGCTCGTAATAAATATTTC
TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAA
GGAAATTTGTGGCGTTTCTTCGTAAAACACCAGTAATATATCACCTTTAGCGGCGTTTTTCAAAT
G
Found at i:15254839 original size:117 final size:115
Alignment explanation
Indices: 15254600--15254839 Score: 399
Period size: 115 Copynumber: 2.1 Consensus size: 115
15254590 AAATATTTCT
15254600 GGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAG
1 GGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAG
** * ** *
15254665 GAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGC
66 GAAATTTGCAGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
*
15254715 GGCGTTTTTCAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAA
1 GGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTT--AA
15254780 AGGAAATTTGCAGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
64 AGGAAATTTGCAGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
15254832 GGCGTTTT
1 GGCGTTTT
15254840 CTCTGAAGCG
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
115 60 0.52
117 56 0.48
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (115 bp):
GGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAG
GAAATTTGCAGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
Found at i:15255527 original size:20 final size:21
Alignment explanation
Indices: 15255489--15255538 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
15255479 TCTTCAATTT
15255489 CCAAACT-AAACCCTAAAACC
1 CCAAACTCAAACCCTAAAACC
* *
15255509 CTAAACTCAAA-CCTTAAACC
1 CCAAACTCAAACCCTAAAACC
15255529 CCAAACTCAA
1 CCAAACTCAA
15255539 TCTCTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (21 bp):
CCAAACTCAAACCCTAAAACC
Found at i:15256466 original size:72 final size:72
Alignment explanation
Indices: 15256348--15256497 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 72
15256338 AAAGCTGAGA
* * * *
15256348 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTCCCCAAAAACGCCACTAAAT-CCCAAA
1 AAACGGCACCGTTTGGCTTAGGATTATTAGCGGCGCTTCACCAAAAACGCCACTAAATCCCCAAA
15256412 AACTACGG
66 AACT-CGG
* * * ** ***
15256420 AAACGGCACCGTTTGGCTTCGGATTATTAGTGGCGCTTGATTAAAAACGTTGCTAAATCCCCAAA
1 AAACGGCACCGTTTGGCTTAGGATTATTAGCGGCGCTTCACCAAAAACGCCACTAAATCCCCAAA
*
15256485 AGCTCGG
66 AACTCGG
15256492 AAACGG
1 AAACGG
15256498 TGTCGTTGGG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 55 0.86
73 9 0.14
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (72 bp):
AAACGGCACCGTTTGGCTTAGGATTATTAGCGGCGCTTCACCAAAAACGCCACTAAATCCCCAAA
AACTCGG
Found at i:15259701 original size:24 final size:25
Alignment explanation
Indices: 15259665--15259723 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
15259655 TCTATGGCGC
*
15259665 CCCAAACCCGGTCG-GGCGGTCCGA
1 CCCAAACCCGGTCGTGGCAGTCCGA
* *
15259689 CCCAAACCTGGTCGTGGTAGTCCGA
1 CCCAAACCCGGTCGTGGCAGTCCGA
15259714 CCCAAACCCG
1 CCCAAACCCG
15259724 AAATGACATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.20, C:0.41, G:0.27, T:0.12
Consensus pattern (25 bp):
CCCAAACCCGGTCGTGGCAGTCCGA
Found at i:15259977 original size:18 final size:18
Alignment explanation
Indices: 15259954--15259988 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15259944 GTAATTGAAC
15259954 ATATATGAAA-ATGTGTAT
1 ATATAT-AAATATGTGTAT
15259972 ATATATAAATATGTGTA
1 ATATATAAATATGTGTA
15259989 ATTGAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (18 bp):
ATATATAAATATGTGTAT
Found at i:15262694 original size:22 final size:22
Alignment explanation
Indices: 15262654--15262695 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15262644 ATTTGTTTCA
*
15262654 TTTTTTCGAAAACTGTTTTAAT
1 TTTTTTCGAAAACTATTTTAAT
* *
15262676 TTTTTTCGAATATTATTTTA
1 TTTTTTCGAAAACTATTTTA
15262696 GTAAAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTTTTCGAAAACTATTTTAAT
Found at i:15267382 original size:10 final size:10
Alignment explanation
Indices: 15267360--15267392 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
15267350 CTAGTTCAAG
15267360 TTTTTATGA-
1 TTTTTATGAT
15267369 TTTTTATGAT
1 TTTTTATGAT
*
15267379 TTTTTATAAT
1 TTTTTATGAT
15267389 TTTT
1 TTTT
15267393 ATAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (10 bp):
TTTTTATGAT
Found at i:15267384 original size:19 final size:19
Alignment explanation
Indices: 15267360--15267431 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
15267350 CTAGTTCAAG
* *
15267360 TTTTTATGATTTTTATGAT
1 TTTTTATAATTTTTATAAT
15267379 TTTTTATAATTTTTATAAT
1 TTTTTATAATTTTTATAAT
* *
15267398 TTTATATCAATTTTAAT-AT
1 TTTTTAT-AATTTTTATAAT
* *
15267417 TTTTAATACTTTTTA
1 TTTTTATAATTTTTA
15267432 AAGAATTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 6 0.14
19 30 0.68
20 8 0.18
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:15267401 original size:8 final size:9
Alignment explanation
Indices: 15267360--15267633 Score: 82
Period size: 9 Copynumber: 29.4 Consensus size: 9
15267350 CTAGTTCAAG
*
15267360 TTTTTATGA
1 TTTTTATAA
*
15267369 TTTTTATGAT
1 TTTTTAT-AA
15267379 TTTTTATAA
1 TTTTTATAA
15267388 TTTTTATAA
1 TTTTTATAA
15267397 TTTTATATCAA
1 TTTT-TAT-AA
*
15267408 TTTTAAT-A
1 TTTTTATAA
*
15267416 TTTTTAATAC
1 TTTTT-ATAA
*
15267426 TTTTTAAAGA
1 TTTTTATA-A
* * *
15267436 ATTCTAAAA
1 TTTTTATAA
15267445 CCTTTTT-TAA
1 --TTTTTATAA
*
15267455 -CTTTA-AA
1 TTTTTATAA
15267462 TATTTTCAATAA
1 T-TTTT--ATAA
*
15267474 GTTTTATTAA
1 TTTTTA-TAA
* *
15267484 TTTATAAAAA
1 TTT-TTATAA
***
15267494 AAATTATAA
1 TTTTTATAA
*
15267503 TTTATTA-GA
1 TTT-TTATAA
*
15267512 TTTCTAT-A
1 TTTTTATAA
15267520 TTTTTATAA
1 TTTTTATAA
*
15267529 TATTTATAA
1 TTTTTATAA
15267538 GTTTTTAT-A
1 -TTTTTATAA
15267547 TTTTTATAA
1 TTTTTATAA
*
15267556 TTTTAATAA
1 TTTTTATAA
*
15267565 GTTTATATTAA
1 -TTTTTA-TAA
*
15267576 TTTTAAT-A
1 TTTTTATAA
* *
15267584 TTTTAAT-T
1 TTTTTATAA
15267592 TTTTTATAA
1 TTTTTATAA
* *
15267601 CTTTTTTTTAT
1 --TTTTTATAA
15267612 TTTTTAATAA
1 TTTTT-ATAA
15267622 TTTTTAT-A
1 TTTTTATAA
15267630 TTTT
1 TTTT
15267634 AGTTAACGTC
Statistics
Matches: 194, Mismatches: 44, Indels: 55
0.66 0.15 0.19
Matches are distributed among these distances:
7 5 0.03
8 40 0.21
9 65 0.34
10 56 0.29
11 26 0.13
12 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15267420 original size:20 final size:19
Alignment explanation
Indices: 15267377--15267421 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
15267367 GATTTTTATG
*
15267377 ATTTTT-TATAATTTTTAT
1 ATTTTTATATAATTTTAAT
*
15267395 AATTTTATATCAATTTTAAT
1 ATTTTTATAT-AATTTTAAT
15267415 ATTTTTA
1 ATTTTTA
15267422 ATACTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 5 0.23
19 3 0.14
20 14 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTATATAATTTTAAT
Found at i:15267549 original size:27 final size:27
Alignment explanation
Indices: 15267502--15267568 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
15267492 AAAAATTATA
*
15267502 ATTTATTAGATTTCTATATTTTTATAAT
1 ATTTATAAG-TTTCTATATTTTTATAAT
*
15267530 ATTTATAAGTTTTTATATTTTTATAAT
1 ATTTATAAGTTTCTATATTTTTATAAT
15267557 -TTTAATAAGTTT
1 ATTT-ATAAGTTT
15267569 ATATTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.08
27 25 0.69
28 8 0.22
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
ATTTATAAGTTTCTATATTTTTATAAT
Found at i:15267571 original size:35 final size:35
Alignment explanation
Indices: 15267497--15267564 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
15267487 ATAAAAAAAA
*
15267497 TTATAATTTATTAGATTTCTATATTTTTATAATAT
1 TTATAATTTATTAGATTTCTATATTTTAATAATAT
* *
15267532 TTATAAGTTT-TTATATTTTTATAATTTTAATAA
1 TTATAA-TTTATTAGATTTCTAT-ATTTTAATAA
15267565 GTTTATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 16 0.57
36 12 0.43
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (35 bp):
TTATAATTTATTAGATTTCTATATTTTAATAATAT
Found at i:15267606 original size:19 final size:19
Alignment explanation
Indices: 15267579--15267626 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
15267569 ATATTAATTT
* *
15267579 TAATATTTTAATTTTTTTA
1 TAATTTTTTAATTTTTTAA
*
15267598 TAACTTTTTTTTATTTTTTAA
1 TAA--TTTTTTAATTTTTTAA
15267619 TAATTTTT
1 TAATTTTT
15267627 ATATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TAATTTTTTAATTTTTTAA
Found at i:15267608 original size:21 final size:20
Alignment explanation
Indices: 15267584--15267626 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
15267574 AATTTTAATA
*
15267584 TTTTAATTTTTTTATAACTTT
1 TTTTAATTTTTTAATAA-TTT
*
15267605 TTTTTATTTTTTAATAATTT
1 TTTTAATTTTTTAATAATTT
15267625 TT
1 TT
15267627 ATATTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTAATTTTTTAATAATTT
Found at i:15267633 original size:27 final size:27
Alignment explanation
Indices: 15267511--15267633 Score: 94
Period size: 27 Copynumber: 4.5 Consensus size: 27
15267501 AATTTATTAG
*
15267511 ATTTCTATATTTTTATA-ATATTT-ATA
1 ATTTTTATATTTTTATATAT-TTTAATA
15267537 AGTTTTTATATTTTTATA-ATTTTAATA
1 A-TTTTTATATTTTTATATATTTTAATA
* *
15267564 AGTTTATATTAATTTTA-ATATTTTAAT-
1 A-TTTTTA-TATTTTTATATATTTTAATA
* * *
15267591 TTTTTTATAACTTTTTTTTATTTTTTAATA
1 ATTTTTAT-A--TTTTTATATATTTTAATA
15267621 ATTTTTATATTTT
1 ATTTTTATATTTT
15267634 AGTTAACGTC
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
25 1 0.01
26 10 0.13
27 32 0.41
28 19 0.24
29 10 0.13
30 7 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTTATATTTTTATATATTTTAATA
Found at i:15268740 original size:38 final size:38
Alignment explanation
Indices: 15268691--15268769 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
15268681 TAGGCAGAAA
15268691 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
1 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
15268729 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
1 ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
15268767 ATA
1 ATA
15268770 AATAACAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (38 bp):
ATATATATAATTGAAAGTAAATCTAAAGCAAATCGGAT
Found at i:15275314 original size:74 final size:74
Alignment explanation
Indices: 15275193--15275339 Score: 294
Period size: 74 Copynumber: 2.0 Consensus size: 74
15275183 CCATAACTTA
15275193 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
1 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
15275258 ATTCTTAGT
66 ATTCTTAGT
15275267 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
1 CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
15275332 ATTCTTAG
66 ATTCTTAG
15275340 GAGTTTTAGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (74 bp):
CAAATGCATAAATAAGAAAATTAAGACACACCATAAAATATTTTAAGGCTTACAAGAGAGTATAA
ATTCTTAGT
Found at i:15278007 original size:11 final size:11
Alignment explanation
Indices: 15277975--15278008 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15277965 GTCATAGTGA
15277975 TGGTCCTACGG
1 TGGTCCTACGG
* *
15277986 TGGTACGACGG
1 TGGTCCTACGG
15277997 TGGTCCTACGG
1 TGGTCCTACGG
15278008 T
1 T
15278009 TGTTTGGCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (11 bp):
TGGTCCTACGG
Found at i:15280181 original size:40 final size:40
Alignment explanation
Indices: 15280137--15280227 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
15280127 AATGGAAAAA
15280137 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
1 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
15280177 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
1 GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
* *
15280217 GAAGTCAATGG
1 GGAGTAAATGG
15280228 TGAAGTTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.37, C:0.05, G:0.35, T:0.22
Consensus pattern (40 bp):
GGAGTAAATGGAAGAGCCAAGATGGTATTGAATGAGGATT
Found at i:15285518 original size:30 final size:30
Alignment explanation
Indices: 15285482--15285542 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15285472 ATTGAGGCAA
**
15285482 AAGAAAATCAAGATTCAAAATCTTGGTTTC
1 AAGAAAATCAAGAAACAAAATCTTGGTTTC
* *
15285512 AAGAAAATTACGAAACAAAATCTTGGTTTC
1 AAGAAAATCAAGAAACAAAATCTTGGTTTC
15285542 A
1 A
15285543 TACAAACTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (30 bp):
AAGAAAATCAAGAAACAAAATCTTGGTTTC
Found at i:15295875 original size:27 final size:26
Alignment explanation
Indices: 15295789--15295885 Score: 126
Period size: 25 Copynumber: 3.8 Consensus size: 26
15295779 TCCTGTACAT
*
15295789 GTATGCTCACACGAGCTGTG-AATTG
1 GTATGCTCACACGAGCTGTGAAAATG
*
15295814 GTATGCTCACACGAGCTGT-AAACTG
1 GTATGCTCACACGAGCTGTGAAAATG
*
15295839 GTATGCTCACATGAGCTGTGAAAATGG
1 GTATGCTCACACGAGCTGTGAAAAT-G
* *
15295866 GTCTGCTCACACGAGTTGTG
1 GTATGCTCACACGAGCTGTG
15295886 GGTCAGAACA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
25 41 0.65
26 4 0.06
27 18 0.29
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (26 bp):
GTATGCTCACACGAGCTGTGAAAATG
Found at i:15297471 original size:54 final size:54
Alignment explanation
Indices: 15297330--15297445 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
15297320 TCAAGTTAGT
* * * * *
15297330 GAGTTACATGACCTAGTACATGGCTTGGCACACGGGCGTGTGTGGCAACTCAAA
1 GAGTTACACGACCTAGCACACGGCTTGGAACACGGGCGTGTGGGGCAACTCAAA
* * **
15297384 GAGTTACACGACCTAGCACACGGCCTGGAACACGGGCGTGTGGGGCTACTCAGT
1 GAGTTACACGACCTAGCACACGGCTTGGAACACGGGCGTGTGGGGCAACTCAAA
15297438 GAGTTACA
1 GAGTTACA
15297446 TGGGTGAGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (54 bp):
GAGTTACACGACCTAGCACACGGCTTGGAACACGGGCGTGTGGGGCAACTCAAA
Found at i:15299665 original size:22 final size:23
Alignment explanation
Indices: 15299625--15299667 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
15299615 TCGATTTCTT
15299625 TTCCTATCTTTTTGCGAAAAAAA
1 TTCCTATCTTTTTGCGAAAAAAA
15299648 TTCCTAT-TTTTCTG-GAAAAA
1 TTCCTATCTTTT-TGCGAAAAA
15299668 TACCATGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (23 bp):
TTCCTATCTTTTTGCGAAAAAAA
Found at i:15312633 original size:39 final size:40
Alignment explanation
Indices: 15312429--15312651 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
15312419 TTGAATGCTG
* * * * * *
15312429 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
15312469 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
15312509 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
15312549 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15312589 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
15312628 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15312652 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:15312671 original size:79 final size:80
Alignment explanation
Indices: 15312504--15312686 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
15312494 GTGCGAGATA
* * *
15312504 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
15312569 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
15312584 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
15312648 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
15312663 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
15312687 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:15320508 original size:39 final size:40
Alignment explanation
Indices: 15320304--15320526 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
15320294 TTGAATGCTG
* * * * * *
15320304 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
15320344 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
15320384 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
15320424 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15320464 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
15320503 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15320527 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:15320546 original size:79 final size:80
Alignment explanation
Indices: 15320379--15320561 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
15320369 GTGCGAGATA
* * *
15320379 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
15320444 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
15320459 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
15320523 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
15320538 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
15320562 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:15327084 original size:41 final size:40
Alignment explanation
Indices: 15327026--15327130 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 40
15327016 ACCGGCATGT
* * *
15327026 AGCCTGCTAGGCTTAAAGCCTGATTCAGAACACCGACATTA
1 AGCCTGCTAGACGTAAAGTCTGATT-AGAACACCGACATTA
* *** * *
15327067 GGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGCATTA
1 AGCCTGCTAGACGTAAAGTCTG-ATTAGAACACCGACATTA
15327108 AGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
15327131 ATTATTTTAG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 49 0.92
42 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCCTGCTAGACGTAAAGTCTGATTAGAACACCGACATTA
Found at i:15327131 original size:41 final size:41
Alignment explanation
Indices: 15327062--15327153 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
15327052 AGAACACCGA
*
15327062 CATTAGGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
1 CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
* *
15327103 CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTTAGTGG
1 CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
15327144 CATTAAGCCT
1 CATTAAGCCT
15327154 ACTAAGCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (41 bp):
CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
Found at i:15327353 original size:61 final size:61
Alignment explanation
Indices: 15327270--15327400 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
15327260 ACATGAATAA
* * * * *
15327270 ATATATATAATTCATAACATTAAGTTTAGCTCAAAGAACTTGTATA-TTACATTCGAACCTC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTA-ACCTACATTCGAACCAC
* * * * *
15327331 ATATGTATAGTTCAAAACATTAAATTCAGCTCAATGAATTTGTAACCTATATTCGAACCAC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
15327392 ATATATATA
1 ATATATATA
15327401 TAAAAATGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (61 bp):
ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
Found at i:15327478 original size:65 final size:65
Alignment explanation
Indices: 15327352--15327494 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 65
15327342 TCAAAACATT
* *
15327352 AAATTCAGCTCAATGAATTTGTAACCTATATTCGAACCACATATATATATAAAAATGTATATATC
1 AAATTCAGCTCAATGAATTTGCAACCTATATTCGAACCACATACATATATAAAAATGTATATATC
* * * * * *
15327417 AAATTCAGCTCAA-GAGATTTTGCAATCTATGTTTGAACCACATACGTATA-AGAAATTTATATA
1 AAATTCAGCTCAATGA-A-TTTGCAACCTATATTCGAACCACATACATATATAAAAATGTATATA
*
15327480 TT
64 TC
*
15327482 AAATTCAACTCAA
1 AAATTCAGCTCAA
15327495 AAACTTGAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 2 0.03
65 38 0.58
66 26 0.39
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (65 bp):
AAATTCAGCTCAATGAATTTGCAACCTATATTCGAACCACATACATATATAAAAATGTATATATC
Found at i:15335068 original size:41 final size:41
Alignment explanation
Indices: 15335007--15335142 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
15334997 ATTCACGGAC
* * *
15335007 ATTAAGCGTGCTAGATGTAAAGTCTGAAATATTTCACCGGT
1 ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACTGGT
* * *
15335048 ATTAAGCCTGTTAGACGTAAAGTCTGAATTATTTCATTGGT
1 ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACTGGT
* * * * *
15335089 CTTTAGCCTGCTAGACGGAAAGTCT-AAATTATTTCAGTGGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAAA-TATTTCACTGGT
15335130 ATTAAGCCTGCTA
1 ATTAAGCCTGCTA
15335143 AGCACAGAGC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 2 0.03
41 77 0.97
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (41 bp):
ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACTGGT
Found at i:15340913 original size:33 final size:33
Alignment explanation
Indices: 15340876--15340950 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
15340866 CTGTTGGGAC
* * * *
15340876 AGTAAATACCAAACAAAGTAAGTCCGCTAAGGT
1 AGTAAACACAAAACAAAGTAAATCCGCTAAGAT
* * *
15340909 AGTAAACACAAAATAGAGTAAATCCTCTAAGAT
1 AGTAAACACAAAACAAAGTAAATCCGCTAAGAT
15340942 AGTAAACAC
1 AGTAAACAC
15340951 GTGTAATGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (33 bp):
AGTAAACACAAAACAAAGTAAATCCGCTAAGAT
Found at i:15343579 original size:50 final size:50
Alignment explanation
Indices: 15343457--15343691 Score: 344
Period size: 50 Copynumber: 4.7 Consensus size: 50
15343447 TATCGATGAA
* * * *** *
15343457 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* * *
15343508 CACATGTGTAGTACTAAGTGAAGGCTGCTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
15343558 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
15343608 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
15343658 CACGTGCGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
15343692 TATCGAATGA
Statistics
Matches: 167, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 134 0.80
51 33 0.20
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:15344866 original size:18 final size:18
Alignment explanation
Indices: 15344845--15344880 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15344835 TGAACGTATA
*
15344845 ATTGAATTTGGTTGAAAT
1 ATTGAAGTTGGTTGAAAT
*
15344863 ATTGAAGTTGTTTGAAAT
1 ATTGAAGTTGGTTGAAAT
15344881 TATGTTCCGA
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (18 bp):
ATTGAAGTTGGTTGAAAT
Found at i:15350724 original size:11 final size:13
Alignment explanation
Indices: 15350708--15350740 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15350698 AATTTCACAA
15350708 AAAATTTCG-T-G
1 AAAATTTCGTTCG
15350719 AAAATTTCGTTCG
1 AAAATTTCGTTCG
15350732 AAAATTTCG
1 AAAATTTCG
15350741 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:15355381 original size:19 final size:20
Alignment explanation
Indices: 15355339--15355381 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15355329 TCATGCTTTC
*
15355339 TATTCAAATTTTCATATTCA
1 TATTCAAATTTTCAAATTCA
*
15355359 -ATTCACATTTTCAAATT-A
1 TATTCAAATTTTCAAATTCA
15355377 TATTC
1 TATTC
15355382 CACTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCAAATTTTCAAATTCA
Found at i:15355527 original size:45 final size:45
Alignment explanation
Indices: 15355459--15355552 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
15355449 AACAGATACT
* * * *
15355459 CGGTGGATTCAGCACATATCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
* *
15355504 CGGTGGAATCAGTACATAGCAACCACCATACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
15355549 CGGT
1 CGGT
15355553 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
Found at i:15355583 original size:26 final size:26
Alignment explanation
Indices: 15355554--15355634 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
15355544 ATGTTCGGTT
*
15355554 CACATAGTAGCCTGCACATGGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* * *
15355580 CACAT-GTGGCCAT-TACCATCCG-A-TA
1 CACATAGTAGCC-TGCA-CAT-AGTACTA
*
15355605 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
15355631 CACA
1 CACA
15355635 CGTGATCGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:15355634 original size:51 final size:50
Alignment explanation
Indices: 15355558--15355744 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
15355548 TCGGTTCACA
* *
15355558 TAGTAGCCTGCACATGGTACTACACATGTGGCCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACG
* * * * * ** *
15355609 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGTTATGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGATACACG
* * *
15355660 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACG
**
15355710 TAGTAGCCTGCACATAGTACTACACACATGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
15355745 CACTTTCACT
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 68 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACG
Found at i:15355763 original size:101 final size:101
Alignment explanation
Indices: 15355555--15355774 Score: 275
Period size: 101 Copynumber: 2.2 Consensus size: 101
15355545 TGTTCGGTTC
* * *
15355555 ACATAGTAGCCTGCACATGGTACTACACATGTGGCCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGC
* *
15355620 ACATAGTACTACACACGTGATCGAAACTATCCGTTAT
65 ACATAGTACTACACACATGATCCAAACTATCCGTTAT
* * *
15355657 GCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGC
* *
15355721 ACATAGTACTACACACATGA-CCATCACTTTCAC-TTAT
65 ACATAGTACTACACACATGATCCA-AACTATC-CGTTAT
* *
15355758 ACATAGTGGCCTACACA
1 ACATAGTAGCCTGCACA
15355775 CAATCTGTGC
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
100 6 0.06
101 63 0.62
102 33 0.32
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACATGATCCAAACTATCCGTTAT
Found at i:15359325 original size:50 final size:50
Alignment explanation
Indices: 15359161--15359342 Score: 231
Period size: 51 Copynumber: 3.6 Consensus size: 50
15359151 GATGAACACG
* ** ***
15359161 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGTCACA
* * * *
15359212 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGTCACA
*
15359263 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACA
15359313 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
15359343 TATCGAATGA
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 3 0.03
50 37 0.33
51 69 0.61
52 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACA
Found at i:15359344 original size:101 final size:102
Alignment explanation
Indices: 15359157--15359349 Score: 289
Period size: 101 Copynumber: 1.9 Consensus size: 102
15359147 TATCGATGAA
* ** ** *
15359157 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTAC
*
15359222 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTACGTGTACCGAAAAGCTTTGGT
*
15359259 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTAC
* *
15359323 TATGTGAAGGCTACTACGTGTATCGAA
66 TAAGTGAAGGCTACTACGTGTACCGAA
15359350 TGATAAAAGT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 45 0.56
102 36 0.44
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTACGTGTACCGAAAAGCTTTGGT
Found at i:15359371 original size:101 final size:102
Alignment explanation
Indices: 15359164--15359381 Score: 251
Period size: 101 Copynumber: 2.1 Consensus size: 102
15359154 GAACACGTGT
** ** *
15359164 GTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* * *** * * *
15359229 AGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGT
66 AGGCTACTACGTGTACCGAAAAGATAAAGTAACATGG
* * *
15359266 GTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATGTGTAGTACTATGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* *
15359330 AGGCTACTACGTGTATCG-AATGATAAAAGTAACATGG
66 AGGCTACTACGTGTACCGAAAAGAT-AAAGTAACATGG
15359367 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
15359382 AAACCCCAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
100 4 0.04
101 63 0.66
102 29 0.30
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (102 bp):
GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
AGGCTACTACGTGTACCGAAAAGATAAAGTAACATGG
Found at i:15361135 original size:26 final size:26
Alignment explanation
Indices: 15361106--15361165 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15361096 GAAAGGTTGT
*
15361106 TAAATGACCGTAATGCCCCTAGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
* ** *
15361132 TAAATGACTATTTTGCCCCTCGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
15361158 TAAATGAC
1 TAAATGAC
15361166 TGATTTGTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (26 bp):
TAAATGACCATAATGCCCCTAGAGGG
Found at i:15361166 original size:26 final size:27
Alignment explanation
Indices: 15361119--15361171 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
15361109 ATGACCGTAA
15361119 TGCCCCTAGAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
*
15361145 TGCCCCTCGAGGGTAAATGACTGATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
15361172 GTGCTATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:15363423 original size:78 final size:78
Alignment explanation
Indices: 15363198--15363477 Score: 275
Period size: 77 Copynumber: 3.6 Consensus size: 78
15363188 ATAAATTTTA
* * * *
15363198 TTTTGTTTCAAACATAAATTCAATTGAACAATCCTATTTC-AGAATTTTATTCCTGCCATTTAAT
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAAG-ATTTTATTCCTGCCATTTAAT
*
15363262 AGGATTTGTTTTA-
65 AGGATTTGTTTGAT
* * * *
15363275 TTTTGTTTCAAATAGAAAAAT-AATTGAACAATCATGTTTTAGGATTTTATTCCTGCCATTTAAC
1 TTTTGTTTCAAACAG-AAAATCAATTGAACAATCATGTTTCAAGATTTTATTCCTGCCATTTAAT
*
15363339 AAGATTTGTTTGAT
65 AGGATTTGTTTGAT
* * ** * ** *
15363353 TTTTGTTTTAAACAGAAAATCAATTTAACAATTTTGTTTCAAGATTTTATTCCTGTCGCTTCATA
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAAGATTTTATTCCTGCCATTTAATA
15363418 GGATTT-TTTCGATCT
66 GGATTTGTTT-GA--T
* * *
15363433 TTTTTTTTCAAACAG-AAATCAATTGAATAATTCA-GTTTCACGATT
1 TTTTGTTTCAAACAGAAAATCAATTGAACAA-TCATGTTTCAAGATT
15363478 CTTTCTTGTC
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
77 68 0.41
78 59 0.36
79 23 0.14
80 15 0.09
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (78 bp):
TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAAGATTTTATTCCTGCCATTTAATA
GGATTTGTTTGAT
Found at i:15371334 original size:20 final size:20
Alignment explanation
Indices: 15371305--15371355 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15371295 GTATCGATCT
*
15371305 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
*
15371325 GGTATTGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
*
15371345 GGTATCAATAT
1 GGTATCGATAT
15371356 TCGTACTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Done.