Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 4 of 38
Found at i:532140 original size:27 final size:27
Alignment explanation
Indices: 532108--532457 Score: 207
Period size: 27 Copynumber: 11.7 Consensus size: 27
532098 AGGAGAAAGA
*
532108 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
532135 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-----G
*
532167 ATGCCACAGAGTTGTGGACTTAAAAGGAACAAGG
1 -TGCCACGGAGTTGTGGACTTAAAA-G-----GG
* *
532201 TGCCACGGAGTTTTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
532228 TGCCACAGAGTTGTGGGCTTTAAAGGAACAAGGG
1 TGCCACGGAGTTGTGGAC-TT-----AA-AAGGG
*
532262 -GCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
532288 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-----GG
** *
532322 TGTTACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-----GG
* *
532356 TGCCACAGAGTTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
** *
532384 TGCCACGGAGTCATGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
532411 TGCCACGGAGTCGTGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
532438 TGCCACGAAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
532458 TGGGAAAAGA
Statistics
Matches: 272, Mismatches: 24, Indels: 54
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.02
27 114 0.42
28 20 0.07
29 5 0.02
32 3 0.01
33 68 0.25
34 56 0.21
39 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:532156 original size:60 final size:60
Alignment explanation
Indices: 532068--532193 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
532058 TGGGCTTTTA
* * * *
532068 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGAGAAAGATGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTATGGACTT
* *
532128 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTATGGACTT
532188 AAAAGG
1 AAAAGG
532194 AACAAGGTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTATGGACTT
Found at i:532189 original size:93 final size:87
Alignment explanation
Indices: 532108--532436 Score: 354
Period size: 93 Copynumber: 3.6 Consensus size: 87
532098 AGGAGAAAGA
*
532108 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCA
1 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCA
532173 CAGAGTTGTGGACTTAAAAGGAACAAGG
66 CAGAGTTGTGGACTTAAAA-G-----GG
* * * * * * *
532201 TGCCACGGAGTTTTGGACTTAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAGGAACAAGGGGCCA
1 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCA
532266 CAGAGTTGTGGACTTAAAAGGG
66 CAGAGTTGTGGACTTAAAAGGG
* * ** *
532288 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGTTACGGAGTTGTGGGCTTTGAAAA-GAAA
1 TGCCACGGAGTTATGGAC-TT-AAAAG-----GGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAA
*
532352 AAGGTGCCACAGAGTTGTGGGCTTTAAAAGGG
57 AAGGTGCCACAGAGTTGTGGAC-TTAAAAGGG
* * *
532384 TGCCACGGAGTCATGGACTTAAAAGGTTGCCACGGAGTCGTGGACTTAAAAGG
1 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
532437 TTGCCACGAA
Statistics
Matches: 199, Mismatches: 26, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
87 22 0.11
88 5 0.03
89 19 0.10
92 1 0.01
93 76 0.38
94 22 0.11
95 27 0.14
96 27 0.14
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.22
Consensus pattern (87 bp):
TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCA
CAGAGTTGTGGACTTAAAAGGG
Found at i:532225 original size:60 final size:60
Alignment explanation
Indices: 532133--532436 Score: 255
Period size: 60 Copynumber: 4.9 Consensus size: 60
532123 GACTTAAAAG
*
532133 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACA
1 GGTGCCACGGAGTTGTGGACTT------AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACA
532198 A
60 A
* * *
532199 GGTGCCACGGAGTTTTGGACTTAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAGGAACAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAA
* * * *
532259 GGGGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAACAA
** * *
532320 GGTGTTACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAA-G--
1 GGTGCCACGGAGTTGTGGAC-TT------AAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAGGAA
532382 ---
58 CAA
** * *
532382 GGTGCCACGGAGTCATGGACTT-AAAAGGTTGCCACGGAGTCGTGGACTTAAAAGG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGG
532437 TTGCCACGAA
Statistics
Matches: 201, Mismatches: 26, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
54 12 0.06
55 16 0.08
60 77 0.38
61 24 0.12
62 20 0.10
66 21 0.10
67 5 0.02
68 26 0.13
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (60 bp):
GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAA
Found at i:532334 original size:34 final size:34
Alignment explanation
Indices: 532281--532381 Score: 150
Period size: 34 Copynumber: 3.0 Consensus size: 34
532271 TTGTGGACTT
* *
532281 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG
** *
532315 AAAAAGGTGTTACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG
532349 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG
532382 GGTGCCACGG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 5 0.08
34 54 0.92
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.23
Consensus pattern (34 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG
Found at i:532501 original size:33 final size:33
Alignment explanation
Indices: 532438--533117 Score: 732
Period size: 33 Copynumber: 21.7 Consensus size: 33
532428 CTTAAAAGGT
*
532438 TGCCAC-GAAGTCGTGGACTTTG--G-GAAAAGA
1 TGCCACTG-AGTCGTGGACTTTGAAGAAAAAAGA
* * *
532468 TGCTACTGAGTCATGGATTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
532501 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
532532 TGCCATTGAGTCGTGGACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
532562 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
532595 TGCCATTGAGTCGTGGACTTGGAAG-AAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
532627 TGCCACTAAGTTGTGGAC-TT--AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
532657 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
532690 TGCCACTAAGTCGTGGACTTTGAAGACAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * * *
532723 TGCCACTAAGTCATGGACTTGGAAG-AAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
532755 TGCCACTAAGTCATGGAC-TT--AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
532785 TGCCATTGAGTCGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
532816 TGCCACTAAGTCGTGGACTTTG--G-GAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
532846 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
532879 TGCCAC-AAGTCGTAGAC-TT--AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
532908 TGCCATTAAGTTGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
532939 TGCCACTGAGTCGTGGACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
532969 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
533002 TGCCACTGAGTCGTGGACTTGGAAG-AAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
533034 TGCCACTAAGTCGTGGAC-TT--AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
533064 TGCCACTGAATTGTGAACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
533095 TGCCACTGAGTCGTAGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
533118 GAAGAGAGAT
Statistics
Matches: 549, Mismatches: 69, Indels: 63
0.81 0.10 0.09
Matches are distributed among these distances:
29 23 0.04
30 165 0.30
31 114 0.21
32 79 0.14
33 168 0.31
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (33 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
Found at i:532666 original size:156 final size:156
Alignment explanation
Indices: 532438--533124 Score: 799
Period size: 156 Copynumber: 4.4 Consensus size: 156
532428 CTTAAAAGGT
* * * * * *
532438 TGCCACGAAGTCGTGGACTTTG-GGAAAAGATGCTACTGAGTCATGGATTTTGAAGAAAAAAGAT
1 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT---GAAAAGAGAT
* *
532502 GCCACTGAGTCGTGGACTTTGAAG-AAAAGATGCCATTGAGTCGTGGACTTTG-G-A-AAGAGAT
63 GCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAACAAAAGAT
*
532563 GCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
128 GCCACTAAGTCGTGGAC-TT--AGAAAAAAGA
* * * * * *
532595 TGCCATTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTTGTGGACTTAGAAAAGAGATGC
1 TGCCACTAAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTGAAAAGAGATGC
*
532660 CACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTTGA-AGACAAAAGAT
65 CACTGAGTCGTGGACTTTGAAG-AAAAAGATGCCACTGAGTCGTGGACTTTGAGA-ACAAAAGAT
* *
532724 GCCACTAAGTCATGGACTTGGAAGAAAAGGA
128 GCCACTAAGTCGTGGACTTAGAA-AAAA-GA
* * * * *
532755 TGCCACTAAGTCATGGACTTAGAA-AAGAGATGCCATTGAGTCGTGGACTTTGAAGAAAAGATGC
1 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAA-AAGAGATGC
* * *
532819 CACTAAGTCGTGGACTTTG--GGAAAAGATGCCACTGAGTCATGGACTTTGAAGAA-AAAAGATG
65 CACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTTG-AGAACAAAAGATG
* *
532881 CCAC-AAGTCGTAGACTTAGAAAAGAGA
129 CCACTAAGTCGTGGACTTAGAAAAAAGA
* * *
532908 TGCCATTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCC
1 TGCCACTAAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGATGCC
*
532973 ACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAC-TTG-GAAGAAAAGGATG
66 ACTGAGTCGTGGACTTTGAAG-AAAAAGATGCCACTGAGTCGTGGACTTTGAGAACAAAA-GATG
*
533036 CCACTAAGTCGTGGACTTAGAAAAGAGA
129 CCACTAAGTCGTGGACTTAGAAAAAAGA
* * * *
533064 TGCCACTGAA-TTGTGAACTTTGAAGAAAAGATGCCACTGAGTCGTAGACTTTGAGAAGAGA
1 TGCCACT-AAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGA
533125 GATTTGAAGA
Statistics
Matches: 456, Mismatches: 53, Indels: 43
0.83 0.10 0.08
Matches are distributed among these distances:
153 51 0.11
154 34 0.07
155 26 0.06
156 169 0.37
157 23 0.05
158 57 0.12
159 50 0.11
160 25 0.05
161 21 0.05
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (156 bp):
TGCCACTAAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGATGCC
ACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAACAAAAGATGCC
ACTAAGTCGTGGACTTAGAAAAAAGA
Found at i:533122 original size:33 final size:31
Alignment explanation
Indices: 532438--533116 Score: 690
Period size: 30 Copynumber: 21.7 Consensus size: 31
532428 CTTAAAAGGT
*
532438 TGCCAC-GAAGTCGTGGACTTTGG-GAAAAGA
1 TGCCACTG-AGTCGTGGACTTTGGAAAAAAGA
* * *
532468 TGCTACTGAGTCATGGATTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAAAAGA
532501 TGCCACTGAGTCGTGGACTTT-GAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAAGA
* *
532532 TGCCATTGAGTCGTGGACTTTGG-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
532562 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAAAAGA
*
532595 TGCCATTGAGTCGTGGAC-TTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAA-GA
* * * *
532627 TGCCACTAAGTTGTGGAC-TTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
532657 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAAAAGA
* *
532690 TGCCACTAAGTCGTGGACTTTGAAGACAAAAGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAAAAGA
* *
532723 TGCCACTAAGTCATGGAC-TTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAA-GA
* * * *
532755 TGCCACTAAGTCATGGAC-TTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
*
532785 TGCCATTGAGTCGTGGACTTT-GAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAAGA
* *
532816 TGCCACTAAGTCGTGGACTTTGG-GAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
*
532846 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAAAAGA
* * * *
532879 TGCCAC-AAGTCGTAGAC-TTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
* * *
532908 TGCCATTAAGTTGTGGACTTT-GAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAAGA
*
532939 TGCCACTGAGTCGTGGACTTTGG-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
532969 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAAAAGA
533002 TGCCACTGAGTCGTGGAC-TTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAA-GA
* * *
533034 TGCCACTAAGTCGTGGAC-TTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
* * *
533064 TGCCACTGAATTGTGAACTTT-GAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGAA-AAAAGA
*
533095 TGCCACTGAGTCGTAGACTTTG
1 TGCCACTGAGTCGTGGACTTTG
533117 AGAAGAGAGA
Statistics
Matches: 552, Mismatches: 63, Indels: 66
0.81 0.09 0.10
Matches are distributed among these distances:
29 13 0.02
30 176 0.32
31 129 0.23
32 95 0.17
33 139 0.25
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGGAAAAAAGA
Found at i:534442 original size:13 final size:13
Alignment explanation
Indices: 534424--534448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
534414 TACATCGAAT
534424 AATGTATCGATAC
1 AATGTATCGATAC
534437 AATGTATCGATA
1 AATGTATCGATA
534449 TATCGAATAA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:534454 original size:33 final size:33
Alignment explanation
Indices: 534372--534470 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
534362 AAATTCCCAG
** *
534372 ATGTATCGATACAAAG-ATCAATGCATCGATACA
1 ATGTATCGATACATCGAAT-AATGTATCGATACA
*
534405 ATGTATTGATACATCGAATAATGTATCGATACA
1 ATGTATCGATACATCGAATAATGTATCGATACA
* *
534438 ATGTATCGATATATCGAATAATGTATCAATACA
1 ATGTATCGATACATCGAATAATGTATCGATACA
534471 TTTCCTTGGC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 56 0.97
34 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACATCGAATAATGTATCGATACA
Found at i:540949 original size:27 final size:26
Alignment explanation
Indices: 540897--540953 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
540887 ACCATTTTCT
*
540897 TTTTAAGTCCATAATTTCGTGCCACCC
1 TTTTAAGTCCACAATTTCGTGCCA-CC
*
540924 TTTTAAGTCCACAACTTT-GTGGCACC
1 TTTTAAGTCCACAA-TTTCGTGCCACC
540950 TTTT
1 TTTT
540954 CCTTTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 18 0.67
28 3 0.11
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (26 bp):
TTTTAAGTCCACAATTTCGTGCCACC
Found at i:541030 original size:32 final size:32
Alignment explanation
Indices: 540988--541080 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
540978 CATTTTTTTC
*
540988 CTTTCAAAGCCCACACAAG-CTGGTGGCAACCT
1 CTTTTAAAGCCCACACAAGTC-GGTGGCAACCT
* * *
541020 CTTTTAAAGCCCGCATAAGTCGGTGGAAACCT
1 CTTTTAAAGCCCACACAAGTCGGTGGCAACCT
*
541052 -TCTGTAAAGCCCACACAAGTCGGTGGCAA
1 CT-TTTAAAGCCCACACAAGTCGGTGGCAA
541081 TCCTTCTAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.02
32 49 0.96
33 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (32 bp):
CTTTTAAAGCCCACACAAGTCGGTGGCAACCT
Found at i:541234 original size:52 final size:52
Alignment explanation
Indices: 541167--541729 Score: 281
Period size: 52 Copynumber: 10.3 Consensus size: 52
541157 TCACTAGCTG
* *
541167 TGAATCAGCATATTGGCACCTTTACCATTTTTAAGCCCAATGTCGCTGGCCT
1 TGAATCAGCACATTGGCACCTTTACCATTTTTAAGTCCAATGTCGCTGGCCT
* * *
541219 TAAATCAGCACATTGGCATTCTTCTCATCCTTATTATCTTTAAGTCCAATGTCGCTAGCCT
1 TGAATCAGCACATTGGCA-CCTT-T-A-CC--A-T-T-TTTAAGTCCAATGTCGCTGGCCT
* *
541280 TGAATCAGCACATTGGCATTCTTCTCATCCTTATTATCTTTAAGTCCAATGTTGCTGGCCT
1 TGAATCAGCACATTGGCA-CCTT-T-A-CC--A-T-T-TTTAAGTCCAATGTCGCTGGCCT
* * * ** ** * *
541341 TGAATTAGCACATTAGCACTTTTTTC-TTTCTTAAGTCCAAAATTGTTGGCCT
1 TGAATCAGCACATTGGCACCTTTACCATTT-TTAAGTCCAATGTCGCTGGCCT
* ** * *
541393 TGAATCAGCATATTGGCACCTTTGTCATTTTTAAATCCAATGTTGCTGGCCT
1 TGAATCAGCACATTGGCACCTTTACCATTTTTAAGTCCAATGTCGCTGGCCT
* * ** ** * * * *
541445 TAAATCAGCACAATAACACCTTTGTCATCTTTGAG-CCTAATATCACTGG-CT
1 TGAATCAGCACATTGGCACCTTTACCATTTTTAAGTCC-AATGTCGCTGGCCT
* ** * * * *
541496 GTGAATCAGCATATTATCACCTTTATCATTCCTCTTATCTTTAAGTCCAATGTCACTAGCTT
1 -TGAATCAGCACATTGGCACC-TT-T-A---C-C--ATTTTTAAGTCCAATGTCGCTGGCCT
* * * ** * *
541558 TGAATCAACATATTGGCACATTTTTC-TTTCTTAAGTCCAATATCGTTGGCCT
1 TGAATCAGCACATTGGCACCTTTACCATTT-TTAAGTCCAATGTCGCTGGCCT
* * ** * * * *
541610 TGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAGGTCACTGGCTT
1 TGAATCAGCACATTGGCACCTTTACCATTTTTAAGTCCAATGTCGCTGGCCT
** * **
541662 TGAATCAATACATTGGCATCTTT-CTCATCCTTAAGTCCAATGTCGCTGGCCT
1 TGAATCAGCACATTGGCACCTTTAC-CATTTTTAAGTCCAATGTCGCTGGCCT
541714 TGAATCAGCACATTGG
1 TGAATCAGCACATTGG
541730 TACATTCTTC
Statistics
Matches: 403, Mismatches: 81, Indels: 54
0.75 0.15 0.10
Matches are distributed among these distances:
51 7 0.02
52 237 0.59
53 11 0.03
54 3 0.01
55 1 0.00
56 2 0.00
57 1 0.00
58 1 0.00
59 4 0.01
60 5 0.01
61 128 0.32
62 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (52 bp):
TGAATCAGCACATTGGCACCTTTACCATTTTTAAGTCCAATGTCGCTGGCCT
Found at i:541291 original size:61 final size:61
Alignment explanation
Indices: 541196--541354 Score: 273
Period size: 61 Copynumber: 2.6 Consensus size: 61
541186 CTTTACCATT
* *
541196 TTTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCATTCTTCTCATCCTTATTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCCTTATTATC
*
541257 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCCTTATTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCCTTATTATC
* *
541318 TTTAAGTCCAATGTTGCTGGCCTTGAATTAGCACATT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
541355 AGCACTTTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 92 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (61 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCCTTATTATC
Found at i:541720 original size:217 final size:217
Alignment explanation
Indices: 541258--541727 Score: 543
Period size: 217 Copynumber: 2.2 Consensus size: 217
541248 CTTATTATCT
* * * *
541258 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCCTTATTATCTTTAA
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACTCTTATCATCCTTATTATCTTTAA
** * * * * *
541323 GTCCAATGTTGCTGGCCTTGAATTAGCACATTAGCACTTTTTTCTTTCTTAAGTCCAAAATTGTT
66 GTCCAATGTCACTAGCCTTGAATCAACACATTAGCACATTTTTCTTTCTTAAGTCCAAAATCGTT
* * ** *
541388 GGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAATCCAATGTTGCTGGCCTTAAATCAG
131 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAATCCAAGGTCACTGGCCTTAAATCAA
* *
541453 CACAATAACACCTTTGTCATCT
196 CACAATAACACCTTTCTCATCC
* * * * * *
541475 TTGAG-CCTAATATCACTGG-CTGTGAATCAGCATATTATCAC-CTTTATCATTCC-TCTTATCT
1 TTAAGTCC-AATGTCGCTGGCCT-TGAATCAGCACATTAGCACTC-TTATCA-TCCTTATTATCT
* * * *
541536 TTAAGTCCAATGTCACTAGCTTTGAATCAACATATTGGCACATTTTTCTTTCTTAAGTCCAATAT
62 TTAAGTCCAATGTCACTAGCCTTGAATCAACACATTAGCACATTTTTCTTTCTTAAGTCCAAAAT
* * * *
541601 CGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAGGTCACTGGCTTTGAA
127 CGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAATCCAAGGTCACTGGCCTTAAA
* * ** *
541666 TCAATACATTGGCATCTTTCTCATCC
192 TCAACACAATAACACCTTTCTCATCC
541692 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
541728 GGTACATTCT
Statistics
Matches: 206, Mismatches: 41, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
216 5 0.02
217 194 0.94
218 7 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (217 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACTCTTATCATCCTTATTATCTTTAA
GTCCAATGTCACTAGCCTTGAATCAACACATTAGCACATTTTTCTTTCTTAAGTCCAAAATCGTT
GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAATCCAAGGTCACTGGCCTTAAATCAA
CACAATAACACCTTTCTCATCC
Found at i:542625 original size:20 final size:20
Alignment explanation
Indices: 542560--542635 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
542550 GCCAAGGAAA
* * *
542560 TGTATTGATACATTACTAAA
1 TGTATCGATACATTTCTAAT
*
542580 TGTATCGATACATGCTTATAAT
1 TGTATCGATACAT--TTCTAAT
*
542602 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTAAT
542622 TGTATCGATACATT
1 TGTATCGATACATT
542636 CTGGGTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 31 0.65
22 17 0.35
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:542769 original size:56 final size:56
Alignment explanation
Indices: 542683--542798 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
542673 GTATCGATAC
542683 ATGCAGGCAAATTTTCATATTTGGTGACATTTTCTTCCTTTGCCATACCACATTCA
1 ATGCAGGCAAATTTTCATATTTGGTGACATTTTCTTCCTTTGCCATACCACATTCA
* *
542739 ATGCAGGCAAATTTTTATATTTGGTGACATTTTCTTCCTTTGCCATTCCACATTCA
1 ATGCAGGCAAATTTTCATATTTGGTGACATTTTCTTCCTTTGCCATACCACATTCA
542795 ATGC
1 ATGC
542799 CTGATTCAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (56 bp):
ATGCAGGCAAATTTTCATATTTGGTGACATTTTCTTCCTTTGCCATACCACATTCA
Found at i:545631 original size:23 final size:22
Alignment explanation
Indices: 545604--545648 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
545594 ATTTCAATCA
545604 TTAT-TTGGTTA-TGATTCTCTT
1 TTATATTGGTTACTGATT-TCTT
*
545625 TTATATTGTTTACTGATTTCTT
1 TTATATTGGTTACTGATTTCTT
545647 TT
1 TT
545649 TTATGGGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 12 0.57
23 5 0.24
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (22 bp):
TTATATTGGTTACTGATTTCTT
Found at i:549374 original size:11 final size:11
Alignment explanation
Indices: 549358--549387 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
549348 AAGCAAAAGC
*
549358 ACAAAAAACAA
1 ACAAAAAAAAA
549369 ACAAAAAAAAA
1 ACAAAAAAAAA
549380 ACAAAAAA
1 ACAAAAAA
549388 TGAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:550900 original size:32 final size:33
Alignment explanation
Indices: 550859--550933 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
550849 TTTTTCTTTA
* *
550859 AAAGCCCACACCAGCTGGTGGCAAC-CTCTTCT
1 AAAGCCCACACAAGCTGGTGGCAACGCCCTTCT
* *
550891 AAAGCCCACACAAGTTGGTGGCAACGCCCTTTT
1 AAAGCCCACACAAGCTGGTGGCAACGCCCTTCT
550924 AAAGCCCACA
1 AAAGCCCACA
550934 TAAGTCTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
32 23 0.61
33 15 0.39
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (33 bp):
AAAGCCCACACAAGCTGGTGGCAACGCCCTTCT
Found at i:550932 original size:33 final size:33
Alignment explanation
Indices: 550854--550980 Score: 111
Period size: 33 Copynumber: 3.9 Consensus size: 33
550844 ACCTTTTTTT
* * * *
550854 CTTTAAAAGCCCACACCAGCTGGTGGCAAC-CT
1 CTTTTAAAGCCCACACAAGTTGGTGGCAACGCC
*
550886 CTTCTAAAGCCCACACAAGTTGGTGGCAACGCC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAACGCC
* * *
550919 CTTTTAAAGCCCACATAAGTCT-ATGG-TA-GCC
1 CTTTTAAAGCCCACACAAGT-TGGTGGCAACGCC
550950 CTTTTCTAAAGCCCACACAA-TTCGGTGGCAA
1 C-TTT-TAAAGCCCACACAAGTT-GGTGGCAA
550981 TCTTTCTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
31 5 0.07
32 31 0.41
33 38 0.50
34 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (33 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCAACGCC
Found at i:551134 original size:52 final size:52
Alignment explanation
Indices: 551060--551859 Score: 210
Period size: 52 Copynumber: 14.7 Consensus size: 52
551050 TCCGGTGTTG
* * * * *
551060 CTAGCCATGAATGAGTATATTGGCATCTTTACCATTTTTAAGCCCAATGTCA
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * * *
551112 CTAGCCTTAAATCAGCACATTGGCATTCTTCTCATCTTTATTATCTTTAAGCCCAATGTCG
1 CTAGCCTTGAATCAGCATATTGGCA-CCTT-T-ATC---A-T-T-TTTAAGCCCAATGTCA
* * * * * * *
551173 TTGGCCTTGAATCAGCATATTGGCACCTTTTTC-TTTCTTAGGTCCAATATCG
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTT-TTAAGCCCAATGTCA
* * * * **
551225 CTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAATCCAATGTCA
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * * * ** * * *
551277 TTAGCCTTGAATTAGCACATTAGCACCTTCGTCATCTTTAAGCCTAATATCA
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * *
551329 CTAG-CTGTGAATCAGCATATTAGCACCTTTATCATTCCTCTTTTCTTTAAGTCTAATGTCA
1 CTAGCCT-TGAATCAGCATATTGGCACCTTTATCA--------TT-TTTAAGCCCAATGTCA
* * * * * * * * *
551390 -TTGCCCTTGAATCAGCACATTGGCACCCTTGTCATCTTCAAGCCCGATATCG
1 CTAG-CCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * * * * * * *
551442 CTAGTCTTAAATTAGTATATTGGCACTTTTATCATTCTTCTCATCTTCAA-GCTCGATA
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATT-TT-TAAGC-CCAATG-TC---A
* * * * **
551500 TCATTGGCTATGAATCAGCATATTGGCAGCTTTATCATTCCTCTTATCTTCAAGTCCAATGTTG
1 -C-TAGCCT-TGAATCAGCATATTGGCACCTTTATCA------TT-T-TT-AAGCCCAATGTCA
* * * ** * * * * *
551564 CTGGCCTTGAATCAACACATTGGCATTTTTTTC-TTTCTGAAGTCCAATATCG
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTT-TTAAGCCCAATGTCA
* * * ** * * *
551616 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTTAAGTCCAAGGTCG
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * * * * * ** * * **
551668 CTGGCTTTGAATTAGCACATCGACACCTTTCGCATCTTTAAGTCCAATGTTG
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * * * * *
551720 CTGGCCTTGAATTAGCACATTGGCACCTCTT-TC-TTTCTTAAGTCCAATATCG
1 CTAGCCTTGAATCAGCATATTGGCACCT-TTATCATTT-TTAAGCCCAATGTCA
* * * * * * * * * *
551772 CTGGTCTTGAATCAGTACATTGGCACCTTTGTCATCTTCAAGCCCGATATCG
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
* * *
551824 TTGGCCTTGAATCAGCATATCGGCACCTTTATCATT
1 CTAGCCTTGAATCAGCATATTGGCACCTTTATCATT
551860 CTTCTTATCT
Statistics
Matches: 561, Mismatches: 139, Indels: 96
0.70 0.17 0.12
Matches are distributed among these distances:
51 7 0.01
52 372 0.66
53 20 0.04
54 5 0.01
55 6 0.01
58 3 0.01
59 3 0.01
60 11 0.02
61 116 0.21
62 6 0.01
63 1 0.00
67 8 0.01
68 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (52 bp):
CTAGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGCCCAATGTCA
Found at i:551260 original size:113 final size:112
Alignment explanation
Indices: 551097--552019 Score: 449
Period size: 113 Copynumber: 8.3 Consensus size: 112
551087 TTTACCATTT
* * * * * * * *
551097 TTAAGCCCAATGTCACTAGCCTTAAATCAGCACATTGGCA-TTCTTCTCATCTTTATTATCTTTA
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TTATCATCTTT-TTATCTTTA
* * *
551161 AGCCCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTC
64 AGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
* * *
551210 TTAGGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTGTCATC--TTTA-----AA-
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTTTATCTTTAAG
* * * ** *
551267 TCCAATGTCATTAGCCTTGAATTAGCACATTAGCACCTTCGTC-ATC
66 TCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
* * * *
551313 TTTAAG-CCTAATATCACTAG-CTGTGAATCAGCATATTAGCACCTTTATCATTCCTCTTT-TCT
1 -TTAAGTCC-AATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTTATCA-T-CTTTTTATCT
* * * * *
551375 TTAAGTCTAATGTCATTGCCCTTGAATCAGCACATTGGCACCCTTGTC-ATC
61 TTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
* * * * * * * * * * *
551426 TTCAAGCCCGATATCGCTAGTCTTAAATTAGTATATTGGCACTTTTATCATTCTTCTCATCTTCA
1 TT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCA-TCTTTTTATCTTTA
* * * *
551491 AG-CTCGATATCATTGG-CTATGAATCAGCATATTGGCAGCTTTATCATTCCTCTTATC
64 AGTC-CAATGTCATTGGCCT-TGAATCAGCACATTGGCA-C-CT-T--TT--TCTT-TC
* * * * * *
551548 TTCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCA--TTT-T--T-TTCTT-TC-TGAA
1 TT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTTTATCTTTAA
* ** * * * **
551605 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC-AAC
65 GTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
** * * * * * *
551652 TTTAAGTCCAAGGTCGCTGGCTTTGAATTAGCACATCGACACC-TT-TC-GC-----ATCTTTAA
1 -TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTTTATCTTTAA
*** * *
551709 GTCCAATGTTGCTGGCCTTGAATTAGCACATTGGCACCTCTTTCTTTC
65 GTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
* * * *
551757 TTAAGTCCAATATCGCTGGTCTTGAATCAGTACATTGGCACCTTTGTCATC----T-TC---AAG
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTTTATCTTTAAG
* * * * * *
551814 CCCGATATCGTTGGCCTTGAATCAGCATATCGGCACCTTTATCATTCTTCTTATC
66 TCCAATGTCATTGGCCTTGAATCAGCACATTGGCACC----T--TT-TTCTT-TC
* * * * *
551869 TTCAAG-CCTGATATCGCCGG-CTGTGAATAAGCATATTGGTACCTTTATCATTCCTTTTATCTT
1 TT-AAGTCC-AATATCGCTGGCCT-TGAATCAGCATATTGGCACCTTTATCA-TCTTTTTATCTT
*
551932 TAAGTCCAATGTCATTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTC
62 TAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
551983 TTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTG
1 TTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTG
552020 ATGCCTTCAC
Statistics
Matches: 622, Mismatches: 124, Indels: 128
0.71 0.14 0.15
Matches are distributed among these distances:
103 8 0.01
104 210 0.34
105 11 0.02
106 5 0.01
107 3 0.00
108 5 0.01
110 5 0.01
111 7 0.01
112 19 0.03
113 241 0.39
114 19 0.03
115 9 0.01
116 4 0.01
118 3 0.00
119 3 0.00
120 5 0.01
122 65 0.10
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (112 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTTTATCTTTAAG
TCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC
Found at i:551499 original size:61 final size:61
Alignment explanation
Indices: 551421--551553 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 61
551411 GGCACCCTTG
* * * * *
551421 TCATCTTCAAGCCCGATATCGCTAGTCT-TAAATTAGTATATTGGCA-CTTTTATCATTCTTC
1 TCATCTTCAAGCCCGATATC-ATAGGCTATAAATCAGCATATTGGCAGC-TTTATCATTCCTC
* * *
551482 TCATCTTCAAGCTCGATATCATTGGCTATGAATCAGCATATTGGCAGCTTTATCATTCCTC
1 TCATCTTCAAGCCCGATATCATAGGCTATAAATCAGCATATTGGCAGCTTTATCATTCCTC
*
551543 TTATCTTCAAG
1 TCATCTTCAAG
551554 TCCAATGTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
60 4 0.07
61 56 0.92
62 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (61 bp):
TCATCTTCAAGCCCGATATCATAGGCTATAAATCAGCATATTGGCAGCTTTATCATTCCTC
Found at i:551575 original size:61 final size:52
Alignment explanation
Indices: 551549--552019 Score: 166
Period size: 52 Copynumber: 8.7 Consensus size: 52
551539 CCTCTTATCT
* * * *
551549 TCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCATTTTTTTCTTTC
1 TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTCTTTC
* *** * *
551601 TGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTT-
1 TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTC--TTTC
** * * * * * ** **
551654 T-AAGTCCAAGGTCGCTGGCTTTGAATTAGCACATCGACACCTTTCGCATCTT-
1 TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTC-T-TTC
* * * * ** *
551706 T-AAGTCCAATGTTGCTGGCCTTGAATTAGCACATTGGCACCTCTTTCTTTC
1 TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTCTTTC
* * * * ** * *
551757 TTAAGTCCAATATCGCTGGTCTTGAATCAGTACATTGGCACCTTTGTC-ATC
1 TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTCTTTC
* * * *
551808 TTCAAGCCCGATATCGTTGGCCTTGAATCAGCATATCGGCACCTTTATCATTCTTCTTATC
1 -TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA---TT-T--TT-TTCTT-TC
* * * * *
551869 TTCAAG-CCTGATATCGCCGG-CTGTGAATAAGCATATTGGTACCTTTATCATTCCTTTTATC
1 -TCAAGTCC-AATATCGCTGGCCT-TGAATCAGCATATTGG--CATTT-T--TT--TCTT-TC
* * ** * * **
551930 TTTAAGTCCAATGTCATTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTC
1 -TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTCTTTC
*
551983 TTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTG
1 TCAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTG
552020 ATGCCTTCAC
Statistics
Matches: 320, Mismatches: 73, Indels: 52
0.72 0.16 0.12
Matches are distributed among these distances:
50 2 0.01
51 7 0.02
52 216 0.68
53 3 0.01
54 5 0.02
56 3 0.01
58 5 0.02
59 6 0.02
60 7 0.02
61 61 0.19
62 4 0.01
63 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTTTCTTTC
Found at i:551731 original size:104 final size:103
Alignment explanation
Indices: 551603--551862 Score: 274
Period size: 104 Copynumber: 2.5 Consensus size: 103
551593 TTTCTTTCTG
* *
551603 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACT-TTAAGTCCAAGGTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC-ACTCTTAAGTCCAAGATC
* *
551667 GCTGG-CTTTGAATTAGCACATCGACACCTTTCG-CATCTTT
64 GCTGGTC-TTGAATCAGCACATCGACACCTTT-GTCATCTTC
* * * * ** *
551707 AAGTCCAATGTTGCTGGCCTTGAATTAGCACATTGGCACCTCTTTCTTTCTTAAGTCCAATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TTTCACTCTTAAGTCCAAGATCG
* * *
551772 CTGGTCTTGAATCAGTACATTGGCACCTTTGTCATCTTC
65 CTGGTCTTGAATCAGCACATCGACACCTTTGTCATCTTC
* * * * *
551811 AAGCCCGATATCGTTGGCCTTGAATCAGCATATCGGCACCTTTATCATTCTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCACTCTT
551863 CTTATCTTCA
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
103 4 0.03
104 121 0.95
105 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (103 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACTCTTAAGTCCAAGATCGC
TGGTCTTGAATCAGCACATCGACACCTTTGTCATCTTC
Found at i:551834 original size:156 final size:156
Alignment explanation
Indices: 551545--551853 Score: 420
Period size: 156 Copynumber: 2.0 Consensus size: 156
551535 CATTCCTCTT
** *
551545 ATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCATTTTTTTCTTTCTGAAGTCCA
1 ATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCACCTCTTTCTTTCTGAAGTCCA
* * * * * *
551610 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTTAAGTCCAAGGTCGCTGGCTT
66 ATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAACTTCAAGCCCAAGATCGCTGGCCT
*
551675 TGAATTAGCACATCGACACCTTTCGC
131 TGAATCAGCACATCGACACCTTTCGC
* * * *
551701 ATCTTTAAGTCCAATGTTGCTGGCCTTGAATTAGCACATTGGCACCTCTTTCTTTCTTAAGTCCA
1 ATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCACCTCTTTCTTTCTGAAGTCCA
* * * * * *
551766 ATATCGCTGGTCTTGAATCAGTACATTGGCACCTTTGTCATCTTCAAGCCCGATATCGTTGGCCT
66 ATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAACTTCAAGCCCAAGATCGCTGGCCT
* *
551831 TGAATCAGCATATCGGCACCTTT
131 TGAATCAGCACATCGACACCTTT
551854 ATCATTCTTC
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
156 131 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (156 bp):
ATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCACCTCTTTCTTTCTGAAGTCCA
ATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAACTTCAAGCCCAAGATCGCTGGCCT
TGAATCAGCACATCGACACCTTTCGC
Found at i:551939 original size:382 final size:387
Alignment explanation
Indices: 551152--552047 Score: 1103
Period size: 382 Copynumber: 2.3 Consensus size: 387
551142 CTCATCTTTA
* * * *
551152 TTATCTTTAAGCCCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTTAGGTC
1 TTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTCTTAAGTC
* * * * *
551217 CAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTGTCATCTTTAAATCCAATGTCATTAGC
66 CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAGGTCACTAGC
* *
551282 CTTGAATTAGCACATTAGCACCTTCGTCATCTTTAAGCCTAATATCACTAGCTGTGAATCAGCAT
131 CTTGAATTAGCACATGAGCACCTTCGTCATCTTTAAGCCTAATATCACTAGCTGTGAATCAGCAC
* * *
551347 ATTAGCACCTTTATCATTCCTCTTTTCTTTAAGTCTAATGTCATTGCCCTTGAATCAGCACATTG
196 ATTAGCACC--T-TCATT-CTCTTTTCTTTAAGTCCAATATCACTGCCCTTGAATCAGCACATTG
* * * * *
551412 GCACCCTTGTCATCTTCAAGCCCGATATCGCTAGTCTTAAATTAGTATATTGGCACTTTTATCAT
257 GCACCCTTGTCATCTTCAAGCCCGATATCGCTAGCCTTAAATCAGCATATCGGCACCTTTATCAT
** * *
551477 TCTTCTCATCTTCAAGCTCGATATCATTGGCTATGAATCAGCATATTGGCAGCTTTATCATTCCT
322 TCTTCTCATCTTCAAGCTCGATATCACCGGCTATGAATAAGCATATTGGCACCTTTATCATTCCT
551542 C
387 C
* * * ** *
551543 TTATCTTCAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCATTTTTTTCTTTCTGAAGTC
1 TTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTCTTAAGTC
* * *
551608 CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTTAAGTCCAAGGTCGCTGGC
66 CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAGGTCACTAGC
* * ** * *
551673 TTTGAATTAGCACATCGA-CACCTTTCG-CATCTTTAAGTCC-AATGTTGCTGGCCT-TGAATTA
131 CTTGAATTAGCACAT-GAGCACC-TTCGTCATCTTTAAG-CCTAATATCACTAG-CTGTGAATCA
* * ** *
551734 GCACATTGGCACC-TC-TT-TC-TTTC-TTAAGTCCAATATCGCTGGTCTTGAATCAGTACATTG
192 GCACATTAGCACCTTCATTCTCTTTTCTTTAAGTCCAATATCACTGCCCTTGAATCAGCACATTG
* * * *
551794 GCACCTTTGTCATCTTCAAGCCCGATATCGTTGGCCTTGAATCAGCATATCGGCACCTTTATCAT
257 GCACCCTTGTCATCTTCAAGCCCGATATCGCTAGCCTTAAATCAGCATATCGGCACCTTTATCAT
* * * *
551859 TCTTCTTATCTTCAAGC-CTGATATCGCCGGCTGTGAATAAGCATATTGGTACCTTTATCATTCC
322 TCTTCTCATCTTCAAGCTC-GATATCACCGGCTATGAATAAGCATATTGGCACCTTTATCATTCC
*
551923 TT
386 TC
*
551925 TTATCTTTAAGTCCAATGTCATTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTCTTAAG-C
1 TTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTCTTAAGTC
** ***
551989 CTAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTCACCATCTTTAAGTCCAAGGT
66 C-AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAGGT
552048 TATTAACCTT
Statistics
Matches: 434, Mismatches: 65, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
381 3 0.01
382 248 0.57
383 4 0.01
384 2 0.00
386 2 0.00
387 2 0.00
391 164 0.38
392 9 0.02
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (387 bp):
TTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTCTTTCTTAAGTC
CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAGGTCACTAGC
CTTGAATTAGCACATGAGCACCTTCGTCATCTTTAAGCCTAATATCACTAGCTGTGAATCAGCAC
ATTAGCACCTTCATTCTCTTTTCTTTAAGTCCAATATCACTGCCCTTGAATCAGCACATTGGCAC
CCTTGTCATCTTCAAGCCCGATATCGCTAGCCTTAAATCAGCATATCGGCACCTTTATCATTCTT
CTCATCTTCAAGCTCGATATCACCGGCTATGAATAAGCATATTGGCACCTTTATCATTCCTC
Found at i:555354 original size:13 final size:13
Alignment explanation
Indices: 555336--555363 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
555326 GTAAACCCAA
555336 AATGTATCGATAC
1 AATGTATCGATAC
555349 AATGTATCGATAC
1 AATGTATCGATAC
555362 AA
1 AA
555364 ATTGTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:555891 original size:52 final size:52
Alignment explanation
Indices: 555665--555903 Score: 246
Period size: 52 Copynumber: 4.6 Consensus size: 52
555655 GTGTCTACAA
** * *
555665 CCTTGAATCAGCACATTAACACCTTTCTCATCTTTAAGTCCAATGTCGCTGG
1 CCTTGAATCAGCACATTGGCACCTTTGTCATCTTCAAGTCCAATGTCGCTGG
* * * * *
555717 CCTTGAATCAGCACATTAGCATCTTTTTCTTTCTT-AAGTCCAATGTCACTGG
1 CCTTGAATCAGCACATTGGCACCTTTGTC-ATCTTCAAGTCCAATGTCGCTGG
* * * * * *
555769 CATTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCATTGTCGCTAG
1 CCTTGAATCAGCACATTGGCACCTTTGTCATCTTCAAGTCCAATGTCGCTGG
* * * * *
555821 CTTTAAATTAGCACATTGGCACCTTTGTCATCTTCAAGCCCAATGTCGTTGG
1 CCTTGAATCAGCACATTGGCACCTTTGTCATCTTCAAGTCCAATGTCGCTGG
* * * *
555873 CCTTGAATCAACATATTGGCACTTTTATCAT
1 CCTTGAATCAGCACATTGGCACCTTTGTCAT
555904 TTTTTTCATC
Statistics
Matches: 153, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
51 4 0.03
52 145 0.95
53 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (52 bp):
CCTTGAATCAGCACATTGGCACCTTTGTCATCTTCAAGTCCAATGTCGCTGG
Found at i:555943 original size:61 final size:62
Alignment explanation
Indices: 555843--555977 Score: 209
Period size: 61 Copynumber: 2.2 Consensus size: 62
555833 ACATTGGCAC
* * *
555843 CTTTGTCATCTTCAAGCCCAATGTCGTTGGCCTTGAATCAACATATTGGCACTTTTATCATTT
1 CTTT-TCATCTTCAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCACCTTTATCATTT
*
555906 -TTTTCATCTTCAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGCACCTTTATCATTT
1 CTTTTCATCTTCAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCACCTTTATCATTT
*
555967 CTTTGCATCTT
1 CTTTTCATCTT
555978 TAAGTCTGAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
61 54 0.82
62 12 0.18
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (62 bp):
CTTTTCATCTTCAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCACCTTTATCATTT
Found at i:559532 original size:32 final size:33
Alignment explanation
Indices: 559490--559553 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
559480 TAGCCAAACT
**
559490 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
559522 TGTATTGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
559554 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:565634 original size:13 final size:13
Alignment explanation
Indices: 565616--565640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
565606 CATTTTTCTT
565616 TGTATCGATACAC
1 TGTATCGATACAC
565629 TGTATCGATACA
1 TGTATCGATACA
565641 GGGGGATTAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:568063 original size:20 final size:20
Alignment explanation
Indices: 568038--568092 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
568028 AAAACCCTTA
568038 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
568058 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
568078 AATGTATCGATACAT
1 AAAGTATCGATACAT
568093 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:568181 original size:13 final size:13
Alignment explanation
Indices: 568163--568188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
568153 TACACAAAGT
568163 ATGTATCGATACA
1 ATGTATCGATACA
568176 ATGTATCGATACA
1 ATGTATCGATACA
568189 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:568186 original size:32 final size:33
Alignment explanation
Indices: 568145--568208 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
568135 TAGCCAAACT
**
568145 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
568177 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
568209 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:569972 original size:21 final size:20
Alignment explanation
Indices: 569946--570001 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
569936 TGTATCATAC
*
569946 ATTGTATCGATACATACTTGA
1 ATTGTATCGATACATA-GTGA
** * *
569967 ATTGTATTAATTCATAGTGC
1 ATTGTATCGATACATAGTGA
569987 ATTGTATCGATACAT
1 ATTGTATCGATACAT
570002 TGAGCCCAAC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
ATTGTATCGATACATAGTGA
Found at i:577328 original size:28 final size:28
Alignment explanation
Indices: 577287--577529 Score: 272
Period size: 28 Copynumber: 8.7 Consensus size: 28
577277 CATTCCTTAC
*
577287 CTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 CTTTT-CAAAGCCCACAAGTCAGTGGCAT
** *
577316 CTTTTTTAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
577344 CTTTTCAAAGCCCATAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
577372 CTTTTCAAAGGCAACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
577400 CTTTTCCAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
577428 CTTTTCCAAGCCCACAAGTCAGTGGTAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
577456 CTTTTCAAAGCCTACAAGTTAGTGGCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
577484 C-CTTCAAAGCCCACAAGACAGTGGCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
577511 CCTTTAAAAGCACACAAGT
1 CTTTTCAAAGCCCACAAGT
577530 TGGTGTAACC
Statistics
Matches: 179, Mismatches: 34, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
27 23 0.13
28 151 0.84
29 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:577728 original size:50 final size:49
Alignment explanation
Indices: 577577--577924 Score: 286
Period size: 49 Copynumber: 6.9 Consensus size: 49
577567 CATCTTCTTC
*
577577 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCCTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
* * *
577626 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
* * * *
577675 TAAGTCCAATATTGCTGGCCTTGAA-CAGAGCACACTGGGACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATC--AGCACATTGGCACCTTCACCTT
* * * *
577725 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCACCTT
** * * * *
577777 TAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCACCTT
* * * * ** * * *
577830 CAAGACTAATGTCGCTGATCGTGAATCAGCACATTGACATTCCTTACATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CACCTT
* * * *
577882 TAAGCCCAATATCACTGGTCC-TAAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGG-CCTTGAATCAGCACATTGGCACCTT
577925 TATCACTCTT
Statistics
Matches: 246, Mismatches: 42, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
48 1 0.00
49 79 0.32
50 45 0.18
51 3 0.01
52 75 0.30
53 42 0.17
55 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
Found at i:577747 original size:99 final size:98
Alignment explanation
Indices: 577577--577816 Score: 266
Period size: 99 Copynumber: 2.4 Consensus size: 98
577567 CATCTTCTTC
* * *
577577 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCCTCACCTTTAAGTCCAATGTTGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACACTGGCACCCTCACCTTTAAGTCCAATATCGCT
577642 GGCCTTGAATCAGCACATTAGCACCTTCACCTT
66 GGCCTTGAATCAGCACATTAGCACCTTCACCTT
* * * *
577675 TAAGTCCAATATTGCTGGCCTTGAA-CAGAGCACACTGGGACCTTCATCTTTAAGTCCAATATCG
1 TAAGTCCAATATCGCTGGCCTTGAATC--AGCACACTGGCACCCTCACCTTTAAGTCCAATATCG
* * * * *
577739 TTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
64 CTGGCCTTGAATCAGCACATTAGCACC--T-TCACCTT
** * * *
577777 TAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCACACTGGCA
577817 TTCTTCTCAT
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
97 1 0.01
98 24 0.21
99 53 0.46
101 1 0.01
102 17 0.15
103 19 0.16
104 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (98 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACACTGGCACCCTCACCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCACATTAGCACCTTCACCTT
Found at i:578603 original size:19 final size:18
Alignment explanation
Indices: 578579--578641 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
578569 AAACAGTAAA
578579 TGTATCGATACATTAGTGT
1 TGTATCGATACA-TAGTGT
578598 TGTATCGATACA-A----
1 TGTATCGATACATAGTGT
578611 TGTATCGATACATAAGTGT
1 TGTATCGATACAT-AGTGT
*
578630 TGTATTGATACA
1 TGTATCGATACA
578642 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
17 1 0.03
19 23 0.62
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAGTGT
Found at i:578616 original size:13 final size:13
Alignment explanation
Indices: 578598--578622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
578588 ACATTAGTGT
578598 TGTATCGATACAA
1 TGTATCGATACAA
578611 TGTATCGATACA
1 TGTATCGATACA
578623 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:578618 original size:32 final size:32
Alignment explanation
Indices: 578577--578654 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
578567 ACAAACAGTA
*
578577 AATGTATCGATACATTAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
578609 AATGTATCGATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
578641 AATGTATCGCTACA
1 AATGTATCGATACA
578655 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:578696 original size:20 final size:20
Alignment explanation
Indices: 578671--578725 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
578661 CTGCCAAGGA
578671 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
578691 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
578711 TTTGTATCGATACAT
1 AATGTATCGATACAT
578726 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:583585 original size:20 final size:20
Alignment explanation
Indices: 583562--583633 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
583552 ACACCCAGAT
583562 GTATCGATACATCTTGCTTA
1 GTATCGATACATCTTGCTTA
583582 GTATCGATACATCTTGCTTA
1 GTATCGATACATCTTGCTTA
*
583602 GCATCGATACATCTTGCTTA
1 GTATCGATACATCTTGCTTA
583622 GTATCGATACAT
1 GTATCGATACAT
583634 TGTATCGATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
GTATCGATACATCTTGCTTA
Found at i:583640 original size:13 final size:13
Alignment explanation
Indices: 583622--583646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
583612 ATCTTGCTTA
583622 GTATCGATACATT
1 GTATCGATACATT
583635 GTATCGATACAT
1 GTATCGATACAT
583647 GTTCTTGGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:583663 original size:32 final size:33
Alignment explanation
Indices: 583604--583665 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
583594 CTTGCTTAGC
583604 ATCGATACATCTTGCTTAGTATCGATACATTGT
1 ATCGATACATCTTGCTTAGTATCGATACATTGT
* *
583637 ATCGATACATGTT-CTTGGTATCGATACAT
1 ATCGATACATCTTGCTTAGTATCGATACAT
583666 ATTGAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (33 bp):
ATCGATACATCTTGCTTAGTATCGATACATTGT
Found at i:583684 original size:52 final size:53
Alignment explanation
Indices: 583582--583685 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
583572 ATCTTGCTTA
* * *
583582 GTATCGATACATCTTGCTTAGCATCGATACATCTTGCTTAGTATCGATACATT
1 GTATCGATACATCTTGCTTAGCATCGATACATATTGATTAGTATCAATACATT
* * *
583635 GTATCGATACATGTT-CTTGGTATCGATACATATTGAATTA-TATCAATACAT
1 GTATCGATACATCTTGCTTAGCATCGATACATATTG-ATTAGTATCAATACAT
583686 GAAACTGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 27 0.61
53 17 0.39
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (53 bp):
GTATCGATACATCTTGCTTAGCATCGATACATATTGATTAGTATCAATACATT
Found at i:591691 original size:78 final size:77
Alignment explanation
Indices: 591551--591869 Score: 336
Period size: 78 Copynumber: 4.1 Consensus size: 77
591541 CTCCGATAAA
* * * * * * * * **
591551 AAAATTAATATTTTGGAAATAAAAATGGAGTTGGAGCATCCCGTCGAAAACAATAGCATTGGAGT
1 AAAATCAATATTTTGAAAATAAAAATGGGGTTAGAGTATCCC-TCAAAAATAACAGGGTTGGAGT
**
591616 ATCCCTAATGGTG
65 ATCCCCGATGGTG
* * *
591629 AAAATCAATATTTTGGAAATAAAAATGGGTTTAGAGTATCCACTAAAAAATAACAGGGTTGGAGT
1 AAAATCAATATTTTGAAAATAAAAATGGGGTTAGAGTATCC-CTCAAAAATAACAGGGTTGGAGT
*
591694 ATGCCCGATGGTGG
65 ATCCCCGATGGT-G
* * *
591708 AAAATCAGTGTTTT-AAAAT-AAAATCGGGGTTAGAGTATCCCTCTAAAAATAACGGGGTTGGAG
1 AAAATCAATATTTTGAAAATAAAAAT-GGGGTTAGAGTATCCCTC-AAAAATAACAGGGTTGGAG
591771 TATCCCCGATGGTG
64 TATCCCCGATGGTG
* * * * *
591785 AAAAATCGATAATTTAAAAATAAAATTGGGGTTCGAGTATCCCCTCAAAAATAACAGGGTTGGAG
1 -AAAATCAATATTTTGAAAATAAAAATGGGGTTAGAGTAT-CCCTCAAAAATAACAGGGTTGGAG
591850 TATCCCCGATGGTTG
64 TATCCCCGATGG-TG
591865 AAAAT
1 AAAAT
591870 TGAAGTTTTA
Statistics
Matches: 204, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
77 8 0.04
78 119 0.58
79 66 0.32
80 11 0.05
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (77 bp):
AAAATCAATATTTTGAAAATAAAAATGGGGTTAGAGTATCCCTCAAAAATAACAGGGTTGGAGTA
TCCCCGATGGTG
Found at i:591823 original size:79 final size:78
Alignment explanation
Indices: 591609--591889 Score: 329
Period size: 79 Copynumber: 3.6 Consensus size: 78
591599 AACAATAGCA
** * ** * *
591609 TTGGAGTATCCCTAATGGTGAAAATCAATATTTTGGAAATAAAAATGGGTTTAGAGTATCCACT-
1 TTGGAGTATCCCCGATGGTGAAAATCGATATTTTAAAAATAAAATTGGGGTTAGAGTATCC-CTC
*
591673 AAAAAATAACAGGG
65 TAAAAATAACAGGG
* * *
591687 TTGGAGTATGCCCGATGGTGGAAAATC-AGTGTTTT-AAAATAAAATCGGGGTTAGAGTATCCCT
1 TTGGAGTATCCCCGATGGT-GAAAATCGA-TATTTTAAAAATAAAATTGGGGTTAGAGTATCCCT
*
591750 CTAAAAATAACGGGG
64 CTAAAAATAACAGGG
* *
591765 TTGGAGTATCCCCGATGGTGAAAAATCGATAATTTAAAAATAAAATTGGGGTTCGAGTATCCC-C
1 TTGGAGTATCCCCGATGGTG-AAAATCGATATTTTAAAAATAAAATTGGGGTTAGAGTATCCCTC
591829 TCAAAAATAACAGGG
65 T-AAAAATAACAGGG
*
591844 TTGGAGTATCCCCGATGGTTGAAAATTGA-AGTTTTAAAAATAAAAT
1 TTGGAGTATCCCCGATGG-TGAAAATCGATA-TTTTAAAAATAAAAT
591890 CAAGGTTGGA
Statistics
Matches: 176, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
77 3 0.02
78 82 0.47
79 89 0.51
80 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (78 bp):
TTGGAGTATCCCCGATGGTGAAAATCGATATTTTAAAAATAAAATTGGGGTTAGAGTATCCCTCT
AAAAATAACAGGG
Found at i:592023 original size:79 final size:79
Alignment explanation
Indices: 591918--592213 Score: 208
Period size: 79 Copynumber: 3.8 Consensus size: 79
591908 TTGATACCGA
* ** * *
591918 TTTAAAAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTTAGAGTATCCCCAAT-
1 TTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCAGAAATAACGGGG-TTAGAGTATCCCCAATA
*
591982 GTGAAAAAT-CGATGT
65 GTGAAAAATAAG-TGT
*** * * **
591997 TTTAGAAATAAAATTGGGGTTGGAGTATCTTATCGGAAATAACGGGGTTGGAGTATCCCTGATAG
1 TTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCAATAG
* *
592062 TGGAAAGTAAGTGT
66 TGAAAAATAAGTGT
* * * * * *
592076 TTTAGAAA-AAAAATGGGGTTGCAGTATCCCCTCAGAAATAAC-AGGATCGAAGTAT-CCGAGAT
1 TTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAG-AGTATCCCCA-AT
* * * **
592138 GGTGGAAAATCAGTAC
64 AGTGAAAAATAAGTGT
* **** * *
592154 TTTAGAGATAAAATCAAAGTTGGAGTATCTCCTCTA-AAATAACGGGGTTGGAGTATCCCC
1 TTTAGAAATAAAATTGGGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTAGAGTATCCCC
592214 TCAAGAATAA
Statistics
Matches: 166, Mismatches: 43, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
77 6 0.04
78 66 0.40
79 86 0.52
80 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (79 bp):
TTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCAATAG
TGAAAAATAAGTGT
Found at i:592114 original size:78 final size:76
Alignment explanation
Indices: 591934--592212 Score: 220
Period size: 78 Copynumber: 3.6 Consensus size: 76
591924 AATAAAATCA
* * * * *
591934 GGGTTGGAGTATCCCCTAAAAAATAACGGGGTTTAGAGTATCCCCA-ATGTGAAAAATCGATGTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGGGG-TTGGAGTAT-CCCAGATGTGGAAAATAG-TGTT
*
591998 TTAGAAATAAAATTG
63 TTAGAAA-AAAAATG
*** * * *
592013 GGGTTGGAGTATCTTATCGGAAATAACGGGGTTGGAGTATCCCTGATAGTGGAAAGTAAGTGTTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCAGAT-GTGGAAAAT-AGTGTTT
592078 TAGAAAAAAAATG
64 TAGAAAAAAAATG
* * * * * * **
592091 GGGTTGCAGTATCCCCTCAGAAATAACAGGATCGAAGTATCCGAGATGGTGGAAAATCAGTACTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCAGAT-GTGGAAAAT-AGTGTTT
* * *
592156 TAGAGATAAAATCA
64 TAGAAAAAAAAT-G
** *
592170 AAGTTGGAGTATCTCCTCTA-AAATAACGGGGTTGGAGTATCCC
1 GGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCC
592213 CTCAAGAATA
Statistics
Matches: 155, Mismatches: 40, Indels: 10
0.76 0.20 0.05
Matches are distributed among these distances:
77 3 0.02
78 75 0.48
79 75 0.48
80 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (76 bp):
GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCAGATGTGGAAAATAGTGTTTTA
GAAAAAAAATG
Found at i:592235 original size:28 final size:28
Alignment explanation
Indices: 592176--592236 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
592166 ATCAAAGTTG
* * *
592176 GAGTATCTCCTCTAAAATAACGGGGTTG
1 GAGTATCCCCTCTAAAATAACGGGATTA
*
592204 GAGTATCCCCTC-AAGAATAATGGGATTA
1 GAGTATCCCCTCTAA-AATAACGGGATTA
592232 GAGTA
1 GAGTA
592237 ACCTCGATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (28 bp):
GAGTATCCCCTCTAAAATAACGGGATTA
Found at i:592288 original size:80 final size:77
Alignment explanation
Indices: 592188--592431 Score: 249
Period size: 80 Copynumber: 3.1 Consensus size: 77
592178 GTATCTCCTC
* *
592188 TAAAATAACGGGGTTGGAGTATCCCCTCAAGAATAATGGGATTAGAGTAACCTCGATGGTGAAAA
1 TAAAA-AACGGGGTTGGAGTATCCCCTCAAGAATAAAGGG-TTAGAGTATCC-CGATGGTGAAAA
592253 CTCGATGTTTTAGAAA
63 -TCGATGTTTTAGAAA
* * * ** * * **
592269 TAAAAAACGGGATTAGAGTATCTCCTCGGGAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
1 TAAAAAACGGGGTTGGAGTATCCCCTCAAGAATAA-AGGGTTAGAGTAT-CCCGATGGTG-AAAA
592334 TCGATGTTTTAGAAA
63 TCGATGTTTTAGAAA
* * *
592349 T-AAAAATGGGGTTGGAGTATCCCCT-AGAAAATAAAAGGTTAGAGTATCCCTGATGGTGGAAAA
1 TAAAAAACGGGGTTGGAGTATCCCCTCA-AGAATAAAGGGTTAGAGTATCCC-GATGGT-GAAAA
*
592412 TCAATGTTTTAGAAA
63 TCGATGTTTTAGAAA
592427 TAAAA
1 TAAAA
592432 TCACTTTGGA
Statistics
Matches: 133, Mismatches: 23, Indels: 16
0.77 0.13 0.09
Matches are distributed among these distances:
77 3 0.02
78 33 0.25
79 29 0.22
80 54 0.41
81 14 0.11
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.26
Consensus pattern (77 bp):
TAAAAAACGGGGTTGGAGTATCCCCTCAAGAATAAAGGGTTAGAGTATCCCGATGGTGAAAATCG
ATGTTTTAGAAA
Found at i:592507 original size:64 final size:65
Alignment explanation
Indices: 592385--592508 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 65
592375 GAAAATAAAA
* **
592385 GGTTAGAGTATCCCTGATGGTGGAAAATCAATGTTTTAGAAATAAAATCACTTTGGAAATAACGG
1 GGTTAGAGTATCCCTGATGGTGGAAAATCAATGTTTTAGAAATAAAAACACTAAGGAAATAACGG
* *
592450 GGTTGGAGTATCCC-GATGGTGGAAAATCAGTGTTTTAGAAATAAAAACA-TCAAGGAAAT
1 GGTTAGAGTATCCCTGATGGTGGAAAATCAATGTTTTAGAAATAAAAACACT-AAGGAAAT
592509 TTTTTATGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 1 0.02
64 39 0.74
65 13 0.25
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (65 bp):
GGTTAGAGTATCCCTGATGGTGGAAAATCAATGTTTTAGAAATAAAAACACTAAGGAAATAACGG
Found at i:608055 original size:13 final size:13
Alignment explanation
Indices: 608037--608061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
608027 CAAAGATCAG
608037 TGTATCGATACAA
1 TGTATCGATACAA
608050 TGTATCGATACA
1 TGTATCGATACA
608062 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:608145 original size:13 final size:13
Alignment explanation
Indices: 608127--608151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
608117 CAAAAAAATA
608127 TGTATCGATACAT
1 TGTATCGATACAT
608140 TGTATCGATACA
1 TGTATCGATACA
608152 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:608147 original size:33 final size:33
Alignment explanation
Indices: 608105--608171 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
608095 AGTAGCTTAA
608105 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
608138 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
608171 A
1 A
608172 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:614115 original size:42 final size:42
Alignment explanation
Indices: 614055--614138 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
614045 AATTTTCTTC
* *
614055 TTGTATGGCCTCATCAATACTTTTGGGCTTTATTTGAGAGAG
1 TTGTATGGCCTCACCAATACTTTTGGGCTCTATTTGAGAGAG
*
614097 TTGTATGGCTTCACCAATACTTTTGGGCTCTATTTGAGAGAG
1 TTGTATGGCCTCACCAATACTTTTGGGCTCTATTTGAGAGAG
614139 AAATGCTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.39
Consensus pattern (42 bp):
TTGTATGGCCTCACCAATACTTTTGGGCTCTATTTGAGAGAG
Found at i:616729 original size:3 final size:3
Alignment explanation
Indices: 616721--616755 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
616711 TGAGTCAACT
* *
616721 TCA TCA TCA TCA TCA TCA TCG TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
616756 TTTGATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:616756 original size:9 final size:9
Alignment explanation
Indices: 616719--616757 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
616709 TCTGAGTCAA
616719 CTTCATCAT
1 CTTCATCAT
*
616728 CATCATCAT
1 CTTCATCAT
* *
616737 CATCGTCAT
1 CTTCATCAT
616746 CTTCATCAT
1 CTTCATCAT
616755 CTT
1 CTT
616758 TGATGGTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.23, C:0.33, G:0.03, T:0.41
Consensus pattern (9 bp):
CTTCATCAT
Found at i:619536 original size:61 final size:60
Alignment explanation
Indices: 619459--620088 Score: 559
Period size: 61 Copynumber: 10.4 Consensus size: 60
619449 AAAGAAAGTA
* * * *
619459 TCCTGCTCTTTGAAGACTAAAAAGTGCTACCAACTTGGGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * * * *
619520 TCATGCTCTTTGAAGACTAAAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAA-GTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * * *
619579 TCTTGCTCTTTGAAGACTAGAAGGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
** * * *
619641 TCCTGCTCTTTGAGGACTGGAAGGTGCTCACTAACTTGTGTGGGCTTTGAAAGGAAAGTGC-
1 TCCTGCTCTTTGAGGACTAAAAGGTGC-CACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCG
** * ** * * * * * *
619702 -CCTATTTTTTTTGGACTGAAAGGTGCCATCAACTCGTATGGACTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
** * * * * * * * *
619762 TTTTGCTCTTTAAGGACTGAAAGGTGTCACCAACTTCTGCGGGCTTTGAAAGGAAA-GTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
619821 ACCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAGGCG
* * * * * * *
619882 CCCTACTCTTTGAGGACTAAAATGTGCCACTAACTTGTATGGGCTTTAAAAGGAGAACGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
** * * *
619943 TTTTGCTCTTTGAGGCCTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * * * * *
620004 TCCTACTTTTTGGGGACTAAAAGGTGCCACCAACTTATGTGGGATTTGAAAA-AGAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA-AAAGGCG
620065 TCCTGCTCTTTGAGGACTAAAAGG
1 TCCTGCTCTTTGAGGACTAAAAGG
620089 ATAAAAGGTT
Statistics
Matches: 454, Mismatches: 102, Indels: 26
0.78 0.18 0.04
Matches are distributed among these distances:
59 84 0.19
60 70 0.15
61 255 0.56
62 45 0.10
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:619855 original size:120 final size:120
Alignment explanation
Indices: 619379--620088 Score: 656
Period size: 122 Copynumber: 5.8 Consensus size: 120
619369 TTTAAGATAG
* * * *
619379 AAAAGGAAAGAGGCATCCTACTCTTTGAGGACTAGAAGGTGCCACTAGCTTGTGTGGGCTTTAAA
1 AAAAGGAAA-AGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---
* * * * *
619444 AGAAAAAAGAAAGT-ATCCTGCTCTTTGAAGACTAAAAAGTGCTACCAACTTGGGTGGGCTTT
62 -G--AAAGGAAAGTGA-CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
619506 GAAAA-GAAAAGGCGTCATGCTCTTTGAAGACTAAAAGGTGCCACCAACTTTTGTGGGCTTTAAA
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* * * * *
619570 AGGAAAGTGTCTTGCTCTTTGAAGACTAGAAGGGTGCCACCAACTTGTGTGGGATTT
65 AGGAAAGTGACCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* ** *
619627 AAAAGGAGAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCTCACTAACTTGTGTGGGCTTTGAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGC-CACCAACTTGTGTGGGCTTTGAA
* ** * ** * * * * *
619692 AGGAAAGTGCCCTATTTTTTTTGGACTGAAAGGTGCCATCAACTCGTATGGACTTT
65 AGGAAAGTGACCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * * *
619748 AAAAGGAAAAGGCATTTTGCTCTTTAAGGACTGAAAGGTGTCACCAACTTCTGCGGGCTTTGAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* *
619813 GGAAAGTGACCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT
66 GGAAAGTGACCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
619868 AAAAGAGAAAGACGC--CCTACTCTTTGAGGACTAAAATGTGCCACTAACTTGTATGGGCTTTAA
1 AAAAG-GAAA-AGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
* *** *
619931 AAGGAGAACGCGTTTTGCTCTTTGAGGCCTAAAAGGTGCCACCAACTTGTGTGGGCTTT
64 AAGGA-AA-GTGACCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * * *
619990 GAAAGGAGAAGGCGTCCTACTTTTTGGGGACTAAAAGGTGCCACCAACTTATGTGGGATTTGAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA
*
620055 AAGAAAG-GCATCCTGCTCTTTGAGGACTAAAAGG
65 AGGAAAGTG-A-CCTGCTCTTTGAGGACTAAAAGG
620089 ATAAAAGGTT
Statistics
Matches: 474, Mismatches: 95, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
120 147 0.31
121 120 0.25
122 150 0.32
123 5 0.01
126 44 0.09
127 4 0.01
128 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (120 bp):
AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
GGAAAGTGACCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:619968 original size:242 final size:243
Alignment explanation
Indices: 619395--620088 Score: 724
Period size: 242 Copynumber: 2.8 Consensus size: 243
619385 AAAGAGGCAT
* * *
619395 CCTACTCTTTGAGGACTAGAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAAGAAAGTAT
1 CCTACTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAG-GAAAAG-ACGTAT
* * * * *
619460 CCTGCTCTTTGAAGACTAAAAAGTGCTACCAACTTGGGTGGGCTTTGAAAA-GAAAAGGCGTCAT
64 -TTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCAT
* * * *
619524 GCTCTTTGAA-GACTAAAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAGTGTCTTGCTCT
127 GCTCTTT-AAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAGTGACCTGCTCT
* * * * *
619588 TTGAAGACTAGAAGGGTGCCACCAACTTGTGTGGGATTTAAAAGGAGAAGGCAT
191 TTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGATTTAAAAGGAGAAGACAC
* * * * * *
619642 CCTGCTCTTTGAGGACTGGAAGGTGCTCACTAACTTGTGTGGGCTTTGAAAGGAAAGTGCCCTAT
1 CCTACTCTTTGAGGACTAGAAGGTGC-CACTAACTTGTGTGGGCTTTAAAAGGAAA-AGACGTAT
* * * * * * * **
619707 TT--T-TTT-TGGACTGAAAGGTGCCATCAACTCGTATGGACTTTAAAAGGAAAAGGCATTTTGC
64 TTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATGC
* * * *
619768 TCTTTAAGGACTGAAAGGTGTCACCAACTTCTGCGGGCTTTGAAAGGAAAGTGACCTGCTCTTTG
129 TCTTTAAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAGTGACCTGCTCTTTG
* *
619833 AGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAA-GAGAAAGACGC
194 AGGACTGAAAGGTGCCACCAACTCGTGTGGGATTTAAAAGGAG-AAGACAC
* * * *
619883 CCTACTCTTTGAGGACTAAAATGTGCCACTAACTTGTATGGGCTTTAAAAGGAGAACG-CGT-TT
1 CCTACTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGA-AAAGACGTATT
* * * * *
619946 TGCTCTTTGAGGCCTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTACT
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATGCT
* ** * *
620011 TTTTGGGGACTAAAAGGTGCCACCAACTTATGTGGGATTTGAAAAAGAAAG-GCATCCTGCTCTT
130 CTTTAAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTG-AAAGGAAAGTG-A-CCTGCTCTT
*
620075 TGAGGACTAAAAGG
192 TGAGGACTGAAAGG
620089 ATAAAAGGTT
Statistics
Matches: 366, Mismatches: 68, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
238 3 0.01
239 2 0.01
240 30 0.08
241 67 0.18
242 174 0.48
243 12 0.03
244 23 0.06
246 1 0.00
247 30 0.08
248 24 0.07
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (243 bp):
CCTACTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGACGTATTT
GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATGCTC
TTTAAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAGTGACCTGCTCTTTGAG
GACTGAAAGGTGCCACCAACTCGTGTGGGATTTAAAAGGAGAAGACAC
Found at i:630150 original size:4 final size:4
Alignment explanation
Indices: 630141--630166 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
630131 ATACAAAACA
630141 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
630167 GCACCTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:632386 original size:157 final size:157
Alignment explanation
Indices: 632226--633121 Score: 833
Period size: 157 Copynumber: 5.7 Consensus size: 157
632216 GGAGTGTTCT
* * * *
632226 TGATGGTGAAAAATTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTC-GAAAATAACGG
1 TGATGGTGAAAAATCAATGTTTTAGAAATAAAAATGGGGTTAGAGTATCCCTCAG-AAATAACGG
* *
632290 GGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAAAAATAAAACTAGAGTTAGAGTATCCC
65 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAACTAGAGTTAGAGTATCCC
* **
632355 CTTAGAAATAACGGGGTTGGAGTATCTT
130 CTTAGAAATAACGGGGTTAGAGTATCCC
* *** * ** * * **
632383 TGATGGTG-AACATTGGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCCTC-GAAAATAATA
1 TGATGGTGAAAAATCAATGTTTTAGAAATAAAAATGGGGTTAGAGTAT-CCCTCAG-AAATAACG
** * * * * * * *
632446 GGGTTGGAGTATCGTCGATGGTGGAAAATTGATGTTTTAGGATTAAAACTAGGGTTATAGTATCT
64 GGGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAACTAGAGTTAGAGTATCC
* * * * *
632511 TCTTTGAAATAATGGGGTTGGAGTGTCCC
129 CCTTAGAAATAACGGGGTTAGAGTATCCC
*
632540 TGATGGTGAAAAATCAATGTTTTAGAAAT-AAAATCGGGGTTAGAGTATCCCTCAGAAATAACGA
1 TGATGGTGAAAAATCAATGTTTTAGAAATAAAAAT-GGGGTTAGAGTATCCCTCAGAAATAACGG
* * * ** * *
632604 GGTTGGAGTATCTCCGATAGTGAAAAATTGGTGTTTTAGAAATAAAA-TCGAGGTTCGAGTATCC
65 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAACTAGA-GTTAGAGTATCC
* *
632668 CCTAAGAAATAACGGGG-TAGAATATCCC
129 CCTTAGAAATAACGGGGTTAGAGTATCCC
** * * * * *
632696 TGATGGTGAAAAATCGGTGTTTTAAAAATAAAACTGAGGTTAGAGTCTCCCTCAGAAATAACAGG
1 TGATGGTGAAAAATCAATGTTTTAGAAATAAAAATGGGGTTAGAGTATCCCTCAGAAATAACGGG
* * ** * * *
632761 GTTGGAGTATCCTCGA-TGATGGAAAATCAGGGTTTTAGAGATAAAATCT-GGGTTGGAGTATCC
66 GTTGGAGTATCCCCGATTG-TGGAAAATTAATGTTTTAGAAATAAAA-CTAGAGTTAGAGTATCC
* *
632824 CCTT-GAAAATAATGGGGTTAAAGTATCCC
129 CCTTAG-AAATAACGGGGTTAGAGTATCCC
* * ** * * * *
632853 TAATGGTGGAAAATTGATGTTTTAGAAATAAAATTAGGGTTAGAGTATTCCCTCGGAAATAA-TG
1 TGATGGTGAAAAATCAATGTTTTAGAAATAAAAATGGGGTTAGAGTA-TCCCTCAGAAATAACGG
* *
632917 GGTTGGAGTATCCCCAATTGTGGAAAATCAATGTTTTAGAAATAAAATCTAG-GTTAGAGTATCC
65 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAA-CTAGAGTTAGAGTATCC
* * * * *
632981 CATCAAAAATAACGAGGTTAAAGTATCCC
129 CCTTAGAAATAACGGGGTTAGAGTATCCC
* * * * * * *
633010 CGATGGTGAAAAATCAGTATTTTAGGATTAAAATTAGGGTTAGAGTATCTCCTCAGAAATAACGG
1 TGATGGTGAAAAATCAATGTTTTAGAAATAAAAATGGGGTTAGAGTATC-CCTCAGAAATAACGG
* ** **
633075 GGTTGGAGTATCCTCGATAATGGAAAATTGGTGTTTTAGAAATAAAA
65 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAA
633122 ACATCAATGA
Statistics
Matches: 601, Mismatches: 121, Indels: 33
0.80 0.16 0.04
Matches are distributed among these distances:
155 2 0.00
156 154 0.26
157 360 0.60
158 85 0.14
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (157 bp):
TGATGGTGAAAAATCAATGTTTTAGAAATAAAAATGGGGTTAGAGTATCCCTCAGAAATAACGGG
GTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAACTAGAGTTAGAGTATCCCC
TTAGAAATAACGGGGTTAGAGTATCCC
Found at i:632521 original size:79 final size:78
Alignment explanation
Indices: 632227--633121 Score: 702
Period size: 78 Copynumber: 11.4 Consensus size: 78
632217 GAGTGTTCTT
* * * * * * * *
632227 GATGGTGAAAAATTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTC-GAAAATAACGGG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAGGGTTAGAGTATCCCTCAG-AAATAATGGG
632291 GTTGGAGTATCCCC
65 GTTGGAGTATCCCC
* * * * * * *
632305 GATTGTGAAAAATTAATGTTTTAAAAATAAAACTAGAGTTAGAGTATCCCCTTAGAAATAACGGG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAGGGTTAGAGTAT-CCCTCAGAAATAATGGG
***
632370 GTTGGAGTATCTTT
65 GTTGGAGTATCCCC
* * * * * *
632384 GATGGT-GAACATTGGTGTTTTAAAAATAAAAC-CGAGGTTGGAGTATCCCCTC-GAAAATAATA
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAG-GGTTAGAGTAT-CCCTCAG-AAATAATG
**
632446 GGGTTGGAGTATCGTC
63 GGGTTGGAGTATCCCC
* * * * **
632462 GATGGTGGAAAATTGATGTTTTAGGATTAAAACTAGGGTTATAGTATCTTCTTTGAAATAATGGG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAGGGTTAGAGTATC-CCTCAGAAATAATGGG
* *
632527 GTTGGAGTGTCCCT
65 GTTGGAGTATCCCC
* ** * * *
632541 GATGGTGAAAAATCAATGTTTTAGAAATAAAA-TCGGGGTTAGAGTATCCCTCAGAAATAACGAG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACT-AGGGTTAGAGTATCCCTCAGAAATAATGGG
*
632605 GTTGGAGTATCTCC
65 GTTGGAGTATCCCC
* * * * * * *
632619 GATAGTGAAAAATTGGTGTTTTAGAAATAAAA-TCGAGGTTCGAGTATCCCCTAAGAAATAACGG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAG-GGTTAGAGTAT-CCCTCAGAAATAATGG
* * *
632683 GG-TAGAATATCCCT
64 GGTTGGAGTATCCCC
* * * * * **
632697 GATGGTGAAAAATCGGTGTTTTAAAAATAAAACT-GAGGTTAGAGTCTCCCTCAGAAATAACAGG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAG-GGTTAGAGTATCCCTCAGAAATAATGGG
*
632761 GTTGGAGTATCCTC
65 GTTGGAGTATCCCC
* * * * * *
632775 GATGATGGAAAA-TCAGGGTTTTAGAGATAAAATCT-GGGTTGGAGTATCCC-CTTGAAAATAAT
1 GATGGTGGAAAATTGA-TGTTTTAGAAATAAAA-CTAGGGTTAGAGTATCCCTC-AG-AAATAAT
** *
632837 GGGGTTAAAGTATCCCT
62 GGGGTTGGAGTATCCCC
* * *
632854 AATGGTGGAAAATTGATGTTTTAGAAATAAAATTAGGGTTAGAGTATTCCCTCGGAAATAAT-GG
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAGGGTTAGAGTA-TCCCTCAGAAATAATGGG
632918 GTTGGAGTATCCCC
65 GTTGGAGTATCCCC
* * ** * * *
632932 AATTGTGGAAAATCAATGTTTTAGAAATAAAATCTA-GGTTAGAGTATCCCATCAAAAATAACGA
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAA-CTAGGGTTAGAGTATCCC-TCAGAAATAATGG
**
632996 GGTTAAAGTATCCCC
64 GGTTGGAGTATCCCC
* * * * * * *
633011 GATGGT-GAAAAATCAGTATTTTAGGATTAAAATTAGGGTTAGAGTATCTCCTCAGAAATAACGG
1 GATGGTGGAAAATTGA-TGTTTTAGAAATAAAACTAGGGTTAGAGTATC-CCTCAGAAATAATGG
*
633075 GGTTGGAGTATCCTC
64 GGTTGGAGTATCCCC
** *
633090 GATAATGGAAAATTGGTGTTTTAGAAATAAAA
1 GATGGTGGAAAATTGATGTTTTAGAAATAAAA
633122 ACATCAATGA
Statistics
Matches: 651, Mismatches: 138, Indels: 55
0.77 0.16 0.07
Matches are distributed among these distances:
77 24 0.04
78 325 0.50
79 283 0.43
80 18 0.03
81 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (78 bp):
GATGGTGGAAAATTGATGTTTTAGAAATAAAACTAGGGTTAGAGTATCCCTCAGAAATAATGGGG
TTGGAGTATCCCC
Found at i:635566 original size:39 final size:39
Alignment explanation
Indices: 635517--635650 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
635507 CATTTACTTA
635517 TGTATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTT
1 TGTATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTT
* * ** *
635556 TGTATTGATACATTT--TAGGCATGTATCGATACA-TAT-ACTT
1 TGTATCGATACATTTCCTTGGCA-GTAT-G---CAGGGTGGCTT
* *
635596 ATGCATTGATACATTTCCTTGGCAGTATGCAGGGTGGCTT
1 -TGTATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTT
635636 TGTATCGATACATTT
1 TGTATCGATACATTT
635651 TAGGCATGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
37 5 0.07
38 6 0.08
39 29 0.40
40 6 0.08
41 16 0.22
42 6 0.08
43 5 0.07
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (39 bp):
TGTATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTT
Found at i:635615 original size:80 final size:80
Alignment explanation
Indices: 635496--635674 Score: 304
Period size: 80 Copynumber: 2.2 Consensus size: 80
635486 CAAATAGTAA
* *
635496 ATGTATTGATACATTTACTTATGTATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTTTGTAT
1 ATGTATCGATACATTTACTTATGCATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTTTGTAT
*
635561 TGATACATTTTAGGC
66 CGATACATTTTAGGC
* *
635576 ATGTATCGATACATATACTTATGCATTGATACATTTCCTTGGCAGTATGCAGGGTGGCTTTGTAT
1 ATGTATCGATACATTTACTTATGCATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTTTGTAT
635641 CGATACATTTTAGGC
66 CGATACATTTTAGGC
*
635656 ATGTATCAATACATTTACT
1 ATGTATCGATACATTTACT
635675 ATTTGTATCA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 92 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (80 bp):
ATGTATCGATACATTTACTTATGCATCGATACATTTCCTTGGCAGTATGCAGGGTGGCTTTGTAT
CGATACATTTTAGGC
Found at i:649220 original size:41 final size:41
Alignment explanation
Indices: 649156--649343 Score: 183
Period size: 41 Copynumber: 4.7 Consensus size: 41
649146 ATTCTTTTTT
649156 TCCTTTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCATC
1 TCCTTTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCATC
* * * * *
649197 TCCTTTTTCCTTTATCCTTAAGGAGCAGGACACATTTCATC
1 TCCTTTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCATC
* *
649238 TTCTTTTCCCTTTGTCCTCAAGGAGCAAGACTCA--T--T-
1 TCCTTTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCATC
* * * *
649274 T--TTTTTCATTTGTCCTCAAAGAGCAAGACCCATTTCATTC
1 TCCTTTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCA-TC
* * * *
649314 TTCTTTTCCCTTTGTCCTTAAGGAGTAAGA
1 TCCTTTTTCCTTTGTCCTCAAGGAGCAAGA
649344 AACATTATTT
Statistics
Matches: 119, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
34 27 0.23
36 2 0.02
37 1 0.01
39 2 0.02
40 1 0.01
41 64 0.54
42 22 0.18
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (41 bp):
TCCTTTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCATC
Found at i:649264 original size:82 final size:76
Alignment explanation
Indices: 649200--649357 Score: 210
Period size: 76 Copynumber: 2.1 Consensus size: 76
649190 CTTCATCTCC
* * * *
649200 TTTTTCCTTTATCCTTAAGGAGCAGGACACATTTCA-TCTTCTTTTCCCTTTGTCCTCAAGGAGC
1 TTTTTCATTTATCCTCAAAGAGCAAGACACATTTCATTCTTCTTTTCCCTTTGTCCTCAAGGAGC
649264 AAGACTCATTT
66 AAGACTCATTT
* * * *
649275 TTTTTCATTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTCTTTTCCCTTTGTCCTTAAGGAGT
1 TTTTTCATTTATCCTCAAAGAGCAAGACACATTTCATTCTTCTTTTCCCTTTGTCCTCAAGGAGC
** *
649340 AAGAAACATTA
66 AAGACTCATTT
649351 TTTTTCA
1 TTTTTCA
649358 CTTTTTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 30 0.42
76 41 0.58
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (76 bp):
TTTTTCATTTATCCTCAAAGAGCAAGACACATTTCATTCTTCTTTTCCCTTTGTCCTCAAGGAGC
AAGACTCATTT
Found at i:649328 original size:42 final size:41
Alignment explanation
Indices: 649160--649423 Score: 172
Period size: 41 Copynumber: 6.6 Consensus size: 41
649150 TTTTTTTCCT
* * * *
649160 TTTTCCTTTGTCCTCAAGGAGCAAGACTCACTTCA-TCTCC
1 TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
* * * * *
649200 TTTTTCCTTTATCCTTAAGGAGCAGGACACATTTCA-TCTTC
1 -TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
*
649241 TTTTCCCTTTGTCCTCAAGGAGCAAGA--C---TCATT-TT-
1 TTTT-CCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
*
649276 TTTTCATTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
1 TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
* * * ** **
649317 TTTTCCCTTTGTCCTTAAGGAGTAAGAAACATTATTTTTCACTT-
1 TTTT-CCTTTGTCCTCAAAGAGCAAGACCCATT-TCATT--CTTC
* * ** * *
649361 TTTTCC-TTATCCTCAAGGAATAGGACCCATTTCATTCTCC
1 TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
*
649401 TTTTCCTTTGTCTTCAAAGAGCA
1 TTTTCCTTTGTCCTCAAAGAGCA
649424 GGACGCTCAC
Statistics
Matches: 175, Mismatches: 33, Indels: 30
0.74 0.14 0.13
Matches are distributed among these distances:
34 20 0.11
35 4 0.02
36 6 0.03
37 1 0.01
39 8 0.05
40 12 0.07
41 71 0.41
42 41 0.23
43 5 0.03
44 4 0.02
45 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (41 bp):
TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTCATTCTTC
Found at i:649536 original size:31 final size:31
Alignment explanation
Indices: 649501--649582 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
649491 CACCCAAGTG
* *
649501 AAAGCCCGCACAAGTTGGTAGCAACCT-AGTC
1 AAAGCTCGCACAAGTTGGCAGC-ACCTGAGTC
* * *
649532 AAAGCTTGCACCAGTTAGCAGCACCTGAGTC
1 AAAGCTCGCACAAGTTGGCAGCACCTGAGTC
649563 AAAGCTCGCACAAGTTGGCA
1 AAAGCTCGCACAAGTTGGCA
649583 CAACTAAGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 4 0.10
31 38 0.90
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (31 bp):
AAAGCTCGCACAAGTTGGCAGCACCTGAGTC
Found at i:649634 original size:61 final size:62
Alignment explanation
Indices: 649501--649642 Score: 162
Period size: 61 Copynumber: 2.3 Consensus size: 62
649491 CACCCAAGTG
* *
649501 AAAGCCCGCACAAGTTGGTAGCAACCTAGTCAAAGCTTGCACCAGTTAGCAGCACCTGAGTC
1 AAAGCCCGCACAAGTTGGCAGCAACCTAGTCAAAGCTTGCACCAGTTAGCAGCACCTCAGTC
* * ** ** *
649563 AAAGCTCGCACAAGTTGGCA-CAA-CTAAGTCTAAGCTTGCATGAGTTAGTGGTACCTCAGTC
1 AAAGCCCGCACAAGTTGGCAGCAACCT-AGTCAAAGCTTGCACCAGTTAGCAGCACCTCAGTC
* *
649624 TAAGCCCGCACGAGTTGGC
1 AAAGCCCGCACAAGTTGGC
649643 GGTTCCTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
60 2 0.03
61 47 0.70
62 18 0.27
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (62 bp):
AAAGCCCGCACAAGTTGGCAGCAACCTAGTCAAAGCTTGCACCAGTTAGCAGCACCTCAGTC
Found at i:651178 original size:79 final size:78
Alignment explanation
Indices: 651088--651657 Score: 441
Period size: 79 Copynumber: 7.2 Consensus size: 78
651078 ATAAAAATAG
* ** * * *
651088 GGTTAGAGTATCCCCTCAAAAACGACGGGGTTGGAGTGTCCCCTATGGTGGAAAATCAATGTTTT
1 GGTTAGAGTATCCCCTCTAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAATGTTTT
651153 AGAAATAAAACTGA
66 AGAAATAAAA-TGA
* * * * * *
651167 GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCGCGATGGTGGAAAATTAATGTTTT
1 GGTTAGAGTATCCCCTCTAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAATGTTTT
*
651232 AGAAATAAAATCGG
66 AGAAATAAAAT-GA
* * * *
651246 GGTT-GAAGTA-CTACCTCGAAAATAAC-GGGTTGGAGTATCCCCGATGGTGGAAAATCAATATT
1 GGTTAG-AGTATC-CCCTCTAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAATGTT
*
651308 TTAGAAATAAAATTA
64 TTAGAAATAAAATGA
* * * * ** **
651323 GGGTTAGAGTATCTCCTCTAAAATGACAGGGTTCGAGTATCCTTGATAGTGGAAAAATTGATGTT
1 -GGTTAGAGTATCCCCTCTAAAATAACGGGGTTGGAGTATCCCCGATAGTGG-AAAATCAATGTT
* *
651388 TTAGGAATAAAATCGG
64 TTAGAAATAAAAT-GA
* * * * * * *
651404 GGTTGGAATATCCTCTCTGAAATAACGGGATTGGAGTATCCCTC-ATAGTGGAAAATCGATATTT
1 GGTTAGAGTATCCCCTCTAAAATAACGGGGTTGGAGTATCCC-CGATAGTGGAAAATCAATGTTT
* *
651468 TAAAAAT-AAATCGT
65 TAGAAATAAAAT-GA
* * ** ** **
651482 GGTTAGAGTATCTCCTCTAAAATGACATGGTTCAAGTATCCCCGATAGTGGAAAAATTGATGTTT
1 GGTTAGAGTATCCCCTCTAAAATAACGGGGTTGGAGTATCCCCGATAGTGG-AAAATCAATGTTT
* *
651547 TAGGAATAAAATCGG
65 TAGAAATAAAAT-GA
* * * * * * * * *
651562 GGTTAGAATATGCTCTC-AGAAATAATGGGGTGGTTGGAGTATCCCTGATGGTGAAAAATCGATA
1 GGTTAGAGTATCCCCTCTA-AAATAA--CGG-GGTTGGAGTATCCCCGATAGTGGAAAATCAATG
*
651626 TTTTAAAAATAAAATTGA
62 TTTTAGAAATAAAA-TGA
651644 GGTTAGAGTATCCC
1 GGTTAGAGTATCCC
651658 TGTAGTGGAA
Statistics
Matches: 390, Mismatches: 83, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
77 1 0.00
78 111 0.28
79 143 0.37
80 84 0.22
82 32 0.08
83 19 0.05
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (78 bp):
GGTTAGAGTATCCCCTCTAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAATGTTTT
AGAAATAAAATGA
Found at i:651486 original size:158 final size:157
Alignment explanation
Indices: 651112--651655 Score: 636
Period size: 158 Copynumber: 3.4 Consensus size: 157
651102 CTCAAAAACG
* * * * *
651112 ACGGGGTTGGAGTGTCCCCTATGGTGGAAAATCAATGTTTTAGAAATAAAA-CTGAGGTTGGAGT
1 ACGGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTAAAAATAAAATC-GAGGTTAGAGT
* * * * * * * *
651176 ATCCCCTCAAAAATAAC-GAGGTTGGAGTATCCGCGATGGTGG-AAAATTAATGTTTTAGAAATA
65 ATCTCCTCTAAAATGACAG-GGTTCGAGTATCCCCGATAGTGGAAAAATTGATGTTTTAGGAATA
651239 AAATCGGGGTTGAAGTACTAC-CTCGAAAATA
129 AAATCGGGGTTGAA-TA-TACTCTCG-AAATA
* *
651270 AC-GGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTAGAAATAAAAT-TAGGGTTAGAGT
1 ACGGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTAAAAATAAAATCGA-GGTTAGAGT
**
651333 ATCTCCTCTAAAATGACAGGGTTCGAGTATCCTTGATAGTGGAAAAATTGATGTTTTAGGAATAA
65 ATCTCCTCTAAAATGACAGGGTTCGAGTATCCCCGATAGTGGAAAAATTGATGTTTTAGGAATAA
*
651398 AATCGGGGTTGGAATATCCTCTCTGAAATA
130 AATCGGGGTT-GAATATACTCTC-GAAATA
* * * *
651428 ACGGGATTGGAGTATCCCTC-ATAGTGGAAAATCGATATTTTAAAAAT-AAATCGTGGTTAGAGT
1 ACGGGGTTGGAGTATCCC-CGATGGTGGAAAATCAATATTTTAAAAATAAAATCGAGGTTAGAGT
* *
651491 ATCTCCTCTAAAATGACATGGTTCAAGTATCCCCGATAGTGGAAAAATTGATGTTTTAGGAATAA
65 ATCTCCTCTAAAATGACAGGGTTCGAGTATCCCCGATAGTGGAAAAATTGATGTTTTAGGAATAA
*
651556 AATCGGGGTTAGAATATGCTCTCAGAAATA
130 AATCGGGGTT-GAATATACTCTC-GAAATA
* * * * *
651586 ATGGGGTGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTAAAAATAAAATTGAGGTTAGA
1 A--CGG-GGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTAAAAATAAAATCGAGGTTAGA
651651 GTATC
63 GTATC
651656 CCTGTAGTGG
Statistics
Matches: 336, Mismatches: 35, Indels: 26
0.85 0.09 0.07
Matches are distributed among these distances:
156 1 0.00
157 88 0.26
158 147 0.44
159 42 0.12
160 3 0.01
161 38 0.11
162 17 0.05
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (157 bp):
ACGGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTAAAAATAAAATCGAGGTTAGAGTA
TCTCCTCTAAAATGACAGGGTTCGAGTATCCCCGATAGTGGAAAAATTGATGTTTTAGGAATAAA
ATCGGGGTTGAATATACTCTCGAAATA
Found at i:651657 original size:51 final size:51
Alignment explanation
Indices: 651593--651691 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
651583 ATAATGGGGT
* *
651593 GGTTGGAGTATCCCTGATGGT-GAAAAATC-GATATTTTAAAAATAAAATTGA
1 GGTTAGAGTATCCCTG-TAGTGGAAAAATCAG-TATTTTAAAAATAAAATTGA
*
651644 GGTTAGAGTATCCCTGTAGTGGAAAAATCAGTGTTTTAAAAATAAAAT
1 GGTTAGAGTATCCCTGTAGTGGAAAAATCAGTATTTTAAAAATAAAAT
651692 CGGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.07
51 39 0.91
52 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.31
Consensus pattern (51 bp):
GGTTAGAGTATCCCTGTAGTGGAAAAATCAGTATTTTAAAAATAAAATTGA
Found at i:651765 original size:129 final size:132
Alignment explanation
Indices: 651516--651787 Score: 340
Period size: 129 Copynumber: 2.1 Consensus size: 132
651506 ACATGGTTCA
* ** * *
651516 AGTATCCCCGATAGTGGAAAAATTGATGTTTTAGGAATAAAATCGGGGTTAGAATATGCTCTCAG
1 AGTATCCCCGATAGTGGAAAAATAGATGTTTTAAAAATAAAATCGGGGTTAG-ATATCCTCTCAA
* * *
651581 AAATAATGGGGTGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTAAAAATAAAATTGAGG
65 AAATAAT-GGGTGGTTGGAGTATCCCGGATGGTGAAAAATAGATATTTTAAAAATAAAACTGAGG
651646 TTAG
129 TTAG
* *
651650 AGTATCCCTG-TAGTGGAAAAATCAG-TGTTTTAAAAATAAAATCGGGATTTAG-TATCCTCTCA
1 AGTATCCCCGATAGTGGAAAAAT-AGATGTTTTAAAAATAAAATCGGG-GTTAGATATCCTCTCA
* *
651712 AAAATAAT-GG-GGTTGGAGTATCCCGGATGGTGAAAAATTAG-TGTTTTAGAAATAAAACTGAG
64 AAAATAATGGGTGGTTGGAGTATCCCGGATGGTGAAAAA-TAGATATTTTAAAAATAAAACTGAG
*
651774 GTTGG
128 GTTAG
651779 AGTATCCCC
1 AGTATCCCC
651788 CTGAAAATAA
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
129 56 0.46
130 4 0.03
132 16 0.13
133 31 0.26
134 14 0.12
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (132 bp):
AGTATCCCCGATAGTGGAAAAATAGATGTTTTAAAAATAAAATCGGGGTTAGATATCCTCTCAAA
AATAATGGGTGGTTGGAGTATCCCGGATGGTGAAAAATAGATATTTTAAAAATAAAACTGAGGTT
AG
Found at i:653919 original size:18 final size:18
Alignment explanation
Indices: 653896--653931 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
653886 AGCCATCAGC
653896 TCAATCTGCCCTTCATTG
1 TCAATCTGCCCTTCATTG
653914 TCAATCTGCCCTTCATTG
1 TCAATCTGCCCTTCATTG
653932 CCATTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.39
Consensus pattern (18 bp):
TCAATCTGCCCTTCATTG
Found at i:654913 original size:42 final size:42
Alignment explanation
Indices: 654850--655138 Score: 237
Period size: 42 Copynumber: 6.8 Consensus size: 42
654840 CTTTGAGGAC
* * *
654850 AAAGGAAAAGAAGTACGTCCTACTCTTCGATGACAAAGGAAA
1 AAAGGAAATGAAGTGCGTCCTACTCTTCGAGGACAAAGGAAA
* *
654892 AAAGGAAATGAAGTGCATCCTACTCTTGGAGGACAAAGGGAAA
1 AAAGGAAATGAAGTGCGTCCTACTCTTCGAGGACAAA-GGAAA
* * *
654935 AGAAGGAAATGAAGTGCGTCCTGA-TCTTTTGAGGATAAAAGAGAA
1 A-AAGGAAATGAAGTGCGTCCT-ACTC-TTCGAGGACAAAGGA-AA
* * * * * *
654980 AAAGGAAATAAAGTGCGTCCAACCCTTCGAGGATAATGG-AG
1 AAAGGAAATGAAGTGCGTCCTACTCTTCGAGGACAAAGGAAA
* * * * *
655021 AAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAGAA
1 AAAGGAAATGAAGTGCGTCCTACTCTTCGAGGACAAAGGA-AA
* * * *
655064 AAA-GAAATAAAGTAG-GTCCTGCTCATT-GAGGACACAGGTAA
1 AAAGGAAATGAAGT-GCGTCCTACTC-TTCGAGGACAAAGGAAA
* * *
655105 AAAGGAAATGAAGTGTGTCTTACTCTTTGAGGAC
1 AAAGGAAATGAAGTGCGTCCTACTCTTCGAGGAC
655139 TAAAAGATGC
Statistics
Matches: 202, Mismatches: 32, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
41 40 0.20
42 81 0.40
43 25 0.12
44 42 0.21
45 14 0.07
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.20
Consensus pattern (42 bp):
AAAGGAAATGAAGTGCGTCCTACTCTTCGAGGACAAAGGAAA
Found at i:654985 original size:44 final size:44
Alignment explanation
Indices: 654890--655084 Score: 156
Period size: 44 Copynumber: 4.5 Consensus size: 44
654880 TGACAAAGGA
* * * * *
654890 AAAAAGGAAATGAAGTGCATCCT-A-CTCTTGGAGGA-CAAAGGG
1 AAAAAGGAAATAAAGTGCGTCCTGATCT-TTTGAGGATAAAAGAG
*
654932 AAAAGAAGGAAATGAAGTGCGTCCTGATCTTTTGAGGATAAAAGAG
1 -AAA-AAGGAAATAAAGTGCGTCCTGATCTTTTGAGGATAAAAGAG
* * * * *
654978 AAAAAGGAAATAAAGTGCGTCC-AACCCTTCGAGGAT-AATG-G
1 AAAAAGGAAATAAAGTGCGTCCTGATCTTTTGAGGATAAAAGAG
* * * *
655019 AGAAAGGAAATAAAGTGCATCCTGCTC-TTTGAGGACAAAAGAG
1 AAAAAGGAAATAAAGTGCGTCCTGATCTTTTGAGGATAAAAGAG
655062 AAAAA-GAAATAAAGTAG-GTCCTG
1 AAAAAGGAAATAAAGT-GCGTCCTG
655085 CTCATTGAGG
Statistics
Matches: 124, Mismatches: 20, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
41 28 0.23
42 22 0.18
43 19 0.15
44 37 0.30
45 11 0.09
46 7 0.06
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (44 bp):
AAAAAGGAAATAAAGTGCGTCCTGATCTTTTGAGGATAAAAGAG
Found at i:655476 original size:62 final size:62
Alignment explanation
Indices: 655127--656802 Score: 1762
Period size: 62 Copynumber: 27.3 Consensus size: 62
655117 GTGTGTCTTA
* * * *
655127 CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAA-AGAAAA--CTTCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGA-AAAAGGCGTCCTG
* * * * *
655187 --CTTTGAAGACTAAATGGTGCCACTAACTCGTGTGGGCTTTAAAAAG-AAAA-GTGTCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * * *
655245 CTCTTTGAGGACTAAAA-GTGCCACCAACTCGTAT-AGCTTTTAAAAG-AAGAGGTGTTCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* *
655304 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGATTTAAAAAG--AAAGACGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * * * *
655364 ATCTTTAAGAACTAAAA-GTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGACGTCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * *
655425 CTCTTTGAGGACTAAAAGATGCCACCAACTCGTATAGGCTTTAAAAAGAAAAAGGTGTCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * * * * * * * *
655487 CTCTTTGAGGACTAAAAGGTGCCACCCGCTCATGTAGGCTGT-GAAAGGAAAATGCATCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* **
655548 CTCTTTGAGGACTAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGAATCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * *
655610 CTCTTTGAGGACTAAACGGTACCACCAACTCATGTGGGCTAT-AAAAGAAAAAGGCATCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * ** * *
655671 CTCTTTTAGGACTAGAAGGTGCCACCAACTCGTATGGGTTTTAAAAA-AAGAAAGATGTCTTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAA-AAAGGCGTCCTG
* * ** * * *
655733 CTCTTTAAGGACTAAAAGGTGCCACCAACTCATGCAGGCTTTAAAAAGGAAAA-GTGTCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * *
655794 CTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGAGCTTT-AAAAGAAAAAGGCGTCATG
1 CTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* ** *
655856 CTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGTATCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * * *
655917 CTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTGT-GAAAGGAAAAGGCGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * *
655978 CTCTATGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT--AAA-AAAAAGGTGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * *
656037 CTCTTTGAGGACTAAATA-GTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAAGCGTCTTA
1 CTCTTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * * *
656098 CTCTTTGAGGACTAGAAGGTGCCACAAACTCGTATGGGTTTTAAAAAGAAAAAGGTGTCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * *
656160 CTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAA-GTGTCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** *
656221 CTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGGGCTTT-AAAAGAAAAAAGGCGTCCTA
1 CTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCGTCCTG
* * *
656284 CTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAATGGCATCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * *
656345 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGGAAAA-GCGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * ** * * ** *
656406 CTCTTTGAGGACTAAAAAAGTGCCACTAGTTAGTGTGGACTTT-AAAAGAAAAAAACGTCTTG
1 CTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * ** *
656468 CTCTTCAAGGACTAAAAAGGTGCCACTAGTTAGTGTGGGCTTT-AAAAGAAAAAGGCGTCCTG
1 CTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * * *
656530 CTCTTTAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTCTAAAAAGAAAAAAGCATCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * *
656592 CTCTTTGAGGACTAAAAGGTGACACCAACTCATGTGGGCTTTGAAAAGAAAAAAGGTGTCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCGTCCTG
* * *
656655 CTCTTTAAAGACTAAATA-GTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAACGGCAAGCATC
1 CTCTTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-GGC--G--TC
*
656719 ATG
60 CTG
* * * *
656722 CTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGG-TTTTAAAAGAAAGAGGCGTCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* *
656783 CTCTTTGAGAACTAGAAGGT
1 CTCTTTGAGGACTAAAAGGT
656803 TAAAGGTGGT
Statistics
Matches: 1369, Mismatches: 211, Indels: 71
0.83 0.13 0.04
Matches are distributed among these distances:
57 4 0.00
58 56 0.04
59 115 0.08
60 59 0.04
61 491 0.36
62 512 0.37
63 76 0.06
64 1 0.00
65 4 0.00
66 13 0.01
67 38 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (62 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
Found at i:655563 original size:123 final size:123
Alignment explanation
Indices: 655127--656802 Score: 1784
Period size: 123 Copynumber: 13.7 Consensus size: 123
655117 GTGTGTCTTA
* ** * * *
655127 CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAA-AAGAAA-ACTTCTTG--C
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAA-AAAGGCGTCCTGCTC
* * * * *
655188 TTTGAAGACTAAATGGTGCCACTAACTCGTGTGGGCTTTAAAAAG-AAAA-GTGTCCTA
65 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * * *
655245 CTCTTTGAGGACTAAAA-GTGCCACCAACTCGTAT-AGCTTTTAAAAG-AAGAGGTGTTCTGCTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGC-TTTAAAAGAAAAAGGCGTCCTGCTC
* *
655307 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGATTTAAAAAG--AAAGACGTCCTG
65 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * *
655364 ATCTTTAAGAACTAAAA-GTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGACGTCCTACTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAA-GAAAAAGGCGTCCTGCTC
* * * * *
655428 TTTGAGGACTAAAAGATGCCACCAACTCGTATAGGCTTTAAAAAGAAAAAGGTGTCTTG
65 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * * * * * * *
655487 CTCTTTGAGGACTAAAAGGTGCCACCCGCTCATGTAGGCTGTGAAAGGAAAATGCATCTTGCTCT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
* **
655552 TTGAGGACTAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGAATCCTG
66 TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * *
655610 CTCTTTGAGGACTAAACGGTACCACCAACTCATGTGGGCTATAAAAGAAAAAGGCATCCTGCTCT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
* * * * ** * *
655675 TTTAGGACTAGAAGGTGCCACCAACTCGTATGGGTTTTAAAAA-AAGAAAGATGTCTTA
66 TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAA-AAAGGCGTCCTG
* ** * * *
655733 CTCTTTAAGGACTAAAAGGTGCCACCAACTCATGCAGGCTTTAAAAAGGAAAA-GTGTCCTACTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAGGCGTCCTGCTC
** * *
655797 TTTGAGGACTAAAAAGGTGCCACCAACTTATGTGAGCTTT-AAAAGAAAAAGGCGTCATG
65 TTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * ** *
655856 CTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGTATCCTACTCT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
** * * *
655921 TTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTGT-GAAAGGAAAAGGCGTCCTG
66 TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* *
655978 CTCTATGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAA-AAAAAGGTGTCCTGCTCT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
* * *
656041 TTGAGGACTAAATA-GTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAAGCGTCTTA
66 TTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * * * * * *
656098 CTCTTTGAGGACTAGAAGGTGCCACAAACTCGTATGGGTTTTAAAAAGAAAAAGGTGTCCTACTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAGGCGTCCTGCTC
* * * *
656163 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAA-GTGTCCTA
65 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* *
656221 CTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAAGGCGTCCTACT
1 CTCTTTGAGGACT-AAAAGGTGCCACCAACTCATGTGGGCTTTAAAAG-AAAAAGGCGTCCTGCT
* * *
656286 CTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAATGGCATCCTG
64 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * *
656345 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGGAAAA-GCGTCCTGCTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAGGCGTCCTGCTC
* * ** * * ** *
656409 TTTGAGGACTAAAAAAGTGCCACTAGTTAGTGTGGACTTT-AAAAGAAAAAAACGTCTTG
65 TTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
** * * *
656468 CTCTTCAAGGACTAAAAAGGTGCCA-CTAGTTAGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCT
1 CTCTTTGAGGACT-AAAAGGTGCCACCAACTCA-TGTGGGCTTTAAAAGAAAAAGGCGTCCTGCT
* * * * * *
656532 CTTTAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTCTAAAAAGAAAAAAGCATCTTG
64 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
* * *
656592 CTCTTTGAGGACTAAAAGGTGACACCAACTCATGTGGGCTTTGAAAAGAAAAAAGGTGTCTTGCT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAG-AAAAAGGCGTCCTGCT
* * * *
656657 CTTTAAAGACTAAATA-GTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAACGGCAAGCATCAT
64 CTTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-GGC--G--TCCT
656721 G
123 G
* * * * *
656722 CTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTAAAAGAAAGAGGCGTCTTGCTCT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
* *
656787 TTGAGAACTAGAAGGT
66 TTGAGGACTAAAAGGT
656803 TAAAGGTGGT
Statistics
Matches: 1314, Mismatches: 202, Indels: 74
0.83 0.13 0.05
Matches are distributed among these distances:
116 4 0.00
117 25 0.02
118 20 0.02
119 83 0.06
120 102 0.08
121 56 0.04
122 116 0.09
123 528 0.40
124 242 0.18
125 61 0.05
126 3 0.00
127 1 0.00
128 26 0.02
129 5 0.00
130 42 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (123 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCT
TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTG
Found at i:670520 original size:9 final size:9
Alignment explanation
Indices: 670498--670561 Score: 74
Period size: 9 Copynumber: 7.0 Consensus size: 9
670488 TCCTTCATAC
*
670498 CAAAAAAAT
1 CAAAAAAAA
*
670507 TAAAAAAAA
1 CAAAAAAAA
670516 CAAAAAAAA
1 CAAAAAAAA
*
670525 CATAAAAAA
1 CAAAAAAAA
*
670534 CATAAAAAA
1 CAAAAAAAA
*
670543 CAAAAAAAC
1 CAAAAAAAA
670552 CAAGAAAAAA
1 CAA-AAAAAA
670562 ATAACAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
9 42 0.89
10 5 0.11
ACGTcount: A:0.81, C:0.11, G:0.02, T:0.06
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:670521 original size:18 final size:18
Alignment explanation
Indices: 670498--670575 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 18
670488 TCCTTCATAC
*
670498 CAAAAAAATTAAAAAAAA
1 CAAAAAAATAAAAAAAAA
*
670516 CAAAAAAA-ACATAAAAAA
1 CAAAAAAATA-AAAAAAAA
*
670534 CATAAAAAACAAAAAAACCAA
1 CA-AAAAAATAAAAAAA--AA
*
670555 GAAAAAAATAACAAAAAAA
1 CAAAAAAATAA-AAAAAAA
670574 CA
1 CA
670576 GAAAGGGGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 17 0.35
19 14 0.29
20 9 0.19
21 8 0.17
ACGTcount: A:0.81, C:0.12, G:0.01, T:0.06
Consensus pattern (18 bp):
CAAAAAAATAAAAAAAAA
Found at i:670559 original size:27 final size:27
Alignment explanation
Indices: 670510--670570 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
670500 AAAAAATTAA
*
670510 AAAAAACAAAAAAAACATAAAAAACAT
1 AAAAAACAAAAAAAACATAAAAAAAAT
*
670537 AAAAAACAAAAAAACCA-AGAAAAAAAT
1 AAAAAACAAAAAAAACATA-AAAAAAAT
670564 AACAAAA
1 AA-AAAA
670571 AAACAGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 25 0.83
28 4 0.13
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (27 bp):
AAAAAACAAAAAAAACATAAAAAAAAT
Found at i:671819 original size:28 final size:28
Alignment explanation
Indices: 671787--672613 Score: 959
Period size: 28 Copynumber: 29.1 Consensus size: 28
671777 TGTTAATCTC
* * * *
671787 TTCAAATCCTACAAGTCAATGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
671815 TTCAAAGCCTACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
671843 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
671871 TTCAAAGCCCACAAGTCA---GCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
671896 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
671924 TTCAAAGCCCAAAAATTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** *
671952 TTCAAAGCCCATGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
* *
671982 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
672010 TTCAAAGCCCACAAGTCAATGGCATCCA
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
672038 TTCAAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
672066 TTCAAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
672094 TTCAAAGCCCA-AGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA-AGTCAGTGGC-A-TCCT
672124 TTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
672152 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * **
672180 TTTAAAGACCACAAGTCAGTGGCATTTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
672208 TTCAAAGCCCACGAGTCGGTGACAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
* *
672238 TTCAAAGCCCACAAGTGAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
672266 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
672295 TTCAAAGCCCACAAGTTAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
672323 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
672351 TTCAAAGCCCACAAGTC-GATGGCATCCT
1 TTCAAAGCCCACAAGTCAG-TGGCATCCT
** * *
672379 TTCAAAGCCCATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
*
672409 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
672437 TTCAAATCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
672466 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
672494 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
672522 TTCCAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
672551 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
*
672583 TTCAAAGCCCACACAAGTTAGTGGCA-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
672612 TT
1 TT
672614 AAAAAAAACC
Statistics
Matches: 691, Mismatches: 81, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.04
27 3 0.00
28 454 0.66
29 79 0.11
30 93 0.13
31 10 0.01
32 21 0.03
33 2 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:672042 original size:114 final size:114
Alignment explanation
Indices: 671787--672613 Score: 1018
Period size: 114 Copynumber: 7.3 Consensus size: 114
671777 TGTTAATCTC
* * * * * *
671787 TTCAAATCCTACAAGTCAATGACATCCTTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* *
671852 CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCA---GCAC-CCT
66 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
671896 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAAAAATTAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
** * *
671961 CATGAGTCAGTGGCAACTCTTTTCAAAGCCCATAAGTCAGTGGCAC-CCT
66 CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
672010 TTCAAAGCCCACAAGTCAATGGCATCCATTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* * *
672075 CACAAATCAGTGGCA-TCCTTTCAAAGCCCA-AGAGTCGGTGGCAACTCTT
66 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACA-AGTCAGTGGC-ACTCTT
* *
672124 TTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGA
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
672188 CCACAAGTCAGTGGCA-TTTTTTCAAAGCCCACGAGTCGGTGACAACTCTT
65 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* * *
672238 TTCAAAGCCCACAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGC
* * *
672303 CCACAAGTTAGTGGCAC-CTTTTCAAAGCCCACAAGTCAATGGCA-TCCT
65 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
** * *
672351 TTCAAAGCCCACAAGTC-GATGGCATCCTTTCAAAGCCCATGAGTCGGTGGCAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAG-TGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAA
* *
672415 GCCCACAAGTCAGTGGCAC-CCTTTCAAATCCCACAAGTCAGTGGCACTCTT
63 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
672466 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCCAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* *
672531 CACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTT
66 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
672583 TTCAAAGCCCACACAAGTTAGTGGCA-CCTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTTT
672614 AAAAAAAACC
Statistics
Matches: 632, Mismatches: 63, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
109 70 0.11
110 2 0.00
111 20 0.03
112 24 0.04
113 76 0.12
114 301 0.48
115 94 0.15
116 10 0.02
117 13 0.02
118 7 0.01
119 15 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (114 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:672332 original size:171 final size:171
Alignment explanation
Indices: 671787--672610 Score: 1044
Period size: 171 Copynumber: 4.8 Consensus size: 171
671777 TGTTAATCTC
* * * * * *
671787 TTCAAATCCTACAAGTCAATGACATCC-TTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
671851 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC---AGC-AC-CCTTTCAAAGCCCACAAG
65 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAG
* * * * *
671911 TCAGTGGCATCCTTTCAAAGCCCAAAAATTAGTGGCA-TCCT
130 TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
** * *
671952 TTCAAAGCCCATGAGTCAGTGGCAACTCTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* * * * * *
672017 CCCACAAGTCAATGGCATCCATTCAAAGCCCACAAATCAGTGGC-A-TCCTTTCAAAGCCCACAA
64 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAA
* * *
672080 ATCAGTGGCATCCTTTCAAAGCCCA-AGAGTCGGTGGCAACTCTT
129 GTCAGTGGCACCCTTTCAAAGCCCACA-AGTCAGTGGC-ACTCTT
* *
672124 TTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGA
1 TTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
** *
672188 CCACAAGTCAGTGGCATTTTTTCAAAGCCCACGAGTCGGTGACAACTCTTTTCAAAGCCCACAAG
65 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAG
*
672253 TGAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
130 TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
672295 TTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
672360 CACAAGTC-GATGGCATCCTTTCAAAGCCCATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAG
66 CACAAGTCAG-TGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAG
*
672424 TCAGTGGCACCCTTTCAAATCCCACAAGTCAGTGGCACTCTT
130 TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
672466 TTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCCAAGC
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* *
672530 CCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCAC
65 CCACAAGTCAGTGGCA-TCCTTTCAAAG-CC-CACGAGTCGGTGGCAACTCTTTTCAAAG-CC-C
*
672595 ACAAGTTAGTGGCACC
125 ACAAGTCAGTGGCACC
672611 TTTAAAAAAA
Statistics
Matches: 580, Mismatches: 56, Indels: 35
0.86 0.08 0.05
Matches are distributed among these distances:
165 18 0.03
166 2 0.00
167 66 0.11
169 3 0.01
170 120 0.21
171 236 0.41
172 87 0.15
173 3 0.01
174 27 0.05
175 2 0.00
176 16 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (171 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGT
CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:672739 original size:45 final size:46
Alignment explanation
Indices: 672669--672791 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 46
672659 CTGTTTGACA
* * * *
672669 TCGCTAGCATTGAATCAGCATATTGGCACATTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATTAGCACATTGGCACATTTCATTAGCCCAATG
* *
672714 TCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATTAGCACATTGG--CACATTT-CATTAGCCCAATG
*
672763 TCGCTGGCCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATTAGCACATTGGCAC
672792 TCCTTTCATC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 22 0.33
47 9 0.13
49 36 0.54
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
TCGCTGGCCTTGAATTAGCACATTGGCACATTTCATTAGCCCAATG
Found at i:676885 original size:17 final size:17
Alignment explanation
Indices: 676853--676904 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
676843 CTTTTATTCC
676853 TTCATTTTGTTT-TTTTT
1 TTCATTTT-TTTCTTTTT
*
676870 TTCATTTTTTTCTTTTC
1 TTCATTTTTTTCTTTTT
*
676887 TT-ATGTTTTTCATTTTT
1 TTCATTTTTTTC-TTTTT
676904 T
1 T
676905 GCTTTTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.79
Consensus pattern (17 bp):
TTCATTTTTTTCTTTTT
Found at i:676920 original size:25 final size:23
Alignment explanation
Indices: 676864--676920 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
676854 TCATTTTGTT
*
676864 TTTTTTTTCATTTTTTTCTTTTC
1 TTTTTTTTCATTTTTTGCTTTTC
676887 TTATGTTTTTCATTTTTTGCTTTTAC
1 TT-T-TTTTTCATTTTTTGCTTTT-C
*
676913 ATTTTTTT
1 TTTTTTTT
676921 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 6 0.21
25 19 0.66
26 2 0.07
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTTTTTTCATTTTTTGCTTTTC
Found at i:682400 original size:20 final size:20
Alignment explanation
Indices: 682377--682421 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
682367 GCAATGAATA
*
682377 ATGTATCGATACATTTACTT
1 ATGTAGCGATACATTTACTT
* *
682397 ATGTAGCGGTACATTTCCTT
1 ATGTAGCGATACATTTACTT
682417 A-GTAG
1 ATGTAG
682422 TATGCAGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (20 bp):
ATGTAGCGATACATTTACTT
Found at i:682599 original size:79 final size:79
Alignment explanation
Indices: 682485--682633 Score: 262
Period size: 79 Copynumber: 1.9 Consensus size: 79
682475 CGATACATTT
682485 ACTATTTGTATCAATACAAATTGTAAAAATTTTGAATTTTTGATCATTGAGACCTTGTATCGATA
1 ACTATTTGTATCAATACAAATTGTAAAAATTTTGAATTTTTGATCATTGAGACCTTGTATCGATA
682550 CATTATATTGATAC
66 CATTATATTGATAC
* * * *
682564 ACTATTTGTATCGATACAAATTGTAGAAATTTTGAATTTTTGATCGTTGGGACCTTGTATCGATA
1 ACTATTTGTATCAATACAAATTGTAAAAATTTTGAATTTTTGATCATTGAGACCTTGTATCGATA
682629 CATTA
66 CATTA
682634 AAGGCAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (79 bp):
ACTATTTGTATCAATACAAATTGTAAAAATTTTGAATTTTTGATCATTGAGACCTTGTATCGATA
CATTATATTGATAC
Found at i:683294 original size:21 final size:20
Alignment explanation
Indices: 683268--683339 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
683258 CTACGATTTA
*
683268 TATCGATACAATCACTAAATG
1 TATCGATAC-ATAACTAAATG
* *
683289 TATCGATACATAAGTGAATG
1 TATCGATACATAACTAAATG
**
683309 TATC-AGTACATGTCTCAAATG
1 TATCGA-TACATAACT-AAATG
683330 TATCGATACA
1 TATCGATACA
683340 AAACCACCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.44
21 21 0.51
22 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACATAACTAAATG
Found at i:689627 original size:44 final size:44
Alignment explanation
Indices: 689400--689676 Score: 220
Period size: 44 Copynumber: 6.3 Consensus size: 44
689390 ACATTCTTGC
* * ** * *
689400 TTGACATATGGTTACCACCCTGGTTAAGTTCTTTTCATTTATG-T
1 TTGACGTATGGTTACCACCTTGGTTAAACTCTTCTCATTT-CGAT
* * * *
689444 TTGACATATGGTTACCA-CTCTGGTTGAACTCTTCTCATTTTGGT
1 TTGACGTATGGTTACCACCT-TGGTTAAACTCTTCTCATTTCGAT
* * * * * * *
689488 ATGACGTATGTTTACTACCTTAGTTAGATTCTTTTCA-TTCTGAT
1 TTGACGTATGGTTACCACCTTGGTTAAACTCTTCTCATTTC-GAT
* * * *
689532 TTGACATATGGTTACCACCTTGGTTAAA-TCTACTCATTCCCAT
1 TTGACGTATGGTTACCACCTTGGTTAAACTCTTCTCATTTCGAT
* *
689575 TTGATGTATGGTTACCACCTTGGTCAAACTCTTCTCATTTCGAT
1 TTGACGTATGGTTACCACCTTGGTTAAACTCTTCTCATTTCGAT
* * ** * * * *
689619 CTGATGTATGGTTACCACCTTGGACAGATTCTTTTCATTTTGAT
1 TTGACGTATGGTTACCACCTTGGTTAAACTCTTCTCATTTCGAT
689663 TTGACGTATGGTTA
1 TTGACGTATGGTTA
689677 TTGTCGCAAC
Statistics
Matches: 187, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
43 38 0.20
44 147 0.79
45 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (44 bp):
TTGACGTATGGTTACCACCTTGGTTAAACTCTTCTCATTTCGAT
Found at i:689639 original size:131 final size:132
Alignment explanation
Indices: 689400--689676 Score: 324
Period size: 131 Copynumber: 2.1 Consensus size: 132
689390 ACATTCTTGC
* ** * **
689400 TTGACATATGGTTACCACCCTGGTTAAGTTCTTTTCATTTATGTTTGACATATGGTTACCACTCT
1 TTGACATATGGTTACCACCCTGGTTAAGATCTACTCATTCACATTTGACATATGGTTACCACTCT
** * * * * **
689465 GGTTGAACTCTTCTCATTTTGGTATGACGTATGTTTACTACCTTAGTTAGATTCTTTTCATTCTG
66 GGTCAAACTCTTCTCATTTCGATATGACGTATGGTTACCACCTTAGACAGATTCTTTTCATTCTG
689530 AT
131 AT
* * **
689532 TTGACATATGGTTACCACCTTGGTTAA-ATCTACTCATTCCCATTTGATGTATGGTTACCAC-CT
1 TTGACATATGGTTACCACCCTGGTTAAGATCTACTCATTCACATTTGACATATGGTTACCACTC-
* * * *
689595 TGGTCAAACTCTTCTCATTTCGATCTGATGTATGGTTACCACCTTGGACAGATTCTTTTCATTTT
65 TGGTCAAACTCTTCTCATTTCGATATGACGTATGGTTACCACCTTAGACAGATTCTTTTCATTCT
689660 GAT
130 GAT
*
689663 TTGACGTATGGTTA
1 TTGACATATGGTTA
689677 TTGTCGCAAC
Statistics
Matches: 121, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
130 1 0.01
131 94 0.78
132 26 0.21
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (132 bp):
TTGACATATGGTTACCACCCTGGTTAAGATCTACTCATTCACATTTGACATATGGTTACCACTCT
GGTCAAACTCTTCTCATTTCGATATGACGTATGGTTACCACCTTAGACAGATTCTTTTCATTCTG
AT
Found at i:697253 original size:28 final size:28
Alignment explanation
Indices: 697221--697287 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
697211 AAAATCAGGA
** *
697221 TTGGAGTATCCCCTCGGAAATAACGGGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
*
697249 TTGGAGTATCCCCGATGAAATAACGAGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
697277 TTGGAGTATCC
1 TTGGAGTATCC
697288 TTGATTGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCGAGGAAATAACGAGG
Found at i:697452 original size:52 final size:52
Alignment explanation
Indices: 697275--697665 Score: 216
Period size: 52 Copynumber: 7.5 Consensus size: 52
697265 GAAATAACGA
** * * * *
697275 GGTTGGAGTATCCTTGATTGTGAAAAAATTGGTGCTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTG-TTTTAGAAATAAAATCGG
* * * * * *
697328 AGCTGGAGTATCCCCAATTAAAGG-AAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGTTTTAGAAATAAAATCGG
* * *
697380 GGTTGGAGTATCCCTGATTATGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTAGAAATAAAATCGG
* * *
697432 GGTTGGAGTATCCCCGATTATGAGAAATAAATA-T-TTTAAG-AATAAAGA-AGG
1 GGTTGGAGTATCCCCGATTATG-GAAA-AATTAGTGTTTTAGAAATAAA-ATCGG
* ** * ** * *
697483 GGTTGGAGTATCCCC---T-CGGAAATAA-CGGGGTTGGAGTATCCCCGATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTATGGAAA-AATTAGTGTTTTAG-A-----AAT-A-AAATCGG
* * * *
697538 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTG--TTTTAGAAATAAAATCGG
* * *
697591 AGTTGGAGTATCCCCGATTAT-AAAAAATTAGTGTTTT-GAAAATAAAAACGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTAG-AAATAAAATCGG
* *
697642 AGTTGGAATATCCCCGATTATGGA
1 GGTTGGAGTATCCCCGATTATGGA
697666 GAATTGAGAA
Statistics
Matches: 263, Mismatches: 49, Indels: 53
0.72 0.13 0.15
Matches are distributed among these distances:
46 7 0.03
47 5 0.02
48 1 0.00
50 1 0.00
51 61 0.23
52 85 0.32
53 61 0.23
54 9 0.03
55 18 0.07
56 1 0.00
57 2 0.01
58 8 0.03
59 1 0.00
60 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTAGAAATAAAATCGG
Found at i:697543 original size:27 final size:28
Alignment explanation
Indices: 697481--697555 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
697471 GAATAAAGAA
***
697481 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
697509 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
697536 GGGGTTGGAGTATCCTCGAT
1 GGGGTTGGAGTATCCCCGAT
697556 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:697601 original size:53 final size:51
Alignment explanation
Indices: 697533--697662 Score: 170
Period size: 51 Copynumber: 2.5 Consensus size: 51
697523 CCCGATGATT
* * * * * *
697533 AACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTTGGAAATAAA
1 AACGGAGTTGGAGTATCCCCGATTATAAAAAATTAGTG--TTTTGAAAATAAA
*
697586 ATCGGAGTTGGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAA
1 AACGGAGTTGGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAA
*
697637 AACGGAGTTGGAATATCCCCGATTAT
1 AACGGAGTTGGAGTATCCCCGATTAT
697663 GGAGAATTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 36 0.53
53 32 0.47
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
AACGGAGTTGGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAA
Found at i:700058 original size:33 final size:33
Alignment explanation
Indices: 700013--700076 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
700003 AACTTCCTAG
* ***
700013 ATGTATCGATACAAAGATCCATGTATCGATATA
1 ATGTATCAATACAAAGAAAAATGTATCGATATA
*
700046 ATGTATCAATACACAGAAAAATGTATCGATA
1 ATGTATCAATACAAAGAAAAATGTATCGATA
700077 CATTTCCTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (33 bp):
ATGTATCAATACAAAGAAAAATGTATCGATATA
Found at i:701169 original size:29 final size:28
Alignment explanation
Indices: 701025--701220 Score: 90
Period size: 28 Copynumber: 7.1 Consensus size: 28
701015 TTGAGGACTG
701025 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
701053 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
701081 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
* ** * *
701108 GAAAGGTG--TCCTGCTT-TTTGGGGAC-TG
1 -AAAGGTGCCACCAACTTGTGT-GGG-CTTT
701135 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
701163 ACAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 A-AAGGTG-CCACCAACTTGTGTGGG-CTTT
701190 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
701218 AAA
1 AAA
701221 AGAAAAGGCG
Statistics
Matches: 115, Mismatches: 34, Indels: 38
0.61 0.18 0.20
Matches are distributed among these distances:
25 6 0.05
26 23 0.20
27 25 0.22
28 34 0.30
29 21 0.18
30 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (28 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:701194 original size:26 final size:26
Alignment explanation
Indices: 701107--701196 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
701097 GTGTGGGCTT
*
701107 TGAAAGGTGTCCTGCTTTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
701133 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
701160 TTTACAAGGTGTCCTGCTCTTTGGGGAC
1 -TGA-AAGGTGTCCTGCTCTTTGGGGAC
701188 TGAAAGGTG
1 TGAAAGGTG
701197 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 8 0.17
28 8 0.17
29 9 0.19
30 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:701273 original size:59 final size:59
Alignment explanation
Indices: 700951--701722 Score: 858
Period size: 55 Copynumber: 13.3 Consensus size: 59
700941 ATAAAGTGTA
* * *
700951 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
701006 TCCTGATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
701061 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
701116 TCCTGCTTTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----ACAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
701171 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
701231 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* ** *
701290 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
* * *
701351 TCCTGCTCTTTAAGGATTGGGAA-ATGCCACCAACTTGTGTGGGCTTTAAAAG----GG-G
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * * *
701406 TTCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAATGACG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
701466 TCCCGCTCTTTGAGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
701525 TCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
701584 TCCCGCTCTTTGAGGACTGAAAGTACCACCAACTTGTGTGGGCTTTAAGAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * * *
701643 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAATGACA
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGGCG
701705 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
701723 AAAAAGCAGA
Statistics
Matches: 628, Mismatches: 63, Indels: 45
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.00
54 3 0.00
55 227 0.36
56 3 0.00
57 1 0.00
59 217 0.35
60 92 0.15
61 56 0.09
62 27 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:701430 original size:235 final size:231
Alignment explanation
Indices: 700951--701722 Score: 973
Period size: 235 Copynumber: 3.3 Consensus size: 231
700941 ATAAAGTGTA
** * * * *
700951 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCCG
*
701011 ATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAG---AGGTGTCCTGCTCTTT
66 CTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGTGTCCTGCTCTTT
* * *
701072 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGTGTCCTGCTTTTTGGGGAC
130 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTGCTCTTTGAGGAC
*
701133 TGAAAGGTGCCACCAACTTGTGTGGGCTTTACAAGGTG
195 TGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
701171 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCG
1 TCCTGCTCTTTGAGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCCG
*
701236 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGTGTCCCGCTCTTT
66 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGAAAAGGTGTCCTGCTCTTT
*
701301 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTAAGG
130 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GA-AAGGCGTCCTGCTCTTTGAGG
* *
701366 ATTGGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGGG
193 ACT--GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * * *
701406 TTCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAATGACGTCCCG
1 TCCTGCTCTTTGAGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCCG
* * * *
701471 CTCTTTGAGGACTGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGTCCTACTCTTT
66 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGAAAAGGTGTCCTGCTCTTT
** *
701536 GAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGA
130 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG-AAAGGCGTCCTGCTCTTTGAGGA
*
701600 CTGAAAGTACCACCAACTTGTGTGGGCTTTAAGAGAAAAGGTG
194 CTGAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTG
* * *
701643 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAATGACATC
1 TCCTGCTCTTTGAGGAC-GGAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGACGTC
*
701707 CTGCTCTTTGAGGACT
63 CCGCTCTTTGAGGACT
701723 AAAAAGCAGA
Statistics
Matches: 486, Mismatches: 37, Indels: 39
0.86 0.07 0.07
Matches are distributed among these distances:
220 43 0.09
224 28 0.06
225 25 0.05
226 2 0.00
229 51 0.10
231 4 0.01
232 22 0.05
233 22 0.05
234 33 0.07
235 172 0.35
236 2 0.00
237 46 0.09
238 11 0.02
239 25 0.05
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (231 bp):
TCCTGCTCTTTGAGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACGTCCCG
CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGTGTCCTGCTCTTTG
AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTGCTCTTTGAGGACT
GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
Found at i:702712 original size:15 final size:15
Alignment explanation
Indices: 702688--702729 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
702678 CTTAAGTAGA
* *
702688 TTTTTCTTTTTTTTT
1 TTTTTGTTTTTTGTT
702703 TTTTTGTTTTTTGTT
1 TTTTTGTTTTTTGTT
702718 TTTTTGTTTTTT
1 TTTTTGTTTTTT
702730 AAAGAGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (15 bp):
TTTTTGTTTTTTGTT
Found at i:715540 original size:13 final size:13
Alignment explanation
Indices: 715522--715547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
715512 CAATTTTTTG
715522 TGTATCGATACAT
1 TGTATCGATACAT
715535 TGTATCGATACAT
1 TGTATCGATACAT
715548 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:733294 original size:17 final size:16
Alignment explanation
Indices: 733272--733305 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
733262 CCCATTTGAA
733272 TTTTTTTT-ATTTTGTT
1 TTTTTTTTCATTTT-TT
733288 TTTTTTTTCATTTTTT
1 TTTTTTTTCATTTTTT
733304 TT
1 TT
733306 AATAACACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.06, C:0.03, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTTTCATTTTTT
Found at i:736728 original size:20 final size:20
Alignment explanation
Indices: 736687--736731 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
736677 GAGATGCTAG
736687 ACATGCTCAAAATGCATGAA
1 ACATGCTCAAAATGCATGAA
736707 ACATAGCTCAAAATGCAT-AA
1 ACAT-GCTCAAAATGCATGAA
736727 ACATG
1 ACATG
736732 GGGCTGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 10 0.42
21 13 0.54
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (20 bp):
ACATGCTCAAAATGCATGAA
Found at i:737656 original size:20 final size:20
Alignment explanation
Indices: 737631--737685 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
737621 AAATTCCCAG
737631 ATGTATCGATACAATGATTA
1 ATGTATCGATACAATGATTA
737651 ATGTATCGATACAATGATTA
1 ATGTATCGATACAATGATTA
*
737671 ATGCATCGATACAAT
1 ATGTATCGATACAAT
737686 ATATCGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGATTA
Found at i:737706 original size:33 final size:33
Alignment explanation
Indices: 737654--737716 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
737644 ATGATTAATG
*
737654 TATCGATACAATGATTAATGCATCGATACAATA
1 TATCGATACAATGAATAATGCATCGATACAATA
* * * *
737687 TATCGATATATTGAATAATGTATTGATACA
1 TATCGATACAATGAATAATGCATCGATACA
737717 TTTCCTTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (33 bp):
TATCGATACAATGAATAATGCATCGATACAATA
Found at i:737861 original size:22 final size:22
Alignment explanation
Indices: 737833--737877 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
737823 AAAATATTTG
*
737833 ACCGTTGGGACCTTGTATCGAT
1 ACCGTTGGGACCTTGGATCGAT
737855 ACCGTTGGGACCTTGGATCGAT
1 ACCGTTGGGACCTTGGATCGAT
737877 A
1 A
737878 TATTCTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (22 bp):
ACCGTTGGGACCTTGGATCGAT
Found at i:738562 original size:30 final size:32
Alignment explanation
Indices: 738491--738562 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
738481 AGAAGGGTTT
* *
738491 CCACCAACTTATGTGGGCTTTAGAGAAAGTTG
1 CCACCGACTTATGTGGGCTTTAGAGAAAGATG
* *
738523 CCACCGACTTGTGTGGGCTTT-GA-AAGGATG
1 CCACCGACTTATGTGGGCTTTAGAGAAAGATG
*
738553 CCACTGACTT
1 CCACCGACTT
738563 TGAAAAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 14 0.40
31 2 0.06
32 19 0.54
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (32 bp):
CCACCGACTTATGTGGGCTTTAGAGAAAGATG
Found at i:738663 original size:28 final size:28
Alignment explanation
Indices: 738621--738929 Score: 288
Period size: 28 Copynumber: 11.0 Consensus size: 28
738611 CTTCGAAATG
* *
738621 GGTGCCATTAGCTTGTGGGCTTTGAGAAA
1 GGTGCCACTAACTTGTGGGCTTTGA-AAA
*
738650 -GTGCCACTAACTTGTAGGCTTT-AAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
738676 GGTGCCACTAACTTGTGGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
738704 GGCGCCACTAACTTGTAGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* ** *
738732 GGTGCTAC-AGACTTACGGGCTTTAAAAA
1 GGTGCCACTA-ACTTGTGGGCTTTGAAAA
* *
738760 GGTGCCACTGACTTGTGTGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * *
738788 TGTGCCATTGACTTGTGGTCTTT-AAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * *
738815 GGATTCTACTAACATGTAGGCTTT-AAGAA
1 GG-TGCCACTAACTTGTGGGCTTTGAA-AA
*
738844 GGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GGTGCCACTAACTTGTGGGCTTTG-AAA-A
** * *
738874 GGTGCCACTGCCTTTTGGGCTTTGAGAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
*
738902 GGTGCCACTGAA-TTGTAGGCTTTGAAAA
1 GGTGCCACT-AACTTGTGGGCTTTGAAAA
738930 TAGGTCGTAT
Statistics
Matches: 227, Mismatches: 43, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.01
27 28 0.12
28 164 0.72
29 7 0.03
30 25 0.11
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (28 bp):
GGTGCCACTAACTTGTGGGCTTTGAAAA
Found at i:738782 original size:84 final size:84
Alignment explanation
Indices: 738585--738872 Score: 268
Period size: 84 Copynumber: 3.4 Consensus size: 84
738575 TGACTGGGCA
* * * * * * * * * *
738585 TTAAGAAGGTCCCACTGACTTGCGAGCTTCGAAATGGGTGCCATTAGCTTGTGGGCTTTGAGAAA
1 TTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-AGGCGCCACTAACTTGTGGTCTTT-A-AAA
* *
738650 -G-TGCCACTAACTTGTAGGCT
63 GGATGCTACTAACATGTAGGCT
*
738670 TT-AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGCGCCACTAACTTGTAGG-CTTTGAAAAG
1 TTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGCGCCACTAACTTGT-GGTCTTT-AAAAG
738733 G-TGCTAC-AGAC-T-TACGGGCT
64 GATGCTACTA-ACATGTA--GGCT
* * * * *
738753 TTAAAAAGGTGCCACTGACTTGTGTGCTTTGAAAATGTGCCATTGACTTGTGGTCTTTAAAAGGA
1 TTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGCGCCACTAACTTGTGGTCTTTAAAAGGA
*
738818 TTCTACTAACATGTAGGCT
66 TGCTACTAACATGTAGGCT
*
738837 TTAAGAAGGTGCCACTGACTTGTGGGCTTTGAAAAG
1 TTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG
738873 AGGTGCCACT
Statistics
Matches: 171, Mismatches: 21, Indels: 23
0.80 0.10 0.11
Matches are distributed among these distances:
81 2 0.01
82 5 0.03
83 41 0.24
84 117 0.68
85 4 0.02
86 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (84 bp):
TTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGCGCCACTAACTTGTGGTCTTTAAAAGGA
TGCTACTAACATGTAGGCT
Found at i:740096 original size:1 final size:1
Alignment explanation
Indices: 740078--740148 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
740068 CATCCGGACC
* * * * * * * * * *
740078 TTTTTTGTTGTTTGTTTTTTTTTTATTTTTTTGTTTTTTTTTTGTGTTTTTGTTTTTGTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
740143 TTTTTT
1 TTTTTT
740149 GCTGAGGATG
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:740110 original size:19 final size:19
Alignment explanation
Indices: 740088--740147 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
740078 TTTTTTGTTG
740088 TTTGTTTTTTTTTTATTTT
1 TTTGTTTTTTTTTTATTTT
* *
740107 TTTGTTTTTTTTTTGTGTT
1 TTTGTTTTTTTTTTATTTT
* *
740126 TTTGTTTTTGTTTTCTTTT
1 TTTGTTTTTTTTTTATTTT
740145 TTT
1 TTT
740148 TGCTGAGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (19 bp):
TTTGTTTTTTTTTTATTTT
Found at i:740127 original size:8 final size:7
Alignment explanation
Indices: 740078--740149 Score: 66
Period size: 6 Copynumber: 11.0 Consensus size: 7
740068 CATCCGGACC
740078 TTTTTTG
1 TTTTTTG
*
740085 TTGTTTG
1 TTTTTTG
740092 TTTTTT-
1 TTTTTTG
*
740098 TTTTAT-
1 TTTTTTG
740104 TTTTTTG
1 TTTTTTG
740111 TTTTTT-
1 TTTTTTG
*
740117 TTTTGTG
1 TTTTTTG
740124 -TTTTTG
1 TTTTTTG
740130 -TTTTTG
1 TTTTTTG
740136 TTTTCTT-
1 TTTT-TTG
740143 TTTTTTG
1 TTTTTTG
740150 CTGAGGATGC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 28 0.52
7 24 0.44
8 2 0.04
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:743214 original size:13 final size:13
Alignment explanation
Indices: 743196--743220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
743186 CATAAAGTGT
743196 TGTATCGATACAA
1 TGTATCGATACAA
743209 TGTATCGATACA
1 TGTATCGATACA
743221 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.