Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 14 of 25
Found at i:1966580 original size:1 final size:1
Alignment explanation
Indices: 1966574--1966653 Score: 61
Period size: 1 Copynumber: 80.0 Consensus size: 1
1966564 GTACAAACAC
* * * * * * * * *
1966574 AAAAAAAAAAACAACACAAAAAAACAAAAACAAAAAAAAAACAACAAAAAAAAACAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1966639 AAAACAACAAAAAAA
1 AAAAAAAAAAAAAAA
1966654 TGTGCAAAGG
Statistics
Matches: 57, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1966585 original size:14 final size:14
Alignment explanation
Indices: 1966568--1966653 Score: 86
Period size: 15 Copynumber: 5.9 Consensus size: 14
1966558 TCAAAAGTAC
1966568 AAACACAAAAAAAA
1 AAACACAAAAAAAA
1966582 AAACAACACAAAAAAA
1 AAAC-ACA-AAAAAAA
*
1966598 CAAAAAC-AAAAAAA
1 -AAACACAAAAAAAA
1966612 AAACAACAAAAAAAA
1 AAAC-ACAAAAAAAA
*
1966627 ACAAAACAAAAAAAA
1 A-AACACAAAAAAAA
1966642 ACAACA-AAAAAA
1 A-AACACAAAAAA
1966654 TGTGCAAAGG
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
13 3 0.05
14 19 0.31
15 26 0.42
16 11 0.18
17 3 0.05
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:1966596 original size:13 final size:13
Alignment explanation
Indices: 1966578--1966653 Score: 73
Period size: 13 Copynumber: 5.5 Consensus size: 13
1966568 AAACACAAAA
1966578 AAAAAAACAACAC
1 AAAAAAACAACAC
*
1966591 AAAAAAACAAAAACAAA
1 AAAAAAAC---AAC-AC
*
1966608 AAAAAAACAACAA
1 AAAAAAACAACAC
*
1966621 AAAAAAACAAAAC
1 AAAAAAACAACAC
1966634 AAAAAAA-AACAAC
1 AAAAAAACAAC-AC
1966647 AAAAAAA
1 AAAAAAA
1966654 TGTGCAAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
12 2 0.04
13 37 0.69
14 3 0.06
16 3 0.06
17 9 0.17
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAACAC
Found at i:1966601 original size:31 final size:30
Alignment explanation
Indices: 1966566--1966653 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
1966556 CCTCAAAAGT
*
1966566 ACAAACACAAAAAAAAAAACAACACAAAAAA
1 ACAAA-ACAAAAAAAAAAACAACAAAAAAAA
1966597 ACAAAA-ACAAAAAAAAAACAACAAAAAAAA
1 ACAAAACA-AAAAAAAAAACAACAAAAAAAA
1966627 ACAAAAC--AAAAAAAAACAACAAAAAAA
1 ACAAAACAAAAAAAAAAACAACAAAAAAA
1966654 TGTGCAAAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
28 20 0.37
29 1 0.02
30 28 0.52
31 5 0.09
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (30 bp):
ACAAAACAAAAAAAAAAACAACAAAAAAAA
Found at i:1966611 original size:30 final size:29
Alignment explanation
Indices: 1966566--1966653 Score: 126
Period size: 28 Copynumber: 3.0 Consensus size: 29
1966556 CCTCAAAAGT
*
1966566 ACAAACACAAAAAAAAAAACAACACAAAAAA
1 ACAAAAAC-AAAAAAAAAACAACA-AAAAAA
1966597 ACAAAAACAAAAAAAAAACAACAAAAAAA
1 ACAAAAACAAAAAAAAAACAACAAAAAAA
1966626 A-ACAAAAC-AAAAAAAAACAACAAAAAAA
1 ACA-AAAACAAAAAAAAAACAACAAAAAAA
1966654 TGTGCAAAGG
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
28 21 0.38
29 12 0.22
30 15 0.27
31 7 0.13
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (29 bp):
ACAAAAACAAAAAAAAAACAACAAAAAAA
Found at i:1967995 original size:30 final size:30
Alignment explanation
Indices: 1967924--1968029 Score: 133
Period size: 31 Copynumber: 3.5 Consensus size: 30
1967914 TTCAAATACC
* * *
1967924 TTCTTAAAGTCCACGACTCAATTGCAATCTT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
1967955 TTCTCAAAGTCCACGACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* *
1967984 TGTCCCAAAGTCCATGACTCAGTGGCATCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATCTT
1968015 TTCTTCAAAGTCCAC
1 TTC-TCAAAGTCCAC
1968030 AATTCCGTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
29 3 0.05
30 28 0.43
31 34 0.52
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:1968040 original size:31 final size:30
Alignment explanation
Indices: 1967924--1968041 Score: 112
Period size: 31 Copynumber: 3.9 Consensus size: 30
1967914 TTCAAATACC
* * * *
1967924 TTCTTAAAGTCCACGACTCAATTGCAATCTT
1 TTCTCAAAGTCCACAACTCAGTGGC-ATCTT
*
1967955 TTCTCAAAGTCCACGACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACAACTCAGTGGCATCTT
* **
1967984 TGTCCCAAAGTCCATGACTCAGTGGCATCTT
1 T-TCTCAAAGTCCACAACTCAGTGGCATCTT
* *
1968015 TTCTTCAAAGTCCACAATTCCGTGGCA
1 TTC-TCAAAGTCCACAACTCAGTGGCA
1968042 CCTTGTTCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.04
30 28 0.38
31 43 0.58
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACAACTCAGTGGCATCTT
Found at i:1968087 original size:27 final size:27
Alignment explanation
Indices: 1968049--1968162 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
1968039 GCACCTTGTT
* * *
1968049 CCTTTGAAGTCCACAACTTTGTAGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
1968076 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
1968103 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* * *
1968130 CCTTTTAAGCCCA-AACCTCCGTGGCAT
1 CCTTTTAAGTCCACAA-CTCTGTGGCAC
1968157 CCTTTT
1 CCTTTT
1968163 TTTCTCACAG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 2 0.03
27 78 0.98
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:1968251 original size:48 final size:48
Alignment explanation
Indices: 1968189--1968658 Score: 411
Period size: 48 Copynumber: 10.0 Consensus size: 48
1968179 ACTTTGTGGC
* *
1968189 ATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
1968237 ACCTTTAAGACCAATGTCGCTGGCCTTGAATCAGC--A----CA--TT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * *
1968277 AGC-ATAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-T
* * * * *
1968327 CATCTTTAAGACCATTGTTGCTGGCGTTGAATCAGCACATTGGCA-C--
1 -ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
1968373 --CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-T
* * * *
1968422 CATCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTC
1 -ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
1968471 ATCTTTAAGACCAATGTCGCTGGCCTTGAATCGGCACATTGGCA-C--
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
1968516 --CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
1968562 GTCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * *
1968610 CATCTTTAAAACCAGTATTGCTGGCCTTGAATCAGCATTTTGGCGCCTT
1 -ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1968659 CATCATCTTT
Statistics
Matches: 340, Mismatches: 54, Indels: 55
0.76 0.12 0.12
Matches are distributed among these distances:
39 27 0.08
40 4 0.01
41 1 0.00
42 2 0.01
43 73 0.21
44 2 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 110 0.32
49 40 0.12
50 2 0.01
51 3 0.01
52 73 0.21
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:1968391 original size:43 final size:43
Alignment explanation
Indices: 1968330--1968609 Score: 218
Period size: 43 Copynumber: 6.1 Consensus size: 43
1968320 CCTTTGTCAT
* * * *
1968330 CTTTAAGACCATTGTTGCTGGCGTTGAATCAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1968373 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* * * *
1968425 CTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA---C
* *
1968471 ATCTTTAAGACCAATGTCGCTGGCCTTGAATCGGCACATTGGCAC
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1968516 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* *
1968560 TTGTCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCAC
1 ----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
1968607 CTT
1 CTT
1968610 CATCTTTAAA
Statistics
Matches: 194, Mismatches: 24, Indels: 38
0.76 0.09 0.15
Matches are distributed among these distances:
43 75 0.39
44 2 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 73 0.38
49 1 0.01
51 1 0.01
52 39 0.20
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1968414 original size:95 final size:95
Alignment explanation
Indices: 1968185--1968646 Score: 406
Period size: 91 Copynumber: 5.0 Consensus size: 95
1968175 CACAACTTTG
* * *
1968185 TGGCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC--T-T-ACCTTTAAG
1 TGGCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAG
*
1968246 ACCAATGTCGCTGGCCTTGAATCAGCACAT
66 ACCAATGTTGCTGGCCTTGAATCAGCACAT
* * *
1968276 TAGCA----TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAG
1 TGGCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAG
* *
1968337 ACCATTGTTGCTGGCGTTGAATCAGCACAT
66 ACCAATGTTGCTGGCCTTGAATCAGCACAT
* * *
1968367 TGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAG
1 TGGCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAG
* * * *
1968432 TCCAATATTGTTGGCCTTGAATCAGCATAT
66 ACCAATGTTGCTGGCCTTGAATCAGCACAT
* * * *
1968462 TGGCACCTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCGGCACATTGGCA-------C--CT
1 TGGCA---C--CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT
* * * * *
1968518 TTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
61 TTAAGACCAATGTTGCTGGCCTTGAATCAGCACAT
* * * *
1968553 TGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACC--T-TCATCT
1 TGGCA-C----CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT
* * *
1968615 TTAAAACCAGTATTGCTGGCCTTGAATCAGCA
61 TTAAGACCAATGTTGCTGGCCTTGAATCAGCA
1968647 TTTTGGCGCC
Statistics
Matches: 316, Mismatches: 34, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
87 38 0.12
89 2 0.01
90 1 0.00
91 125 0.40
93 1 0.00
95 83 0.26
97 29 0.09
98 1 0.00
100 36 0.11
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (95 bp):
TGGCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAG
ACCAATGTTGCTGGCCTTGAATCAGCACAT
Found at i:1968508 original size:143 final size:140
Alignment explanation
Indices: 1968281--1968646 Score: 500
Period size: 143 Copynumber: 2.6 Consensus size: 140
1968271 CACATTAGCA
* * *
1968281 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCATTGTT
1 TAAGACCAATATCGCTGGCCTTAAATCAGCATATTGGCACC--T-TCATCTTTAAGACCAATGTT
* *
1968346 GCTGGCGTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATT
63 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
*
1968411 GGCGCCTTTGTCATCTT
128 GGCACC-TTG---TCTT
* * * * *
1968428 TAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGACCAATGTCGCT
1 TAAGACCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTTGCT
* *
1968492 GGCCTTGAATCGGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1968557 ACCTTGTCTT
131 ACCTTGTCTT
* * * * *
1968567 TAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAAACCAGTATTGCT
1 TAAGACCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTTGCT
1968632 GGCCTTGAATCAGCA
66 GGCCTTGAATCAGCA
1968647 TTTTGGCGCC
Statistics
Matches: 195, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
139 39 0.20
140 33 0.17
142 3 0.02
143 84 0.43
147 36 0.18
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (140 bp):
TAAGACCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTTGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
ACCTTGTCTT
Found at i:1968597 original size:234 final size:238
Alignment explanation
Indices: 1968188--1968765 Score: 704
Period size: 234 Copynumber: 2.4 Consensus size: 238
1968178 AACTTTGTGG
* * * * *
1968188 CATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTACCTTTAAGACCAATG
1 CATCTTTAAGCCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATG
*
1968253 TCGCTGGCCTTGAATCAGCACATTAGCA----TAAGCCCAATATCGCTGGCCTTAAATCAGCATA
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATCGCTGGCCTTAAATCAGCATA
* * * * *
1968314 TTGGCGCCTTTGTCATCTTTAAGACCATTGTTGCTGGCGTTGAATCAGCACATTGGCA-C-CTTT
131 TTGGCACCTTTG--ATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCACTTT
** **
1968377 AAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
194 AAAACCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTCAT
*
1968422 CATCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATG
1 CATCTTTAAGCCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATG
* * * *
1968487 TCGCTGGCCTTGAATCGGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATA
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATCGCTGGCCTTAAATCAGCATA
1968552 TTGGCACC-TTG-TCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCT
131 TTGGCACCTTTGATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCA-C--CA-CT
* *
1968615 TTAAAACCAGTATTGCTGGCCTTGAATCAGCATTTTGGCGCCTTCAT
192 TTAAAACCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTCAT
* * * * * *
1968662 CATCTTTAAAACCCAATGTTGTTGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTC
1 CATCTTT-AAGCCCAATATTGTTGGCCTTGAATCAGCATATTGGCA--C--CTCATCTTTAAGAC
* * * *
1968727 TAATGTCGCTGACCATGAATCAGCACATTGACATCCTTT
61 CAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1968766 TTCTCATCTT
Statistics
Matches: 294, Mismatches: 34, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
234 124 0.42
237 3 0.01
238 38 0.13
240 50 0.17
241 33 0.11
243 1 0.00
245 40 0.14
246 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (238 bp):
CATCTTTAAGCCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATG
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATCGCTGGCCTTAAATCAGCATA
TTGGCACCTTTGATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCACTTTAA
AACCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTCAT
Found at i:1968706 original size:53 final size:49
Alignment explanation
Indices: 1968534--1968707 Score: 197
Period size: 49 Copynumber: 3.5 Consensus size: 49
1968524 CCAATATCGT
* * * *
1968534 TGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTTGC
* * *
1968582 TGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAAACCAGTATTGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTTGC
** * *
1968631 TGGCCTTGAATCAGCATTTTGGCGCCTTCATCATCTTTAAAACCCAATGTTGT
1 TGGCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAAAA-CCAATGTTGC
*
1968684 TGGCCTTGAATTAGCACATTGGCA
1 TGGCCTTGAATCAGCACATTGGCA
1968708 TTCTTCTCAT
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 26 0.25
49 37 0.36
50 1 0.01
52 12 0.12
53 27 0.26
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAACCAATGTTGC
Found at i:1968718 original size:53 final size:50
Alignment explanation
Indices: 1968534--1968756 Score: 191
Period size: 52 Copynumber: 4.4 Consensus size: 50
1968524 CCAATATCGT
* ** * *
1968534 TGGCCTTGAATCAGCATATTGGCAC--CTTGTCTTTAAGACCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCACTTCTCATCTTTAAAACCAATGTTGC
* * * *
1968582 TGGCCTTAAATCAGCACATTGGCACCT-TCATCTTTAAAACCAGTATTGC
1 TGGCCTTGAATCAGCACATTGGCACTTCTCATCTTTAAAACCAATGTTGC
** * *
1968631 TGGCCTTGAATCAGCATTTTGGCGCCTTCATCATCTTTAAAACCCAATGTTGT
1 TGGCCTTGAATCAGCACATTGGC-ACTTC-TCATCTTTAAAA-CCAATGTTGC
* * ** * *
1968684 TGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCA--CTTCTCATCTTTAAAACCAATGTTGC
* *
1968736 TGACCATGAATCAGCACATTG
1 TGGCCTTGAATCAGCACATTG
1968757 ACATCCTTTT
Statistics
Matches: 138, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
48 23 0.17
49 36 0.26
50 2 0.01
52 37 0.27
53 36 0.26
54 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (50 bp):
TGGCCTTGAATCAGCACATTGGCACTTCTCATCTTTAAAACCAATGTTGC
Found at i:1969449 original size:21 final size:19
Alignment explanation
Indices: 1969425--1969478 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
1969415 TTTCAACAAT
1969425 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAA-AGT-A
* * *
1969446 TTGTATCGATGCATAAGTG
1 TTGTATCGATACAAAAGTA
1969465 TTGTATCGATACAA
1 TTGTATCGATACAA
1969479 TGTATCGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTA
Found at i:1969484 original size:13 final size:13
Alignment explanation
Indices: 1969466--1969490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1969456 GCATAAGTGT
1969466 TGTATCGATACAA
1 TGTATCGATACAA
1969479 TGTATCGATACA
1 TGTATCGATACA
1969491 GAAGTGTTCT
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:1969496 original size:32 final size:32
Alignment explanation
Indices: 1969447--1969525 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
1969437 AAACAGTAAT
* * *
1969447 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATACAGAAGTGTTCTATCGATACAA
1969479 TGTATCGATACAGAAGTGTTCTATCGATACAA
1 TGTATCGATACAGAAGTGTTCTATCGATACAA
*
1969511 TGTATCGCTAC-GAAG
1 TGTATCGATACAGAAG
1969526 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.09
32 39 0.91
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAGAAGTGTTCTATCGATACAA
Found at i:1971127 original size:39 final size:39
Alignment explanation
Indices: 1971068--1971144 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
1971058 ACCTTGTCTT
* *
1971068 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCA
* * *
1971107 TAAGCCCAATATCGTTGGCCTTAAATCAGCATATTGGC
1 TAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGC
1971145 GCCTTTGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCA
Found at i:1971256 original size:95 final size:95
Alignment explanation
Indices: 1971018--1971345 Score: 411
Period size: 95 Copynumber: 3.5 Consensus size: 95
1971008 AGTAACACTG
*
1971018 TTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATG
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATG
1971079 TCGCTGGCCTTGAATCAGCACATTGGCA--
66 TCGCTGGCCTTGAATCAGCACATTGGCACC
* * *
1971107 --TAAGCCCAATATCGTTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATG
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATG
*
1971170 TCGCTGGCCTTGAATCGGCACATTGGCACC
66 TCGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
1971200 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAGTGGCACCTTTGTCATCTTTAAGTCCAATA
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATG
* * *
1971265 TCGTTGGCCTTGAATCAACATATTGGCATCTCATC
66 TCGCTGGCCTTGAATCAGCACATTGGCA---C--C
* * * *
1971300 TTTAAGACCAATGTCGCTGGCCTTGAATCGGCACATTGGCACCTTT
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1971346 AAGTCCAATA
Statistics
Matches: 207, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
87 39 0.19
88 3 0.01
91 42 0.20
95 80 0.39
98 1 0.00
100 42 0.20
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (95 bp):
TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATG
TCGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:1971364 original size:91 final size:91
Alignment explanation
Indices: 1971251--1972071 Score: 1268
Period size: 91 Copynumber: 9.0 Consensus size: 91
1971241 CCTTTGTCAT
* * *
1971251 CTTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCATCTCATCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
1971316 CTGGCCTTGAATCGGCACATTGGCAC
66 CTGGCCTTGAATCGGCACATTGGCAC
*
1971342 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTCATCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
*
1971407 CTGGCCTTAAATCGGCACATTGGCAC
66 CTGGCCTTGAATCGGCACATTGGCAC
* **
1971433 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATCAGCACCTCATCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
* *
1971498 CTGGCTTTGAATTGGCACATTGGCAC
66 CTGGCCTTGAATCGGCACATTGGCAC
* *
1971524 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
* *
1971589 CTAGCCTTGAATCGGCACATTGGCAT
66 CTGGCCTTGAATCGGCACATTGGCAC
* * *
1971615 CTTTAAGTCCTATATCGCTGGCCTTGAATCAGCATATCGACACCTCATCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
*
1971680 CTGGCCTTGAATCGGCACATTAGCAC
66 CTGGCCTTGAATCGGCACATTGGCAC
1971706 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
*
1971771 CTAGCCTTGAATCGGCACATTGGCAC
66 CTGGCCTTGAATCGGCACATTGGCAC
* * * *
1971797 CTTTAAGTCCAATATCACTGGCCTTGAATCAACTTATTGGCACCTCATCTTTAAGACTAATGT--
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
*
1971860 CTGGCCTTGAATCAGCACATTGGCAC
66 CTGGCCTTGAATCGGCACATTGGCAC
**
1971886 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
* * * *
1971951 TTGGCCGTGAATCAGCACATTGGCAT
66 CTGGCCTTGAATCGGCACATTGGCAC
* * * *
1971977 CTTTAAGTCCAATTTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAGTATC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGACCAATGTC
* * * * *
1972042 ACTAGCCGTGAATCAGCATATTGGCAC
65 GCTGGCCTTGAATCGGCACATTGGCAC
1972069 CTT
1 CTT
1972072 CATCATCTTT
Statistics
Matches: 669, Mismatches: 58, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
89 81 0.12
91 547 0.82
92 41 0.06
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (91 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCGGCACATTGGCAC
Found at i:1972959 original size:13 final size:13
Alignment explanation
Indices: 1972941--1972968 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1972931 CATTACTCAA
1972941 TGTATCGATACAT
1 TGTATCGATACAT
1972954 TGTATCGATACAT
1 TGTATCGATACAT
1972967 TG
1 TG
1972969 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1972963 original size:33 final size:33
Alignment explanation
Indices: 1972921--1972985 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1972911 GCCAAGGAAA
1972921 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1972954 TGTATCGATACATTGATCTTTGTATCGATACA
1 TGTATCGATACATTGATCAATGTATCGATACA
1972986 GTTGGGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1976707 original size:50 final size:49
Alignment explanation
Indices: 1976648--1976783 Score: 209
Period size: 50 Copynumber: 2.7 Consensus size: 49
1976638 TTTTCACAAT
*
1976648 ATGTATCGATACATTATTCATTGTATCGATACATTTTGGGTTTTACCCAA
1 ATGTATCGATACATT-TTCATTGTATCGATACATTCTGGGTTTTACCCAA
* *
1976698 ATGTATCGATACATTTTTCATTGTATCGATACATTCTGGTTTTTACCCAG
1 ATGTATCGATACA-TTTTCATTGTATCGATACATTCTGGGTTTTACCCAA
*
1976748 ATGTATCGATACATTTCTCAATGTATCGATACATTC
1 ATGTATCGATACATTT-TCATTGTATCGATACATTC
1976784 AGGCATTTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
49 3 0.04
50 75 0.94
51 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (49 bp):
ATGTATCGATACATTTTCATTGTATCGATACATTCTGGGTTTTACCCAA
Found at i:1979263 original size:79 final size:78
Alignment explanation
Indices: 1979180--1979596 Score: 349
Period size: 79 Copynumber: 5.2 Consensus size: 78
1979170 TCCATCATTG
* * *
1979180 GGGATACTCCAACCCCATTATTTTCAAGAGGATACTCCAACCTCGACTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACC-CGACTTTATTTCTAAAACATCG
*
1979245 ATTTTTCATAATCA
65 ATTTTTCACAATCA
* * * *
1979259 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCT
1 GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCGA-CTTTATTTCTAAAACATCG
*
1979324 TTTTTTCACAATC-
65 ATTTTTCACAATCA
* * * * *
1979337 GGGAATACTCCAACCCACCTCGATATTTCTGAGGGGATACTCCAACCCCGGCCTTACTTC-AAAA
1 GGG-ATACTCCAACCC-CAT-TAT-TTTC-GAGGGGATACTCCAA-CCCGACTTTATTTCTAAAA
* * * *
1979401 CATTGATTTTCCGCAATTA
60 CATCGATTTTTCACAATCA
* * ***
1979420 GGGATACTCCAA-CCCAGTTA-TTTCTGAGGGGATACTCCAGCCCTGATTTTATATAAAAAAAAA
1 GGGATACTCCAACCCCA-TTATTTTC-GAGGGGATACTCCAACCC-GACTTTAT-T--TCTAAAA
* * *
1979483 AATC-ATTTTTCACCATCG
60 CATCGATTTTTCACAATCA
* * * * * *
1979501 GGGATACTCTAACCCCGTTATTTTTGAGGGGATGCTCCAACCCTGACTTTGTTCCTAAAACATCG
1 GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCC-GACTTTATTTCTAAAACATCG
* *
1979566 ATTTTCCATAATCA
65 ATTTTTCACAATCA
*
1979580 GGAATACTCCAACCCCA
1 GGGATACTCCAACCCCA
1979597 ATTTTTATTT
Statistics
Matches: 266, Mismatches: 55, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
77 3 0.01
78 35 0.13
79 104 0.39
80 5 0.02
81 51 0.19
82 41 0.15
83 24 0.09
84 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (78 bp):
GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCGACTTTATTTCTAAAACATCGA
TTTTTCACAATCA
Found at i:1979979 original size:17 final size:17
Alignment explanation
Indices: 1979957--1979991 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1979947 AATTTGTCTG
1979957 TTATTTTCCTTTTTTAC
1 TTATTTTCCTTTTTTAC
1979974 TTATTTTCCTTTTTTAC
1 TTATTTTCCTTTTTTAC
1979991 T
1 T
1979992 AACATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTCCTTTTTTAC
Found at i:1980001 original size:19 final size:17
Alignment explanation
Indices: 1979962--1980005 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1979952 GTCTGTTATT
* *
1979962 TTCCTTTTTTACTTATT
1 TTCCTTTTTTACTCATA
1979979 TTCCTTTTTTACTAACATA
1 TTCCTTTTTTACT--CATA
1979998 TTCCTTTT
1 TTCCTTTT
1980006 CATAGGGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 13 0.57
19 10 0.43
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCCTTTTTTACTCATA
Found at i:1988740 original size:27 final size:29
Alignment explanation
Indices: 1988701--1988756 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
1988691 TTACAATCGG
*
1988701 GGATACTCTAACC-CCG-TTATTTTTAAA
1 GGATACTCCAACCTCCGTTTATTTTTAAA
*
1988728 GGATACTCCAACCTCGGTTTATTTTTAAA
1 GGATACTCCAACCTCCGTTTATTTTTAAA
1988757 ACATCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.48
28 2 0.08
29 11 0.44
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (29 bp):
GGATACTCCAACCTCCGTTTATTTTTAAA
Found at i:1988831 original size:51 final size:49
Alignment explanation
Indices: 1988728--1988854 Score: 141
Period size: 51 Copynumber: 2.6 Consensus size: 49
1988718 TATTTTTAAA
* ** * *
1988728 GGATACTCCAACCTCGGTTTATTTTTAAAACATCAATTTTATGTAATTGG
1 GGATACTCCAACC-CCGTTTATTTCCAAAACATCAATTTTATCTAATCGG
*
1988778 GGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCTACT-ATCGG
1 GGATACTCCAACCCC-G-TTTATTTCCAAAACATCAATTTTAT-CTAATCGG
*
1988829 GGATACTCTAACCCCG-TTATTTCCAA
1 GGATACTCCAACCCCGTTTATTTCCAA
1988855 GGGGGATACT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
48 10 0.15
49 1 0.01
50 15 0.22
51 40 0.60
52 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (49 bp):
GGATACTCCAACCCCGTTTATTTCCAAAACATCAATTTTATCTAATCGG
Found at i:1988909 original size:80 final size:80
Alignment explanation
Indices: 1988776--1988924 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
1988766 TTATGTAATT
* * *
1988776 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCTACTATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCAGTTTCATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCCAAC
1988841 CCCGTTATTTCCAAG
66 CCCGTTATTTCCAAG
* * * *
1988856 GGGGATACTCTAGCTCCAGTTTCATTTCTAAAACATCAATTTT-TCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCAGTTTCATTTCCAAAACATCAATTTTCT-ACAATCGGGGATACTCCAA
1988920 CCCCG
65 CCCCG
1988925 ATTTTATTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (80 bp):
GGGGATACTCCAACCCCAGTTTCATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCCAAC
CCCGTTATTTCCAAG
Found at i:1988936 original size:131 final size:128
Alignment explanation
Indices: 1988667--1989111 Score: 576
Period size: 131 Copynumber: 3.4 Consensus size: 128
1988657 TCATTTATGT
* ** *
1988667 TTTTATTTCCAAAACACCAATGTTT-TACAATCGGGGATACTCTAACCCCGTTATTTTTAA-AGG
1 TTTTATTTCCAAAACATCAAT-TTTCTACAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGG
* * ** *
1988730 ATACTCCAACCTCGGTTTATTTTTAAAACATCAATTTTAT-GTAATTGGGGATACTCCAACCCC-
65 ATACTCTAACC-CGGTTTATTTCTAAAACATCAATTTT-TCACAATCGGGGATACTCCAACCCCG
1988793 A
128 A
*
1988794 GTTTTATTTCCAAAACATCAATTTTCTACTATCGGGGATACTCTAACCCCGTTATTTCCAAGGGG
1 -TTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCTAACCCCGTTATTTCCAA-GGG
* *
1988859 GATACTCTAGCTCCAGTTTCATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
64 GATACTCTAAC-CCGGTTT-ATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
1988924 GA
127 GA
** * * *
1988926 TTTTATTTCCAAAACATTGATTTTCCACCATCAGGGATACTCTAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGA
* *
1988991 TACTCTAACCCTGGTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACTCCGA
66 TACTCTAACCC-GG-TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGA
* * *
1989056 TTTTATTTCTATAACATCAATTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTC
1 TTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCTAACCCCGTTATTTC
1989112 ATCGAGGATA
Statistics
Matches: 280, Mismatches: 28, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
127 3 0.01
128 52 0.19
129 30 0.11
130 96 0.34
131 98 0.35
132 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (128 bp):
TTTTATTTCCAAAACATCAATTTTCTACAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGA
TACTCTAACCCGGTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGA
Found at i:1988974 original size:51 final size:52
Alignment explanation
Indices: 1988857--1988975 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 52
1988847 ATTTCCAAGG
* * * * *
1988857 GGGATACTCTAGCTCC-AGTTTCATTTCTAAAACATCAATTTTTCACAATCG
1 GGGATACTCTAACCCCGAGTTTCATTTCCAAAACATCAATTTTCCACAATCA
* * ** *
1988908 GGGATACTCCAACCCCGA-TTTTATTTCCAAAACATTGATTTTCCACCATCA
1 GGGATACTCTAACCCCGAGTTTCATTTCCAAAACATCAATTTTCCACAATCA
1988959 GGGATACTCTAACCCCG
1 GGGATACTCTAACCCCG
1988976 TTATTTCCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (52 bp):
GGGATACTCTAACCCCGAGTTTCATTTCCAAAACATCAATTTTCCACAATCA
Found at i:1989042 original size:51 final size:49
Alignment explanation
Indices: 1988986--1989102 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 49
1988976 TTATTTCCAA
* *
1988986 GGGGATACTCTAACCCTGGTTTTATTTCTAAAACATCAATTTTCCACAATC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAACATCAATTTT-CACAATC
*
1989037 GGGGATACTCCAACTCCGATTTTATTTCTATAACATCAATTTTCACAATC
1 GGGGATACTCCAAC-CCGATTTTATTTCTAAAACATCAATTTTCACAATC
1989087 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1989103 CGTTATTTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
49 2 0.03
50 21 0.34
51 37 0.60
52 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (49 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACATCAATTTTCACAATC
Found at i:1989120 original size:28 final size:28
Alignment explanation
Indices: 1989084--1989160 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
1989074 AATTTTCACA
*
1989084 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1989112 ATCGAGGATACTCCAACCCCATTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
1989140 -T-GAAGGGATACTCCAACCCCG
1 ATCG-A-GGATACTCCAACCCCG
1989161 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 41 0.93
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1989211 original size:51 final size:51
Alignment explanation
Indices: 1989144--1989259 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
1989134 TATTTCTGAA
* * *
1989144 GGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTCTCACAATCG
1 GGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTCTCACAATCG
* * * * *
1989195 GGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCG
1 GGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTCTCACAATCG
* *
1989246 AGGATACTCTAACC
1 GGGATACTCCAACC
1989260 TTGTTATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (51 bp):
GGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTCTCACAATCG
Found at i:2001739 original size:1 final size:1
Alignment explanation
Indices: 2001735--2001840 Score: 86
Period size: 1 Copynumber: 106.0 Consensus size: 1
2001725 ATTATTTTTT
* * * * * * * * **
2001735 AAAAAAACAGAAAAAATAGAAAAAATAAAAAAAACAAAAAAAAACAAAACAAAAAAAAAACCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
2001800 AAAAACAAAAAAAAAACAAAAAAATAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2001841 GAGAGAAAAG
Statistics
Matches: 79, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (1 bp):
A
Found at i:2001750 original size:10 final size:9
Alignment explanation
Indices: 2001735--2001840 Score: 101
Period size: 9 Copynumber: 11.8 Consensus size: 9
2001725 ATTATTTTTT
2001735 AAAAAAACA
1 AAAAAAACA
* *
2001744 GAAAAAATA
1 AAAAAAACA
* *
2001753 GAAAAAATA
1 AAAAAAACA
2001762 AAAAAAACAA
1 AAAAAAAC-A
2001772 AAAAAAACA
1 AAAAAAACA
*
2001781 AAACAAA-A
1 AAAAAAACA
*
2001789 AAAAAACCA
1 AAAAAAACA
2001798 AAAAAAACA
1 AAAAAAACA
2001807 AAAAAAA-A
1 AAAAAAACA
2001815 ACAAAAAA-A
1 A-AAAAAACA
*
2001824 TAAAAAAAGA
1 -AAAAAAACA
2001834 AAAAAAA
1 AAAAAAA
2001841 GAGAGAAAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
8 8 0.10
9 65 0.77
10 11 0.13
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2001763 original size:26 final size:23
Alignment explanation
Indices: 2001735--2001839 Score: 99
Period size: 24 Copynumber: 4.3 Consensus size: 23
2001725 ATTATTTTTT
2001735 AAAAAAACAGAAAAAATAGAAAAAATA
1 AAAAAAACA-AAAAAAT--AAAAAA-A
2001762 AAAAAAACAAAAAAA-AACAAAACA
1 AAAAAAACAAAAAAATAA-AAAA-A
*
2001786 AAAAAAA-AACCAAAAA-AAACAAA
1 AAAAAAACAA--AAAAATAAAAAAA
2001809 AAAAAAACAAAAAAATAAAAAAA
1 AAAAAAACAAAAAAATAAAAAAA
2001832 GAAAAAAA
1 -AAAAAAA
2001840 AGAGAGAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
22 5 0.07
23 18 0.26
24 24 0.35
25 7 0.10
26 6 0.09
27 9 0.13
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (23 bp):
AAAAAAACAAAAAAATAAAAAAA
Found at i:2001765 original size:27 final size:24
Alignment explanation
Indices: 2001735--2001840 Score: 108
Period size: 26 Copynumber: 4.2 Consensus size: 24
2001725 ATTATTTTTT
*
2001735 AAAAAAACAGAAAAAATAGAAAAAATA
1 AAAAAAACA-AAAAAA-ACAAAAAA-A
2001762 AAAAAAACAAAAAAAAACAAAACAAA
1 AAAAAAAC-AAAAAAAACAAAA-AAA
2001788 AAAAAAACCAAAAAAAACAAAAAAA
1 AAAAAAA-CAAAAAAAACAAAAAAA
* * *
2001813 AAACAAA-AAAATAAA-AAAAGAA
1 AAAAAAACAAAAAAAACAAAAAAA
2001835 AAAAAA
1 AAAAAA
2001841 GAGAGAAAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
22 11 0.15
23 7 0.10
25 9 0.13
26 26 0.37
27 17 0.24
28 1 0.01
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (24 bp):
AAAAAAACAAAAAAAACAAAAAAA
Found at i:2001840 original size:26 final size:24
Alignment explanation
Indices: 2001735--2001840 Score: 106
Period size: 23 Copynumber: 4.3 Consensus size: 24
2001725 ATTATTTTTT
*
2001735 AAAAAAACAGAAAAAATAGAAAAAATA
1 AAAAAAACA-AAAAAA-A-AAAAAAAA
* *
2001762 AAAAAAACAAAAAAAAACAAAACA
1 AAAAAAACAAAAAAAAAAAAAAAA
** *
2001786 AAAAAAA-AACCAAAAAAAACAAA
1 AAAAAAACAAAAAAAAAAAAAAAA
*
2001809 AAAAAAACAAAAAAATAAAAAAAGA
1 AAAAAAACAAAAAAA-AAAAAAAAA
2001834 AAAAAAA
1 AAAAAAA
2001841 GAGAGAAAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.27
24 18 0.27
25 15 0.23
26 6 0.09
27 9 0.14
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (24 bp):
AAAAAAACAAAAAAAAAAAAAAAA
Found at i:2001849 original size:26 final size:23
Alignment explanation
Indices: 2001735--2001840 Score: 106
Period size: 25 Copynumber: 4.3 Consensus size: 23
2001725 ATTATTTTTT
2001735 AAAAAAACAGAAAAAATAGAAAAAATA
1 AAAAAAACA-AAAAAA-A-AAAAAA-A
2001762 AAAAAAACAAAAAAAAACAAAACAA
1 AAAAAAACAAAAAAAAA-AAAA-AA
** *
2001787 AAAAAAA-ACCAAAAAAAACAAA
1 AAAAAAACAAAAAAAAAAAAAAA
2001809 AAAAAAACAAAAAAATAAAAAAAGA
1 AAAAAAACAAAAAAA-AAAAAAA-A
2001834 AAAAAAA
1 AAAAAAA
2001841 GAGAGAAAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
22 9 0.13
23 8 0.12
24 14 0.21
25 21 0.31
26 7 0.10
27 9 0.13
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (23 bp):
AAAAAAACAAAAAAAAAAAAAAA
Found at i:2002907 original size:116 final size:118
Alignment explanation
Indices: 2002693--2003039 Score: 472
Period size: 116 Copynumber: 2.9 Consensus size: 118
2002683 TTTAGTGAGG
* * * * *
2002693 CTTTAAAAGTCCACACAAGTTGGTGACACCTTCTAGTCCTCGAAGAGCAGGATGCCTTTT-TCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCT-TT
*
2002757 TTAACGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGATG-C-
65 TTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCAGGATGCCT
*
2002809 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT
2002874 TAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
66 TAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCC---T
* * * *
2002930 CTTTTTAAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAAAGCAGGACGTCTTCTTC-T
1 C-TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTT-TTCTT
* *
2002993 TTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
64 TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCA
2003040 TTGCGCCTTT
Statistics
Matches: 208, Mismatches: 14, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
116 102 0.49
117 5 0.02
121 69 0.33
122 32 0.15
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (118 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT
TAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCT
Found at i:2003056 original size:61 final size:60
Alignment explanation
Indices: 2002693--2003039 Score: 474
Period size: 61 Copynumber: 5.8 Consensus size: 60
2002683 TTTAGTGAGG
* * * * * *
2002693 CTTTAAAAGTCCACACAAGTTGGTGACACCTTCTAGTCCTCGAAGAGCAGGATGCCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCC-TTTT
*
2002754 CTTTTAACGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGATG-C----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCAGGATGCCTTTT
2002809 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
2002869 CTTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
1 C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * *
2002930 CTTTTTAAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAAAGCAGGACGTCTTCTT
1 C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTT-TT
* *
2002991 CTTTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCA
2003040 TTGCGCCTTT
Statistics
Matches: 259, Mismatches: 17, Indels: 20
0.88 0.06 0.07
Matches are distributed among these distances:
55 49 0.19
56 4 0.02
60 54 0.21
61 152 0.59
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (60 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:2003196 original size:89 final size:89
Alignment explanation
Indices: 2003083--2003319 Score: 343
Period size: 89 Copynumber: 2.7 Consensus size: 89
2003073 GCAGGATGCC
* * *
2003083 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCATGACACACTTCATTTCCTTCTTTTCCTTTCTAGT
1 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCCTTCTAGT
2003148 TCTCAAAGAGCAGGATGCACTTTA
66 TCTCAAAGAGCAGGATGCACTTTA
* *
2003172 TTTTCCTTTTTTCCTTTCTCCTCAAAGAGTAGGACACACTTCATTTCCTTCTTTTCCCTTCTAGT
1 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCCTTCTAGT
*
2003237 TCTCAAAGAGTAGGATGCACTTTA
66 TCTCAAAGAGCAGGATGCACTTTA
* * * ** *
2003261 TTTTTC-TTTATCTTTTATCCTCAAAGAGCAGGATGCATTTCATTTTCCTT-TTTTCCCTT
1 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACACACTTCA-TTTCCTTCTTTTCCCTT
2003320 TATCCTTGGA
Statistics
Matches: 134, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
88 38 0.28
89 96 0.72
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (89 bp):
TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCCTTCTAGT
TCTCAAAGAGCAGGATGCACTTTA
Found at i:2003212 original size:43 final size:43
Alignment explanation
Indices: 2003083--2003325 Score: 224
Period size: 46 Copynumber: 5.5 Consensus size: 43
2003073 GCAGGATGCC
* * ** *
2003083 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCATGACACACTTCA
1 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGATGCACTTTA
*
2003126 -TTTCCTTCTTTTCCTTTCTAGTTCTCAAAGAGCAGGATGCACTTTA
1 TTTTCCTT-TTTTCC-TT-TA-TCCTCAAAGAGCAGGATGCACTTTA
* * ** *
2003172 TTTTCCTTTTTTCCTTTCTCCTCAAAGAGTAGGACACACTTCA
1 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGATGCACTTTA
* *
2003215 -TTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGTAGGATGCACTTTA
1 TTTTCCTT-TTTT-CCTT-TA-TCCTCAAAGAGCAGGATGCACTTTA
* * *
2003261 TTTTTC-TTTATCTTTTATCCTCAAAGAGCAGGATGCA-TTTCA
1 TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGATGCACTTT-A
2003303 TTTTCCTTTTTTCCCTTTATCCT
1 TTTTCCTTTTTT-CCTTTATCCT
2003326 TGGAAAGCAG
Statistics
Matches: 162, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.02
42 38 0.23
43 36 0.22
44 19 0.12
45 7 0.04
46 48 0.30
47 11 0.07
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.45
Consensus pattern (43 bp):
TTTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGATGCACTTTA
Found at i:2006580 original size:51 final size:51
Alignment explanation
Indices: 2006472--2006587 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
2006462 TTATTTTCGA
*
2006472 GGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTATACAATCG
1 GGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTACACAATCG
** * * * *
2006523 AAGATACTCCAACCTCGGTTTTATTT-TCAAAACATCGATTTTCCACCATCG
1 GGGATACTCCAACCTCAGTTTTATTTCT-AAAACATCAATTTTACACAATCG
*
2006574 GGGATACTCTAACC
1 GGGATACTCCAACC
2006588 CTGTTATTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTACACAATCG
Found at i:2006652 original size:130 final size:129
Alignment explanation
Indices: 2006412--2006875 Score: 585
Period size: 130 Copynumber: 3.6 Consensus size: 129
2006402 TCATTCATGT
* ** *
2006412 TTTTATTTTCAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGAT
1 TTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCAAGGGAT
* * **
2006477 ACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTATACAATCGAAGATACTCCAACCTCGG
66 ACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTACACAATCGGGGATACTCCAACCTCGG
* * *
2006541 TTTTATTTTCAAAACATCGATTTTCCACCATCGGGGATACTCTAACCCTGTTATTTTCAAGAGGA
1 TTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCAAG-GGA
* * * * *
2006606 TACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACCCCAG
65 TACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTACACAATCGGGGATACTCCAACCTCGG
* ** * * *
2006671 TTTTATTTCCAAAACATTGATTTTCCACCATCGGGGATACTCTAACCCTGTTATTTCCAAGGAGA
1 TTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCAAGG-GA
*
2006736 TACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAA-CTCCG
65 TACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTACACAATCGGGGATACTCCAACCT-CG
*
2006800 A
129 G
* * * *
2006801 TTTTA-TTTCTATAACATCAATATTT-CACAATCGAGGATACTCCAACCCCGTTA-TTTCATCGA
1 TTTTATTTTC-AAAACATCAAT-TTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCA-AG-
2006863 GGATACTCCAACC
62 GGATACTCCAACC
2006876 CCATTATTTT
Statistics
Matches: 293, Mismatches: 35, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
129 63 0.22
130 226 0.77
131 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (129 bp):
TTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCAAGGGAT
ACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTACACAATCGGGGATACTCCAACCTCGG
Found at i:2006674 original size:51 final size:51
Alignment explanation
Indices: 2006603--2006718 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
2006593 ATTTTCAAGA
* * * *
2006603 GGATACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGG
1 GGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCGG
* ** *
2006654 GGATACTCCAACCCCAGTTTTATTTCCAAAACATTGATTTTCCACCATCGG
1 GGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCGG
2006705 GGATACTCTAACCC
1 GGATACTCTAACCC
2006719 TGTTATTTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (51 bp):
GGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCGG
Found at i:2006794 original size:51 final size:52
Alignment explanation
Indices: 2006734--2006847 Score: 178
Period size: 51 Copynumber: 2.2 Consensus size: 52
2006724 TTTCCAAGGA
* * *
2006734 GATACTCCAACCT-CGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGG
1 GATACTCCAACCTCCGATTTTATTTCTAAAACATCAATATTTCACAATCGAG
*
2006785 GATACTCCAA-CTCCGATTTTATTTCTATAACATCAATATTTCACAATCGAG
1 GATACTCCAACCTCCGATTTTATTTCTAAAACATCAATATTTCACAATCGAG
2006836 GATACTCCAACC
1 GATACTCCAACC
2006848 CCGTTATTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 2 0.04
51 54 0.95
52 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (52 bp):
GATACTCCAACCTCCGATTTTATTTCTAAAACATCAATATTTCACAATCGAG
Found at i:2006864 original size:28 final size:28
Alignment explanation
Indices: 2006830--2006884 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2006820 ATATTTCACA
*
2006830 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCATTATTTC
2006858 ATCGAGGATACTCCAACCCCATTATTT
1 ATCGAGGATACTCCAACCCCATTATTT
2006885 TTGAGGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCATTATTTC
Found at i:2006894 original size:28 final size:27
Alignment explanation
Indices: 2006830--2006904 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 27
2006820 ATATTTCACA
*
2006830 ATCGAGGATACTCCAACCCCGTTATTT
1 ATCGAGGATACTCCAACCCCATTATTT
2006857 CATCGAGGATACTCCAACCCCATTATTT
1 -ATCGAGGATACTCCAACCCCATTATTT
*
2006885 -TTGAGGGGATACTCCAACCC
1 ATCGA--GGATACTCCAACCC
2006905 TGACTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.07
28 40 0.93
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (27 bp):
ATCGAGGATACTCCAACCCCATTATTT
Found at i:2006949 original size:50 final size:51
Alignment explanation
Indices: 2006890--2007007 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 51
2006880 TATTTTTGAG
* * *
2006890 GGGATACTCCAACCCTGACTTTATTTCCAAAATATTAATTTCTCACAA-TC
1 GGGATACTCCAACCCTGACCTTATTTCCAAAACATCAATTTCTCACAATTC
* * * * * * *
2006940 GGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATTG
1 GGGATACTCCAACCCTGACCTTATTTCCAAAACATCAATTTCTCACAATTC
2006991 GGGATACTCCAACCCTG
1 GGGATACTCCAACCCTG
2007008 TTACTTTTGA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
50 39 0.70
51 17 0.30
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACCCTGACCTTATTTCCAAAACATCAATTTCTCACAATTC
Found at i:2007028 original size:157 final size:157
Alignment explanation
Indices: 2006734--2007034 Score: 378
Period size: 157 Copynumber: 1.9 Consensus size: 157
2006724 TTTCCAAGGA
** * * *
2006734 GATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACTCC
1 GATACTCCAACCTCGACTTTATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAACCCC
**
2006799 GATTTTATTTCTATAACATCAATATTTCACAATCGAGGATACTCCAACCCCGTTATTTCATCGAG
66 GACCTTATTTCTATAACATCAATATTTCACAATCGAGGATACTCCAACCCCGTTATTT-ATCGAG
2006864 GATACTCCAACCCCATTATTTTTGAGGG
130 GATACTCCAACCCCATTATTTTTGAGGG
* *
2006892 GATACTCCAACC-CTGACTTTATTTCCAAAATATTAATTTCTCACAATC-GGGATACTCCAACCC
1 GATACTCCAACCTC-GACTTTATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAACCC
* * * * * *
2006955 CGGCCTTATTTCTA-AAGCATCGATTTTTCACAATTGGGGATACTCCAACCCTGTTACTTT-T-G
65 CGACCTTATTTCTATAA-CATCAATATTTCACAATCGAGGATACTCCAACCCCGTTA-TTTATCG
2007017 AGGGGATACTCCAACCCC
128 A--GGATACTCCAACCCC
2007035 GATTTTGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
155 2 0.02
156 3 0.02
157 75 0.61
158 43 0.35
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (157 bp):
GATACTCCAACCTCGACTTTATTTCCAAAACATCAATTTCTCACAATCGGGGATACTCCAACCCC
GACCTTATTTCTATAACATCAATATTTCACAATCGAGGATACTCCAACCCCGTTATTTATCGAGG
ATACTCCAACCCCATTATTTTTGAGGG
Found at i:2013372 original size:13 final size:13
Alignment explanation
Indices: 2013354--2013379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2013344 TACAGCAAGT
2013354 ATGTATCGATACA
1 ATGTATCGATACA
2013367 ATGTATCGATACA
1 ATGTATCGATACA
2013380 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:2018573 original size:15 final size:15
Alignment explanation
Indices: 2018553--2018583 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2018543 TAAAAATGTC
*
2018553 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2018568 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2018583 C
1 C
2018584 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2020672 original size:13 final size:13
Alignment explanation
Indices: 2020654--2020692 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2020644 ACATTTTTCT
2020654 TTGTATCGATACA
1 TTGTATCGATACA
2020667 TTGTATCGATACA
1 TTGTATCGATACA
2020680 TTGTATCGATACA
1 TTGTATCGATACA
2020693 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2020856 original size:20 final size:20
Alignment explanation
Indices: 2020813--2020858 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2020803 AAATCTTTTG
2020813 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2020834 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2020854 CAAAA
1 CAAAA
2020859 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2022524 original size:20 final size:20
Alignment explanation
Indices: 2022499--2022539 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2022489 TGATATGAAT
2022499 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGGGAGAA
2022519 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGGGAGAA
2022539 T
1 T
2022540 TATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.27
Consensus pattern (20 bp):
TACTTGATTAAGGGGGAGAA
Found at i:2023266 original size:13 final size:13
Alignment explanation
Indices: 2023248--2023273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2023238 TACAGCAAGT
2023248 ATGTATCGATACA
1 ATGTATCGATACA
2023261 ATGTATCGATACA
1 ATGTATCGATACA
2023274 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:2025182 original size:14 final size:13
Alignment explanation
Indices: 2025137--2025182 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
2025127 TTTCTTTTTC
2025137 AAAAAAAACAAAA
1 AAAAAAAACAAAA
2025150 AAACAAAAACAAAA
1 AAA-AAAAACAAAA
* *
2025164 TAAAAAAAAGAGAA
1 -AAAAAAAACAAAA
2025178 AAAAA
1 AAAAA
2025183 GAGAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.28
14 18 0.62
15 3 0.10
ACGTcount: A:0.87, C:0.07, G:0.04, T:0.02
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:2026532 original size:11 final size:11
Alignment explanation
Indices: 2026516--2026545 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2026506 GCCGTTACAA
2026516 GCTTGTTTGGT
1 GCTTGTTTGGT
2026527 GCTTGTTTGGT
1 GCTTGTTTGGT
2026538 GCTTGTTT
1 GCTTGTTT
2026546 TAATGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.33, T:0.57
Consensus pattern (11 bp):
GCTTGTTTGGT
Found at i:2026662 original size:21 final size:21
Alignment explanation
Indices: 2026636--2026690 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
2026626 GTTACAAGCA
*
2026636 ATGTATTGATACAATT-TCCTC
1 ATGTATCGATACAATTGTCC-C
2026657 ATGTATCGATAC-ATTGTCCC
1 ATGTATCGATACAATTGTCCC
2026677 ATGTATCGATACAA
1 ATGTATCGATACAA
2026691 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACAATTGTCCC
Found at i:2026745 original size:20 final size:20
Alignment explanation
Indices: 2026720--2026778 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
2026710 TGCCAATCTT
2026720 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGTCC
**
2026740 ATGTATCGATACAA-TGAGC
1 ATGTATCGATACAATTGTCC
*
2026759 ATGTATCGATCCAATGTGTC
1 ATGTATCGATACAAT-TGTC
2026779 GATACAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.50
20 14 0.44
21 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTGTCC
Found at i:2027404 original size:36 final size:37
Alignment explanation
Indices: 2027351--2027424 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
2027341 TTAAGAATTT
*
2027351 CTAAAAAACATTTTCCCCCTTAATCAAAGCATTTCTC
1 CTAAAAAACATTCTCCCCCTTAATCAAAGCATTTCTC
2027388 CTAAAAAA-ATTCTCCCCCTTAATCAAAGCATTTCTC
1 CTAAAAAACATTCTCCCCCTTAATCAAAGCATTTCTC
2027424 C
1 C
2027425 CCCTTTGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 28 0.78
37 8 0.22
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (37 bp):
CTAAAAAACATTCTCCCCCTTAATCAAAGCATTTCTC
Found at i:2027568 original size:25 final size:24
Alignment explanation
Indices: 2027540--2027590 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 24
2027530 AGTAAAATAA
2027540 ATAACACAAACAAACATTGCATTTC
1 ATAACA-AAACAAACATTGCATTTC
2027565 AT---AAAACAAACATTGCATTTC
1 ATAACAAAACAAACATTGCATTTC
2027586 ATAAC
1 ATAAC
2027591 TTCAAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 20 0.87
22 1 0.04
25 2 0.09
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAACAAAACAAACATTGCATTTC
Found at i:2027573 original size:21 final size:21
Alignment explanation
Indices: 2027547--2027589 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2027537 TAAATAACAC
2027547 AAACAAACATTGCATTTCATA
1 AAACAAACATTGCATTTCATA
2027568 AAACAAACATTGCATTTCATA
1 AAACAAACATTGCATTTCATA
2027589 A
1 A
2027590 CTTCAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.28
Consensus pattern (21 bp):
AAACAAACATTGCATTTCATA
Found at i:2029319 original size:13 final size:13
Alignment explanation
Indices: 2029301--2029329 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2029291 AAATAGTACC
2029301 CAATGTATCGATA
1 CAATGTATCGATA
2029314 CAATGTATCGATA
1 CAATGTATCGATA
2029327 CAA
1 CAA
2029330 GGAATGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2032022 original size:28 final size:28
Alignment explanation
Indices: 2031982--2032053 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2031972 GGAATAAAGC
** *
2031982 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2032010 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2032038 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2032054 TCGATTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2032111 original size:52 final size:52
Alignment explanation
Indices: 2032042--2032315 Score: 288
Period size: 52 Copynumber: 5.3 Consensus size: 52
2032032 AAATAACGAG
* *
2032042 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * *
2032094 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTAGTTTTGGAAATAAAATC-GGA
* *
2032147 -TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * * * *
2032198 ATTGGAGTATCCCCGATTAAAGGAGAAATTGGT-GTTGTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * *
2032251 GTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGA-AATAAAATCGGA
2032302 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2032316 TCAGAAATAA
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 48 0.26
52 79 0.43
53 45 0.25
54 10 0.05
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
Found at i:2032174 original size:104 final size:105
Alignment explanation
Indices: 2032043--2032315 Score: 417
Period size: 104 Copynumber: 2.6 Consensus size: 105
2032033 AATAACGAGG
*
2032043 TTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
2032108 GATTAAAGGA-AAATTGGCGTTTTGAAAATAAAACCAGGA
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* *
2032147 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
* * *
2032212 GATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGGGG
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* * * *
2032252 TTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGA-AATAAAATCGGAGTTGGAGTATCCC
2032315 C
65 C
2032316 TCAGAAATAA
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.01
104 99 0.64
105 53 0.34
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
Found at i:2032361 original size:27 final size:27
Alignment explanation
Indices: 2032298--2032400 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
2032288 AGAATAAAGT
* *
2032298 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATG-ATTAA
2032326 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
2032353 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
*
2032380 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2032401 TGTGAAGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGATTAA
Found at i:2032452 original size:55 final size:51
Alignment explanation
Indices: 2032384--2032515 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 51
2032374 GATTAACGGG
* **
2032384 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG---TTTT-GAAAGTAAAATCGGA
*
2032439 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAGTAAAATCGGA
* *
2032490 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
2032516 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
50 4 0.06
51 31 0.47
52 2 0.03
53 4 0.06
54 7 0.11
55 18 0.27
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:2034882 original size:13 final size:13
Alignment explanation
Indices: 2034864--2034889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2034854 ACAAAGATCC
2034864 ATGTATCGATACA
1 ATGTATCGATACA
2034877 ATGTATCGATACA
1 ATGTATCGATACA
2034890 CAGAAAAATG
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:2034885 original size:33 final size:33
Alignment explanation
Indices: 2034843--2034909 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2034833 AAAATTTCTA
***
2034843 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2034876 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2034909 A
1 A
2034910 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2034953 original size:19 final size:18
Alignment explanation
Indices: 2034929--2034996 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2034919 CAGTAGCTAA
2034929 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2034948 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2034963 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2034980 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2034997 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2034969 original size:13 final size:13
Alignment explanation
Indices: 2034951--2034975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2034941 ACAATACTTA
2034951 TGTATCGATACAT
1 TGTATCGATACAT
2034964 TGTATCGATACA
1 TGTATCGATACA
2034976 AAACTTATGT
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:2034973 original size:32 final size:32
Alignment explanation
Indices: 2034932--2034994 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2034922 TAGCTAATTA
*
2034932 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2034964 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2034995 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2035076 original size:21 final size:21
Alignment explanation
Indices: 2035052--2035108 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2035042 CATTTGTAGG
2035052 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2035073 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2035094 ATGTATCGATACATT
1 ATGTATCGATACATT
2035109 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2035821 original size:55 final size:55
Alignment explanation
Indices: 2035726--2036872 Score: 1412
Period size: 55 Copynumber: 20.3 Consensus size: 55
2035716 ATAAAGTGTA
* * * * *
2035726 TCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGTG
** * *
2035781 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
** * * * **
2035836 TCCTGCTCTTT-AGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGA-GGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2035897 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * * **
2035952 T-C-GTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2036011 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
*
2036066 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2036121 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * **
2036176 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2036237 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2036292 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * **
2036347 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2036407 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2036462 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * * **
2036517 T-CT-TTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
*
2036576 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTTTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2036631 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * **
2036686 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
* *
2036746 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
** * * *
2036801 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2036856 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
2036873 CAAAAAGCGG
Statistics
Matches: 960, Mismatches: 86, Indels: 92
0.84 0.08 0.08
Matches are distributed among these distances:
53 73 0.08
54 20 0.02
55 573 0.60
56 8 0.01
59 14 0.01
60 96 0.10
61 175 0.18
62 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
Found at i:2036061 original size:27 final size:27
Alignment explanation
Indices: 2036031--2036171 Score: 66
Period size: 27 Copynumber: 5.1 Consensus size: 27
2036021 TGAGGACTGA
2036031 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2036058 AAAAGGTGTCCTGCTCTTTGAGGACTAA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2036086 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2036113 AAAAGGTGTCCTGCTCTTTGAGGACTGA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2036141 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
2036168 AAAA
1 AAAA
2036172 GGTGTCCTGC
Statistics
Matches: 68, Mismatches: 44, Indels: 4
0.59 0.38 0.03
Matches are distributed among these distances:
27 36 0.53
28 32 0.47
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACCTGTGTGGGCTTT
Found at i:2036287 original size:27 final size:27
Alignment explanation
Indices: 2036257--2036342 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
2036247 TGAGGACTGA
2036257 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2036284 AAAAGGTGTCCTGCTCTTTGAGGACTGA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2036312 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
2036339 AAAA
1 AAAA
2036343 GGTGTCCTGC
Statistics
Matches: 36, Mismatches: 22, Indels: 2
0.60 0.37 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACCTGTGTGGGCTTT
Found at i:2036457 original size:27 final size:27
Alignment explanation
Indices: 2036427--2036512 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
2036417 TGAGGACTGA
2036427 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2036454 AAAAGGTGTCCTGCTCTTTGAGGACTGA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2036482 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
2036509 AAAA
1 AAAA
2036513 GGTGTCTTTC
Statistics
Matches: 36, Mismatches: 22, Indels: 2
0.60 0.37 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACCTGTGTGGGCTTT
Found at i:2036496 original size:170 final size:171
Alignment explanation
Indices: 2035725--2036872 Score: 1806
Period size: 170 Copynumber: 6.7 Consensus size: 171
2035715 AATAAAGTGT
* * * * *
2035725 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGTGTCCTGCT
** * *
2035788 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTT-AGGGA
64 CTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA-GGA
* *
2035852 CT-GAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGC
128 CTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
*
2035896 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-C-GTTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
* * * **
2035959 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGA
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTGTCCTGCTCTTTGA
* * * *
2036024 GGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGT
125 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
* *
2036065 GTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2036130 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2036195 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
2036236 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2036301 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2036366 GAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
2036406 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
*
2036471 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-CT-TTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2036534 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
*
2036575 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTTTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2036640 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2036705 GAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
* *
2036745 ATCCTACTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
** * * *
2036810 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTGTCCTGCTCTTTGAGGAC
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGAC
2036873 CAAAAAGCGG
Statistics
Matches: 912, Mismatches: 44, Indels: 43
0.91 0.04 0.04
Matches are distributed among these distances:
165 48 0.05
166 2 0.00
168 31 0.03
169 232 0.25
170 284 0.31
171 263 0.29
172 7 0.01
174 2 0.00
175 39 0.04
176 4 0.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (171 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
Found at i:2036613 original size:27 final size:27
Alignment explanation
Indices: 2036583--2036666 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 27
2036573 GCATCCTGCT
2036583 CTTTGAGGACTGAAAAATGCCACCAAC
1 CTTTGAGGACTGAAAAATGCCACCAAC
* * ** * *** **
2036610 CTTTGTGGGCTTTAAAAGGTGTCCTGC
1 CTTTGAGGACTGAAAAATGCCACCAAC
2036637 TCTTTGAGGACTGAAAAATGCCACCAAC
1 -CTTTGAGGACTGAAAAATGCCACCAAC
2036665 CT
1 CT
2036667 GTGTGGGCTT
Statistics
Matches: 36, Mismatches: 20, Indels: 2
0.62 0.34 0.03
Matches are distributed among these distances:
27 19 0.53
28 17 0.47
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (27 bp):
CTTTGAGGACTGAAAAATGCCACCAAC
Found at i:2036632 original size:339 final size:341
Alignment explanation
Indices: 2035725--2036872 Score: 1811
Period size: 339 Copynumber: 3.4 Consensus size: 341
2035715 AATAAAGTGT
* * * * *
2035725 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGTGTCCTGCT
** * *
2035788 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTT-AGGGA
64 CTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA-GGA
* *
2035852 CT-GAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTG
128 CTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTG
* *
2035916 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-C-GTTCTTTGAGGACTGGAAAATGCCA
192 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCA
* * ** *
2035979 CCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
257 CCAACCTGTGTGGGC-TT-----TAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * *
2036044 CCTGTGTGGGC-TT-----TAAAAGGT
316 CTTG-GTGGGCTTTGAAAATAAAAAGC
* *
2036065 GTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2036130 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2036195 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
2036260 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
196 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
2036325 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
261 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
2036390 TTTGAAAATAAAAAGC
326 TTTGAAAATAAAAAGC
2036406 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
*
2036471 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-CT-TTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2036534 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
*
2036599 ATGCCACCAACCTTTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
196 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
2036664 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
261 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
2036729 TTTGAAAATAAAAAGC
326 TTTGAAAATAAAAAGC
* *
2036745 ATCCTACTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
** * * *
2036810 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTGTCCTGCTCTTTGAGGAC
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGAC
2036873 CAAAAAGCGG
Statistics
Matches: 760, Mismatches: 34, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
335 6 0.01
336 43 0.06
339 328 0.43
340 204 0.27
341 142 0.19
342 37 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (341 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
TTTGAAAATAAAAAGC
Found at i:2036641 original size:28 final size:28
Alignment explanation
Indices: 2036610--2036697 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
2036600 TGCCACCAAC
2036610 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
1 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
* * ** * *** **
2036638 CTTTGAGGACTGAAAAATGCCACCAAC-
1 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
*
2036665 CTGTGTGGGCTTTAAAAGGTGTCCTGCT
1 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
2036693 CTTTG
1 CTTTG
2036698 AGGACTGGAA
Statistics
Matches: 37, Mismatches: 22, Indels: 2
0.61 0.36 0.03
Matches are distributed among these distances:
27 16 0.43
28 21 0.57
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (28 bp):
CTTTGTGGGCTTTAAAAGGTGTCCTGCT
Found at i:2037859 original size:1 final size:1
Alignment explanation
Indices: 2037855--2037908 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
2037845 CTTTTCTCTC
* * * * *
2037855 TTTTTCTTTGTTTTGTTTTTTTTTGTTTTTTTTTTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2037909 GAAGAGAAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.91
Consensus pattern (1 bp):
T
Found at i:2050518 original size:28 final size:28
Alignment explanation
Indices: 2050478--2050549 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2050468 GGAATAAAGC
** *
2050478 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2050506 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2050534 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2050550 TCGATTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2050607 original size:52 final size:52
Alignment explanation
Indices: 2050538--2050811 Score: 288
Period size: 52 Copynumber: 5.3 Consensus size: 52
2050528 AAATAACGAG
* *
2050538 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * *
2050590 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTAGTTTTGGAAATAAAATC-GGA
* *
2050643 -TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * * * *
2050694 ATTGGAGTATCCCCGATTAAAGGAGAAATTGGT-GTTGTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * *
2050747 GTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGA-AATAAAATCGGA
2050798 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2050812 TCAGAAATAA
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 48 0.26
52 79 0.43
53 45 0.25
54 10 0.05
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
Found at i:2050670 original size:104 final size:105
Alignment explanation
Indices: 2050539--2050811 Score: 417
Period size: 104 Copynumber: 2.6 Consensus size: 105
2050529 AATAACGAGG
*
2050539 TTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
2050604 GATTAAAGGA-AAATTGGCGTTTTGAAAATAAAACCAGGA
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* *
2050643 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
* * *
2050708 GATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGGGG
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* * * *
2050748 TTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGA-AATAAAATCGGAGTTGGAGTATCCC
2050811 C
65 C
2050812 TCAGAAATAA
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.01
104 99 0.64
105 53 0.34
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
Found at i:2050857 original size:27 final size:27
Alignment explanation
Indices: 2050794--2050896 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
2050784 AGAATAAAGT
* *
2050794 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATG-ATTAA
2050822 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
2050849 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
*
2050876 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2050897 TGTGAAGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGATTAA
Found at i:2050948 original size:55 final size:51
Alignment explanation
Indices: 2050880--2051011 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 51
2050870 GATTAACGGG
* **
2050880 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG---TTTT-GAAAGTAAAATCGGA
*
2050935 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAGTAAAATCGGA
* *
2050986 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
2051012 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
50 4 0.06
51 31 0.47
52 2 0.03
53 4 0.06
54 7 0.11
55 18 0.27
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:2053378 original size:13 final size:13
Alignment explanation
Indices: 2053360--2053385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2053350 ACAAAGATCC
2053360 ATGTATCGATACA
1 ATGTATCGATACA
2053373 ATGTATCGATACA
1 ATGTATCGATACA
2053386 CAGAAAAATG
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:2053381 original size:33 final size:33
Alignment explanation
Indices: 2053339--2053405 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2053329 AAAATTTCTA
***
2053339 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2053372 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2053405 A
1 A
2053406 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2053449 original size:19 final size:18
Alignment explanation
Indices: 2053425--2053492 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2053415 CAGTAGCTAA
2053425 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2053444 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2053459 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2053476 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2053493 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2053465 original size:13 final size:13
Alignment explanation
Indices: 2053447--2053471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2053437 ACAATACTTA
2053447 TGTATCGATACAT
1 TGTATCGATACAT
2053460 TGTATCGATACA
1 TGTATCGATACA
2053472 AAACTTATGT
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:2053469 original size:32 final size:32
Alignment explanation
Indices: 2053428--2053490 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2053418 TAGCTAATTA
*
2053428 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2053460 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2053491 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2053572 original size:21 final size:21
Alignment explanation
Indices: 2053548--2053604 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2053538 CATTTGTAGG
2053548 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2053569 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2053590 ATGTATCGATACATT
1 ATGTATCGATACATT
2053605 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2058489 original size:21 final size:21
Alignment explanation
Indices: 2058463--2058517 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
2058453 ATTACAAGCA
2058463 ATGTATCGATACAATT-TCCTC
1 ATGTATCGATACAATTGTCC-C
2058484 ATGTATCGATAC-ATTGTCCC
1 ATGTATCGATACAATTGTCCC
2058504 ATGTATCGATACAA
1 ATGTATCGATACAA
2058518 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTGTCCC
Found at i:2058590 original size:19 final size:20
Alignment explanation
Indices: 2058546--2058593 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2058536 CTGCCAATCT
**
2058546 CATGTATCGATACAATTGTT
1 CATGTATCGATACAATTGAG
2058566 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
2058585 CATGTATCG
1 CATGTATCG
2058594 GTATAATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:2059317 original size:61 final size:60
Alignment explanation
Indices: 2059205--2059643 Score: 456
Period size: 61 Copynumber: 7.3 Consensus size: 60
2059195 TTATCCTTTC
* * *
2059205 AGTCCTCAAAGAGCAGGACACTTTT-CTTTCAAAGCCCACACAAGTTAGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
2059264 AGTCCTCAAAGAGCAGGGCGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTCT
1 AGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * ** *
2059325 AGTCCCCAAAAAGTAGGATGTCTTTTTGTTTTAAAGCCCACACAAGTTGGTAGCACCTT-T
1 AGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
2059385 CAGTCCTCAAAGAGTAGGATGC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTAT
1 -AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * * * *
2059445 AATCTTTAAAGAGCAGGACGCTTTCTCTTTTTAAAGTCCACATAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* ** * * * * *
2059506 AGTCCTTAAAGAATAGAATGC-TTTCCTTTCAAAGCCTACACAAGTTAGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
2059565 AGTCCTCAAAAAGAAGGACGCTTTCTCCTTGTAAAGCCCACACAAATTGGTGGCATCTTCT
1 AGTCCTCAAAGAGCAGGACGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
2059626 AGTCC-CTAAAGAGCAGGA
1 AGTCCTC-AAAGAGCAGGA
2059644 AGCACTTTAT
Statistics
Matches: 310, Mismatches: 61, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
59 110 0.35
60 15 0.05
61 185 0.60
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:2059603 original size:181 final size:182
Alignment explanation
Indices: 2059199--2059643 Score: 530
Period size: 181 Copynumber: 2.5 Consensus size: 182
2059189 AACCTTTTAT
* * *
2059199 CCTTTCAGTCCTCAAAGAGCAGGACACTTTT-CTTTCAAAGCCCACACAAGTTAGTGGCACCTTC
1 CCTTTCAGTCCTCAAAGAGAAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
2059263 TAGTCCTCAAAGAGCAGGGCGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTCTAGT
66 TAGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCTTCCAGT
* ** * *
2059328 CCCCAAAAAGTAGGATGTCTTTTTGTTTTAAAGCCCACACAAGTTGGTAGCA
131 CCCCAAAAAGTAGAATGTCTTTTCCTTTCAAAGCCCACACAAGTTAGTAGCA
* * *
2059380 CCTTTCAGTCCTCAAAGAGTAGGATGC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTA
1 CCTTTCAGTCCTCAAAGAGAAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
2059444 TAATCTTTAAAGAGCAGGACG-CTTTCTCTTTTTAAAG-TCCACATAAGTTGGTGGCACCTTCCA
66 TAGTCCTTAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCT-CACACAAGTTGGTGGCACCTTCCA
** * *
2059507 GTCCTTAAAGAA-TAGAATG-C-TTTCCTTTCAAAGCCTACACAAGTTAGTGGCA
129 GTCCCCAAA-AAGTAGAATGTCTTTTCCTTTCAAAGCCCACACAAGTTAGTAGCA
* * *
2059559 CC-TTCTAGTCCTCAAAAAGAAGGACGCTTTCTCCTTGT-AAAGCCCACACAAATTGGTGGCATC
1 CCTTTC-AGTCCTCAAAGAGAAGGACGCTTT-TCCTT-TCAAAGCCCACACAAGTTGGTGGCACC
*
2059622 TTCTAGTCCCTAAAGAGCAGGA
63 TTCTAGTCCTTAAAGAGCAGGA
2059644 AGCACTTTAT
Statistics
Matches: 225, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
178 3 0.01
179 46 0.20
180 11 0.05
181 162 0.72
182 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (182 bp):
CCTTTCAGTCCTCAAAGAGAAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
TAGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCTTCCAGT
CCCCAAAAAGTAGAATGTCTTTTCCTTTCAAAGCCCACACAAGTTAGTAGCA
Found at i:2059630 original size:120 final size:119
Alignment explanation
Indices: 2059205--2059643 Score: 472
Period size: 120 Copynumber: 3.7 Consensus size: 119
2059195 TTATCCTTTC
* * * *
2059205 AGTCCTCAAAGAGCAGGACACTTTT-CTTTCAAAGCCCACACAAGTTAGTGGCACCTTCTAGTCC
1 AGTCCTCAAAAAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
* ** * *
2059269 TCAAAGAGCAGGGCGCCTTTTCCTTTTAAAG-CTCACACAAGTTGGTGGCACTTTCT
66 TCAAAGAGTAGGATG-C-TTTCCTTTCAAAGCCT-ACACAAGTTGGTGGCACCTTCT
* * * ** *
2059325 AGTCCCCAAAAAGTAGGATGTCTTTTTGTTTTAAAGCCCACACAAGTTGGTAGCACCTT-TCAGT
1 AGTCCTCAAAAAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGT
* *
2059389 CCTCAAAGAGTAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTAT
64 CCTCAAAGAGTAGGATGCTTTCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCT
* * * * * * * *
2059445 AATCTTTAAAGAGCAGGACGCTTTCTCTTTTTAAAGTCCACATAAGTTGGTGGCACCTTCCAGTC
1 AGTCCTCAAAAAGCAGGACGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
* * * *
2059510 CTTAAAGAATAGAATGCTTTCCTTTCAAAGCCTACACAAGTTAGTGGCACCTTCT
65 CTCAAAGAGTAGGATGCTTTCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCT
* * * *
2059565 AGTCCTCAAAAAGAAGGACGCTTTCTCCTTGTAAAGCCCACACAAATTGGTGGCATCTTCTAGTC
1 AGTCCTCAAAAAGCAGGACGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
*
2059630 C-CTAAAGAGCAGGA
65 CTC-AAAGAGTAGGA
2059644 AGCACTTTAT
Statistics
Matches: 261, Mismatches: 51, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
119 4 0.02
120 204 0.78
121 8 0.03
122 45 0.17
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (119 bp):
AGTCCTCAAAAAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
TCAAAGAGTAGGATGCTTTCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCT
Found at i:2059757 original size:43 final size:43
Alignment explanation
Indices: 2059649--2059766 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 43
2059639 CAGGAAGCAC
* * * *
2059649 TTTATTTCCTTTTCCTTTTGTCTTTAAAGAGCATG-ACA--TAC
1 TTTATTTCCTTTT-CTTTTGTCCTCAAAGAGCAGGAACATTTAA
2059690 TTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACATTTAA
1 TTTATTTCCTTTTCT--TTTGTCCTCAAAGAGCAGGA-ACATTTAA
2059736 TTTATTT-CTTTTCTTTTGTCCTCAAAGAGCA
1 TTTATTTCCTTTTCTTTTGTCCTCAAAGAGCA
2059767 TGATGCATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
40 2 0.03
41 13 0.19
42 16 0.24
43 17 0.25
44 3 0.04
45 7 0.10
46 9 0.13
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (43 bp):
TTTATTTCCTTTTCTTTTGTCCTCAAAGAGCAGGAACATTTAA
Found at i:2059779 original size:85 final size:86
Alignment explanation
Indices: 2059649--2059811 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 86
2059639 CAGGAAGCAC
* *
2059649 TTTATTTCCTTTTCCTTTTGTCTTTAAAGAGCATGACATACTTTATTTCCTTTTCTCCTTTGTCC
1 TTTATTTCCTTTTCCTTTTGTCCTCAAAGAGCATGACATA-TTTATTTCCTTTTCTCCTTTGTCC
2059714 TCAAAGAGCAGGACACATTTAA
65 TCAAAGAGCAGGACACATTTAA
*
2059736 TTTATTT-CTTTT-CTTTTGTCCTCAAAGAGCATGATGCAT-TTTATTTCCTTTTTTCCTTTGTC
1 TTTATTTCCTTTTCCTTTTGTCCTCAAAGAGCATGA--CATATTTATTTCCTTTTCTCCTTTGTC
**
2059798 CTTGAAGAGCAGGA
64 CTCAAAGAGCAGGA
2059812 TGACTCTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
85 54 0.78
86 5 0.07
87 10 0.14
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (86 bp):
TTTATTTCCTTTTCCTTTTGTCCTCAAAGAGCATGACATATTTATTTCCTTTTCTCCTTTGTCCT
CAAAGAGCAGGACACATTTAA
Found at i:2059828 original size:42 final size:42
Alignment explanation
Indices: 2059633--2059813 Score: 163
Period size: 42 Copynumber: 4.3 Consensus size: 42
2059623 TCTAGTCCCT
* * * *
2059633 AAAGAGCAGGAAGCACTTTATTTCC--TTTTCCTTTTGTCTTT
1 AAAGAGCAGGATGCATTTTATTTCCTTTTTTCC-TTTGTCCTC
* *
2059674 AAAGAGCATGA--CATACTTTATTTCCTTTTCTCCTTTGTCCTC
1 AAAGAGCAGGATGCAT--TTTATTTCCTTTTTTCCTTTGTCCTC
** * ** *
2059716 AAAGAGCAGGACACATTTAATTTATTTCTTTTCTTTTGTCCTC
1 AAAGAGCAGGATGCATTTTATTTCCTT-TTTTCCTTTGTCCTC
* *
2059759 AAAGAGCATGATGCATTTTATTTCCTTTTTTCCTTTGTCCTT
1 AAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTTGTCCTC
*
2059801 GAAGAGCAGGATG
1 AAAGAGCAGGATG
2059814 ACTCTTTTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.02
41 19 0.17
42 49 0.44
43 39 0.35
44 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (42 bp):
AAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTTGTCCTC
Found at i:2059835 original size:76 final size:71
Alignment explanation
Indices: 2059741--2059920 Score: 209
Period size: 72 Copynumber: 2.5 Consensus size: 71
2059731 TTTAATTTAT
* * *
2059741 TTCTTTTCTTTTGTCCTCAAAGAGCATGATGCATTTTATTTCCTTTTTTCCTTTGTCCTTGAAGA
1 TTCTTTTCCTTTGTCCTCAAAGAGCATGATGCATTTCA--T--TTTTTTCCTTTGTCCTCGAAGA
2059806 GCAGGATGACTC
62 GCAGGATG--TC
* **
2059818 TT-TTTTCCTTTGTCCTCAAGGAGCATGACCCATTTCATTTTTTTCCTTTGTCCTCGAAGAGCAG
1 TTCTTTTCCTTTGTCCTCAAAGAGCATGATGCATTTCATTTTTTTCCTTTGTCCTCGAAGAGCAG
*
2059882 GATGTG
66 GATGTC
* *
2059888 TTCCTTTTCCTTTGTCCTCAAAAAGCAGGATGC
1 TT-CTTTTCCTTTGTCCTCAAAGAGCATGATGC
2059921 CCCTTTCGTT
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
70 3 0.03
72 53 0.60
74 1 0.01
76 30 0.34
77 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (71 bp):
TTCTTTTCCTTTGTCCTCAAAGAGCATGATGCATTTCATTTTTTTCCTTTGTCCTCGAAGAGCAG
GATGTC
Found at i:2059842 original size:34 final size:32
Alignment explanation
Indices: 2059783--2059919 Score: 105
Period size: 34 Copynumber: 3.9 Consensus size: 32
2059773 ATTTTATTTC
*
2059783 CTTTTTTCCTTTGTCCTTGAAGAGCAGGATGACT
1 CTTTTTTCCTTTGTCC-TCAAGAGCAGGATGA-T
* **
2059817 CTTTTTTCCTTTGTCCTCAAGGAGCATGACCCATTT
1 CTTTTTTCCTTTGTCCTCAA-GAGCAGGA-TGA--T
2059853 CATTTTTTTCCTTTGTCCTCGAAGAGCAGGATG-T
1 C--TTTTTTCCTTTGTCCTC-AAGAGCAGGATGAT
* *
2059887 GTTCCTTTTCCTTTGTCCTCAAAAAGCAGGATG
1 CTT--TTTTCCTTTGTCCTC-AAGAGCAGGATG
2059920 CCCCTTTCGT
Statistics
Matches: 84, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
32 2 0.02
33 3 0.04
34 50 0.60
35 1 0.01
36 2 0.02
38 24 0.29
39 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (32 bp):
CTTTTTTCCTTTGTCCTCAAGAGCAGGATGAT
Found at i:2060623 original size:27 final size:27
Alignment explanation
Indices: 2060562--2060626 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2060552 AATTTTAAAA
*
2060562 AAAATCAAATATTCAAGAAATAAAAGAC
1 AAAAT-AAATATTCAAAAAATAAAAGAC
* * *
2060590 AATATAAA-ATTCAAAAATATAAAATAT
1 AAAATAAATATTCAAAAA-ATAAAAGAC
2060617 AAAATAAATA
1 AAAATAAATA
2060627 AATAAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.27
27 17 0.57
28 5 0.17
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (27 bp):
AAAATAAATATTCAAAAAATAAAAGAC
Found at i:2060629 original size:22 final size:22
Alignment explanation
Indices: 2060521--2060630 Score: 59
Period size: 22 Copynumber: 5.0 Consensus size: 22
2060511 AAAAAATTAT
*
2060521 TAAAAAATAATAATAAATAAAT-
1 TAAAATATAA-AATAAATAAATA
*
2060543 TAAAATA-AAAATTTTAAA-AAAAA
1 TAAAATATAAAA---TAAATAAATA
* ** *
2060566 TCAAATATTCAAGAAATAAA-A
1 TAAAATATAAAATAAATAAATA
* * *
2060587 GACAATATAAAATTCAA-AAATA
1 TAAAATATAAAA-TAAATAAATA
2060609 TAAAATATAAAATAAATAAATA
1 TAAAATATAAAATAAATAAATA
2060631 AATAAAAAGT
Statistics
Matches: 63, Mismatches: 16, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
20 2 0.03
21 19 0.30
22 30 0.48
23 10 0.16
24 2 0.03
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAAATATAAAATAAATAAATA
Found at i:2064981 original size:26 final size:26
Alignment explanation
Indices: 2064952--2065008 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
2064942 AAAATATTGT
2064952 AAAGAGAGATGTCCAGCCACATTCCG
1 AAAGAGAGATGTCCAGCCACATTCCG
2064978 AAAGAGAGATGTCCAGCCACATTCCG
1 AAAGAGAGATGTCCAGCCACATTCCG
2065004 AAAGA
1 AAAGA
2065009 AGTTAAGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.14
Consensus pattern (26 bp):
AAAGAGAGATGTCCAGCCACATTCCG
Found at i:2066547 original size:19 final size:22
Alignment explanation
Indices: 2066523--2066567 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 22
2066513 AGCTTAATGG
2066523 CATTCAT-A-TTCATAA-CATT
1 CATTCATCATTTCATAATCATT
2066542 CATTCATCATTTTCATAATCATT
1 CATTCATCA-TTTCATAATCATT
2066565 CAT
1 CAT
2066568 CAGTATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.32
20 1 0.05
22 7 0.32
23 7 0.32
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (22 bp):
CATTCATCATTTCATAATCATT
Found at i:2074874 original size:42 final size:42
Alignment explanation
Indices: 2074769--2075584 Score: 734
Period size: 42 Copynumber: 19.3 Consensus size: 42
2074759 TTTTACTTTC
*
2074769 CCTT-AGTCTGCCTGTCGGCTTTGACCCCGGAGAC-TTTCTTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TT
* * *
2074810 CCCTTTAGTCTACCTGTCGGCTTTGACCATGGAGACTTTTCTT
1 -CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
* * * * * * ** *
2074853 CCTTTAGTCTACCTGTTGGCTTCGCCCCTGGAAACTGCCTCAT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCTT
** * *
2074896 -CTAAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
* *
2074937 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTAC
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT-T
* * * * * * *
2074980 CCTTTAGTCTACGTATCGGCTTTGACCCTAGAGACTTTCCTAC
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT-T
* * * * *
2075023 CCTTTAGTATGCCTGTCAGCTTTGACCCTTGAGATTTTTCTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
* * *
2075065 CCCTT-AGTCTACCTGTCGGCTTTGACCCCGAAGAC-TTTCTTT
1 -CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TT
* * * *
2075107 CCCTCAGTCTGCCTTTCGGTTTTGACCCTGGAGATTTTTCTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
* * * *
2075149 CCTCCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTAC
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT-T
* * *
2075192 CCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGA-TTTTCCTAC
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTT-CT-T
* * * * ** *
2075235 CCCTCAGTCTGCCTGTCGGCTTCGTCCCTAGAGACTGCCTCAT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCTT
** * * *
2075278 -CTAAAGTCTGCCTATCGACTTTGACCCTGGAGACTTTCCTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
* * * * *
2075319 CCTTCAGTCTGCCTGTCAGCTTTAACCTTGGAGACTGCTTCAT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCTT
** * * *
2075362 -CTAAAGTCTGCCGGTTGGCTTTGACCCTGGAGACTTTCCTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
*
2075403 CCTTCAGTCTGCCTGTCGGCTTTGACCCCGGAGAC-TTTCTTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TT
* * *
2075445 CCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
* *
2075487 CCTTCAGTCTACCTGTCGGCTTTGACCCCGGAGAC-TTTCTTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TT
* *
2075529 CCCTCAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTTCTTT
1 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TT
* *
2075572 CCCTAAGTCTGCC
1 CCTTCAGTCTGCC
2075585 CGTTGGTTTT
Statistics
Matches: 626, Mismatches: 128, Indels: 39
0.79 0.16 0.05
Matches are distributed among these distances:
41 20 0.03
42 401 0.64
43 198 0.32
44 6 0.01
45 1 0.00
ACGTcount: A:0.13, C:0.32, G:0.20, T:0.36
Consensus pattern (42 bp):
CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
Found at i:2075138 original size:212 final size:212
Alignment explanation
Indices: 2074771--2075584 Score: 860
Period size: 212 Copynumber: 3.8 Consensus size: 212
2074761 TTACTTTCCC
* * * * *
2074771 TTAGTCTGCCTGTCGGCTTTGACCCCGGAGACTTTCTTTCCCTTTAGTCTACCTGTCGGCTTTGA
1 TTAGTCTACCTGTCGGCTTTGACCCCGGAGACTTTCCTACCCTTCAGTCTGCCTGTCGGCTTTGA
* * * * * * * *
2074836 CCATGGAGACTTTTCTTCCTTTAGTCTACCTGTTGGCTTCG-CCCCTGGAA-AC-TGC-CTCATC
66 CCCTTGAGACTTTTCTTCCCTTAGTCTACCTGTCGGCTTTGACCCC--GAAGACTTTCTTTC-CC
* * *
2074897 TAAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGA
128 T-CAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTAAGTCTGCCTGTCGGCTTTGA
2074962 CCCTGGAGACTTTCCTACCCT
192 CCCTGGAGACTTTCCTACCCT
* * ** * * *
2074983 TTAGTCTACGTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTTAGTATGCCTGTCAGCTTTGA
1 TTAGTCTACCTGTCGGCTTTGACCCCGGAGACTTTCCTACCCTTCAGTCTGCCTGTCGGCTTTGA
*
2075048 CCCTTGAGATTTTTCTTCCCTTAGTCTACCTGTCGGCTTTGACCCCGAAGACTTTCTTTCCCTCA
66 CCCTTGAGACTTTTCTTCCCTTAGTCTACCTGTCGGCTTTGACCCCGAAGACTTTCTTTCCCTCA
* * * * ** *
2075113 GTCTGCCTTTCGGTTTTGACCCTGGAGATTTTTCTTCCTCCAGTCTGCCTGTCGGCTTTGACCTT
131 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTAAGTCTGCCTGTCGGCTTTGACCCT
2075178 GGAGACTTTCCTACCCT
196 GGAGACTTTCCTACCCT
* * * * *
2075195 TTAGTCTACCTGTCGGCTTTGACCCTGGAGATTTTCCTACCCCTCAGTCTGCCTGTCGGCTTCGT
1 TTAGTCTACCTGTCGGCTTTGACCCCGGAGACTTTCCTACCCTTCAGTCTGCCTGTCGGCTTTGA
* * * * * * * * * * * *
2075260 CCCTAGAGAC--TGCCTCATCTAAAGTCTGCCTATCGACTTTGACCCTGGAGACTTTCCTTCCTT
66 CCCTTGAGACTTTTCTTC-CCT-TAGTCTACCTGTCGGCTTTGACCCCGAAGACTTTCTTTCCCT
* * * * * * *
2075323 CAGTCTGCCTGTCAGCTTTAACCTTGGAGAC--TGCTTCATCTAAAGTCTGCCGGTTGGCTTTGA
129 CAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTC--CTTAAGTCTGCCTGTCGGCTTTGA
*
2075386 CCCTGGAGACTTTCCT-TCCT
192 CCCTGGAGACTTTCCTACCCT
* * * *
2075406 TCAGTCTGCCTGTCGGCTTTGACCCCGGAGACTTTCTTTCCC-TCAGTCTGCCTGTCGGCTTTGA
1 TTAGTCTACCTGTCGGCTTTGACCCCGGAGACTTTCCTACCCTTCAGTCTGCCTGTCGGCTTTGA
* *
2075470 -CCTTGGAGACTTTCCTT-CCTTCAGTCTACCTGTCGGCTTTGACCCCGGAGACTTTCTTTCCCT
66 CCCTT-GAGACTTTTCTTCCCTT-AGTCTACCTGTCGGCTTTGACCCCGAAGACTTTCTTTCCCT
* * *
2075533 CAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTTCTTTCCCTAAGTCTGCC
129 CAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTTCCTTAAGTCTGCC
2075585 CGTTGGTTTT
Statistics
Matches: 497, Mismatches: 90, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
209 3 0.01
210 98 0.20
211 54 0.11
212 328 0.66
213 12 0.02
214 2 0.00
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.36
Consensus pattern (212 bp):
TTAGTCTACCTGTCGGCTTTGACCCCGGAGACTTTCCTACCCTTCAGTCTGCCTGTCGGCTTTGA
CCCTTGAGACTTTTCTTCCCTTAGTCTACCTGTCGGCTTTGACCCCGAAGACTTTCTTTCCCTCA
GTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTAAGTCTGCCTGTCGGCTTTGACCCT
GGAGACTTTCCTACCCT
Found at i:2075898 original size:12 final size:12
Alignment explanation
Indices: 2075881--2075934 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
2075871 GAGATTTCAA
2075881 AAAAAAATTATT
1 AAAAAAATTATT
*
2075893 AAAAAAA-TAAT
1 AAAAAAATTATT
* *
2075904 AAATAAATTA-A
1 AAAAAAATTATT
2075915 AATAAAAATT-TT
1 AA-AAAAATTATT
2075927 AAAAAAAT
1 AAAAAAAT
2075935 CAAATATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 17 0.50
12 17 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAAAAATTATT
Found at i:2079690 original size:50 final size:50
Alignment explanation
Indices: 2079615--2079746 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 50
2079605 CATAATATGT
*
2079615 ATCGATACATTATTCATTGTATCGATACATTCCGGGTTTTA-CCTAGATGC
1 ATCGATACATTTTTCATTGTATCGATACATTCCGGGTTTTAGCC-AGATGC
* ** *
2079665 ATCGATACATTTTTCATTGTATCGATGCATTTTGGGTTTTAGCCAGATGT
1 ATCGATACATTTTTCATTGTATCGATACATTCCGGGTTTTAGCCAGATGC
* *
2079715 ATTGATACATTTCTT-AATGTATCGATACATTC
1 ATCGATACATTT-TTCATTGTATCGATACATTC
2079747 AGGCATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
50 67 0.94
51 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (50 bp):
ATCGATACATTTTTCATTGTATCGATACATTCCGGGTTTTAGCCAGATGC
Found at i:2082227 original size:79 final size:79
Alignment explanation
Indices: 2082130--2082378 Score: 247
Period size: 79 Copynumber: 3.2 Consensus size: 79
2082120 CACCACTGGA
* **
2082130 GATACTCCAACCCTGTTATTTTCAA-GAGGATACTCTAA-CCTC-GACTTTATTTTTAAAATATC
1 GATACTCCAACCCTGTTATTTTCAAGGA-GATACTCCAATCC-CAG-CTTTATTTCCAAAATATC
2082192 GATTTTCCATAATCGGG
63 GATTTTCCATAATCGGG
* * *
2082209 GATACTCCGACGCC-GTTATTTTCGAGGAGATACTCCAATCCCAGTTTTATTTCCAAAATATCGA
1 GATACTCCAAC-CCTGTTATTTTCAAGGAGATACTCCAATCCCAGCTTTATTTCCAAAATATCGA
*
2082273 TTTTTCATAATCGGG
65 TTTTCCATAATCGGG
* * * * * * * * *
2082288 GATACTCCAACCCTGATA-TTTCTGAGGGGATACTCCAACCCCAGCCTTACTTCTAAAACATCAA
1 GATACTCCAACCCTGTTATTTTC-AAGGAGATACTCCAATCCCAGCTTTATTTCCAAAATATCGA
* * *
2082352 TTTTTCACAATCGAG
65 TTTTCCATAATCGGG
2082367 GATACTCCAACC
1 GATACTCCAACC
2082379 TCGATTTTAT
Statistics
Matches: 145, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
78 6 0.04
79 132 0.91
80 7 0.05
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCTGTTATTTTCAAGGAGATACTCCAATCCCAGCTTTATTTCCAAAATATCGAT
TTTCCATAATCGGG
Found at i:2082373 original size:130 final size:130
Alignment explanation
Indices: 2082237--2082508 Score: 318
Period size: 130 Copynumber: 2.1 Consensus size: 130
2082227 TTTTCGAGGA
* * * * *
2082237 GATACTCCAATCC-C-AGTTTTATTTCCAAAATATCGATTTTTCATAATCGGGGATACTCCAACC
1 GATACTCCAA-CCTCGA-TTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACC
*
2082300 -CTGATA-TTTCTGAGGGGATACTCCAACCCCAGCCTTACTTCTAAAACATCAATTTTTCACAAT
64 TC-GATATTTTC-GAGGGGATACTCCAACCCCAACCTTACTTCTAAAACATCAATTTTTCACAAT
2082363 CGAG
127 CGAG
* *
2082367 GATACTCCAACCTCGATTTTATTTCCAAAACACCTATTTTCCACCATCGAGGATACTCCAACCTC
1 GATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACCTC
* * * ** * * *
2082432 GTTATTTTCGAGGGGATACTCCAACCTCAACTTTTTTTCTAAAACATCGATTTTTTATAATCGAG
66 GATATTTTCGAGGGGATACTCCAACCCCAACCTTACTTCTAAAACATCAATTTTTCACAATCGAG
* *
2082497 AATACTCTAACC
1 GATACTCCAACC
2082509 CTGTTATTTT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
129 2 0.02
130 112 0.93
131 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (130 bp):
GATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACCTC
GATATTTTCGAGGGGATACTCCAACCCCAACCTTACTTCTAAAACATCAATTTTTCACAATCGAG
Found at i:2082449 original size:79 final size:79
Alignment explanation
Indices: 2082366--2082634 Score: 267
Period size: 79 Copynumber: 3.4 Consensus size: 79
2082356 TCACAATCGA
* *
2082366 GGATACTCCAACCTCGATTTTATTTCCAAAACACCTATTTTCCACCATCGAGGATACTCCAACCT
1 GGATACTCCAACCTCGATTTTATTTCCAAAACATCGATTTTCCACCATCGAGGATACTCCAACCT
*
2082431 CGTTATTTTCGAGG
66 CGTTATTTTCAAGG
* * ** ** * *
2082445 GGATACTCCAACCTCAACTTTT-TTTCTAAAACATCGATTTTTTATAATCGAGAATACTCTAACC
1 GGATACTCCAACCTCGA-TTTTATTTCCAAAACATCGATTTTCCACCATCGAGGATACTCCAACC
2082509 -CTGTTATTTTCAAGG
65 TC-GTTATTTTCAAGG
* * * * *
2082524 AGATACTCCAACCCTAGTTTTTATTTTCAAAACATCGATTTTCCACCATTG-GGAATACTCCAAC
1 GGATACTCCAA-CCTCGATTTTATTTCCAAAACATCGATTTTCCACCATCGAGG-ATACTCCAAC
*
2082588 CTCGTTATTTTTAAGG
64 CTCGTTATTTTCAAGG
** * **
2082604 AGG-TACTCTGACCTCGTTTTTAACTCCAAAA
1 -GGATACTCCAACCTCGATTTTATTTCCAAAA
2082635 TATTAAATTT
Statistics
Matches: 151, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
78 1 0.01
79 92 0.61
80 56 0.37
81 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
GGATACTCCAACCTCGATTTTATTTCCAAAACATCGATTTTCCACCATCGAGGATACTCCAACCT
CGTTATTTTCAAGG
Found at i:2082531 original size:209 final size:209
Alignment explanation
Indices: 2082155--2082537 Score: 504
Period size: 209 Copynumber: 1.8 Consensus size: 209
2082145 TTATTTTCAA
* ** * * * * *
2082155 GAGGATACTCTAACCTCGACTTTATTTTTAAAATATCGATTTTCCATAATCGGGGATACTCCGAC
1 GAGGATACTCCAACCTCGACTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAAC
* *
2082220 GCCGTTATTTTCGAGGAGATACTCCAATCCCAGTTTTATTTCCAAAATATCGATTTTTCATAATC
66 GCCGTTATTTTCGAGGAGATACTCCAATCCCACTTTTATTTCCAAAACATCGATTTTTCATAATC
* * * *
2082285 GGGGATACTCCAACCCTGATATTTCTGAGGGGATACTCCAACCCCAGCCTTACTTCTAAAACATC
131 GAGAATACTCCAACCCTGATATTTCTAAGGAGATACTCCAACCCCAGCCTTACTTCTAAAACATC
2082350 AATTTTTCACAATC
196 AATTTTTCACAATC
* * *
2082364 GAGGATACTCCAACCTCGATTTTATTTCCAAAACACCTATTTTCCACCATCGAGGATACTCCAAC
1 GAGGATACTCCAACCTCGACTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAAC
* * *
2082429 -CTCGTTATTTTCGAGGGGATACTCCAA-CCTCAACTTTT-TTTCTAAAACATCGATTTTTTATA
66 GC-CGTTATTTTCGAGGAGATACTCCAATCC-C-ACTTTTATTTCCAAAACATCGATTTTTCATA
* *
2082491 ATCGAGAATACTCTAACCCTGTTATTT-TCAAGGAGATACTCCAACCC
128 ATCGAGAATACTCCAACCCTGATATTTCT-AAGGAGATACTCCAACCC
2082538 TAGTTTTTAT
Statistics
Matches: 148, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
208 4 0.03
209 139 0.94
210 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (209 bp):
GAGGATACTCCAACCTCGACTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAAC
GCCGTTATTTTCGAGGAGATACTCCAATCCCACTTTTATTTCCAAAACATCGATTTTTCATAATC
GAGAATACTCCAACCCTGATATTTCTAAGGAGATACTCCAACCCCAGCCTTACTTCTAAAACATC
AATTTTTCACAATC
Done.