Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 60 of 325
Found at i:18321349 original size:3 final size:3
Alignment explanation
Indices: 18321336--18321396 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
18321326 TATGTTTTTA
*
18321336 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18321378 TA- TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
18321397 ATATATATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
2 16 0.33
3 33 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:18321470 original size:40 final size:40
Alignment explanation
Indices: 18321413--18321508 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
18321403 ATGACAAAGA
*
18321413 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAAAGAAGG
* *
18321454 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAAAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAAAGAAGG
*
18321494 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
18321509 GAAAGAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 32 0.65
41 17 0.35
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAAAGAAGG
Found at i:18322273 original size:29 final size:29
Alignment explanation
Indices: 18322215--18322271 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
18322205 TCCGAGCCTT
*
18322215 GGGGAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAATGTAATTATGAAAAAGTTTA
* *
18322244 GGGGTAAAATTGTAATTTTGAAAAAGTT
1 GGGG-AAAAATGTAATTATGAAAAAGTT
18322272 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGGAAAAATGTAATTATGAAAAAGTTTA
Found at i:18322501 original size:13 final size:13
Alignment explanation
Indices: 18322483--18322514 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18322473 TTTCCAGCAA
18322483 TTATGAATTTATT
1 TTATGAATTTATT
18322496 TTATGAATTTATT
1 TTATGAATTTATT
*
18322509 TGATGA
1 TTATGA
18322515 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18322756 original size:50 final size:50
Alignment explanation
Indices: 18322609--18322856 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
18322599 ATTTGGGTAA
* *
18322609 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
18322665 AGAGGTCCCCT-TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
18322714 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * * *
18322764 AGAGGTCCCCTATAAGACCATGACTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GACG
** *
18322814 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18322857 TGTTATTATC
Statistics
Matches: 167, Mismatches: 22, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
49 12 0.07
50 78 0.47
51 34 0.20
52 3 0.02
54 2 0.01
55 29 0.17
56 9 0.05
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:18322802 original size:105 final size:102
Alignment explanation
Indices: 18322609--18322857 Score: 353
Period size: 105 Copynumber: 2.4 Consensus size: 102
18322599 ATTTGGGTAA
18322609 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
18322674 CTTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTTAAGACCATGACTGGGACATGGCATGGGCACC-ATCACG
* * *
18322714 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT-
18322776 TAAGACCATGACTGGGACATGGCATGGGCACCATCACG
65 TAAGACCATGACTGGGACATGGCATGGGCACCATCACG
* *
18322814 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18322858 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 15 0.11
100 38 0.29
101 37 0.28
104 2 0.02
105 40 0.30
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTT
AAGACCATGACTGGGACATGGCATGGGCACCATCACG
Found at i:18325695 original size:17 final size:17
Alignment explanation
Indices: 18325673--18325705 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18325663 ACGCTACTAA
18325673 AATTAAA-AAATTATTTT
1 AATTAAATAAA-TATTTT
18325690 AATTAAATAAATATTT
1 AATTAAATAAATATTT
18325706 ATTTCTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAATAAATATTTT
Found at i:18325940 original size:6 final size:6
Alignment explanation
Indices: 18325929--18326005 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
18325919 CTTAAATATT
* *
18325929 AAAATA AAAATA AAAATA TAGAATCA AAAAT- AAAATA AATAATA AAAATT
1 AAAATA AAAATA AAAATA -AAAAT-A AAAATA AAAATA AA-AATA AAAATA
* * * * *
18325979 AGATTA AATATA AAGATA TAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
18326006 TACAGCAAGT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
5 5 0.09
6 34 0.63
7 14 0.26
8 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:18325947 original size:20 final size:20
Alignment explanation
Indices: 18325922--18325963 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18325912 AAGTTATCTT
18325922 AAATATTAAAAT-AAAAATAA
1 AAATA-TAAAATCAAAAATAA
*
18325942 AAATATAGAATCAAAAATAA
1 AAATATAAAATCAAAAATAA
18325962 AA
1 AA
18325964 TAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATATAAAATCAAAAATAA
Found at i:18325976 original size:19 final size:20
Alignment explanation
Indices: 18325934--18325976 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
18325924 ATATTAAAAT
* *
18325934 AAAAATAAAAATATAGAATC
1 AAAAATAAAAATAAAGAATA
*
18325954 AAAAAT-AAAATAAATAATA
1 AAAAATAAAAATAAAGAATA
18325973 AAAA
1 AAAA
18325977 TTAGATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAATAAAGAATA
Found at i:18327643 original size:18 final size:19
Alignment explanation
Indices: 18327622--18327684 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
18327612 ACAAATATGT
18327622 TTATA-TCAAATTAAATAC
1 TTATATTCAAATTAAATAC
*
18327640 TTATATTTAAATT-AATAC
1 TTATATTCAAATTAAATAC
* *
18327658 TTACATTTAAATTAATATATC
1 TTATATTCAAATTAA-ATA-C
18327679 TTATAT
1 TTATAT
18327685 CATACTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 22 0.58
19 7 0.18
20 3 0.08
21 6 0.16
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATATTCAAATTAAATAC
Found at i:18329211 original size:13 final size:13
Alignment explanation
Indices: 18329193--18329223 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
18329183 ATATATAATG
18329193 AACAGTTTGAATC
1 AACAGTTTGAATC
18329206 AACAGTTTGAATC
1 AACAGTTTGAATC
18329219 AACAG
1 AACAG
18329224 AAAAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (13 bp):
AACAGTTTGAATC
Found at i:18330703 original size:17 final size:18
Alignment explanation
Indices: 18330670--18330703 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18330660 TATCTCTTAA
18330670 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
18330688 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
18330704 AAAATTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:18331164 original size:8 final size:7
Alignment explanation
Indices: 18331090--18331179 Score: 63
Period size: 7 Copynumber: 12.6 Consensus size: 7
18331080 AAAATTAATA
18331090 TAAACCC
1 TAAACCC
*
18331097 TAAATCC
1 TAAACCC
*
18331104 TTAACCAC
1 TAAACC-C
**
18331112 TATCCCC
1 TAAACCC
18331119 TAAACCC
1 TAAACCC
* *
18331126 TAAATCA
1 TAAACCC
* *
18331133 TAAAACA
1 TAAACCC
*
18331140 TAAATCC
1 TAAACCC
18331147 TAAACCC
1 TAAACCC
18331154 TAAAGCCC
1 TAAA-CCC
*
18331162 TAACCCC
1 TAAACCC
*
18331169 TAAACCT
1 TAAACCC
18331176 TAAA
1 TAAA
18331180 ACACAACCCT
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
7 54 0.84
8 10 0.16
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:18331194 original size:43 final size:43
Alignment explanation
Indices: 18331116--18331200 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
18331106 AACCACTATC
* * *
18331116 CCCTAAACCCTAAATCATAAAACATAAATCCTAAACCCTAAAG
1 CCCTAAACCCTAAACCATAAAACATAAACCCTAAACCATAAAG
* * *
18331159 CCCTAACCCCTAAACCTTAAAACA-CAACCCTTAAACCATAAA
1 CCCTAAACCCTAAACCATAAAACATAAACCC-TAAACCATAAA
18331201 TCATAATCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (43 bp):
CCCTAAACCCTAAACCATAAAACATAAACCCTAAACCATAAAG
Found at i:18331205 original size:7 final size:7
Alignment explanation
Indices: 18331119--18331296 Score: 71
Period size: 7 Copynumber: 25.4 Consensus size: 7
18331109 CACTATCCCC
*
18331119 TAAACCC
1 TAAACCA
*
18331126 TAAATCA
1 TAAACCA
*
18331133 TAAAACA
1 TAAACCA
18331140 TAAATCC-
1 TAAA-CCA
*
18331147 TAAACCC
1 TAAACCA
*
18331154 TAAAGCCC
1 TAAA-CCA
* *
18331162 TAACCCC
1 TAAACCA
*
18331169 TAAACCT
1 TAAACCA
*
18331176 TAAAACA
1 TAAACCA
* * *
18331183 CAACCCT
1 TAAACCA
18331190 TAAACCA
1 TAAACCA
*
18331197 TAAATCA
1 TAAACCA
*
18331204 TAATCCA
1 TAAACCA
18331211 TAAACCCA
1 TAAA-CCA
*
18331219 TAATCCA
1 TAAACCA
*
18331226 T-AACCT
1 TAAACCA
18331232 TAAA--A
1 TAAACCA
18331237 TAGTAACTCA
1 TA--AAC-CA
*
18331247 TAAAGC-
1 TAAACCA
18331253 -AAACCA
1 TAAACCA
18331259 TAAACCA
1 TAAACCA
* *
18331266 TATACCC
1 TAAACCA
18331273 TAAACCA
1 TAAACCA
*
18331280 TAAACCC
1 TAAACCA
*
18331287 TAAACTA
1 TAAACCA
18331294 TAA
1 TAA
18331297 TGATAATTAA
Statistics
Matches: 126, Mismatches: 33, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
5 6 0.05
6 6 0.05
7 96 0.76
8 15 0.12
10 3 0.02
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:18331222 original size:15 final size:15
Alignment explanation
Indices: 18331184--18331228 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
18331174 CTTAAAACAC
* *
18331184 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
18331199 AA-TCATAATCCATA
1 AACCCATAATCCATA
18331213 AACCCATAATCCATA
1 AACCCATAATCCATA
18331228 A
1 A
18331229 CCTTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:18340839 original size:47 final size:46
Alignment explanation
Indices: 18340590--18340952 Score: 190
Period size: 47 Copynumber: 7.7 Consensus size: 46
18340580 GTTAAGTTGT
* *
18340590 CGATGCCATGTCCC-GACATGTTCTTACACTGGCTATCT-TCATCGAGGC
1 CGATG-CATGTCCCAGACACG-TCTTACACTGGC-ATCTATC-TCTAGGC
* * * * * *
18340638 CGATGCCATATCCCAGACATGGTCTTACACTAGC-TCTCGTGTATAAGTGC
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCATCT-ATCTCT-AG-GC
* * * * * *
18340688 TGATGCATGTCCCAGACATGTCTTACATTAGCA-CGAAGCT-TA-GC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCATC-TATCTCTAGGC
* * * *
18340732 CAATGCATGTCCTAGACACGTCTTACACTGG-TTACCATCAT-TGAGGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCAT-CTATC-TCT-AGGC
* *
18340779 CGATGCATATCCCAGACACGTCTTACACTGGCATCTATCTCTACGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCATCTATCTCTAGGC
* * * * *
18340825 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTAT-TGTAATGT-GGC
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGC-ATCTAT-CTCTAGGC
* * * * *
18340873 TGATGCATGTCCCAGACACGTCTTACACTAGC-CCTCATCTCAAAGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCATCT-ATCTCTAGGC
*
18340919 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGC
18340953 TCTCACATAA
Statistics
Matches: 242, Mismatches: 49, Indels: 48
0.71 0.14 0.14
Matches are distributed among these distances:
44 29 0.12
45 5 0.02
46 29 0.12
47 77 0.32
48 61 0.25
49 34 0.14
50 7 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACACGTCTTACACTGGCATCTATCTCTAGGC
Found at i:18340878 original size:94 final size:93
Alignment explanation
Indices: 18340591--18340953 Score: 319
Period size: 94 Copynumber: 3.8 Consensus size: 93
18340581 TTAAGTTGTC
* * * *
18340591 GATGCCATGTCCC-GACATGTTCTTACACTGGCTATCT-TCATCGAGGCCGATGCCATATCCCAG
1 GATG-CATGTCCCAGACACG-TCTTACACTAGC-ATCTATC-TCTA-GCCGATGCCATGTCCCAG
* * *
18340654 ACATGGTCTTACACTAGCTCTCGTGTATAAGT-GCT
61 ACATGGTCTTACACTGGCTAT--TGTA-ATGTGGCT
* * * * * *
18340689 GATGCATGTCCCAGACATGTCTTACATTAGCA-CGAAGCT-TAGCCAATG-CATGTCCTAGACA-
1 GATGCATGTCCCAGACACGTCTTACACTAGCATC-TATCTCTAGCCGATGCCATGTCCCAGACAT
* * *** * * *
18340750 CGTCTTACACTGGTTACCATCATTGAGGCC
65 GGTCTTACACTGGCTATTGT-AATGTGGCT
* *
18340780 GATGCATATCCCAGACACGTCTTACACTGGCATCTATCTCTACGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCATCTATCTCTA-GCCGATGCCATGTCCCAGACAT
*
18340845 GGCCTTACACTGGCTATTGTAATGTGGCT
65 GGTCTTACACTGGCTATTGTAATGTGGCT
* *
18340874 GATGCATGTCCCAGACACGTCTTACACTAGC-CCTCATCTCAAAGCCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACACGTCTTACACTAGCATCT-ATCTC-TAGCCGATGCCATGTCCCAGACA
18340938 TGGTCTTACACTGGCT
64 TGGTCTTACACTGGCT
18340954 CTCACATAAC
Statistics
Matches: 212, Mismatches: 41, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
90 2 0.01
91 34 0.16
92 15 0.07
93 19 0.09
94 94 0.44
95 17 0.08
96 2 0.01
97 19 0.09
98 10 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCATCTATCTCTAGCCGATGCCATGTCCCAGACATG
GTCTTACACTGGCTATTGTAATGTGGCT
Found at i:18348146 original size:47 final size:44
Alignment explanation
Indices: 18348000--18348341 Score: 193
Period size: 47 Copynumber: 7.4 Consensus size: 44
18347990 TATAAGTGCT
* ** * * *
18348000 GATGCATGTCCCAGACTTGTCTTACACTAGCACGAAGCTTA-GCC
1 GATGCATATCCCAGACACGTCTTACACTGGCAC-CATCTTATGCC
* * ** * * *
18348044 AATGCATGTCCCAGGGACGTCTTACACTGGTTACCATCATTGAGGCT
1 GATGCATATCCCAGACACGTCTTACACTGG-CACCATC-TT-ATGCC
* *
18348091 GATGCATATCCCAGACACGTCGTACACTGGCACTCATCTCTACGCC
1 GATGCATATCCCAGACACGTCTTACACTGGCAC-CATCT-TATGCC
* * * * * *
18348137 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGTGCT
1 GATG-CATATCCCAGACA-CGTCTTACACTGGCAC-CATCT-T-A-TGCC
* * * * * *
18348187 GATGCATGTCCCAGACATGTCTTACATTAGCACGAAGCTTA-GCC
1 GATGCATATCCCAGACACGTCTTACACTGGCAC-CATCTTATGCC
* * * * *
18348231 GATGCATGTCCTAGACGCGTCTTACACTGGTTACCATCATTGAGGCC
1 GATGCATATCCCAGACACGTCTTACACTGG-CACCATC-TT-ATGCC
*
18348278 GATGCATATCCCAGACACGTTTTACACTGGCACCTATCTCTATGCC
1 GATGCATATCCCAGACACGTCTTACACTGGCACC-ATCT-TATGCC
*
18348324 GATGCCATGTCCCAGACA
1 GATG-CATATCCCAGACA
18348342 TGGCCTTACA
Statistics
Matches: 229, Mismatches: 52, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
44 55 0.24
45 8 0.03
46 25 0.11
47 91 0.40
48 31 0.14
49 13 0.06
50 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GATGCATATCCCAGACACGTCTTACACTGGCACCATCTTATGCC
Found at i:18348209 original size:48 final size:48
Alignment explanation
Indices: 18347941--18348217 Score: 135
Period size: 47 Copynumber: 5.8 Consensus size: 48
18347931 AAACATTGGT
* * *
18347941 TAAGATGCCGATGCCATCTCCCAGACATGGTCTTACAGTAGCTCTTGTGTA
1 TAAG-TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTGTA
* * * *
18347992 TAAGTGCTGATGCATGTCCCAGACTTGTCTTACACTAG--CACGAAGCT-
1 TAAGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-TG-TA
* ** * * * * *
18348039 T-A--GCCAATGCATGTCCCAGGGACGTCTTACACTGGTTAC-CAT-CA
1 TAAGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-CTCGTGTA
* * * * * * * * * *
18348083 TTGAG-GCTGATGCATATCCCAGACACGTCGTACACTGGCACTCATCTC
1 -TAAGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTGTA
* *
18348131 T-A-CGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTA
1 TAAGTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTGTA
* *
18348179 TAAGTGCTGATGCATGTCCCAGACATGTCTTACATTAGC
1 TAAGTGCCGATGCATGTCCCAGACATGTCTTACACTAGC
18348218 ACGAAGCTTA
Statistics
Matches: 171, Mismatches: 39, Indels: 35
0.70 0.16 0.14
Matches are distributed among these distances:
44 26 0.15
45 1 0.01
46 13 0.08
47 47 0.27
48 41 0.24
49 26 0.15
50 13 0.08
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
TAAGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTGTA
Found at i:18348262 original size:187 final size:186
Alignment explanation
Indices: 18347947--18348402 Score: 659
Period size: 187 Copynumber: 2.4 Consensus size: 186
18347937 TGGTTAAGAT
* *
18347947 GCCGATGCCATCTCCCAGACATGGTCTTACAGTAGCTCTTGTGTATAAGTGCTGATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTC-TGTGTATAAGTGCTGATGCATGTCCC
* *
18348012 AGACTTGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGGGACGTCTTACACTGGTTA
65 AGACATGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGCGACGTCTTACACTGGTTA
*
18348077 CCATCATTGAGGCTGATGCATATCCCAGACACGTCGTACACTGGCA-CTCATCTCTAC
130 CCATCATTGAGGCCGATGCATATCCCAGACACGTCGTACACTGGCACCT-ATCTCTAC
18348134 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGTGCTGATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCT-GTGTATAAGTGCTGATGCATGTCCC
* * *
18348199 AGACATGTCTTACATTAGCACGAAGCTTAGCCGATGCATGTCCTAGACG-CGTCTTACACTGGTT
65 AGACATGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAG-CGACGTCTTACACTGGTT
** *
18348263 ACCATCATTGAGGCCGATGCATATCCCAGACACGTTTTACACTGGCACCTATCTCTAT
129 ACCATCATTGAGGCCGATGCATATCCCAGACACGTCGTACACTGGCACCTATCTCTAC
* * * * ** *
18348321 GCCGATGCCATGTCCCAGACATGGCCTTACATTGGCAAT-TGTA-ATGTGGCTGATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTGTGTATAAGT-GCTGATGCATGTCCC
* *
18348384 AAACACGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
18348403 CCTCATCTCA
Statistics
Matches: 244, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
184 3 0.01
185 35 0.14
186 1 0.00
187 202 0.83
188 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (186 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTGTGTATAAGTGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGCGACGTCTTACACTGGTTAC
CATCATTGAGGCCGATGCATATCCCAGACACGTCGTACACTGGCACCTATCTCTAC
Found at i:18348290 original size:91 final size:91
Alignment explanation
Indices: 18347997--18348340 Score: 318
Period size: 91 Copynumber: 3.7 Consensus size: 91
18347987 GTGTATAAGT
* ** * *
18347997 GCTGATGCATGTCCCAGACTTGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAG-GGA
1 GCTGATGCATATCCCAGACACGTCTTACACTAGCACGAAGCTTAGCCGATGCATGTCCCAGACG-
18348061 CGTCTTACACTGGTTACCATCATTGAG
65 CGTCTTACACTGGTTACCATCATTGAG
* * ** * *
18348088 GCTGATGCATATCCCAGACACGTCGTACACTGGCACTCATCTCTACGCCGATGCCATATCCCAGA
1 GCTGATGCATATCCCAGACACGTCTTACACTAGCACGAAGCT-TA-GCCGATG-CATGTCCCAGA
* * * * *
18348153 CATG-GTCTTACACTAGCT-CTCGT-GTATAAG
63 C--GCGTCTTACACTGGTTAC-CATCAT-TGAG
* * * *
18348183 TGCTGATGCATGTCCCAGACATGTCTTACATTAGCACGAAGCTTAGCCGATGCATGTCCTAGACG
1 -GCTGATGCATATCCCAGACACGTCTTACACTAGCACGAAGCTTAGCCGATGCATGTCCCAGACG
18348248 CGTCTTACACTGGTTACCATCATTGAG
65 CGTCTTACACTGGTTACCATCATTGAG
* * * ** *
18348275 GCCGATGCATATCCCAGACACGTTTTACACTGGCACCTATCTCTATGCCGATGCCATGTCCCAGA
1 GCTGATGCATATCCCAGACACGTCTTACACTAGCACGAAGCT-TA-GCCGATG-CATGTCCCAGA
18348340 C
63 C
18348341 ATGGCCTTAC
Statistics
Matches: 197, Mismatches: 41, Indels: 27
0.74 0.15 0.10
Matches are distributed among these distances:
91 68 0.35
92 21 0.11
93 25 0.13
94 29 0.15
95 19 0.10
96 34 0.17
97 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (91 bp):
GCTGATGCATATCCCAGACACGTCTTACACTAGCACGAAGCTTAGCCGATGCATGTCCCAGACGC
GTCTTACACTGGTTACCATCATTGAG
Found at i:18348378 original size:94 final size:95
Alignment explanation
Indices: 18347945--18348451 Score: 362
Period size: 94 Copynumber: 5.4 Consensus size: 95
18347935 ATTGGTTAAG
* * * * * *
18347945 ATGCCGATGCCATCTCCCAGACATGGTCTTACAGTAGCTCTTGTGTATAAGT-GCTGATGCATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-AT-TGTA-ATGTGGCTGATGCATAT
** ** *
18348009 CCCAGACTTGTCTTACACTAGCA-CGAAGCT-T
63 CCCAGACACGTCTTACACTAGCACCTCATCTCT
* ** * * *** * *
18348040 A-GCCAATG-CATGTCCCAGGGA-CGTCTTACACTGGTTACCATCATTGAGGCTGATGCATATCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGT-AATGTGGCTGATGCATATCC
* *
18348102 CAGACACGTCGTACACTGGCA-CTCATCTCT
65 CAGACACGTCTTACACTAGCACCTCATCTCT
* * * * * *
18348132 ACGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGT-GCTGATGCATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--TGTA-ATGTGGCTGATGCATAT
* * ** *
18348196 CCCAGACATGTCTTACATTAGCA-CGAAGCT-T
63 CCCAGACACGTCTTACACTAGCACCTCATCTCT
* * *** * * *
18348227 A-GCCGATG-CATGTCCTAGAC--GCGTCTTACACTGGTTACCATCATTGAGGCCGATGCATATC
1 ATGCCGATGCCATGTCCCAGACATG-GTCTTACACTGGCTATTGT-AATGTGGCTGATGCATATC
* *
18348288 CCAGACACGTTTTACACTGGCACCT-ATCTCT
64 CCAGACACGTCTTACACTAGCACCTCATCTCT
* * * *
18348319 ATGCCGATGCCATGTCCCAGACATGGCCTTACATTGGCAATTGTAATGTGGCTGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGTAATGTGGCTGATGCATATCCC
* *
18348384 AAACACGTCTTACACTAGC-CCTCATCTCA
66 AGACACGTCTTACACTAGCACCTCATCTCT
*
18348413 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
18348452 CTCACATAAC
Statistics
Matches: 309, Mismatches: 84, Indels: 39
0.72 0.19 0.09
Matches are distributed among these distances:
90 4 0.01
91 69 0.22
92 28 0.09
93 36 0.12
94 107 0.35
95 27 0.09
96 36 0.12
97 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGTAATGTGGCTGATGCATATCCC
AGACACGTCTTACACTAGCACCTCATCTCT
Found at i:18349182 original size:46 final size:46
Alignment explanation
Indices: 18349123--18349290 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
18349113 TATTTGGGCA
*
18349123 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCG
* * * * *
18349169 TCTGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATG---CGA-GCG
* *
18349216 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCG
*
18349262 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
18349291 GCTTATGGGC
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 58 0.57
47 32 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCG
Found at i:18349278 original size:93 final size:93
Alignment explanation
Indices: 18349119--18349291 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
18349109 GGGATATTTG
* * *
18349119 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGCGTCTGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
18349184 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
18349212 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
18349277 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
18349292 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18352267 original size:30 final size:29
Alignment explanation
Indices: 18352222--18352299 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
18352212 CATAGTATCG
* *
18352222 TATCTTAGG-TTTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTTCTTTATCCAGG-TCTCTC
*
18352252 TAT-TCTGGATTTCTTTATTCCAGGTTTCTC
1 TATCT-TGGATTTCTTTA-TCCAGGTCTCTC
18352282 TATCTTGGATTTCTTTAT
1 TATCTTGGATTTCTTTAT
18352300 TCGGTTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 4 0.10
30 31 0.76
31 6 0.15
ACGTcount: A:0.14, C:0.18, G:0.13, T:0.55
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATCCAGGTCTCTC
Found at i:18352270 original size:15 final size:15
Alignment explanation
Indices: 18352231--18352310 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
18352221 GTATCTTAGG
*
18352231 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18352246 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18352261 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
18352276 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
18352291 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
18352305 TTTCTT
1 TTTCTT
18352311 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 11 0.21
15 36 0.68
16 5 0.09
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18354739 original size:46 final size:46
Alignment explanation
Indices: 18354686--18354861 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
18354676 TATTTGGGCA
*
18354686 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
18354732 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
18354779 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
18354825 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18354862 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:18354841 original size:93 final size:93
Alignment explanation
Indices: 18354682--18354854 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
18354672 AGGATATTTG
* * *
18354682 GGCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18354747 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
18354775 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18354840 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
18354855 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18367212 original size:24 final size:24
Alignment explanation
Indices: 18367185--18367236 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18367175 TTAGTAAGTC
*
18367185 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18367209 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18367233 AAAT
1 AAAT
18367237 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18369181 original size:24 final size:24
Alignment explanation
Indices: 18369154--18369205 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18369144 TTAGTAAGTC
*
18369154 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
18369178 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18369202 AAAT
1 AAAT
18369206 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18371689 original size:29 final size:28
Alignment explanation
Indices: 18371643--18371742 Score: 137
Period size: 29 Copynumber: 3.5 Consensus size: 28
18371633 TATTACATAG
*
18371643 CTCAGACGAGCAACCTGGTGTAATTTTGA
1 CTCAGACGAGCAATCTGGTGTAATTTT-A
18371672 CTCAGACGAGCAATCTGGTGTAATTTTAA
1 CTCAGACGAGCAATCTGGTGTAATTTT-A
** *
18371701 CTTGGACGAGCAATCTGGTGTAAATTTA
1 CTCAGACGAGCAATCTGGTGTAATTTTA
18371729 GCTCAGACGAGCAA
1 -CTCAGACGAGCAA
18371743 CCACGTGTGG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
28 1 0.02
29 62 0.98
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (28 bp):
CTCAGACGAGCAATCTGGTGTAATTTTA
Found at i:18373305 original size:49 final size:49
Alignment explanation
Indices: 18373233--18373426 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 49
18373223 GCCGAAGCTA
* *
18373233 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
18373282 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
* ** * ** *
18373332 TTTAATACACGTAGTAGCCTGCACTTAGTACTACACACATGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * * *
18373380 TTTTTGGGTACGCATAGTAGCCTGCGCTTAGTACTACACATGCGACC
1 --TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
18373427 TCACAATAGA
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.32
50 42 0.35
51 36 0.30
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:18373417 original size:101 final size:99
Alignment explanation
Indices: 18373244--18373430 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
18373234 CTGGTACGCA
** *
18373244 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
*
18373309 GTACTACACACGTGACCTCACCATTTAATACACG
66 GTACTACACACGCGACCTCACCATTTAATACACG
* * * * *
18373343 TAGTAGCCTGCACTTAGTACTACACACATGATC-ACAGTTTTTGGGTACGCATAGTAGCCTGCGC
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACAG--TCT-GGTACACATAGTAGCCTGCAC
*
18373407 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
18373431 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
100 2 0.03
101 40 0.53
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATTTAATACACG
Found at i:18375099 original size:57 final size:57
Alignment explanation
Indices: 18374949--18375088 Score: 208
Period size: 57 Copynumber: 2.5 Consensus size: 57
18374939 ATTACAATGT
* *
18374949 CATTGAAATGAATTATGTGTAACTGGAATCACCTTATAGACTATTAATGGATTATGC
1 CATTGAAATGAATTATGTGTAATTGGAATCACCTTATAGACTACTAATGGATTATGC
* * * *
18375006 CCTTAAAATGAATTATATGTAATTGGAATCACCTTATAGACTGCTAATGGATTATGC
1 CATTGAAATGAATTATGTGTAATTGGAATCACCTTATAGACTACTAATGGATTATGC
* *
18375063 CATTGAAATGAATAATGTATAATTGG
1 CATTGAAATGAATTATGTGTAATTGG
18375089 TATAATCTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (57 bp):
CATTGAAATGAATTATGTGTAATTGGAATCACCTTATAGACTACTAATGGATTATGC
Found at i:18376471 original size:27 final size:27
Alignment explanation
Indices: 18376423--18376525 Score: 129
Period size: 27 Copynumber: 3.8 Consensus size: 27
18376413 GCGAGGCTAC
* * *
18376423 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
18376450 CAGATATTGTGGCAGAGCCACCATA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
18376476 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
18376503 CAGATAATTGTGGCATAGCCACC
1 CAGAT-ATTGTGGCAGAGCCACC
18376526 TGGACGCTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.12
27 57 0.85
28 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:18376513 original size:54 final size:53
Alignment explanation
Indices: 18376423--18376525 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 53
18376413 GCGAGGCTAC
*
18376423 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCCACCATAA
1 CAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCAGAGCCACCATAA
* * *
18376476 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACC
1 CAGATAT-TGTGACAAAGCCACCAGATACAGAT-ATTGTGGCAGAGCCACC
18376526 TGGACGCTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
53 12 0.27
54 32 0.73
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCAGAGCCACCATAA
Found at i:18379788 original size:31 final size:31
Alignment explanation
Indices: 18379744--18379823 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
18379734 ATTTGAGAAA
* * *
18379744 CCCTTGTTCGAGCATTTTCAAAAA-GATATGT
1 CCCTTATTTGAGCATTTTCAAAAATG-TATGG
*
18379775 CCCTTATTTGAGCATTTTCAAAAATGTTTGG
1 CCCTTATTTGAGCATTTTCAAAAATGTATGG
*
18379806 CCCTTATTTGACCATTTT
1 CCCTTATTTGAGCATTTT
18379824 GAAAGGGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (31 bp):
CCCTTATTTGAGCATTTTCAAAAATGTATGG
Found at i:18382177 original size:44 final size:44
Alignment explanation
Indices: 18382108--18382193 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
18382098 ACTCTGTTTT
* *
18382108 TAGTTTCCCACTTAAACTTTGATTAGTGTAGGTTATTTTAATAG
1 TAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATAG
18382152 TAGTTTCCCACTTCAAA-TCTAATTAGTGTAGGTTATTTTAAT
1 TAGTTTCCCACTT-AAACTCTAATTAGTGTAGGTTATTTTAAT
18382194 CTTATTTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (44 bp):
TAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATAG
Found at i:18384157 original size:44 final size:44
Alignment explanation
Indices: 18384082--18384168 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
18384072 AACTTTGTTT
* *
18384082 TTAGTTTCTCACTTAAACTCTTATTAGTGTAGGTTATATTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAATGTAGGTTATATTAATA
*
18384126 TTAGTTTCCCACTTAAACT-TTGATTAATGTAGGTTATTTTAAT
1 TTAGTTTCCCACTTAAACTCTT-ATTAATGTAGGTTATATTAAT
18384169 TTATTTAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.48
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAATGTAGGTTATATTAATA
Found at i:18384839 original size:21 final size:22
Alignment explanation
Indices: 18384815--18384859 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
18384805 GTTTAATCTC
*
18384815 TCTACTTATTAAATT-TATA-AA
1 TCTACTT-TCAAATTATATATAA
18384836 TCTACTTTCAAATTATATATAA
1 TCTACTTTCAAATTATATATAA
18384858 TC
1 TC
18384860 ACATAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTACTTTCAAATTATATATAA
Found at i:18385050 original size:22 final size:21
Alignment explanation
Indices: 18385012--18385056 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
18385002 GCATACTATG
*
18385012 ACCAAAATTGAAAAAAAACCC
1 ACCAAAATTGAAAAAAAAACC
18385033 ACCAAAATTGAAAAAAAAAACC
1 ACCAAAATTG-AAAAAAAAACC
18385055 AC
1 AC
18385057 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.64, C:0.22, G:0.04, T:0.09
Consensus pattern (21 bp):
ACCAAAATTGAAAAAAAAACC
Found at i:18385405 original size:38 final size:38
Alignment explanation
Indices: 18385363--18385435 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
18385353 AATAAAGTTA
* *
18385363 TAAAA-TTATTAAAATTTAATAATAAATATAGAAATATT
1 TAAAATTTACTAAAA-TTAAAAATAAATATAGAAATATT
* *
18385401 TAAAATTTACTAAAATTAAAAATATATATATAAAT
1 TAAAATTTACTAAAATTAAAAATAAATATAGAAAT
18385436 GGTAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 22 0.73
39 8 0.27
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (38 bp):
TAAAATTTACTAAAATTAAAAATAAATATAGAAATATT
Found at i:18385444 original size:29 final size:30
Alignment explanation
Indices: 18385412--18385483 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
18385402 AAAATTTACT
* **
18385412 AAAATTA-AAAATATATATATAAATGGTAA
1 AAAATTATAAAATATATATAAAAATCATAA
* *
18385441 AAAAATATAAAAT-TTTATAAAAATCATAA
1 AAAATTATAAAATATATATAAAAATCATAA
18385470 AAAATTATAAAATA
1 AAAATTATAAAATA
18385484 CATCAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
29 30 0.86
30 5 0.14
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (30 bp):
AAAATTATAAAATATATATAAAAATCATAA
Found at i:18385492 original size:19 final size:19
Alignment explanation
Indices: 18385441--18385481 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18385431 TAAATGGTAA
**
18385441 AAAAAT-ATAAAATTTTAT
1 AAAAATCATAAAAAATTAT
18385459 AAAAATCATAAAAAATTAT
1 AAAAATCATAAAAAATTAT
18385478 AAAA
1 AAAA
18385482 TACATCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATCATAAAAAATTAT
Found at i:18385748 original size:20 final size:19
Alignment explanation
Indices: 18385723--18385762 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18385713 TTCTTACGAC
18385723 TCTATAAAATTTTATATATT
1 TCTATAAAATTTTA-ATATT
* *
18385743 TCTATATATTTTTAATATT
1 TCTATAAAATTTTAATATT
18385762 T
1 T
18385763 TTTATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TCTATAAAATTTTAATATT
Found at i:18385856 original size:10 final size:10
Alignment explanation
Indices: 18385810--18385871 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 10
18385800 TATTTCTTAT
18385810 ATTTTTATTA
1 ATTTTTATTA
* *
18385820 AATTTTAATA
1 ATTTTTATTA
*
18385830 ATTTTTA-GA
1 ATTTTTATTA
*
18385839 ACTTTTATTA
1 ATTTTTATTA
18385849 ATTTTTATT-
1 ATTTTTATTA
18385858 -TTTTTATT-
1 ATTTTTATTA
18385866 ATTTTT
1 ATTTTT
18385872 TGCCTCATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
8 8 0.19
9 12 0.28
10 23 0.53
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:18413790 original size:31 final size:31
Alignment explanation
Indices: 18413749--18413808 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
18413739 GGCCCGTTTA
*
18413749 GAAAATGGGCTAAAATTTTTTTATGGGCCAT
1 GAAAACGGGCTAAAATTTTTTTATGGGCCAT
18413780 GAAAACGGGCTAAAATTTTTTTATGGGCC
1 GAAAACGGGCTAAAATTTTTTTATGGGCC
18413809 CGGCCCGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (31 bp):
GAAAACGGGCTAAAATTTTTTTATGGGCCAT
Found at i:18414884 original size:26 final size:26
Alignment explanation
Indices: 18414855--18414908 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
18414845 GAAATGAGTT
18414855 AAATAGTTATGGAATAAAAACTAATG
1 AAATAGTTATGGAATAAAAACTAATG
18414881 AAATAGTTATGGAATAAAAACTAATG
1 AAATAGTTATGGAATAAAAACTAATG
18414907 AA
1 AA
18414909 CTTAAATGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.26
Consensus pattern (26 bp):
AAATAGTTATGGAATAAAAACTAATG
Found at i:18421585 original size:13 final size:13
Alignment explanation
Indices: 18421567--18421591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18421557 AAATATGTTC
18421567 ATTTTGTTTGTGA
1 ATTTTGTTTGTGA
18421580 ATTTTGTTTGTG
1 ATTTTGTTTGTG
18421592 TTCAAAAGTT
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:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (13 bp):
ATTTTGTTTGTGA
Found at i:18424242 original size:18 final size:20
Alignment explanation
Indices: 18424211--18424252 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
18424201 AAAATCAGTC
*
18424211 AAAAAAGTCAAAA-T-AATA
1 AAAAAAGACAAAATTCAATA
*
18424229 AAAAAAGACGAAATTCAATA
1 AAAAAAGACAAAATTCAATA
18424249 AAAA
1 AAAA
18424253 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 1 0.05
20 8 0.40
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAAAAGACAAAATTCAATA
Found at i:18425557 original size:13 final size:12
Alignment explanation
Indices: 18425526--18425580 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
18425516 TGTGAAACAG
*
18425526 AAAAGAAATTGA
1 AAAAGAAGTTGA
18425538 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
18425550 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
18425562 AAATGAA-TTAGA
1 AAAAGAAGTT-GA
18425574 AAAAGAA
1 AAAAGAA
18425581 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:18428998 original size:52 final size:52
Alignment explanation
Indices: 18428920--18429024 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
18428910 AGCATATGAT
18428920 TGTTTTGGAGCATCATCTGGAACCATAGGAGATGAATCAACAGCAACTATCC
1 TGTTTTGGAGCATCATCTGGAACCATAGGAGATGAATCAACAGCAACTATCC
*
18428972 TGTTTTGGAGCATCATTTGGAACCATAGGAGATGAATCAACAGCAACTATCC
1 TGTTTTGGAGCATCATCTGGAACCATAGGAGATGAATCAACAGCAACTATCC
18429024 T
1 T
18429025 CTCGTTCTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (52 bp):
TGTTTTGGAGCATCATCTGGAACCATAGGAGATGAATCAACAGCAACTATCC
Found at i:18429831 original size:13 final size:13
Alignment explanation
Indices: 18429813--18429837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18429803 AAGAAGAAAA
18429813 ACAAATTTTCTTC
1 ACAAATTTTCTTC
18429826 ACAAATTTTCTT
1 ACAAATTTTCTT
18429838 ACCAACTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ACAAATTTTCTTC
Found at i:18447507 original size:30 final size:30
Alignment explanation
Indices: 18447471--18447628 Score: 230
Period size: 30 Copynumber: 5.3 Consensus size: 30
18447461 GACGCAAATA
18447471 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
*
18447501 GGGAGACCTGCTCCTGCTTCTTCGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
18447531 GGGAGACCTGCTCCTGCTTCTAT-GATTTCT
1 GGGAGACCTGCTCCTGCTTCT-TCGATTTCT
* * *
18447561 AGGAGACCTGCTCCTACTTCTACGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
* *
18447591 GGGAGACCTGCTTCTGCTTC-TCTGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTC-GATTTCT
18447621 GGGAGACC
1 GGGAGACC
18447629 AACTAAAACA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
29 1 0.01
30 113 0.98
31 1 0.01
ACGTcount: A:0.12, C:0.28, G:0.25, T:0.35
Consensus pattern (30 bp):
GGGAGACCTGCTCCTGCTTCTTCGATTTCT
Found at i:18448577 original size:20 final size:22
Alignment explanation
Indices: 18448538--18448579 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
18448528 AATTCTAAAC
18448538 TTGCTAAACATACAACAGATAA
1 TTGCTAAACATACAACAGATAA
*
18448560 TTGC-AAAC-TACAAGAGATAA
1 TTGCTAAACATACAACAGATAA
18448580 AGACTCGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (22 bp):
TTGCTAAACATACAACAGATAA
Found at i:18452656 original size:8 final size:9
Alignment explanation
Indices: 18452609--18452656 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
18452599 AATTTGAAAA
18452609 ATTTTAAAT
1 ATTTTAAAT
*
18452618 A-TTTAATTAC
1 ATTTTAA--AT
18452628 ATTTTAAAT
1 ATTTTAAAT
18452637 ATTTTAAAT
1 ATTTTAAAT
18452646 ATTTT-AAT
1 ATTTTAAAT
18452654 ATT
1 ATT
18452657 AATTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 11 0.32
9 16 0.47
10 2 0.06
11 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:18456874 original size:18 final size:18
Alignment explanation
Indices: 18456851--18456891 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
18456841 GTCCTAAAGC
18456851 ATCAAAATTCTTATCTTA
1 ATCAAAATTCTTATCTTA
18456869 ATCAAAATTCTTATCTTA
1 ATCAAAATTCTTATCTTA
18456887 ATCAA
1 ATCAA
18456892 CTTCCACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (18 bp):
ATCAAAATTCTTATCTTA
Found at i:18458401 original size:13 final size:13
Alignment explanation
Indices: 18458383--18458413 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
18458373 GTAACACACT
18458383 TCGCCCGTATCCC
1 TCGCCCGTATCCC
18458396 TCGCCCGTATCCC
1 TCGCCCGTATCCC
18458409 TCGCC
1 TCGCC
18458414 AGAACAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.55, G:0.16, T:0.23
Consensus pattern (13 bp):
TCGCCCGTATCCC
Found at i:18460013 original size:26 final size:26
Alignment explanation
Indices: 18459984--18460043 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
18459974 TCCCTTTGAA
* * *
18459984 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
18460010 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
18460038 CCATTC
1 TCATTC
18460044 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:18460029 original size:28 final size:28
Alignment explanation
Indices: 18459998--18460069 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
18459988 TCGATATTTT
*
18459998 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
18460026 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
18460054 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
18460070 ATTGATTGCC
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:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:18464838 original size:16 final size:16
Alignment explanation
Indices: 18464817--18464903 Score: 68
Period size: 16 Copynumber: 5.2 Consensus size: 16
18464807 TTGCAACATT
*
18464817 TTTTTAAGGTTTAAGG
1 TTTTTAAGGTTTAGGG
18464833 TTTTT-AGGTTTAGGG
1 TTTTTAAGGTTTAGGG
18464848 TTTTTAGTAGGGTTTAGGG
1 TTTTTA--A-GGTTTAGGG
** **
18464867 TTTAGATTGTTTAGGG
1 TTTTTAAGGTTTAGGG
* *
18464883 TTTTTAGTGGTTTAAGG
1 TTTTTA-AGGTTTAGGG
18464900 TTTT
1 TTTT
18464904 AGGGTTTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
15 14 0.25
16 17 0.30
17 12 0.21
18 1 0.02
19 13 0.23
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (16 bp):
TTTTTAAGGTTTAGGG
Found at i:18464841 original size:15 final size:15
Alignment explanation
Indices: 18464817--18464854 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18464807 TTGCAACATT
18464817 TTTTTAAGGTTTAAGG
1 TTTTT-AGGTTTAAGG
*
18464833 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAAGG
18464848 TTTTTAG
1 TTTTTAG
18464855 TAGGGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
TTTTTAGGTTTAAGG
Found at i:18464863 original size:34 final size:33
Alignment explanation
Indices: 18464824--18464903 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 33
18464814 ATTTTTTTAA
*
18464824 GGTTTAAGGTTTTTA-GGTTTAGGGTTTTTAGT
1 GGTTTAAGGTTTTGATGGTTTAGGGTTTTTAGT
* * *
18464856 AGGGTTTAGGGTTTAGATTGTTTAGGGTTTTTAGT
1 --GGTTTAAGGTTTTGATGGTTTAGGGTTTTTAGT
18464891 GGTTTAAGGTTTT
1 GGTTTAAGGTTTT
18464904 AGGGTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 11 0.28
34 12 0.31
35 16 0.41
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (33 bp):
GGTTTAAGGTTTTGATGGTTTAGGGTTTTTAGT
Found at i:18464904 original size:16 final size:16
Alignment explanation
Indices: 18464824--18464915 Score: 57
Period size: 16 Copynumber: 5.6 Consensus size: 16
18464814 ATTTTTTTAA
18464824 GGTTTAAGGTTTT--T
1 GGTTTAAGGTTTTAGT
*
18464838 AGGTTTAGGGTTTTTAGT
1 -GGTTTAAGG-TTTTAGT
*
18464856 AGGGTTT-AGGGTTTAGAT
1 --GGTTTAAGGTTTTAG-T
* *
18464874 TGTTTAGGGTTTTTAGT
1 GGTTTAAGG-TTTTAGT
18464891 GGTTTAAGGTTTTAG-
1 GGTTTAAGGTTTTAGT
18464906 GGTTTTAAGG
1 GG-TTTAAGG
18464916 AAAAAATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
15 10 0.17
16 21 0.35
17 15 0.25
18 9 0.15
19 5 0.08
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (16 bp):
GGTTTAAGGTTTTAGT
Found at i:18465100 original size:162 final size:161
Alignment explanation
Indices: 18464884--18465261 Score: 607
Period size: 162 Copynumber: 2.3 Consensus size: 161
18464874 TGTTTAGGGT
* * * * *
18464884 TTTTAGTGGTTTAAGG-TTTTAG-GGTTTTAAGGAAAAAATTAATGTACACTTAGAGTTGAGGGT
1 TTTTAGTGGTTTAGGGTTTTTAGTGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGT
* *
18464947 TAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTATGGTTTCGAGTTTTTTAAG
66 TAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAAA
18465012 GTTAGGGTTTTTGATTGTTTTAGAGTTACGA
131 GTTAGGGTTTTTGATTGTTTTAGAGTTACGA
18465043 TTTTAGTGGTTTAGGGTTTTTAGTGATTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGG
1 TTTTAGTGGTTTAGGGTTTTTAGTG-TTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGG
* *
18465108 TTAATTAATTAAATTAAGTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTTGAGTTTTTTAA
65 TTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAA
* * *
18465173 AGTTAGGGTTTTTGATTGTTTTAGGGTTAGGG
130 AGTTAGGGTTTTTGATTGTTTTAGAGTTACGA
*
18465205 TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATAAACACTTAGA
1 TTTTAGTGGTTTAGGGTTTTTAGT-GTTTTTAAGGGAGAAATTAATGAACACTTAGA
18465262 AATTAATGAA
Statistics
Matches: 202, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
159 15 0.07
160 6 0.03
161 1 0.00
162 179 0.89
163 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (161 bp):
TTTTAGTGGTTTAGGGTTTTTAGTGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGT
TAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAAA
GTTAGGGTTTTTGATTGTTTTAGAGTTACGA
Found at i:18465194 original size:24 final size:24
Alignment explanation
Indices: 18465147--18465208 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
18465137 AAAAAATCAA
18465147 TTAAA-TTAGGG-TTTTGAGTTTT
1 TTAAAGTTAGGGTTTTTGAGTTTT
18465169 TTAAAGTTAGGGTTTTTGA-TTGTT
1 TTAAAGTTAGGGTTTTTGAGTT-TT
**
18465193 TTAGGGTTAGGGTTTT
1 TTAAAGTTAGGGTTTT
18465209 AGTGGTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 5 0.14
23 8 0.23
24 22 0.63
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.53
Consensus pattern (24 bp):
TTAAAGTTAGGGTTTTTGAGTTTT
Found at i:18465216 original size:23 final size:22
Alignment explanation
Indices: 18465152--18465222 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 22
18465142 ATCAATTAAA
* **
18465152 TTAGGGTTTTGAGTTTTTTAAAG
1 TTAGGGTTTT-AGTGTTTTAGGG
*
18465175 TTAGGGTTTTTGATTGTTTTAGGG
1 TTAGGG-TTTT-AGTGTTTTAGGG
*
18465199 TTAGGGTTTTAGTGGTTTAGGG
1 TTAGGGTTTTAGTGTTTTAGGG
18465221 TT
1 TT
18465223 TTTAGTGGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.29
23 10 0.24
24 19 0.46
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.52
Consensus pattern (22 bp):
TTAGGGTTTTAGTGTTTTAGGG
Found at i:18465227 original size:17 final size:16
Alignment explanation
Indices: 18465190--18465233 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
18465180 GTTTTTGATT
18465190 GTTTTAG-GG-TTAGG
1 GTTTTAGTGGTTTAGG
18465204 GTTTTAGTGGTTTAGG
1 GTTTTAGTGGTTTAGG
18465220 GTTTTTAGTGGTTT
1 G-TTTTAGTGGTTT
18465234 TTAAGGGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.26
15 2 0.07
16 6 0.22
17 12 0.44
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.52
Consensus pattern (16 bp):
GTTTTAGTGGTTTAGG
Found at i:18465481 original size:126 final size:125
Alignment explanation
Indices: 18465276--18465609 Score: 463
Period size: 126 Copynumber: 2.7 Consensus size: 125
18465266 AATGAACACA
* * * * **
18465276 TTCAAGAATGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTTCCACGTGGATGCTCTTTTATTA
1 TTCAAGAAGGATGCACTTTCAGTAAAATTTCAGAAAAAAGCTCCCACGT-GACGCTCTTTTGCTA
* * *
18465341 TAGTGATATTTGATAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTCAAAAACGC
65 TAGTGGTATCTGATAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGC
** * *
18465402 TTCAAGAAGGATGCACTTTCAGTAAAATTTTGGAAAAAACCTCCCACGTGAACGCTGTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGTAAAATTTCAGAAAAAAGCTCCCACGTG-ACGCTCTTTTGCTA
* * *
18465467 CAGTGGTCTCTGATAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGC
65 TAGTGGTATCTGATAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGC
* * *
18465528 TTCAAGAAGGATGCATTTTCAGTAAAATTTCAAAAAAAAGCTCCCACATTGACGCTCTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGTAAAATTTCAGAAAAAAGCTCCCAC-GTGACGCTCTTTTGCTA
18465593 TAGTGGTATCTGA-AAAA
65 TAGTGGTATCTGATAAAA
18465610 GCCTTAGACT
Statistics
Matches: 181, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
125 5 0.03
126 174 0.96
127 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (125 bp):
TTCAAGAAGGATGCACTTTCAGTAAAATTTCAGAAAAAAGCTCCCACGTGACGCTCTTTTGCTAT
AGTGGTATCTGATAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGC
Found at i:18468806 original size:21 final size:21
Alignment explanation
Indices: 18468781--18468827 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18468771 TGGTTCAGCT
*
18468781 TCCGGCGAGGG-TTGTGGTTGC
1 TCCGGCG-GGGATTGTGGTTCC
*
18468802 TCCGGTGGGGATTGTGGTTCC
1 TCCGGCGGGGATTGTGGTTCC
18468823 TCCGG
1 TCCGG
18468828 TAGGGGATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.04, C:0.21, G:0.45, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTGTGGTTCC
Found at i:18468828 original size:21 final size:22
Alignment explanation
Indices: 18468792--18468835 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
18468782 CCGGCGAGGG
*
18468792 TTGTGGTTGCTCCGGT-GGGGA
1 TTGTGGTTCCTCCGGTAGGGGA
18468813 TTGTGGTTCCTCCGGTAGGGGA
1 TTGTGGTTCCTCCGGTAGGGGA
18468835 T
1 T
18468836 CTGGTTGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.07, C:0.16, G:0.43, T:0.34
Consensus pattern (22 bp):
TTGTGGTTCCTCCGGTAGGGGA
Found at i:18468840 original size:21 final size:21
Alignment explanation
Indices: 18468795--18468841 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18468785 GCGAGGGTTG
* *
18468795 TGGTTGCTCCGGTGGGGATTG
1 TGGTTCCTCCGGTGGGGATTC
18468816 TGGTTCCTCCGGTAGGGGA-TC
1 TGGTTCCTCCGGT-GGGGATTC
18468837 TGGTT
1 TGGTT
18468842 GTGGGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.06, C:0.17, G:0.43, T:0.34
Consensus pattern (21 bp):
TGGTTCCTCCGGTGGGGATTC
Found at i:18469753 original size:7 final size:7
Alignment explanation
Indices: 18469741--18469787 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
18469731 TTATATAGGC
18469741 AATACTA
1 AATACTA
18469748 AATACTA
1 AATACTA
18469755 AATACTA
1 AATACTA
18469762 AATACTA
1 AATACTA
18469769 AATACTA
1 AATACTA
18469776 AATACTA
1 AATACTA
18469783 AATAC
1 AATAC
18469788 GAAACGACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:18470968 original size:22 final size:21
Alignment explanation
Indices: 18470940--18470981 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18470930 GCTTTTTTGC
18470940 AAAAATT-AGAGACAACTTTGAT
1 AAAAATTGAGAGA-AA-TTTGAT
18470962 AAAAATTGAGAGAAATTTGA
1 AAAAATTGAGAGAAATTTGA
18470982 GAGAATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAATTGAGAGAAATTTGAT
Found at i:18474295 original size:26 final size:26
Alignment explanation
Indices: 18474266--18474373 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18474256 TGGTACAAAT
18474266 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18474292 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18474318 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18474344 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18474370 TGAT
1 TGAT
18474374 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18476010 original size:27 final size:27
Alignment explanation
Indices: 18475970--18476128 Score: 195
Period size: 27 Copynumber: 5.9 Consensus size: 27
18475960 AGGAAGTGTC
*
18475970 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
18475997 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
18476023 CTTGGTGGCTATGCCACAATTATCTGAT
1 C-TGGTGGCTCTGCCACAATTATCTGAT
*
18476051 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
18476078 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
*
18476105 CTGGTGACT-TCGCCACAA-TATCTG
1 CTGGTGGCTCT-GCCACAATTATCTG
18476129 GCAGCCTCGC
Statistics
Matches: 118, Mismatches: 6, Indels: 16
0.84 0.04 0.11
Matches are distributed among these distances:
26 13 0.11
27 100 0.85
28 5 0.04
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:18476053 original size:54 final size:54
Alignment explanation
Indices: 18475966--18476128 Score: 244
Period size: 54 Copynumber: 3.0 Consensus size: 54
18475956 ATGGAGGAAG
*
18475966 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
18476020 TGTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
* *
18476074 TGT-TCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACT-TCGCCACA-ATATC
1 TGTCT-TGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCT-GCCACATATATC
18476127 TG
1 TG
18476129 GCAGCCTCGC
Statistics
Matches: 103, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
53 15 0.15
54 88 0.85
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
TGTCTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
Found at i:18476110 original size:81 final size:80
Alignment explanation
Indices: 18475970--18476128 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 80
18475960 AGGAAGTGTC
* *
18475970 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCTTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATTGGTGACT-T
18476035 -GCCACAATTATCTGAT
65 CGCCACAA-TATCTGAT
* *
18476051 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTAT-TGGTGACT
18476114 TCGCCACAATATCTG
64 TCGCCACAATATCTG
18476129 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
80 18 0.25
81 53 0.75
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATTGGTGACTTC
GCCACAATATCTGAT
Found at i:18481382 original size:24 final size:24
Alignment explanation
Indices: 18481330--18481395 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
18481320 AAATAAATAA
*
18481330 TAATAAAATAATAAAATATCTCAT
1 TAATAAAATAATAAAATATCTAAT
**
18481354 TAATAAAATAAT-ATTTATCTAAT
1 TAATAAAATAATAAAATATCTAAT
* *
18481377 TAA-ATAATTATAAAATATC
1 TAATAAAATAATAAAATATC
18481396 ATCAATATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 6 0.18
23 16 0.47
24 12 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAAAATAATAAAATATCTAAT
Found at i:18486489 original size:14 final size:16
Alignment explanation
Indices: 18486456--18486524 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
18486446 ATAATTTACA
*
18486456 AATAAAAATATATAAT
1 AATATAAATATATAAT
18486472 AATATAAATTATATAAT
1 AATATAAA-TATATAAT
* *
18486489 -ATAAAAATGTATATAT
1 AATATAAATATATA-AT
*
18486505 AATAT-AATATATAAA
1 AATATAAATATATAAT
18486520 AATAT
1 AATAT
18486525 TATGACAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
15 11 0.25
16 22 0.50
17 11 0.25
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (16 bp):
AATATAAATATATAAT
Found at i:18486489 original size:24 final size:23
Alignment explanation
Indices: 18486455--18486520 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
18486445 CATAATTTAC
18486455 AAATAA-A-AATATATAATAATAT
1 AAATAATATAATATATAA-AATAT
*
18486477 AAATTATATAATATA-AAAATGTAT
1 AAATAATATAATATATAAAA--TAT
*
18486501 ATATAATATAATATATAAAA
1 AAATAATATAATATATAAAA
18486521 ATATTATGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 22 0.61
25 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATAATATAATATATAAAATAT
Found at i:18486510 original size:26 final size:26
Alignment explanation
Indices: 18486473--18486522 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
18486463 ATATATAATA
18486473 ATATAAATTAT-ATAATATAAAAATGT
1 ATATAAATTATAAT-ATATAAAAATGT
18486499 ATATATAA-TATAATATATAAAAAT
1 ATATA-AATTATAATATATAAAAAT
18486523 ATTATGACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATAAATTATAATATATAAAAATGT
Found at i:18486667 original size:17 final size:17
Alignment explanation
Indices: 18486647--18486689 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18486637 ATATAATGAA
18486647 ATAAATAATAAAAATAT
1 ATAAATAATAAAAATAT
*
18486664 ATAACAT-ATAATAATAT
1 ATAA-ATAATAAAAATAT
*
18486681 ATATATAAT
1 ATAAATAAT
18486690 GTTACAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATAATAAAAATAT
Found at i:18488792 original size:173 final size:173
Alignment explanation
Indices: 18488550--18488932 Score: 520
Period size: 176 Copynumber: 2.2 Consensus size: 173
18488540 GTAAACGCGT
* * * * * * *
18488550 GAAAGCCAAATCTGCTGTGTTTTCGATTTGCTCCTTGTGAACATAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * *
18488615 ATCTGCTTCAGTA-AAATC-GTCTGAAAGTTAGATCTGCTATGTA-GCTCTCTATCGAAATGGAG
66 ATCTGCTTCAGTATAAA-CACT-TGAAAGTTAGACCTGCTATGTACGCTCTCCATCGAAATGGAG
* * *
18488677 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
129 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCC
*
18488722 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATGCCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCTTGTAAACACAAGAATG-CCAAATCATCTTG
* *
18488787 GATCTGCTTCAGTATAAACACTTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
65 GATCTGCTTCAGTATAAACACTTGAAAGTTAGACCTGCTATGTA-C-GCTCTCCATCGAAATGGA
*
18488852 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCT
128 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCC
* * *
18488898 GAAATTCAGATCTGCTATGTCTTCAATTTGCTTCT
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCT
18488933 CATCGAAGAT
Statistics
Matches: 184, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
172 43 0.23
173 48 0.26
174 4 0.02
176 89 0.48
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (173 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACACTTGAAAGTTAGACCTGCTATGTACGCTCTCCATCGAAATGGAGAT
GCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCC
Found at i:18488956 original size:176 final size:172
Alignment explanation
Indices: 18488550--18489010 Score: 496
Period size: 176 Copynumber: 2.6 Consensus size: 172
18488540 GTAAACGCGT
* * * * * ** * * *
18488550 GAAAGCCAAATCTGCTGTGTTTTCGATTTGCTCCTTGTGAACATAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCATAAACACAAGAATGCCAAATCATCTTGG
* * *
18488615 ATCTGCTTCAGTA-AAATC-GTCTGAAAGTTAGATCTGCTATGTAGCTCTCTATCGAAATGGAGA
66 ATCTGCTTCAGTATAAA-CACT-TGAAGGTTAGATCTGCTATGTAGCTCTCCATCGAAATGGAGA
* * *
18488678 TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
129 TGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCC
* * **
18488722 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATGCCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCATAAACACAAGAATG-CCAAATCATCTTG
* *
18488787 GATCTGCTTCAGTATAAACACTTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
65 GATCTGCTTCAGTATAAACACTTGAAGGTTAGATCTGCTATGTA---GCTCTCCATCGAAATGGA
*
18488852 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCT
127 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCC
* * * * *
18488898 GAAATTCAGATCTGCTATGTCTTCAATTTGCTTCTCATCGAAGATAGAGAA-GCCAAATCTTGTT
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCAT-AAACACA-AGAATGCCAAATC-----
* * * *
18488962 ATCTTGGACCTGCTTCAGTGTAAACACGTGAAGGCTAGATCTGCTATGT
59 ATCTTGGATCTGCTTCAGTATAAACACTTGAAGGTTAGATCTGCTATGT
18489011 TTTGGTCTGT
Statistics
Matches: 245, Mismatches: 31, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
172 43 0.18
173 48 0.20
174 4 0.02
176 97 0.40
177 5 0.02
178 4 0.02
181 44 0.18
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (172 bp):
GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCATAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACACTTGAAGGTTAGATCTGCTATGTAGCTCTCCATCGAAATGGAGATG
CCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATCC
Found at i:18501105 original size:17 final size:18
Alignment explanation
Indices: 18501083--18501130 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
18501073 AAAATAAAAA
18501083 TATATAATAATATAAAT-
1 TATATAATAATATAAATG
*
18501100 TATATAAT-ATAAAAATG
1 TATATAATAATATAAATG
18501117 TATAT-ATAATATAA
1 TATATAATAATATAA
18501131 TATATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TATATAATAATATAAATG
Found at i:18501108 original size:14 final size:16
Alignment explanation
Indices: 18501075--18501137 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
18501065 ATAATTTAAA
*
18501075 AATAAAAATATATAAT
1 AATATAAATATATAAT
18501091 AATATAAATTATATAAT
1 AATATAAA-TATATAAT
* *
18501108 -ATAAAAATGTATATAT
1 AATATAAATATATA-AT
18501124 AATAT-AATATATAA
1 AATATAAATATATAA
18501138 AAAATATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 6 0.15
16 22 0.56
17 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATATAAATATATAAT
Found at i:18501108 original size:24 final size:24
Alignment explanation
Indices: 18501074--18501139 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
18501064 CATAATTTAA
18501074 AAATAA-A-AATATATAATAA-TAT
1 AAATAATATAATATATAA-AAGTAT
*
18501096 AAATTATATAATATA-AAAATGTAT
1 AAATAATATAATATATAAAA-GTAT
*
18501120 ATATAATATAATATATAAAA
1 AAATAATATAATATATAAAA
18501140 AATATTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 22 0.61
25 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAATATAATATATAAAAGTAT
Found at i:18501296 original size:101 final size:102
Alignment explanation
Indices: 18501071--18501306 Score: 240
Period size: 101 Copynumber: 2.3 Consensus size: 102
18501061 CAACATAATT
18501071 TAAAAATAAAAATATAT-AATA-ATATAAATTATATAATATAAAAATGTATATATAATATAATAT
1 TAAAAATAAAAATATATAAATATA-ATAAA--ATATAATATAAAAATGTATATATAATATAATAT
*
18501134 ATAAAAAATATTATGACAGATAGTAAAATATAATATGTAA
63 ATAAAAAATATTATGACAGATAGTAAAATATAATATGAAA
* * *
18501174 TAAAAAT--ACATAAATAAATATAATAAAATATAATATGAAATATGTATA-ATAATAATAATAAT
1 TAAAAATAAAAATATATAAATATAATAAAATATAATAT-AAAAATGTATATATAAT-ATAAT-AT
* * * * *
18501236 GTAACAAATATT-TTACATATA-T-GAATAT-A-ATGAAA
63 ATAAAAAATATTATGACAGATAGTAAAATATAATATGAAA
*
18501271 TAAATAATAAAAATATATAACATATAATAATATATA
1 TAAA-AATAAAAATATATAA-ATATAATAAAATATA
18501307 TATTGTTACA
Statistics
Matches: 112, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
97 9 0.08
98 4 0.04
99 5 0.04
100 23 0.21
101 42 0.38
102 21 0.19
103 8 0.07
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (102 bp):
TAAAAATAAAAATATATAAATATAATAAAATATAATATAAAAATGTATATATAATATAATATATA
AAAAATATTATGACAGATAGTAAAATATAATATGAAA
Found at i:18502206 original size:20 final size:18
Alignment explanation
Indices: 18502168--18502206 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18502158 TTTTGGTATA
*
18502168 TCTCTCTGGTGTTTTTTT
1 TCTCTCTGGTGTTTCTTT
18502186 TCTCTCTGTGTGTGTTCTTT
1 TCTCTCTG-GTGT-TTCTTT
18502206 T
1 T
18502207 TTACAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.00, C:0.18, G:0.18, T:0.64
Consensus pattern (18 bp):
TCTCTCTGGTGTTTCTTT
Found at i:18511937 original size:40 final size:40
Alignment explanation
Indices: 18511857--18511938 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
18511847 AACATAAGTA
* * *
18511857 ATAAGTAATAACTAACCCAAAAGTCTGGAAATCTGTTTTT
1 ATAAGTAACAACTAACCCAAAAGTCTAGAAATCTGCTTTT
* * *
18511897 ATAAGTAACAAGTAATCCAAAAGTC-AGAAGGTCTGCTTTT
1 ATAAGTAACAACTAACCCAAAAGTCTAGAA-ATCTGCTTTT
18511937 AT
1 AT
18511939 TTTCTAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (40 bp):
ATAAGTAACAACTAACCCAAAAGTCTAGAAATCTGCTTTT
Found at i:18514658 original size:66 final size:66
Alignment explanation
Indices: 18514550--18514684 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 66
18514540 TGAGTGTCAA
* ** *
18514550 AAAATTACATGAAGACCATCTCAACAAGTTTTGTAATTATCTCCAAAGAACATTACTTCCTATAA
1 AAAATTACATGAAGACAATCTCAACAAGTTTTGTAACAATCTCCAAAGAACATTAATTCCTATAA
18514615 C
66 C
* *
18514616 AAAATTACATGAAGACAATCTCAACGAGTTTTGTGACAATCTCCAAAGAACATTAATTCCTATAA
1 AAAATTACATGAAGACAATCTCAACAAGTTTTGTAACAATCTCCAAAGAACATTAATTCCTATAA
18514681 C
66 C
18514682 AAA
1 AAA
18514685 CTTAAAAGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (66 bp):
AAAATTACATGAAGACAATCTCAACAAGTTTTGTAACAATCTCCAAAGAACATTAATTCCTATAA
C
Found at i:18527488 original size:69 final size:69
Alignment explanation
Indices: 18527376--18527659 Score: 266
Period size: 69 Copynumber: 4.2 Consensus size: 69
18527366 TTTCGTCTGT
* * * * * *
18527376 AAACCTTAATTGTACAGTTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGTCGCGGCTCTTCAC
1 AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGCAGCTCTTCAC
18527441 ATAC
66 ATAC
* * **
18527445 GAACCTTGATTTTATAGCTGAGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGCAGCTCTTTGC
1 AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGCAGCTCTTCAC
* *
18527510 CTAT
66 ATAC
* * * *
18527514 AAACCTTGATTTTACATCTGGGAGCTTTGCTCTCACTAACTATTTTAGAGGT------T-TGC-C
1 AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGCAGCTCTTCAC
18527571 -TAC
66 ATAC
** * ** * *
18527574 AAACCTTGATTTTACAGCT-AGGAGCTTTGCTCTTGCTAACTGTTTTGGAGGTTACAACTTTTCA
1 AAACCTTGATTTTACAGCTGA-GAGCTTTGCTCTCACTAACTATTTTGGAGGTCGCAGCTCTTCA
18527638 TC-TAC
65 -CATAC
18527643 AAACCTTGATTTTACAG
1 AAACCTTGATTTTACAG
18527660 TTGGAAGCTT
Statistics
Matches: 178, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
60 47 0.26
61 1 0.01
62 1 0.01
63 1 0.01
66 1 0.01
67 2 0.01
69 125 0.70
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (69 bp):
AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGCAGCTCTTCAC
ATAC
Found at i:18527598 original size:60 final size:60
Alignment explanation
Indices: 18527505--18527626 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
18527495 GTCGCAGCTC
* * *
18527505 TTTGCCTATAAACCTTGATTTTACATCTGGGAGCTTTGCTCTCACTAACTATTTTAGAGG
1 TTTGCCTACAAACCTTGATTTTACAGCTAGGAGCTTTGCTCTCACTAACTATTTTAGAGG
** * *
18527565 TTTGCCTACAAACCTTGATTTTACAGCTAGGAGCTTTGCTCTTGCTAACTGTTTTGGAGG
1 TTTGCCTACAAACCTTGATTTTACAGCTAGGAGCTTTGCTCTCACTAACTATTTTAGAGG
18527625 TT
1 TT
18527627 ACAACTTTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (60 bp):
TTTGCCTACAAACCTTGATTTTACAGCTAGGAGCTTTGCTCTCACTAACTATTTTAGAGG
Found at i:18527677 original size:51 final size:51
Alignment explanation
Indices: 18527617--18527722 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
18527607 TGCTAACTGT
18527617 TTTGGAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGC
1 TTTGGAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGC
18527668 TTTGGAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGC
1 TTTGGAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGC
18527719 TTTG
1 TTTG
18527723 CTCTAGCTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (51 bp):
TTTGGAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGC
Found at i:18536727 original size:13 final size:13
Alignment explanation
Indices: 18536694--18536727 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18536684 ATCAAAGAAT
18536694 ATTGAAGAAAACA
1 ATTGAAGAAAACA
*
18536707 ACTTGAAGAAAACC
1 A-TTGAAGAAAACA
18536721 ATTGAAG
1 ATTGAAG
18536728 TCGACTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (13 bp):
ATTGAAGAAAACA
Found at i:18537244 original size:19 final size:19
Alignment explanation
Indices: 18537220--18537257 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18537210 TACTCTCGAA
*
18537220 AGAGATGTTAGTATAATTT
1 AGAGATATTAGTATAATTT
18537239 AGAGATATTAGTATAATTT
1 AGAGATATTAGTATAATTT
18537258 TACATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (19 bp):
AGAGATATTAGTATAATTT
Found at i:18537816 original size:28 final size:28
Alignment explanation
Indices: 18537773--18537829 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
18537763 GCTGAACAAA
18537773 TTTCGGAAAGACCACAAGGTAGTTTGCC
1 TTTCGGAAAGACCACAAGGTAGTTTGCC
*
18537801 TTTCGGAAAGATCACAAGGTAGTTTGCC
1 TTTCGGAAAGACCACAAGGTAGTTTGCC
18537829 T
1 T
18537830 AGCAATACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (28 bp):
TTTCGGAAAGACCACAAGGTAGTTTGCC
Found at i:18540076 original size:25 final size:25
Alignment explanation
Indices: 18540048--18540098 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
18540038 GCTAGGGACC
*
18540048 TATATATAAATT-GGTCAAGCATGGG
1 TATATAT-AATTCGATCAAGCATGGG
18540073 TATATATAATTCGATCAAGCATGGG
1 TATATATAATTCGATCAAGCATGGG
18540098 T
1 T
18540099 TTTGTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (25 bp):
TATATATAATTCGATCAAGCATGGG
Found at i:18540814 original size:10 final size:11
Alignment explanation
Indices: 18540783--18540814 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18540773 GAATGTACAT
18540783 GAGATTGGTAC
1 GAGATTGGTAC
18540794 GAGATTGGTAC
1 GAGATTGGTAC
18540805 GAGA-TGGTAC
1 GAGATTGGTAC
18540815 AGGTATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.28, C:0.09, G:0.38, T:0.25
Consensus pattern (11 bp):
GAGATTGGTAC
Found at i:18544124 original size:15 final size:16
Alignment explanation
Indices: 18544104--18544135 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18544094 AATAAAACAT
18544104 AAAAAC-AAAAAGAAA
1 AAAAACTAAAAAGAAA
18544119 AAAAACTAAAAAGAAA
1 AAAAACTAAAAAGAAA
18544135 A
1 A
18544136 GAAATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAACTAAAAAGAAA
Found at i:18547310 original size:22 final size:23
Alignment explanation
Indices: 18547285--18547329 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
18547275 ACTTTAGCCA
18547285 TTTTTATTTCAATT-TAATTTTG
1 TTTTTATTTCAATTATAATTTTG
*
18547307 TTTTTATTTTAATTACTAATTTT
1 TTTTTATTTCAATTA-TAATTTT
18547330 TCTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTATTTCAATTATAATTTTG
Found at i:18558719 original size:15 final size:15
Alignment explanation
Indices: 18558696--18558731 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18558686 AAAACAAATA
18558696 ATAAT-AAACTAAGG
1 ATAATAAAACTAAGG
18558710 ATAATAAAACTAAGG
1 ATAATAAAACTAAGG
18558725 ATAATAA
1 ATAATAA
18558732 GAGAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (15 bp):
ATAATAAAACTAAGG
Found at i:18603747 original size:24 final size:25
Alignment explanation
Indices: 18603715--18603762 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
18603705 AATTATATTA
18603715 TTATCTAAAAAATTA-ATAGATAATT
1 TTATCTAAAAAATTATAT-GATAATT
*
18603740 TTAT-TAAAATATTATATGATAAT
1 TTATCTAAAAAATTATATGATAAT
18603763 AAGTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
TTATCTAAAAAATTATATGATAATT
Found at i:18603996 original size:54 final size:54
Alignment explanation
Indices: 18603930--18604046 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 54
18603920 TCCAAGCTCG
* *
18603930 TGTGCTTAAAGAGGCAAAACCTATAAAGGCTT-AACTTCACTAAAATGTGA-TCTA
1 TGTGCTTGAAGAGGCAAAACCTATAAAGGCTTGAA-TTCACTAAAAAGTGAGTC-A
** * * *
18603984 TGTGCTTGAAGAGGTGAGACCTATAGAGGCTTGAATTCAGTAAAAAGTGAGTCA
1 TGTGCTTGAAGAGGCAAAACCTATAAAGGCTTGAATTCACTAAAAAGTGAGTCA
18604038 TCGTGCTTG
1 T-GTGCTTG
18604047 GAAAGTCTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
54 42 0.79
55 11 0.21
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (54 bp):
TGTGCTTGAAGAGGCAAAACCTATAAAGGCTTGAATTCACTAAAAAGTGAGTCA
Found at i:18610834 original size:29 final size:29
Alignment explanation
Indices: 18610733--18610838 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
18610723 CTCAGATTAC
* *
18610733 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGCTAT
* *
18610762 ATTTTAGCCACTTACTG-TT-AACGTGC--T
1 ATTTTAGTCACTTA-TGTTTGAA-ATGCTAT
* * *
18610789 ATGTTAGCCTGATTTATGTTTGAAATGCTAT
1 ATTTTAG--TCACTTATGTTTGAAATGCTAT
18610820 ATTTTAGTCACTTATGTTT
1 ATTTTAGTCACTTATGTTT
18610839 TAATGTACAT
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
27 6 0.11
28 4 0.07
29 36 0.63
30 4 0.07
31 7 0.12
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGCTAT
Found at i:18620217 original size:31 final size:30
Alignment explanation
Indices: 18620182--18620248 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
18620172 AATGACTTCA
18620182 AGACT-CAAATGCAGGAAGTGTTTGATATGAC
1 AGACTGCAAAT-CAGG-AGTGTTTGATATGAC
** *
18620213 AGACTTGGGAATCATGAGTGTTTGATATGAC
1 AGAC-TGCAAATCAGGAGTGTTTGATATGAC
18620244 AGACT
1 AGACT
18620249 TGGGAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 1 0.03
31 23 0.74
32 4 0.13
33 3 0.10
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (30 bp):
AGACTGCAAATCAGGAGTGTTTGATATGAC
Found at i:18620249 original size:31 final size:31
Alignment explanation
Indices: 18620198--18620260 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18620188 AAATGCAGGA
18620198 AGTGTTTGATATGACAGACTTGGGAATCATG
1 AGTGTTTGATATGACAGACTTGGGAATCATG
18620229 AGTGTTTGATATGACAGACTTGGGAATCATG
1 AGTGTTTGATATGACAGACTTGGGAATCATG
18620260 A
1 A
18620261 CATACTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.32
Consensus pattern (31 bp):
AGTGTTTGATATGACAGACTTGGGAATCATG
Found at i:18633842 original size:19 final size:19
Alignment explanation
Indices: 18633820--18633873 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
18633810 TTGAATTTTA
18633820 TTTAATATTTTTTATAAAT
1 TTTAATATTTTTTATAAAT
*
18633839 TTTAATAATGTTTTTATATAT
1 TTTAAT-AT-TTTTTATAAAT
18633860 TTATAAT-TTTTTTA
1 TT-TAATATTTTTTA
18633874 AAAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 12 0.39
20 3 0.10
21 12 0.39
22 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTAATATTTTTTATAAAT
Found at i:18633907 original size:20 final size:20
Alignment explanation
Indices: 18633869--18633908 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18633859 TTTATAATTT
***
18633869 TTTTAAAAAATATTTTTTAA
1 TTTTAAAAAATAAGCTTTAA
18633889 TTTTAAAAAATAAGCTTTAA
1 TTTTAAAAAATAAGCTTTAA
18633909 AATAATTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTAAAAAATAAGCTTTAA
Found at i:18635348 original size:3 final size:3
Alignment explanation
Indices: 18635340--18635370 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18635330 TGACTTAGAC
*
18635340 ACT ACT ACT ACT ATT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
18635371 ATGTATCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
ACT
Found at i:18667922 original size:12 final size:12
Alignment explanation
Indices: 18667905--18667929 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18667895 GAATCCTCGT
18667905 GGTAAATCTAAG
1 GGTAAATCTAAG
18667917 GGTAAATCTAAG
1 GGTAAATCTAAG
18667929 G
1 G
18667930 TTTATGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (12 bp):
GGTAAATCTAAG
Found at i:18670211 original size:31 final size:31
Alignment explanation
Indices: 18670170--18670228 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
18670160 CATGCTAAAT
*
18670170 TTTGACAATTTTGTATAAATTTTTTTTGGTA
1 TTTGAAAATTTTGTATAAATTTTTTTTGGTA
*
18670201 TTTGAAAATTTTGTATAATTTTTTTTTG
1 TTTGAAAATTTTGTATAAATTTTTTTTG
18670229 ATACTCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (31 bp):
TTTGAAAATTTTGTATAAATTTTTTTTGGTA
Found at i:18670524 original size:107 final size:108
Alignment explanation
Indices: 18670333--18670548 Score: 335
Period size: 107 Copynumber: 2.0 Consensus size: 108
18670323 TTTATGGTAT
* *
18670333 TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAATTCTTAACTACAACTTTATTAA
1 TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAACTCTTAACTACAACTTTATAAA
* *
18670398 AGATGGGTATAATTTTC-TTTCTTTTCATTAAATTTGTTTAGG
66 AAATGGGTAGAATTTTCTTTTCTTTTCATTAAATTTGTTTAGG
* * * * *
18670440 TTGACAATTTTGTATAATATACAAGTATTATGATAAATATCAACTCTTAACTACAACTTTATAAA
1 TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAACTCTTAACTACAACTTTATAAA
*
18670505 AAATGGGTAGAATTTTCTTTTCTTTTCATTAATTTTGTTTAGG
66 AAATGGGTAGAATTTTCTTTTCTTTTCATTAAATTTGTTTAGG
18670548 T
1 T
18670549 AGGGATGCTT
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 73 0.74
108 25 0.26
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (108 bp):
TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAACTCTTAACTACAACTTTATAAA
AAATGGGTAGAATTTTCTTTTCTTTTCATTAAATTTGTTTAGG
Found at i:18670988 original size:20 final size:20
Alignment explanation
Indices: 18670947--18670988 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
18670937 ATATGAATAT
* *
18670947 AAATATAAAATAAATTCTTG
1 AAATATAAAAAAAATTCATG
18670967 AAATATGAAAAAAAATT-ATG
1 AAATAT-AAAAAAAATTCATG
18670987 AA
1 AA
18670989 TACTGTCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAATATAAAAAAAATTCATG
Found at i:18682035 original size:29 final size:29
Alignment explanation
Indices: 18681977--18682054 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
18681967 TAAGAATTAG
* * *
18681977 ATTTAAGTTTTAAAATTTTAAAAATAAAAAG
1 ATTTAAATTTTAAAA--ATAAAAATAAAAAA
*
18682008 A-TTAAATTCTTAAAAATAAAAATTAAAAA
1 ATTTAAATT-TTAAAAATAAAAATAAAAAA
18682037 ATTTAAATTTTAAAAATA
1 ATTTAAATTTTAAAAATA
18682055 GGAAGCATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 21 0.51
30 13 0.32
31 7 0.17
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTTAAATTTTAAAAATAAAAATAAAAAA
Found at i:18685076 original size:47 final size:46
Alignment explanation
Indices: 18685023--18685385 Score: 178
Period size: 46 Copynumber: 7.7 Consensus size: 46
18685013 AGGGTATAAT
18685023 GTCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GTCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* * * * *
18685070 GTCGATGCCATGTCCCAGACATGGTCTTATATTGACT-ATCGAAATCGA
1 GTCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA
* ** * * * * ***
18685118 GGCTGACACCATGTCCCAGAAATGGTCTTATATTAGCTC-TCACATTTTT
1 GTC-GA-TGCATGTCCCAGACATGGTCTTACACTGGCTCATC-CA-TCAA
* * * *
18685167 GTGCTGATGCCATGTCCCAGACAAGGTCTTACGCTGACACAT-C-TCATA
1 GT-C-GATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCA-A
* * * *
18685215 GCCGATGCATGACCTAGACAT-GTCTTACACTGGCTTACAT-C-TCGAG
1 GTCGATGCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AA
* *
18685261 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TCAA
1 GTCGATGCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA
* *
18685306 TGCCGATGTCATGTCCCAGACATGGTCTTACATTGGCTC-T-CAT-AA
1 -GTCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
18685351 TGTGGCCGATGCATGTCCCAGACAT-GTCTTACACT
1 -GT---CGATGCATGTCCCAGACATGGTCTTACACT
18685386 AGCATACAAA
Statistics
Matches: 247, Mismatches: 45, Indels: 49
0.72 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 18 0.07
46 64 0.26
47 63 0.26
48 29 0.12
49 33 0.13
50 26 0.11
51 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GTCGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
Found at i:18685255 original size:46 final size:45
Alignment explanation
Indices: 18685172--18685385 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 45
18685162 TTTTTGTGCT
* * * *
18685172 GATGCCATGTCCCAGACAAGGTCTTACGCT-G-ACACATCTCATAGCC
1 GATG-CATGTCCCAGAC-ATGTCTTACACTGGCTCTCATCTCA-AGCC
* * *
18685218 GATGCATGACCTAGACATGTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-AAGCC
* *
18685264 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA-GCC
* * ***
18685310 GATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAGCC
18685358 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
18685386 AGCATACAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.07
45 12 0.09
46 63 0.45
47 30 0.22
48 23 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGCC
Done.