Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 7 of 12
Found at i:905447 original size:49 final size:49
Alignment explanation
Indices: 905323--906334 Score: 795
Period size: 49 Copynumber: 21.0 Consensus size: 49
905313 TCGTGGCACC
* * *
905323 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TCT
*
905374 GTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
1 -TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * *
905424 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCTGCATATTGGCGCCTTT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT
* * * *
905475 GTCATCTTTAAGTCCAAGGTCGCTGGCTTTGAATTAGCACATTGACATCT
1 -TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * *
905525 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGTCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
** * * *
905574 TTGTCTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCA---
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* *
905620 -C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
** * * *
905665 TTGTCTTTAAGACCAATGTCGCTGGCCTTAAATTAGCACATTGGCA---
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * *
905711 -C--CTTTAAGTCCAATATCGCTAGCCTTGAATTAGCATATTGGCACCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* *
905757 T-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-----
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * * *
905800 -CA----TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATCT
*
905846 GTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---
1 -TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * *
905893 -C--CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCT
* ** *
905942 TCATCTTTAAGACCAATGTCGCTGGCCTTGTCTCAGCACATTAGCA---
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
** * * *
905988 -C--CTTTAAGTCCAACATTGCTGGCCTTGAATCAGCATATTGGCACCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * ** *
906034 TTATCTTTAGGACCAATGTCACTAACCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * *
906083 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCG
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---TCT
** * *
906135 TCATCTTTAAAACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * *
906184 TCATCCTTAAGTCCAATGTCGTTGGCCTTGAATTAGCATATTGGTATCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * **
906233 TTAACATTCCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--T
1 TCATC-TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
* * * * * *
906283 TCTTCTTCAAATCTAATGTCGCTGGCCATGAATCAGCACATTGTCATTCT
1 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCT
906333 TC
1 TC
906335 GCATCTTCGA
Statistics
Matches: 761, Mismatches: 147, Indels: 106
0.75 0.14 0.10
Matches are distributed among these distances:
39 31 0.04
40 1 0.00
41 1 0.00
43 142 0.19
44 1 0.00
45 3 0.00
46 1 0.00
47 30 0.04
48 74 0.10
49 237 0.31
50 17 0.02
51 6 0.01
52 217 0.29
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT
Found at i:905498 original size:101 final size:96
Alignment explanation
Indices: 905327--906281 Score: 1130
Period size: 101 Copynumber: 10.0 Consensus size: 96
905317 GGCACCTCAT
905327 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
905392 GTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
66 GTCGCTGGCCTTGAATCAGCACATTGGCA----CA
* * *
905427 TCTTTAAGTCCAATATCGCTGGCCTTGAATCTGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAA
* * * *
905492 GGTCGCTGGCTTTGAATTAGCACATTGACATCTTCA
65 TGTCGCTGGCCTTGAATCAGCACATTGGCA----CA
* **
905528 TCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGTCTTTG---TCTTTAAGACCAA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAA
* *
905590 TGTCGTTGGCCTTGAATTAGCACATTGGCAC-
65 TGTCGCTGGCCTTGAATCAGCACATTGGCACA
905621 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
* *
905682 GTCGCTGGCCTTAAATTAGCACATTGGCAC-
66 GTCGCTGGCCTTGAATCAGCACATTGGCACA
* *
905712 CTTTAAGTCCAATATCGCTAGCCTTGAATTAGCATATTGGCACC-TTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
905773 GTCGCTGGCCTTGAATCAGCACATTGG--CA
66 GTCGCTGGCCTTGAATCAGCACATTGGCACA
* * *
905802 ---TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
905864 GTCGCTGGCCTTGAATCAGCACATTGGCAC-
66 GTCGCTGGCCTTGAATCAGCACATTGGCACA
* * *
905894 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
** *
905959 GTCGCTGGCCTTGTCTCAGCACATTAGCAC-
66 GTCGCTGGCCTTGAATCAGCACATTGGCACA
* * *
905989 CTTTAAGTCCAACATTGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAGGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
* **
906051 GTCACTAACCTTGAATCAGCACATTGGCACCTTCA
66 GTCGCTGGCCTTGAATCAGCACATTGGCA----CA
* *
906086 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAA
*
906151 TGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
65 TGTCGCTGGCCTTGAATCAGCACATTGGCA----CA
* * * * * * ** * *
906187 TCCTTAAGTCCAATGTCGTTGGCCTTGAATTAGCATATTGGTATCTTTAACAT-TCCTAAGCCCA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT-TTAAGACCA
* **
906251 ATGTCGTTGGCCTTGTCTCAGCACATTGGCA
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCA
906282 TTCTTCTTCA
Statistics
Matches: 762, Mismatches: 71, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
87 36 0.05
88 3 0.00
89 1 0.00
91 170 0.22
92 78 0.10
93 2 0.00
94 3 0.00
95 125 0.16
96 1 0.00
98 80 0.10
99 1 0.00
100 2 0.00
101 260 0.34
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (96 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACA
Found at i:905643 original size:43 final size:43
Alignment explanation
Indices: 905529--906132 Score: 406
Period size: 43 Copynumber: 13.1 Consensus size: 43
905519 ACATCTTCAT
* * *
905529 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC
* * * *
905573 TTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCAC
1 -----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
*
905621 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
905664 TTTGTCTTTAAGACCAATGTCGCTGGCCTTAAATTAGCACATTGGCAC
1 -----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
905712 CTTTAAGTCCAATATCGCTAGCCTTGAATTAGCATATTGGCACC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* *
905756 TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-
1 ----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
905802 ---TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* *
905851 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
905894 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-G-------CAC
* * ** *
905946 CTTTAAGACCAATGTCGCTGGCCTTGTCTCAGCACATTAGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
905989 CTTTAAGTCCAACATTGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * **
906032 CTTTATCTTTAGGACCAATGTCACTAACCTTGAATCAGCACATTGGCACCTTC
1 CTTTA-----A-GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
*
906085 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
906130 CTT
1 CTT
906133 CGTCATCTTT
Statistics
Matches: 440, Mismatches: 71, Indels: 94
0.73 0.12 0.16
Matches are distributed among these distances:
39 31 0.07
42 1 0.00
43 156 0.35
44 3 0.01
45 2 0.00
47 1 0.00
48 79 0.18
49 94 0.21
50 2 0.00
52 65 0.15
53 1 0.00
55 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:905822 original size:39 final size:39
Alignment explanation
Indices: 905763--905839 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
905753 ACCTTGTCTT
* *
905763 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
* *
905802 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGC
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGC
905840 GCCTTTGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
Found at i:905890 original size:52 final size:52
Alignment explanation
Indices: 905802--906325 Score: 373
Period size: 52 Copynumber: 10.7 Consensus size: 52
905792 CACATTGGCA
* * * * *
905802 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
905854 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-------C--CTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * *
905897 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
** *
905949 TAAGACCAATGTCGCTGGCCTTGTCTCAGCACATTAGCACCTTTAAGTC--C--
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT--GTCATCTT
*
905999 --A-A-C-AT-T-GCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * **
906041 TAGGACCAATGTCACTAACCTTGAATCAGCACATTGGCACC--T-TCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * *
906090 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * *
906142 TAAAACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * * * * * ** *
906191 TAAGTCCAATGTCGTTGGCCTTGAATTAGCATATTGGTATCTTTAACAT-TCC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCT-T
* * ** *
906243 TAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA----T-TCTTCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
* * *
906290 CAA-ATCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTG
906326 TCATTCTTCG
Statistics
Matches: 370, Mismatches: 70, Indels: 69
0.73 0.14 0.14
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
42 2 0.01
43 61 0.16
44 1 0.00
45 4 0.01
46 2 0.01
47 33 0.09
48 6 0.02
49 102 0.28
50 1 0.00
51 1 0.00
52 153 0.41
54 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (52 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
Found at i:907110 original size:19 final size:19
Alignment explanation
Indices: 907086--907148 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
907076 AAACAGTAAA
907086 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
907105 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTTT
907118 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
907137 TGTATCGATACA
1 TGTATCGATACA
907149 ATGTATCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:907123 original size:13 final size:13
Alignment explanation
Indices: 907105--907161 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
907095 ACATAAGTTT
907105 TGTATCGATACAA
1 TGTATCGATACAA
907118 TGTATCGATACATAA
1 TGTATCGATAC--AA
907133 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
907150 TGTATCAATACA
1 TGTATCGATACA
907162 TAAGTGTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:907125 original size:32 final size:32
Alignment explanation
Indices: 907084--907193 Score: 184
Period size: 32 Copynumber: 3.4 Consensus size: 32
907074 GCAAACAGTA
907084 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
907116 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
* * *
907148 AATGTATCAATACATAAGTGTTGTATCAATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
*
907180 AATGTATCGCTACA
1 AATGTATCGATACA
907194 AAGCTACTGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTTTTGTATCGATAC
Found at i:907250 original size:13 final size:13
Alignment explanation
Indices: 907232--907259 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
907222 CATTACTCAA
907232 TGTATCGATACAT
1 TGTATCGATACAT
907245 TGTATCGATACAT
1 TGTATCGATACAT
907258 TG
1 TG
907260 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:907254 original size:33 final size:33
Alignment explanation
Indices: 907212--907277 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
907202 GCTAAGGAAA
907212 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
907245 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
907278 CTGGGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:913067 original size:13 final size:13
Alignment explanation
Indices: 913049--913074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
913039 TACACCAAGT
913049 ATGTATCGATACA
1 ATGTATCGATACA
913062 ATGTATCGATACA
1 ATGTATCGATACA
913075 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:913072 original size:32 final size:33
Alignment explanation
Indices: 913031--913094 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
913021 TAGCCAAACT
* **
913031 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
913063 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
913095 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:914768 original size:19 final size:19
Alignment explanation
Indices: 914744--914811 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
914734 AATTCAACGA
914744 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
914763 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
914778 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
914795 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
914812 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:914782 original size:32 final size:32
Alignment explanation
Indices: 914746--914808 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
914736 TTCAACGATT
*
914746 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
914778 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
914809 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:914783 original size:13 final size:13
Alignment explanation
Indices: 914765--914789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
914755 ACATAAGTTT
914765 TGTATCGATACAA
1 TGTATCGATACAA
914778 TGTATCGATACA
1 TGTATCGATACA
914790 TAAGTATTGT
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:914869 original size:13 final size:13
Alignment explanation
Indices: 914851--914876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
914841 CATTTTTCTG
914851 TGTATCGATACAT
1 TGTATCGATACAT
914864 TGTATCGATACAT
1 TGTATCGATACAT
914877 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:914893 original size:33 final size:33
Alignment explanation
Indices: 914831--914897 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
914821 GCCAAGGAAA
*** *
914831 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTAACGATACAT
*
914864 TGTATCGATACATGGATCTTTGTAACGATACAT
1 TGTATCGATACATGGATCTGTGTAACGATACAT
914897 T
1 T
914898 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTAACGATACAT
Found at i:917404 original size:51 final size:51
Alignment explanation
Indices: 917340--917510 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
917330 TTATTTCTGA
* * *
917340 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
917391 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
917444 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
917496 GAGGATACTCCAACC
1 GGGGATACTCCAACC
917511 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:917529 original size:28 final size:28
Alignment explanation
Indices: 917493--917574 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
917483 ATTTTTCACA
*
917493 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
917521 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
917549 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
917575 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:929993 original size:13 final size:13
Alignment explanation
Indices: 929975--930012 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
929965 ACCTTCTTTT
*
929975 CAAAAAAAAAGAG
1 CAAAAAAAAAAAG
929988 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
*
930001 GAAAAAAAAAAA
1 CAAAAAAAAAAA
930013 AAAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:930013 original size:15 final size:15
Alignment explanation
Indices: 929976--930048 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
929966 CCTTCTTTTC
929976 AAAAAAAAAGAGCAAA
1 AAAAAAAAAGAG-AAA
* *
929992 AAAAAAAAGGAAAAA
1 AAAAAAAAAGAGAAA
* *
930007 AAAAAAAAAAACAAA
1 AAAAAAAAAGAGAAA
*
930022 ACAAAGAAAAAGAGAGA
1 A-AAA-AAAAAGAGAAA
*
930039 AAAGAAAAAG
1 AAAAAAAAAG
930049 CCTACTTAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
15 22 0.48
16 15 0.33
17 9 0.20
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAGAAA
Found at i:931100 original size:55 final size:55
Alignment explanation
Indices: 931009--931640 Score: 820
Period size: 55 Copynumber: 11.4 Consensus size: 55
930999 TCTCCATCTG
*
931009 CTTTCCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
931064 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
931119 TTTTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
931174 CCTT-CAGTCCTCAAAAAGCGGGACACATCACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGG----A-CACCT-TTCAAAGCCCACACAAGTTGGTGGCA
931233 CCTTT-CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
931288 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACCCAAGTTGGTGGCG
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
931343 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
931398 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
931453 CCTTACAGTCCCCAAAGAGCAGGACACCTTCCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
931508 -TCCTCCAGTCCTCAAAGGGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CT-TTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
931563 TTTTCCAGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
931618 CCTTT--TGTCCTCAAAGAGTAGGA
1 -CTTTCCAGTCCTCAAAGAGCAGGA
931641 TACATTCTAC
Statistics
Matches: 522, Mismatches: 38, Indels: 35
0.88 0.06 0.06
Matches are distributed among these distances:
54 42 0.08
55 418 0.80
56 11 0.02
58 1 0.00
59 31 0.06
60 19 0.04
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (55 bp):
CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:931261 original size:26 final size:26
Alignment explanation
Indices: 931231--931316 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
931221 AAGTTGGTGG
*
931231 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
931257 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
931286 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
931312 CACCT
1 CACCT
931317 CTCAAAGCCC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 13 0.30
27 8 0.19
28 8 0.19
29 8 0.19
30 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:931363 original size:110 final size:110
Alignment explanation
Indices: 931010--931640 Score: 923
Period size: 110 Copynumber: 5.7 Consensus size: 110
931000 CTCCATCTGC
* *
931010 TTTCCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
*
931074 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
65 CTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
*
931120 TTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * * *
931184 TCAAAAAGCGGGACACATCACCTCTTAAAGCCCACACAAGTTGGTGGCACC
66 TCAAAGAGCAGG----A-CACCTCTCAAAGCCCACACAAGTTGGTGGCA-T
931235 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
931299 CCAAAGAGCAGGACACCTCTCAAAGCCCACCCAAGTTGGTGGCGT
66 TCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
931344 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* *
931409 CCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAC
66 TCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
* * * * *
931454 CTTACAGTCCCCAAAGAGCAGGACACCT-TCCAAAGCCCACACAAGTTGGTGGCATCC-TCCAGT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTCT-TAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGT
* *
931517 CCTCAAAGGGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
64 CCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
* * *
931564 TTTCCAGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-TGTCC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
*
931628 TCAAAGAGTAGGA
66 TCAAAGAGCAGGA
931641 TACATTCTAC
Statistics
Matches: 472, Mismatches: 36, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
109 37 0.08
110 330 0.70
111 4 0.01
113 1 0.00
114 80 0.17
115 20 0.04
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (110 bp):
TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
Found at i:931436 original size:165 final size:165
Alignment explanation
Indices: 931011--931640 Score: 914
Period size: 165 Copynumber: 3.8 Consensus size: 165
931001 TCCATCTGCT
* *
931011 TTCCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
* * * *
931076 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAGAGAGCA
66 CAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCA
* *
931140 GGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
130 GGACACCTCTCAAAGCCCACACAAGTTGGTGGCATC
* *
931176 TT-CAGTCCTCAAAAAGCGGGACACATCACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 TTCCAGTCCTCAAAGAGCAGG----A-CACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCC
*
931239 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
60 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
* * *
931304 GAGCAGGACACCTCTCAAAGCCCACCCAAGTTGGTGGCGTT
125 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATC
931345 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC
1 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCC
* *
931409 CCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTACAGTCCCCAAAGAGCA
65 TCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCA
931474 GGACACCT-TCCAAAGCCCACACAAGTTGGTGGCATC
130 GGACACCTCT-CAAAGCCCACACAAGTTGGTGGCATC
* * *
931510 CTCCAGTCCTCAAAGGGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 TTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCC
* * * *
931574 TCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-TGTCCTCAAAGAGTA
65 TCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCA
931638 GGA
130 GGA
931641 TACATTCTAC
Statistics
Matches: 423, Mismatches: 31, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
164 36 0.09
165 237 0.56
166 1 0.00
168 1 0.00
169 126 0.30
170 22 0.05
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (165 bp):
TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
CAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAG
GACACCTCTCAAAGCCCACACAAGTTGGTGGCATC
Found at i:931725 original size:19 final size:19
Alignment explanation
Indices: 931701--931768 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
931691 AATTCAACGA
931701 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
931720 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
931735 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
931752 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
931769 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:931739 original size:32 final size:32
Alignment explanation
Indices: 931703--931765 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
931693 TTCAACGATT
*
931703 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
931735 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
931766 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:931740 original size:13 final size:13
Alignment explanation
Indices: 931722--931746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
931712 ACATAAGTTT
931722 TGTATCGATACAA
1 TGTATCGATACAA
931735 TGTATCGATACA
1 TGTATCGATACA
931747 TAAGTATTGT
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:931826 original size:13 final size:13
Alignment explanation
Indices: 931808--931833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
931798 CATTTTTCTG
931808 TGTATCGATACAT
1 TGTATCGATACAT
931821 TGTATCGATACAT
1 TGTATCGATACAT
931834 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:931850 original size:33 final size:33
Alignment explanation
Indices: 931788--931854 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
931778 GCCAAGGAAA
*** *
931788 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTAACGATACAT
*
931821 TGTATCGATACATGGATCTTTGTAACGATACAT
1 TGTATCGATACATGGATCTGTGTAACGATACAT
931854 T
1 T
931855 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTAACGATACAT
Found at i:940094 original size:16 final size:14
Alignment explanation
Indices: 940047--940085 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 14
940037 CCTCCGCAAA
940047 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
940061 AAAAATAATAAAAAAC
1 AAAAA-AA-AAAAAAC
940077 AAAAAAAAA
1 AAAAAAAAA
940086 CAACAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 4 0.17
16 12 0.52
ACGTcount: A:0.90, C:0.05, G:0.00, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:941576 original size:34 final size:33
Alignment explanation
Indices: 941533--941885 Score: 289
Period size: 34 Copynumber: 11.0 Consensus size: 33
941523 ATGCCTCACC
*
941533 CTTTTAAAGCCCACAACTCTGTGGCACCTTTTT
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
*
941566 CTTTTCAAAGCCCACAACTCCGTTGCACCTTTTT
1 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
941600 CTTTTCAAAGCCCACAACTCCGTGGGACCTTTTT
1 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
941634 CCTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 -CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
** *
941668 CTTTTCAAAGTTCGCAACTCCGTGGCACC-----
1 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
* *
941697 CTTTT-AAGCCTATAACTCCGTGGCACTCTTTTT
1 CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
*
941730 CCTTTT-AAGCCCACAACTCCGTGGCACTCTTCTTC
1 -CTTTTAAAGCCCACAACTCCGTGGCAC-CTT-TTT
* * *
941765 CTTTT-AAGTCCACAACTTCGTGGCA-----TC
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* * *
941792 CTTTT-AAGTCCGCAACTCCATGGCACC-----
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
*
941819 CTTTT-AAGCCCACAACTCCGTGGCACTTTTTTT
1 CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
* * *
941852 CCTTTT-AAGCCCACAAGTCAGTGGCACCCTTTT
1 -CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
941885 C
1 C
941886 AAAAGCCCAT
Statistics
Matches: 269, Mismatches: 31, Indels: 41
0.79 0.09 0.12
Matches are distributed among these distances:
27 63 0.23
28 1 0.00
29 5 0.02
32 1 0.00
33 13 0.05
34 180 0.67
35 6 0.02
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
Found at i:941844 original size:27 final size:27
Alignment explanation
Indices: 941764--941844 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
941754 CACTCTTCTT
* *
941764 CCTTTTAAGTCCACAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
941791 CCTTTTAAGTCCGCAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
941818 CCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
941845 TTTTTTTCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:941893 original size:30 final size:28
Alignment explanation
Indices: 941858--941952 Score: 145
Period size: 28 Copynumber: 3.3 Consensus size: 28
941848 TTTTCCTTTT
*
941858 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC--TTCAA
*
941888 AAGCCCATAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAA
*
941916 AAGCCCAAAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAA
941944 AAGCCCACA
1 AAGCCCACA
941953 CAAATTGGTG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 40 0.66
30 21 0.34
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.16
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAA
Found at i:942045 original size:52 final size:49
Alignment explanation
Indices: 941969--942615 Score: 548
Period size: 52 Copynumber: 12.8 Consensus size: 49
941959 GGTGGCGTCT
* * *
941969 TCTTCTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTAACCA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
* * *
942022 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
942071 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT--CA
* * *
942123 TTCCTTAA--CCAAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCA
1 -TCTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCA
* * * * * *
942175 TCTTTAAGTCTAATGTTGCTGACCGTGAATCAGCACATTGACATTCTTTACA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CA
* * * * * *
942227 TCTTTAAGCCCAATATCACTGGTCTTGAATCAGCATATTGGCACCTT-G
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * **
942275 TCTCTAAGACCAATGTCGTTGGCCTTGAATCAGCATAGTGGTGCCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* *
942327 TCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGTACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
942376 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
*
942428 TATTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * * * * *
942477 TCTTTAAGTCCAAAATTGTTGGCCTTGAATCAGCATATTGGCATCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * ** * *
942526 ACATTCCTAAGCCCAATGTTGCTGGCCTTGTCTCAGCACATTGG--CGTTCT
1 TC-TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
942576 TCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
942616 TCATTCTTCG
Statistics
Matches: 485, Mismatches: 89, Indels: 46
0.78 0.14 0.07
Matches are distributed among these distances:
47 29 0.06
48 36 0.07
49 131 0.27
50 12 0.02
51 10 0.02
52 251 0.52
53 15 0.03
54 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:942149 original size:101 final size:100
Alignment explanation
Indices: 941969--942615 Score: 644
Period size: 101 Copynumber: 6.4 Consensus size: 100
941959 GGTGGCGTCT
* *
941969 TCTTCTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCA-CCTTAACCATCTTTAAGACC
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAA-CATCTTTAAG-CC
* *
942033 AATGTCACTGGCCTTGAATCAGCACATTGGCATCTTCA
63 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
942071 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTTAA-CCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACA-TCTTTAAGCC-A
* *
942135 ATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCA
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCA
* * * * * * *
942175 TCTTTAAGTCTAATGTTGCTGACCGTGAATCAGCACATTGACATTCTTT-ACATCTTTAAGCCCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTTAACATCTTTAAG-CCA
* * * * *
942239 ATATCACTGGTCTTGAATCAGCATATTGGCACCTT-G
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * * *** **
942275 TCTCTAAGACCAATGTCGTTGGCCTTGAATCAGCATAGTGGTGCCTTTGTCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATCTTTAAG-CCAA
* *
942340 TGTCGTTGGCCTTGAATCAGTACATTGGCACCTTCA
65 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
942376 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCA-CCTTAACCATATTTAAGTCCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAA-CATCTTTAAG-CCA
942440 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
942477 TCTTTAAGTCCAAAATTGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCCTAAGCCCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATCT-TTAAG-CCA
* ** * *
942541 ATGTTGCTGGCCTTGTCTCAGCACATTGG--CGTTCT
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
942576 TCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
942616 TCATTCTTCG
Statistics
Matches: 447, Mismatches: 84, Indels: 31
0.80 0.15 0.06
Matches are distributed among these distances:
99 40 0.09
100 79 0.18
101 225 0.50
102 22 0.05
103 7 0.02
104 67 0.15
105 7 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (100 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATCTTTAAGCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:943414 original size:19 final size:21
Alignment explanation
Indices: 943369--943422 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
943359 TTTCAACAAT
943369 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
943390 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
943409 TTGTATCGATACAA
1 TTGTATCGATACAA
943423 TGTATCGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:943428 original size:13 final size:13
Alignment explanation
Indices: 943410--943435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
943400 ACATAAGTGT
943410 TGTATCGATACAA
1 TGTATCGATACAA
943423 TGTATCGATACAA
1 TGTATCGATACAA
943436 AGCTACTGCC
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):
TGTATCGATACAA
Found at i:946945 original size:16 final size:16
Alignment explanation
Indices: 946926--946962 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
946916 TTTTGCACTA
946926 TTTTTCATTTTGTTTT
1 TTTTTCATTTTGTTTT
**
946942 TTTTTGTTTTTGTTTT
1 TTTTTCATTTTGTTTT
946958 TTTTT
1 TTTTT
946963 GACTTCTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (16 bp):
TTTTTCATTTTGTTTT
Found at i:946963 original size:16 final size:16
Alignment explanation
Indices: 946933--946963 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
946923 CTATTTTTCA
946933 TTTTGTTTTTTTTTGT
1 TTTTGTTTTTTTTTGT
946949 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
946964 ACTTCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTGTTTTTTTTTGT
Found at i:950997 original size:20 final size:20
Alignment explanation
Indices: 950972--951025 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
950962 TTTTACCCAG
* * *
950972 ATGTATCGATAGATTTTTCA
1 ATGTATCGATACATGTATCA
*
950992 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
951012 ATGTATCGATACAT
1 ATGTATCGATACAT
951026 TCTATCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:952760 original size:19 final size:19
Alignment explanation
Indices: 952736--952803 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
952726 AATTCAACAA
952736 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
952755 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
952770 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
952787 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
952804 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:952775 original size:13 final size:13
Alignment explanation
Indices: 952757--952781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
952747 ACATAAGTTT
952757 TGTATCGATACAA
1 TGTATCGATACAA
952770 TGTATCGATACA
1 TGTATCGATACA
952782 TAAGTATTGT
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:952779 original size:32 final size:32
Alignment explanation
Indices: 952738--952800 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
952728 TTCAACAATT
*
952738 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
952770 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
952801 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:952861 original size:13 final size:13
Alignment explanation
Indices: 952843--952868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
952833 CATTTTTCTG
952843 TGTATCGATACAT
1 TGTATCGATACAT
952856 TGTATCGATACAT
1 TGTATCGATACAT
952869 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:952880 original size:33 final size:33
Alignment explanation
Indices: 952823--952889 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
952813 GCCAAGGAAA
*** *
952823 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
*
952856 TGTATCGATACATGGATCTTTGTATCAATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
952889 T
1 T
952890 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCAATACAT
Found at i:955402 original size:28 final size:27
Alignment explanation
Indices: 955335--955403 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
955325 CTTCACAATC
*
955335 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
955362 GGGGATACTCCAACCCCGTTATTTGCA-A
1 GGGGATACTCCAACCCCGTTA-AT-CATA
955390 GGGGATACTCCAAC
1 GGGGATACTCCAAC
955404 TCCGGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 21 0.55
28 15 0.39
29 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:955451 original size:80 final size:77
Alignment explanation
Indices: 955359--955561 Score: 214
Period size: 78 Copynumber: 2.6 Consensus size: 77
955349 CCCGTTAATC
* *
955359 ATCGGGGATACTCCAACCCCGTTATTTGCAAGGGGATACTCCAACTCCGGTTTTA-TCGCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTT-C-AGGGGATACTCCAACTCCGATTTTATTC-CAAAAA
*
955423 CACTAATTTTTCCACA
63 CACCAATTTTT-CACA
** * *
955439 ATCGGGGATACTCCAATTTTCCTTTA-ATC-GGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAA--CCCCGTTATTTCAGGGGATACTCCAACTCCGATTTTA-TTCCAAAAA
*
955502 TACCAATTTTTCACA
63 CACCAATTTTTCACA
* *
955517 ATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCA--GGGGATACTCCAAC
955562 CCCGTTACTT
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
76 4 0.04
77 2 0.02
78 42 0.42
79 14 0.14
80 33 0.33
81 1 0.01
82 5 0.05
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (77 bp):
ATCGGGGATACTCCAACCCCGTTATTTCAGGGGATACTCCAACTCCGATTTTATTCCAAAAACAC
CAATTTTTCACA
Found at i:955456 original size:26 final size:26
Alignment explanation
Indices: 955430--955480 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
955420 AAACACTAAT
955430 TTTTCC-ACAATCGGGGATACTCCAA
1 TTTTCCTACAATCGGGGATACTCCAA
**
955455 TTTTCCTTTAATCGGGGATACTCCAA
1 TTTTCCTACAATCGGGGATACTCCAA
955481 CTCCGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (26 bp):
TTTTCCTACAATCGGGGATACTCCAA
Found at i:955494 original size:109 final size:107
Alignment explanation
Indices: 955281--955481 Score: 250
Period size: 107 Copynumber: 1.9 Consensus size: 107
955271 TTCTATAATC
*
955281 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
*
955346 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTGCAA
65 AACCCCGTT-ATAATCGGGGATACTCCAACCCCGTTATTTGCAA
* * *
955390 GGGGATACTCCAACTCCGGTTTTA-TCGC-TAAAACACTAATTT-TTCCACAATCGGGGATACTC
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAAACACCAATTTCTT-CACAATCGGGGATACTC
**
955452 CAATTTTCC-TT-TAATCGGGGATACTCCAAC
64 CAA--CCCCGTTATAATCGGGGATACTCCAAC
955482 TCCGATTTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
106 20 0.25
107 34 0.42
108 3 0.04
109 24 0.30
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCA
ACCCCGTTATAATCGGGGATACTCCAACCCCGTTATTTGCAA
Found at i:955553 original size:28 final size:28
Alignment explanation
Indices: 955517--955593 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
955507 ATTTTTCACA
* * *
955517 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
955545 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
955573 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
955594 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:955664 original size:107 final size:107
Alignment explanation
Indices: 955468--955672 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 107
955458 TCCTTTAATC
* * *
955468 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
955533 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
955576 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
* *
955640 CCCCGTTATTT-TCGAAGGGGTACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
955673 GTTTTTTTTC
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
105 3 0.04
107 57 0.70
108 21 0.26
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:955726 original size:78 final size:80
Alignment explanation
Indices: 955547--955748 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 80
955537 GTTATTTCAT
* *
955547 CGGGGATACTCCAACCCCGTTACTTCCG-AGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
* * *
955611 TTGATTTCTCATAAT
66 TCGATTTCTCACAAC
* * * ** *
955626 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGG-TACTCCAATCCCGG-TTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-
955688 ATCGATTTCTCACAAC
65 ATCGATTTCTCACAAC
* * *
955704 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGGATACTCCAACCC
955749 TGTTATTATC
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
77 8 0.08
78 53 0.51
79 38 0.37
80 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (80 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
TCGATTTCTCACAAC
Found at i:957694 original size:27 final size:27
Alignment explanation
Indices: 957649--957717 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
957639 TCATCATTGG
957649 GGATACTCCAACCCCATTCCTCCGAGA
1 GGATACTCCAACCCCATTCCTCCGAGA
* *
957676 GGGTACTCCAACCCTATTCCTCCGAGA
1 GGATACTCCAACCCCATTCCTCCGAGA
*
957703 GGATACTCTAACCCC
1 GGATACTCCAACCCC
957718 GTTTTTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.20
Consensus pattern (27 bp):
GGATACTCCAACCCCATTCCTCCGAGA
Found at i:958754 original size:13 final size:13
Alignment explanation
Indices: 958736--958761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
958726 AATTTTTTTG
958736 TGTATCGATACAT
1 TGTATCGATACAT
958749 TGTATCGATACAT
1 TGTATCGATACAT
958762 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:959509 original size:21 final size:21
Alignment explanation
Indices: 959468--959511 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
959458 CTCCCCTTTA
* *
959468 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
959489 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
959510 TC
1 TC
959512 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:961334 original size:13 final size:13
Alignment explanation
Indices: 961316--961354 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
961306 ATAATCACCC
961316 TGTATCGATACAA
1 TGTATCGATACAA
961329 TGTATCGATACAA
1 TGTATCGATACAA
961342 TGTATCGATACAA
1 TGTATCGATACAA
961355 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:965281 original size:21 final size:21
Alignment explanation
Indices: 965252--965296 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
965242 AAGTTTTCAT
*
965252 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
965272 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
965294 TTT
1 TTT
965297 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:967527 original size:13 final size:13
Alignment explanation
Indices: 967509--967534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
967499 AATTTTTTTG
967509 TGTATCGATACAT
1 TGTATCGATACAT
967522 TGTATCGATACAT
1 TGTATCGATACAT
967535 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:975440 original size:21 final size:21
Alignment explanation
Indices: 975407--975447 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
975397 CTAAGTAAAA
975407 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
975428 ATAC-TATTGGTATCAGTACA
1 ATACGTATT-GTATCAATACA
975448 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:975512 original size:20 final size:19
Alignment explanation
Indices: 975487--975556 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
975477 ACCCTGAAAA
975487 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
975507 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
*
975526 AGTATCGATACACA-CAATAT
1 -GTATCGATACACATTAA-AT
975546 GTATCGATACA
1 GTATCGATACA
975557 GGACATTGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 15 0.37
20 26 0.63
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:975664 original size:21 final size:22
Alignment explanation
Indices: 975633--975701 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 22
975623 AATCTCATTT
975633 TCACTGTTCATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
975655 TCACT-TTCATGTATCGATACTGTTCA
1 TCACTGTTCATGTATCGATA-----CA
975681 TCACTGTTCATGTATCGATAC
1 TCACTGTTCATGTATCGATAC
975702 TGTTCATACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
21 14 0.34
22 6 0.15
26 7 0.17
27 14 0.34
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (22 bp):
TCACTGTTCATGTATCGATACA
Found at i:975693 original size:27 final size:27
Alignment explanation
Indices: 975633--975726 Score: 130
Period size: 26 Copynumber: 3.7 Consensus size: 27
975623 AATCTCATTT
975633 TCACTGTTCATGTATCGATA-----CA
1 TCACTGTTCATGTATCGATACTGTTCA
975655 TCACT-TTCATGTATCGATACTGTTCA
1 TCACTGTTCATGTATCGATACTGTTCA
975681 TCACTGTTCATGTATCGATACTGTTCA
1 TCACTGTTCATGTATCGATACTGTTCA
*
975708 T-ACTGTTCATATATCGATA
1 TCACTGTTCATGTATCGATA
975727 AAAATCACTG
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
21 14 0.22
22 5 0.08
26 24 0.37
27 22 0.34
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (27 bp):
TCACTGTTCATGTATCGATACTGTTCA
Found at i:975769 original size:13 final size:13
Alignment explanation
Indices: 975751--975789 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
975741 TCACTATTTA
975751 TGTATCGATACAT
1 TGTATCGATACAT
*
975764 TGTATCGATACAG
1 TGTATCGATACAT
975777 TGTATCGATACAT
1 TGTATCGATACAT
975790 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:976508 original size:13 final size:13
Alignment explanation
Indices: 976490--976515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
976480 TACAGCAAGT
976490 ATGTATCGATACA
1 ATGTATCGATACA
976503 ATGTATCGATACA
1 ATGTATCGATACA
976516 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:978763 original size:21 final size:21
Alignment explanation
Indices: 978730--978774 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
978720 TTGCAAGTTG
*
978730 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
978752 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
978772 AAA
1 AAA
978775 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:985311 original size:13 final size:13
Alignment explanation
Indices: 985293--985318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
985283 TACAGCAAGT
985293 ATGTATCGATACA
1 ATGTATCGATACA
985306 ATGTATCGATACA
1 ATGTATCGATACA
985319 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:987050 original size:25 final size:25
Alignment explanation
Indices: 987021--987095 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 25
987011 CAATATTGTG
987021 TGCCTACATCACTTTTCAACTTCTT
1 TGCCTACATCACTTTTCAACTTCTT
987046 TGCCTTTTACCTCTATCACTTTTCAACTTCTT
1 TGCC---TA---C-ATCACTTTTCAACTTCTT
987078 TGCCTACATCACTTTTCA
1 TGCCTACATCACTTTTCA
987096 CTTTACAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
25 15 0.35
26 1 0.02
28 2 0.05
29 2 0.05
31 1 0.02
32 22 0.51
ACGTcount: A:0.19, C:0.32, G:0.04, T:0.45
Consensus pattern (25 bp):
TGCCTACATCACTTTTCAACTTCTT
Found at i:991111 original size:20 final size:20
Alignment explanation
Indices: 991058--991112 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
991048 AAATTCCCAG
**
991058 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
*
991078 ATGTATCAATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
991098 ATGTATCGATACATT
1 ATGTATCGATACATT
991113 TCCTTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:994227 original size:17 final size:17
Alignment explanation
Indices: 994203--994243 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
994193 CGTCCTTCGT
*
994203 ACAAAAAAAATAAAAAA
1 ACAAAAAAAACAAAAAA
* *
994220 ATAAAAAAAACAAATAA
1 ACAAAAAAAACAAAAAA
994237 ACAAAAA
1 ACAAAAA
994244 GGGGTCCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (17 bp):
ACAAAAAAAACAAAAAA
Found at i:995550 original size:28 final size:28
Alignment explanation
Indices: 995506--995833 Score: 430
Period size: 28 Copynumber: 11.6 Consensus size: 28
995496 CTAGAATGTT
* *
995506 CATCTCTTT-AAAGCCCACAGGTTAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
*
995534 TATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
995562 CATCCTTCTCAAAGCCCA-AAGTTAGTGG
1 CATCCTT-TCAAAGCCCACAAGTCAGTGG
*
995590 CATCCTTCTTAAAGCCCACAAGTCAGTGG
1 CATCCTT-TCAAAGCCCACAAGTCAGTGG
*
995619 CATCCTTCTCAAAGCCCA-AAGTTAGTGG
1 CATCCTT-TCAAAGCCCACAAGTCAGTGG
*
995647 CATCCTTCTTAAAGCCCACAAGTCAGTGG
1 CATCCTT-TCAAAGCCCACAAGTCAGTGG
* *
995676 CATCCTTTCACAGCTCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
995704 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
995732 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
995760 CATCCTTTCGAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
995788 CA-CCTTTTCAAAACCCACAAGTCAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
* *
995816 CAGCCTTTTCAAAACCCA
1 CATCC-TTTCAAAGCCCA
995834 TAAGCTAGTG
Statistics
Matches: 271, Mismatches: 23, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
27 6 0.02
28 198 0.73
29 67 0.25
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:996811 original size:51 final size:50
Alignment explanation
Indices: 996735--996921 Score: 153
Period size: 51 Copynumber: 3.9 Consensus size: 50
996725 AAAAGTCATA
*
996735 TTTTTACCCAGATGTATCAATACATTATTCAATGTATCGATACATTATGTC
1 TTTTTA-CCAGATGTATCGATACATTATTCAATGTATCGATACATTATGTC
* * * *
996786 TTTTTGCCAAGATGTATCGATACATTTTTTAATGTATCAATACATGTATG--
1 TTTTTACC-AGATGTATCGATACATTATTCAATGTATCGATACAT-TATGTC
*** * *
996836 --------A-ATGTATCGATACATTAAAGAATGTATCGATACATTCTATC
1 TTTTTACCAGATGTATCGATACATTATTCAATGTATCGATACATTATGTC
* *
996877 TTTTTATCTAGATGTATCGATACGTTATTCAATGTATCGATACAT
1 TTTTTA-CCAGATGTATCGATACATTATTCAATGTATCGATACAT
996922 CTAGTTAAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 28
0.71 0.11 0.19
Matches are distributed among these distances:
39 2 0.02
40 29 0.27
41 1 0.01
50 3 0.03
51 67 0.63
52 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (50 bp):
TTTTTACCAGATGTATCGATACATTATTCAATGTATCGATACATTATGTC
Found at i:996822 original size:20 final size:20
Alignment explanation
Indices: 996797--996871 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
996787 TTTTGCCAAG
* *
996797 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTATGA
* *
996817 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTATGA
* *
996837 ATGTATCGATACATTAAAGA
1 ATGTATCGATACATTTATGA
996857 ATGTATCGATACATT
1 ATGTATCGATACATT
996872 CTATCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTATGA
Found at i:996911 original size:91 final size:91
Alignment explanation
Indices: 996746--996921 Score: 235
Period size: 91 Copynumber: 1.9 Consensus size: 91
996736 TTTTACCCAG
** * *
996746 ATGTATCAATACATTATTCAATGTATCGATACATTATGTCTTTTTGCCAAGATGTATCGATACAT
1 ATGTATCAATACATTAAACAATGTATCGATACATTATATCTTTTTACCAAGATGTATCGATACAT
* *
996811 TTTTTAATGTATCAATACATGTATGA
66 TATTCAATGTATCAATACATGTATGA
* * * * * *
996837 ATGTATCGATACATTAAAGAATGTATCGATACATTCTATCTTTTTATCTAGATGTATCGATACGT
1 ATGTATCAATACATTAAACAATGTATCGATACATTATATCTTTTTACCAAGATGTATCGATACAT
*
996902 TATTCAATGTATCGATACAT
66 TATTCAATGTATCAATACAT
996922 CTAGTTAAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (91 bp):
ATGTATCAATACATTAAACAATGTATCGATACATTATATCTTTTTACCAAGATGTATCGATACAT
TATTCAATGTATCAATACATGTATGA
Found at i:1000659 original size:20 final size:20
Alignment explanation
Indices: 1000634--1000707 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1000624 TTTTACCAAG
* *
1000634 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTATGA
1000654 ATGTATCGATACA-TTATGA
1 ATGTATCGATACATTTATGA
* *
1000673 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTTATGA
*
1000693 ATGTATTGATACATT
1 ATGTATCGATACATT
1000708 CTGTCTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 17 0.35
20 31 0.65
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTATGA
Found at i:1008139 original size:32 final size:32
Alignment explanation
Indices: 1008095--1008179 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
1008085 TTTCACTATT
* *
1008095 CATCACTATTCATCGCTGTTCATGTATCGATA
1 CATCACTGTTCATCACTGTTCATGTATCGATA
1008127 CATCACTGTTCATCACTGTTCATGTATCGATA
1 CATCACTGTTCATCACTGTTCATGTATCGATA
*
1008159 CATCACTGTTCA-CACTATTCA
1 CATCACTGTTCATCACTGTTCA
1008180 GAAAAAGCCC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
31 8 0.16
32 42 0.84
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (32 bp):
CATCACTGTTCATCACTGTTCATGTATCGATA
Found at i:1013637 original size:40 final size:40
Alignment explanation
Indices: 1013570--1013645 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
1013560 AAAACCCAGA
* * *
1013570 ATGTATCGATACAATGAGAAATGTATCGATATAATTCCTT
1 ATGTATCGATACAATGAAAAATATATCGATACAATTCCTT
* *
1013610 ATGTATCGATACATTTAAAAATATATCGATACAATT
1 ATGTATCGATACAATGAAAAATATATCGATACAATT
1013646 TCATTCCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (40 bp):
ATGTATCGATACAATGAAAAATATATCGATACAATTCCTT
Found at i:1014417 original size:61 final size:60
Alignment explanation
Indices: 1014337--1014619 Score: 235
Period size: 61 Copynumber: 4.8 Consensus size: 60
1014327 TTAGTGTGTA
* * * * *
1014337 GATTCAAGGGCTGCAACATTGGACTTAAAGATGATAAGGATGAGAAGAGTGCCAATATGTT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAGAATGATAA-AGTGCCAATATGCT
** * *
1014398 GATTCAAGGTTAGCTACATTGGACTTAAAAATG-TGAAGAATGATAAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGATGAT-AAGAATGATAAA-GTGCCAATATGCT
* * * * *
1014459 AATTCAAGGCCAGCAATATTGGGCTTAAAGATGAGAAAAATGATAAAGATGCCAATATGCT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAGAATGATAAAG-TGCCAATATGCT
** * * * *
1014520 GATTCAAGGCCAGTGATATTAGG-CTTAAAGATGA-CA-AA-G-----GTGCCTATGTGCT
1 GATTCAAGGCCAGCAACATT-GGACTTAAAGATGATAAGAATGATAAAGTGCCAATATGCT
* * * *
1014572 GATTCAAGGCCAGCGACATTGGACTTGAAGATGAGAAGGATGATAAAG
1 GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAGAATGATAAAG
1014620 GTGCGATAAA
Statistics
Matches: 180, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
51 2 0.01
52 38 0.21
53 2 0.01
54 1 0.01
55 1 0.01
58 1 0.01
59 2 0.01
60 5 0.03
61 126 0.70
62 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (60 bp):
GATTCAAGGCCAGCAACATTGGACTTAAAGATGATAAGAATGATAAAGTGCCAATATGCT
Found at i:1014603 original size:52 final size:52
Alignment explanation
Indices: 1014498--1014605 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
1014488 GATGAGAAAA
* * *
1014498 ATGATAAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTAGGCTTAAAG
1 ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTAAAG
* * * *
1014550 ATGACAAAGGTGCCTATGTGCTGATTCAAGGCCAGCGACATT-GGACTTGAAG
1 ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTAGG-CTTAAAG
1014602 ATGA
1 ATGA
1014606 GAAGGATGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.04
52 46 0.96
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (52 bp):
ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTAAAG
Found at i:1014743 original size:51 final size:52
Alignment explanation
Indices: 1014640--1014755 Score: 128
Period size: 51 Copynumber: 2.2 Consensus size: 52
1014630 GGTGCCGATA
* * *
1014640 TGTTGATTCAAGGCGAGCGATATTAGGCTTAAAGATGCAAAGAATACAAATG
1 TGTTGATTCAAGGCCAACGACATTAGGCTTAAAGATGCAAAGAATACAAATG
* * * *
1014692 TGTTGATTCACGGCCAACGACATTA-GCTTGAAGATG-AGAAGAATGCCAATG
1 TGTTGATTCAAGGCCAACGACATTAGGCTTAAAGATGCA-AAGAATACAAATG
* *
1014743 TGCTAATTCAAGG
1 TGTTGATTCAAGG
1014756 ATAGCAACAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
50 1 0.02
51 31 0.58
52 21 0.40
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
TGTTGATTCAAGGCCAACGACATTAGGCTTAAAGATGCAAAGAATACAAATG
Found at i:1014804 original size:52 final size:51
Alignment explanation
Indices: 1014695--1014933 Score: 189
Period size: 52 Copynumber: 4.6 Consensus size: 51
1014685 ACAAATGTGT
* * * * * *
1014695 TGATTCACGGCCAACGACATTAG-CTTGAAGATGA-GAAGAATGCCAATGTGC
1 TGATTCAAGGCTAACGACATTGGACTT-AAGAAGACAAAG-ATGCCAATATGC
* * * * * * *
1014746 TAATTCAAGGATAGCAACATTGGGCTTAGGAATGATAAAGATGCCAATATGC
1 TGATTCAAGGCTAACGACATTGGACTTAAGAA-GACAAAGATGCCAATATGC
* * * *
1014798 TGATTCAAGGCTAGCGATATTGGACTTAAAGAAGACAAAGGTGCCAATATGT
1 TGATTCAAGGCTAACGACATTGGACTT-AAGAAGACAAAGATGCCAATATGC
* * * *
1014850 TGATTCAAGGCCAACGATATTGGACTTAAGAAAGAGAAATG-TGCCAATGTGC
1 TGATTCAAGGCTAACGACATTGGACTTAAG-AAGACAAA-GATGCCAATATGC
* *
1014902 TGATTCAAGGCTAATGACATTGGGCTT-AGAAG
1 TGATTCAAGGCTAACGACATTGGACTTAAGAAG
1014934 TAGATGCCAT
Statistics
Matches: 153, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
50 3 0.02
51 24 0.16
52 118 0.77
53 8 0.05
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (51 bp):
TGATTCAAGGCTAACGACATTGGACTTAAGAAGACAAAGATGCCAATATGC
Found at i:1015073 original size:33 final size:33
Alignment explanation
Indices: 1014951--1015449 Score: 452
Period size: 32 Copynumber: 15.4 Consensus size: 33
1014941 CATCAATTTC
* * * *
1014951 TGTGGGCTTTTGAG-AGGGTTGCCATCAACCTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
**
1014983 TGTGGGCTTT--AGAAGGGTTGCCATAGACTTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
* * *
1015014 TATGGGCTTTA-AAAAGGGTTGCCACCAACTTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
* * *
1015046 TGTGGGCTTTAGAGAAGTGTTGCCACCAACTTA
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
1015079 TGTGGGCTTTAGA-AAGGGTTGCCACCGACTTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
* *
1015111 TGTGGGCTTTAGA-ATGGGGTTGCCATCGACTT-
1 TGTGGGCTTTAGAGA-AGGGTTGCCACCGACTTG
**
1015143 TGTGGGCTTTAGAGAAGGGTTGCCATAGACTTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
* ** *
1015176 TGTGGGCTTT--AGAAGATGTTGCCACTAACTTA
1 TGTGGGCTTTAGAGAAG-GGTTGCCACCGACTTG
*
1015208 TGTGGGCTTTAGAGAAGGGTTGCCATCGACTTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
*
1015241 TGTGGGCTTT--AGAAGGCGATTGCCACCGACTTA
1 TGTGGGCTTTAGAGAAGG-G-TTGCCACCGACTTG
* * * **
1015274 TGTGTGCTTTAGAAAAGGGTTTCCATTGACTTG
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
* * *
1015307 TGTGGGCTTTAGATAA-GGTTGCCACTGACTTA
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
** * *
1015339 CATGGGCTTT--AGAAGAGGTTGCCACTGACTTC
1 TGTGGGCTTTAGAGAAG-GGTTGCCACCGACTTG
* * *
1015371 TGTGGGCTTTAAAGAAGAGTTGCCACCGACTTA
1 TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
* * ** *
1015404 TGTGGG-TTTCGAAAGAGGGTTTTCACCAACTTG
1 TGTGGGCTTTAGAGA-AGGGTTGCCACCGACTTG
*
1015437 TGTGAGCTTTAGA
1 TGTGGGCTTTAGA
1015450 AGAGTGTAAG
Statistics
Matches: 387, Mismatches: 61, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
30 5 0.01
31 35 0.09
32 166 0.43
33 160 0.41
34 16 0.04
35 5 0.01
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.31
Consensus pattern (33 bp):
TGTGGGCTTTAGAGAAGGGTTGCCACCGACTTG
Found at i:1015095 original size:65 final size:65
Alignment explanation
Indices: 1014951--1015449 Score: 473
Period size: 65 Copynumber: 7.7 Consensus size: 65
1014941 CATCAATTTC
* * * * ** *
1014951 TGTGGGCTTTTGAGAGGGTTGCCATCAACCTGTGTGGGCTTT--AGAAGGGTTGCCATAGACTTG
1 TGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTA
* * * *
1015014 TATGGGCTTTAAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGTGTTGCCACCAACTTA
1 TGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTA
* * *
1015079 TGTGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA-ATGGGGTTGCCATCGACTT
1 TGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGA-AGGGTTGCCACCGACTT
1015143 -
65 A
* * **
1015143 TGTGGGCTTTAGAGAAGGGTTGCCA-TAGACTTGTGTGGGCTTT--AGAAGATGTTGCCACTAAC
1 TGTGGGCTTTAGA-AAGGGTTGCCACCA-ACTTGTGTGGGCTTTAGAGAAG-GGTTGCCACCGAC
1015205 TTA
63 TTA
* *
1015208 TGTGGGCTTTAGAGAAGGGTTGCCATCGACTTGTGTGGGCTTT--AGAAGGCGATTGCCACCGAC
1 TGTGGGCTTTAGA-AAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGG-G-TTGCCACCGAC
1015271 TTA
63 TTA
* * *** * *
1015274 TGTGTGCTTTAGAAAAGGGTTTCCATTGACTTGTGTGGGCTTTAGATAA-GGTTGCCACTGACTT
1 TGTGGGCTTTAG-AAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTT
1015338 A
65 A
** ** * * *
1015339 CATGGGCTTTAG-AAGAGGTTGCCACTGACTTCTGTGGGCTTTAAAGAAGAGTTGCCACCGACTT
1 TGTGGGCTTTAGAAAG-GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTT
1015403 A
65 A
* ** *
1015404 TGTGGG-TTTCGAAAGAGGGTTTTCACCAACTTGTGTGAGCTTTAGA
1 TGTGGGCTTTAG-AA-AGGGTTGCCACCAACTTGTGTGGGCTTTAGA
1015450 AGAGTGTAAG
Statistics
Matches: 362, Mismatches: 55, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
63 41 0.11
64 57 0.16
65 183 0.51
66 74 0.20
67 4 0.01
68 3 0.01
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.31
Consensus pattern (65 bp):
TGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTA
Found at i:1015652 original size:30 final size:31
Alignment explanation
Indices: 1015617--1015691 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
1015607 ATTGGAGGAG
* *
1015617 AGATGCCACTGAGTTGTGGA-TTTTAAAGAA
1 AGATGCCACTGAGTTGTGGACTTTGAAAAAA
* *
1015647 GGATGCCACTAAGTTGTGGACTTTGAAAAAA
1 AGATGCCACTGAGTTGTGGACTTTGAAAAAA
*
1015678 AGATGCCAGTGAGT
1 AGATGCCACTGAGT
1015692 CAGGAGTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (31 bp):
AGATGCCACTGAGTTGTGGACTTTGAAAAAA
Found at i:1019453 original size:15 final size:15
Alignment explanation
Indices: 1019433--1019465 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1019423 TAAAAGACAA
1019433 GAGATG-ACACCTATC
1 GAGATGAACACCTA-C
1019448 GAGATGAACACCTAC
1 GAGATGAACACCTAC
1019463 GAG
1 GAG
1019466 TCCCTTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (15 bp):
GAGATGAACACCTAC
Found at i:1021022 original size:42 final size:42
Alignment explanation
Indices: 1020878--1021610 Score: 118
Period size: 42 Copynumber: 17.5 Consensus size: 42
1020868 ACCTATCAGT
* *
1020878 TTAGACCT-GGAGGACTTCTTTATCAATTGTCTGCCCGTTGGC
1 TTAGACCTAGGA-GACTTCTTTATCAATTGTCTGGCCGTCGGC
* * * ** *
1020920 TTAGACCCAAGAGA-TGTCTTCATCTTTTGTCT-G-C-TCGCC
1 TTAGACCTAGGAGACT-TCTTTATCAATTGTCTGGCCGTCGGC
* *
1020959 TATCAGACC-CGAGAGACTTCTTTATCAATTGTTTGGCCGTCGGC
1 T-T-AGACCTAG-GAGACTTCTTTATCAATTGTCTGGCCGTCGGC
* ** * * * *
1021003 TTAGACCTAGGAGACTTCTTCAT-TTTTCGTCAGCCCATCGAC
1 TTAGACCTAGGAGACTTCTTTATCAATT-GTCTGGCCGTCGGC
* * * * * *
1021045 TTAGA-CTGGGGAGACTTTTTTATTAATCGTCT-GCCTATTGGC
1 TTAGACCT-AGGAGACTTCTTTATCAATTGTCTGGCC-GTCGGC
* * * ** * *
1021087 TTAGA-CTCGGGAGACTT-TTTCATC-TTTCATCTACCCGTCAGT
1 TTAGACCT-AGGAGACTTCTTT-ATCAATT-GTCTGGCCGTCGGC
* * * ** * *
1021129 TTAGACTTGGGAGACTTTTTTATCAATCATCT-GCTCATCGGT
1 TTAGACCTAGGAGACTTCTTTATCAATTGTCTGGC-CGTCGGC
* * * * * * **
1021171 TTAGA-CTCGGGAGACTTCTTCATC-TTTCATCTGCCCATCATC
1 TTAGACCT-AGGAGACTTCTTTATCAATT-GTCTGGCCGTCGGC
* **
1021213 TTAAACCT-GGTAGACTTCTTTATCTTTTGTCT-GCCAGTCGG-
1 TTAGACCTAGG-AGACTTCTTTATCAATTGTCTGGCC-GTCGGC
* * * * * *
1021254 TTCAGACTTGGGAGACTTCTTTATCAATCGTCTGCCCATCGAC
1 TT-AGACCTAGGAGACTTCTTTATCAATTGTCTGGCCGTCGGC
* * * * *
1021297 TCAGACACGA-GAGACTTCTTTATC-TTTCGTCTGCCCGTTGGC
1 TTAGAC-CTAGGAGACTTCTTTATCAATT-GTCTGGCCGTCGGC
* * * * ** * *
1021339 TCAGA-CTCGAGAGACTTCTTCATTAATCAT-TTGCCTGTTGGC
1 TTAGACCTAG-GAGACTTCTTTATCAATTGTCTGGCC-GTCGGC
* * * ** ** * *
1021381 TCAAACCT-GAGAGACTTCTTCATCTTTTGTCTACCCGTCAGT
1 TTAGACCTAG-GAGACTTCTTTATCAATTGTCTGGCCGTCGGC
** * *
1021423 TTAGA-CTAGGGAGACTTCTTTATCAATCATCTGCCCGTGGGC
1 TTAGACCTA-GGAGACTTCTTTATCAATTGTCTGGCCGTCGGC
* * * * ** * * *
1021465 TCAAACCTGGGAGACTTCTTCATCTTTTGTCTGCCCATTGGC
1 TTAGACCTAGGAGACTTCTTTATCAATTGTCTGGCCGTCGGC
* * * * **
1021507 TCAGATCCGA-GAGACTT-TTTCATC-TTTCATCTATCCGTCGG-
1 TTAGA-CCTAGGAGACTTCTTT-ATCAATT-GTCTGGCCGTCGGC
* * * * * *
1021548 TTCAGACCCAGGAGACTTCTTTATCAATCGTCTGCCCATTGAC
1 TT-AGACCTAGGAGACTTCTTTATCAATTGTCTGGCCGTCGGC
1021591 TTAGACCTAGGAGACTTCTT
1 TTAGACCTAGGAGACTTCTT
1021611 CATCTTTCAC
Statistics
Matches: 496, Mismatches: 144, Indels: 102
0.67 0.19 0.14
Matches are distributed among these distances:
39 4 0.01
40 3 0.01
41 56 0.11
42 387 0.78
43 41 0.08
44 5 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (42 bp):
TTAGACCTAGGAGACTTCTTTATCAATTGTCTGGCCGTCGGC
Found at i:1021247 original size:168 final size:167
Alignment explanation
Indices: 1020873--1022282 Score: 918
Period size: 168 Copynumber: 8.4 Consensus size: 167
1020863 TGTCTACCTA
* * * * * **
1020873 TCAGTTTAGACCTGGAGGACTTCTTTATCAATT-GTCTGCCCGTTGGCTTAGACCCAAGAGA-TG
1 TCAGCTTAGACCTGGA-GACTTCTTTATC-TTTCGTCTGCCCATCGGCTTAGACTCGGGAGACT-
* * * * * * * *
1020936 TCTTCATCTTTTGTCTGCTCGCCTA--TCAGACCCGAGAGACTTCTTTATCAATT-GTTTGGCCG
63 TCTTCATCTTTCGTCTACCCGTC-AGCTCAGACCCGAGAGACTTCTTTATC-TTTCGTCTGCCCA
* * * * *
1020998 TCGGCTTAGAC-CTAGGAGACTTCTTCATTTTTCGTCAGCCCA
126 TCGGCTTAGACTC-GGGAGACTTCTTCATCTTTCATCTGCCCG
* * * *
1021040 TC-GACTTAGA-CTGGGGAGACTTTTTTAT-TAATCGTCTGCCTATTGGCTTAGACTCGGGAGAC
1 TCAG-CTTAGACCT--GGAGACTTCTTTATCT-TTCGTCTGCCCATCGGCTTAGACTCGGGAGAC
* * * * ** * * ** * *
1021102 TTTTTCATCTTTCATCTACCCGTCAGTTTAGACTTGGGAGACTTTTTTATCAATCATCTGCTCAT
62 TTCTTCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCAT
* *
1021167 CGGTTTAGACTCGGGAGACTTCTTCATCTTTCATCTGCCCA
127 CGGCTTAGACTCGGGAGACTTCTTCATCTTTCATCTGCCCG
* * * *
1021208 TCATCTTAAACCTGGTAGACTTCTTTATCTTTTGTCTG-CCAGTCGG-TTCAGACTTGGGAGACT
1 TCAGCTTAGACCTGG-AGACTTCTTTATCTTTCGTCTGCCCA-TCGGCTT-AGACTCGGGAGACT
* ** * * * *
1021271 TCTTTATCAATCGTCTGCCCATC-GACTCAGACACGAGAGACTTCTTTATCTTTCGTCTGCCCGT
63 TCTTCATCTTTCGTCTACCCGTCAG-CTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCAT
* * * * * *
1021335 TGGCTCAGACTCGAGAGACTTCTTCAT-TAATCATTTGCCTG
127 CGGCTTAGACTCGGGAGACTTCTTCATCT-TTCATCTGCCCG
** * * * * * * * * *
1021376 TTGGCTCAAACCTGAGAGACTTCTTCATCTTTTGTCTACCCGTCAGTTTAGACTAGGGAGACTTC
1 TCAGCTTAGACCTG-GAGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTCGGGAGACTTC
* ** * * ** * * * * * *
1021441 TTTATCAATCATCTGCCCGTGGGCTCAAACCTGGGAGACTTCTTCATCTTTTGTCTGCCCATTGG
65 TTCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCATCGG
* * * **
1021506 CTCAGA-TCCGAGAGACTTTTTCATCTTTCATCTATCCG
130 CTTAGACT-CGGGAGACTTCTTCATCTTTCATCTGCCCG
* * ** * * *
1021544 TC-GGTTCAGACCCAGGAGACTTCTTTATCAATCGTCTGCCCATTGACTTAGAC-CTAGGAGACT
1 TCAGCTT-AGA-CCTGGAGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTC-GGGAGACT
** * * * * **
1021607 TCTTCATCTTTCACCTGCCCGTCAGCTTAGACTCGAGAGACTTCTTTATCTTTCGTCTACCTGTC
63 TCTTCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCATC
* *
1021672 GGCTTAGACTCGGGAGACTTCTTCATCTTTCACCTGCTCG
128 GGCTTAGACTCGGGAGACTTCTTCATCTTTCATCTGCCCG
* * * ** * * ** * *
1021712 TC-GATTCAGACCCGGTAGGCTTCTTTATCAATCATCTTCCCATCGATTTAGACCCGAGAGACTT
1 TCAGCTT-AGACCTGG-AGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTCGGGAGACTT
** * * * * * *
1021776 CTTCATCTTTCGTCTACCCGTTGGCTTAGACCCGAGAGACTTCTTCATCTATCGTCTACCTATCA
64 CTTCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCATCG
* * **
1021841 GCTTAGAC-CTAGGAGACTTCTTCATCTTTCATTTGCTTG
129 GCTTAGACTC-GGGAGACTTCTTCATCTTTCATCTGCCCG
* * * * * * **
1021880 TTAGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTACCCGTCGACTTAGACTCAAGAGACTTC
1 TCAGCTTAGAC-CTGGAGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTCGGGAGACTTC
** * * ** * * * ** *
1021945 TTCATCTTTCGTCTACCAATCAACTCAAACCTAAGAGACTTCTTTATCTATCATCTTCTTATTGG
65 TTCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCATCGG
* * *
1022010 CTTAGACCCAGGAGACTTCTTCATCTTTCATTTGCCCG
130 CTTAGACTCGGGAGACTTCTTCATCTTTCATCTGCCCG
* * * * *
1022048 TCAGATTAGACCTAGGAGACTTCTTTATCTTTCATCTGCCCGTAGGCTCAGACTCGGGAGACTTC
1 TCAGCTTAGACCT-GGAGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTCGGGAGACTTC
* * * * *
1022113 TTCATCTTTTGTCTACCTGTCAGCTCAGACCCGAGAGACTTCTTCATCTTTCGTTTGCCCATCGA
65 TTCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCATCGG
* * * *
1022178 CTCAGACTCGGGAGACTTCTTCATCTTTCCTTTGCCCAT
130 CTTAGACTCGGGAGACTTCTTCATCTTTCATCTGCCC-G
* * * * *
1022217 TTA--TTCAGA-CTCGAGAGACTTCTTCATCTTTCATCTGCCCGTCGGCTCAGACTCGGGAGACT
1 TCAGCTT-AGACCT-G-GAGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTCGGGAGACT
1022279 TCTT
63 TCTT
1022283 TATCCATCAA
Statistics
Matches: 985, Mismatches: 220, Indels: 75
0.77 0.17 0.06
Matches are distributed among these distances:
166 5 0.01
167 81 0.08
168 874 0.89
169 25 0.03
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (167 bp):
TCAGCTTAGACCTGGAGACTTCTTTATCTTTCGTCTGCCCATCGGCTTAGACTCGGGAGACTTCT
TCATCTTTCGTCTACCCGTCAGCTCAGACCCGAGAGACTTCTTTATCTTTCGTCTGCCCATCGGC
TTAGACTCGGGAGACTTCTTCATCTTTCATCTGCCCG
Found at i:1022267 original size:42 final size:42
Alignment explanation
Indices: 1020995--1022282 Score: 670
Period size: 42 Copynumber: 30.7 Consensus size: 42
1020985 AATTGTTTGG
* * * *
1020995 CCGTCGGCTTAGAC-CTAGGAGACTTCTTCATTTTTCGTCAGC
1 CCGTCGGCTTAGACTCGA-GAGACTTCTTCATCTTTCATCTGC
* * * * * * * *
1021037 CCATCGACTTAGACTGGGGAGACTTTTTTAT-TAATCGTCTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCT-TTCATCTGC
** * * * *
1021079 CTATTGGCTTAGACTCGGGAGACTTTTTCATCTTTCATCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * * * **
1021121 CCGTCAGTTTAGACTTGGGAGACTTTTTTATCAATCATCTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * *
1021163 TCATCGGTTTAGACTCGGGAGACTTCTTCATCTTTCATCTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* ** * * **
1021205 CCATCATCTTAAAC-CTG-GTAGACTTCTTTATCTTTTGTCTGC
1 CCGTCGGCTTAGACTC-GAG-AGACTTCTTCATCTTTCATCTGC
* * * * ** *
1021247 CAGTCGG-TTCAGACTTGGGAGACTTCTTTATCAATCGTCTGC
1 CCGTCGGCTT-AGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * * *
1021289 CCATCGACTCAGACACGAGAGACTTCTTTATCTTTCGTCTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * *
1021331 CCGTTGGCTCAGACTCGAGAGACTTCTTCAT-TAATCATTTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCT-TTCATCTGC
* * * * ** *
1021373 CTGTTGGCTCAAAC-CTGAGAGACTTCTTCATCTTTTGTCTAC
1 CCGTCGGCTTAGACTC-GAGAGACTTCTTCATCTTTCATCTGC
* * * * * **
1021415 CCGTCAGTTTAGACTAGGGAGACTTCTTTATCAATCATCTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * **
1021457 CCGTGGGCTCAAAC-CTGGGAGACTTCTTCATCTTTTGTCTGC
1 CCGTCGGCTTAGACTC-GAGAGACTTCTTCATCTTTCATCTGC
* * * * **
1021499 CCATTGGCTCAGA-TCCGAGAGACTTTTTCATCTTTCATCTAT
1 CCGTCGGCTTAGACT-CGAGAGACTTCTTCATCTTTCATCTGC
* * ** *
1021541 CCGTCGG-TTCAGAC-CCAGGAGACTTCTTTATCAATCGTCTGC
1 CCGTCGGCTT-AGACTCGA-GAGACTTCTTCATCTTTCATCTGC
* * * * *
1021583 CCATTGACTTAGAC-CTAGGAGACTTCTTCATCTTTCACCTGC
1 CCGTCGGCTTAGACTCGA-GAGACTTCTTCATCTTTCATCTGC
* * * *
1021625 CCGTCAGCTTAGACTCGAGAGACTTCTTTATCTTTCGTCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * *
1021667 CTGTCGGCTTAGACTCGGGAGACTTCTTCATCTTTCACCTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * * ** *
1021709 TCGTC-GATTCAGACCCG-GTAGGCTTCTTTATCAATCATCTTC
1 CCGTCGGCTT-AGACTCGAG-AGACTTCTTCATCTTTCATCTGC
* ** * * *
1021751 CCATCGATTTAGACCCGAGAGACTTCTTCATCTTTCGTCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * *
1021793 CCGTTGGCTTAGACCCGAGAGACTTCTTCATCTATCGTCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
** * * *
1021835 CTATCAGCTTAGAC-CTAGGAGACTTCTTCATCTTTCATTTGC
1 CCGTCGGCTTAGACTCGA-GAGACTTCTTCATCTTTCATCTGC
** ** * * ** *
1021877 TTGTTAGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * *
1021919 CCGTCGACTTAGACTCAAGAGACTTCTTCATCTTTCGTCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
** ** * * * * * *
1021961 CAATCAACTCAAAC-CTAAGAGACTTCTTTATCTATCATCTTC
1 CCGTCGGCTTAGACTC-GAGAGACTTCTTCATCTTTCATCTGC
*** * * *
1022003 TTATTGGCTTAGAC-CCAGGAGACTTCTTCATCTTTCATTTGC
1 CCGTCGGCTTAGACTCGA-GAGACTTCTTCATCTTTCATCTGC
* * * *
1022045 CCGTCAGATTAGAC-CTAGGAGACTTCTTTATCTTTCATCTGC
1 CCGTCGGCTTAGACTCGA-GAGACTTCTTCATCTTTCATCTGC
* * * ** *
1022087 CCGTAGGCTCAGACTCGGGAGACTTCTTCATCTTTTGTCTAC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * * *
1022129 CTGTCAGCTCAGACCCGAGAGACTTCTTCATCTTTCGTTTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* * * * * *
1022171 CCATCGACTCAGACTCGGGAGACTTCTTCATCTTTCCTTTGC
1 CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
* ***
1022213 CCAT-TTATTCAGACTCGAGAGACTTCTTCATCTTTCATCTGC
1 CCGTCGGCTT-AGACTCGAGAGACTTCTTCATCTTTCATCTGC
* *
1022255 CCGTCGGCTCAGACTCGGGAGACTTCTT
1 CCGTCGGCTTAGACTCGAGAGACTTCTT
1022283 TATCCATCAA
Statistics
Matches: 947, Mismatches: 267, Indels: 64
0.74 0.21 0.05
Matches are distributed among these distances:
41 19 0.02
42 913 0.96
43 15 0.02
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (42 bp):
CCGTCGGCTTAGACTCGAGAGACTTCTTCATCTTTCATCTGC
Found at i:1022307 original size:42 final size:42
Alignment explanation
Indices: 1022221--1022334 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
1022211 GCCCATTTAT
* * ** ** *
1022221 TCAGACTCGAGAGACTTCTTCATCTTTCATCTGCCCGTCGGC
1 TCAGACTCGGGAGACTTCTTTATCAATCAAATGCCCGTCAGC
* *
1022263 TCAGACTCGGGAGACTTCTTTATCCATCAAATGCGCGTCAGC
1 TCAGACTCGGGAGACTTCTTTATCAATCAAATGCCCGTCAGC
*
1022305 TCA-ATCTCGGGAAACTTCCTTTATCAATCA
1 TCAGA-CTCGGGAGACTT-CTTTATCAATCA
1022335 TCTTCCCATC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.80
43 11 0.18
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (42 bp):
TCAGACTCGGGAGACTTCTTTATCAATCAAATGCCCGTCAGC
Found at i:1022314 original size:126 final size:126
Alignment explanation
Indices: 1022095--1022322 Score: 271
Period size: 126 Copynumber: 1.8 Consensus size: 126
1022085 GCCCGTAGGC
* ** *
1022095 TCAGACTCGGGAGACTTCTTCATCTTTTGTCTACCTGTCAGCTCAGACCCGAGAGACTTCTTCAT
1 TCAGACTCGAGAGACTTCTTCATCTTTCATCTACCCGTCAGCTCAGACCCGAGAGACTTCTTCAT
** *** *
1022160 CTTTCGTTTGCCCATCGACTCAGACTCGGGAGACTTCTTCATCTTTCCTTTGCCCATTTAT
66 CCATCAAATGCCCATCGACTCAGACTCGGGAAACTTCTTCATCTTTCCTTTGCCCATTTAT
* * * * *
1022221 TCAGACTCGAGAGACTTCTTCATCTTTCATCTGCCCGTCGGCTCAGACTCGGGAGACTTCTTTAT
1 TCAGACTCGAGAGACTTCTTCATCTTTCATCTACCCGTCAGCTCAGACCCGAGAGACTTCTTCAT
* *
1022286 CCATCAAATGCGCGTC-AGCTCA-ATCTCGGGAAACTTC
66 CCATCAAATGCCCATCGA-CTCAGA-CTCGGGAAACTTC
1022323 CTTTATCAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
125 2 0.02
126 81 0.98
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.32
Consensus pattern (126 bp):
TCAGACTCGAGAGACTTCTTCATCTTTCATCTACCCGTCAGCTCAGACCCGAGAGACTTCTTCAT
CCATCAAATGCCCATCGACTCAGACTCGGGAAACTTCTTCATCTTTCCTTTGCCCATTTAT
Found at i:1023549 original size:166 final size:166
Alignment explanation
Indices: 1023270--1024117 Score: 894
Period size: 166 Copynumber: 5.1 Consensus size: 166
1023260 TTATGCTTAA
* * * *
1023270 TTTTTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCATATTAATTCAGTTTTCAAAAATT
1 TTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATT
* * * * *
1023335 CATTCATTTTCATTCA-TTTTTTA-TTTTTTCCTTGAAATTCTCTTTTTT-TCGAAATATGGTGA
66 CATTCATTTTCA-TGAGTTTTTTATTTTTTTCCTTGAAATTCCCTTTTTTCT-AAAATACGGTGT
*
1023397 TTTCTACTCCGTAAATTTTTTTGAGGGAATTTTTCTCGG
129 TTTCTACTCCGTAAATTTTTTCGAGGG-ATTTTTCTCGG
* * * * *
1023436 TTTTAAATTTTTAAAATTCATCAAAGATCATCATTTATTTTATATTAATTAAATTTTCAAAAATT
1 TTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATT
* * * *
1023501 CATTCATTTTCATTAGTTTTTTATTTTTTTCCTGGAAATTCCTTTTTTTTCTAAAATACAGTGTT
66 CATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTCC-CTTTTTTCTAAAATACGGTGTT
* *
1023566 TTCTACTCCATAAATTTTTTCGAGGGTATTTTTCTCAG
130 TTCTACTCCGTAAATTTTTTCGAGGG-ATTTTTCTCGG
* * * * *
1023604 TTTTAAATTTTTAAAATTTATTATAA-ATTATTAAATTATTTCATATTAATTCATTTTTCAAAAA
1 TTTTAAATTTTTAAAATTCATCA-AACATTA-TCATTTATTTCATATTAATTCAGTTTTCAAAAA
* * *
1023668 TTCATTCATTTTCATAAG-TTTTTAATTTTTTCTTTGAAATTCCCTTTTTTCTAAAATACGGTGT
64 TTCATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTCCCTTTTTTCTAAAATACGGTGT
* *
1023732 TTTCTACTCCGTAAATTTTTTCGAGAGGATTTTCCTCGA
129 TTTCTACTCCGTAAATTTTTTCGAG-GGATTTTTCTCGG
* * *
1023771 TTTT-AATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTACTTTAGTTTTCAAAAATC
1 TTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATT
** * * **
1023835 CATTCATTTTCATGAGTTTTTGGTTTTTTTCCTTGAAATTCCCCTTTTTCTGAAATATTGTGTTT
66 CATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTCCCTTTTTTCTAAAATACGGTGTTT
* * *
1023900 TCTATTCTGTAAATTTTTTTGAGGGGATTTTTCTCGG
131 TCTACTCCGTAAATTTTTTCGA-GGGATTTTTCTCGG
* * * * * * *
1023937 TTTTCAATTTTTAAAATTTATCAAACATCATTATTTGATTT--TGATTAAATCTGTTTTAAAAAA
1 TTTTAAATTTTTAAAATTCATCAAACATTATCATTT-ATTTCAT-ATTAATTCAGTTTTCAAAAA
* ** * * * * * *
1024000 TTAATTCATTTTCATGAGTTTTGGAGTTTTTTT-GTTGAAATT-CTTTTTTTTTGAGAA-ACCGA
64 TTCATTCATTTTCATGAGTTTTTTA-TTTTTTTCCTTGAAATTCCCTTTTTTCT-AAAATACGGT
* * * * *
1024062 GTTTTCTTCTCCATGAATTTTTTAG-GGCGATTTTTCT-TG
127 GTTTTCTACTCCGTAAATTTTTTCGAGG-GATTTTTCTCGG
1024101 TTTTAAAATTTTTAAAA
1 TTTT-AAATTTTTAAAA
1024118 CTTATCTAAT
Statistics
Matches: 576, Mismatches: 89, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
164 7 0.01
165 68 0.12
166 199 0.35
167 146 0.25
168 108 0.19
169 48 0.08
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.52
Consensus pattern (166 bp):
TTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATT
CATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTCCCTTTTTTCTAAAATACGGTGTTT
TCTACTCCGTAAATTTTTTCGAGGGATTTTTCTCGG
Found at i:1025278 original size:13 final size:13
Alignment explanation
Indices: 1025260--1025285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1025250 TACACAAAGT
1025260 ATGTATCGATACA
1 ATGTATCGATACA
1025273 ATGTATCGATACA
1 ATGTATCGATACA
1025286 CAAAAAATTA
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:1028538 original size:23 final size:23
Alignment explanation
Indices: 1028488--1028540 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1028478 TCAATATCCA
**
1028488 CAATATCAACATATCAATGTATT
1 CAATATCAACATATCAATAAATT
* *
1028511 TAATATCAACATGTCAATAAATT
1 CAATATCAACATATCAATAAATT
1028534 CAATATC
1 CAATATC
1028541 CATAAGCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (23 bp):
CAATATCAACATATCAATAAATT
Found at i:1030168 original size:20 final size:20
Alignment explanation
Indices: 1030102--1030178 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
1030092 TAGAAAGAAT
* *
1030102 TTGTATCGATACATAAGTGAA
1 TTGTATCGATACATTA-TTAA
*
1030123 -TGTATCGATACATTGCTTAAA
1 TTGTATCGATACATT-ATT-AA
*
1030144 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTAA
1030164 TTGTATCGATACATT
1 TTGTATCGATACATT
1030179 CTGGGTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
20 30 0.62
21 4 0.08
22 14 0.29
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATTATTAA
Found at i:1044928 original size:13 final size:13
Alignment explanation
Indices: 1044910--1044935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1044900 TACACCAAGT
1044910 ATGTATCGATACA
1 ATGTATCGATACA
1044923 ATGTATCGATACA
1 ATGTATCGATACA
1044936 CCAAAAAATT
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:1044954 original size:34 final size:32
Alignment explanation
Indices: 1044892--1044956 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1044882 TAGCCAAACT
**
1044892 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1044924 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1044957 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1045019 original size:20 final size:20
Alignment explanation
Indices: 1044991--1045028 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1044981 CTATATTTTC
1044991 AAATATGTATCGATACATCA
1 AAATATGTATCGATACATCA
*
1045011 AAATTTGTATCGATACAT
1 AAATATGTATCGATACAT
1045029 TTACACGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (20 bp):
AAATATGTATCGATACATCA
Found at i:1046580 original size:12 final size:12
Alignment explanation
Indices: 1046548--1046581 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1046538 AACCATCAAG
*
1046548 GATGAAGAAGAT
1 GATGAAGATGAT
*
1046560 GATGAAGATGTT
1 GATGAAGATGAT
1046572 GATGAAGATG
1 GATGAAGATG
1046582 GTGACTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:1046705 original size:16 final size:17
Alignment explanation
Indices: 1046674--1046706 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1046664 AGTTTTGCTC
*
1046674 AAAGGAGAATAGAGCAA
1 AAAGGACAATAGAGCAA
1046691 AAAGGACAA-AGAGCAA
1 AAAGGACAATAGAGCAA
1046707 GTTATATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.09, G:0.27, T:0.03
Consensus pattern (17 bp):
AAAGGACAATAGAGCAA
Found at i:1047191 original size:22 final size:21
Alignment explanation
Indices: 1047164--1047215 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1047154 TTGCAAGTTG
1047164 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
1047186 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
1047207 AAATAAAAA
1 AAATAAAAA
1047216 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:1049713 original size:20 final size:20
Alignment explanation
Indices: 1049668--1049719 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1049658 GTAGCCAAAC
**
1049668 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
1049688 -TGTATCGATACACCAAAAA
1 TTGTATCGATACACCAAAAA
1049707 TTGTATCGATACA
1 TTGTATCGATACA
1049720 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:1053787 original size:15 final size:15
Alignment explanation
Indices: 1053767--1053797 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1053757 TAAAAATGTC
*
1053767 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1053782 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1053797 C
1 C
1053798 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:1055877 original size:13 final size:13
Alignment explanation
Indices: 1055859--1055883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1055849 GGAAATTCAA
1055859 TGTATCGATACAT
1 TGTATCGATACAT
1055872 TGTATCGATACA
1 TGTATCGATACA
1055884 GGGTGATTAT
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:1056047 original size:20 final size:20
Alignment explanation
Indices: 1056004--1056049 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1055994 AAATCTTTTG
1056004 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1056025 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1056045 CAAAA
1 CAAAA
1056050 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:1058452 original size:13 final size:13
Alignment explanation
Indices: 1058434--1058459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1058424 TACACCAAGT
1058434 ATGTATCGATACA
1 ATGTATCGATACA
1058447 ATGTATCGATACA
1 ATGTATCGATACA
1058460 CCAAAAATTG
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:1058457 original size:32 final size:33
Alignment explanation
Indices: 1058416--1058479 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1058406 GAGCCAAACT
**
1058416 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1058448 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1058480 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1061001 original size:13 final size:13
Alignment explanation
Indices: 1060983--1061020 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1060973 GGAAATTCAA
*
1060983 TGTATCGATACAT
1 TGTATCGATACAC
1060996 TGTATCGATACAC
1 TGTATCGATACAC
1061009 TGTATCGATACA
1 TGTATCGATACA
1061021 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1061184 original size:20 final size:20
Alignment explanation
Indices: 1061141--1061187 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1061131 AAATCTTTTG
1061141 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1061162 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1061182 CAAAAT
1 CAAAAT
1061188 CAACTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1063595 original size:19 final size:19
Alignment explanation
Indices: 1063573--1063627 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
1063563 TAGCCAAACT
1063573 TGTATCGATGCACCAAGTA
1 TGTATCGATGCACCAAGTA
1063592 TGTATCGATGCACCAAGTA
1 TGTATCGATGCACCAAGTA
* *
1063611 TGTATTGATACACCAAG
1 TGTATCGATGCACCAAG
1063628 AAATTGTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (19 bp):
TGTATCGATGCACCAAGTA
Found at i:1063900 original size:19 final size:19
Alignment explanation
Indices: 1063876--1063933 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
1063866 TTTTCAAAGA
1063876 TCAAAGTGTTTTATATTTT
1 TCAAAGTGTTTTATATTTT
* **
1063895 TCAAAGT-TTTCA-A-TGA
1 TCAAAGTGTTTTATATTTT
1063911 TCAAAGTGTTTTATATTTT
1 TCAAAGTGTTTTATATTTT
1063930 TCAA
1 TCAA
1063934 GAGCTTTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 8 0.27
17 5 0.17
18 5 0.17
19 12 0.40
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (19 bp):
TCAAAGTGTTTTATATTTT
Found at i:1063905 original size:35 final size:35
Alignment explanation
Indices: 1063859--1063933 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
1063849 ACATCTAGCA
1063859 TTCAAAGTTTTCAAAGATCAAAGTGTTTTATATTT
1 TTCAAAGTTTTCAAAGATCAAAGTGTTTTATATTT
*
1063894 TTCAAAGTTTTCAATGATCAAAGTGTTTTATATTT
1 TTCAAAGTTTTCAAAGATCAAAGTGTTTTATATTT
1063929 TTCAA
1 TTCAA
1063934 GAGCTTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (35 bp):
TTCAAAGTTTTCAAAGATCAAAGTGTTTTATATTT
Found at i:1063916 original size:16 final size:16
Alignment explanation
Indices: 1063860--1063917 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1063850 CATCTAGCAT
*
1063860 TCAAAGTTTTCAAAGA
1 TCAAAGTTTTCAATGA
* **
1063876 TCAAAGTGTTTTATATTTT
1 TCAAAGT-TTTCA-A-TGA
1063895 TCAAAGTTTTCAATGA
1 TCAAAGTTTTCAATGA
1063911 TCAAAGT
1 TCAAAGT
1063918 GTTTTATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 15 0.47
17 5 0.16
18 5 0.16
19 7 0.22
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (16 bp):
TCAAAGTTTTCAATGA
Found at i:1065469 original size:43 final size:44
Alignment explanation
Indices: 1065407--1065605 Score: 234
Period size: 43 Copynumber: 4.7 Consensus size: 44
1065397 GATACACTTC
*
1065407 TTTTCCCTTTGTCCTCAAGGAGCAGGATGCATTCT-TTTTTTCT
1 TTTTTCCTTTGTCCTCAAGGAGCAGGATGCATTCTCTTTTTTCT
*
1065450 TTTTTCCTTTGTCCACAAGGAGCAGGATGCATTCT-TTTTTTC-
1 TTTTTCCTTTGTCCTCAAGGAGCAGGATGCATTCTCTTTTTTCT
* * *
1065492 --TTTCCTTTGTCCTTAAGGAGCAAGA--CATATTTCTTTTTTCT
1 TTTTTCCTTTGTCCTCAAGGAGCAGGATGCAT-TCTCTTTTTTCT
* * *
1065533 TTTTTCCTTTGTCCTCAAAGAGTAGGACGCATT-TCTTTTTTCT
1 TTTTTCCTTTGTCCTCAAGGAGCAGGATGCATTCTCTTTTTTCT
* * *
1065576 TTCTTCCTTTGTCCTCAAAGAGTAGGATGC
1 TTTTTCCTTTGTCCTCAAGGAGCAGGATGC
1065606 CCACTCCTTT
Statistics
Matches: 137, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.02
39 2 0.01
40 29 0.21
43 99 0.72
44 1 0.01
45 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.46
Consensus pattern (44 bp):
TTTTTCCTTTGTCCTCAAGGAGCAGGATGCATTCTCTTTTTTCT
Found at i:1065529 original size:83 final size:85
Alignment explanation
Indices: 1065412--1065593 Score: 237
Period size: 83 Copynumber: 2.2 Consensus size: 85
1065402 ACTTCTTTTC
* *
1065412 CCTTTGTCCTCAAGGAGCAGGATGCATTCTTTTTTTCTTTTTTCCTTTGTCCACAAGGAGCAGGA
1 CCTTTGTCCTCAAGGAGCAAGA-GCATTCTTTTTTTCTTTTTTCCTTTGTCCACAAAGAGCAGGA
*
1065477 TGCA-TTCTTTTTT-TCT-TT
65 CGCATTTCTTTTTTCTCTCTT
* * * *
1065495 CCTTTGTCCTTAAGGAGCAAGA-CATATTTCTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGTAGG
1 CCTTTGTCCTCAAGGAGCAAGAGCAT-TCT-TTTTTTCTTTTTTCCTTTGTCCACAAAGAGCAGG
*
1065559 ACGCATTTCTTTTTTCTTTCTT
64 ACGCATTTCTTTTTTCTCTCTT
1065581 CCTTTGTCCTCAA
1 CCTTTGTCCTCAA
1065594 AGAGTAGGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
81 3 0.04
82 2 0.02
83 55 0.65
84 9 0.11
85 2 0.02
86 14 0.16
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (85 bp):
CCTTTGTCCTCAAGGAGCAAGAGCATTCTTTTTTTCTTTTTTCCTTTGTCCACAAAGAGCAGGAC
GCATTTCTTTTTTCTCTCTT
Found at i:1065792 original size:31 final size:31
Alignment explanation
Indices: 1065714--1065792 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
1065704 GCCTTAGAAT
* * * *
1065714 GTCAAAGCCCACACGACTAGGTGGCACCCTA
1 GTCAAAGCCCACACAAGTAGGCGGCACCCAA
* *
1065745 GTCAAAGCCCACACAAGTTGGCGGCACTCAA
1 GTCAAAGCCCACACAAGTAGGCGGCACCCAA
1065776 GTCAAAGCCCACACAAG
1 GTCAAAGCCCACACAAG
1065793 CTGGTGGTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.11
Consensus pattern (31 bp):
GTCAAAGCCCACACAAGTAGGCGGCACCCAA
Found at i:1065873 original size:68 final size:68
Alignment explanation
Indices: 1065744--1065873 Score: 152
Period size: 68 Copynumber: 1.9 Consensus size: 68
1065734 GTGGCACCCT
* * * * * *
1065744 AGTCAAAGCCCACACAAGTTGGCGGCACTCAAGTCAAAGCCCACACAAGCTGGTGGTACCTATGT
1 AGTCAAAGCCCACACAAGCTAGCGGCACCCAAGTCAAAGCCCACACAAGCTAGTAGCACCTATGT
1065809 CTG
66 CTG
* * * ** *
1065812 AGTCAAAGCCCACACAAGCTAGCGGTACCCAAGTCTAAGCCTACATGAGTTAGTAGCACCTA
1 AGTCAAAGCCCACACAAGCTAGCGGCACCCAAGTCAAAGCCCACACAAGCTAGTAGCACCTA
1065874 AGACAAAGCC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.18
Consensus pattern (68 bp):
AGTCAAAGCCCACACAAGCTAGCGGCACCCAAGTCAAAGCCCACACAAGCTAGTAGCACCTATGT
CTG
Found at i:1066015 original size:31 final size:31
Alignment explanation
Indices: 1065962--1066119 Score: 145
Period size: 31 Copynumber: 4.9 Consensus size: 31
1065952 GCCTTAGAAT
* * *
1065962 GTCAAACCCCACACGAGTTGGTGGCACCCTA
1 GTCAAAGCCCACACAAGCTGGTGGCACCCTA
* *
1065993 GTCAAAGCCCGCACAAGCTGGTGGCACCCAA
1 GTCAAAGCCCACACAAGCTGGTGGCACCCTA
*
1066024 GTCAAAGCCCACATAAGCTGGTGGCACCTAAGTCTAA
1 GTCAAAGCCCACACAAGCTGGTGGCACC-----CT-A
** * * *
1066061 GTCAAAGCCTGCATAAGCTGGTGACACCCGA
1 GTCAAAGCCCACACAAGCTGGTGGCACCCTA
* *
1066092 GTCAAAACCCACACAAGTTGGTGGCACC
1 GTCAAAGCCCACACAAGCTGGTGGCACC
1066120 TAAGCTTGAG
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
31 75 0.73
32 1 0.01
36 1 0.01
37 26 0.25
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (31 bp):
GTCAAAGCCCACACAAGCTGGTGGCACCCTA
Found at i:1066121 original size:248 final size:248
Alignment explanation
Indices: 1065642--1066123 Score: 678
Period size: 248 Copynumber: 1.9 Consensus size: 248
1065632 AGCCCACATG
* * *
1065642 AGCTGGTGGCACCTAAGTTCGAGTCAAGTCCAAATTAGTTGGCACCTATCTGAAGAGGTCAAGCC
1 AGCTGGTGGAACCTAAGTTCGAGTCAAGTCCAAAATAGTTGGCACCTATCTGAAGAGCTCAAGCC
* *
1065707 TTAGAATGTCAAAGCCCACACGACTAGGTGGCACCCTAGTCAAAGCCCACACAAGTTGGCGGCAC
66 TTAGAATGTCAAACCCCACACGACTAGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGCGGCAC
* * * * *
1065772 TCAAGTCAAAGCCCACACAAGCTGGTGGTACCTATGTCTGAGTCAAAGCCCACACAAGCTAGCGG
131 CCAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCTAAGTCAAAGCCCACACAAGCTAGCGA
* * * * **
1065837 TACCCAAGTCTAAGCCTACATGAGTTAGTAGCACCTAAGACAAAGCCTATACA
196 CACCCAAGTCAAAACCCACACAAGTTAGTAGCACCTAAGACAAAGCCTATACA
*
1065890 AGCTGGTGGAACCTAAGTTCGATTCAAGTCCAAAATAGTTGGCACCTATCT-AAGAAGCTCAAGC
1 AGCTGGTGGAACCTAAGTTCGAGTCAAGTCCAAAATAGTTGGCACCTATCTGAAG-AGCTCAAGC
* * * *
1065954 CTTAGAATGTCAAACCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACAAGCTGGTGGCA
65 CTTAGAATGTCAAACCCCACACGACTAGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGCGGCA
* ** * * *
1066019 CCCAAGTCAAAGCCCACATAAGCTGGTGGCACCTAAGTCTAAGTCAAAGCCTGCATAAGCTGGTG
130 CCCAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCTAAGTCAAAGCCCACACAAGCTAGCG
* * *
1066084 ACACCCGAGTCAAAACCCACACAAGTTGGTGGCACCTAAG
195 ACACCCAAGTCAAAACCCACACAAGTTAGTAGCACCTAAG
1066124 CTTGAGTCAA
Statistics
Matches: 203, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
247 3 0.01
248 200 0.99
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (248 bp):
AGCTGGTGGAACCTAAGTTCGAGTCAAGTCCAAAATAGTTGGCACCTATCTGAAGAGCTCAAGCC
TTAGAATGTCAAACCCCACACGACTAGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGCGGCAC
CCAAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTCTAAGTCAAAGCCCACACAAGCTAGCGA
CACCCAAGTCAAAACCCACACAAGTTAGTAGCACCTAAGACAAAGCCTATACA
Found at i:1066132 original size:68 final size:67
Alignment explanation
Indices: 1065962--1066133 Score: 201
Period size: 68 Copynumber: 2.6 Consensus size: 67
1065952 GCCTTAGAAT
* * *
1065962 GTCAAACCCCACACGAGTTGGTGGCACC----C-TAGTCAAAGCCCGCACAAGCTGGTGGCACCC
1 GTCAAAACCCACACAAGTTGGTGGCACCTAAGCTTAGTCAAAGCCCGCACAAGCTGGTGACACCC
1066022 AA
66 AA
* * * * * *
1066024 GTCAAAGCCCACATAAGCTGGTGGCACCTAAGTCTAAGTCAAAGCCTGCATAAGCTGGTGACACC
1 GTCAAAACCCACACAAGTTGGTGGCACCTAAG-CTTAGTCAAAGCCCGCACAAGCTGGTGACACC
*
1066089 CGA
65 CAA
1066092 GTCAAAACCCACACAAGTTGGTGGCACCTAAGCTTGAGTCAA
1 GTCAAAACCCACACAAGTTGGTGGCACCTAAGCTT-AGTCAA
1066134 GTCCAAATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
62 24 0.27
67 3 0.03
68 63 0.70
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.16
Consensus pattern (67 bp):
GTCAAAACCCACACAAGTTGGTGGCACCTAAGCTTAGTCAAAGCCCGCACAAGCTGGTGACACCC
AA
Found at i:1069732 original size:22 final size:21
Alignment explanation
Indices: 1069692--1069732 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1069682 CATTTTTACA
*
1069692 AAGAAAACATGATTAACATGC
1 AAGAAAACATGAGTAACATGC
*
1069713 AAGAAAACAATGAGTGACAT
1 AAGAAAAC-ATGAGTAACAT
1069733 TCATGGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (21 bp):
AAGAAAACATGAGTAACATGC
Done.