Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold256
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: 1244454
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 5 of 8
Found at i:721849 original size:19 final size:19
Alignment explanation
Indices: 721821--721883 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
721811 AGCGATACAT
*
721821 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
721840 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
721853 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
721872 TGTATCGATACA
1 TGTATCGATACA
721884 GTTACTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 8 0.23
14 1 0.03
16 6 0.17
18 1 0.03
19 19 0.54
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:721854 original size:32 final size:32
Alignment explanation
Indices: 721808--721883 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
721798 GCAGTAGCTT
* **
721808 TGTAGCGATACATTGTATTGATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
721840 TGTATCGATACATTGTATCAATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
721872 TGTATCGATACA
1 TGTATCGATACA
721884 GTTACTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCAATACAACACTTA
Found at i:727332 original size:32 final size:33
Alignment explanation
Indices: 727290--727353 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
727280 CAAATAAGTG
*
727290 TGTATCGATACTAA-TAACATGTATCGATACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
* *
727322 TGTATTGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
727354 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:730287 original size:13 final size:13
Alignment explanation
Indices: 730269--730294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
730259 CAATTTTTTG
730269 TGTATCGATACAT
1 TGTATCGATACAT
730282 TGTATCGATACAT
1 TGTATCGATACAT
730295 ACTTTGTGTA
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:730311 original size:32 final size:33
Alignment explanation
Indices: 730249--730312 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
730239 TACAAGCCAA
**
730249 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
*
730282 TGTATCGATAC-ATACTTTGTGTATTGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
730313 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:732399 original size:21 final size:20
Alignment explanation
Indices: 732370--732412 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
732360 GACTAGTGTG
*
732370 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTTGCGACCT
*
732391 GGGAGTGCCGGTTGCGACCT
1 GGGACTGCCGGTTGCGACCT
732411 GG
1 GG
732413 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTTGCGACCT
Found at i:732789 original size:13 final size:13
Alignment explanation
Indices: 732771--732808 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
732761 ATAATCCCCC
*
732771 TGTATCGATATAG
1 TGTATCGATACAG
*
732784 TGTATCGATACAT
1 TGTATCGATACAG
732797 TGTATCGATACA
1 TGTATCGATACA
732809 AAGAAAAATG
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:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:734902 original size:15 final size:15
Alignment explanation
Indices: 734882--734912 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
734872 ATTTCGTCTA
*
734882 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
734897 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
734912 G
1 G
734913 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:738979 original size:13 final size:13
Alignment explanation
Indices: 738961--738986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
738951 CAATTTTTTG
738961 TGTATCGATACAT
1 TGTATCGATACAT
738974 TGTATCGATACAT
1 TGTATCGATACAT
738987 ACTTTGTGTA
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:738998 original size:32 final size:33
Alignment explanation
Indices: 738941--739004 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
738931 TACAAGCCAA
**
738941 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
738974 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
739005 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:739501 original size:16 final size:16
Alignment explanation
Indices: 739480--739510 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
739470 AGTTTGTGGG
739480 TGCAAATGCACATGAA
1 TGCAAATGCACATGAA
*
739496 TGCAAATGCATATGA
1 TGCAAATGCACATGA
739511 GTGTGAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (16 bp):
TGCAAATGCACATGAA
Found at i:740136 original size:20 final size:20
Alignment explanation
Indices: 740111--740185 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
740101 TTTTACCCAG
740111 ATGTATCGATACATTTCTTA
1 ATGTATCGATACATTTCTTA
* *
740131 ATGTATCGATACATGTAC-GA
1 ATGTATCGATACAT-TTCTTA
*
740151 ATGTATTGATACATTT-TTCA
1 ATGTATCGATACATTTCTT-A
*
740171 ATGCATCGATACATT
1 ATGTATCGATACATT
740186 CTGCTCTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.02
20 42 0.93
21 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTCTTA
Found at i:748641 original size:30 final size:30
Alignment explanation
Indices: 748585--748641 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
748575 GTAATGTAAC
* **
748585 CTTTTCAAAGTCCACGATTTAGTGGCATTT
1 CTTTTCAAAGTCCACAATCCAGTGGCATTT
748615 CTTTTCAAAGTCCACAACTCCA-TGGCA
1 CTTTTCAAAGTCCACAA-TCCAGTGGCA
748642 ACATTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTTCAAAGTCCACAATCCAGTGGCATTT
Found at i:748793 original size:66 final size:66
Alignment explanation
Indices: 748622--748930 Score: 322
Period size: 66 Copynumber: 4.7 Consensus size: 66
748612 TTTCTTTTCA
* * * * ** *
748622 AAGTCCACAACTCCATGGCAACATTTTTCTGTTAAAGTCCATAACTCCATGGTAACCTTTTTCTG
1 AAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCACAACTCCATGG-CACC-TTCCCTT
*
748687 TTA
64 TTT
** * ** * * * *
748690 AAGTCCACAACTCCGTGAC-ACC-TTCCCTTTTTAAGTCCACAATTCTATGGCACCTTCCCTTTT
1 AAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTT
748753 T
66 T
* * *
748754 AAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCATAACT-TAGTGGCACCTTCCTTTT
1 AAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCACAACTCCA-TGGCACCTTCCCTTT
748818 TT
65 TT
* * *
748820 AAGTCCACAACTCTGTGGCAACCTTTTTCTATTAAAGTTCACAACTCCATGGCACCTTCCCTTTT
1 AAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTT
748885 T
66 T
* *
748886 AAGTCCACAATTCTATGGCAA-CTTTTTCCT-TTTAAGTCCACAACT
1 AAGTCCACAACTCTATGGCAACCTTTTT-CTGTTAAAGTCCACAACT
748931 TCGTGGCAAC
Statistics
Matches: 201, Mismatches: 35, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
64 22 0.11
65 27 0.13
66 132 0.66
67 3 0.01
68 17 0.08
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (66 bp):
AAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTT
T
Found at i:748927 original size:99 final size:100
Alignment explanation
Indices: 748612--749043 Score: 325
Period size: 99 Copynumber: 4.3 Consensus size: 100
748602 TTTAGTGGCA
* * * * *
748612 TTTCTTTTCAAAGTCCACAACTC-CATGGCAACATTTTTCTGTTAAAGTCCATAACTCCATGGTA
1 TTTCTTTT--AAGTCCACAACTCTCGTGGCAACCTTTTTCTATTAAAGTCCACAACTCCATGG-C
** * * * ** *
748676 ACCTTTTTCTGTTAAAGTCCACAACTCCGTGAC-ACC-T
63 ACC-TTCCCTTTTTAAGTCCACAAATCTATGGCAACCTT
** * * ** * * *
748713 TCCCTTTTTAAGTCCACAATTCT-ATGGC-ACC-TTCCCTTTTTAAGTCCACAACTCTATGGCAA
1 TTTC-TTTTAAGTCCACAACTCTCGTGGCAACCTTTTTCTATTAAAGTCCACAACTCCATGGC-A
** * * * *
748775 CCTTTTTCTGTTAAAGTCCATAACT-TAGTGGC-ACCTT
64 CC-TTCCCTTTTTAAGTCCACAAATCTA-TGGCAACCTT
* *
748812 CCTT-TTTTAAGTCCACAACTCT-GTGGCAACCTTTTTCTATTAAAGTTCACAACTCCATGGCAC
1 -TTTCTTTTAAGTCCACAACTCTCGTGGCAACCTTTTTCTATTAAAGTCCACAACTCCATGGCAC
*
748875 CTTCCCTTTTTAAGTCCACAATTCTATGGCAA-CTT
65 CTTCCCTTTTTAAGTCCACAAATCTATGGCAACCTT
* * *
748910 TTTCCTTTTAAGTCCACAACT-TCGTGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGGCAC
1 TTT-CTTTTAAGTCCACAACTCTCGTGGCAACCTTTTTCTATTAAAGTCCACAACTCCATGGCAC
* *
748974 CTTCCCTTTTTAAGTCTACAAATCTGTGGCAACCTT
65 CTTCCCTTTTTAAGTCCACAAATCTATGGCAACCTT
* *
749010 TTTCTGTTAAAGTCCACAACTC-CATGGC-ACCTTT
1 TTTCT-TTTAAGTCCACAACTCTCGTGGCAACCTTT
749044 CTTTTTTAAG
Statistics
Matches: 273, Mismatches: 42, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
97 2 0.01
98 98 0.36
99 102 0.37
100 65 0.24
101 2 0.01
102 4 0.01
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (100 bp):
TTTCTTTTAAGTCCACAACTCTCGTGGCAACCTTTTTCTATTAAAGTCCACAACTCCATGGCACC
TTCCCTTTTTAAGTCCACAAATCTATGGCAACCTT
Found at i:749002 original size:165 final size:165
Alignment explanation
Indices: 748675--749141 Score: 599
Period size: 165 Copynumber: 2.8 Consensus size: 165
748665 ACTCCATGGT
* *
748675 AACCTTTTTCTGTTAAAGTCCACAACTCCGTGACACCTTCCCTTTTTAAGTCCACAATTCTATGG
1 AACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAATTCTATGG
* * * *
748740 C-AC-CTTCCCTTTTTAAGTCCACAAC-TCTATGGCAACCTTTTTCTGTTAAAGTCCATAACT-T
66 CAACTTTTTCC-TTTTAAGTCCACAACTTC-ATGGCAACCTTTTTTTGTTAAAGTCCATAACTCC
* *
748801 AGTGGCACCTTCCTTTTTTAAGTCCACAACTCTGTGGC
129 A-TGGCACCTTCCCTTTTTAAGTCCACAAATCTGTGGC
* *
748839 AACCTTTTTCTATTAAAGTTCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAATTCTATGG
1 AACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAATTCTATGG
*
748904 CAACTTTTTCCTTTTAAGTCCACAACTTCGTGGCAACCTTTTTTTGTTAAAGTCCATAACTCCAT
66 CAACTTTTTCCTTTTAAGTCCACAACTTCATGGCAACCTTTTTTTGTTAAAGTCCATAACTCCAT
*
748969 GGCACCTTCCCTTTTTAAGTCTACAAATCTGTGGC
131 GGCACCTTCCCTTTTTAAGTCCACAAATCTGTGGC
* * ** * *
749004 AACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTTCTTTTTTAAGTCCATGACTCTGTGG
1 AACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAATTCTATGG
* * *** *
749069 CAACCTTTTT-CTGTTAAAGTCCATAACTTCATGG-AACCTCCCCTTT-TT-AAGTCCACAACTC
66 CAA-CTTTTTCCT-TTTAAGTCCACAACTTCATGGCAACCT-TTTTTTGTTAAAGTCCATAACTC
749130 CATGGCAACCTT
128 CATGGC-ACCTT
749142 TTTCTGTTAA
Statistics
Matches: 268, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
164 80 0.30
165 154 0.57
166 34 0.13
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.36
Consensus pattern (165 bp):
AACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAATTCTATGG
CAACTTTTTCCTTTTAAGTCCACAACTTCATGGCAACCTTTTTTTGTTAAAGTCCATAACTCCAT
GGCACCTTCCCTTTTTAAGTCCACAAATCTGTGGC
Found at i:749003 original size:66 final size:66
Alignment explanation
Indices: 748656--749155 Score: 365
Period size: 66 Copynumber: 7.6 Consensus size: 66
748646 TTTTCTGTTA
* ** * * * *
748656 AAGTCCATAACTCCATGGTAACCTTTTTCTGTTAAAGTCCACAACTCCGTGACACCTTCCCTTTT
1 AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTTT
748721 T
66 T
* * ** * * * * ** *
748722 AAGTCCACAATTCTATGGC-ACC-TTCCCTTTTTAAGTCCACAACTCTATGGCAACCTTTTTCTG
1 AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGC-ACC-TTCCCTT
*
748785 TTA
64 TTT
* * ** **
748788 AAGTCCATAACT-TAGTGGC-ACCTTCCTTT-T-TT-AAGTCCACAACTCTGTGGCAACCTTTTT
1 AAGTCCACAACTCT-GTGGCAACCTT--TTTCTGTTAAAGTCCATAACTCCATGGC-ACC-TTCC
* *
748848 CTATTA
61 CTTTTT
* ** ** * * * * * * *
748854 AAGTTCACAACTCCATGGC-ACC-TTCCCTTTTTAAGTCCACAATTCTATGGCAACTTTTTCC-T
1 AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGC-AC-CTTCCCTT
748916 TTT
64 TTT
*
748919 AAGTCCACAACT-TCGTGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTT
1 AAGTCCACAACTCT-GTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTT
748983 TT
65 TT
* * * * *
748985 AAGTCTACAAATCTGTGGCAACCTTTTTCTGTTAAAGTCCACAACTCCATGGCACCTTTCTTTTT
1 AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTTT
749050 T
66 T
** * * *
749051 AAGTCCATGACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTTCATGGAACCTCCCCTTTT
1 AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTTT
749116 T
66 T
**
749117 AAGTCCACAACTCCATGGCAACCTTTTTCTGTTAAAGTC
1 AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTC
749156 AGTGGCATCC
Statistics
Matches: 351, Mismatches: 67, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
63 1 0.00
64 23 0.07
65 31 0.09
66 269 0.77
67 25 0.07
68 1 0.00
69 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (66 bp):
AAGTCCACAACTCTGTGGCAACCTTTTTCTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTTT
T
Found at i:749075 original size:99 final size:99
Alignment explanation
Indices: 748612--749155 Score: 337
Period size: 98 Copynumber: 5.5 Consensus size: 99
748602 TTTAGTGGCA
* * * *
748612 TTTCTTTTCAAAGTCCACAACTCCATGGCAACATTTTTCTGTTAAAGTCCATAACTCCATGGTAA
1 TTTCCTTT-AAAGTCCACAACTCCATGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGG-CA
** * * * ** * *
748677 CCTTTTTCTGTTAAAGTCCACAACTCCGTGAC-AC-C
64 CC-TTCCCTTTTTAAGTCCACAAATCTATGGCAACTT
* * * * ** * *
748712 TTCCCTTTTTAAGTCCACAATTCTATGGC-ACCTTCCCTTT-TT-AAGTCCACAACTCTATGGCA
1 TTTCC-TTTAAAGTCCACAACTCCATGGCAACCTT-TTTTTGTTAAAGTCCATAACTCCATGGC-
** * * * * *
748774 ACCTTTTTCTGTTAAAGTCCATAACT-TAGTGGCACCTT
63 ACC-TTCCCTTTTTAAGTCCACAAATCTA-TGGCAACTT
** * * * *
748812 CCTTT--TTT-AAGTCCACAACTCTGTGGCAACCTTTTTCTATTAAAGTTCACAACTCCATGGCA
1 --TTTCCTTTAAAGTCCACAACTCCATGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGGCA
*
748874 CCTTCCCTTTTTAAGTCCACAATTCTATGGCAACTT
64 CCTTCCCTTTTTAAGTCCACAAATCTATGGCAACTT
* * *
748910 TTTCCTTTTAAGTCCACAACTTCGTGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGGCACC
1 TTTCCTTTAAAGTCCACAACTCCATGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGGCACC
* *
748975 TTCCCTTTTTAAGTCTACAAATCTGTGGCAACCTT
66 TTCCCTTTTTAAGTCCACAAATCTATGGCAA-CTT
* **
749010 TTT-CTGTTAAAGTCCACAACTCCATGGC-ACCTTTCTTTT-TT-AAGTCCATGACTCTGTGGCA
1 TTTCCT-TTAAAGTCCACAACTCCATGGCAACCTTT-TTTTGTTAAAGTCCATAACTCCATGGC-
** * * * * *
749071 ACCTTTTTCTGTTAAAGTCCATAACT-TCATGG-AAC-C
63 ACC-TTCCCTTTTTAAGTCCACAAATCT-ATGGCAACTT
** * *
749107 TCCCCTTTTTAAGTCCACAACTCCATGGCAACCTTTTTCTGTTAAAGTC
1 TTTCC-TTTAAAGTCCACAACTCCATGGCAACCTTTTTTTGTTAAAGTC
749156 AGTGGCATCC
Statistics
Matches: 357, Mismatches: 61, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
96 3 0.01
97 1 0.00
98 132 0.37
99 125 0.35
100 91 0.25
101 3 0.01
102 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (99 bp):
TTTCCTTTAAAGTCCACAACTCCATGGCAACCTTTTTTTGTTAAAGTCCATAACTCCATGGCACC
TTCCCTTTTTAAGTCCACAAATCTATGGCAACTT
Found at i:749125 original size:231 final size:232
Alignment explanation
Indices: 748656--749145 Score: 677
Period size: 231 Copynumber: 2.1 Consensus size: 232
748646 TTTTCTGTTA
* * * * * **
748656 AAGTCCATAACTCCATGGTAACCTTTTT-CTGTTAAAGTCCACAACTCCGTGAC-ACCTTCCCTT
1 AAGTCCACAACTCCATGGCAACCTTTTTCCT-TTTAAGTCCACAACTTCGTGGCAACCTT-TTTT
* * *
748719 T-TT-AAGTCCACAATTCTATGGCACCTTCCCTTTTTAAGTCCACAACTCTATGGCAACCTTTTT
64 TGTTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAAATCTATGGCAACCTTTTT
* *
748782 CTGTTAAAGTCCATAACTTAGTGGCACCTTCCTTTTTTAAGTCCACAACTCTGTGGCAACCTTTT
129 CTGTTAAAGTCCACAACTCAGTGGCACCTTCCTTTTTTAAGTCCACAACTCTGTGGCAACCTTTT
* * *
748847 TCTATTAAAGTTCACAACTCCATGGCACCTTCCCTTTTT
194 TCTATTAAAGTCCACAACTCCATGGAACCTCCCCTTTTT
* *
748886 AAGTCCACAATTCTATGGCAA-CTTTTTCCTTTTAAGTCCACAACTTCGTGGCAACCTTTTTTTG
1 AAGTCCACAACTCCATGGCAACCTTTTTCCTTTTAAGTCCACAACTTCGTGGCAACCTTTTTTTG
* * *
748950 TTAAAGTCCATAACTCCATGGCACCTTCCCTTTTTAAGTCTACAAATCTGTGGCAACCTTTTTCT
66 TTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAAATCTATGGCAACCTTTTTCT
* **
749015 GTTAAAGTCCACAACTCCA-TGGCACCTTTCTTTTTTAAGTCCATGACTCTGTGGCAACCTTTTT
131 GTTAAAGTCCACAACT-CAGTGGCACCTTCCTTTTTTAAGTCCACAACTCTGTGGCAACCTTTTT
* * *
749079 CTGTTAAAGTCCATAACTTCATGGAACCTCCCCTTTTT
195 CTATTAAAGTCCACAACTCCATGGAACCTCCCCTTTTT
749117 AAGTCCACAACTCCATGGCAACCTTTTTC
1 AAGTCCACAACTCCATGGCAACCTTTTTC
749146 TGTTAAAGTC
Statistics
Matches: 226, Mismatches: 28, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
229 28 0.12
230 26 0.12
231 164 0.73
232 8 0.04
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.36
Consensus pattern (232 bp):
AAGTCCACAACTCCATGGCAACCTTTTTCCTTTTAAGTCCACAACTTCGTGGCAACCTTTTTTTG
TTAAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAGTCCACAAATCTATGGCAACCTTTTTCT
GTTAAAGTCCACAACTCAGTGGCACCTTCCTTTTTTAAGTCCACAACTCTGTGGCAACCTTTTTC
TATTAAAGTCCACAACTCCATGGAACCTCCCCTTTTT
Found at i:749152 original size:132 final size:132
Alignment explanation
Indices: 748612--749155 Score: 527
Period size: 132 Copynumber: 4.1 Consensus size: 132
748602 TTTAGTGGCA
* * *
748612 TTTCTTTTCAAAGTCCACAACTCCATGGCAACATTTTTCTGTTAAAGTCCATAACTCCA-TGGTA
1 TTTCTTTT-AAAGTCCACAACTCCATGGCAACCTTTTTCTGTTAAAGTCCATAACT-TAGTGGCA
* * *
748676 ACCTTTTTCTGTTAAAGTCCACAACTCCGT-GACACCTTCCCTTTTTAAGTCCACAATTCTATGG
64 ACCTTTTTCTGTTAAAGTCCACAACTCCATGGA-ACCTTCCCTTTTTAAGTCCACAACTCCATGG
748740 CACCT
128 CACCT
** * *
748745 TCCCTTTTTAAGTCCACAACTCTATGGCAACCTTTTTCTGTTAAAGTCCATAACTTAGTGGC-AC
1 TTTCTTTTAAAGTCCACAACTCCATGGCAACCTTTTTCTGTTAAAGTCCATAACTTAGTGGCAAC
** ** * * *
748809 CTTCCTTT-T-TT-AAGTCCACAACTCTGTGGCAACCTTTTTCTATTAAAGTTCACAACTCCATG
66 CTT--TTTCTGTTAAAGTCCACAACTCCATGG-AACC-TTCCCTTTTTAAGTCCACAACTCCATG
748871 GCACCT
127 GCACCT
** * * * * * *
748877 TCCCTTTTTAAGTCCACAATTCTATGGCAA-CTTTTTCCT-TTTAAGTCCACAACTTCGTGGCAA
1 TTTCTTTTAAAGTCCACAACTCCATGGCAACCTTTTT-CTGTTAAAGTCCATAACTTAGTGGCAA
* * * * * **
748940 CCTTTTTTTGTTAAAGTCCATAACTCCATGGCACCTTCCCTTTTTAAGTCTACAAATCTGTGGCA
65 CCTTTTTCTGTTAAAGTCCACAACTCCATGGAACCTTCCCTTTTTAAGTCCACAACTCCATGGC-
749005 ACCTT
129 ACC-T
* * *
749010 TTTCTGTTAAAGTCCACAACTCCATGGC-ACCTTTCTT-T-TTTAAGTCCATGACTCT-GTGGCA
1 TTTCTTTTAAAGTCCACAACTCCATGGCAACCTTT-TTCTGTTAAAGTCCATAACT-TAGTGGCA
* * *
749071 ACCTTTTTCTGTTAAAGTCCATAACTTCATGGAACCTCCCCTTTTTAAGTCCACAACTCCATGGC
64 ACCTTTTTCTGTTAAAGTCCACAACTCCATGGAACCTTCCCTTTTTAAGTCCACAACTCCATGGC
749136 AACCTT
129 -ACC-T
*
749142 TTTCTGTTAAAGTC
1 TTTCTTTTAAAGTC
749156 AGTGGCATCC
Statistics
Matches: 347, Mismatches: 48, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
130 18 0.05
131 58 0.17
132 217 0.63
133 52 0.15
134 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (132 bp):
TTTCTTTTAAAGTCCACAACTCCATGGCAACCTTTTTCTGTTAAAGTCCATAACTTAGTGGCAAC
CTTTTTCTGTTAAAGTCCACAACTCCATGGAACCTTCCCTTTTTAAGTCCACAACTCCATGGCAC
CT
Found at i:749189 original size:28 final size:28
Alignment explanation
Indices: 749150--749233 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
749140 TTTTTCTGTT
* *
749150 AAAGTCAGTGGCATCCTTTCAAAGTCCA
1 AAAGTCAGTGGCATCCTTTTAAAGCCCA
* *
749178 AAAGTCAATGGCATCTTTTTAAAGCCCA
1 AAAGTCAGTGGCATCCTTTTAAAGCCCA
* * *
749206 TAAGTTAGTGTCATCCTTTTAAAGCCCA
1 AAAGTCAGTGGCATCCTTTTAAAGCCCA
749234 CACAAATCGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (28 bp):
AAAGTCAGTGGCATCCTTTTAAAGCCCA
Found at i:749360 original size:34 final size:33
Alignment explanation
Indices: 749223--749377 Score: 160
Period size: 32 Copynumber: 4.8 Consensus size: 33
749213 GTGTCATCCT
*
749223 TTTAAAGCCCACACAA-ATCGGTGGC-A-C-CCC
1 TTTAAAGCCCACACAAGCT-GGTGGCAACCTCCC
**
749253 TTCTAAAGCCCACACAAGCTGGTGGCAACCT-TT
1 TT-TAAAGCCCACACAAGCTGGTGGCAACCTCCC
** **
749286 TTTAAAGCCCACACAAATTGGTGGC-ACCTTGC
1 TTTAAAGCCCACACAAGCTGGTGGCAACCTCCC
*
749318 TTTAAAGCCCACACAAGCTAGTGGCAACCTCCCC
1 TTTAAAGCCCACACAAGCTGGTGGCAACCT-CCC
*
749352 TTTAAAGCCCACACAAGTTGGTGGCA
1 TTTAAAGCCCACACAAGCTGGTGGCA
749378 TCTGCTTCTC
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
30 2 0.02
31 24 0.23
32 45 0.44
33 7 0.07
34 25 0.24
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (33 bp):
TTTAAAGCCCACACAAGCTGGTGGCAACCTCCC
Found at i:750744 original size:19 final size:19
Alignment explanation
Indices: 750701--750792 Score: 123
Period size: 19 Copynumber: 4.7 Consensus size: 19
750691 AACCCTTGAA
*
750701 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
750721 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
750740 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
750759 TGTATCGATACATGGGCAAT
1 TGTATCGATACATGTTC-AT
750779 TGTATCGATACATG
1 TGTATCGATACATG
750793 AAATTGGCAG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 36 0.54
20 30 0.45
21 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:750781 original size:39 final size:40
Alignment explanation
Indices: 750701--750792 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
750691 AACCCTTGAA
* **
750701 TGTATCGATACAT-TATGCTTTGTATCGATACATGTTCAT
1 TGTATCGATACATGTATGCATTGTATCGATACATGGGCAT
750740 TGTATCGATACATGT-T-CATTGTATCGATACATGGGCAAT
1 TGTATCGATACATGTATGCATTGTATCGATACATGGGC-AT
750779 TGTATCGATACATG
1 TGTATCGATACATG
750793 AAATTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
38 17 0.35
39 30 0.62
40 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (40 bp):
TGTATCGATACATGTATGCATTGTATCGATACATGGGCAT
Found at i:750847 original size:20 final size:20
Alignment explanation
Indices: 750822--750874 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
750812 TACCACTATT
*
750822 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
750842 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
750862 TGTATCGATACAT
1 TGTATCGATACAT
750875 TGCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:755337 original size:20 final size:20
Alignment explanation
Indices: 755292--755343 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
755282 GTAGCCAAAC
**
755292 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
755312 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
755331 TTGTATCGATACA
1 TTGTATCGATACA
755344 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:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:755843 original size:34 final size:35
Alignment explanation
Indices: 755781--755847 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
755771 CTAAGTGATT
755781 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTT-AAAAAGATAGAGA
755817 GAGAGGTTTCTATCTTAGCC-TT-AAAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTAAAAAGATAG
755848 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 9 0.30
36 8 0.27
37 13 0.43
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTAAAAAGATAGAGA
Found at i:760390 original size:13 final size:13
Alignment explanation
Indices: 760372--760397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
760362 TACACAAAGT
760372 ATGTATCGATACA
1 ATGTATCGATACA
760385 ATGTATCGATACA
1 ATGTATCGATACA
760398 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:760395 original size:32 final size:33
Alignment explanation
Indices: 760354--760417 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
760344 TAGCCAAACT
**
760354 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
760386 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
760418 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:760917 original size:34 final size:35
Alignment explanation
Indices: 760855--760921 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
760845 CTAAGTGATT
760855 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTT-AAAAAGATAGAGA
760891 GAGAGGTTTCTATCTTAGCC-TT-AAAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTAAAAAGATAG
760922 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 9 0.30
36 8 0.27
37 13 0.43
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTAAAAAGATAGAGA
Found at i:763289 original size:13 final size:13
Alignment explanation
Indices: 763271--763296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
763261 CAATATTTTG
763271 TGTATCGATACAT
1 TGTATCGATACAT
763284 TGTATCGATACAT
1 TGTATCGATACAT
763297 ACTTTGTGTA
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:763308 original size:32 final size:33
Alignment explanation
Indices: 763251--763314 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
763241 TACAAGCCAA
*
763251 TGTATCGATACAATATTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
763284 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
763315 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:766969 original size:19 final size:20
Alignment explanation
Indices: 766945--766995 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
766935 GCTTTGAATG
**
766945 TATCGATACATGTTC-ATTA
1 TATCGATACATGGACAATTA
* *
766964 TATCGATACGTGGACAATTG
1 TATCGATACATGGACAATTA
766984 TATCGATACATG
1 TATCGATACATG
766996 AAATTAGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
TATCGATACATGGACAATTA
Found at i:767061 original size:13 final size:13
Alignment explanation
Indices: 767040--767070 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
767030 CAATACGTGG
*
767040 TACAATGTATCGA
1 TACATTGTATCGA
767053 TACATTGTATCGA
1 TACATTGTATCGA
767066 TACAT
1 TACAT
767071 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:771070 original size:21 final size:21
Alignment explanation
Indices: 771046--771087 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
771036 ATCACTATTT
771046 TTGTCCAAATGTATCGATACA
1 TTGTCCAAATGTATCGATACA
***
771067 TTGTTTGAATGTATCGATACA
1 TTGTCCAAATGTATCGATACA
771088 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (21 bp):
TTGTCCAAATGTATCGATACA
Found at i:771147 original size:19 final size:19
Alignment explanation
Indices: 771123--771190 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
771113 AATTCAACAA
771123 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
771142 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
771157 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
**
771174 AGTGTATCGATACATAA
1 TTTGTATCGATACATAA
771191 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:0.16, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:771162 original size:13 final size:13
Alignment explanation
Indices: 771144--771168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
771134 ACATAAGTTT
771144 TGTATCGATACAA
1 TGTATCGATACAA
771157 TGTATCGATACA
1 TGTATCGATACA
771169 TAAGTAGTGT
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:771166 original size:32 final size:32
Alignment explanation
Indices: 771125--771187 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
771115 TTCAACAATT
**
771125 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTAGTGTATCGATACAA
771157 TGTATCGATACATAAGTAGTGTATCGATACA
1 TGTATCGATACATAAGTAGTGTATCGATACA
771188 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAGTGTATCGATACAA
Found at i:771248 original size:13 final size:13
Alignment explanation
Indices: 771230--771255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
771220 CATTTTTCTG
771230 TGTATCGATACAT
1 TGTATCGATACAT
771243 TGTATCGATACAT
1 TGTATCGATACAT
771256 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:771267 original size:33 final size:33
Alignment explanation
Indices: 771210--771276 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
771200 GCCAAGGAAA
***
771210 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
* *
771243 TGTATCGATACATGGATCTTTGTATGGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
771276 T
1 T
771277 TGAAAATTTT
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:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:773745 original size:28 final size:27
Alignment explanation
Indices: 773681--773753 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
773671 CTTCACAATC
* **
773681 GGGGATACTCTAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
773708 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
773736 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
773754 GTTTTATCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:773820 original size:52 final size:51
Alignment explanation
Indices: 773736--773906 Score: 166
Period size: 52 Copynumber: 3.3 Consensus size: 51
773726 TTATTTCCGA
** * *
773736 GGGGATACTCCAACCCCGGTTTTATCACTAAAACACTAATTTTTCCTCAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAATACCAATTTTTCCTCAATC
* * *
773788 GGGGATACTCCAATCCCGGTTTTATTTTTAAAATGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAATACCAATTTTTCC-TCAATC
* * * * *
773840 GGGGATATTCCAACTCCGATTCTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTT-CTAAAATACCAATTTTTCCTCAATC
*
773892 GAGGATACTCCAACC
1 GGGGATACTCCAACC
773907 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
51 8 0.08
52 75 0.77
53 10 0.10
54 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCGGTTTTATTTCTAAAATACCAATTTTTCCTCAATC
Found at i:773925 original size:28 final size:28
Alignment explanation
Indices: 773889--773965 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
773879 ATTTTTCACA
* * *
773889 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
773917 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
* *
773945 -TGAGGGGATACTCCAATCCCG
1 AT-CGGGGATACTCCAACCCCG
773966 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:787501 original size:55 final size:55
Alignment explanation
Indices: 787417--788323 Score: 907
Period size: 55 Copynumber: 16.3 Consensus size: 55
787407 TCCGCTTTTT
787417 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
787472 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTTGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
787527 AGCTCCCCACAGAGC-GGACACCT-TTCAAATGCCCAC-CAAGTTGGTTGCA-TTTCTCC
1 AG-TCCTCAAAGAGCAGGACACCTCTT-AAA-GCCCACACAAGTTGGTGGCACCTT-T-C
* * * *
787583 AGTCCTCGAAGAGCAGGGGACCACTCTATTAAAG-CCACATAAGTTGTGGTGCGC-CC-TCC
1 AGTCCTCAAAGAGCA--GGA-CAC-CTCTTAAAGCCCACACAAG-T-TGGTG-GCACCTTTC
** *
787642 AGTCCTCAAAAGAGCAGGACA-CTCTT-AA-CCCGTACAAG-TGGTGGCA--TTCC
1 AGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
787692 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACA-AAGTTGGTGGCA--TTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
787745 AGTCCTCAAAGGAGCAGGACACCCTCTTAAAGCCCACAACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAA-GAGCAGGACA-CCTCTTAAAGCCCAC-ACAAGTTGGTGGCACCTTTC
* * * ** *
787803 AGTCC-C-CAGAGCAGGACACC-CTTTCAAAGACCAC-CACGTTGGTGGCATATTCC
1 AGTCCTCAAAGAGCAGGACACCTC-TT-AAAGCCCACACAAGTTGGTGGCACCTTTC
787856 AGTCCTCAAAGAGCAGGACACCTCTT-AAG-CCACA-ACAGTTGGTGGCACC-TTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACA-AGTTGGTGGCACCTTTC
* * * * **
787908 AATCCGCAAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
787964 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACAC-----CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
*
788025 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* **
788080 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** *
788135 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
*
788196 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
788251 AGTCCTCAAAGAGTAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
788306 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
788324 TACACTTTGT
Statistics
Matches: 730, Mismatches: 61, Indels: 122
0.80 0.07 0.13
Matches are distributed among these distances:
49 15 0.02
50 14 0.02
51 10 0.01
52 26 0.04
53 63 0.09
54 35 0.05
55 349 0.48
56 45 0.06
57 16 0.02
58 16 0.02
59 19 0.03
60 23 0.03
61 97 0.13
62 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:788089 original size:116 final size:110
Alignment explanation
Indices: 787411--788323 Score: 949
Period size: 116 Copynumber: 8.2 Consensus size: 110
787401 TCTCCTTCCG
* *
787411 CTTTTTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
787476 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTTGCA
66 CTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
787521 CCTTTCAGCTCCCCACAGAGC-GGACACCTTTCAAATGCCCAC-CAAGTTGGTTGCA-TTTCTCC
1 CTTTTCAG-TCCTCAAAGAGCAGGACACCTTTTAAA-GCCCACACAAGTTGGTGGCACCTT-T-C
* *
787583 AGTCCTCGAAGAGCAGGGGACCACTCTATT-AAAG-CCACATAAGTTGTGGTGCGC-
62 AGTCCTCAAAGAGCA--GGA-CAC-CT-TTCAAAGCCCACACAAG-T-TGGTG-GCA
* * * ** *
787637 C-CTCCAGTCCTCAAAAGAGCAGGACA-CTCTT-AA-CCCGTACAAG-TGGTGGCA--TTCCAGT
1 CTTTTCAGTCCTC-AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
787695 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACA-AAGTTGGTGGCA
65 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
787740 -TTTCCAGTCCTCAAAGGAGCAGGACACCCTCTTAAAGCCCACAACAAGTTGGTGGCACCTTTCA
1 CTTTTCAGTCCTCAAA-GAGCAGGACA-CCTTTTAAAGCCCAC-ACAAGTTGGTGGCACCTTTCA
* * *
787804 GTCC-C-CAGAGCAGGACACCCTTTCAAAGACCAC-CACGTTGGTGGCA
63 GTCCTCAAAGAGCAGGACA-CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
787850 -TATTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAG-CCACA-ACAGTTGGTGGCACC-TTCAA
1 CT-TTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACA-AGTTGGTGGCACCTTTCAG
* * *
787910 TCCGCAAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
64 TCCTC-AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
787958 TTTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTTCAGTCCTCAAAGAGCAGGACAC-----CTTTT-AAAGCCCACACAAGTTGGTGGCACCTT
788023 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
60 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
**
788074 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
788138 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
65 CCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
788190 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
788255 CTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
66 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
788300 CTTTTTACTCCTCAATGAGAAGGA
1 CTTTTCAGTCCTCAAAGAGCAGGA
788324 TACACTTTGT
Statistics
Matches: 687, Mismatches: 62, Indels: 108
0.80 0.07 0.13
Matches are distributed among these distances:
102 5 0.01
103 25 0.04
104 3 0.00
105 22 0.03
106 25 0.04
107 23 0.03
108 54 0.08
109 43 0.06
110 158 0.23
111 60 0.09
112 11 0.02
113 11 0.02
114 18 0.03
115 29 0.04
116 186 0.27
117 14 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (110 bp):
CTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:788125 original size:171 final size:167
Alignment explanation
Indices: 787417--788303 Score: 968
Period size: 171 Copynumber: 5.3 Consensus size: 167
787407 TCCGCTTTTT
* *
787417 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAA
* * * *
787482 GAGCAGGACAC-CTCTT-AAAGCCCACACAAGTTGGTTGCACCTTTCAGCTCCCCACAGAGC-GG
66 GAGCAGGACACTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG-TCCTCAAAGAGCAGG
* *
787544 ACACCTTTCAAATGCCCAC-CAAGTTGGTTGCATTTCTCC
130 ACACCTTTCAAA-GCCCACACAAGTTGGTGGCACTT-TCC
* * * * *
787583 AGTCCTCGAAGAGCAGGGGACCACTCTATTAAAG-CCACATAAGTTGTGGTGCGC--CCTCCAGT
1 AGTCCTCAAAGAGCA--GGA-CAC-CTTTTAAAGCCCACACAAG-T-TGGTG-GCATCTTTCAGT
** *
787645 CCTCAAAAGAGCAGGACACTC--TT--AA-CCCGTACAAG-TGGTGGCA--TTCCAGTCCTCAAA
59 CCTC-AAAGAGCAGGACACTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
787702 GAGCAGGACACCTTTCAAAGCCCACA-AAGTTGGTGGCA-TTTCC
123 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
* *
787745 AGTCCTCAAAGGAGCAGGACACCCTCTTAAAGCCCACAACAAGTTGGTGGCACCTTTCAGTCC-C
1 AGTCCTCAAA-GAGCAGGACA-CCTTTTAAAGCCCAC-ACAAGTTGGTGGCATCTTTCAGTCCTC
* * * * ** *
787809 -CAGAGCAGGACAC-CCTTTCAAAGACCAC-CACGTTGGTGGCATATTCCAGTCCTCAAAGAGCA
63 AAAGAGCAGGACACTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCA
*
787871 GGACACCTCTT--AAG-CCACA-ACAGTTGGTGGCACCTT-C
128 GGACACCT-TTCAAAGCCCACACA-AGTTGGTGGCACTTTCC
* * * *
787908 AATCCGCAAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAA
1 AGTCCTC-AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAA
*
787973 AGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
65 AGAGCAGGACAC----TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
*
788038 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
126 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
*
788080 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAA
** *
788145 GAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGC
66 GAGCAGGA--C--ACTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
788210 AGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
127 AGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCC
* * * *
788251 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-CTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATCTTT
788304 TTACTCCTCA
Statistics
Matches: 622, Mismatches: 51, Indels: 92
0.81 0.07 0.12
Matches are distributed among these distances:
157 1 0.00
158 12 0.02
159 4 0.01
160 16 0.03
161 44 0.07
162 47 0.08
163 48 0.08
164 59 0.09
165 21 0.03
166 14 0.02
167 7 0.01
168 26 0.04
169 51 0.08
170 27 0.04
171 229 0.37
172 15 0.02
173 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (167 bp):
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAA
GAGCAGGACACTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
CACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
Found at i:788247 original size:29 final size:28
Alignment explanation
Indices: 788167--788249 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
788157 TTTTCTTTTC
788167 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
* * **
788195 -CAGTCCC-CA-AAG-AGCAGGACACCTCTT
1 AAAG-CCCACACAAGTTGGTGG-CACCT-TT
788222 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
788250 CAGTCCTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 9 0.22
28 9 0.22
29 8 0.20
30 3 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
AAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:790212 original size:13 final size:13
Alignment explanation
Indices: 790194--790219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
790184 CATTTTTCTG
790194 TGTATCGATACAT
1 TGTATCGATACAT
790207 TGTATCGATACAT
1 TGTATCGATACAT
790220 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:790231 original size:33 final size:33
Alignment explanation
Indices: 790174--790240 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
790164 GCCAAGAAAA
***
790174 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
* *
790207 TGTATCGATACATGGATCTTTGTATGGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
790240 T
1 T
790241 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:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:792687 original size:28 final size:27
Alignment explanation
Indices: 792623--792695 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
792613 CTTCACAATC
* **
792623 GGGGATACTCTAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
792650 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
792678 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
792696 GTTTTATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:792763 original size:52 final size:52
Alignment explanation
Indices: 792678--792847 Score: 161
Period size: 52 Copynumber: 3.3 Consensus size: 52
792668 TTATTTCCGA
* *
792678 GGGGATACTCCAACCCCGGTTTTA--TCGCTAAAACACTAATTTTTCCTCAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTC-CAAAAACACCAATTTTTCCTCAATC
* * *
792730 GGGGATACTCCAATCCCGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCCAAAAACACCAATTTTTCC-TCAATC
* * * * * *
792782 GGGGATATTCCAACTCGATTCTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTTTCCTCAATC
*
792833 GAGGATACTCCAACC
1 GGGGATACTCCAACC
792848 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
51 33 0.34
52 57 0.59
53 5 0.05
54 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTTTCCTCAATC
Found at i:792892 original size:28 final size:28
Alignment explanation
Indices: 792835--792901 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
792825 TCACAATCGA
* * **
792835 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
792863 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
792891 GGATACCCCAA
1 GGATACTCCAA
792902 TGCCGATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:799407 original size:17 final size:17
Alignment explanation
Indices: 799385--799418 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
799375 CAGTGGTAAG
*
799385 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
799402 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
799419 GAATCGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:806179 original size:55 final size:55
Alignment explanation
Indices: 806095--806784 Score: 911
Period size: 55 Copynumber: 12.3 Consensus size: 55
806085 TCCGCTTTTT
806095 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
806150 AGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
806205 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
806260 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
806315 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * **
806370 AATCCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** *
806425 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
806486 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* **
806541 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** * * *
806596 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTTGCACCTTTT
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
*
806657 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
806712 AGTCCTCAAAGAGTAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
806767 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
806785 TACACTTTGT
Statistics
Matches: 571, Mismatches: 45, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
54 10 0.02
55 443 0.78
56 18 0.03
57 2 0.00
59 2 0.00
60 10 0.02
61 86 0.15
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:806212 original size:29 final size:29
Alignment explanation
Indices: 806180--806267 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
806170 CCTCTTAAAG
806180 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
806209 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
806235 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
806264 CCCA
1 CCCA
806268 AAGAGCAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 9 0.21
29 14 0.33
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:806285 original size:26 final size:26
Alignment explanation
Indices: 806197--806286 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
806187 AAGTTGGTGG
806197 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * **
806223 CACCTCTTAAAG-CCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCC-CA-AAG-AGCAGGA
806252 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
806278 CACCTTTCA
1 CACCTTTCA
806287 AAGCCCACCC
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 9 0.18
29 8 0.16
30 3 0.06
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:806549 original size:171 final size:171
Alignment explanation
Indices: 806121--806785 Score: 1015
Period size: 171 Copynumber: 3.9 Consensus size: 171
806111 GACACCTCTT
*
806121 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
* *
806186 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTG
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTG
** * * *
806251 GCACCTTTCAGTCCCCAAAGAGCAGGA--C----ACCTTTC
131 GCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
* *
806286 AAAGCCCACCCAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
* * *
806350 ACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAGGTTGGT
65 ACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGT
806415 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
130 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
*
806457 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
*
806522 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGT
66 CAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGT
806586 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
130 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
* * *
806628 AAAGCCCACACAAGTTGGTTGCACCTTTTAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
* * * *
806693 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTG
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTG
* * *
806758 GCACTTTTT-ACTCCTCAATGAGAAGGAT
131 GCA-TTTTTCAGTCCTCAAAGAGCAGGAT
806786 ACACTTTGTT
Statistics
Matches: 457, Mismatches: 32, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
164 3 0.01
165 142 0.31
167 1 0.00
170 3 0.01
171 297 0.65
172 11 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (171 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTG
GCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
Found at i:806593 original size:27 final size:27
Alignment explanation
Indices: 806508--806593 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
806498 GCAGGACACC
806508 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * **
806535 TTTTCCAGTCCTCA-AAG-AGCAGGACA
1 TTTTAAAGCCCACACAAGTTGGTGG-CA
806561 CCTTTTAAAGCCCACACAAGTTGGTGGCA
1 --TTTTAAAGCCCACACAAGTTGGTGGCA
806590 TTTT
1 TTTT
806594 TCAGTCCTCA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:808603 original size:19 final size:19
Alignment explanation
Indices: 808579--808646 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
808569 AATTCAACGA
808579 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
808598 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
808613 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
**
808630 AGTGTATCGATACATAA
1 TTTGTATCGATACATAA
808647 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:0.16, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:808617 original size:32 final size:32
Alignment explanation
Indices: 808581--808643 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
808571 TTCAACGATT
**
808581 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTAGTGTATCGATACAA
808613 TGTATCGATACATAAGTAGTGTATCGATACA
1 TGTATCGATACATAAGTAGTGTATCGATACA
808644 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAGTGTATCGATACAA
Found at i:808618 original size:13 final size:13
Alignment explanation
Indices: 808600--808624 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
808590 ACATAAGTTT
808600 TGTATCGATACAA
1 TGTATCGATACAA
808613 TGTATCGATACA
1 TGTATCGATACA
808625 TAAGTAGTGT
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:808723 original size:33 final size:33
Alignment explanation
Indices: 808666--808728 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
808656 GCCAAGGAAA
***
808666 TGTATCGATACATTTTTCTGTGTATCGATATAT
1 TGTATCGATACATGGATCTGTGTATCGATATAT
*
808699 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
808729 CATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATATAT
Found at i:811285 original size:52 final size:52
Alignment explanation
Indices: 811192--811362 Score: 163
Period size: 52 Copynumber: 3.3 Consensus size: 52
811182 TTATTTCCGA
* * *
811192 GGGGATACTCCAACCCCGGTTTTA--TCGCTAAAACACTAATTTTTCCTCAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTC-CAAAAATACCAATTTTTCCTCAATC
* * *
811244 GGGGATACTCCAATCCCGGTTTTATTTTC-AAAATGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCCAAAAATACCAATTTTTCC-TCAATC
* * * *
811296 GGGGATATTCCAACTCCGATTCTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTCCAAAAATACCAATTTTTCCTCAATC
*
811348 GAGGATACTCCAACC
1 GGGGATACTCCAACC
811363 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
51 8 0.08
52 74 0.76
53 11 0.11
54 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCGGTTTTATTTCCAAAAATACCAATTTTTCCTCAATC
Found at i:811381 original size:28 final size:28
Alignment explanation
Indices: 811345--811421 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
811335 ATTTTTCACA
* * *
811345 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
811373 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
811401 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
811422 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:816129 original size:334 final size:333
Alignment explanation
Indices: 815520--816129 Score: 862
Period size: 334 Copynumber: 1.8 Consensus size: 333
815510 TAAAAGTGTC
* * ** *
815520 TGTTGGCTTATGGGGGCCAACAATCACCTTTAGGGATTCGCTATCGCGTATGGGTGCGATATTAA
1 TGTTGGCTTATGGGGGCCAACAATCACCCTTAAGGATTCGCTATCGCGTATGGGCACGATATCAA
* ** *
815585 TGCTTGACAGCCCAGCCTGTCGAGGCCCACGTGTGCCTTAGGAAGCCCTTCAAGCCCACCTGCAG
66 TGCTTGACAGCCCAGCCTGTCAAGGCCCACGTGTGCCTTACAAAGCCCCTCAAGCCCACCT-CAG
* * * *
815650 CACATTAAAGATGTGGGGCTCTACACTGCCGTGGTGAAGTACGGGGGGTGCCCTTCAAGAATCCA
130 AACATTAAAGATGCGGGGCTCTACACTACCGTGGTGAAGTACGGGGGGTACCCTTCAAGAATCCA
* * * *
815715 CCTTGGGTTTAAGGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGCAAG
195 CCATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGAAAA
815780 CACTTTGATCCTAACAACTAGTATCAGAGTGAGCTTACAGGTTCGAATCCCCCAAGTGTCACTAG
260 CACTTTGATCCTAACAACTAGTATCAGAGTGAGCTTACAGGTTCGAATCCCCCAAGTGTCACTAG
815845 AGGGGAGAT
325 AGGGGAGAT
*** * * *
815854 TGTTGGCTTATGGGGGCCAGTGATCACCCTTAAGGATTCGTTATCGTGTATGGGCACGATATCAG
1 TGTTGGCTTATGGGGGCCAACAATCACCCTTAAGGATTCGCTATCGCGTATGGGCACGATATCAA
* * * *
815919 TGCTTGACAGCCCAGCCTGTTAAGGCTCACGTGTGCTTTACAAAGCCCCTCAGGCCCA-CTCATA
66 TGCTTGACAGCCCAGCCTGTCAAGGCCCACGTGTGCCTTACAAAGCCCCTCAAGCCCACCTC--A
* ** * ** *
815983 GAACATTATAGATGCGGGGCTCTATGCTACCGTGGTGAATTGTGGGGGGTACCCTTCAGGAATCC
129 GAACATTAAAGATGCGGGGCTCTACACTACCGTGGTGAAGTACGGGGGGTACCCTTCAAGAATCC
*
816048 ACCATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGTGTTGGAAA
194 ACCATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGAAA
*
816113 ACGCTTTGATCCTAACA
259 ACACTTTGATCCTAACA
816130 GTGTCAAGTT
Statistics
Matches: 238, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
332 1 0.00
333 2 0.01
334 235 0.99
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (333 bp):
TGTTGGCTTATGGGGGCCAACAATCACCCTTAAGGATTCGCTATCGCGTATGGGCACGATATCAA
TGCTTGACAGCCCAGCCTGTCAAGGCCCACGTGTGCCTTACAAAGCCCCTCAAGCCCACCTCAGA
ACATTAAAGATGCGGGGCTCTACACTACCGTGGTGAAGTACGGGGGGTACCCTTCAAGAATCCAC
CATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGAAAAC
ACTTTGATCCTAACAACTAGTATCAGAGTGAGCTTACAGGTTCGAATCCCCCAAGTGTCACTAGA
GGGGAGAT
Found at i:816980 original size:20 final size:21
Alignment explanation
Indices: 816944--816989 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
816934 TAGTATCGAG
816944 ACATTCACTTAATGTATCAAT
1 ACATTCACTTAATGTATCAAT
816965 ACATTCACTT-ATGTATCAAT
1 ACATTCACTTAATGTATCAAT
*
816985 GCATT
1 ACATT
816990 AACTGTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (21 bp):
ACATTCACTTAATGTATCAAT
Found at i:817821 original size:19 final size:19
Alignment explanation
Indices: 817797--817856 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
817787 ATCGATACAA
817797 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
817816 TGTATCGATAC---A---T
1 TGTATCGATACATAAGTGT
817829 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
817848 TGTATCGAT
1 TGTATCGAT
817857 CCAATGTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.34
16 2 0.06
19 21 0.60
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:817824 original size:32 final size:32
Alignment explanation
Indices: 817783--817867 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
817773 TTTCAATAAT
817783 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
817815 TTGTATCGATACATTGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
817847 TTGTATCGATCCAATGTATCG
1 TTGTATCGATACAATGTATCG
817868 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:817841 original size:13 final size:13
Alignment explanation
Indices: 817783--817841 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
817773 TTTCAATAAT
817783 TTGTATCGATACA
1 TTGTATCGATACA
*
817796 ATGTATCGATACATAA
1 TTGTATCGATAC---A
817812 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
817828 TTGTATCGATACA
1 TTGTATCGATACA
817841 T
1 T
817842 AAGTGTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 25 0.66
16 2 0.05
19 11 0.29
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:817930 original size:13 final size:13
Alignment explanation
Indices: 817912--817937 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
817902 ATTACTCAAA
817912 TGTATCGATACAT
1 TGTATCGATACAT
817925 TGTATCGATACAT
1 TGTATCGATACAT
817938 CTAAAAATTT
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:828131 original size:19 final size:19
Alignment explanation
Indices: 828107--828174 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
828097 AATTCAACGA
828107 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
828126 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
828141 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
**
828158 AGTGTATCGATACATAA
1 TTTGTATCGATACATAA
828175 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:0.16, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:828145 original size:32 final size:32
Alignment explanation
Indices: 828109--828171 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
828099 TTCAACGATT
**
828109 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTAGTGTATCGATACAA
828141 TGTATCGATACATAAGTAGTGTATCGATACA
1 TGTATCGATACATAAGTAGTGTATCGATACA
828172 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAGTGTATCGATACAA
Found at i:828146 original size:13 final size:13
Alignment explanation
Indices: 828128--828152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
828118 ACATAAGTTT
828128 TGTATCGATACAA
1 TGTATCGATACAA
828141 TGTATCGATACA
1 TGTATCGATACA
828153 TAAGTAGTGT
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:828251 original size:33 final size:33
Alignment explanation
Indices: 828194--828256 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
828184 GCCAAGGAAA
***
828194 TGTATCGATACATTTTTCTGTGTATCGATATAT
1 TGTATCGATACATGGATCTGTGTATCGATATAT
*
828227 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
828257 CATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATATAT
Found at i:830805 original size:52 final size:52
Alignment explanation
Indices: 830720--830890 Score: 170
Period size: 52 Copynumber: 3.3 Consensus size: 52
830710 TTATTTCCGA
** * *
830720 GGGGATACTCCAACCCCGGTTTTA-TCGCTAAAACACTAATTTTTCCTCAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTTCAAAAACACCAATTTTTCCTCAATC
* *
830772 GGGGATACTCCAATCCCGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTTCAAAAACACCAATTTTTCC-TCAATC
* * * * *
830824 GGGGATATTCCAACTCCGATTCTATTTTCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTTCAAAAACACCAATTTTTCCTCAATC
*
830876 GAGGATACTCCAACC
1 GGGGATACTCCAACC
830891 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
51 8 0.08
52 76 0.77
53 11 0.11
54 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCGGTTTTATTTTCAAAAACACCAATTTTTCCTCAATC
Found at i:830909 original size:28 final size:28
Alignment explanation
Indices: 830873--830949 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
830863 ATTTTTCACA
* * *
830873 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
830901 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
830929 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
830950 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:833499 original size:97 final size:96
Alignment explanation
Indices: 833371--833583 Score: 216
Period size: 97 Copynumber: 2.2 Consensus size: 96
833361 TCTTCGTAGG
* * * * *
833371 AATAGGGTTGGAGTGTCC-TCGACGATAACAATTT-GGGAAAAAATAGGATTTAAATCTTGACAA
1 AATAGGGTTAGAGTATCCTTTGATGATGACAATTTAGGGAAAAAA-AGG-TTTAAATCTTGACAA
* *
833434 GTTTAAAAACAGGGTTGGAGTATCCCCTCGAAA
64 GTTTAAAAACAAGATTGGAGTATCCCCTCGAAA
* * * * * *
833467 TAATGGGGTTGGAGTA-CCTTTGATGATGACAATTTAAGTGAAAATAAGGTTTAAGTCTTGACTA
1 -AATAGGGTTAGAGTATCCTTTGATGATGACAATTT-AGGGAAAAAAAGGTTTAAATCTTGACAA
** **
833531 GTTTAAAAGTAAGATTGGAGTATCCTTTCGAAA
64 GTTTAAAAACAAGATTGGAGTATCCCCTCGAAA
833564 AATAGGGTTAGAGTATCCTT
1 AATAGGGTTAGAGTATCCTT
833584 AATAAATAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
96 15 0.16
97 70 0.74
98 3 0.03
99 7 0.07
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (96 bp):
AATAGGGTTAGAGTATCCTTTGATGATGACAATTTAGGGAAAAAAAGGTTTAAATCTTGACAAGT
TTAAAAACAAGATTGGAGTATCCCCTCGAAA
Found at i:835658 original size:334 final size:333
Alignment explanation
Indices: 835049--835658 Score: 871
Period size: 334 Copynumber: 1.8 Consensus size: 333
835039 TAAAATAGTC
* * ** *
835049 TGTTGGCTTATGGGGGCCAACAATCACCTTTAGGGATTCGCTATCGCGTATGGGTGCGATATTAA
1 TGTTGGCTTATGGGGGCCAACAATCACCCTTAAGGATTCGCTATCGCGTATGGGCACGATATCAA
* ** *
835114 TGCTTGACAGCCCAGCCTGTCGAGGCCCACGTGTGCCTTAGGAAGCCCTTCAAGCCCACCTGCAG
66 TGCTTGACAGCCCAGCCTGTCAAGGCCCACGTGTGCCTTACAAAGCCCCTCAAGCCCACCT-CAG
* * *
835179 CACATTAAAGATGTGGGGCTCTACACTGCCGTGGTGAAGTACGGGGGGTGCCCTTCAAGAATCCA
130 AACATTAAAGATGCGGGGCTCTACACTGCCGTGGTGAAGTACGGGGGGTACCCTTCAAGAATCCA
* * * *
835244 CCTTGGGTTTAAGGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGCAAG
195 CCATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGAAAA
835309 CACTTTGATCCTAACAACTAGTATCAGAGTGAGCTTACAGGTTCGAATCCCCCAAGTGTCACTAG
260 CACTTTGATCCTAACAACTAGTATCAGAGTGAGCTTACAGGTTCGAATCCCCCAAGTGTCACTAG
835374 AGGGGAGAT
325 AGGGGAGAT
*** * * *
835383 TGTTGGCTTATGGGGGCCAGTGATCACCCTTAAGGATTCGTTATCGTGTATGGGCACGATATCAG
1 TGTTGGCTTATGGGGGCCAACAATCACCCTTAAGGATTCGCTATCGCGTATGGGCACGATATCAA
* * * *
835448 TGCTTGACAGCCCAGCCTGTTAAGGCTCACGTGTGCTTTACAAAGCCCCTCAGGCCCA-CTCATA
66 TGCTTGACAGCCCAGCCTGTCAAGGCCCACGTGTGCCTTACAAAGCCCCTCAAGCCCACCTC--A
* ** * ** *
835512 GAACATTATAGATGCGGGGCTCTATGCTGCCGTGGTGAATTGTGGGGGGTACCCTTCAGGAATCC
129 GAACATTAAAGATGCGGGGCTCTACACTGCCGTGGTGAAGTACGGGGGGTACCCTTCAAGAATCC
*
835577 ACCATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGTGTTGGAAA
194 ACCATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGAAA
*
835642 ACGCTTTGATCCTAACA
259 ACACTTTGATCCTAACA
835659 GTGTCAAGTT
Statistics
Matches: 239, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
332 1 0.00
333 2 0.01
334 236 0.99
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (333 bp):
TGTTGGCTTATGGGGGCCAACAATCACCCTTAAGGATTCGCTATCGCGTATGGGCACGATATCAA
TGCTTGACAGCCCAGCCTGTCAAGGCCCACGTGTGCCTTACAAAGCCCCTCAAGCCCACCTCAGA
ACATTAAAGATGCGGGGCTCTACACTGCCGTGGTGAAGTACGGGGGGTACCCTTCAAGAATCCAC
CATGGGTTTAAAGAATTAAAGTAGCACCTTTGTCACAAGCAATTGCTTTTGACGAGTTGGAAAAC
ACTTTGATCCTAACAACTAGTATCAGAGTGAGCTTACAGGTTCGAATCCCCCAAGTGTCACTAGA
GGGGAGAT
Found at i:836510 original size:20 final size:21
Alignment explanation
Indices: 836474--836519 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
836464 TAGTATCGAG
836474 ACATTCACTTAATGTATCAAT
1 ACATTCACTTAATGTATCAAT
836495 ACATTCACTT-ATGTATCAAT
1 ACATTCACTTAATGTATCAAT
*
836515 GCATT
1 ACATT
836520 AACTGTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (21 bp):
ACATTCACTTAATGTATCAAT
Found at i:837352 original size:19 final size:19
Alignment explanation
Indices: 837328--837387 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
837318 ATCGATACAA
837328 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
837347 TGTATCGATAC---A---T
1 TGTATCGATACATAAGTGT
837360 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
837379 TGTATCGAT
1 TGTATCGAT
837388 CCAATGTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.34
16 2 0.06
19 21 0.60
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:837355 original size:32 final size:32
Alignment explanation
Indices: 837314--837398 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
837304 TTTCAATAAT
837314 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
837346 TTGTATCGATACATTGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
837378 TTGTATCGATCCAATGTATCG
1 TTGTATCGATACAATGTATCG
837399 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:837372 original size:13 final size:13
Alignment explanation
Indices: 837314--837372 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
837304 TTTCAATAAT
837314 TTGTATCGATACA
1 TTGTATCGATACA
*
837327 ATGTATCGATACATAA
1 TTGTATCGATAC---A
837343 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
837359 TTGTATCGATACA
1 TTGTATCGATACA
837372 T
1 T
837373 AAGTGTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 25 0.66
16 2 0.05
19 11 0.29
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:837461 original size:13 final size:13
Alignment explanation
Indices: 837443--837468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
837433 ATTACTCAAA
837443 TGTATCGATACAT
1 TGTATCGATACAT
837456 TGTATCGATACAT
1 TGTATCGATACAT
837469 CTAAAAATTT
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:843845 original size:71 final size:71
Alignment explanation
Indices: 843729--843884 Score: 240
Period size: 71 Copynumber: 2.2 Consensus size: 71
843719 TTTTAGCTAG
* *
843729 ATGTATCGATAAATTTTTCAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCAATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
* *
843794 TCATAC
66 TCAAAA
* * *
843800 ATGTATCGATACATTTTTCAATGTATCAATATATCTAGGTAAAAAGCCAGAATGTATCGATATAT
1 ATGTATCGATACATTTTTCAATGTATCAATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
*
843865 TGAAAA
66 TCAAAA
843871 ATGTATCGATACAT
1 ATGTATCGATACAT
843885 CTGGGCAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (71 bp):
ATGTATCGATACATTTTTCAATGTATCAATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
TCAAAA
Found at i:844661 original size:49 final size:47
Alignment explanation
Indices: 844598--844801 Score: 197
Period size: 49 Copynumber: 4.3 Consensus size: 47
844588 AGAGGAGTGT
* **
844598 CAATGTGC-GAATTCAAGGCTAGTGACATTGGGCTAAAGGAATAGTGGAC
1 CAATGTGCTG-ATTCAAGGCCAACGACATTGGGCTAAAGGAA-AGTGG-C
* *
844647 CAATGTGCTGATTCAAGGCCAATGACATTGGGCT-AA-TAAAG-GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAAGGAAAGTG-GC
* * * *
844692 TAATATGCTGATTCAATGCCAGCGACATTGGGCTAAAGGAAAAGTGGGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAAGG-AAAGT-GGC
*
844741 CAATGTGCTGATTCAAGGCCAACGACATTGGGCT-AA-TAAAG-GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAAGGAAAGTG-GC
*
844786 CAATATGCTGATTCAA
1 CAATGTGCTGATTCAA
844802 TACTAGTGAT
Statistics
Matches: 132, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
44 1 0.01
45 48 0.36
46 9 0.07
47 2 0.02
48 8 0.06
49 62 0.47
50 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAAGGAAAGTGGC
Found at i:844719 original size:45 final size:45
Alignment explanation
Indices: 844646--844801 Score: 204
Period size: 45 Copynumber: 3.4 Consensus size: 45
844636 GAATAGTGGA
* *
844646 CCAATGTGCTGATTCAAGGCCAATGACATTGGGCTAATAAAGGTG
1 CCAATATGCTGATTCAAGGCCAACGACATTGGGCTAATAAAGGTG
* * * * *
844691 CTAATATGCTGATTCAATGCCAGCGACATTGGGCTAAAGGAAAAGTGGG
1 CCAATATGCTGATTCAAGGCCAACGACATTGGGCT-AA--TAAAG-GTG
*
844740 CCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAATAAAGGTG
1 CCAATATGCTGATTCAAGGCCAACGACATTGGGCTAATAAAGGTG
844785 CCAATATGCTGATTCAA
1 CCAATATGCTGATTCAA
844802 TACTAGTGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
45 48 0.52
46 6 0.06
48 6 0.06
49 33 0.35
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (45 bp):
CCAATATGCTGATTCAAGGCCAACGACATTGGGCTAATAAAGGTG
Found at i:844732 original size:94 final size:94
Alignment explanation
Indices: 844621--844802 Score: 328
Period size: 94 Copynumber: 1.9 Consensus size: 94
844611 CAAGGCTAGT
* *
844621 GACATTGGGCTAAAGGAATAGTGGACCAATGTGCTGATTCAAGGCCAATGACATTGGGCTAATAA
1 GACATTGGGCTAAAGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAATAA
*
844686 AGGTGCTAATATGCTGATTCAATGCCAGC
66 AGGTGCCAATATGCTGATTCAATGCCAGC
*
844715 GACATTGGGCTAAAGGAAAAGTGGGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAATAA
1 GACATTGGGCTAAAGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAATAA
844780 AGGTGCCAATATGCTGATTCAAT
66 AGGTGCCAATATGCTGATTCAAT
844803 ACTAGTGATA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (94 bp):
GACATTGGGCTAAAGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAATAA
AGGTGCCAATATGCTGATTCAATGCCAGC
Found at i:844906 original size:28 final size:28
Alignment explanation
Indices: 844866--845357 Score: 410
Period size: 30 Copynumber: 16.6 Consensus size: 28
844856 CACCGACTTG
* * *
844866 TGTGGGTTTTGAAAGGGTACCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
844894 TGTGGGCTTTGAAAGGGTGTGCCACTGACT
1 TGTGGGCTTTGAAA-GG-GTGCCACTGACT
**
844924 TGTGACCTTTGAAAGGGTGTGCCACTGACT
1 TGTGGGCTTTGAAA-GG-GTGCCACTGACT
* * *
844954 TGTGGGCTTTGGAAA-GCTTCCACTGATTT
1 TGTGGGCTTT-GAAAGGGTGCCACTGA-CT
* *
844983 GTGTGGGCTTTGAACAGAGTTGCCACTAACT
1 -TGTGGGCTTTGAA-AG-GGTGCCACTGACT
* *
845014 TGTGTGGACTTTGAAAAGAGTTACCACTGACT
1 TGTG-GG-CTTTG-AAAG-GGTGCCACTGACT
*
845046 TATGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
845075 TATGGGCTTTGAAAGGGTGCCACCGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
845103 TGTGTAGGCTTTGAATAGAGTTGCCAGTGACT
1 TGTG--GGCTTTGAA-AG-GGTGCCACTGACT
* *
845135 TGTGTGGACTTTGAAAAGAGTTACCACTGACT
1 TGTG-GG-CTTTG-AAAG-GGTGCCACTGACT
* * * *
845167 TATTGGCTTTGAAAAGGGTACCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
845196 TATGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
845226 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
845254 TGTGCGCTTTGAAAGCATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
845282 TATGGGCTTTGAAAAGATGCCAATGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
845310 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
845339 TGTGGGCTTTGAAAAGGGT
1 TGTGGGCTTTG-AAAGGGT
845358 CATATTGACA
Statistics
Matches: 391, Mismatches: 52, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
28 114 0.29
29 79 0.20
30 115 0.29
31 15 0.04
32 64 0.16
33 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:845107 original size:121 final size:116
Alignment explanation
Indices: 844853--845333 Score: 488
Period size: 121 Copynumber: 4.1 Consensus size: 116
844843 TTAAAAGAGT
* * * * ** * *
844853 TGCCACCGACTTGTGTGGGTTTTGAAAGGGTACCACCGACTTGTGGGCTTTGAAAGGGTGTGCCA
1 TGCCACCGATTTGTGTGGGCTTTGAAAGGTTGCCACTAACTTGTGGGCTTTGAAAGAGT-TACCA
* ** * * *
844918 CTGACTTGTGACCTTTGAAAGGGTGTGCCACTGACTTGTGGGCTTTGGAAA-GC
65 CTGACTTATGGGCTTTGAAAAGG-GTGCCACTGACTTATGGGCTTT-GAAAGGG
* *
844971 TTCCACTGATTTGTGTGGGCTTTGAACAGAGTTGCCACTAACTTGTGTGGACTTTGAAAAGAGTT
1 TGCCACCGATTTGTGTGGGCTTTGAA-AG-GTTGCCACTAACTTGTG-GG-CTTTG-AAAGAGTT
845036 ACCACTGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGG
61 ACCACTGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGG
* * *
845092 TGCCACCGATTTGTGTAGGCTTTGAATAGAGTTGCCAGTGACTTGTGTGGACTTTGAAAAGAGTT
1 TGCCACCGATTTGTGTGGGCTTTGAA-AG-GTTGCCACTAACTTGTG-GG-CTTTG-AAAGAGTT
* * *
845157 ACCACTGACTTATTGGCTTTGAAAAGGGTACCACTAACTTATGGGCTTTGAAAGGG
61 ACCACTGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGG
* * * * *
845213 TATGCCACTGA-CT-TGTGGGCTTTGAAAGGATGCCACTAACTTGTGCGCTTTGAAAGCA--TGC
1 --TGCCACCGATTTGTGTGGGCTTTGAAAGGTTGCCACTAACTTGTGGGCTTTGAAAG-AGTTAC
* * * *
845274 CACTGACTTATGGGCTTTGAAAA-GATGCCAATGACTTGTGGGCTTTGAGAAGGA
63 CACTGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGA-AAGGG
845328 TGCCAC
1 TGCCAC
845334 TAACTTGTGG
Statistics
Matches: 313, Mismatches: 40, Indels: 25
0.83 0.11 0.07
Matches are distributed among these distances:
113 6 0.02
114 20 0.06
115 28 0.09
116 4 0.01
117 6 0.02
118 23 0.07
119 16 0.05
120 19 0.06
121 148 0.47
122 29 0.09
123 14 0.04
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (116 bp):
TGCCACCGATTTGTGTGGGCTTTGAAAGGTTGCCACTAACTTGTGGGCTTTGAAAGAGTTACCAC
TGACTTATGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGG
Found at i:845391 original size:26 final size:26
Alignment explanation
Indices: 845362--845435 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
845352 AAGGGTCATA
*
845362 TTGACAAAAATTTCTTGACAAAGTTT
1 TTGACAAAAATTTCTTGACAAAGTTC
* *
845388 TTGACAAACA-TTCTCGACAGAAGTTC
1 TTGACAAAAATTTCTTGACA-AAGTTC
* *
845414 TTGACGATAATTTCTTGACAAA
1 TTGACAAAAATTTCTTGACAAA
845436 TGGCGAATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 8 0.21
26 23 0.59
27 8 0.21
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (26 bp):
TTGACAAAAATTTCTTGACAAAGTTC
Found at i:845393 original size:12 final size:13
Alignment explanation
Indices: 845362--845435 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
845352 AAGGGTCATA
845362 TTGACAAAAATTTC
1 TTGAC-AAAATTTC
*
845376 TTGACAAAGTTT-
1 TTGACAAAATTTC
845388 TTGACAAACA-TTC
1 TTGACAAA-ATTTC
* * *
845401 TCGACAGAAGTTC
1 TTGACAAAATTTC
*
845414 TTGACGATAATTTC
1 TTGAC-AAAATTTC
845428 TTGACAAA
1 TTGACAAA
845436 TGGCGAATTG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
12 11 0.23
13 21 0.44
14 16 0.33
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:849675 original size:153 final size:157
Alignment explanation
Indices: 849212--849739 Score: 531
Period size: 153 Copynumber: 3.4 Consensus size: 157
849202 ATACGAAGTA
** ** * * * **
849212 TTTCTGAAATCTTTTATACCCCTACAGATGCCCACAAGAATATAAAAGATTACAAAAAATTGTTA
1 TTTC-GAAATCTTTTATATACCTATGGATGCCCATAGGAATATAAAAGATTAGAAAAAATAATTA
* ** * * * *
849277 CAACTTATCCCAAAAGTATTAATTCAATTT-AGTTCA-TTATTTTTGAAAACACCATTTTGTACC
65 -AATTTATTTCGAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTTGTACC
* * *
849340 CTAAAGGAAACCTAAAAGAATACGAAATGT
129 CTAAA-GAAACCCAAAAGGATACAAAATGT
* * *
849370 TTTTGAAATC-TTT-TATACCTCCCTGGATGCCCATAAGAATATAAAAGATTAGAAAAAAATAAT
1 TTTCGAAATCTTTTATATACCT--ATGGATGCCCATAGGAATATAAAAGATTAG-AAAAAATAAT
* * *
849433 TAAAATTTATTTCGAAAGTATTAATTCAATTTAATTTTATTTATTTTCGAAAGTACCATTTCGTA
63 T-AAATTTATTTCGAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTTGTA
** * *
849498 CCCTAGCGAAAACCCGAAATGATACAAAATGT
127 CCCTAAAG-AAACCCAAAAGGATACAAAATGT
* *
849530 TTTCGATATCTTTTATATACCTATGGATGCCCATAGGAATATAAAAGATT-G-AGAAA-AA-T-A
1 TTTCGAAATCTTTTATATACCTATGGATGCCCATAGGAATATAAAAGATTAGAAAAAATAATTAA
*
849590 ATTTA-TTCTGAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTTGTATCC
66 ATTTATTTC-GAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTTGTACCC
** *
849654 TAATAGACGCCCAAAAGGATACAAAACG-
130 TAA-AGAAACCCAAAAGGATACAAAATGT
** *
849682 TTTCTGAAATCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTA-AAAAAA
1 TTTC-GAAATCTTTTATATACCTATGGATGCCCATAGGAATATAAAAGATTAGAAAAAA
849740 CATTAAAATT
Statistics
Matches: 308, Mismatches: 48, Indels: 32
0.79 0.12 0.08
Matches are distributed among these distances:
152 7 0.02
153 118 0.38
154 5 0.02
155 6 0.02
156 5 0.02
157 35 0.11
158 37 0.12
159 7 0.02
160 78 0.25
161 3 0.01
162 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (157 bp):
TTTCGAAATCTTTTATATACCTATGGATGCCCATAGGAATATAAAAGATTAGAAAAAATAATTAA
ATTTATTTCGAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTTGTACCCT
AAAGAAACCCAAAAGGATACAAAATGT
Found at i:850800 original size:5 final size:5
Alignment explanation
Indices: 850764--850819 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
850754 GTTGCTGGTG
* * * * *
850764 CTTTT CTTCT CTTTT TTTTT GTTTC CTTTT CTATT CTTTT CTTTT CTTCTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTT-TT
850815 CTTTT
1 CTTTT
850820 TTCTTGTTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 36 0.88
6 5 0.12
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (5 bp):
CTTTT
Found at i:851026 original size:30 final size:29
Alignment explanation
Indices: 850981--851067 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 29
850971 TCTTCATTAA
*
850981 AGCTATTTCATTTTTGTCTTCATTGCAGT
1 AGCTGTTTCATTTTTGTCTTCATTGCAGT
* *
851010 AGTTGTTTTGATTTTTGGT-TTCATTGCAGT
1 AGCTG-TTTCATTTTT-GTCTTCATTGCAGT
851040 AGCTGTTTCATTTTTTGTCTTCATTGCA
1 AGCTGTTTCA-TTTTTGTCTTCATTGCA
851068 ACAGCTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.15, C:0.14, G:0.17, T:0.54
Consensus pattern (29 bp):
AGCTGTTTCATTTTTGTCTTCATTGCAGT
Found at i:851276 original size:54 final size:52
Alignment explanation
Indices: 851196--851312 Score: 189
Period size: 54 Copynumber: 2.2 Consensus size: 52
851186 GTTGCTACCG
851196 TTTCTTTTCTTTAGCCTCCATGTTCATGCATGAAAGCATGCATAAAATGCCA
1 TTTCTTTTCTTTAGCCTCCATGTTCATGCATGAAAGCATGCATAAAATGCCA
* * *
851248 TTTCTTATTTTTTCAGCCTCCATGTTCATGCGTGAAAGCATGCATGAAATGCCA
1 TTTCTT-TTCTTT-AGCCTCCATGTTCATGCATGAAAGCATGCATAAAATGCCA
851302 TTTCTTTTCTT
1 TTTCTTTTCTT
851313 GTTCATTTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
52 6 0.10
53 9 0.15
54 44 0.75
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (52 bp):
TTTCTTTTCTTTAGCCTCCATGTTCATGCATGAAAGCATGCATAAAATGCCA
Found at i:851501 original size:52 final size:52
Alignment explanation
Indices: 851434--851581 Score: 233
Period size: 52 Copynumber: 2.8 Consensus size: 52
851424 TTAAGTTTTC
*
851434 ATGCAATGCAATGCCACCTATAAAGCTTATGTGGCAACAAATTAAGCATGAA
1 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAA
* * * * *
851486 ATGCAATGTAATGCCACCTAGCAATCTTTTGTGGAAACAAATTAAGCATGAA
1 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAA
*
851538 ATGCAATGCAATGCCACCTAGAAAGCTTAAGTGGCAACAAATTA
1 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTA
851582 TGTAGAAATC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 84 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (52 bp):
ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAA
Found at i:852716 original size:42 final size:42
Alignment explanation
Indices: 852264--853174 Score: 328
Period size: 42 Copynumber: 21.6 Consensus size: 42
852254 TAAGTCGCCG
* * * *
852264 GGCAGAC-AAAGGGTAAAGAAA-TCTCCACGGTTAAAGCCAATG
1 GGCAGACTAAA-GGTAAA-AAAGTCTCTAGGGTCAAAGCCAATA
* * * *
852306 GGCAGAC-AAGAGGTGAAAAAGTCTCCAAGGTCAAAGCCAAAA
1 GGCAGACTAA-AGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * *
852348 GGCAGACTAAATGTAAAAAAGTCTCCAGGGTCAAAGCTAATA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * * * ** *
852390 GGCAGACTAAAGGGTAAAGAAGTTTCCAGGGTTAAAGCTGACA
1 GGCAGACTAAA-GGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
** * * * * * * *
852433 GATAGACTAAAAGTAAAGAAGTTTCTAGGCTCAAAGTCGACA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
** * * * *
852475 GATAGACTAAAGGTAAAGAAGTCTCTAAGGTCAAAGTCGATA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * * * **
852517 GGAAGATTAAATGTAAAAAAGTCTCTAAGGTCAAAGCTGATA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* ** * * ** *
852559 GGTAGACTAAAGGGTAATGAAGTCTCCAAGGTCAAAGTTGAA-G
1 GGCAGACTAAA-GGTAAAAAAGTCTCTAGGGTCAAAG-CCAATA
* * * ***
852602 GGCAAAC-AAGAGGT-GAAAAGTCTTTAGGGTCAAAAATGAA-A
1 GGCAGACTAA-AGGTAAAAAAGTCTCTAGGGTC-AAAGCCAATA
* * * *
852643 GGCA-AGGTAAAGGTAAAGAAATTTTCT-GGGTCAAAACCAATA
1 GGCAGA-CTAAAGGTAAA-AAAGTCTCTAGGGTCAAAGCCAATA
* * * *** *
852685 GGTAGACTAAAGGTAAAAAAGTCTTTAGGGTCAATGTTGACA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * *** * ** *
852727 GGCAGACTAAAGGTAAAGAAGTCTCCAAATTTAAAGCTGACA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * * * ***
852769 GGTAGGCTAAAGGTAAAGAAA-TCTCTAGAGTTAAAGTTGATA
1 GGCAGACTAAAGGTAAA-AAAGTCTCTAGGGTCAAAGCCAATA
* * * * * * *
852811 AGCAGACTAAAGGTAAAAATGTCACGAGGGTCAAAGTCGACA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * * **
852853 AGCAAACTAAAGGGTAAAGAAGTCTCTAGGGTCAAAGCTGAT-
1 GGCAGACTAAA-GGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* ** * *
852895 GGACAAAC-AAGAGGT-GGAAAGTCTTTAGGGTCAAAGACGAA-A
1 GG-CAGACTAA-AGGTAAAAAAGTCTCTAGGGTCAAAG-CCAATA
* * * *
852937 GGTAGACTAAAGGTAAAAAAAT-TTTCAGGGTCAAAGCCAACA
1 GGCAGACTAAAGGTAAAAAAGTCTCT-AGGGTCAAAGCCAATA
* * * * * * * *
852979 AGCAAACTAAAAGTAAAGAAGTCT-TCAGGGTTAAAGTCGACA
1 GGCAGACTAAAGGTAAAAAAGTCTCT-AGGGTCAAAGCCAATA
* * * * * * **
853021 TGCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAAGCTGATA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* * * * * * **
853063 GGCAAAC-AGGAGGTGAAAAAGTCTTTTGTGTCAAAGATGAA-A
1 GGCAGACTA-AAGGTAAAAAAGTCTCTAGGGTCAAAG-CCAATA
* * * * *
853105 GGTAGACTAAAGGTAAAGAAGTCTTTAGGGTTAAAGCCAACA
1 GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
* *
853147 GGCAAACTAAAGGGTAAAAAATTCTCTA
1 GGCAGACTAAA-GGTAAAAAAGTCTCTA
853175 AGGTAAAAAA
Statistics
Matches: 667, Mismatches: 169, Indels: 65
0.74 0.19 0.07
Matches are distributed among these distances:
40 1 0.00
41 73 0.11
42 474 0.71
43 118 0.18
44 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.19
Consensus pattern (42 bp):
GGCAGACTAAAGGTAAAAAAGTCTCTAGGGTCAAAGCCAATA
Found at i:852772 original size:84 final size:84
Alignment explanation
Indices: 852306--853140 Score: 439
Period size: 84 Copynumber: 9.9 Consensus size: 84
852296 AAAGCCAATG
** * * *
852306 GGCAGAC-AAGAGGTGAAA-AAGTCTCCAAGGTCAAAGCCAAAAGGCAGACTAAATGTAAAAAAG
1 GGCAGACTAA-AGGT-AAAGAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAAGGTAAAAAAG
* * *
852369 TCTCCAGGGTCAAAGCTAATA
64 TCTCTAGGGTCAAAGTTGATA
* * * * * *
852390 GGCAGACTAAAGGGTAAAGAAGTTTCCAGGGTTAAAGCTGACAGATAGACTAAAAGTAAAGAAGT
1 GGCAGACTAAA-GGTAAAGAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAAGGTAAAAAAGT
* * * *
852455 TTCTAGGCTCAAAGTCGACA
65 CTCTAGGGTCAAAGTTGATA
** * * * * *
852475 GATAGACTAAAGGTAAAGAAGTCTCTAAGGTCAAAG-TCGATAGGAAGATTAAATGTAAAAAAGT
1 GGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGCT-GACAGGTAGACTAAAGGTAAAAAAGT
* *
852539 CTCTAAGGTCAAAGCTGATA
65 CTCTAGGGTCAAAGTTGATA
* * * * * *
852559 GGTAGACTAAAGGGTAATGAAGTCTCCAAGGTCAAAGTTGA-AGGGCAAAC-AAGAGGT-GAAAA
1 GGCAGACTAAA-GGTAAAGAAGTCTCCAAGGTCAAAGCTGACA-GGTAGACTAA-AGGTAAAAAA
* ** *
852621 GTCTTTAGGGTCAAAAATGAAA
63 GTCTCTAGGGTCAAAGTTGATA
* * * * ** * ** *
852643 GGCA-AGGTAAAGGTAAAGAAATTTTCTGGGTCAAAACCAATAGGTAGACTAAAGGTAAAAAAGT
1 GGCAGA-CTAAAGGTAAAGAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAAGGTAAAAAAGT
* * *
852707 CTTTAGGGTCAATGTTGACA
65 CTCTAGGGTCAAAGTTGATA
** * *
852727 GGCAGACTAAAGGTAAAGAAGTCTCCAAATTTAAAGCTGACAGGTAGGCTAAAGGTAAAGAAA-T
1 GGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAAGGTAAA-AAAGT
* *
852791 CTCTAGAGTTAAAGTTGATA
65 CTCTAGGGTCAAAGTTGATA
* * * * * * * *
852811 AGCAGACTAAAGGTAAA-AATGTCACGAGGGTCAAAG-TCGACAAGCAAACTAAAGGGTAAAGAA
1 GGCAGACTAAAGGTAAAGAA-GTCTCCAAGGTCAAAGCT-GACAGGTAGACTAAA-GGTAAAAAA
*
852874 GTCTCTAGGGTCAAAGCTGAT-
63 GTCTCTAGGGTCAAAGTTGATA
* ** ** * *
852895 GGACAAAC-AAGAGGTGGA-AAGTCTTTAGGGTCAAAGAC-GAAAGGTAGACTAAAGGTAAAAAA
1 GG-CAGACTAA-AGGTAAAGAAGTCTCCAAGGTCAAAG-CTGACAGGTAGACTAAAGGTAAAAAA
* * *** *
852957 AT-TTTCAGGGTCAAAGCCAACA
63 GTCTCT-AGGGTCAAAGTTGATA
* * * * * * * * * *
852979 AGCAAACTAAAAGTAAAGAAGTCTTCAGGGTTAAAG-TCGACATGCAAACTAAAGGTAAAGAAGT
1 GGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGCT-GACAGGTAGACTAAAGGTAAAAAAGT
* * * *
853043 CTCAAAGATCAAAGCTGATA
65 CTCTAGGGTCAAAGTTGATA
* * *** * * *
853063 GGCAAAC-AGGAGGTGAAA-AAGTCT-TTTGTGTCAAAGATGAAAGGTAGACTAAAGGTAAAGAA
1 GGCAGACTA-AAGGT-AAAGAAGTCTCCAAG-GTCAAAGCTGACAGGTAGACTAAAGGTAAAAAA
* *
853125 GTCTTTAGGGTTAAAG
63 GTCTCTAGGGTCAAAG
853141 CCAACAGGCA
Statistics
Matches: 565, Mismatches: 153, Indels: 66
0.72 0.20 0.08
Matches are distributed among these distances:
82 2 0.00
83 65 0.12
84 359 0.64
85 138 0.24
86 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (84 bp):
GGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAAGGTAAAAAAGTC
TCTAGGGTCAAAGTTGATA
Found at i:852949 original size:168 final size:168
Alignment explanation
Indices: 852768--853157 Score: 484
Period size: 168 Copynumber: 2.3 Consensus size: 168
852758 TAAAGCTGAC
* * * *** * * *
852768 AGGTAGGCTAAAGGTAAAGAAATCTCTAGAGTTAAAGTTGATAAGCAGACTAAAGGTAAA-AATG
1 AGGTAGACTAAAGGTAAAGAAATCTTTAGGGTTAAAGCCAACAAGCAAACTAAAAGTAAAGAA-G
* * *
852832 TC-ACGAGGGTCAAAGTCGACAAGCAAACTAAAGGGTAAAGAAGTCTCTAGGGTCAAAGCTGAT-
65 TCTAC-AGGGTCAAAGTCGACAAGCAAACTAAA-GGTAAAGAAGTCTCAAAGATCAAAGCTGATA
*
852895 GGACAAACAAGAGGTG-GAAAGTCTTTAGGGTCAAAGACGAA
128 GG-CAAACAAGAGGTGAAAAAGTCTTTAGGGTCAAAGACGAA
* *
852936 AGGTAGACTAAAGGTAAAAAAAT-TTTCAGGGTCAAAGCCAACAAGCAAACTAAAAGTAAAGAAG
1 AGGTAGACTAAAGGTAAAGAAATCTTT-AGGGTTAAAGCCAACAAGCAAACTAAAAGTAAAGAAG
* * *
853000 TCTTCAGGGTTAAAGTCGACATGCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAAGCTGATAGG
65 TCTACAGGGTCAAAGTCGACAAGCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAAGCTGATAGG
* * * *
853065 CAAACAGGAGGTGAAAAAGTCTTTTGTGTCAAAGATGAA
130 CAAACAAGAGGTGAAAAAGTCTTTAGGGTCAAAGACGAA
* *
853104 AGGTAGACTAAAGGTAAAGAAGTCTTTAGGGTTAAAGCCAACAGGCAAACTAAA
1 AGGTAGACTAAAGGTAAAGAAATCTTTAGGGTTAAAGCCAACAAGCAAACTAAA
853158 GGGTAAAAAA
Statistics
Matches: 190, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
167 41 0.22
168 143 0.75
169 6 0.03
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (168 bp):
AGGTAGACTAAAGGTAAAGAAATCTTTAGGGTTAAAGCCAACAAGCAAACTAAAAGTAAAGAAGT
CTACAGGGTCAAAGTCGACAAGCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAAGCTGATAGGC
AAACAAGAGGTGAAAAAGTCTTTAGGGTCAAAGACGAA
Found at i:853059 original size:294 final size:293
Alignment explanation
Indices: 852271--853060 Score: 822
Period size: 294 Copynumber: 2.7 Consensus size: 293
852261 CCGGGCAGAC
* * * ** * ** *
852271 AAAGGGTAAAGAAATCTCCACGGTTAAAGCCAATGGGCAGACAAGAGGTGAAAAAGTCTCCAAGG
1 AAAGGGTAAAGAAGTCTCCAAGGTCAAAGCTGATGGGCAAACAAGAGGTG-AAAAGTCTTTAGGG
* * * * * * *
852336 TCAAAGCCAAAAGGCAGACTAAATGTAAAAAAGTCTCCAGGGTCAAAGCTAATAGGCAGACTAAA
65 TCAAAGACGAAAGGCAGACTAAAGGTAAAAAAATTTTCAGGGTCAAAGCCAATAGGCAGACTAAA
* * * * *
852401 GGGTAAAGAAGT-TTCCAGGGTTAAAG-CTGACAG-ATAGACTAAAAGTAAAGAAGTTTCTAGGC
130 -GGTAAAGAAGTCTT-CAGGGTTAAAGTC-GACAGCA-A-ACTAAAGGTAAAGAAGTCTCAAAGA
* * *
852463 TCAAAG-TCGACAGATAGACTAAAGGTAAAGAAGTCTCTAAGGTCAAAGTCGATAGGAAGATTAA
190 TCAAAGCT-GACAGATAGACTAAAGGTAAAGAAATCTCTAAGGTCAAAGTCGATAAGAAGACTAA
* * * * * * *
852527 ATGTAAAAAAGTCTCTAAGGTCAAAGCTGATAGGTAGACT
254 AGGTAAAAAAGTCACGAAGGTCAAAGCTGACAAGCAAACT
* * *
852567 AAAGGGTAATGAAGTCTCCAAGGTCAAAGTTGAAGGGCAAACAAGAGGTGAAAAGTCTTTAGGGT
1 AAAGGGTAAAGAAGTCTCCAAGGTCAAAGCTGATGGGCAAACAAGAGGTGAAAAGTCTTTAGGGT
* * * * * * *
852632 CAAAAATGAAAGGCA-AGGTAAAGGTAAAGAAATTTTCTGGGTCAAAACCAATAGGTAGACTAAA
66 CAAAGACGAAAGGCAGA-CTAAAGGTAAAAAAATTTTCAGGGTCAAAGCCAATAGGCAGACTAAA
* * * * * * * *
852696 GGTAAAAAAGTCTTTAGGGTCAATGTTGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAA-TTTA
130 GGTAAAGAAGTCTTCAGGGTTAAAGTCGACA-GCAAACTAAAGGTAAAGAAGTCT-CAAAGATCA
* * * * *
852760 AAGCTGACAGGTAGGCTAAAGGTAAAGAAATCTCT-AGAGTTAAAGTTGATAAGCAGACTAAAGG
193 AAGCTGACAGATAGACTAAAGGTAAAGAAATCTCTAAG-GTCAAAGTCGATAAGAAGACTAAAGG
* *
852824 TAAAAATGTCACGAGGGTCAAAG-TCGACAAGCAAACT
257 TAAAAAAGTCACGAAGGTCAAAGCT-GACAAGCAAACT
* * * *
852861 AAAGGGTAAAGAAGTCTCTAGGGTCAAAGCTGATGGACAAACAAGAGGTGGAAAGTCTTTAGGGT
1 AAAGGGTAAAGAAGTCTCCAAGGTCAAAGCTGATGGGCAAACAAGAGGTGAAAAGTCTTTAGGGT
* * * * *
852926 CAAAGACGAAAGGTAGACTAAAGGTAAAAAAATTTTCAGGGTCAAAGCCAACAAGCAAACTAAAA
66 CAAAGACGAAAGGCAGACTAAAGGTAAAAAAATTTTCAGGGTCAAAGCCAATAGGCAGACTAAAG
852991 GTAAAGAAGTCTTCAGGGTTAAAGTCGACATGCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAA
131 GTAAAGAAGTCTTCAGGGTTAAAGTCGACA-GCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAA
853056 GCTGA
195 GCTGA
853061 TAGGCAAACA
Statistics
Matches: 400, Mismatches: 83, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
293 7 0.02
294 284 0.71
295 67 0.17
296 42 0.10
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (293 bp):
AAAGGGTAAAGAAGTCTCCAAGGTCAAAGCTGATGGGCAAACAAGAGGTGAAAAGTCTTTAGGGT
CAAAGACGAAAGGCAGACTAAAGGTAAAAAAATTTTCAGGGTCAAAGCCAATAGGCAGACTAAAG
GTAAAGAAGTCTTCAGGGTTAAAGTCGACAGCAAACTAAAGGTAAAGAAGTCTCAAAGATCAAAG
CTGACAGATAGACTAAAGGTAAAGAAATCTCTAAGGTCAAAGTCGATAAGAAGACTAAAGGTAAA
AAAGTCACGAAGGTCAAAGCTGACAAGCAAACT
Found at i:853114 original size:294 final size:294
Alignment explanation
Indices: 852480--853178 Score: 694
Period size: 294 Copynumber: 2.4 Consensus size: 294
852470 CGACAGATAG
* * * * * * * *
852480 ACTAAAGGTAAAGAAGTCTCTA-AGGTCAAAG-TCGATAGGAAGATTAAATGTAAAAAAGTCTCT
1 ACTAAAGGTAAAGAAATCTCTAGA-GTCAAAGAT-GATAAGCAGACTAAAGGTAAAGAAGTCACG
* ** * * * * * * * *
852543 AAGGTCAAAGCTGATAGGTAGACTAAAGGGTAATGAAGTCTCCAAGGTCAAAGTTGAAGGGCAAA
64 AGGGTCAAAGCCAACAAGCAAACTAAAGGGTAAAGAAGTCTCTAAGGTCAAAGCTGAAGGACAAA
* * * *
852608 CAAGAGGTGAAAAGTCTTTAGGGTCAAAAATGAAAGGCAAGGTAAAGGTAAAGAAATTTTCTGGG
129 CAAGAGGTGAAAAGTCTTTAGGGTCAAAAACGAAAGGCAAGCTAAAGGTAAAAAAATTTTCAGGG
* * * * * * * * *
852673 TCAAAACCAATAGGTAGACTAAAGGTAAAAAAGTCTTTAGGGTCAATGTTGACAGGCAGACTAAA
194 TCAAAACCAACAAGCAAACTAAAAGTAAAAAAGTCTTCAGGGTCAAAGTCGACAGGCAAACTAAA
* * * *
852738 GGTAAAGAAGTCTCCAAATTTAAAGCTGACAGGTAG
259 GGTAAAGAAGTCTCCAAAATCAAAGCTGACAGGCAA
* * *
852774 GCTAAAGGTAAAGAAATCTCTAGAGTTAAAGTTGATAAGCAGACTAAAGGTAAA-AATGTCACGA
1 ACTAAAGGTAAAGAAATCTCTAGAGTCAAAGATGATAAGCAGACTAAAGGTAAAGAA-GTCACGA
* * * *
852838 GGGTCAAAGTCGACAAGCAAACTAAAGGGTAAAGAAGTCTCTAGGGTCAAAGCTGATGGACAAAC
65 GGGTCAAAGCCAACAAGCAAACTAAAGGGTAAAGAAGTCTCTAAGGTCAAAGCTGAAGGACAAAC
* * *
852903 AAGAGGTGGAAAGTCTTTAGGGTCAAAGACGAAAGG-TAGACTAAAGGTAAAAAAATTTTCAGGG
130 AAGAGGTGAAAAGTCTTTAGGGTCAAAAACGAAAGGCAAG-CTAAAGGTAAAAAAATTTTCAGGG
* * * *
852967 TCAAAGCCAACAAGCAAACTAAAAGTAAAGAAGTCTTCAGGGTTAAAGTCGACATGCAAACTAAA
194 TCAAAACCAACAAGCAAACTAAAAGTAAAAAAGTCTTCAGGGTCAAAGTCGACAGGCAAACTAAA
*
853032 GGTAAAGAAGTCT-CAAAGATCAAAGCTGATAGGCAA
259 GGTAAAGAAGTCTCCAAA-ATCAAAGCTGACAGGCAA
* * * * * * **
853068 AC-AGGAGGTGAAA-AAGTCTTTTGTGTCAAAGATGA-AAGGTAGACTAAAGGTAAAGAAGTCTT
1 ACTA-AAGGT-AAAGAAATCTCTAGAGTCAAAGATGATAA-GCAGACTAAAGGTAAAGAAGTCAC
* * * * *
853130 TAGGGTTAAAGCCAACAGGCAAACTAAAGGGTAAAAAATTCTCTAAGGT
63 GAGGGTCAAAGCCAACAAGCAAACTAAAGGGTAAAGAAGTCTCTAAGGT
853179 AAAAAATTCT
Statistics
Matches: 330, Mismatches: 66, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
293 11 0.03
294 312 0.95
295 7 0.02
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (294 bp):
ACTAAAGGTAAAGAAATCTCTAGAGTCAAAGATGATAAGCAGACTAAAGGTAAAGAAGTCACGAG
GGTCAAAGCCAACAAGCAAACTAAAGGGTAAAGAAGTCTCTAAGGTCAAAGCTGAAGGACAAACA
AGAGGTGAAAAGTCTTTAGGGTCAAAAACGAAAGGCAAGCTAAAGGTAAAAAAATTTTCAGGGTC
AAAACCAACAAGCAAACTAAAAGTAAAAAAGTCTTCAGGGTCAAAGTCGACAGGCAAACTAAAGG
TAAAGAAGTCTCCAAAATCAAAGCTGACAGGCAA
Found at i:853181 original size:17 final size:17
Alignment explanation
Indices: 853159--853191 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
853149 CAAACTAAAG
853159 GGTAAAAAATTCTCTAA
1 GGTAAAAAATTCTCTAA
853176 GGTAAAAAATTCTCTA
1 GGTAAAAAATTCTCTA
853192 TGGTCAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (17 bp):
GGTAAAAAATTCTCTAA
Found at i:853244 original size:42 final size:42
Alignment explanation
Indices: 853174--853481 Score: 194
Period size: 42 Copynumber: 7.3 Consensus size: 42
853164 AAAATTCTCT
* * * * *
853174 AAGGTAAAAAATTCTCTATGGTCAAAGCTGACAGGCAAACTA
1 AAGGTAAAGAAGTCTTTAAGGTCAAAGCTGACAGGCAGACTA
* * * *
853216 AAGGTAAAGAATTCTTTAAGGTCCAAGCTGATAGGTAGACTAA
1 AAGGTAAAGAAGTCTTTAAGGTCAAAGCTGACAGGCAGACT-A
* * ** *
853259 AAGGAAAAAAAGTCTTCGAGGTCAAAGCTGATAGGCAGACTA
1 AAGGTAAAGAAGTCTTTAAGGTCAAAGCTGACAGGCAGACTA
** * * * *
853301 AAGAAAAAAAAGTCTTTATGGTTAAAG-TCGACAAGCAGACTA
1 AAGGTAAAGAAGTCTTTAAGGTCAAAGCT-GACAGGCAGACTA
* * * *
853343 AAGGTAAAGAAGT-TTTCAGTGTCGAAGCCGACAAGCAGACTA
1 AAGGTAAAGAAGTCTTTAAG-GTCAAAGCTGACAGGCAGACTA
** * * ** * *
853385 ACTGTAAAGAAATATTTAAGGTCAAAGCCAATAGGCATACTA
1 AAGGTAAAGAAGTCTTTAAGGTCAAAGCTGACAGGCAGACTA
* * *
853427 AAAGTAAAGAAGT-TTCT-AGGATCAAAG-TCGATAGGAAGACTA
1 AAGGTAAAGAAGTCTT-TAAGG-TCAAAGCT-GACAGGCAGACTA
* *
853469 AAGGCAAAAAAGT
1 AAGGTAAAGAAGT
853482 TAGAAGGGTT
Statistics
Matches: 210, Mismatches: 48, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
41 10 0.05
42 160 0.76
43 40 0.19
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (42 bp):
AAGGTAAAGAAGTCTTTAAGGTCAAAGCTGACAGGCAGACTA
Found at i:854146 original size:20 final size:19
Alignment explanation
Indices: 854123--854173 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
854113 TTAATTCAGA
854123 TTAAATTAGTTTTAAAAATT
1 TTAAATTA-TTTTAAAAATT
* * *
854143 TTAACTTATTTTATAAGTT
1 TTAAATTATTTTAAAAATT
854162 TTAGAATT-TTTT
1 TTA-AATTATTTT
854174 TCTATTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
TTAAATTATTTTAAAAATT
Found at i:857188 original size:20 final size:20
Alignment explanation
Indices: 857163--857216 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
857153 GTTTGAAGCA
* *
857163 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
*
857183 ATGTATCGATACAATGCGCC
1 ATGTATCGATACAATGCACC
857203 ATGTATCGATACAA
1 ATGTATCGATACAA
857217 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:857856 original size:20 final size:22
Alignment explanation
Indices: 857831--857876 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
857821 AGGCTCTCGT
* *
857831 TAAAAAT-TTT-TTCCCTTTGA
1 TAAAAATATTTCTCCCCCTTGA
857851 TAAAAATATTTCTCCCCCTTGA
1 TAAAAATATTTCTCCCCCTTGA
857873 TAAA
1 TAAA
857877 CGGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 12 0.55
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (22 bp):
TAAAAATATTTCTCCCCCTTGA
Found at i:863415 original size:21 final size:20
Alignment explanation
Indices: 863375--863413 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
863365 TTAAGTATAA
863375 ATATTTTTCAAGCATTAAATC
1 ATATTTTTCAAG-ATTAAATC
863396 ATATATTTTCAAG-TTAAA
1 ATAT-TTTTCAAGATTAAA
863414 ATAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATTTTTCAAGATTAAATC
Found at i:863553 original size:13 final size:13
Alignment explanation
Indices: 863535--863559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
863525 TATATTGCTT
863535 TGTATCGATACAG
1 TGTATCGATACAG
863548 TGTATCGATACA
1 TGTATCGATACA
863560 TGATCTTAGT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:863573 original size:19 final size:20
Alignment explanation
Indices: 863549--863601 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
863539 TCGATACAGT
*
863549 GTATCGATACATGAT-CTTA
1 GTATCGATACATGATAATTA
* *
863568 GTATCGATACACGATAATTT
1 GTATCGATACATGATAATTA
863588 GTATCGATACATGA
1 GTATCGATACATGA
863602 AACTAGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGATAATTA
Found at i:863593 original size:20 final size:19
Alignment explanation
Indices: 863548--863598 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
863538 ATCGATACAG
* *
863548 TGTATCGATACATGATCTT
1 TGTATCGATACACGATATT
*
863567 AGTATCGATACACGATAATT
1 TGTATCGATACACGAT-ATT
863587 TGTATCGATACA
1 TGTATCGATACA
863599 TGAAACTAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
TGTATCGATACACGATATT
Found at i:865200 original size:17 final size:17
Alignment explanation
Indices: 865168--865210 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
865158 AAAATTTATG
865168 TAAATAATATTCATCTAA
1 TAAAT-ATATTCATCTAA
*
865186 TAAATATATTTATCTAA
1 TAAATATATTCATCTAA
*
865203 TAATTATA
1 TAAATATA
865211 AAATTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATATATTCATCTAA
Found at i:867050 original size:20 final size:20
Alignment explanation
Indices: 867025--867078 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
867015 TTGACCCAGA
*
867025 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
867045 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
867065 TGTATCGATACATT
1 TGTATCGATACATT
867079 CATGCATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:869479 original size:51 final size:51
Alignment explanation
Indices: 869416--869535 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
869406 TTATTTCCAA
* *
869416 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAAATTTTCACAATC
* *
869467 GGGGATATTCCAACCTCGGTTTTATTTTCAAAACACCAAATTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAATTTTCACAATC
*
869518 AGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
869536 TTATTTCATC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.93
52 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAATTTTCACAATC
Found at i:869551 original size:28 final size:28
Alignment explanation
Indices: 869519--869591 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
869509 TTCACAATCA
*
869519 GGGATACTCCAACCCCGTTATTTCATCG
1 GGGATACTCCAACCCCGTTATTTCAGCG
* * *
869547 GGGATACTCCAACCCCGTTGTTTCCGGG
1 GGGATACTCCAACCCCGTTATTTCAGCG
*
869575 GGGATACTTCAACCCCG
1 GGGATACTCCAACCCCG
869592 GCCTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCAGCG
Found at i:869678 original size:79 final size:78
Alignment explanation
Indices: 869543--869804 Score: 251
Period size: 79 Copynumber: 3.3 Consensus size: 78
869533 CCGTTATTTC
* * * ***
869543 ATCGGGGATACTCCAACCCCGTT-GTTTCCGGGGGGATACTTCAACCCCGGCCTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCCAA-CCCGATTTTATTTCTAAAA
** *
869607 CATTGATTTTTTATA
64 CACAGATTTTCTATA
* * * *
869622 ATTGGGGATACTCCAACCCCATTACTTTCGCGGGGATACTCCAATCCCGATTTTATTT-TGAAAC
1 ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAA-CCCGATTTTATTTCT-AAAA
* *
869686 CACAAAATTTCTATA
64 CACAGATTTTCTATA
* * *
869701 ATCGGGGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCCGGATTTTTATTTCT-AA
1 ATC-GGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCC-GA-TTTTATTTCTAAA
* *
869765 ACACCGATTTTCCATA
63 ACACAGATTTTCTATA
*
869781 ATCGGGGATACTCCAGCCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
869805 TTATCTCTAA
Statistics
Matches: 149, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 82 0.55
80 57 0.38
81 8 0.05
82 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCGATTTTATTTCTAAAACA
CAGATTTTCTATA
Found at i:875363 original size:27 final size:27
Alignment explanation
Indices: 875310--875365 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
875300 CAAATTCAAA
**
875310 AATGGGGTTGGAGTATCCCCTCGGAAT
1 AATGGGGTTGGAGTATCCCCGAGGAAT
*
875337 AATGGGGTTGGAGTATCCCCGATGAAT
1 AATGGGGTTGGAGTATCCCCGAGGAAT
875364 AA
1 AA
875366 CATTTGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (27 bp):
AATGGGGTTGGAGTATCCCCGAGGAAT
Found at i:876929 original size:28 final size:28
Alignment explanation
Indices: 876820--877640 Score: 651
Period size: 28 Copynumber: 28.1 Consensus size: 28
876810 TTTTTTTAAA
* *
876820 AAAAGATGCCACTAACTTGTGTGGGCTTTG
1 AAAAGGTGCCACTGAC-T-TGTGGGCTTTG
*
876850 AAAAGAGTTGCCAC-CATCTTGTGTGGGCTTT-
1 AAAAG-G-TGCCACTGA-C-T-TGTGGGCTTTG
876881 AAAAGGGTATGCCACTGACTTGTGGGCTTTG
1 AAAA-GG--TGCCACTGACTTGTGGGCTTTG
* *
876912 AAAAGGTGCCACTAACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
876940 GAGAGGTGCCACTGATTTGTATAGGCTTTG
1 AAAAGGTGCCACTGACTTG--TGGGCTTTG
* * *
876970 AAAGGGTATGCCACTGATTTGTATAGGCTTTG
1 AAAAGG--TGCCACTGACTTG--TGGGCTTTG
* *
877002 AAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
877030 AAAGGGTGCCACTAACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** ** *
877058 AATGGGTGCCACAAACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
877086 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
877114 AAAGGGTGGCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
877142 AAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
**** * *
877170 GCGGGGTGCCATTGATTTGTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTG--GGCTTTG
* *
877200 AAAGGGTATGCCACTGATTTGTGGGCTTTG
1 AAAAGG--TGCCACTGACTTGTGGGCTTTG
* *
877230 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
877258 AAAGGGTGCCACTAACTTGTGGGTTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
877286 AAAGGGTGCCACTAACTTGTGGTCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
877314 -AAAGGATGCCATTGACTTGTGGGCTTTT
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
877342 AAAGAGATGCCACTGACTTGTGGGCTTTG
1 AAA-AGGTGCCACTGACTTGTGGGCTTTG
* *
877371 AAAGAAGTTGCCATTGACTTGTGTGGGCTTTG
1 -AA-AAGGTGCCACTGAC-T-TGTGGGCTTTG
* *
877403 AAAAGATGCCATTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
**
877431 AAAAGAGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAG-G-TGCCACTGAC-T-TGTGGGCTTTG
*
877463 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
877491 AAGAGATGTCACT-ACCTTGTGGGCTTTG
1 AAAAGGTGCCACTGA-CTTGTGGGCTTTG
* *
877519 AAAGGAGTTGCCACCGACTTATGTGGGCTTTG
1 AAA--AGGTGCCACTGAC-T-TGTGGGCTTTG
* * *
877551 AAAAGATGCCACTGACTTGTGGGTTTTAA
1 AAAAGGTGCCACTGACTTGTGGGCTTT-G
* *
877580 AAAAGGTTGCCACCGACTTGTGTGACCTTTG
1 AAAAGG-TGCCACTGACTTGTG-G-GCTTTG
** * *
877611 AAAAAATGCCACTAACTTGTGAGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
877639 AA
1 AA
877641 GAGATGAACA
Statistics
Matches: 671, Mismatches: 84, Indels: 74
0.81 0.10 0.09
Matches are distributed among these distances:
27 5 0.01
28 345 0.51
29 30 0.04
30 151 0.23
31 23 0.03
32 116 0.17
33 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:876953 original size:56 final size:56
Alignment explanation
Indices: 876820--877640 Score: 647
Period size: 60 Copynumber: 14.0 Consensus size: 56
876810 TTTTTTTAAA
* * * *
876820 AAAAGATGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCATCTTGTGTGGGCTTT-
1 AAAAGGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTAAC-T-TGTGGGCTTTG
*
876881 AAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGCTTTG
1 AAAA-GG--TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
* * * * * * * *
876940 GAGAGGTGCCACTGATTTGTATAGGCTTTGAAAGGGTATGCCACTGATTTGTATAGGCTTTG
1 AAAAGGTGCCACTGACTTG--TGGGCTTTGAAAAGG--TGCCACTAACTTG--TGGGCTTTG
* * * *
877002 AAAGGGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
** ** * * *
877058 AATGGGTGCCACAAACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
* * * * * *
877114 AAAGGGTGGCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
**** * * * * *
877170 GCGGGGTGCCATTGATTTGTGTAGGCTTTGAAAGGGTATGCCACTGATTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTG--GGCTTTGAAAAGG--TGCCACTAACTTGTGGGCTTTG
* * * *
877230 AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGTTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
* * * * * *
877286 AAAGGGTGCCACTAACTTGTGGTCTTTG-AAAGGATGCCATTGACTTGTGGGCTTTT
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTG
* * * *
877342 AAAGAGATGCCACTGACTTGTGGGCTTTGAAAGAAGTTGCCATTGACTTGTGTGGGCTTTG
1 AAA-AGGTGCCACTGACTTGTGGGCTTTG-AA-AAGGTGCCACTAAC-T-TGTGGGCTTTG
* * *
877403 AAAAGATGCCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-G-TGCCACTAAC-T-TGTGGGCTTTG
* * * * *
877463 AAAAGATGCCACTGACTTGTGGGCTTTGAAGAGATGTCACTACCTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
* * * * * *
877519 AAAGGAGTTGCCACCGACTTATGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGTTTTAA
1 AAA--AGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTT-G
* * ** *
877580 AAAAGGTTGCCACCGACTTGTGTGACCTTTGAAAAAATGCCACTAACTTGTGAGCTTTG
1 AAAAGG-TGCCACTGACTTGTG-G-GCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
877639 AA
1 AA
877641 GAGATGAACA
Statistics
Matches: 639, Mismatches: 90, Indels: 64
0.81 0.11 0.08
Matches are distributed among these distances:
55 4 0.01
56 217 0.34
57 22 0.03
58 85 0.13
59 23 0.04
60 218 0.34
61 21 0.03
62 39 0.06
63 1 0.00
64 9 0.01
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (56 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG
Found at i:877527 original size:88 final size:84
Alignment explanation
Indices: 876871--877640 Score: 691
Period size: 88 Copynumber: 8.8 Consensus size: 84
876861 CACCATCTTG
* * * *
876871 TGTGGGCTTTAAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGC
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* *
876936 TTTGGAGAGG-TGCCACTGATT
64 TTT-GAAAGGATGCCACTGACT
* * * *
876957 TGTATAGGCTTTGAAAGGGTATGCCACTGATTTGTATAGGCTTTGAAAGGGTGCCACTGACTTAT
1 TG--TGGGCTTTGAAA-GG-ATGCCACTGACTTG--TGGGCTTTGAAAGGGTGCCACTGACTTGT
* *
877022 GGGCTTTGAAAGGGTGCCACTAACT
60 GGGCTTTGAAAGGATGCCACTGACT
* * * ** *
877047 TATGGGCTTTGAATGGGTGCCACAAACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
* * *
877112 TGAAAGGGTGGCACTAACT
66 TGAAAGGATGCCACTGACT
* * *** * *
877131 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGGCGGGGTGCCATTGATTTGTGTAGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG--GGC
*
877196 TTTGAAAGGGTATGCCACTGATT
64 TTTGAAA-GG-ATGCCACTGACT
* * * *
877219 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGTTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
* *
877284 TGAAAGGGTGCCACTAACT
66 TGAAAGGATGCCACTGACT
* * * *
877303 TGTGGTCTTTGAAAGGATGCCATTGACTTGTGGGCTTTTAAAGAGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG-GGTGCCACTGACTTGTGGGCT
* *
877368 TTGAAAGAAGTTGCCATTGACTT
65 TTGAAAG--GATGCCACTGAC-T
* * * **
877391 GTGTGGGCTTTGAAAAGATGCCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTG
1 -TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGAC-T-TGTG
*
877456 GGCTTTGAAAAGATGCCACTGACT
61 GGCTTTGAAAGGATGCCACTGACT
* *
877480 TGTGGGCTTTG-AAGAGATGTCACT-ACCTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTATGT
1 TGTGGGCTTTGAAAG-GATGCCACTGA-CTTGTGGGCTTTGAAAGG-G-TGCCACTGAC-T-TGT
*
877543 GGGCTTTGAAAAGATGCCACTGACT
60 GGGCTTTGAAAGGATGCCACTGACT
* * * * * *** * *
877568 TGTGGGTTTTAAAAAAGGTTGCCACCGACTTGTGTGACCTTTGAAAAAATGCCACTAACTTGTGA
1 TGTGGGCTTT--GAAAGGATGCCACTGACTTGTG-G-GCTTTGAAAGGGTGCCACTGACTTGTGG
877633 GCTTTGAA
62 GCTTTGAA
877641 GAGATGAACA
Statistics
Matches: 574, Mismatches: 83, Indels: 52
0.81 0.12 0.07
Matches are distributed among these distances:
84 149 0.26
85 27 0.05
86 31 0.05
87 20 0.03
88 189 0.33
89 43 0.07
90 87 0.15
91 6 0.01
92 22 0.04
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (84 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTGACT
Found at i:878885 original size:15 final size:14
Alignment explanation
Indices: 878865--878945 Score: 90
Period size: 15 Copynumber: 5.4 Consensus size: 14
878855 CCTAGACGCC
878865 TTTTTTGTTTGTTTT
1 TTTTTTGTTT-TTTT
*
878880 TTTTTTGTTTTTGGT
1 TTTTTTGTTTTT-TT
878895 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
*
878909 TCTTGTTGTTTTGTTT
1 T-TTTTTGTTTT-TTT
*
878925 TTTTTGGTTTTTTAT
1 TTTTTTGTTTTTT-T
878940 TTTTTT
1 TTTTTT
878946 TGGGTACGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
14 6 0.11
15 46 0.82
16 4 0.07
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (14 bp):
TTTTTTGTTTTTTT
Done.