Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 5 of 11
Found at i:796970 original size:12 final size:11
Alignment explanation
Indices: 796930--797044 Score: 70
Period size: 10 Copynumber: 10.9 Consensus size: 11
796920 TTCTTTTTTA
796930 AAAAAACAAA-
1 AAAAAACAAAC
796940 AAACAAA-AAAC
1 AAA-AAACAAAC
796951 GAAAAAAACAAAGC
1 --AAAAAACAAA-C
* *
796965 -AAAAA-ATAG
1 AAAAAACAAAC
*
796974 AAAAAAGAAAC
1 AAAAAACAAAC
*
796985 AAAAAA-ACA-
1 AAAAAACAAAC
796994 AAAAAAC-AAC
1 AAAAAACAAAC
797004 AAAAAACAAAGC
1 AAAAAACAAA-C
797016 AAAAAAC-AA-
1 AAAAAACAAAC
*
797025 AAAACA-AAAC
1 AAAAAACAAAC
797035 AAAAAACAAA
1 AAAAAACAAA
797045 AGAAAAAAGA
Statistics
Matches: 82, Mismatches: 8, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
9 14 0.17
10 27 0.33
11 23 0.28
12 11 0.13
13 6 0.07
14 1 0.01
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (11 bp):
AAAAAACAAAC
Found at i:796977 original size:19 final size:19
Alignment explanation
Indices: 796930--797058 Score: 100
Period size: 19 Copynumber: 7.3 Consensus size: 19
796920 TTCTTTTTTA
796930 AAAAAACAAAAAACAAA--
1 AAAAAACAAAAAACAAAGC
**
796947 AAACGA-AAAAAACAAAGC
1 AAAAAACAAAAAACAAAGC
* *
796965 AAAAAA-TAGAAA-AAAG-
1 AAAAAACAAAAAACAAAGC
*
796981 -AAACA-AAAAAACAAA--
1 AAAAAACAAAAAACAAAGC
796996 AAAACAACAAAAAACAAAGC
1 AAAA-AACAAAAAACAAAGC
*
797016 AAAAAACAAAAAACAAAAC
1 AAAAAACAAAAAACAAAGC
*
797035 AAAAAACAAAAGAAAAAAG-
1 AAAAAACAAAA-AACAAAGC
797054 AAAAA
1 AAAAA
797059 GAGAGAAAAG
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
15 8 0.09
16 16 0.18
17 9 0.10
18 18 0.20
19 30 0.33
20 9 0.10
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.01
Consensus pattern (19 bp):
AAAAAACAAAAAACAAAGC
Found at i:797045 original size:12 final size:12
Alignment explanation
Indices: 796932--797057 Score: 84
Period size: 12 Copynumber: 10.3 Consensus size: 12
796922 CTTTTTTAAA
796932 AAAACAAAAAAC
1 AAAACAAAAAAC
796944 AAAAAACGAAAAAAAC
1 --AAAAC--AAAAAAC
* *
796960 AAAGCAAAAAAT
1 AAAACAAAAAAC
796972 AGAAA-AAAGAAAC
1 A-AAACAAA-AAAC
796985 AAAA-AAACAAA-
1 AAAACAAA-AAAC
*
796996 AAAAC-AACAA-
1 AAAACAAAAAAC
*
797006 AAAACAAAGCAA-
1 AAAACAAA-AAAC
797018 AAAACAAAAAAC
1 AAAACAAAAAAC
797030 AAAACAAAAAAC
1 AAAACAAAAAAC
* *
797042 AAAAGAAAAAAG
1 AAAACAAAAAAC
797054 AAAA
1 AAAA
797058 AGAGAGAAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
10 7 0.07
11 10 0.11
12 56 0.59
13 6 0.06
14 9 0.09
16 7 0.07
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.01
Consensus pattern (12 bp):
AAAACAAAAAAC
Found at i:797052 original size:7 final size:7
Alignment explanation
Indices: 796930--797072 Score: 62
Period size: 7 Copynumber: 19.6 Consensus size: 7
796920 TTCTTTTTTA
*
796930 AAAAAAC
1 AAAAAAG
*
796937 AAAAAAC
1 AAAAAAG
796944 AAAAAACG
1 AAAAAA-G
796952 AAAAAA-
1 AAAAAAG
796958 ACAAAGCAA-
1 A-AAA--AAG
*
796967 AAAATAG
1 AAAAAAG
796974 AAAAAAG
1 AAAAAAG
796981 AAACAAA-
1 AAA-AAAG
*
796988 AAAACA-
1 AAAAAAG
*
796994 AAAAAAC
1 AAAAAAG
797001 AACAAAA-
1 AA-AAAAG
*
797008 AACAAAG
1 AAAAAAG
*
797015 CAAAAAAC
1 -AAAAAAG
*
797023 AAAAAACA
1 AAAAAA-G
*
797031 AAACAAAA
1 AAA-AAAG
797039 AACAAAAG
1 AA-AAAAG
797047 AAAAAAG
1 AAAAAAG
797054 AAAAAGAG
1 AAAAA-AG
*
797062 AGAAAAG
1 AAAAAAG
797069 AAAA
1 AAAA
797073 GAACCTGCTT
Statistics
Matches: 110, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
6 12 0.11
7 53 0.48
8 38 0.35
9 7 0.06
ACGTcount: A:0.81, C:0.10, G:0.08, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:798070 original size:39 final size:38
Alignment explanation
Indices: 798011--798086 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 38
798001 ATCTAAACTT
*
798011 TCTCCTTTCACTTTCCAGTCCTTAAAGAGCAGGACGCTC
1 TCTCCTTTCACTTT-CAGTCCTCAAAGAGCAGGACGCTC
798050 TCTCCTTTCACCCTTT-AGTCCTCAAAGAGCAGGACGC
1 TCTCCTTTCA--CTTTCAGTCCTCAAAGAGCAGGACGC
798087 CTTTCAAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 30 0.88
41 4 0.12
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (38 bp):
TCTCCTTTCACTTTCAGTCCTCAAAGAGCAGGACGCTC
Found at i:798210 original size:61 final size:60
Alignment explanation
Indices: 798062--798759 Score: 777
Period size: 61 Copynumber: 11.6 Consensus size: 60
798052 TCCTTTCACC
* *
798062 CTTT-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACCCAAGCTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
798115 CTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
798175 CTTCTCAATCCTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTT-TCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
798236 CTTCTCAGTCCTTAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTT-TCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
798297 CTTCCCCA-TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGACA
1 CTT--TCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** *
798358 TTTTTCAGTCTTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTGCACAAGTTGGAGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
798419 TTTTCTAGTCCTCAAAGAGCAAGAAGCCTTTGCCTTTCAAAGCCCTCATAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** * *
798480 TTTTTCAATCCTTAAAGAGCAGGACACCTTCGCCTTTCAAAGCCCACACAAGCTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
798541 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAACCTACACAAGCTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
798601 CCTTCAGTCCTCAAAGAGTAGGATGCCTTTT-CTTTTCAAAGTCCACACGAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
798661 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
798722 CTTTTTAGTCTTCGAAGAGCAGGATGCCTTTTCCTTTT
1 C-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
798760 CTCCTTTATC
Statistics
Matches: 564, Mismatches: 64, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
53 4 0.01
54 21 0.04
55 3 0.01
56 1 0.00
59 4 0.01
60 130 0.23
61 386 0.68
62 15 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (60 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:798826 original size:45 final size:45
Alignment explanation
Indices: 798755--799028 Score: 232
Period size: 45 Copynumber: 6.2 Consensus size: 45
798745 ATGCCTTTTC
*
798755 CTTTTCTCC-TTTATCCTCAAAGAGCAGGACACATTTCATTTCCTT
1 CTTTTC-CCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT
* * *
798800 CGTTTCCCTTTTGTCTTCATAGAGCAGGATGCAC-TTT-ATTTTCC-T
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGA--CACATTTCA-TTTCCTT
* *
798845 C--TTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT
* * * *
798888 ATTTTCCCCTTTTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTT
1 CTTTT-CCC-TTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT
*
798935 CTTTTCCCTTTTGTCCTCAAAGAGCAGGGCGA-ACTTT-ATTTTCC-T
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGAC-ACA-TTTCA-TTTCCTT
* ** *
798980 -TTTT--CTTTTATCCTCAAAGAGCAGGACGTATTTCGTTTTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTC-ATTTCCTT
799023 -TTTTCC
1 CTTTTCC
799029 TTTGTCATCT
Statistics
Matches: 186, Mismatches: 23, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
41 6 0.03
42 34 0.18
43 30 0.16
44 6 0.03
45 50 0.27
46 20 0.11
47 40 0.22
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (45 bp):
CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT
Found at i:798873 original size:88 final size:90
Alignment explanation
Indices: 798750--798962 Score: 270
Period size: 88 Copynumber: 2.4 Consensus size: 90
798740 GCAGGATGCC
* * * * * *
798750 TTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTTCGTTT-CCC-TTTTG
1 TTTTCCTCTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTAGTTTCCCCTTTTTA
* * * *
798813 TCTTCATAGAGCAGGATGCACTTTA
66 TCCTCAAAGAGCAGGACGCACTTCA
*
798838 TTTTCCTCTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTATTTTCCCCTTTTTA
1 TTTTCCTCTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTAGTTTCCCCTTTTTA
798903 TCCTCAAAGAGCAGGACGCACTTCA
66 TCCTCAAAGAGCAGGACGCACTTCA
*
798928 -TTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGG
1 TTTTCC-TC--TTCTCTTTTGTCCTCAAAGAGCAGG
798963 GCGAACTTTA
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
88 49 0.45
89 8 0.07
90 27 0.25
92 24 0.22
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.40
Consensus pattern (90 bp):
TTTTCCTCTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTAGTTTCCCCTTTTTA
TCCTCAAAGAGCAGGACGCACTTCA
Found at i:799022 original size:135 final size:134
Alignment explanation
Indices: 798764--799006 Score: 380
Period size: 135 Copynumber: 1.8 Consensus size: 134
798754 CCTTTTCTCC
* * *
798764 TTTATCCTCAAAGAGCAGGACACATTTCATTTCCTTCGTTTCCCTTTTGTCTTCATAGAGCAGGA
1 TTTATCCTCAAAGAGCAGGACACACTTCATTTCCTTCGTTTCCCTTTTGTCCTCAAAGAGCAGGA
* * *
798829 TGCACTTTATTTTCCTCTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTATTTTC
66 CGAACTTTATTTTCCTCTTCTCTTTTATCCTCAAAGAGCAGGACACATTCCATTTCCTT-TTTTC
798894 CCCTT
130 CCCTT
* * *
798899 TTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGG
1 TTTATCCTCAAAGAGCAGGACACACTTCATTTCCTTCGTTTCCCTTTTGTCCTCAAAGAGCAGGA
*
798964 CGAACTTTATTTTCCT-TTTTCTTTTATCCTCAAAGAGCAGGAC
66 CGAACTTTATTTTCCTCTTCTCTTTTATCCTCAAAGAGCAGGAC
799007 GTATTTCGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
134 25 0.26
135 73 0.74
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (134 bp):
TTTATCCTCAAAGAGCAGGACACACTTCATTTCCTTCGTTTCCCTTTTGTCCTCAAAGAGCAGGA
CGAACTTTATTTTCCTCTTCTCTTTTATCCTCAAAGAGCAGGACACATTCCATTTCCTTTTTTCC
CCTT
Found at i:800091 original size:21 final size:21
Alignment explanation
Indices: 800062--800104 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
800052 CAGTCTCAGG
* *
800062 TTCAGGACCACCACACTGCAT
1 TTCAAGACCACCACACTACAT
800083 TTCAAGACCACCACACTACAT
1 TTCAAGACCACCACACTACAT
800104 T
1 T
800105 GCAGAACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.37, G:0.09, T:0.21
Consensus pattern (21 bp):
TTCAAGACCACCACACTACAT
Found at i:802220 original size:51 final size:49
Alignment explanation
Indices: 802135--802364 Score: 203
Period size: 51 Copynumber: 4.5 Consensus size: 49
802125 AAATTTCTAG
* * * * *
802135 ATTTTTCATCTCGAGGATACTCCAGCCCCAATTTTATTTCTAAAATACCA
1 ATTTTTCATATCG-GGATACTCCAACTCCGATTTTATTTCCAAAATACCA
*
802185 ATTTTCCATGATCGGGCATACTCCAACTCCGATTTTATTTCCAAAATACCA
1 ATTTTTCAT-ATCGGG-ATACTCCAACTCCGATTTTATTTCCAAAATACCA
* * * * *
802236 ATTTTTCTTAATCGGGGATATTCCAACTCCGATATTATTTCTAAAGCAT-CGA
1 ATTTTTCAT-ATC-GGGATACTCCAACTCCGATTTTATTTCCAAA--ATACCA
* **
802288 TTTTTTTCA-ATCAGGGATACTCCAACTCCGATTTTATTTCCAAAGCACCA
1 -ATTTTTCATATC-GGGATACTCCAACTCCGATTTTATTTCCAAAATACCA
* *
802338 ATTTTTCACAATCAGGAGTACTCCAAC
1 ATTTTTCA-TATCGGGA-TACTCCAAC
802365 CCCATTATTT
Statistics
Matches: 146, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
49 7 0.05
50 15 0.10
51 111 0.76
52 5 0.03
53 8 0.05
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (49 bp):
ATTTTTCATATCGGGATACTCCAACTCCGATTTTATTTCCAAAATACCA
Found at i:803877 original size:13 final size:13
Alignment explanation
Indices: 803859--803883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
803849 CATAAAGTCT
803859 TGTATCGATACAA
1 TGTATCGATACAA
803872 TGTATCGATACA
1 TGTATCGATACA
803884 TATTTTTTTG
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:803881 original size:33 final size:33
Alignment explanation
Indices: 803839--803905 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
803829 TTCAACGATT
803839 TGTATCGATACATAAAGTCTTGTATCGATACAA
1 TGTATCGATACATAAAGTCTTGTATCGATACAA
*** *
803872 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTCTTGTATCGATACAA
803905 T
1 T
803906 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTCTTGTATCGATACAA
Found at i:804035 original size:52 final size:52
Alignment explanation
Indices: 803979--804107 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
803969 CACTGATCTT
* *
803979 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
804031 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
804083 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
804108 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:815972 original size:52 final size:52
Alignment explanation
Indices: 815912--816040 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
815902 CACTGATCTT
*
815912 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
815964 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
816016 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
816041 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:828063 original size:28 final size:28
Alignment explanation
Indices: 828005--828679 Score: 779
Period size: 28 Copynumber: 23.5 Consensus size: 28
827995 TGTTCATCTC
* *
828005 TTCAAAGCCCATAGGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
**
828032 CTTCAAAAAACCACAAGTCAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
828062 TCTCAAAGCCCATAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
828091 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
828119 ATCAAAGTCGACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
828147 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
828175 TTCAAAGCCCACAAGTGAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
828203 TTTAAATCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
828231 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
828259 TTCAAAGCCCAC-AGTTAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
828287 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
828315 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
828344 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
828373 TCTTAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
828402 TTCAAAGCCCAAAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
828430 TTCAAAGCCCACAAGTTAGTGGCGTCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
828458 TTCAAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
828486 TTCAAAACGCACAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
828514 TTCAAAGCCCACAAGTTAGTGACACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
828543 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
* *
828573 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
*
828603 TTCAAAGCCCATACAAGTC-GATGGCAACTCTT
1 TTCAAAGCCC--ACAAGTCAG-TGGC-A-TCCT
*
828635 TTCAAAGCCCACACAAGTC-GATGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAG-TGGC-A-TCCT
828667 TTCAAAGCCCACA
1 TTCAAAGCCCACA
828680 CAAGTTAGTC
Statistics
Matches: 580, Mismatches: 47, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
27 18 0.03
28 291 0.50
29 165 0.28
30 48 0.08
31 5 0.01
32 50 0.09
33 2 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:828676 original size:64 final size:64
Alignment explanation
Indices: 828258--828737 Score: 241
Period size: 56 Copynumber: 8.1 Consensus size: 64
828248 AGTGGCATCC
* * *
828258 TTTCAAAGCCC-AC-AGT-TAGTGGCATC-CTTTTCAAAG-CC-CACAAGTC-AGTGGCATC-CT
1 TTTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGA-TGGTAACTCT
* * * * *
828315 TCTCAAAGCCC-ACAAGTC-AGTGGCATC-CTTCTCAAAG-CC-CACAAGTC-AGTGGCATC-CT
1 TTTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGA-TGGTAACTCT
* *
828373 TCTT-AAAGCCC-ACAAGTC-AGTGGC-A-TCCTTTCAAAGCCCA-A-AAGTC-AGTGG-CAC-C
1 T-TTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGA-TGGTAACTC
828428 T
64 T
* * * * * *
828429 TTTCAAAGCCC-ACAAGT-TAGTGGC--GTCCTTTCAAAG-CC-CATAAGT-TAGTGG-CA-TCC
1 TTTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGA-TGGTAACTCT
* * * *
828485 TTTCAAAACGC-ACAAGTC-AGTGGC-AC-CTTTTCAAAG-CC-CACAAGT---TAGTGACACCC
1 TTTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGATGGT-A-ACTC
828541 T
64 T
*
828542 TTTCAAAGCCC-ACAAG-CTAGTGGTAACTCTTTTCAAAG-CC-CACAAGTC-AGTGGTAACTCT
1 TTTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGA-TGGTAACTCT
* *
828602 TTTCAAAGCCCATACAAGTCGA-TGGCAACTCTTTTCAAAGCCCACACAAGTCGATGGCAACTCT
1 TTTCAAAGCCCA-ACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGATGGTAACTCT
* * * * * * *
828666 TTTCAAAGCCCACACAAGT-TAGTCGCACCTTTTTTTAAAAGCCCACGCAAGTCGGTGGTAACCC
1 TTTCAAAGCCCA-ACAAGTCTAGTGGCAAC-TCTTTTCAAAGCCCACACAAGTCGATGGTAACTC
828730 T
64 T
828731 TTTCAAA
1 TTTCAAA
828738 TCACCGCTTT
Statistics
Matches: 354, Mismatches: 36, Indels: 58
0.79 0.08 0.13
Matches are distributed among these distances:
53 2 0.01
55 5 0.01
56 86 0.24
57 50 0.14
58 68 0.19
59 20 0.06
60 15 0.04
61 1 0.00
62 25 0.07
63 5 0.01
64 40 0.11
65 37 0.10
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (64 bp):
TTTCAAAGCCCAACAAGTCTAGTGGCAACTCTTTTCAAAGCCCACACAAGTCGATGGTAACTCT
Found at i:828838 original size:45 final size:47
Alignment explanation
Indices: 828768--828876 Score: 114
Period size: 49 Copynumber: 2.3 Consensus size: 47
828758 AAGTCCGATA
* * *
828768 TCGTTGGCATTGAATCAACATATTGG-CACCTTT-ATTAGCCTAATG
1 TCGTTGGCCTTGAATCAACACATTGGCCACCTTTCATTAGCCCAATG
** *
828813 TCGTTGGCCTTGAATCAGTACATTGGTCCACCTTTCCCTTAGCCCAATG
1 TCGTTGGCCTTGAATCAACACATTGG-CCACCTTT-CATTAGCCCAATG
* *
828862 TCGCTAGCCTTGAAT
1 TCGTTGGCCTTGAAT
828877 TGGCACATCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
45 22 0.42
47 7 0.13
49 23 0.44
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (47 bp):
TCGTTGGCCTTGAATCAACACATTGGCCACCTTTCATTAGCCCAATG
Found at i:829604 original size:20 final size:20
Alignment explanation
Indices: 829579--829696 Score: 168
Period size: 20 Copynumber: 5.9 Consensus size: 20
829569 TTTTTACCCA
*
829579 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
* *
829599 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
*
829619 AATGTATTGATACATTCTTC
1 AATGTATCGATACATTCTTC
829639 AATGTATCGATACATTCTT-
1 AATGTATCGATACATTCTTC
829658 AAGTGTATCGATACATTCTTC
1 AA-TGTATCGATACATTCTTC
829679 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
829697 GTCTTTTTAC
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.03
20 82 0.93
21 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:829634 original size:40 final size:39
Alignment explanation
Indices: 829579--829765 Score: 185
Period size: 40 Copynumber: 4.9 Consensus size: 39
829569 TTTTTACCCA
*
829579 AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
1 AATGTATCGATACATTCTTCAATGTATCGATACAT-TATG
* * *
829619 AATGTATTGATACATTCTTCAATGTATCGATACATTCTT
1 AATGTATCGATACATTCTTCAATGTATCGATACATTATG
*
829658 AAGTGTATCGATACATTCTTCAATGTATCGATACATTCTG
1 AA-TGTATCGATACATTCTTCAATGTATCGATACATTATG
* **
829698 --TCT-T-TTTAC---C-T-AGATGTATCGATACATGTATG
1 AATGTATCGATACATTCTTCA-ATGTATCGATACAT-TATG
* *
829730 AATGTATGGATACATTCTTCAATGTATCGATGCATT
1 AATGTATCGATACATTCTTCAATGTATCGATACATT
829766 CTGTCCTTTT
Statistics
Matches: 121, Mismatches: 14, Indels: 25
0.76 0.09 0.16
Matches are distributed among these distances:
30 1 0.01
31 15 0.12
32 4 0.03
34 2 0.02
35 4 0.03
36 4 0.03
37 2 0.02
39 6 0.05
40 82 0.68
41 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (39 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTATG
Found at i:829736 original size:71 final size:70
Alignment explanation
Indices: 829640--829815 Score: 253
Period size: 71 Copynumber: 2.5 Consensus size: 70
829630 ACATTCTTCA
* * *
829640 ATGTATCGATACATTCTTAAGTGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATTATCAA-TGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
*
829705 ACCTAG
65 ACCCAG
* * *
829711 ATGTATCGATACATGTATGAATGTATGGATACATTCTTCAATGTATCGATGCATTCTGTCCTTTT
1 ATGTATCGATACAT-TATCAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
829776 ACCCAG
65 ACCCAG
*
829782 ATGTATCAATACATTATTCAATGTATCGATACAT
1 ATGTATCGATACATTA-TCAATGTATCGATACAT
829816 CTAGTTAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
70 2 0.02
71 88 0.94
72 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (70 bp):
ATGTATCGATACATTATCAATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTTA
CCCAG
Found at i:829753 original size:20 final size:20
Alignment explanation
Indices: 829711--829767 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
829701 TTTTACCTAG
* *
829711 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
829731 ATGTATGGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
829751 ATGTATCGATGCATTCT
1 ATGTATCGATACATTCT
829768 GTCCTTTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:843580 original size:9 final size:9
Alignment explanation
Indices: 843566--843681 Score: 107
Period size: 9 Copynumber: 13.0 Consensus size: 9
843556 GGCATCCTTC
843566 ACAAAAAAA
1 ACAAAAAAA
843575 AC-AAAAAA
1 ACAAAAAAA
* * *
843583 A-AAGAGAG
1 ACAAAAAAA
843591 ACAAAAAAA
1 ACAAAAAAA
*
843600 A-ACAAACAA
1 ACA-AAAAAA
*
843609 AC-AAGAAA
1 ACAAAAAAA
843617 ACAAAAAAA
1 ACAAAAAAA
843626 ACAAAAAAA
1 ACAAAAAAA
*
843635 GCAAACAAACA
1 ACAAA-AAA-A
843646 A-AAAAAAA
1 ACAAAAAAA
843654 ACAAAAAAA
1 ACAAAAAAA
843663 ACAAAAAAA
1 ACAAAAAAA
843672 ACAACAAAAA
1 ACAA-AAAAA
843682 GGGTTCGGAT
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
8 20 0.23
9 54 0.63
10 11 0.13
11 1 0.01
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:843597 original size:26 final size:25
Alignment explanation
Indices: 843568--843681 Score: 114
Period size: 22 Copynumber: 4.7 Consensus size: 25
843558 CATCCTTCAC
*
843568 AAAAAAAACAAAAAAAAAGAGAGACA
1 AAAAAAAACAAAAAAAAAGA-AAACA
*
843594 AAAAAAAACAAACAAACAAGAAAAC-
1 AAAAAAAACAAA-AAAAAAGAAAACA
*
843619 AAAAAAAAC--AAAAAAAGCAAACA
1 AAAAAAAACAAAAAAAAAGAAAACA
*
843642 AACAAAAAA-AAAACAAAA-AAAAC-
1 AA-AAAAAACAAAAAAAAAGAAAACA
*
843665 AAAAAAAACAACAAAAA
1 AAAAAAAACAAAAAAAA
843682 GGGTTCGGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
22 16 0.22
23 11 0.15
24 10 0.14
25 15 0.20
26 15 0.20
27 7 0.09
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (25 bp):
AAAAAAAACAAAAAAAAAGAAAACA
Found at i:843681 original size:1 final size:1
Alignment explanation
Indices: 843568--843672 Score: 57
Period size: 1 Copynumber: 105.0 Consensus size: 1
843558 CATCCTTCAC
* * * * * * * * * * *
843568 AAAAAAAACAAAAAAAAAGAGAGACAAAAAAAAACAAACAAACAAGAAAACAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * *
843633 AAGCAAACAAACAAAAAAAAAACAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
843673 CAACAAAAAG
Statistics
Matches: 71, Mismatches: 33, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:844745 original size:37 final size:37
Alignment explanation
Indices: 844704--844788 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
844694 TGCCACAATC
844704 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
844741 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
844778 ATGCATTTGTG
1 ATGCATTTGTG
844789 CTTCATCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:845244 original size:57 final size:55
Alignment explanation
Indices: 845147--845411 Score: 311
Period size: 57 Copynumber: 4.7 Consensus size: 55
845137 GGCATTCCTC
* * *
845147 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAGGTCAGTGGCA
1 ACCTT-CAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCA
* * * *
845204 ACCTTCAGAAGCCCACAAATCAGTGGCACCCCCTTC-AAAGCCCACAAGTTAATGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCA--ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
845261 ACCTTCAAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTC-AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA
* *
845317 ACCTTCAAAGTCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGGCAGTGGCA
1 ACCTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
845371 ACCTTCAAAAGCACACAATTCGGT-GCAACCCTTTCAAAAGC
1 ACCTTC-AAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGC
845412 TTGCACAAGT
Statistics
Matches: 181, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
54 30 0.17
55 45 0.25
56 30 0.17
57 71 0.39
58 4 0.02
59 1 0.01
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (55 bp):
ACCTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:845403 original size:28 final size:28
Alignment explanation
Indices: 845147--845411 Score: 322
Period size: 28 Copynumber: 9.4 Consensus size: 28
845137 GGCATTCCTC
*
845147 ACCTTCCAAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
845175 TCTTTTCAAAAGCCCACAGGTCAGTGGCA
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
* *
845204 ACCTTCAGAAGCCCACAAATCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
845232 CCCCCTTC-AAAGCCCACAAGTTAATGGCA
1 --ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
845261 ACCTTCAAAAGCCCACAAGTTAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
845289 ACCTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
845317 ACCTTC-AAAGTCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
845344 ACCTTC-AAAGCCCACAAGGCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
845371 ACCTTCAAAAGCACACAATTCGGT-GCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
845398 ACCCTTTCAAAAGC
1 A-CC-TTCAAAAGC
845412 TTGCACAAGT
Statistics
Matches: 206, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
27 60 0.29
28 91 0.44
29 50 0.24
30 5 0.02
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (28 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:845509 original size:49 final size:48
Alignment explanation
Indices: 845433--845740 Score: 229
Period size: 39 Copynumber: 6.9 Consensus size: 48
845423 GGTGGCATCT
* * * *
845433 TCTTCTAAGTCCAATATCACTGACCTTGAATCAGCATATTGGCATCTTTA
1 TCTT-TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA
*
845483 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--C---A
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACTTTA
* * * *
845526 -C---AAGCCCAATATTGCTGGCCTTGAATCAGCATATTAGCACCTTTA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA
* *
845571 TCTTTAAGACCAATGTCGCTGACCTTGAATCAGCACATTGG--C---A
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACTTTA
* * *
845614 -C---AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA
* * *
845659 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGG--C---A
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACTTTA
*
845702 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
845741 TTCTTCTCAT
Statistics
Matches: 205, Mismatches: 31, Indels: 53
0.71 0.11 0.18
Matches are distributed among these distances:
39 94 0.46
42 5 0.02
43 3 0.01
45 2 0.01
46 5 0.02
49 92 0.45
50 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACTTTA
Found at i:845597 original size:88 final size:88
Alignment explanation
Indices: 845443--845789 Score: 505
Period size: 88 Copynumber: 3.9 Consensus size: 88
845433 TCTTCTAAGT
* * * *
845443 CCAATATCACTGACCTTGAATCAGCATATTGGCATCTTTATCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGACCT
845508 TGAATCAGCACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* *
845531 CCAATATTGCTGGCCTTGAATCAGCATATTAGCACCTTTATCTTTAAGACCAATGTCGCTGACCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGACCT
845596 TGAATCAGCACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* * *
845619 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGACCT
*
845684 TGAATCAGTACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* * * * * *
845707 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-ATCTTTAAGACCAATGTCGCTGA
* *
845772 CCGTGAATTAGCACATTG
63 CCTTGAATCAGCACATTG
845790 ACATTCTTTA
Statistics
Matches: 232, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
88 196 0.84
89 3 0.01
90 1 0.00
91 32 0.14
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGACCT
TGAATCAGCACATTGGCACAAGC
Found at i:845831 original size:52 final size:52
Alignment explanation
Indices: 845723--845836 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 52
845713 TCGCTGGCCT
* * * *
845723 TGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTAACCG
1 TGAATCAGCACATTGACATTCTTCTCATCTTCAAGCCTAATATCACTAACCG
* * * *
845775 TGAATTAGCACATTGACATTCTT-TATATCTTTAAGCCTAATATCACTAGTCC-
1 TGAATCAGCACATTGACATTCTTCT-CATCTTCAAGCCTAATATCACTA-ACCG
845827 TGAATCAGCA
1 TGAATCAGCA
845837 TATTAGCACC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 1 0.02
52 48 0.94
53 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (52 bp):
TGAATCAGCACATTGACATTCTTCTCATCTTCAAGCCTAATATCACTAACCG
Found at i:846938 original size:32 final size:33
Alignment explanation
Indices: 846875--846939 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
846865 TTCAACGATT
846875 TGTATCGATACATAAAGTGTTCTATCGATACAA
1 TGTATCGATACATAAAGTGTTCTATCGATACAA
* *
846908 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTCTATCGATACAA
846940 CGTAAGCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTCTATCGATACAA
Found at i:846999 original size:13 final size:13
Alignment explanation
Indices: 846981--847005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
846971 ATTACTCAAA
846981 TGTATCGATACAT
1 TGTATCGATACAT
846994 TGTATCGATACA
1 TGTATCGATACA
847006 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:847018 original size:20 final size:20
Alignment explanation
Indices: 846993--847045 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
846983 TATCGATACA
846993 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
847013 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
847033 TTGTATCGATACA
1 TTGTATCGATACA
847046 TGCAGGCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:847162 original size:52 final size:52
Alignment explanation
Indices: 847034--847162 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
847024 CACTGATCTT
*
847034 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
847086 TGTATCGATACATGCAGGCGAATTTGCCCATATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
847138 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
847163 TCATATTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:862504 original size:29 final size:29
Alignment explanation
Indices: 862469--862744 Score: 365
Period size: 29 Copynumber: 9.4 Consensus size: 29
862459 TCACCCTTTA
*
862469 AAAGCCCACAAGTCAGTGGTATCTTTTAC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCC
*
862498 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGTATCTTTTCC
*
862527 AAAGCCCACAAGTCAGTGGTACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTA-TCTTTTCC
*
862557 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGTATCTTTTCC
* *
862586 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTA-TCTTTTCC
*
862616 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCC
* *
862645 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTA-TCTTTTCC
* * * *
862675 AAAGCCCACAAGTAAATGGTATCTCTTCA
1 AAAGCCCACAAGTCAGTGGTATCTTTTCC
* * *
862704 AAAGCCCACAAGTCAGTGGCAAC-TTTCA
1 AAAGCCCACAAGTCAGTGGTATCTTTTCC
*
862732 AAAGCACACAAGT
1 AAAGCCCACAAGT
862745 TGGTGCAACC
Statistics
Matches: 221, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
28 16 0.07
29 126 0.57
30 79 0.36
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGTATCTTTTCC
Found at i:862572 original size:59 final size:59
Alignment explanation
Indices: 862468--862724 Score: 426
Period size: 59 Copynumber: 4.4 Consensus size: 59
862458 CTCACCCTTT
* * *
862468 AAAAGCCCACAAGTCAGTGGTA-TCTTTTACAAAGCCCACAAGTCAGTGGTATCTTTTC
1 AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
*
862526 AAAAGCCCACAAGTCAGTGGTACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
1 AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
*
862585 AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
* * * *
862644 CAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTAAATGGTATCTCTTC
1 AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
862703 AAAAGCCCACAAGTCAGTGGCA
1 AAAAGCCCACAAGTCAGTGGCA
862725 ACTTTCAAAA
Statistics
Matches: 188, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
58 22 0.12
59 166 0.88
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (59 bp):
AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
Found at i:862764 original size:29 final size:27
Alignment explanation
Indices: 862700--862780 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 27
862690 ATGGTATCTC
* **
862700 TTCAAAAGCCCACAAGTCAGTGGCAACT
1 TTCAAAAGCACACAAGTTGGT-GCAACT
862728 TTCAAAAGCACACAAGTTGGTGCAACCCT
1 TTCAAAAGCACACAAGTTGGTGCAA--CT
*
862757 TTCAAAAGCCCACGCAAGTTGGTG
1 TTCAAAAG--CACACAAGTTGGTG
862781 GCATCTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
27 4 0.09
28 18 0.40
29 10 0.22
31 13 0.29
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (27 bp):
TTCAAAAGCACACAAGTTGGTGCAACT
Found at i:862783 original size:118 final size:115
Alignment explanation
Indices: 862468--862769 Score: 406
Period size: 118 Copynumber: 2.6 Consensus size: 115
862458 CTCACCCTTT
* * * *
862468 AAAAGCCCACAAGTCAGTGGTATCTTTTACAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCC
1 AAAAGCCCACAAGTCAGTGGCAACTTTCA-AAAGCCCACAAGTCAGT-GCATCTTTTCAAAAGCC
* * * *
862533 CACAAGTCAGTGGTACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTC
64 CACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTAAATGGTATCTCTTC
* * *
862585 AAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGC
1 AAAAGCCCACAAGTCAGTGGCA-AC-TTTCAAAAGCCCACAAGTCAGT-GCATCTTTTCAAAAGC
862650 CCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTAAATGGTATCTCTTC
63 CCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTAAATGGTATCTCTTC
* ** * *
862703 AAAAGCCCACAAGTCAGTGGCAACTTTCAAAAGCACACAAGTTGGTGCAACCCTTTCAAAAGCCC
1 AAAAGCCCACAAGTCAGTGGCAACTTTCAAAAGCCCACAAGTCAGTGC-ATCTTTTCAAAAGCCC
862768 AC
65 AC
862770 GCAAGTTGGT
Statistics
Matches: 164, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
115 2 0.01
116 33 0.20
117 22 0.13
118 104 0.63
119 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (115 bp):
AAAAGCCCACAAGTCAGTGGCAACTTTCAAAAGCCCACAAGTCAGTGCATCTTTTCAAAAGCCCA
CAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTAAATGGTATCTCTTC
Found at i:862934 original size:92 final size:92
Alignment explanation
Indices: 862784--863635 Score: 1283
Period size: 92 Copynumber: 9.1 Consensus size: 92
862774 GTTGGTGGCA
* *
862784 TCTTCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAG
1 TCTTCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAG
862849 CTGGCCTTGAATCAGCATATTGGCACCT
65 CTGGCCTTGAATCAGCATATTGGCACCT
862877 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
1 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
862942 TGGCCTTGAATCAGCATATTGGCACCT
66 TGGCCTTGAATCAGCATATTGGCACCT
*
862969 TCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
1 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
863034 TGGCCTTGAATCAGCATATTGGCACCT
66 TGGCCTTGAATCAGCATATTGGCACCT
*
863061 TCTTCTTTAAGTCCAATGTAGCTGGCCTTCAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
1 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
863126 TGGCCTTGAATCAGCATATTGGCACCT
66 TGGCCTTGAATCAGCATATTGGCACCT
863153 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
1 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
863218 TGGCCTTGAATCAGCATATTGGCACCT
66 TGGCCTTGAATCAGCATATTGGCACCT
* * *
863245 TCTTCTTTGAGTCCAATGTAGCTGGCCGTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGC
1 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
*
863310 TGGCCTTGAATCAGCATATTGGCACCA
66 TGGCCTTGAATCAGCATATTGGCACCT
* * ** *
863337 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTCCAAGTCCAATATCGC
1 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
* *
863402 TGGCCTTGAATCAGCATATTGACACCC
66 TGGCCTTGAATCAGCATATTGGCACCT
* * * * * *
863429 TCATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCTAATATCG
1 TCTTC-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAG
*
863494 CTGGCCTTGAATCAGCATATTGGCGCCTTT
65 CTGGCCTTGAATCAGCATATTGGCACC--T
* * * *
863524 GTCATCTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTAGCGTCTTTGTCATCTTTAAG
1 -TCTTCTTTAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATT---G-----G-CACCTTTAAG
* * * *
863588 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
55 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
*
863626 TCATCTTTAA
1 TCTTCTTTAA
863636 CATTCCTAAG
Statistics
Matches: 706, Mismatches: 39, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
92 532 0.75
93 84 0.12
95 31 0.04
96 5 0.01
98 1 0.00
101 10 0.01
102 1 0.00
103 1 0.00
104 41 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
TGGCCTTGAATCAGCATATTGGCACCT
Found at i:863555 original size:52 final size:52
Alignment explanation
Indices: 863477--863626 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
863467 ACATTGGCAC
*
863477 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
863529 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTAGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * * *
863581 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
863627 CATCTTTAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 87 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:864507 original size:13 final size:13
Alignment explanation
Indices: 864489--864545 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
864479 CATAAAGTGT
864489 TGTATCGATACAA
1 TGTATCGATACAA
864502 TGTATCGATACATAA
1 TGTATCGATAC--AA
864517 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
864534 TGTATCGATACA
1 TGTATCGATACA
864546 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:864524 original size:32 final size:32
Alignment explanation
Indices: 864471--864569 Score: 180
Period size: 32 Copynumber: 3.1 Consensus size: 32
864461 CAACGATTTT
864471 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACAT-AAGTGTTGTATCGATACAATG
864504 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
864536 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
864568 TA
1 TA
864570 AACTACTGCC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.83
33 11 0.17
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:864526 original size:19 final size:18
Alignment explanation
Indices: 864471--864564 Score: 82
Period size: 19 Copynumber: 5.6 Consensus size: 18
864461 CAACGATTTT
864471 TATCGATACATAAAGTGTTG
1 TATCGATACAT-AAGT-TTG
864491 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
864504 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
864523 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
864536 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
864555 TATCGATACA
1 TATCGATACA
864565 ATGTAAACTA
Statistics
Matches: 62, Mismatches: 0, Indels: 25
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.35
15 4 0.06
17 4 0.06
19 23 0.37
20 9 0.15
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:864625 original size:13 final size:13
Alignment explanation
Indices: 864607--864631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
864597 ATTACTCAAA
864607 TGTATCGATACAT
1 TGTATCGATACAT
864620 TGTATCGATACA
1 TGTATCGATACA
864632 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:864683 original size:52 final size:52
Alignment explanation
Indices: 864640--864765 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
864630 CACTGATCTT
** *
864640 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAACTAGCCCAGATGTATCGATACACTATAAAA
* *
864692 TGTATCGATACATGCAGGCAAACTAGCCCAGATGTATCGATAAACTATGAAA
1 TGTATCGATACATGCAGGCAAACTAGCCCAGATGTATCGATACACTATAAAA
864744 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
864766 TTTTCATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAACTAGCCCAGATGTATCGATACACTATAAAA
Found at i:873617 original size:13 final size:13
Alignment explanation
Indices: 873599--873628 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
873589 GATACTTTTC
873599 ACAATGTATCGAT
1 ACAATGTATCGAT
873612 ACAATGTATCGAT
1 ACAATGTATCGAT
873625 ACAA
1 ACAA
873629 GGTACCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:875192 original size:130 final size:131
Alignment explanation
Indices: 875046--875280 Score: 330
Period size: 130 Copynumber: 1.8 Consensus size: 131
875036 ATCCCCTAAT
* * * **
875046 GAAAATTTAATATTTTAGAAATAAAAGT-GAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGG
1 GAAAATTTAATATTTTAGAAAT-AAAGTCGAGGTTAGAATATCCCCTCAAAAATAACGAGATTAA
*
875110 AGTATCCCCGAAGGTGAAAAATCGATGTTTTGGAAATAAAATTGGAGTTAGAGTATCCCCAATTA
65 AGTATCCCCGAAGGTGAAAAATCGATGTTTTAGAAATAAAATTGGAGTTAGAGTATCCCCAATTA
875175 TG
130 TG
* * *
875177 GAAAA-TTAATGTTTTAGAAATAAGGTCGGGGTTAGAATATCCCCTCAAAAATAACGAGATTAAA
1 GAAAATTTAATATTTTAGAAATAAAGTCGAGGTTAGAATATCCCCTCAAAAATAACGAGATTAAA
* ** *
875241 GTGTCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAA
66 GTATCCCCGAAGGTGAAAAATCGATGTTTTAGAAATAAAA
875281 ACTAGGGTTG
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
129 4 0.04
130 81 0.90
131 5 0.06
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (131 bp):
GAAAATTTAATATTTTAGAAATAAAGTCGAGGTTAGAATATCCCCTCAAAAATAACGAGATTAAA
GTATCCCCGAAGGTGAAAAATCGATGTTTTAGAAATAAAATTGGAGTTAGAGTATCCCCAATTAT
G
Found at i:875261 original size:79 final size:80
Alignment explanation
Indices: 875205--875360 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 80
875195 AATAAGGTCG
* * *
875205 GGGTTAGAATATCCCCTCAAAAATAACGAGATTAAAGTGTCCCCGATTGTGAAAAATCGGTGTTT
1 GGGTTAGAATATCCCCTCAAAAATAACGAGATTAAAGTATCCCCGATGGTGAAAAATCGATGTTT
875270 TAGAAATAAAAACTA
66 TAGAAATAAAAACTA
* * * * * * * *
875285 GGGTTGGAGTATCTCCTCAGAAATAATGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTT
1 GGGTTAGAATATCCCCTCAAAAATAACGAGATTAAAGTATCCCCGATGGTGAAAAATCGATGTTT
875350 TAGAAATAAAA
66 TAGAAATAAAA
875361 CCGGGGTTGG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (80 bp):
GGGTTAGAATATCCCCTCAAAAATAACGAGATTAAAGTATCCCCGATGGTGAAAAATCGATGTTT
TAGAAATAAAAACTA
Found at i:875381 original size:51 final size:50
Alignment explanation
Indices: 875312--875429 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 50
875302 CAGAAATAAT
*
875312 GGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATG-TTTAGAAATAAAACC
* * *
875363 GGGGTTGGAGTATGCCCGATTGTGAAAAATCGATGTTTAGAAATAAAACT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTAGAAATAAAACC
*
875413 GAGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
875430 TCAGAAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 29 0.48
51 32 0.52
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (50 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTAGAAATAAAACC
Found at i:875478 original size:129 final size:131
Alignment explanation
Indices: 875246--875504 Score: 373
Period size: 129 Copynumber: 2.0 Consensus size: 131
875236 TTAAAGTGTC
* *
875246 CCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAAACTAGGGTTGGAGTATCTCCTCAGAAATAA
1 CCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCCCTCAGAAATAA
** * *
875311 TGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTT-AGAAATAAAACCGGGGTTGGAGTA
66 CAGGGTTAGAGTATCCCCGATGATGAAAAATCGATGTTTTGA-AAATAAAACCGAGGTTGGAGTA
875375 TG
130 TG
875377 CCCGATTGTGAAAAATCGATG-TTTAGAAAT-AAAACT-GAGGTTGGAGTATCCCCTCAGAAATA
1 CCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAACTAG-GGTTGGAGTATCCCCTCAGAAATA
* * * * *
875439 ACAGGGTTAGAGTGTCCCCGATTATGGAAAATCGGTGTTTTGAAAATAAAACTGAGGTTGGAGTA
65 ACAGGGTTAGAGTATCCCCGATGATGAAAAATCGATGTTTTGAAAATAAAACCGAGGTTGGAGTA
875504 T
130 T
875505 CCCCTCGGAA
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
128 1 0.01
129 84 0.73
130 10 0.09
131 20 0.17
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (131 bp):
CCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCCCTCAGAAATAA
CAGGGTTAGAGTATCCCCGATGATGAAAAATCGATGTTTTGAAAATAAAACCGAGGTTGGAGTAT
G
Found at i:875525 original size:79 final size:78
Alignment explanation
Indices: 875362--875535 Score: 233
Period size: 79 Copynumber: 2.2 Consensus size: 78
875352 GAAATAAAAC
* *
875362 CGGGGTTGGAGTATGCCCGATTGTGAAAAATCGATGTTTAGAAATAAAACTGAGGTTGGAGTATC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTAGAAATAAAACTGAGGTTGGAGTATC
*
875427 CCCTCAGAAATAA
66 CCCTCAGAAACAA
* * * * * *
875440 CAGGGTTAGAGTGTCCCCGATTATGGAAAATCGGTGTTTTGAAAATAAAACTGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTAG-AAATAAAACTGAGGTTGGAGTAT
*
875505 CCCCTCGGAAACAA
65 CCCCTCAGAAACAA
*
875519 TGGGGTTGGAGTA-CCCC
1 CGGGGTTGGAGTATCCCC
875536 TTAGAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 37 0.46
79 44 0.54
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTAGAAATAAAACTGAGGTTGGAGTATC
CCCTCAGAAACAA
Found at i:875551 original size:27 final size:28
Alignment explanation
Indices: 875494--875561 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 28
875484 ATAAAACTGA
* *
875494 GGTTGGAGTATCCCCTCGGAAACAATGG
1 GGTTGGAGTATCCCCTCAGAAACAATAG
* *
875522 GGTTGGAGTA-CCCCTTAGAAATAATAG
1 GGTTGGAGTATCCCCTCAGAAACAATAG
875549 GGTTGGAGTATCC
1 GGTTGGAGTATCC
875562 GTGATTGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCAGAAACAATAG
Found at i:875687 original size:186 final size:184
Alignment explanation
Indices: 875364--875712 Score: 431
Period size: 186 Copynumber: 1.9 Consensus size: 184
875354 AATAAAACCG
* *
875364 GGGTTGGAGTATGCCCGATTGTGAAAAATCGATGTTTAGAAATAAAACTGAGGTTGGAGTATCCC
1 GGGTTGGAGTATGCCCGATTGTGAAAAATCGATGTTTAGAAATAAAACCGAGGTTAGAGTATCCC
** * * *
875429 CTCAGAAATAACAGGGTTAGAGTGTCCCCGATTATGGAAAATCGGTGTTTTGAAAATAAAACTGA
66 CTCAGAAATAACAGGGTTAGAGCATCCCCAATGATGGAAAATCGATGTTTTGAAAATAAAACTGA
*
875494 GGTTGGAGTATCCCCTCGGAAACAATGGGGTTGGAGTACCCCTTAGAAATAATA
131 GGTTGGAGTATCCCCTCGGAAACAACGGGGTTGGAGTACCCCTTAGAAATAATA
* * *
875548 GGGTTGGAGTAT-CCGTGATTGTGAAAAATCGGTGTTTTAGAAATAAAAACCGGGGTTAGAGTAT
1 GGGTTGGAGTATGCC-CGATTGTGAAAAATCGATG-TTTAGAAAT-AAAACCGAGGTTAGAGTAT
* * * *
875612 CCCCTTAGAAA-AA-ATGAGGTTGGAGCATCCCCAATGGT-GAAAATTTGATGTTTT-AGAAATA
63 CCCCTCAGAAATAACA-G-GGTTAGAGCATCCCCAATGATGGAAAA-TCGATGTTTTGA-AAATA
* *
875673 AAA-TCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
124 AAACT-GAGGTTGGAGTATCCCCTCGGAAACAACGGGGTTG
875713 AAGTGTCCCC
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
183 2 0.01
184 30 0.21
185 19 0.14
186 89 0.64
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (184 bp):
GGGTTGGAGTATGCCCGATTGTGAAAAATCGATGTTTAGAAATAAAACCGAGGTTAGAGTATCCC
CTCAGAAATAACAGGGTTAGAGCATCCCCAATGATGGAAAATCGATGTTTTGAAAATAAAACTGA
GGTTGGAGTATCCCCTCGGAAACAACGGGGTTGGAGTACCCCTTAGAAATAATA
Found at i:875712 original size:79 final size:78
Alignment explanation
Indices: 875520--876009 Score: 479
Period size: 79 Copynumber: 6.2 Consensus size: 78
875510 CGGAAACAAT
* ** ** * *
875520 GGGGTTGGAGTA-CCCCTTAGAAATAATAGGGTTGGAGTATCCGTGATTGTGAAAAATCGGTGTT
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTG-AAAATCGATGTT
875584 TTAGAAATAAAAACC
65 TTAGAAAT-AAAACC
* * * * * * * *
875599 GGGGTTAGAGTATCCCCTTAGAAAAAATGAGGTTGGAGCATCCCCAATGGTGAAAATTTGATGTT
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAA-TCGATGTT
*
875664 TTAGAAATAAAATC
65 TTAGAAATAAAACC
* * * ** *
875678 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTGTCCCCGATTATGGAAAATCAATGTT
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAATCGATGTT
*
875743 TT-GAAAATAAAATC
65 TTAG-AAATAAAACC
* * * * **
875757 GGGGTTGGCGTATCCCCTCAGAAATAACGGGGTTAGAGTATCTCCAATGGCAAAAAATCGATGTT
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGG-TGAAAATCGATGTT
875822 TTAGAAATAAAACC
65 TTAGAAATAAAACC
* *
875836 GGGGTTGGAGTATCCCCTC-GAAAATAACGGGGCTGGAGTATCCTCGATGGTGAAAAATC-A-GT
1 GGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATGGTG-AAAATCGATGT
* *
875898 GTTTGGAAATAAAATC
64 -TTTAGAAATAAAACC
* * * *
875914 GGGGTTGGAGTATCCCCTC-GAAAATAACAGGGTTAGAGTATCTCCGATGGTAGAAAATTGATGT
1 GGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATGGT-GAAAATCGATGT
*
875978 TTTGGAAATAAAACC
64 TTTAGAAATAAAACC
* *
875993 GAGGTTAGAGTATCCCC
1 GGGGTTGGAGTATCCCC
876010 GATGGTGGAA
Statistics
Matches: 341, Mismatches: 58, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
77 2 0.01
78 67 0.20
79 219 0.64
80 53 0.16
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAATCGATGTTT
TAGAAATAAAACC
Found at i:875820 original size:158 final size:158
Alignment explanation
Indices: 875520--876009 Score: 583
Period size: 158 Copynumber: 3.1 Consensus size: 158
875510 CGGAAACAAT
** ** ** *
875520 GGGGTTGGAGTA-CCCCTTAGAAATAATAGGGTTGGAGTATCCGTGATTGTGAAAAATCGGTGTT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTT
* * * * * * * * *
875584 TT-AGAAATAAAAACCGGGGTTAGAGTATCCCCTTAGAAAAAATGAGGTTGGAGCATCCCCAATG
66 TTGA-AAAT-AAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCTCCAATG
* * *
875648 GTGAAAATTTGATGTTTTAGAAATAAAATC
129 GTAAAAAATTGATGTTTTAGAAATAAAACC
* * * * *
875678 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTGTCCCCGATTATGGAAAATCAATGTT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTT
* *
875743 TTGAAAATAAAATCGGGGTTGGCGTATCCCCTCAGAAATAACGGGGTTAGAGTATCTCCAATGGC
66 TTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCTCCAATGGT
*
875808 AAAAAATCGATGTTTTAGAAATAAAACC
131 AAAAAATTGATGTTTTAGAAATAAAACC
* * * *
875836 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCTCGATGGTGAAAAATCAGTG-T
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTT
* * *
875900 TTGGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAACAGGGTTAGAGTATCTCCGATGG
66 TTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTAGAGTATCTCCAATGG
* *
875964 TAGAAAATTGATGTTTTGGAAATAAAACC
130 TAAAAAATTGATGTTTTAGAAATAAAACC
* *
875993 GAGGTTAGAGTATCCCC
1 GGGGTTGGAGTATCCCC
876010 GATGGTGGAA
Statistics
Matches: 283, Mismatches: 46, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
156 1 0.00
157 99 0.35
158 136 0.48
159 46 0.16
160 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (158 bp):
GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTT
TTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCTCCAATGGT
AAAAAATTGATGTTTTAGAAATAAAACC
Found at i:876012 original size:51 final size:51
Alignment explanation
Indices: 875944--876041 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
875934 AAAATAACAG
* *
875944 GGTTAGAGTATCTCCGATGGTAGAAAATTGATGTTTTGGAAATAAAACCGA
1 GGTTAGAGTATCCCCGATGGTAGAAAATCGATGTTTTGGAAATAAAACCGA
* *
875995 GGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGGAAATAAAA
1 GGTTAGAGTATCCCCGATGGTAGAAAATCGATGTTTTGGAAATAAAA
876042 ACATGAATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATGGTAGAAAATCGATGTTTTGGAAATAAAACCGA
Found at i:879178 original size:52 final size:50
Alignment explanation
Indices: 879101--879199 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
879091 TCGGAAATGA
*
879101 TGGGATTGGAGTATCCCGATGGTGAAAAATCGATGTTTTTGGAAATAAAAC
1 TGGGATTGGAGTATCCCGATGGTGAAAAATCGATG-TTTTAGAAATAAAAC
* * * *
879152 TGGGGTTGGAGTGTCCCCGATTGTGAAAAATTGATGTTTTAGAAATAA
1 TGGGATTGGAGTAT-CCCGATGGTGAAAAATCGATGTTTTAGAAATAA
879200 GGTTAGGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 23 0.55
52 19 0.45
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (50 bp):
TGGGATTGGAGTATCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:879220 original size:51 final size:52
Alignment explanation
Indices: 879110--879220 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 52
879100 ATGGGATTGG
* * **
879110 AGTAT-CCCGATGGTGAAAAATCGATGTTTTTGGAAATAAAACTGGGGTTGG
1 AGTATCCCCGATGGTGAAAAATCGATGTTTTTAGAAATAAAACTAGGGTTAA
* * * ***
879161 AGTGTCCCCGATTGTGAAAAATTGATG-TTTTAGAAATAAGGTTAGGGTTAA
1 AGTATCCCCGATGGTGAAAAATCGATGTTTTTAGAAATAAAACTAGGGTTAA
879212 AGTATCCCC
1 AGTATCCCC
879221 TCGAAAATAA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
51 29 0.60
52 19 0.40
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (52 bp):
AGTATCCCCGATGGTGAAAAATCGATGTTTTTAGAAATAAAACTAGGGTTAA
Found at i:879415 original size:79 final size:79
Alignment explanation
Indices: 879154--879456 Score: 236
Period size: 79 Copynumber: 3.8 Consensus size: 79
879144 AATAAAACTG
* * * * ** * *
879154 GGGTTGGAGTGTCCCCGATTGTGAAAAATTGATGTTTTAGAAAT-AAGGTTAGGGTTAAAGTATC
1 GGGTTGGAGTATCTCCGATTGTGAAAATTTGATGTTTTAAAAATAAAACTGA-GGTTAGAGTATC
879218 CCCTC-GAAAATAACA
65 CCCTCAG-AAATAACA
* * * * * * * * *
879233 GGGTTGAAGCATC-CCGATTGTGGAAACTCGGTGCTTTAAAAATAAAAATTGGGGTTAGAGTATC
1 GGGTTGGAGTATCTCCGATTGTGAAAATTTGATGTTTTAAAAAT-AAAACTGAGGTTAGAGTATC
* * * *
879297 CTCTTAAAAATAACG
65 CCCTCAGAAATAACA
* ** ** *
879312 GGGTTGGAATATCTCTAACGGTGAAAATTTGATGTTTTAAAAATAAAACTGAGGTTCGAGTATCC
1 GGGTTGGAGTATCTCCGATTGTGAAAATTTGATGTTTTAAAAATAAAACTGAGGTTAGAGTATCC
879377 CCTCAGAAATAACA
66 CCTCAGAAATAACA
* * * * * * *
879391 GGGTTAGAGTGTCTCCGATTGTGAAAAATCTG-TGTTTTGAAAATAAAACCGGGGTTGGAGTATC
1 GGGTTGGAGTATCTCCGATTGTG-AAAATTTGATGTTTTAAAAATAAAACTGAGGTTAGAGTATC
879455 CC
65 CC
879457 ATCGAAAACA
Statistics
Matches: 170, Mismatches: 49, Indels: 10
0.74 0.21 0.04
Matches are distributed among these distances:
78 24 0.14
79 115 0.68
80 31 0.18
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCTCCGATTGTGAAAATTTGATGTTTTAAAAATAAAACTGAGGTTAGAGTATCC
CCTCAGAAATAACA
Found at i:879639 original size:51 final size:51
Alignment explanation
Indices: 879574--879693 Score: 195
Period size: 51 Copynumber: 2.4 Consensus size: 51
879564 TTAGAAATAA
* *
879574 CGGGATTGGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAT
879625 CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAT
* * *
879676 TGAGGTTGAAGTATCCCC
1 CGGGGTTGGAGTATCCCC
879694 TCGAAAATAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAT
Found at i:879641 original size:79 final size:78
Alignment explanation
Indices: 879466--879642 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 78
879456 CATCGAAAAC
* * * *
879466 AATAAGGTTGGAGTA-GCCCTCAGAAATAACAGGGTTGGAAATCCCCAATTGTGAAAAATCGGTG
1 AATAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAAATCCCCAATGGTGAAAAATCGATG
879530 TTTTAGAAATAAAA
66 TTTTAGAAAT-AAA
* * * *
879544 AATAGGGTTAGAGTATCCCCTTAGAAATAAC-GGGATTGGAGTATCCCTAATGGTGAAAAATCGA
1 AATAGGGTTGGAGTATCCCCTCAGAAATAACAGGG-TTGGA-AATCCCCAATGGTGAAAAATCGA
879608 TGTTTTAGAAAT-AA
64 TGTTTTAGAAATAAA
*
879622 AATCGGGGTTGGAGTATCCCC
1 AAT-AGGGTTGGAGTATCCCC
879643 AATGGTGAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 21 0.25
79 33 0.39
80 31 0.36
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (78 bp):
AATAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAAATCCCCAATGGTGAAAAATCGATG
TTTTAGAAATAAA
Found at i:879708 original size:79 final size:79
Alignment explanation
Indices: 879625--879851 Score: 289
Period size: 79 Copynumber: 2.9 Consensus size: 79
879615 GAAATAAAAT
* *
879625 CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAATTGAGGTTGAAGTAT
1 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGAAGTAT
*
879690 CCCCTCGAAAATAG
66 CCCCTCGAAAATAA
* * * *
879704 CGGGGATGGAGTGTCCTCGA-GTGTGAAAAATCGATGCTTTAGAAATAAAATCGAGGTTGAAGTA
1 CGGGGTTGGAGTATCCCCGATG-GTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGAAGTA
*
879768 TTCCCTCGAAAATAA
65 TCCCCTCGAAAATAA
* * * * *
879783 TGGGGTTAGAGTATTCCTGATGGTGGAAAATCGATGTTTT-GAAAATAAAATCGAGGTT-AGAGT
1 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAG-AAATAAAATCGAGGTTGA-AGT
879846 ATCCCC
64 ATCCCC
879852 GATGTTGGGA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 122 0.97
80 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGAAGTAT
CCCCTCGAAAATAA
Found at i:879737 original size:130 final size:131
Alignment explanation
Indices: 879497--879768 Score: 342
Period size: 130 Copynumber: 2.1 Consensus size: 131
879487 AGAAATAACA
* * *
879497 GGGTTGGA-AATCCCCAATTGTGAAAAATCGGTGTTTTAGAAATAAAAAATAGGGTTAGAGTATC
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAAATAGGGTTAGAGTATC
* * *
879561 CCCTTAGAAATAACGGGATTGGAGTATCCCTAATGGTGAAAAATCGATGTTTTAGAAATAAAATC
66 CCCTGAGAAATAACGGGATTGGAGTATCCCGAATGGTGAAAAATCGATGCTTTAGAAATAAAATC
879626 G
131 G
*
879627 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAAT--AAAATTGAGGTT-GAAGTA
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAAATAG-GGTTAG-AGTA
* * *
879689 TCCCCTCGA-AAATAGCGGGGA-TGGAGTGTCCTCGAGT-GTGAAAAATCGATGCTTTAGAAATA
64 TCCCCT-GAGAAATAAC-GGGATTGGAGTATCC-CGAATGGTGAAAAATCGATGCTTTAGAAATA
879751 AAATCG
126 AAATCG
* *
879757 AGGTTGAAGTAT
1 GGGTTGGAGTAT
879769 TCCCTCGAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
129 7 0.06
130 77 0.62
131 40 0.32
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (131 bp):
GGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAAAATAGGGTTAGAGTATC
CCCTGAGAAATAACGGGATTGGAGTATCCCGAATGGTGAAAAATCGATGCTTTAGAAATAAAATC
G
Found at i:882391 original size:25 final size:26
Alignment explanation
Indices: 882357--882419 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 26
882347 TGGGAAATGA
882357 ATACATTTTGG-AATGTGATTTTTCC
1 ATACATTTTGGAAATGTGATTTTTCC
882382 ATACATTTTGGAAAAAATGTGATTTTTCC
1 ATACATTTTGG---AAATGTGATTTTTCC
*
882411 ATACTTTTT
1 ATACATTTT
882420 TCATCCCGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 11 0.33
29 22 0.67
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.48
Consensus pattern (26 bp):
ATACATTTTGGAAATGTGATTTTTCC
Found at i:882929 original size:42 final size:43
Alignment explanation
Indices: 882853--882938 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
882843 AGTACTCCCC
* *
882853 CTTAATATCTACTCCCTCTTTTTGTTATCCCTCTCATTTTAAA
1 CTTAATAACTACTCCCTCATTTTGTTATCCCTCTCATTTTAAA
*
882896 CTTAATAACTACTCCC-CATTTTGTTATTCCTCTCATTTTAAA
1 CTTAATAACTACTCCCTCATTTTGTTATCCCTCTCATTTTAAA
882938 C
1 C
882939 AAATTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 25 0.62
43 15 0.38
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.47
Consensus pattern (43 bp):
CTTAATAACTACTCCCTCATTTTGTTATCCCTCTCATTTTAAA
Found at i:885720 original size:43 final size:43
Alignment explanation
Indices: 885672--885768 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
885662 AAAAGGCGTT
* **
885672 CTACTCTTTGAGA-ACAAAGGAAA-AAAAGGAAATTAAGTGTGTC
1 CTACTCTTTGAGAGACAAA--AAAGAAAAGGAAATAAAGTGCATC
*
885715 CTACTCTTTGA-AGACAAAAAAGAGAAGGAAATAAAGTGCATC
1 CTACTCTTTGAGAGACAAAAAAGAAAAGGAAATAAAGTGCATC
*
885757 CTGCTCTTTGAG
1 CTACTCTTTGAG
885769 GACTAGAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
41 3 0.07
42 27 0.59
43 16 0.35
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (43 bp):
CTACTCTTTGAGAGACAAAAAAGAAAAGGAAATAAAGTGCATC
Found at i:885900 original size:61 final size:61
Alignment explanation
Indices: 885752--886208 Score: 502
Period size: 61 Copynumber: 7.4 Consensus size: 61
885742 GAAATAAAGT
*
885752 GCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-G-GAAA
1 GCATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
* * * *
885811 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAA
1 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
* * *
885872 GCCTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGTTTTAAAAGGA-AAA
1 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
* * * *
885932 GGTATCTTGCTCTTTGAGGAATGAAAGGAGCC-CTCAACTTGTGTGGGCTTTAAAAGGA-AAA
1 -GCATCCTGCTCTTTGAGGACTGAAAGGTGCCAC-CAACTTGTGTGGGCTTTAAAAGGAGAAA
*
885993 GGCATCCTGCTCTTTGAGGACTGAAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGA-AAA
1 -GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
* ** * *
886054 GGGAAAGTGCCCAACTCTTTGGGGACT-AGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAG
1 --G-CA-T--CCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
*
886118 AAG
59 AAA
* * * *
886121 GCGTTCTGCTCTTTGAGGACTAGAAA-GTGCCACCAGCTTGTGTGGGCTTTAAAAGGA-AAGG
1 GCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA-A
**
886182 GCATCCTGCTCTTCAAGGACTGAAAGG
1 GCATCCTGCTCTTTGAGGACTGAAAGG
886209 ATAAAAGGTT
Statistics
Matches: 340, Mismatches: 41, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
59 48 0.14
60 11 0.03
61 222 0.65
62 5 0.01
63 3 0.01
64 1 0.00
65 2 0.01
66 46 0.14
67 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA
Found at i:886165 original size:188 final size:182
Alignment explanation
Indices: 885757--886208 Score: 558
Period size: 188 Copynumber: 2.5 Consensus size: 182
885747 AAAGTGCATC
* * *
885757 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCGTCCTGC
1 CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* **
885820 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAAGCCTCCTGCTCTT
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAAGCCTCCAACTCTT
*
885885 TGAGGACTGAAAGGTGCCACCAACTTATGTGGGTTTTAAAAGGAAAAGGTAT
131 TGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGTAT
* *
885937 CTTGCTCTTTGAGGAAT-GAAAGGAGCC-CTCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 C-TGCTCTTTGAGGACTAGAAA-GTGCCAC-CAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * *
886000 TGCTCTTTGAGGACTGAAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGAAAAGGGAAAGTGC-
63 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATAGGCTTTAAAAGG---A--GAAAG-CCT
* * * *
886064 CCAACTCTTTGGGGACT-AGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT-T
122 CCAACTCTTTGAGGACTGA-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGA-AAAG-GTAT
* *
886126 CTGCTCTTTGAGGACTAGAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAGGGCATCCTGC
1 CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
**
886191 TCTTCAAGGACTGAAAGG
66 TCTTTGAGGACTGAAAGG
886209 ATAAAAGGTT
Statistics
Matches: 233, Mismatches: 23, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
180 5 0.02
181 40 0.17
182 3 0.01
183 51 0.22
186 1 0.00
187 1 0.00
188 119 0.51
189 11 0.05
190 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (182 bp):
CTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAAGCCTCCAACTCTT
TGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGTAT
Found at i:886194 original size:249 final size:243
Alignment explanation
Indices: 885747--886209 Score: 626
Period size: 249 Copynumber: 1.9 Consensus size: 243
885737 AGAAGGAAAT
885747 AAAGTGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAG
1 AAAGTGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAG
* ** *
885812 CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAAGCCTC
66 CGCCCAACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAAGCCTC
* * *
885877 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGTTTTAAAAGGAAAAGGTATCTTGC
131 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTGC
**
885942 TCTTTGAGGAATGAAAGGAGCCCTCAACTTGTGTGGGCTTTAAAAGGA
196 TCTTCAAGGAATGAAAGGAGCCCTCAACTTGTGTGGGCTTTAAAAGGA
*
885990 AAAG-GCATCCTGCTCTTTGAGGACT-GAAAGGTGCCCCCAACTTGTGTGGGCTTTAAAAGGAAA
1 AAAGTGCATCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT-----G-AA
* * * * *
886053 AGGGAAAGTGCCCAACTCTTTGGGGACTAGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAG
59 A-GGAAAGCGCCCAACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAG
* * * * * *
886118 AAGGCGTTCTGCTCTTTGAGGACTAGAAA-GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAGG
123 AAAGCCTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAG
*
886182 GCATCCTGCTCTTCAAGGACTGAAAGGA
187 GCATCCTGCTCTTCAAGGAATGAAAGGA
886210 TAAAAGGTTT
Statistics
Matches: 189, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
241 1 0.01
242 47 0.25
243 4 0.02
247 1 0.01
248 3 0.02
249 129 0.68
250 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (243 bp):
AAAGTGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAG
CGCCCAACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATAGGCTTTAAAAGGAGAAAGCCTC
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTGC
TCTTCAAGGAATGAAAGGAGCCCTCAACTTGTGTGGGCTTTAAAAGGA
Found at i:893511 original size:33 final size:33
Alignment explanation
Indices: 893474--893540 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
893464 TTCAATGATT
893474 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
893507 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
893540 T
1 T
893541 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:893512 original size:13 final size:13
Alignment explanation
Indices: 893494--893518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
893484 CATAAAATGT
893494 TGTATCGATACAA
1 TGTATCGATACAA
893507 TGTATCGATACA
1 TGTATCGATACA
893519 TATTTTTTTG
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:893599 original size:13 final size:13
Alignment explanation
Indices: 893581--893605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
893571 ATTACTCAAA
893581 TGTATCGATACAT
1 TGTATCGATACAT
893594 TGTATCGATACA
1 TGTATCGATACA
893606 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:893670 original size:52 final size:52
Alignment explanation
Indices: 893614--893733 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
893604 CACTGATCTT
* *
893614 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
893666 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
893718 TGTATCGATACATGCA
1 TGTATCGATACATGCA
893734 AACAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:899439 original size:42 final size:43
Alignment explanation
Indices: 899361--899445 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
899351 AGTACTCCCC
*
899361 CTTAATATCTACTCCCTCTTTTTGTTATCCCTCTCATTTTAAA
1 CTTAATAACTACTCCCTCTTTTTGTTATCCCTCTCATTTTAAA
*
899404 CTTAATAACTACTCCGC-C-TTTTGTTATTCCTCTCATTTTAAA
1 CTTAATAACTACTCC-CTCTTTTTGTTATCCCTCTCATTTTAAA
899446 AAAAGCTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 23 0.59
43 15 0.38
44 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.04, T:0.47
Consensus pattern (43 bp):
CTTAATAACTACTCCCTCTTTTTGTTATCCCTCTCATTTTAAA
Found at i:905051 original size:20 final size:21
Alignment explanation
Indices: 905028--905066 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
905018 GGTAAAACCT
905028 AGAATGTATCAATA-AAATGA
1 AGAATGTATCAATACAAATGA
*
905048 AGAATGTATTAATACAAAT
1 AGAATGTATCAATACAAAT
905067 TGTGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (21 bp):
AGAATGTATCAATACAAATGA
Found at i:907049 original size:13 final size:13
Alignment explanation
Indices: 907031--907056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
907021 CAATTGAGTG
907031 TGTATCGATACAA
1 TGTATCGATACAA
907044 TGTATCGATACAA
1 TGTATCGATACAA
907057 AGCATAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:911970 original size:37 final size:37
Alignment explanation
Indices: 911929--912029 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
911919 GATAATCCTT
*
911929 GTCAGAAATCTTCCCATTTTTTAAAGACATGGAAAGG
1 GTCAGAAATCTTCCCATTTTTTAAAGACATGAAAAGG
*
911966 GTCAGAAATCTTTCCATTTTTTAAAGACATGAAAAGG
1 GTCAGAAATCTTCCCATTTTTTAAAGACATGAAAAGG
*
912003 GTCAGAAATCTTCCTATTTTTTAAAGA
1 GTCAGAAATCTTCCCATTTTTTAAAGA
912030 TAAAATAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (37 bp):
GTCAGAAATCTTCCCATTTTTTAAAGACATGAAAAGG
Found at i:916355 original size:17 final size:17
Alignment explanation
Indices: 916333--916404 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
916323 ATTTAAAAGT
916333 TAAAAGA-AAAAGAAAAA
1 TAAAAGACAAAA-AAAAA
* *
916350 TAAAAG--AGAGAAAAA
1 TAAAAGACAAAAAAAAA
916365 TAAAA-ACAAAAAAAAA
1 TAAAAGACAAAAAAAAA
916381 -AGAAAGACAAAAAAAAA
1 TA-AAAGACAAAAAAAAA
916398 TTAAAAG
1 -TAAAAG
916405 TTTGCTCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
15 11 0.24
16 12 0.27
17 17 0.38
18 4 0.09
19 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.07
Consensus pattern (17 bp):
TAAAAGACAAAAAAAAA
Found at i:916364 original size:27 final size:27
Alignment explanation
Indices: 916334--916397 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
916324 TTTAAAAGTT
* * *
916334 AAAAGAAAAAGAAAAATAAAAGAGAGA-
1 AAAA-AAAAACAAAAAAAAAAGAAAGAC
916361 AAAATAAAAACAAAAAAAAAAGAAAGAC
1 AAAA-AAAAACAAAAAAAAAAGAAAGAC
916389 AAAAAAAAA
1 AAAAAAAAA
916398 TTAAAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (27 bp):
AAAAAAAAACAAAAAAAAAAGAAAGAC
Found at i:918655 original size:13 final size:13
Alignment explanation
Indices: 918639--918663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
918629 ATTCATCATG
918639 TATCGATACAATA
1 TATCGATACAATA
918652 TATCGATACAAT
1 TATCGATACAAT
918664 GTACCATGTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:918661 original size:33 final size:33
Alignment explanation
Indices: 918614--918683 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
918604 CCGTTACAAG
* *
918614 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATATATCAATACAATGT-ACCATGTATCGATA
*
918647 CAATATATCGATACAATGTACCATGTATCGATA
1 CAATATATCAATACAATGTACCATGTATCGATA
918680 CAAT
1 CAAT
918684 CAGTGGTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (33 bp):
CAATATATCAATACAATGTACCATGTATCGATA
Found at i:918736 original size:20 final size:20
Alignment explanation
Indices: 918711--918771 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
918701 CTGCTAGTTT
918711 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
* *
918731 CATGTATCGATAAAATTGTC
1 CATGTATCGATACAATTATC
*
918751 CATGTATTGATACAATGTATC
1 CATGTATCGATACAAT-TATC
918772 GATACAATGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 32 0.91
21 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:919859 original size:33 final size:33
Alignment explanation
Indices: 919820--919903 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
919810 CTCACCATAC
919820 GTAGTGAGAGTGAAGTGAATTGCTCACTCATGT
1 GTAGTGAGAGTGAAGTGAATTGCTCACTCATGT
919853 GTAGTGAGAGTGAAGTGAATTGCTCACTCATGT
1 GTAGTGAGAGTGAAGTGAATTGCTCACTCATGT
* * *
919886 GTTGTGAAAGTGAGGTGA
1 GTAGTGAGAGTGAAGTGA
919904 TCAACTCTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.30
Consensus pattern (33 bp):
GTAGTGAGAGTGAAGTGAATTGCTCACTCATGT
Found at i:921393 original size:13 final size:13
Alignment explanation
Indices: 921375--921414 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
921365 ATAGTAACCC
921375 ATGTATCGATACA
1 ATGTATCGATACA
* *
921388 ATGTATTGATATA
1 ATGTATCGATACA
921401 ATGTATCGATACA
1 ATGTATCGATACA
921414 A
1 A
921415 GGAATGTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:921453 original size:24 final size:22
Alignment explanation
Indices: 921422--921483 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 22
921412 CAAGGAATGT
921422 TGTATCGATACATCTGGTTCTAGA
1 TGTATCGATACATCTGGTT-TA-A
*
921446 TGTATCGATACATC--CTTTAA
1 TGTATCGATACATCTGGTTTAA
921466 TGTATCGATACATTCTGG
1 TGTATCGATACA-TCTGG
921484 AAAATTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 13 0.39
21 4 0.12
22 2 0.06
24 14 0.42
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (22 bp):
TGTATCGATACATCTGGTTTAA
Found at i:921470 original size:20 final size:23
Alignment explanation
Indices: 921422--921478 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 23
921412 CAAGGAATGT
*
921422 TGTATCGATACATCTGGTTCTAGA
1 TGTATCGATACATC-GCTTCTAGA
921446 TGTATCGATACATC-CTT-TA-A
1 TGTATCGATACATCGCTTCTAGA
921466 TGTATCGATACAT
1 TGTATCGATACAT
921479 TCTGGAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 2 0.06
24 14 0.44
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (23 bp):
TGTATCGATACATCGCTTCTAGA
Found at i:1071852 original size:13 final size:13
Alignment explanation
Indices: 1071815--1071877 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 13
1071805 TAAGTAGGTT
* *
1071815 TTTTCTTTTCTCTC
1 TTTTCTTTT-TTTG
1071829 TTTTCTTTGTTTTG
1 TTTTCTTT-TTTTG
*
1071843 TTTT-TTTGTTT-
1 TTTTCTTTTTTTG
*
1071854 TTTCCTTTTTTT-
1 TTTTCTTTTTTTG
1071866 TTTTCTTTTTTT
1 TTTTCTTTTTTT
1071878 TTTGAAGAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
11 3 0.07
12 20 0.49
13 3 0.07
14 14 0.34
15 1 0.02
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTTG
Found at i:1071868 original size:12 final size:12
Alignment explanation
Indices: 1071846--1071880 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1071836 TGTTTTGTTT
1071846 TTTTGTTTTTTCC
1 TTTT-TTTTTTCC
*
1071859 TTTTTTTTTTTC
1 TTTTTTTTTTCC
1071871 TTTTTTTTTT
1 TTTTTTTTTT
1071881 GAAGAGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTCC
Found at i:1071868 original size:20 final size:21
Alignment explanation
Indices: 1071838--1071876 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1071828 CTTTTCTTTG
*
1071838 TTTTGTTTTTTTGTTTTTTCC
1 TTTTGTTTTTTTCTTTTTTCC
1071859 TTTT-TTTTTTTCTTTTTT
1 TTTTGTTTTTTTCTTTTTT
1071877 TTTTGAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (21 bp):
TTTTGTTTTTTTCTTTTTTCC
Found at i:1077552 original size:17 final size:17
Alignment explanation
Indices: 1077530--1077563 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1077520 ACATCGATTC
*
1077530 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
1077547 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
1077564 CTTACCTCTG
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:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:1084396 original size:83 final size:79
Alignment explanation
Indices: 1084275--1084485 Score: 217
Period size: 83 Copynumber: 2.6 Consensus size: 79
1084265 GAGATAATAA
* * * * * *
1084275 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGGTTATGAGAAATCAAT-A
*
1084340 -TTAGAAAAAAAAAAAAAT
65 TTTAG----AAAAAAAAAC
* **
1084358 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGGTTATGAGAAATCAATAT
* ** * *
1084423 TTTGGGAATAAAGC
66 TTAGAAAAAAAAAC
* *
1084437 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGGT
1084486 GAAATAACAA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
79 49 0.46
82 1 0.01
83 57 0.53
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGGTTATGAGAAATCAATAT
TTAGAAAAAAAAAC
Found at i:1084493 original size:28 final size:28
Alignment explanation
Indices: 1084437--1084504 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
1084427 GGAATAAAGC
*
1084437 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
*
1084465 CGGGGTTGGAGTATCCCC-GGTGAAATAA
1 CGGGGTTGGAGTATCCCCTCG-GAAATAA
**
1084493 CAAGGTTGGAGT
1 CGGGGTTGGAGT
1084505 GTCCTCGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:1084626 original size:52 final size:51
Alignment explanation
Indices: 1084496--1084881 Score: 179
Period size: 52 Copynumber: 7.4 Consensus size: 51
1084486 GAAATAACAA
* * * * * * * *
1084496 GGTTGGAGTGTCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGAAAATAAAACCGG
* ** * * *
1084548 AGTTGGAGTATCCTTGATTAAAGAAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
1084600 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGA
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * * **
1084652 GATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
** *** * *** ** *
1084703 GGTTGGAGTATCCCCTCGAAAAT-AATGGGGTTGGAGTATCCCCGATGAT-CAA-CGG
1 GGTTGGAGTAT-CCC-CGATTATGAA--AAATT--AGTGT-TTTGAAAATAAAACCGG
* * * *
1084758 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGAAAATAAAACCGG
* * *
1084812 AGTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAACCGG
* * *
1084863 AGTTGGAATATCCTCGATT
1 GGTTGGAGTATCCCCGATT
1084882 GTGGAGAATT
Statistics
Matches: 247, Mismatches: 70, Indels: 35
0.70 0.20 0.10
Matches are distributed among these distances:
51 66 0.27
52 96 0.39
53 35 0.14
54 28 0.11
55 14 0.06
56 5 0.02
57 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:1084658 original size:104 final size:103
Alignment explanation
Indices: 1084496--1084717 Score: 223
Period size: 104 Copynumber: 2.1 Consensus size: 103
1084486 GAAATAACAA
* * * * * * *
1084496 GGTTGGAGTGTCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGACTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAATATCC
** *** *
1084561 TTGATTAAAGAAAAATTGGTGTTTCGAAAATAAAACCGG
66 CCGATT-AAGAAAAATCAATATTTCGAAAATAAAACCGG
* *
1084600 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACC-GAGATTGGAATAT
1 GGTTGGAGTATCCCCGACTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCGGAG-TTGGAATAT
* * * **
1084663 CCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
64 CCCCGATTAAGAAAAATCAATATTTCGAAAATAAAACCGG
1084703 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1084718 TCGAAAATAA
Statistics
Matches: 96, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
103 41 0.43
104 45 0.47
105 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGACTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAATATCC
CCGATTAAGAAAAATCAATATTTCGAAAATAAAACCGG
Found at i:1084709 original size:51 final size:52
Alignment explanation
Indices: 1084588--1084717 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 52
1084578 GGTGTTTCGA
* * * *
1084588 AAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
* * * * *
1084640 CAATAAAACCGAGATTGGAATATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
**
1084691 AAATAAAGTCGGGGTTGGAGTATCCCC
1 AAATAAAACCGGGGTTGGAGTATCCCC
1084718 TCGAAAATAA
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
51 35 0.56
52 28 0.44
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (52 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
Found at i:1084735 original size:263 final size:263
Alignment explanation
Indices: 1084391--1084886 Score: 719
Period size: 263 Copynumber: 1.9 Consensus size: 263
1084381 AATAACGGGG
* * *
1084391 TTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCT
1 TTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCT
* * * * *
1084456 CGGAAGTAACGGGGTTGGAGTATCCCCGGTGAAAT-AACAAGGTTGGAGTGTCCTCGACTGTGAA
66 CGAAAATAACGGGGTTGGAGTATCCCCGATG--ATCAACAAGGTTGGAGTATCCCCGACTGTGAA
* ** *
1084520 -AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCTTGATTAAAGAAAAATTGGTGT
129 GAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAG-AAAATTAGTGT
* *
1084583 TTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA
193 TTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA
1084648 CCGAGA
258 CCGAGA
* *
1084654 TTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCT
1 TTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCT
* ** *
1084719 CGAAAATAATGGGGTTGGAGTATCCCCGATGATCAACGGGGTTGGAGTATCCCCGATTGTGAAGA
66 CGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGTGAAGA
* * *
1084784 AATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTT
131 AATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGTGTTTC
* *
1084849 GAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGA
196 GAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
1084887 GAATTGATAA
Statistics
Matches: 205, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
261 2 0.01
262 24 0.12
263 141 0.69
264 38 0.19
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (263 bp):
TTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCT
CGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGTGAAGA
AATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGTGTTTC
GAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCG
AGA
Found at i:1084767 original size:27 final size:26
Alignment explanation
Indices: 1084700--1084775 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
1084690 GAAATAAAGT
*
1084700 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAATAA
* *
1084728 TGGGGTTGGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
1084755 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1084776 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 25 0.58
28 13 0.30
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Found at i:1084859 original size:51 final size:53
Alignment explanation
Indices: 1084763--1084881 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
1084753 AACGGGGTTG
* * *
1084763 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
1084817 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
1084868 GAATATCCTCGATT
1 GAGTATCCCCGATT
1084882 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:1087266 original size:13 final size:13
Alignment explanation
Indices: 1087248--1087273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1087238 ACAAAGATCC
1087248 ATGTATCGATACA
1 ATGTATCGATACA
1087261 ATGTATCGATACA
1 ATGTATCGATACA
1087274 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1087269 original size:33 final size:33
Alignment explanation
Indices: 1087227--1087293 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1087217 AAAATTTCCA
***
1087227 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1087260 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1087293 A
1 A
1087294 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1087337 original size:19 final size:18
Alignment explanation
Indices: 1087313--1087380 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1087303 CAGTAGCTAA
1087313 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1087332 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1087347 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1087364 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1087381 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1087353 original size:13 final size:13
Alignment explanation
Indices: 1087335--1087359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1087325 ACAATACTTA
1087335 TGTATCGATACAT
1 TGTATCGATACAT
1087348 TGTATCGATACA
1 TGTATCGATACA
1087360 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1087357 original size:32 final size:32
Alignment explanation
Indices: 1087316--1087378 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1087306 TAGCTAATTA
*
1087316 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1087348 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1087379 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1088460 original size:129 final size:129
Alignment explanation
Indices: 1088309--1088651 Score: 445
Period size: 129 Copynumber: 2.7 Consensus size: 129
1088299 TACTATTGTG
* * * **
1088309 TCATGCTATTGTCTCCACCATCAAGTGCTGTTGGTTGCTGTTTGCTACTGTCTTCTTCTGCCATC
1 TCATGCTATTGTCTCCAACATCAACTGCTGTTGGTTGCTGTTTGCTGCTGTCTTCTTCCACCATC
* * *
1088374 AGCTGTTGTTGGTTACTTTTGCTTGTTACTGGTGTTGTTTCTGCCATTACTGGTGTTTGTTTTC
66 AGTTGTTGTTGGTTGCTTTTGCTTGTTACTGGTGTTGTTTCTGCCATTACTGGTGTTTGTTATC
* * *
1088438 TCATGCTATTGTCTCCAACATCAACTGCTGTTGGTTGCTATTTGCTGCTGTCTTTTTCCACCATT
1 TCATGCTATTGTCTCCAACATCAACTGCTGTTGGTTGCTGTTTGCTGCTGTCTTCTTCCACCATC
* * * * ** ** *
1088503 AATTGCTGTTGGTTGCTTTTGTTTGTTGCTGGTGTTGTTTCTGCTGTTGTTGGTGTTTGTTATG
66 AGTTGTTGTTGGTTGCTTTTGCTTGTTACTGGTGTTGTTTCTGCCATTACTGGTGTTTGTTATC
* * * * *
1088567 TCATGCTACTATCTCCAA-ATCAACTACTATTGGTTGTTGTTTGCTGCTGTCTTCTTCCACCATC
1 TCATGCTATTGTCTCCAACATCAACTGCTGTTGGTTGCTGTTTGCTGCTGTCTTCTTCCACCATC
*
1088631 AGTTATTGTTGGTTGCTTTTG
66 AGTTGTTGTTGGTTGCTTTTG
1088652 TTTCTTGCTT
Statistics
Matches: 183, Mismatches: 31, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
128 58 0.32
129 125 0.68
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.48
Consensus pattern (129 bp):
TCATGCTATTGTCTCCAACATCAACTGCTGTTGGTTGCTGTTTGCTGCTGTCTTCTTCCACCATC
AGTTGTTGTTGGTTGCTTTTGCTTGTTACTGGTGTTGTTTCTGCCATTACTGGTGTTTGTTATC
Found at i:1089081 original size:26 final size:24
Alignment explanation
Indices: 1089044--1089093 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
1089034 ATTTATTCGT
*
1089044 AAAATTACATTACAAAATAAATAAAA
1 AAAATTAAATTA-AAAA-AAATAAAA
*
1089070 AAAATTAAATTATAAAAAATAAAA
1 AAAATTAAATTAAAAAAAATAAAA
1089094 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 3 0.14
26 11 0.50
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATTAAATTAAAAAAAATAAAA
Found at i:1089088 original size:15 final size:14
Alignment explanation
Indices: 1089068--1089105 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
1089058 AAATAAATAA
1089068 AAAAAATTAAATTAT
1 AAAAAATTAAATT-T
*
1089083 AAAAAATAAAATTT
1 AAAAAATTAAATTT
1089097 -AAAAATTAA
1 AAAAAATTAA
1089106 GATAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTAAATTT
Found at i:1090620 original size:43 final size:43
Alignment explanation
Indices: 1090573--1090771 Score: 152
Period size: 43 Copynumber: 4.7 Consensus size: 43
1090563 CTGAGCTGAT
*
1090573 GGGCAGACGATTGATAAAGAAAGTCTCCTAGGACTGAGGCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
* ** * * *
1090616 GGGCAGACGATGGATGTAGTAA-TCTCTTGGGTCT-AGGTCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGG-CGAC
** * ** * * * ** *
1090658 AAGTAGATAATGGATGAAGAAA-TCTCCCGGGTTTGAGTCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
* * *
1090700 AGGCAGACGATTGATAAAGAAAGTCTCCCGGGACTGAGCCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
* * *
1090743 GGGTAGACAATTGATAAAGGAAGTCTCCT
1 GGGCAGACGATTGATAAAGAAAGTCTCCT
1090772 AGGCCTAAGC
Statistics
Matches: 121, Mismatches: 32, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
41 3 0.02
42 57 0.47
43 61 0.50
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (43 bp):
GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
Found at i:1090720 original size:42 final size:42
Alignment explanation
Indices: 1090574--1090770 Score: 135
Period size: 42 Copynumber: 4.6 Consensus size: 42
1090564 TGAGCTGATG
** * *
1090574 GGCAGACGATTGATAAAGAAAGTCTCCTAGGACTGAGGCGACG
1 GGCAGACGATTGATAAAGAAA-TCTCCCGGGACTGAGTCGACA
* ** * ** *
1090617 GGCAGACGATGGATGTAGTAATCTCTTGGGTCT-AGGTCGACA
1 GGCAGACGATTGATAAAGAAATCTCCCGGGACTGA-GTCGACA
* * ** * * **
1090659 AGTAGATAATGGATGAAGAAATCTCCCGGGTTTGAGTCGACA
1 GGCAGACGATTGATAAAGAAATCTCCCGGGACTGAGTCGACA
* *
1090701 GGCAGACGATTGATAAAGAAAGTCTCCCGGGACTGAGCCGACG
1 GGCAGACGATTGATAAAGAAA-TCTCCCGGGACTGAGTCGACA
* * *
1090744 GGTAGACAATTGATAAAGGAAGTCTCC
1 GGCAGACGATTGATAAA-GAAATCTCC
1090771 TAGGCCTAAG
Statistics
Matches: 119, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
41 1 0.01
42 60 0.50
43 55 0.46
44 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (42 bp):
GGCAGACGATTGATAAAGAAATCTCCCGGGACTGAGTCGACA
Found at i:1091578 original size:54 final size:54
Alignment explanation
Indices: 1091212--1091658 Score: 579
Period size: 55 Copynumber: 8.0 Consensus size: 54
1091202 TGGGAAGGTT
* *
1091212 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAA-A
** *
1091267 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTCGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTGTCCTGCTCTTTGAGGACTG-AAAA
* *
1091328 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
* * **
1091383 TGCCACCAACTTGTGTGGGCTTTAAAAAAAATGTGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT----AAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
* *
1091441 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTCTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
* * **
1091496 TGCCACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
*
1091550 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
* *
1091605 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
1091659 GCGGAAGGAG
Statistics
Matches: 344, Mismatches: 34, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
54 77 0.22
55 163 0.47
56 6 0.02
58 26 0.08
59 23 0.07
60 5 0.01
61 41 0.12
62 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (54 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
Found at i:1091583 original size:109 final size:109
Alignment explanation
Indices: 1091212--1091653 Score: 609
Period size: 109 Copynumber: 4.0 Consensus size: 109
1091202 TGGGAAGGTT
* *
1091212 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAA
* * **
1091276 CTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTCGAGGACTGAAAAA
65 CTTGTGTGGGCTTTG-AAAG---GAG--TCCTGCTCTTTGAGGACTG-AAGG
* *
1091328 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
* * * *
1091393 TTGTGTGGGCTTTAAAAAAAATGTGTCCCGCTCTTTGAGGACTGAAGG
66 TTGTGTGGGCTTT----GAAAGGAGTCCTGCTCTTTGAGGACTGAAGG
* *
1091441 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTCTGAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
1091506 TTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAGG
66 TTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAGG
*
1091550 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
*
1091615 TTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT
66 TTGTGTGGGCTTTGAA-AGGAGTCCTGCTCTTTGAGGACT
1091654 AAAAAGCGGA
Statistics
Matches: 296, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
108 2 0.01
109 124 0.42
113 76 0.26
114 17 0.06
116 70 0.24
117 4 0.01
119 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (109 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
TTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAGG
Found at i:1091620 original size:222 final size:226
Alignment explanation
Indices: 1091212--1091629 Score: 666
Period size: 222 Copynumber: 1.9 Consensus size: 226
1091202 TGGGAAGGTT
* * *
1091212 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTCTGAGGACTGAAAGATGCCACCAAC
1091277 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTCGAGGACTGAAAAATGCCACCAACCTGT
66 TTGTGTGGGCTTTGAAAAG--AAAG-ATCCTGCTCTTCGAGGACTGAAAAATGCCACCAACCTGT
*
1091342 GTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTA
128 GTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
1091407 AAAAAAATGTGTCCCGCTCTTTGAGGACTGAAGG
193 AAAAAAATGTGTCCCGCTCTTTGAGGACTGAAGG
*
1091441 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTCTGAGGACT-GAAAGATGCCACCAA
* * ** *
1091505 CTTGTGTGGGCTTTG-AAAG-GAG-TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGT
65 CTTGTGTGGGCTTTGAAAAGAAAGATCCTGCTCTTCGAGGACTGAAAAATGCCACCAACCTGTGT
*
1091566 GGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA
130 GGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA
1091630 GAGGTGTCCT
Statistics
Matches: 177, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
222 79 0.45
223 18 0.10
225 2 0.01
228 4 0.02
229 70 0.40
230 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (226 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTCTGAGGACTGAAAGATGCCACCAAC
TTGTGTGGGCTTTGAAAAGAAAGATCCTGCTCTTCGAGGACTGAAAAATGCCACCAACCTGTGTG
GGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
AAAATGTGTCCCGCTCTTTGAGGACTGAAGG
Found at i:1092659 original size:8 final size:8
Alignment explanation
Indices: 1092620--1092689 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
1092610 CTTAAGTAGG
1092620 TTTTTTC-
1 TTTTTTCT
*
1092627 TTTTCTCT
1 TTTTTTCT
*
1092635 CTTTTTCT
1 TTTTTTCT
*
1092643 TTGTTTTGT
1 TT-TTTTCT
*
1092652 TTTTTTGT
1 TTTTTTCT
1092660 TTTTTTCCT
1 TTTTTT-CT
1092669 TTTTTT-T
1 TTTTTTCT
**
1092676 TTTTGCCT
1 TTTTTTCT
1092684 TTTTTT
1 TTTTTT
1092690 TTGAAGAGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
7 11 0.22
8 24 0.49
9 14 0.29
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1092679 original size:14 final size:15
Alignment explanation
Indices: 1092652--1092691 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
1092642 TTTGTTTTGT
*
1092652 TTTTTTGTTTTTTTCC
1 TTTTTT-TTTTTTGCC
1092668 TTTTTTTTTTTTGCC
1 TTTTTTTTTTTTGCC
1092683 TTTTTTTTT
1 TTTTTTTTT
1092692 GAAGAGAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTGCC
Found at i:1098374 original size:17 final size:17
Alignment explanation
Indices: 1098352--1098385 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1098342 ACATCGATTC
*
1098352 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
1098369 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
1098386 CTTACCTCTG
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:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:1105316 original size:28 final size:28
Alignment explanation
Indices: 1105260--1105327 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
1105250 GGAATAAAGC
*
1105260 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
*
1105288 CGGGGTTGGAGTATCCCC-GGTGAAATAA
1 CGGGGTTGGAGTATCCCCTCG-GAAATAA
**
1105316 CAAGGTTGGAGT
1 CGGGGTTGGAGT
1105328 GTCCTCGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:1105449 original size:52 final size:51
Alignment explanation
Indices: 1105319--1105704 Score: 179
Period size: 52 Copynumber: 7.4 Consensus size: 51
1105309 GAAATAACAA
* * * * * * * *
1105319 GGTTGGAGTGTCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGAAAATAAAACCGG
* ** * * *
1105371 AGTTGGAGTATCCCTAATTAAAGAAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
1105423 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGA
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * * **
1105475 GATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
** *** * *** ** *
1105526 GGTTGGAGTATCCCCTCGAAAAT-AACGGGGTTGGAGTATCCCCGATGAT-CAA-CGG
1 GGTTGGAGTAT-CCC-CGATTATGAA--AAATT--AGTGT-TTTGAAAATAAAACCGG
* * * *
1105581 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGAAAATAAAACCGG
* * *
1105635 AGTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAACCGG
* * *
1105686 AGTTGGAATATCCTCGATT
1 GGTTGGAGTATCCCCGATT
1105705 GTGGAGAATT
Statistics
Matches: 245, Mismatches: 72, Indels: 35
0.70 0.20 0.10
Matches are distributed among these distances:
51 66 0.27
52 94 0.38
53 35 0.14
54 28 0.11
55 14 0.06
56 5 0.02
57 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:1105532 original size:51 final size:52
Alignment explanation
Indices: 1105411--1105540 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 52
1105401 GGTGTTTCGA
* * * *
1105411 AAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
* * * * *
1105463 CAATAAAACCGAGATTGGAATATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
**
1105514 AAATAAAGTCGGGGTTGGAGTATCCCC
1 AAATAAAACCGGGGTTGGAGTATCCCC
1105541 TCGAAAATAA
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
51 35 0.56
52 28 0.44
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (52 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
Found at i:1105554 original size:263 final size:263
Alignment explanation
Indices: 1105214--1105709 Score: 728
Period size: 263 Copynumber: 1.9 Consensus size: 263
1105204 AATAACGGGG
* * *
1105214 TTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCT
1 TTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCT
* * * * *
1105279 CGGAAGTAACGGGGTTGGAGTATCCCCGGTGAAAT-AACAAGGTTGGAGTGTCCTCGACTGTGAA
66 CGAAAATAACGGGGTTGGAGTATCCCCGATG--ATCAACAAGGTTGGAGTATCCCCGACTGTGAA
* * *
1105343 -AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCTAATTAAAGAAAAATTGGTGT
129 GAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAG-AAAATTAGTGT
* *
1105406 TTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA
193 TTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA
1105471 CCGAGA
258 CCGAGA
* *
1105477 TTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCT
1 TTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCT
** *
1105542 CGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACGGGGTTGGAGTATCCCCGATTGTGAAGA
66 CGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGTGAAGA
* * * *
1105607 AATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTT
131 AATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAGAAAATTAGTGTTTC
* *
1105672 GAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGA
196 GAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
1105710 GAATTGATAA
Statistics
Matches: 206, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
261 2 0.01
262 24 0.12
263 142 0.69
264 38 0.18
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (263 bp):
TTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCT
CGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGTGAAGA
AATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCAATTAAAGAAAATTAGTGTTTC
GAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCG
AGA
Found at i:1105587 original size:27 final size:26
Alignment explanation
Indices: 1105523--1105598 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 26
1105513 GAAATAAAGT
*
1105523 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAATAA
*
1105551 CGGGGTTGGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
1105578 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1105599 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.11
27 26 0.58
28 14 0.31
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Done.