Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004829.1 Hibiscus syriacus cultivar Beakdansim tig00010877_pilon, whole genome shotgun sequence
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: 271781
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
File 1 of 2
Found at i:897 original size:7 final size:7
Alignment explanation
Indices: 876--950 Score: 82
Period size: 7 Copynumber: 10.4 Consensus size: 7
866 ATCTTGAACC
876 TTTTA-T
1 TTTTATT
882 TTTTATT
1 TTTTATT
*
889 TTTATTTT
1 TTT-TATT
*
897 TTTTCTT
1 TTTTATT
904 TTTTCATT
1 TTTT-ATT
912 TTTCT-TT
1 TTT-TATT
919 TTTTATT
1 TTTTATT
926 TTTTATT
1 TTTTATT
933 TTTTATT
1 TTTTATT
940 TTTTCATT
1 TTTT-ATT
948 TTT
1 TTT
951 CCATTTCTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
6 6 0.10
7 36 0.60
8 17 0.28
9 1 0.02
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:949 original size:14 final size:14
Alignment explanation
Indices: 876--1034 Score: 82
Period size: 15 Copynumber: 11.3 Consensus size: 14
866 ATCTTGAACC
876 TTTT-ATTTTTATT
1 TTTTCATTTTTATT
** *
889 TTTATTTTTTTTCTT
1 TTT-TCATTTTTATT
*
904 TTTTCATTTTTCTT
1 TTTTCATTTTTATT
*
918 TTTTTATTTTTTATT
1 TTTTCA-TTTTTATT
933 TTTT-ATTTTTTCATT
1 TTTTCA-TTTTT-ATT
* *
948 TTTCCATTTCTA-T
1 TTTTCATTTTTATT
961 TTTTC-TCTTTT-TT
1 TTTTCAT-TTTTATT
974 TTTTCA-TTTT-TT
1 TTTTCATTTTTATT
**
986 TCATCATTTTTCATT
1 TTTTCATTTTT-ATT
*
1001 TGTTCTCATTTTTCTT
1 T-TT-TCATTTTTATT
*
1017 TTCTTC-TTTTCATT
1 TT-TTCATTTTTATT
1031 TTTT
1 TTTT
1035 TCATCATTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
12 11 0.10
13 23 0.20
14 31 0.27
15 37 0.32
16 5 0.04
17 8 0.07
ACGTcount: A:0.10, C:0.12, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTTCATTTTTATT
Found at i:1011 original size:17 final size:19
Alignment explanation
Indices: 973--1045 Score: 63
Period size: 17 Copynumber: 4.3 Consensus size: 19
963 TTCTCTTTTT
*
973 TTTTTCATTTTTTTCATCA
1 TTTTTCATTTTGTTCATCA
992 TTTTTCA-TTTGTTC-TCA
1 TTTTTCATTTTGTTCATCA
*
1009 TTTTTC---TT-TTCTTC-
1 TTTTTCATTTTGTTCATCA
*
1023 -TTTTCATTTTTTTCATCA
1 TTTTTCATTTTGTTCATCA
1041 TTTTT
1 TTTTT
1046 TCTCATCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
13 5 0.11
14 3 0.07
15 4 0.09
16 2 0.04
17 14 0.31
18 6 0.13
19 11 0.24
ACGTcount: A:0.11, C:0.16, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTTTCATTTTGTTCATCA
Found at i:1012 original size:49 final size:47
Alignment explanation
Indices: 881--1045 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 47
871 GAACCTTTTA
* * *
881 TTTTTATTTTT-ATTTTTTT--TCTTTTTTCATTTTTCTTTTTTTAT
1 TTTTTATTTTTCATTTTTTTCATCATTTTTCATTTTTCTATTTTTCT
* *
925 TTTTTATTTTTTA-TTTTTTCAT--TTTTCCA--TTTCTATTTTTCT
1 TTTTTATTTTTCATTTTTTTCATCATTTTTCATTTTTCTATTTTTCT
967 CTTTTT-TTTTTCATTTTTTTCATCATTTTTCATTTGTTCTCATTTTTCT
1 -TTTTTATTTTTCATTTTTTTCATCATTTTTCATTT-TTCT-ATTTTTCT
*
1016 TTTCTT-CTTTTCATTTTTTTCATCATTTTT
1 TTT-TTATTTTTCATTTTTTTCATCATTTTT
1046 TCTCATCATT
Statistics
Matches: 103, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
42 17 0.17
43 14 0.14
44 23 0.22
45 7 0.07
46 1 0.01
47 1 0.01
48 7 0.07
49 33 0.32
ACGTcount: A:0.10, C:0.13, G:0.01, T:0.76
Consensus pattern (47 bp):
TTTTTATTTTTCATTTTTTTCATCATTTTTCATTTTTCTATTTTTCT
Found at i:1019 original size:32 final size:31
Alignment explanation
Indices: 980--1066 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 31
970 TTTTTTTTCA
980 TTTTTTTCATCATTTTTCATTTGTTCTCAT-T
1 TTTTTTTCATCATTTTTCATTT-TTCTCATAT
* *
1011 TTTCTTTTCTTC--TTTTCATTTTTTTCATCAT
1 TTT-TTTTCATCATTTTTCATTTTTCTCAT-AT
*
1042 TTTTTCTCATCATTTTTTCATTTTT
1 TTTTTTTCATCA-TTTTTCATTTTT
1067 AATTTTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
29 6 0.13
30 15 0.33
31 7 0.15
32 7 0.15
33 11 0.24
ACGTcount: A:0.11, C:0.17, G:0.01, T:0.70
Consensus pattern (31 bp):
TTTTTTTCATCATTTTTCATTTTTCTCATAT
Found at i:1034 original size:8 final size:8
Alignment explanation
Indices: 895--1088 Score: 84
Period size: 7 Copynumber: 25.4 Consensus size: 8
885 TATTTTTATT
895 TTTTTTC-
1 TTTTTTCA
902 TTTTTTCA
1 TTTTTTCA
910 -TTTTTC-
1 TTTTTTCA
*
916 TTTTTTTA
1 TTTTTTCA
924 TTTTTT-A
1 TTTTTTCA
931 TTTTTT-A
1 TTTTTTCA
938 TTTTTTCA
1 TTTTTTCA
*
946 TTTTTCCA
1 TTTTTTCA
*
954 -TTTCT-A
1 TTTTTTCA
960 -TTTTTC-
1 TTTTTTCA
*
966 TCTTTT--
1 TTTTTTCA
972 TTTTTTCA
1 TTTTTTCA
980 TTTTTTTCA
1 -TTTTTTCA
989 TCATTTTTCA
1 T--TTTTTCA
999 TTTGTTCTCA
1 TTT-TT-TCA
1009 -TTTTTC-
1 TTTTTTCA
1015 --TTTTC-
1 TTTTTTCA
1020 TTCTTTTCA
1 TT-TTTTCA
1029 TTTTTTTCA
1 -TTTTTTCA
1038 TCATTTTT--
1 T--TTTTTCA
* **
1046 TCTCATCA
1 TTTTTTCA
1054 TTTTTTCA
1 TTTTTTCA
*
1062 -TTTTTAA
1 TTTTTTCA
*
1069 TTTTTTTCT
1 -TTTTTTCA
1078 TTTTTTCA
1 TTTTTTCA
1086 TTT
1 TTT
1089 ATTCTTAAAG
Statistics
Matches: 146, Mismatches: 17, Indels: 47
0.70 0.08 0.22
Matches are distributed among these distances:
5 5 0.03
6 12 0.08
7 47 0.32
8 41 0.28
9 23 0.16
10 18 0.12
ACGTcount: A:0.11, C:0.14, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1045 original size:13 final size:13
Alignment explanation
Indices: 1026--1060 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1016 TTTCTTCTTT
1026 TCATTTTTT-TCA
1 TCATTTTTTCTCA
1038 TCATTTTTTCTCA
1 TCATTTTTTCTCA
1051 TCATTTTTTC
1 TCATTTTTTC
1061 ATTTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (13 bp):
TCATTTTTTCTCA
Found at i:9300 original size:18 final size:18
Alignment explanation
Indices: 9274--9308 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9264 TATCTCTTAT
* *
9274 TCTCTTGTTTATATAATC
1 TCTCATGTTCATATAATC
9292 TCTCATGTTCATATAAT
1 TCTCATGTTCATATAAT
9309 ATATCTTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (18 bp):
TCTCATGTTCATATAATC
Found at i:9646 original size:18 final size:18
Alignment explanation
Indices: 9615--9685 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
9605 ACTGAATATT
* *
9615 TGTCCTGAATGACCACTA
1 TGTCCCGAAGGACCACTA
* *
9633 TGTCCCGAAGGACCAATGGT
1 TGTCCCGAAGGACCACT--A
* *
9653 TGTTCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTA
*
9671 TGTCCTGAAGGACCA
1 TGTCCCGAAGGACCA
9686 TTGTTTGCCC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
18 26 0.65
20 14 0.35
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:9699 original size:38 final size:38
Alignment explanation
Indices: 9626--9707 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
9616 GTCCTGAATG
**
9626 ACCACTATGTCCCGAAGGACCAATGGTTGTTCCGAAGA
1 ACCACTATGTCCCGAAGGACCAATGGTTGCCCCGAAGA
* * * *
9664 ACCACTATGTCCTGAAGGACCATTGTTTGCCCCGAAGG
1 ACCACTATGTCCCGAAGGACCAATGGTTGCCCCGAAGA
9702 ACCACT
1 ACCACT
9708 GATAATCCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCACTATGTCCCGAAGGACCAATGGTTGCCCCGAAGA
Found at i:10934 original size:20 final size:20
Alignment explanation
Indices: 10909--10946 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10899 TTCCCCTTGA
10909 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
*
10929 AGTGCATCGATGTATTCT
1 AGTGCATCGATGCATTCT
10947 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:11044 original size:45 final size:45
Alignment explanation
Indices: 10973--11076 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
10963 TGCACTACCC
* * * *
10973 ATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAGGGG
1 ATGCATCGATGCACAAATTACATTCGATG-TTTCATCTTTAAAGAG
* * *
11018 ATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGAG
1 ATGCATCGATGCACAAATTACATTCGATGTTTCATCTTTAAAGAG
11063 -TGCATCGATGCACA
1 ATGCATCGATGCACA
11077 TTGAATGTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 18 0.36
45 32 0.64
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (45 bp):
ATGCATCGATGCACAAATTACATTCGATGTTTCATCTTTAAAGAG
Found at i:13043 original size:20 final size:18
Alignment explanation
Indices: 12953--13025 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
12943 ACTGAATATT
12953 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
12971 TGTCCCGAAGGACCACTGGT
1 TGTCCCGAAGGACCACT--A
* * *
12991 TGTTCTGAAGAACCACTA
1 TGTCCCGAAGGACCACTA
13009 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
13026 GTTTATCCCG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 31 0.69
20 14 0.31
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:13053 original size:20 final size:20
Alignment explanation
Indices: 12955--13054 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
12945 TGAATATTTG
*
12955 TCCCGAAGGACCACT-AT-G
1 TCCCGAAGGACCACTGATAA
* **
12973 TCCCGAAGGACCACTGGTTG
1 TCCCGAAGGACCACTGATAA
* * * *
12993 TTCTGAAGAACCACT-AT-G
1 TCCCGAAGGACCACTGATAA
* *
13011 TCCCGAAGGACCACTGTTTA
1 TCCCGAAGGACCACTGATAA
*
13031 TCCCGAAGGACCATTGATAA
1 TCCCGAAGGACCACTGATAA
13051 TCCC
1 TCCC
13055 TCGACTCTTG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
18 28 0.43
19 3 0.05
20 34 0.52
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (20 bp):
TCCCGAAGGACCACTGATAA
Found at i:14269 original size:20 final size:21
Alignment explanation
Indices: 14244--14303 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
14234 TTCCCCTTGA
14244 AGTGCATCGATGCATTCT-AC
1 AGTGCATCGATGCATTCTAAC
*
14264 AGTGCATCGATGCATTTTTTAAC
1 AGTGCATCGATGCA--TTCTAAC
14287 ATGTGCATCGATGCATT
1 A-GTGCATCGATGCATT
14304 ACCCATGCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 14 0.40
22 5 0.14
23 3 0.09
24 13 0.37
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (21 bp):
AGTGCATCGATGCATTCTAAC
Found at i:14297 original size:24 final size:22
Alignment explanation
Indices: 14244--14303 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 22
14234 TTCCCCTTGA
14244 AGTGCATCGATGCA--TTCTAC
1 AGTGCATCGATGCATTTTCTAC
*
14264 AGTGCATCGATGCATTTTTTAAC
1 AGTGCATCGATGCATTTTCT-AC
14287 ATGTGCATCGATGCATT
1 A-GTGCATCGATGCATT
14304 ACCCATGCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 14 0.40
22 3 0.09
23 3 0.09
24 15 0.43
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (22 bp):
AGTGCATCGATGCATTTTCTAC
Found at i:14376 original size:64 final size:63
Alignment explanation
Indices: 14289--14429 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
14279 TTTTTAACAT
* * * *
14289 GTGCATCGATGCATTACCCATGCACCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACCCATGCACCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
14352 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCACCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
14416 GTGCATCGATGCAC
1 GTGCATCGATGCAC
14430 ATTGCACATT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
63 21 0.32
64 44 0.68
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCACCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:18590 original size:21 final size:21
Alignment explanation
Indices: 18539--18591 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
18529 ATTATGACTA
18539 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
18560 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
18581 TCGCAATGCGA
1 TCGCAATGCGA
18592 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:18646 original size:21 final size:21
Alignment explanation
Indices: 18621--18676 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
18611 ATACTGACTA
*
18621 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCAATTTTCATAAT
* *
18642 TCGCATTGCGATTTTCATAAT
1 TCGCAATGCAATTTTCATAAT
18663 TCGCAATGCGAATT
1 TCGCAATGC-AATT
18677 AGGAAAATCG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (21 bp):
TCGCAATGCAATTTTCATAAT
Found at i:18666 original size:103 final size:103
Alignment explanation
Indices: 18539--18737 Score: 231
Period size: 103 Copynumber: 1.9 Consensus size: 103
18529 ATTATGACTA
* ** * * * * *
18539 TCGCAATGCGATTTTCCAATTTCGCGTTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCG
1 TCGCAATGCGATTTTCCAAATTCGCAATGCGAATTACCAAAATCGCAACGCGAATAAGTAAATCG
*
18604 TAATGCG-ATACTGACTATCGCAATGCAATTTTCCTAAT
66 CAATGCGAAT-CTGACTATCGCAATGCAATTTTCCTAAT
* ** *
18642 TCGCATTGCGATTTT-CATAATTCGCAATGCGAATTAGGAAAATCGCAACGCGAATACGTAAATC
1 TCGCAATGCGATTTTCCA-AATTCGCAATGCGAATTACCAAAATCGCAACGCGAATAAGTAAATC
* *
18706 GCAATGCGAATCTTACTATCGCAATGCGATTT
65 GCAATGCGAATCTGACTATCGCAATGCAATTT
18738 ACATAGCGCC
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
102 2 0.03
103 75 0.95
104 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (103 bp):
TCGCAATGCGATTTTCCAAATTCGCAATGCGAATTACCAAAATCGCAACGCGAATAAGTAAATCG
CAATGCGAATCTGACTATCGCAATGCAATTTTCCTAAT
Found at i:18687 original size:21 final size:21
Alignment explanation
Indices: 18663--18716 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
18653 TTTTCATAAT
*
18663 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
18684 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
18704 TCGCAATGCGAAT
1 TCGCAATGCGAAT
18717 CTTACTATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:18728 original size:82 final size:82
Alignment explanation
Indices: 18519--18742 Score: 208
Period size: 82 Copynumber: 2.7 Consensus size: 82
18509 GTTTCCAGAT
* * * * * **
18519 TCGCAACGCGATTA-TGACTATCGCAATGCGAT-TTTCCAATTTCGCGTTGCGATTTTCCCAATT
1 TCGCAACGCGA-TACTGACAATCGCAATGCAATCTTACTAA-TTCGCATTGCGATTTTCATAATT
*
18582 CGCAATGCGAATAAGTAAA
64 CGCAATGCGAATAAGAAAA
* * * * *
18601 TCGTAATGCGATACTGACTATCGCAATGCAATTTTCCTAATTCGCATTGCGATTTTCATAATTCG
1 TCGCAACGCGATACTGACAATCGCAATGCAATCTTACTAATTCGCATTGCGATTTTCATAATTCG
*
18666 CAATGCGAATTAGGAAAA
66 CAATGCGAA-TAAGAAAA
* *
18684 TCGCAACGCGAATAC-GTA-AATCGCAATGCGAATCTTACT-A-TCGCAATGCGATTTACATA
1 TCGCAACGCG-ATACTG-ACAATCGCAATGC-AATCTTACTAATTCGCATTGCGATTTTCATA
18743 GCGCCATTCG
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
81 2 0.02
82 74 0.62
83 31 0.26
84 12 0.10
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (82 bp):
TCGCAACGCGATACTGACAATCGCAATGCAATCTTACTAATTCGCATTGCGATTTTCATAATTCG
CAATGCGAATAAGAAAA
Found at i:19352 original size:14 final size:14
Alignment explanation
Indices: 19333--19421 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
19323 TTTCATTTCG
19333 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
19347 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
19366 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
19380 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
19399 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
19413 CGTTGCGAT
1 CGTTGCGAT
19422 AGTCATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 31 0.51
16 4 0.07
17 4 0.07
19 22 0.36
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:19362 original size:33 final size:33
Alignment explanation
Indices: 19316--19445 Score: 233
Period size: 33 Copynumber: 3.9 Consensus size: 33
19306 CAAAATCGCA
**
19316 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
19349 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
19382 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
19415 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
19446 ATTATCTCGT
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
33 79 0.84
34 15 0.16
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.41
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:24656 original size:2 final size:2
Alignment explanation
Indices: 24649--24710 Score: 71
Period size: 2 Copynumber: 33.5 Consensus size: 2
24639 CCGCCCCATT
* *
24649 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TT TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24690 TA T- TA -A T- TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24711 TTTCGGGTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
1 5 0.09
2 48 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:33220 original size:13 final size:13
Alignment explanation
Indices: 33202--33226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33192 TACATATTGA
33202 CATTGGGCTTCTT
1 CATTGGGCTTCTT
33215 CATTGGGCTTCT
1 CATTGGGCTTCT
33227 CTGCTGCTGG
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:0.08, C:0.24, G:0.24, T:0.44
Consensus pattern (13 bp):
CATTGGGCTTCTT
Found at i:49948 original size:23 final size:23
Alignment explanation
Indices: 49921--49981 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
49911 AATAAATAAT
49921 TAAAATCGAAAACAAAGCGAAAC
1 TAAAATCGAAAACAAAGCGAAAC
*
49944 TAAAATCGAAAACAAAGTGAAAC
1 TAAAATCGAAAACAAAGCGAAAC
49967 TAAAATCG-AAACAAA
1 TAAAATCGAAAACAAA
49982 TTAAATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 7 0.19
23 30 0.81
ACGTcount: A:0.62, C:0.15, G:0.11, T:0.11
Consensus pattern (23 bp):
TAAAATCGAAAACAAAGCGAAAC
Found at i:56139 original size:23 final size:21
Alignment explanation
Indices: 56101--56150 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
56091 TAACTACTGA
56101 AAAATAAAAAAATTAAATATT
1 AAAATAAAAAAATTAAATATT
*
56122 AAAATAAATCAAAATTAATTATT
1 AAAATAAA--AAAATTAAATATT
*
56145 TAAATA
1 AAAATA
56151 TTAAGCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
23 17 0.68
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATAAAAAAATTAAATATT
Found at i:57994 original size:20 final size:20
Alignment explanation
Indices: 57955--58024 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 20
57945 TAAAAATATG
*
57955 ATGTAATAGGTAGCACTTAT
1 ATGTAATAGGTAGCGCTTAT
*
57975 ATGTAATAGGTAGCGTTTATAT
1 ATGTAATAGGTAGCG-CT-TAT
*
57997 AATGTAATAGGTAGTGCTTAT
1 -ATGTAATAGGTAGCGCTTAT
58018 ATTGTAA
1 A-TGTAA
58025 AGTATCTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 15 0.36
21 9 0.21
22 4 0.10
23 14 0.33
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (20 bp):
ATGTAATAGGTAGCGCTTAT
Found at i:58005 original size:23 final size:22
Alignment explanation
Indices: 57950--58024 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
57940 ATAGGTAAAA
*
57950 ATATGATGTAATAGGTAGC-ACT
1 ATAT-ATGTAATAGGTAGCGATT
*
57972 -TATATGTAATAGGTAGCGTTT
1 ATATATGTAATAGGTAGCGATT
* *
57993 ATATAATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGCGATT
58016 ATAT-TGTAA
1 ATATATGTAA
58025 AGTATCTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 14 0.30
21 9 0.20
22 3 0.07
23 20 0.43
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGATT
Found at i:58419 original size:22 final size:22
Alignment explanation
Indices: 58375--58419 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
58365 ATTACATAAC
**
58375 TTTATAAAAAGTATGGATTCTT
1 TTTATAAAAAGTATGGACACTT
58397 TTTATAAAAAGTATGGACACTT
1 TTTATAAAAAGTATGGACACTT
58419 T
1 T
58420 CAATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTATAAAAAGTATGGACACTT
Found at i:58468 original size:23 final size:23
Alignment explanation
Indices: 58437--58509 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
58427 ATAGGTAAAA
* *
58437 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
**
58460 ATATAATGTAATAGGTAGTTTTT
1 ATATAATGTAATAGGTAGTGCTT
58483 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
58506 ATAT
1 ATAT
58510 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:58683 original size:486 final size:481
Alignment explanation
Indices: 57528--58867 Score: 2284
Period size: 486 Copynumber: 2.8 Consensus size: 481
57518 TTTTTACCTG
* *
57528 TTATATTGTAAAATATCTATCCATTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
57593 AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
57658 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTAC-GTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
57723 TTATTATTATCTTTAGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAA
195 TTATTATTATCTTT-GTTAATATTGTTAAATTTAAATTCTAAAT-ATATTTTATAAAATATCAAA
* *
57788 ATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAA
258 ACAATCAAATAATTTTTTGTG-AAATGAAATTATTAAATTAATATTGTAGGT-GAAAACATGAAA
* *
57853 CACTGTTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCCTTTTTATAA
321 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
57918 AAAGTATGGACACTTTCAATATATAGGTAAAAATATGATGTAATAGGTAGCACTTATATGTAATA
386 AAAGTATGGACACTTTCAATATATAGGTAAAAATATGATGTAATAGGTAGCACTTATATGTAATA
57983 GGTAGCGTTTATATAATGTAATAGGTAGTGC
451 GGTAGCGTTTATATAATGTAATAGGTAGTGC
**
58014 TTATATTGTAAAGTATCTATTTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
**
58079 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGATGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
58144 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACG-TATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
58209 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
195 TTATTATTATCTTT-GTTAATATTGTTAAATTTAAATTCTAAATA-TATTTTATAAAATATCAAA
58274 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAA
258 ACAATCAAATAATTTTTTGTG-AAATGAAATTATTAAATTAATATTGTAGGTG-AAAACATGAAA
* * *
58339 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTATAAAAAGTATGGATTCTTTTTATAA
321 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
*
58404 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
386 AAAGTATGGACACTTTCAATAT-ATAGGTAAAAATATGATGTAATAGGTAGCAC-T-TAT-ATGT
**
58469 AATAGGTAGTTTTTATATAATGTAATAGGTAGTGC
447 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
58504 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTATGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
58569 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
58634 TTAATTTTTACGTTACG-ATATATTATTATTAAATTAAAAAC-AT-AACATATATATTACATA-T
131 TTATTTTTTACGTTACGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATT
*
58695 T-TTATTATCTTTGATAATATTGTTAAATTTAAATTCT-AA-ATATTTTATAAAATATCAAAACA
196 TATTATTATCTTTGTTAATATTGTTAAATTTAAATTCTAAATATATTTTATAAAATATCAAAACA
*
58757 ATCAAATAA-TTTTTGT-AAATGAAATTATTAAATTAATATTGTAGGTGGAAACATGAAACACTA
261 ATCAAATAATTTTTTGTGAAATGAAATTATTAAATTAATATTGTAGGTGAAAACATGAAACACTA
58820 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGA
326 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGA
58868 CCCAAAACGA
Statistics
Matches: 816, Mismatches: 31, Indels: 24
0.94 0.04 0.03
Matches are distributed among these distances:
476 61 0.07
477 31 0.04
479 7 0.01
480 31 0.04
481 1 0.00
482 2 0.00
483 24 0.03
484 11 0.01
485 5 0.01
486 406 0.50
487 32 0.04
488 25 0.03
489 3 0.00
490 177 0.22
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (481 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATT
TATTATTATCTTTGTTAATATTGTTAAATTTAAATTCTAAATATATTTTATAAAATATCAAAACA
ATCAAATAATTTTTTGTGAAATGAAATTATTAAATTAATATTGTAGGTGAAAACATGAAACACTA
TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGT
ATGGACACTTTCAATATATAGGTAAAAATATGATGTAATAGGTAGCACTTATATGTAATAGGTAG
CGTTTATATAATGTAATAGGTAGTGC
Found at i:58908 original size:20 final size:18
Alignment explanation
Indices: 58885--58930 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
58875 CGATATACCA
58885 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAA-C
*
58905 GGTATCAAAATGATAAAAC
1 GGTA-AAAAATGATAAAAC
58924 GGTAAAA
1 GGTAAAA
58931 GGTTACCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 5 0.22
20 13 0.57
21 3 0.13
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (18 bp):
GGTAAAAAATGATAAAAC
Found at i:59088 original size:20 final size:19
Alignment explanation
Indices: 59065--59111 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
59055 CGATATAACA
*
59065 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
59085 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
59105 GGTAAAA
1 GGTAAAA
59112 TGACACCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:61233 original size:15 final size:15
Alignment explanation
Indices: 61213--61241 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61203 GTTGTATTGG
61213 GGGATGACGGTGAGT
1 GGGATGACGGTGAGT
61228 GGGATGACGGTGAG
1 GGGATGACGGTGAG
61242 GGAAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.55, T:0.17
Consensus pattern (15 bp):
GGGATGACGGTGAGT
Found at i:61356 original size:21 final size:21
Alignment explanation
Indices: 61330--61390 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
61320 CAATCAAGAA
61330 TCGAAGAGAAACTTGATAGAG
1 TCGAAGAGAAACTTGATAGAG
*
61351 TCGAAGAGAAACTTGAGAGAG
1 TCGAAGAGAAACTTGATAGAG
* *
61372 TCGAAGATACACTTGATAG
1 TCGAAGAGAAACTTGATAG
61391 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.28, T:0.20
Consensus pattern (21 bp):
TCGAAGAGAAACTTGATAGAG
Found at i:61466 original size:33 final size:33
Alignment explanation
Indices: 61424--61489 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
61414 AAATAGATGG
*
61424 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
61457 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
61490 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:63305 original size:200 final size:200
Alignment explanation
Indices: 62962--64029 Score: 1838
Period size: 200 Copynumber: 5.4 Consensus size: 200
62952 GTGGTTTTTA
* * *
62962 AATTTTTCAATATAATCGGTACAAGTATACCGGTTGTATGAGAGAATAGGTCTAAATAATGTATC
1 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
*
63027 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATA
66 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
* * *
63092 AAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACATCGAAACCCATAGGTATAATGTAA
131 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
63157 TAGGT
196 TAGGT
* *
63162 AATTTTTCAATATACCCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
1 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
63227 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
66 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
* * *
63292 AAGTTTCGATCCATATATAAAAAGTGTCGATCCGATAAACATCGAAACCCATAAGTATAATGTAA
131 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
63357 TAGGT
196 TAGGT
*
63362 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTC
1 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
63427 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
66 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
63492 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
131 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
63557 TAGGT
196 TAGGT
* * *
63562 AATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGGGAGAATTGGTCTAAATAATGTATC
1 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
63627 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
66 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
* *
63692 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATAGAAACCCAAAAGTATAATGTAT
131 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
63757 TAGGT
196 TAGGT
* * * * *
63762 AATTTTTCAATCTAACTGGTATAAGTATACCGGTTTTATGGGAGAATTGGTCTAAATAATGTGTC
1 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
63827 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG-AAACAGGGTGCAACCATA
66 GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
*
63891 AAGTGTCGATCC--ATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAT
131 AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
63954 TAGGT
196 TAGGT
* * * *
63959 AATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGGGAGAATTGGTATATAAT-ATGTAT
1 AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTA-AATAATGTAT
*
64023 CGGCACT
65 CGACACT
64030 GTTTAATGTA
Statistics
Matches: 842, Mismatches: 25, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
197 118 0.14
198 3 0.00
199 30 0.04
200 691 0.82
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (200 bp):
AATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATC
GACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATA
AAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAA
TAGGT
Found at i:65533 original size:6 final size:6
Alignment explanation
Indices: 65522--65585 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
65512 CAAGCGGTCA
* * * * *
65522 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
65570 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
65586 TGATCCAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:65571 original size:3 final size:3
Alignment explanation
Indices: 65539--65589 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
65529 TGAAGCTGAC
* * * *
65539 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
65587 GAT
1 GAT
65590 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:65589 original size:12 final size:12
Alignment explanation
Indices: 65522--65585 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
65512 CAAGCGGTCA
*
65522 ATGAAGATGAAG
1 ATGACGATGAAG
*
65534 CTGACGATGAAG
1 ATGACGATGAAG
65546 ATGACGATGAAG
1 ATGACGATGAAG
*
65558 ATGACGATGATG
1 ATGACGATGAAG
* *
65570 ATGATGATGATG
1 ATGACGATGAAG
65582 ATGA
1 ATGA
65586 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:67137 original size:183 final size:182
Alignment explanation
Indices: 66786--67187 Score: 653
Period size: 183 Copynumber: 2.2 Consensus size: 182
66776 CAAAGTTTTC
* *
66786 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTTGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
66851 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
** *
66916 TAATTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
*
66970 ATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
67035 CAAAAAGTGTCGACATT-TACACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
67099 TAACCGGTATAAATATACTGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
*
67153 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCA
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
67188 AAATTATAAT
Statistics
Matches: 203, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
183 126 0.62
184 74 0.36
186 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
Found at i:67428 original size:120 final size:120
Alignment explanation
Indices: 67067--67431 Score: 622
Period size: 120 Copynumber: 3.0 Consensus size: 120
67057 ATCGGAACCT
* * * *
67067 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCAA
1 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGA
*
67132 ATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCC
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
* *
67187 AAAATTATAATGTACTAGATAATTTTGTAATATAACCGGTAAAAGTATACCGGTTTTATGAGCGA
1 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGA
67252 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
* * *
67307 AGAATTATAATGTACTAGATAATTTTGTAATATAACAGGTATAAGTATACCGATTTTATTAGCGA
1 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGA
* *
67372 ATAGGTCTACAATCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
67427 AGAAT
1 AGAAT
67432 GGAAGAAAAA
Statistics
Matches: 231, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 231 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATGAGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
Found at i:70547 original size:23 final size:23
Alignment explanation
Indices: 70521--70585 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
70511 AAATATGATA
70521 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
70544 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
70567 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
70586 TGTAAAGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:71028 original size:23 final size:23
Alignment explanation
Indices: 70997--71069 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
70987 ATAGGTAAAA
* *
70997 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
71020 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
71043 ATATATTGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
71066 ATAT
1 ATAT
71070 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:71504 original size:490 final size:489
Alignment explanation
Indices: 70069--72939 Score: 5051
Period size: 490 Copynumber: 5.9 Consensus size: 489
70059 AACCAATAAT
*
70069 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
70134 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
*
70199 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
70264 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
* * *
70329 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAATAT
261 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
* *
70394 TGTAGGTGGAAAACATGAAACGCTATTAAAAAAAATTGAAACATAAATTACATGACTTTAAAAAA
326 TGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
* *
70459 AGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATAA
390 AGTATCGAT-CATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
*
70524 TAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
454 TAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* *
70560 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTTCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
70625 TTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
*
70690 AATTATAAGCGTCTAATGA-TTATTTTTTACGTTACG--ATATATTATTATTAAATT-AAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
*
70751 T-AATATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
70815 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
261 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
70880 TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
326 TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
*
70945 GTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATA
391 GTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATA
71010 GGTAGCACTTATATAATGTAATAGGTAGCGTTTA
456 GGTAGCACTTATATAATGTAATAGGTAGCGTTTA
*
71044 TATATTGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
71109 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
*
71174 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAATACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
71239 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
*
71304 TTATTTTATAAAATATCAAAATAATCAAATAATTTTTTTGTGCAAATGAAATTATTAAATTAATA
261 TTATTTTATAAAATATCAAAACAATCAAATAA-TTTTTTGTGCAAATGAAATTATTAAATTAATA
*
71369 TTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
325 TTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
71434 AGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
390 AGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
71499 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
455 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* *
71534 TATAATGTAATAGGTAGTGTTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
71599 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
71664 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
*
71729 TAAACATATATATTATATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
71794 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
261 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
71859 TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
326 TGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
*
71924 AGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
390 AGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
*
71989 AGGTAGCACTTATATAGTGTAATAGGTAGCGTTTA
455 AGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* * *
72024 TATAATGTAATAGGTAGTGCTTATATTCTAAAGTATCTATCCTTTTTATAAAAATGTCCATATTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* * *
72089 TTTTCGCTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
** * * *
72154 AATTATAGGTATCTAATGACTTATTTTTTACGTTAGGGTATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
*
72219 TAAACATATTTATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
* * *
72284 ATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
261 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
*
72349 TGTAGGTGGAAAACATGAAATACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
326 TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
* * *
72413 GTATCGATCATTTTTATAAAAAAG-ATCGATACTTTACAATAT-ATCAGATAAAAATATGATGTA
391 GTATCGATCATTTTTAT-AAAAAGTATGGACACTTT-CAATATAAT-AGGTAAAAATATGATGTA
* * *
72476 ATAGGGAGCGCTTATATAATGTAATAGGTAGCGCTTA
453 ATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTA
* **
72513 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTTAATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* * *
72578 ATTTCACTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
72643 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
*
72708 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTATTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
* * *
72773 TGATTTTATAAATTATCAAAACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATAT
261 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
*
72838 TGTAGGTGAAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
326 TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
*
72902 -TATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAA
391 GTATCGATCATTTTTAT-AAAAAGTATGGACACTTTCAA
72940 CATATTATAA
Statistics
Matches: 2282, Mismatches: 87, Indels: 25
0.95 0.04 0.01
Matches are distributed among these distances:
484 231 0.10
485 62 0.03
486 150 0.07
487 26 0.01
488 115 0.05
489 589 0.26
490 964 0.42
491 145 0.06
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (489 bp):
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
GTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATA
GGTAGCACTTATATAATGTAATAGGTAGCGTTTA
Found at i:71555 original size:23 final size:23
Alignment explanation
Indices: 71487--71559 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
71477 ATAGGTAAAA
* **
71487 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGTTT
71510 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
71533 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
71556 ATAT
1 ATAT
71560 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:72009 original size:23 final size:23
Alignment explanation
Indices: 71977--72049 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
71967 ATAGGTAAAA
* *
71977 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
* *
72000 ATATAGTGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
72023 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
72046 ATAT
1 ATAT
72050 TCTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:72492 original size:23 final size:23
Alignment explanation
Indices: 72466--72538 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
72456 TCAGATAAAA
* *
72466 ATATGATGTAATAGGGAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
72489 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
72512 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
72535 ATAT
1 ATAT
72539 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:72652 original size:979 final size:978
Alignment explanation
Indices: 70069--72939 Score: 5100
Period size: 979 Copynumber: 2.9 Consensus size: 978
70059 AACCAATAAT
*
70069 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
70134 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
70199 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
70264 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
*
70329 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAATAT
261 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
** *
70394 TGTAGGTGGAAAACATGAAACGCTATTAAAAAAAATTGAAACATAAATTACATGACTTTAAAAAA
326 TGTAGGTGGAAAACATGAAATACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
* *
70459 AGTATCGATCCTTTTT-TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATA
390 AGTATCGATCATTTTTATA-AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
70523 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
454 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
* *
70588 TAAAGTATCTATCTTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGAAAAACATTAATTTAAG
519 TAAAGTATATATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTG-AAAACATTAATTTAAG
*
70653 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAAGCGTCTAATGA-TTATTTTT
583 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
*
70717 TACGTTACG--ATATATTATTATTAAATT-AAAACAAT-AATATATATATTACATATTTATTATT
648 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
70778 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAA
713 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAA
70843 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
778 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
*
70908 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGG
843 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGG
70973 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAG
908 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAG
71038 CGTTTA
973 CGTTTA
*
71044 TATATTGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
71109 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
* *
71174 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAATACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
71239 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
* * *
71304 TTATTTTATAAAATATCAAAATAATCAAATAATTTTTTTGTGCAAATGAAATTATTAAATTAATA
261 ATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTTGTGTAAATGAAATTATTAAATTAATA
71369 TTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
325 TTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
71434 AGTATCGATCATTTTTAT-AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
390 AGTATCGATCATTTTTATAAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
* *
71498 TAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGTTTATATTGT
455 TAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGT
* *
71563 AAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
520 AAAGTATATATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGT-GAAAACATTAATTTAAGG
71628 TTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
584 TTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
*
71693 ACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATATATTTATTATTA
649 ACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTA
71758 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAA
714 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAA
71823 TAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
779 TAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
*
71888 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAG
843 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGG
*
71953 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAGTGTAATAGGTAG
908 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAG
72018 CGTTTA
973 CGTTTA
* * *
72024 TATAATGTAATAGGTAGTGCTTATATTCTAAAGTATCTATCCTTTTTATAAAAATGTCCATATTT
1 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
* *
72089 TTTTCGCTGTAGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
66 TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
** * *
72154 AATTATAGGTATCTAATGACTTATTTTTTACGTTAGGGTATATATTATTATTAAATTAAAAACAA
131 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
*
72219 TAAACATATTTATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
196 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
*
72284 ATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
261 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
72349 TGTAGGTGGAAAACATGAAATACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
326 TGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
* * *
72413 GTATCGATCATTTTTATAAAAAAG-ATCGATACTTTACAATAT-ATCAGATAAAAATATGATGTA
391 GTATCGATCATTTTTATAAAAAAGTATGGACACTTT-CAATATAAT-AGGTAAAAATATGATGTA
* *
72476 ATAGGGAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGCTTATATTG
454 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
* * *
72541 TAAAGTATATATCCTTTTTATAAAAGTGTTAATACTTATTTCACTGTAGAAAACGTTAATTTAAG
519 TAAAGTATATATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGT-GAAAACATTAATTTAAG
72606 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
583 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
72671 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
648 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
* * *
72736 ATCTTTGGTTAATATTATTAAATTTAAATTCTAAATATGATTTTATAAATTATCAAAACAATCAA
713 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAA
* *
72801 ATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATT-
778 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
*
72865 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAA-TATCGATCCTTTTTATAAAAAAGTATG
843 AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT-AAAAAGTATG
72929 GACACTTTCAA
907 GACACTTTCAA
72940 CATATTATAA
Statistics
Matches: 1818, Mismatches: 65, Indels: 24
0.95 0.03 0.01
Matches are distributed among these distances:
974 222 0.12
975 353 0.19
976 72 0.04
977 75 0.04
978 73 0.04
979 614 0.34
980 409 0.22
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (978 bp):
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAA
TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
TGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAA
GTATCGATCATTTTTATAAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
AGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTA
AAGTATATATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGAAAACATTAATTTAAGGTT
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGT
TTA
Found at i:78659 original size:22 final size:22
Alignment explanation
Indices: 78632--78681 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
78622 CCGACCCGTT
78632 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
78654 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
78676 GACCCG
1 GACCCG
78682 TTGACCGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.50, G:0.24, T:0.08
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:78681 original size:17 final size:17
Alignment explanation
Indices: 78618--78662 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
78608 TGACCGGTCA
78618 CGACCCGACCCGTTGACC
1 CGACCCGA-CCGTTGACC
78636 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
78653 CGACCCGACC
1 CGACCCGACC
78663 CGACCGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.18, C:0.51, G:0.22, T:0.09
Consensus pattern (17 bp):
CGACCCGACCGTTGACC
Found at i:79522 original size:25 final size:25
Alignment explanation
Indices: 79489--79542 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
79479 ATAGTTTATC
*
79489 TGAT-TTTTGACCTGGATTCTGATA
1 TGATATTTTGACCTGAATTCTGATA
* *
79513 TGATATTTTGACCTGAATTTTTATA
1 TGATATTTTGACCTGAATTCTGATA
79538 TGATA
1 TGATA
79543 CTTGACATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (25 bp):
TGATATTTTGACCTGAATTCTGATA
Found at i:85839 original size:17 final size:18
Alignment explanation
Indices: 85810--85843 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
85800 ACCGGTCACG
85810 ACCCGACCCGTTGACCCA
1 ACCCGACCCGTTGACCCA
85828 ACCCGA-CCGTTGACCC
1 ACCCGACCCGTTGACCC
85844 GACCTGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.21, C:0.50, G:0.18, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCA
Found at i:85917 original size:29 final size:30
Alignment explanation
Indices: 85885--85953 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
85875 ATTTGGTTTT
* *
85885 GGTGCTATTTTGGGAATTA-ATTCAAAAAG
1 GGTGCTATTTTGGGAATTATATTAAAAAAA
* * *
85914 GGTGCTATATTGGTAATTATTTTAAAAAAA
1 GGTGCTATTTTGGGAATTATATTAAAAAAA
85944 GGTGCTATTT
1 GGTGCTATTT
85954 GTGTAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTATATTAAAAAAA
Found at i:86690 original size:24 final size:24
Alignment explanation
Indices: 86658--86726 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
86648 ATAGTTTATC
*
86658 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * *
86682 TGATATTTGACCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
86706 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
86727 TTTTGTACTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:88854 original size:36 final size:36
Alignment explanation
Indices: 88807--88877 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
88797 ATGTAATCTA
88807 ACATAGAAATGACTCCTTATTGAACTTAATTATATG
1 ACATAGAAATGACTCCTTATTGAACTTAATTATATG
88843 ACATAGAAATGACTCCTTATTGAACTTAATTATAT
1 ACATAGAAATGACTCCTTATTGAACTTAATTATAT
88878 AATTTTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (36 bp):
ACATAGAAATGACTCCTTATTGAACTTAATTATATG
Found at i:95952 original size:16 final size:16
Alignment explanation
Indices: 95933--96013 Score: 72
Period size: 16 Copynumber: 5.0 Consensus size: 16
95923 AACTTAAATC
95933 AAAATTAACCCGAACT
1 AAAATTAACCCGAACT
** * *
95949 AAAAGCAACTCGAACCG
1 AAAATTAACCCGAA-CT
95966 AAAATTAACCCGAACT
1 AAAATTAACCCGAACT
** *
95982 AAAAGCAACGCGAACT
1 AAAATTAACCCGAACT
* *
95998 GAAATTAACCCAAACT
1 AAAATTAACCCGAACT
96014 GAAAGCAACT
Statistics
Matches: 48, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
16 36 0.75
17 12 0.25
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAATTAACCCGAACT
Found at i:95953 original size:32 final size:33
Alignment explanation
Indices: 95917--96038 Score: 133
Period size: 32 Copynumber: 3.8 Consensus size: 33
95907 TAGTGAAACC
* *
95917 AAAAGCAACTTAAATC-AAAATTAACCCGAACT
1 AAAAGCAACTCAAACCGAAAATTAACCCGAACT
*
95949 AAAAGCAACTCGAACCGAAAATTAACCCGAACT
1 AAAAGCAACTCAAACCGAAAATTAACCCGAACT
* * * *
95982 AAAAGCAACGCGAACTG-AAATTAACCCAAACT
1 AAAAGCAACTCAAACCGAAAATTAACCCGAACT
* **
96014 GAAAGCAACTTGAACCG-AAATTAAC
1 AAAAGCAACTCAAACCGAAAATTAAC
96039 TCAAACCAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
32 48 0.61
33 31 0.39
ACGTcount: A:0.50, C:0.24, G:0.11, T:0.15
Consensus pattern (33 bp):
AAAAGCAACTCAAACCGAAAATTAACCCGAACT
Found at i:95975 original size:33 final size:32
Alignment explanation
Indices: 95934--96038 Score: 156
Period size: 32 Copynumber: 3.2 Consensus size: 32
95924 ACTTAAATCA
95934 AAATTAACCCGAACTAAAAGCAACTCGAACCG
1 AAATTAACCCGAACTAAAAGCAACTCGAACCG
* *
95966 AAAATTAACCCGAACTAAAAGCAACGCGAACTG
1 -AAATTAACCCGAACTAAAAGCAACTCGAACCG
* * *
95999 AAATTAACCCAAACTGAAAGCAACTTGAACCG
1 AAATTAACCCGAACTAAAAGCAACTCGAACCG
96031 AAATTAAC
1 AAATTAAC
96039 TCAAACCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 35 0.54
33 30 0.46
ACGTcount: A:0.49, C:0.25, G:0.12, T:0.14
Consensus pattern (32 bp):
AAATTAACCCGAACTAAAAGCAACTCGAACCG
Found at i:95979 original size:17 final size:17
Alignment explanation
Indices: 95933--95980 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
95923 AACTTAAATC
*
95933 AAAATTAACCCGAA-CT
1 AAAATTAACCCGAACCG
** *
95949 AAAAGCAACTCGAACCG
1 AAAATTAACCCGAACCG
95966 AAAATTAACCCGAAC
1 AAAATTAACCCGAAC
95981 TAAAAGCAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.50, C:0.27, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATTAACCCGAACCG
Found at i:96780 original size:16 final size:16
Alignment explanation
Indices: 96755--96788 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96745 TCTAAACAAT
* *
96755 CCGATGTTAACCTGAC
1 CCGATATTAACCCGAC
96771 CCGATATTAACCCGAC
1 CCGATATTAACCCGAC
96787 CC
1 CC
96789 AAAAATGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (16 bp):
CCGATATTAACCCGAC
Found at i:99700 original size:77 final size:77
Alignment explanation
Indices: 99550--99713 Score: 181
Period size: 77 Copynumber: 2.1 Consensus size: 77
99540 ACATCATGTG
* * * *
99550 GTCTTCTCAAAGAGTTTTGATAAGACTAGATATTAGGTTGTCTACTTGAGGAATTTTTACAAAAC
1 GTCTTCCCAAAGAGTTTTGACAAGACTAGATATTAGGTTGTCTACTTGAAGAATTTTGACAAAAC
99615 TATAATTGGGTT
66 TATAATTGGGTT
* * * * * *
99627 GTCTTCCCAATGAGTTTTGACAAGATTAGATATTGGGTTGTCTTCCTT-AAGAGTTTTGATC-AG
1 GTCTTCCCAAAGAGTTTTGACAAGACTAGATATTAGGTTGTC-TACTTGAAGAATTTTGA-CAAA
*
99690 ACTA-ATATTGGTTT
64 ACTATA-ATTGGGTT
99704 GTCTTCCCAA
1 GTCTTCCCAA
99714 GAAGATTTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
76 1 0.01
77 67 0.92
78 5 0.07
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (77 bp):
GTCTTCCCAAAGAGTTTTGACAAGACTAGATATTAGGTTGTCTACTTGAAGAATTTTGACAAAAC
TATAATTGGGTT
Found at i:99707 original size:38 final size:39
Alignment explanation
Indices: 99550--99743 Score: 146
Period size: 39 Copynumber: 5.0 Consensus size: 39
99540 ACATCATGTG
* * * *
99550 GTCTTCTCAAAGAGTTTTGATAAGACTAGATATTAGGTT
1 GTCTTCCCAATGAGTTTTGACAAGACTAGATATTGGGTT
* *** * * * * *
99589 GTCTACTTGAGGAATTTTTACAAAACTATA-ATTGGGTT
1 GTCTTCCCAATGAGTTTTGACAAGACTAGATATTGGGTT
*
99627 GTCTTCCCAATGAGTTTTGACAAGATTAGATATTGGGTT
1 GTCTTCCCAATGAGTTTTGACAAGACTAGATATTGGGTT
* *
99666 GTCTTCCTTAA-GAGTTTTGATC-AGACTA-ATATTGGTTT
1 GTCTTCC-CAATGAGTTTTGA-CAAGACTAGATATTGGGTT
* * * *
99704 GTCTTCCCAA-GAAGATTTGAAAATACTATATATTGGGTT
1 GTCTTCCCAATG-AGTTTTGACAAGACTAGATATTGGGTT
99743 G
1 G
99744 AAATGGTCTT
Statistics
Matches: 121, Mismatches: 28, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
37 3 0.02
38 55 0.45
39 60 0.50
40 3 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (39 bp):
GTCTTCCCAATGAGTTTTGACAAGACTAGATATTGGGTT
Found at i:105764 original size:2 final size:2
Alignment explanation
Indices: 105757--105782 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105747 ATTGCTATGA
105757 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
105783 GTTATGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107038 original size:39 final size:39
Alignment explanation
Indices: 106984--107133 Score: 151
Period size: 39 Copynumber: 3.8 Consensus size: 39
106974 TTGAGTTGTA
** * * *
106984 TTTCCAAAAAGTTTTGATAAGACTAAATATTAGGCTATC
1 TTTCCAAGGAGTTTTGAAAAGACTAGATATTAGGTTATC
* * *
107023 TTTCTAAGGAGTTTTGAAAATACTAGATATTAAGTTATC
1 TTTCCAAGGAGTTTTGAAAAGACTAGATATTAGGTTATC
* *
107062 TTTCCAAGAAGTTTT-AACAAGACTAGATATT-GAGTTGTC
1 TTTCCAAGGAGTTTTGAA-AAGACTAGATATTAG-GTTATC
* * *
107101 TTTCCAAGGAGTTTTAAAAATATTAGATATTAG
1 TTTCCAAGGAGTTTTGAAAAGACTAGATATTAG
107134 ATTAAAATAG
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 86 0.95
40 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (39 bp):
TTTCCAAGGAGTTTTGAAAAGACTAGATATTAGGTTATC
Found at i:107084 original size:78 final size:78
Alignment explanation
Indices: 106984--107132 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 78
106974 TTGAGTTGTA
* * * *
106984 TTTCCAAAAAGTTTTGATAAGACTAAATATT-AGGCTATCTTTCTAAGGAGTTTTGAAAATACTA
1 TTTCCAAAAAGTTTTAACAAGACTAAATATTGA-GCTATCTTTCCAAGGAGTTTTAAAAATACTA
107048 GATATTAAGTTATC
65 GATATTAAGTTATC
* * * * *
107062 TTTCCAAGAAGTTTTAACAAGACTAGATATTGAGTTGTCTTTCCAAGGAGTTTTAAAAATATTAG
1 TTTCCAAAAAGTTTTAACAAGACTAAATATTGAGCTATCTTTCCAAGGAGTTTTAAAAATACTAG
107127 ATATTA
66 ATATTA
107133 GATTAAAATA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 60 0.98
79 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (78 bp):
TTTCCAAAAAGTTTTAACAAGACTAAATATTGAGCTATCTTTCCAAGGAGTTTTAAAAATACTAG
ATATTAAGTTATC
Found at i:108729 original size:24 final size:25
Alignment explanation
Indices: 108697--108744 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
108687 TTTGCTTTTG
108697 TGCATTTTGCAA-GAAAAGATGATC
1 TGCATTTTGCAATGAAAAGATGATC
108721 TGCATTTTGCAATTGAAAAGATGA
1 TGCATTTTGCAA-TGAAAAGATGA
108745 ATAATGTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.55
26 10 0.45
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (25 bp):
TGCATTTTGCAATGAAAAGATGATC
Found at i:122954 original size:17 final size:17
Alignment explanation
Indices: 122932--123018 Score: 158
Period size: 17 Copynumber: 5.1 Consensus size: 17
122922 CGGATCGAAT
122932 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
122949 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
122966 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
122983 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
123000 GAACTCGAACTCGA-CTC
1 GAACTCG-ACTCGAGCTC
123017 GA
1 GA
123019 GTTCTTAACG
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
17 63 0.91
18 6 0.09
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.17
Consensus pattern (17 bp):
GAACTCGACTCGAGCTC
Found at i:122955 original size:6 final size:6
Alignment explanation
Indices: 122932--123018 Score: 103
Period size: 6 Copynumber: 15.3 Consensus size: 6
122922 CGGATCGAAT
* *
122932 GAACTC G-ACTC GAGCTC GAACTC G-ACTC GAGCTC GAACTC G-ACTC
1 GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC
* *
122977 GAGCTC GAACTC G-ACTC GAGCTC GAACTC GAACTC G-ACTC GA
1 GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GA
123019 GTTCTTAACG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
5 25 0.37
6 43 0.63
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.17
Consensus pattern (6 bp):
GAACTC
Found at i:123019 original size:23 final size:23
Alignment explanation
Indices: 122932--123019 Score: 110
Period size: 23 Copynumber: 3.9 Consensus size: 23
122922 CGGATCGAAT
*
122932 GAACTCG-ACTCGAGCTCGAACTC
1 GAACTCGAACTCGA-CTCGAGCTC
*
122955 G-ACTCGAGCTCGAACTCGA-CTC
1 GAACTCGAACTCG-ACTCGAGCTC
*
122977 GAGCTCGAACTCGACTCGAGCTC
1 GAACTCGAACTCGACTCGAGCTC
123000 GAACTCGAACTCGACTCGAG
1 GAACTCGAACTCGACTCGAG
123020 TTCTTAACGA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
22 15 0.26
23 41 0.72
24 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.24, T:0.17
Consensus pattern (23 bp):
GAACTCGAACTCGACTCGAGCTC
Found at i:123139 original size:11 final size:11
Alignment explanation
Indices: 123123--123185 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
123113 AAAATTACAT
123123 TATTAAAAATA
1 TATTAAAAATA
123134 TATTAAAAATA
1 TATTAAAAATA
* ***
123145 CATTATTGATA
1 TATTAAAAATA
123156 -ATTATAAAAT-
1 TATTA-AAAATA
123166 T-TTAAAAATA
1 TATTAAAAATA
123176 TATTAAAAAT
1 TATTAAAAAT
123186 TCTATAATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:123330 original size:14 final size:14
Alignment explanation
Indices: 123326--123450 Score: 105
Period size: 14 Copynumber: 9.1 Consensus size: 14
123316 CCCTAAACTA
123326 TAAACTATAAACCC
1 TAAACTATAAACCC
123340 TAAACTATAAACCC
1 TAAACTATAAACCC
* *
123354 TAAGTCTA-AAA-CT
1 TAA-ACTATAAACCC
*
123367 TAAACCATAAACCC
1 TAAACTATAAACCC
123381 TAAACTATAAACCC
1 TAAACTATAAACCC
* *
123395 TAAGTCCA-AAA-CC
1 TAA-ACTATAAACCC
*
123408 TAAACCATAAACCC
1 TAAACTATAAACCC
* * *
123422 TAAGCTCTAAGCCC
1 TAAACTATAAACCC
**
123436 TAAACCCTAAACCC
1 TAAACTATAAACCC
123450 T
1 T
123451 TAATCTGGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.06
13 15 0.17
14 64 0.72
15 5 0.06
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAACTATAAACCC
Found at i:123337 original size:21 final size:21
Alignment explanation
Indices: 123308--123447 Score: 133
Period size: 21 Copynumber: 6.8 Consensus size: 21
123298 GTTAGATTAC
123308 ACCATAAACCCTAAACTATAA
1 ACCATAAACCCTAAACTATAA
*
123329 ACTATAAACCCTAAACTATAA
1 ACCATAAACCCTAAACTATAA
* **
123350 ACCCT-AAGTCTAAAACT-TAA
1 ACCATAAACCCT-AAACTATAA
123370 ACCATAAACCCTAAACTATAA
1 ACCATAAACCCTAAACTATAA
* ** * *
123391 ACCCTAAGTCCAAAAC-CTAA
1 ACCATAAACCCTAAACTATAA
* *
123411 ACCATAAACCCTAAGCTCTAA
1 ACCATAAACCCTAAACTATAA
* *
123432 GCCCTAAACCCTAAAC
1 ACCATAAACCCTAAAC
123448 CCTTAATCTG
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
20 30 0.32
21 64 0.68
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (21 bp):
ACCATAAACCCTAAACTATAA
Found at i:123377 original size:41 final size:41
Alignment explanation
Indices: 123320--123438 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
123310 CATAAACCCT
* *
123320 AAACTATAAACTATAAACCCTAAACTATAAACCCTAAGTCTA
1 AAACT-TAAACCATAAACCCTAAACTATAAACCCTAAGTCCA
123362 AAACTTAAACCATAAACCCTAAACTATAAACCCTAAGTCCA
1 AAACTTAAACCATAAACCCTAAACTATAAACCCTAAGTCCA
* * * *
123403 AAACCTAAACCATAAACCCTAAGCTCTAAGCCCTAA
1 AAACTTAAACCATAAACCCTAAACTATAAACCCTAA
123439 ACCCTAAACC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 66 0.93
42 5 0.07
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (41 bp):
AAACTTAAACCATAAACCCTAAACTATAAACCCTAAGTCCA
Found at i:123420 original size:7 final size:7
Alignment explanation
Indices: 123308--123420 Score: 70
Period size: 7 Copynumber: 16.4 Consensus size: 7
123298 GTTAGATTAC
123308 ACCATAA
1 ACCATAA
*
123315 ACCCTAA
1 ACCATAA
*
123322 ACTATAA
1 ACCATAA
*
123329 ACTATAA
1 ACCATAA
*
123336 ACCCTAA
1 ACCATAA
*
123343 ACTATAA
1 ACCATAA
*
123350 ACCCTAA
1 ACCATAA
**
123357 GTC-TAA
1 ACCATAA
* *
123363 AACTTAA
1 ACCATAA
123370 ACCATAA
1 ACCATAA
*
123377 ACCCTAA
1 ACCATAA
*
123384 ACTATAA
1 ACCATAA
*
123391 ACCCTAA
1 ACCATAA
*
123398 GTCCA-AA
1 -ACCATAA
123405 ACC-TAA
1 ACCATAA
123411 ACCATAA
1 ACCATAA
123418 ACC
1 ACC
123421 CTAAGCTCTA
Statistics
Matches: 79, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
6 11 0.14
7 66 0.84
8 2 0.03
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (7 bp):
ACCATAA
Found at i:123448 original size:41 final size:41
Alignment explanation
Indices: 123312--123448 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
123302 GATTACACCA
* *
123312 TAAACCCTAAACTATAAACTATAAACCCTAAACTATAAACCC
1 TAAACCCTAAAC-CTAAACCATAAACCCTAAACTATAAACCC
** *
123354 T-AAGTCTAAAACTTAAACCATAAACCCTAAACTATAAACCC
1 TAAACCCT-AAACCTAAACCATAAACCCTAAACTATAAACCC
** * * * *
123395 TAAGTCCAAAACCTAAACCATAAACCCTAAGCTCTAAGCCC
1 TAAACCCTAAACCTAAACCATAAACCCTAAACTATAAACCC
123436 TAAACCCTAAACC
1 TAAACCCTAAACC
123449 CTTAATCTGG
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 71 0.91
42 7 0.09
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.20
Consensus pattern (41 bp):
TAAACCCTAAACCTAAACCATAAACCCTAAACTATAAACCC
Found at i:123563 original size:7 final size:7
Alignment explanation
Indices: 123521--123636 Score: 63
Period size: 7 Copynumber: 16.7 Consensus size: 7
123511 GTTAGATTAC
123521 ACCCTAA
1 ACCCTAA
*
123528 ACCTTAA
1 ACCCTAA
*
123535 ACCTTAA
1 ACCCTAA
**
123542 ACTATAA
1 ACCCTAA
***
123549 ATTATAA
1 ACCCTAA
123556 ACCCTAA
1 ACCCTAA
123563 ACCCTAA
1 ACCCTAA
*
123570 CCCCT-A
1 ACCCTAA
*
123576 ACCATAA
1 ACCCTAA
** *
123583 GTCATAA
1 ACCCTAA
*
123590 ACCATAA
1 ACCCTAA
123597 ACCCTAA
1 ACCCTAA
*
123604 GCCCTAA
1 ACCCTAA
* * *
123611 GCCTTAT
1 ACCCTAA
123618 ACCCTAA
1 ACCCTAA
*
123625 ACCTTAA
1 ACCCTAA
123632 ACCCT
1 ACCCT
123637 TAATCCAATT
Statistics
Matches: 85, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
6 4 0.05
7 81 0.95
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:124276 original size:135 final size:135
Alignment explanation
Indices: 124060--124325 Score: 496
Period size: 135 Copynumber: 2.0 Consensus size: 135
124050 CAGCAACACA
* * *
124060 TCCATCTTCCCTAGATTGCATGTTTGAAACTGAATGTTTCTGCACATCTGAGGTAACACTTGCAA
1 TCCATCTTCCCTAGATTGCATGTTTGAAACTGAATGCTTCGGCACATATGAGGTAACACTTGCAA
124125 CTGCATGTTTGTGGGATTACCTTTTGTTCCTTTAATGTCAATGGGTAGGCTTCATTATGTTCTGC
66 CTGCATGTTTGTGGGATTACCTTTTGTTCCTTTAATGTCAATGGGTAGGCTTCATTATGTTCTGC
124190 TCACG
131 TCACG
124195 TCCATCTTCCCTAGATTGCATGTTTGAAACTGAATGCTTCGGCACATATGAGGTAACACTTGCAA
1 TCCATCTTCCCTAGATTGCATGTTTGAAACTGAATGCTTCGGCACATATGAGGTAACACTTGCAA
*
124260 CTGTATGTTTGTGGGATTACCTTTTGTTCCTTTAATGTCAATGGGTAGGCTTCATTATGTTCTGC
66 CTGCATGTTTGTGGGATTACCTTTTGTTCCTTTAATGTCAATGGGTAGGCTTCATTATGTTCTGC
124325 T
131 T
124326 GTTGATTCCA
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (135 bp):
TCCATCTTCCCTAGATTGCATGTTTGAAACTGAATGCTTCGGCACATATGAGGTAACACTTGCAA
CTGCATGTTTGTGGGATTACCTTTTGTTCCTTTAATGTCAATGGGTAGGCTTCATTATGTTCTGC
TCACG
Found at i:130895 original size:22 final size:22
Alignment explanation
Indices: 130858--130993 Score: 218
Period size: 22 Copynumber: 6.2 Consensus size: 22
130848 AACAGATTCA
* *
130858 AGCTTGATTTGTGTTTAAATCG
1 AGCTTGATTCGAGTTTAAATCG
* *
130880 AGCCTGATTCGAGTTTAAATTG
1 AGCTTGATTCGAGTTTAAATCG
*
130902 AGCTTGATTCGAGTTTAAATTG
1 AGCTTGATTCGAGTTTAAATCG
130924 AGCTTGATTCGAGTTTAAATCG
1 AGCTTGATTCGAGTTTAAATCG
130946 AGCTTGATTCGAGTTTAAATCG
1 AGCTTGATTCGAGTTTAAATCG
*
130968 AGCTTGATTCGAGTTTAAATTG
1 AGCTTGATTCGAGTTTAAATCG
130990 AGCT
1 AGCT
130994 CTTGAAATTT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 107 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (22 bp):
AGCTTGATTCGAGTTTAAATCG
Found at i:132504 original size:20 final size:20
Alignment explanation
Indices: 132479--132517 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
132469 CTCCAACCCT
*
132479 GTGGGAATGTAAGGTTACCG
1 GTGGGAATGTAAGATTACCG
132499 GTGGGAATGTAAGATTACC
1 GTGGGAATGTAAGATTACC
132518 AGGGAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (20 bp):
GTGGGAATGTAAGATTACCG
Found at i:132524 original size:18 final size:19
Alignment explanation
Indices: 132481--132524 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
132471 CCAACCCTGT
* *
132481 GGGAATGTAAGGTTACCGGT
1 GGGAATGTAAGATTACC-GA
132501 GGGAATGTAAGATTACC-A
1 GGGAATGTAAGATTACCGA
132519 GGGAAT
1 GGGAAT
132525 ATGATTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.32, C:0.09, G:0.36, T:0.23
Consensus pattern (19 bp):
GGGAATGTAAGATTACCGA
Found at i:132722 original size:2 final size:2
Alignment explanation
Indices: 132715--132741 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
132705 TCATAAAATT
132715 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
132742 TAAAAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:133321 original size:21 final size:23
Alignment explanation
Indices: 133271--133326 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
133261 GTCGAGGGTT
* *
133271 CTATGTAGTCATTCGGGACAAAA
1 CTATGTGGTCATTCAGGACAAAA
*
133294 CTATGTGGTCCTTCAGGAC-AAA
1 CTATGTGGTCATTCAGGACAAAA
133316 -TATGTGG-CATT
1 CTATGTGGTCATT
133327 TCGGTGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 7 0.24
22 3 0.10
23 16 0.55
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCATTCAGGACAAAA
Found at i:137719 original size:54 final size:54
Alignment explanation
Indices: 137608--137712 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
137598 ATTGCACCGA
* * *
137608 AGTGTCGAAATGGAAATTCACAAACTCATTATGAATTCTATGGATTGCACACAT
1 AGTGTCGAAATGGAAATTCACAAACGCATTATGAATACCATGGATTGCACACAT
** * *
137662 AGTGTCGAAATGGTCATTCATAAACGCATTATGAATACCATGGGTTGCACA
1 AGTGTCGAAATGGAAATTCACAAACGCATTATGAATACCATGGATTGCACA
137713 TTTAGTGCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (54 bp):
AGTGTCGAAATGGAAATTCACAAACGCATTATGAATACCATGGATTGCACACAT
Found at i:144204 original size:15 final size:15
Alignment explanation
Indices: 144184--144261 Score: 56
Period size: 15 Copynumber: 5.4 Consensus size: 15
144174 AATGTAGTAA
144184 ATTATTATAAAATAT
1 ATTATTATAAAATAT
* * *
144199 ATTATT-TTAACTGT
1 ATTATTATAAAATAT
** * *
144213 -TTAAAATATAATAA
1 ATTATTATAAAATAT
144227 ATGT-TTAT-AAATAT
1 AT-TATTATAAAATAT
144241 ATTATTATAAAATAT
1 ATTATTATAAAATAT
144256 ATTATT
1 ATTATT
144262 TTAACTATTT
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
13 4 0.09
14 18 0.41
15 21 0.48
16 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTATTATAAAATAT
Found at i:144228 original size:43 final size:43
Alignment explanation
Indices: 144149--144246 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
144139 TTTATAGTGT
* * * *
144149 TAAAATATATT-CTTTAATTGTTAAAAATGTAGTAAAT-TATTA
1 TAAAATATATTATTTTAACTGTTAAAAATATAATAAATGT-TTA
*
144191 TAAAATATATTATTTTAACTGTTTAAAATATAATAAATGTTTA
1 TAAAATATATTATTTTAACTGTTAAAAATATAATAAATGTTTA
144234 T-AAATATATTATT
1 TAAAATATATTATT
144247 ATAAAATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 23 0.47
43 25 0.51
44 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (43 bp):
TAAAATATATTATTTTAACTGTTAAAAATATAATAAATGTTTA
Found at i:154090 original size:20 final size:20
Alignment explanation
Indices: 154065--154104 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
154055 AGCAACAGAA
*
154065 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
154085 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
154105 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:154147 original size:20 final size:21
Alignment explanation
Indices: 154118--154157 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
154108 TAATAGAATA
*
154118 AAAAATTGATTCTATCTAATT
1 AAAAATTGATCCTATCTAATT
154139 AAAAA-TGATCCTATCTAAT
1 AAAAATTGATCCTATCTAAT
154158 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAAATTGATCCTATCTAATT
Found at i:154196 original size:20 final size:20
Alignment explanation
Indices: 154171--154209 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
154161 TAATAGAATA
*
154171 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
154191 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
154210 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:154200 original size:52 final size:51
Alignment explanation
Indices: 154061--154210 Score: 264
Period size: 53 Copynumber: 2.9 Consensus size: 51
154051 AATTAGCAAC
154061 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
154112 AGAATAAAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
154165 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATA
154211 TTTAATTTAG
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 5 0.05
52 44 0.46
53 46 0.48
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (51 bp):
AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:158803 original size:20 final size:20
Alignment explanation
Indices: 158778--158817 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
158768 AGCAACAGAA
*
158778 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
158798 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
158818 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:158860 original size:20 final size:21
Alignment explanation
Indices: 158831--158870 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
158821 TAATAGAATA
*
158831 AAAAATTGATTCTATCTAATT
1 AAAAATTGATCCTATCTAATT
158852 AAAAA-TGATCCTATCTAAT
1 AAAAATTGATCCTATCTAAT
158871 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAAATTGATCCTATCTAATT
Found at i:158909 original size:20 final size:20
Alignment explanation
Indices: 158884--158922 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
158874 TAATAGAATA
158884 AAAACTGATTC-TATCTAATT
1 AAAACTGA-TCATATCTAATT
158904 AAAACTGATCATATCTAAT
1 AAAACTGATCATATCTAAT
158923 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCATATCTAATT
Found at i:158913 original size:52 final size:51
Alignment explanation
Indices: 158774--158923 Score: 255
Period size: 53 Copynumber: 2.9 Consensus size: 51
158764 AATTAGCAAC
158774 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
158825 AGAATAAAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
* *
158878 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCATATCTAATA
1 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATA
158924 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 5 0.05
52 43 0.46
53 46 0.49
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (51 bp):
AGAATAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:159988 original size:441 final size:433
Alignment explanation
Indices: 159148--160022 Score: 1131
Period size: 444 Copynumber: 2.0 Consensus size: 433
159138 TAAGTTCAAA
*
159148 TTATTCTTGCTTATGTATCATTGTTTAACTGGGAACCTATGTCACTTTGTGAAATGGACTTCACG
1 TTATTCTTGCTTATGTATCATTGTTTAACTGGGAACCTATGTCACTTTGTGAAAAGGACTTCACG
* *
159213 ACTTCAATTGGTGCAATAAGTCATTTTAACTTTTTAATTTGGTTTGACCGAGTTGGTTAGGTGGC
66 ACTTCAATTGGTGCAATAAGTCATTTTAACTTTTTAATTTGGTTTGACCAAGCTGGTTAGGTGGC
* * *
159278 CAAGATCTAAAATTGTTAAAAACGAGAAAAGAAAAGAGAACATGTGAAAAGCTATCTAATAATTC
131 CAAGAACTAAAATTATTAAAAACGAGAAAAGAAAAGAGAACATGT--AAAGCTATATAATAATTC
* * * * *
159343 AAGCCTAATCCCTCTAGAAACCTCAAGGCATAATTTATTGTGATATAAAATGCAAGTCAGATGTC
194 AACCCTAAGCCCTCTAGAAACCTCAAGGCAAAATTCATTGTGATATAAAATACAAGTCAGATGTC
* *
159408 AGGCTCAAACCCAATTTAACTTAAGAAATAGATAAAAGGAAAAAGATTAAAAAAATTCTACCTTT
259 AGGCCCAAACCCAATTTAACTTAAGAAATAGAT-AAA-GAAAAAGATTAAAAAAATTCCACCTTT
* * *
159473 CTCTCCTCATCAGTACACTCTATGGCATGAGGTCACTGCCAAGCTCATCTCCCCTCTCCCCACCC
322 CTCTCCTCATCACTACACCCTATGGCATGAGGCCACTGCCAAGCTCATCTCCCCTCTCCCCACCC
* *
159538 CCCAAATAAAAATAAAAATATAAATTCCCTTCTAATCTCC-TCAGTCATTCC
387 CCCAAAT--AAAT--AAATAAAAATACCCTTCTAATCTCCAT-AGTCATTCC
*
159589 TTATTCTTGCTTATGTATCATTGTTTAACTGGGGGAACCTATGTCACTTTGTGAAAAGTACTTCA
1 TTATTCTTGCTTATGTATCATTGTTTAACT--GGGAACCTATGTCACTTTGTGAAAAGGACTTCA
* *
159654 TGACTTCGATATGGTGCAATAAGTCATTTTAACTTTTTAATTTGGTTTGACCAAGCTGGTTAGGT
64 CGACTTCAAT-TGGTGCAATAAGTCATTTTAACTTTTTAATTTGGTTTGACCAAGCTGGTTAGGT
* * * *
159719 GGCTTAA-AACTAAAATTATTAAAAATGAGAAAAGAAAAGAGAACATGT-TA-CTATATAATAGT
128 GGC-CAAGAACTAAAATTATTAAAAACGAGAAAAGAAAAGAGAACATGTAAAGCTATATAATAAT
* * *
159781 TGAACCCTAAGCCCTGTAGAAATCTCAAGGCAAAATTCATTTGTGATATAAAATACAAGTCAGAT
192 TCAACCCTAAGCCCTCTAGAAACCTCAAGGCAAAATTCA-TTGTGATATAAAATACAAGTCAGAT
* * **
159846 GTCAGGCCCAAACCCAATTTACCTTCAA-AAGTAGAT-AA-CCAAAGATTAAAAAAATTCCACC-
256 GTCAGGCCCAAACCCAATTTAACTT-AAGAAATAGATAAAGAAAAAGATTAAAAAAATTCCACCT
* * ** * *
159907 TTCTCATCAGTACA-CCCTATGCCCTATGGCATGAGGCCACTGCCAAGCTCATTTTCCCTCT-CC
320 TTCTC-TC-CT-CATCACTACACCCTATGGCATGAGGCCACTGCCAAGCTCATCTCCCCTCTCCC
*
159970 CACCCCCTTAATAAATAAATAAATAAAAATACCCTTCTAATCTCCATAGTCAT
382 CACCCCC----CAAATAAATAAATAAAAATACCCTTCTAATCTCCATAGTCAT
160023 GCCAACAACT
Statistics
Matches: 381, Mismatches: 39, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
436 5 0.01
437 60 0.16
438 41 0.11
439 8 0.02
440 42 0.11
441 89 0.23
442 2 0.01
443 39 0.10
444 93 0.24
445 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (433 bp):
TTATTCTTGCTTATGTATCATTGTTTAACTGGGAACCTATGTCACTTTGTGAAAAGGACTTCACG
ACTTCAATTGGTGCAATAAGTCATTTTAACTTTTTAATTTGGTTTGACCAAGCTGGTTAGGTGGC
CAAGAACTAAAATTATTAAAAACGAGAAAAGAAAAGAGAACATGTAAAGCTATATAATAATTCAA
CCCTAAGCCCTCTAGAAACCTCAAGGCAAAATTCATTGTGATATAAAATACAAGTCAGATGTCAG
GCCCAAACCCAATTTAACTTAAGAAATAGATAAAGAAAAAGATTAAAAAAATTCCACCTTTCTCT
CCTCATCACTACACCCTATGGCATGAGGCCACTGCCAAGCTCATCTCCCCTCTCCCCACCCCCCA
AATAAATAAATAAAAATACCCTTCTAATCTCCATAGTCATTCC
Found at i:174164 original size:2 final size:2
Alignment explanation
Indices: 174157--174201 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
174147 AGGAGTCAAC
174157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
174199 AT A
1 AT A
174202 GAAAGAAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:178024 original size:29 final size:29
Alignment explanation
Indices: 177982--178067 Score: 172
Period size: 29 Copynumber: 3.0 Consensus size: 29
177972 AGTGTTGGCC
177982 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
178011 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
178040 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
178068 ACCATTGCTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.14, C:0.35, G:0.31, T:0.20
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:178199 original size:33 final size:33
Alignment explanation
Indices: 178158--178242 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
178148 TGCCCCTACA
*
178158 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
178191 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
178224 CTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
178243 TCGGATGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.08, C:0.39, G:0.27, T:0.26
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:178214 original size:10 final size:10
Alignment explanation
Indices: 178170--178282 Score: 64
Period size: 10 Copynumber: 10.3 Consensus size: 10
178160 CGCTCGGCTT
*
178170 CCCTCGGATT
1 CCCTCGGATG
*
178180 CCCTCGCATAG
1 CCCTCGGAT-G
*
178191 CTCGCTCGGTTG
1 C-C-CTCGGATG
178203 CCCTCGGATG
1 CCCTCGGATG
*
178213 CCCTCGCATAG
1 CCCTCGGAT-G
*
178224 CTCGTTCGGATGG
1 C-C-CTCGGAT-G
178237 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
178250 GCCTCGGATG
1 CCCTCGGATG
*
178260 CTCTCGGATG
1 CCCTCGGATG
*
178270 GCCTCGGATG
1 CCCTCGGATG
178280 CCC
1 CCC
178283 ATCGTGTTGG
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
10 48 0.62
11 4 0.05
12 6 0.08
13 14 0.18
14 6 0.08
ACGTcount: A:0.10, C:0.36, G:0.30, T:0.24
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:178246 original size:14 final size:14
Alignment explanation
Indices: 178224--178256 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
178214 CCTCGCATAG
*
178224 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
178238 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
178252 CTCGG
1 CTCGG
178257 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:178268 original size:20 final size:20
Alignment explanation
Indices: 178243--178280 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
178233 ATGGCCTCGG
178243 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
178263 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
178281 CCATCGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.29, G:0.37, T:0.24
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:178356 original size:29 final size:29
Alignment explanation
Indices: 178319--178376 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
178309 GCAATCTCTT
*
178319 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* * *
178348 GTAGGTCGCCCGGAAGGCATGTCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
178377 TGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:179154 original size:14 final size:13
Alignment explanation
Indices: 179137--179211 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 13
179127 AGAGAGAGAA
179137 AGAGAGGGCAAGAG
1 AGAGAGGG-AAGAG
* *
179151 AGAGAGAGTAGGAG
1 AGAGAG-GGAAGAG
*
179165 AGTGAGGGAGAGAG
1 AGAGAGGGA-AGAG
* *
179179 AGTGAGGG-GGAG
1 AGAGAGGGAAGAG
179191 AGAGAGGG-AGAG
1 AGAGAGGGAAGAG
*
179203 GGAGAGGGA
1 AGAGAGGGA
179212 GAGTTGGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
12 20 0.41
13 2 0.04
14 26 0.53
15 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.57, T:0.04
Consensus pattern (13 bp):
AGAGAGGGAAGAG
Found at i:179156 original size:6 final size:6
Alignment explanation
Indices: 179127--179214 Score: 54
Period size: 6 Copynumber: 14.7 Consensus size: 6
179117 AGAGAGTAAT
* * * *
179127 AGAGAG AGAAAG AGAGGG CA-AGAG AGAGAG AGTAG-G AGAGTG AGGGAG
1 AGAGAG AGAGAG AGAGAG -AGAGAG AGAGAG AG-AGAG AGAGAG AGAGAG
* * * * * *
179175 AGAGAG TGAGGG GGAGAG AGAGGG AGAGGG AGAGGG AGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAG
179215 TTGGCAAGAG
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
5 3 0.05
6 59 0.91
7 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.56, T:0.03
Consensus pattern (6 bp):
AGAGAG
Found at i:179176 original size:26 final size:26
Alignment explanation
Indices: 179137--179212 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
179127 AGAGAGAGAA
*
179137 AGAGAGGGCAAGAGAGAGAGAGTAGGAG
1 AGAGAGGG--AGAGAGAGAGAGGAGGAG
* * *
179165 AGTGAGGGAGAGAGAGTGAGGGGGAG
1 AGAGAGGGAGAGAGAGAGAGGAGGAG
*
179191 AGAGAGGGAGAGGGAGAG-GGAG
1 AGAGAGGGAGAGAGAGAGAGGAG
179213 AGTTGGCAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.08
26 30 0.75
28 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.58, T:0.04
Consensus pattern (26 bp):
AGAGAGGGAGAGAGAGAGAGGAGGAG
Found at i:179191 original size:16 final size:15
Alignment explanation
Indices: 179162--179208 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
179152 GAGAGAGTAG
179162 GAGAGTGA-GGGAGA
1 GAGAGTGAGGGGAGA
179176 GAGAGTGAGGGGGAGA
1 GAGAGTGA-GGGGAGA
*
179192 GAGAGGGAGAGGGAGA
1 GAGAGTGAG-GGGAGA
179208 G
1 G
179209 GGAGAGTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.28
15 1 0.03
16 20 0.69
ACGTcount: A:0.34, C:0.00, G:0.62, T:0.04
Consensus pattern (15 bp):
GAGAGTGAGGGGAGA
Found at i:179294 original size:22 final size:22
Alignment explanation
Indices: 179257--179308 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
179247 ATAGACAGAT
*
179257 AGAGAG-A-GGGCAAGAGAGTG
1 AGAGAGAATGGGCAAGAGAGGG
* *
179277 AGATAGAATGGGCGAGAGAGGG
1 AGAGAGAATGGGCAAGAGAGGG
179299 AGAGAGAATG
1 AGAGAGAATG
179309 AGAGAGTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 20 0.77
ACGTcount: A:0.40, C:0.04, G:0.48, T:0.08
Consensus pattern (22 bp):
AGAGAGAATGGGCAAGAGAGGG
Found at i:179341 original size:18 final size:18
Alignment explanation
Indices: 179320--179392 Score: 65
Period size: 18 Copynumber: 4.1 Consensus size: 18
179310 GAGAGTGTGG
*
179320 GCAAGATGGAGATAGAGA
1 GCAAGATAGAGATAGAGA
* * * *
179338 GCAATATAGAGAGAGTGG
1 GCAAGATAGAGATAGAGA
*
179356 GCAAGACAGAGATAGAGA
1 GCAAGATAGAGATAGAGA
* * *
179374 GCAATATATAGAGAGAGA
1 GCAAGATAGAGATAGAGA
179392 G
1 G
179393 TGTGTGGGCA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.45, C:0.07, G:0.36, T:0.12
Consensus pattern (18 bp):
GCAAGATAGAGATAGAGA
Found at i:179349 original size:36 final size:36
Alignment explanation
Indices: 179309--179388 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
179299 AGAGAGAATG
* **
179309 AGAGAGTGTGGGCAAGATGGAGATAGAGAGCAATAT
1 AGAGAGAGTGGGCAAGACAGAGATAGAGAGCAATAT
179345 AGAGAGAGTGGGCAAGACAGAGATAGAGAGCAATAT
1 AGAGAGAGTGGGCAAGACAGAGATAGAGAGCAATAT
*
179381 ATAGAGAG
1 AGAGAGAG
179389 AGAGTGTGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.42, C:0.06, G:0.38, T:0.14
Consensus pattern (36 bp):
AGAGAGAGTGGGCAAGACAGAGATAGAGAGCAATAT
Found at i:179451 original size:18 final size:18
Alignment explanation
Indices: 179430--179478 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
179420 GAGAGTGTGA
179430 GAGAGAGAGAGAGAGTAG
1 GAGAGAGAGAGAGAGTAG
* *
179448 GAGAAAGAGAAAGAGTAG
1 GAGAGAGAGAGAGAGTAG
* *
179466 AAGAGAGATAGAG
1 GAGAGAGAGAGAG
179479 TGGGTGAGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.06
Consensus pattern (18 bp):
GAGAGAGAGAGAGAGTAG
Found at i:181251 original size:16 final size:16
Alignment explanation
Indices: 181227--181257 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
181217 TTTTTCACTC
181227 ACACACTCTCTCTCCT
1 ACACACTCTCTCTCCT
*
181243 ACACTCTCTCTCTCC
1 ACACACTCTCTCTCC
181258 CCTCCACACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (16 bp):
ACACACTCTCTCTCCT
Found at i:181357 original size:28 final size:30
Alignment explanation
Indices: 181309--181366 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
181299 ACCCACACGC
* *
181309 ACTCTCTCTTACCAATACTCTTTCTTGTCT
1 ACTCTCTCTCACCAATACTCTTTCTCGTCT
181339 ACTCTCTCTCACC-AT-CTCTTTCTCGTCT
1 ACTCTCTCTCACCAATACTCTTTCTCGTCT
181367 TCTATCTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.46
29 2 0.08
30 12 0.46
ACGTcount: A:0.14, C:0.38, G:0.03, T:0.45
Consensus pattern (30 bp):
ACTCTCTCTCACCAATACTCTTTCTCGTCT
Found at i:181681 original size:20 final size:20
Alignment explanation
Indices: 181643--181684 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
181633 TCTCTCTTTC
*
181643 TCTCTCACTTTCTCATTATT
1 TCTCTCACTTACTCATTATT
* *
181663 TCTCTCTCTTACTCTTTATT
1 TCTCTCACTTACTCATTATT
181683 TC
1 TC
181685 CATTTCTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.31, G:0.00, T:0.57
Consensus pattern (20 bp):
TCTCTCACTTACTCATTATT
Found at i:181753 original size:20 final size:20
Alignment explanation
Indices: 181728--181783 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
181718 CTCCCTTAAT
*
181728 CTCTCTCATACTCTTTCTCC
1 CTCTCTCATACTCTCTCTCC
181748 CTCTCTCATTA-TCTCTCTCC
1 CTCTCTCA-TACTCTCTCTCC
*
181768 CTCTCTCATTCTCTCT
1 CTCTCTCATACTCTCT
181784 TTCTTACCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.91
21 2 0.06
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.46
Consensus pattern (20 bp):
CTCTCTCATACTCTCTCTCC
Found at i:181920 original size:38 final size:36
Alignment explanation
Indices: 181878--181968 Score: 94
Period size: 38 Copynumber: 2.5 Consensus size: 36
181868 TCATCCACTA
* * *
181878 TCTCTCTCTCACTCTCTCA-TACTTTCTCTATATTTATC
1 TCTCTCTCTCACTCTCTCACTA-TTGCACT-T-TATATC
* *
181916 TCTCTCCCTCACTCCCTCACTATTGCACTTTATATC
1 TCTCTCTCTCACTCTCTCACTATTGCACTTTATATC
*
181952 TCTTTCTCTCACTCTCT
1 TCTCTCTCTCACTCTCT
181969 TACCCATTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 19 0.43
37 1 0.02
38 22 0.50
39 2 0.05
ACGTcount: A:0.14, C:0.38, G:0.01, T:0.46
Consensus pattern (36 bp):
TCTCTCTCTCACTCTCTCACTATTGCACTTTATATC
Found at i:181986 original size:18 final size:18
Alignment explanation
Indices: 181963--182002 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
181953 CTTTCTCTCA
* *
181963 CTCTCTTACCCATTCTAT
1 CTCTCTCACCCATTATAT
*
181981 CTCTCTCCCCCATTATAT
1 CTCTCTCACCCATTATAT
181999 CTCT
1 CTCT
182003 TTCATACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (18 bp):
CTCTCTCACCCATTATAT
Found at i:182202 original size:10 final size:10
Alignment explanation
Indices: 182187--182237 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
182177 CTCTCTACAG
*
182187 TCTTTCTCTT
1 TCTTTCTCTC
182197 TCTTTCTCTC
1 TCTTTCTCTC
* *
182207 TCTTTTTATC
1 TCTTTCTCTC
* *
182217 TCTTTCTTTT
1 TCTTTCTCTC
182227 TCTTTCTCTC
1 TCTTTCTCTC
182237 T
1 T
182238 TGCCCACTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTTCTCTC
Found at i:182210 original size:14 final size:14
Alignment explanation
Indices: 182191--182237 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
182181 CTACAGTCTT
182191 TCTCTTTCTTTCTC
1 TCTCTTTCTTTCTC
182205 TCTCTTT-TTATCTC
1 TCTCTTTCTT-TCTC
*
182219 TTTCTTTTTCTTTCTC
1 --TCTCTTTCTTTCTC
182235 TCT
1 TCT
182238 TGCCCACTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
13 2 0.07
14 14 0.50
16 10 0.36
17 2 0.07
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (14 bp):
TCTCTTTCTTTCTC
Done.