Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004353.1 Hibiscus syriacus cultivar Beakdansim tig00009539_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: 199845
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6522 original size:20 final size:20
Alignment explanation
Indices: 6491--6538 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
6481 ATTTAATTCA
*
6491 TGGTGC-TCGATGCATTGAT
1 TGGTGCATCGATGCATGGAT
6510 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGATGCATGGAT
6530 TGGTGCATC
1 TGGTGCATC
6539 AGTGCTCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (20 bp):
TGGTGCATCGATGCATGGAT
Found at i:7144 original size:2 final size:2
Alignment explanation
Indices: 7137--7162 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7127 ACCAAACCAA
7137 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
7163 TAAGTTTAAA
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:9172 original size:44 final size:42
Alignment explanation
Indices: 9122--9217 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 42
9112 GGCCTTGTGC
*
9122 ATCGATGCACATTCAAGGCGTGCATC-AGTGCATCT-TTATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGA-TGCA-CTGTTA-GGTGT
9166 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
9208 ATCGATGCAC
1 ATCGATGCAC
9218 TGTTAGGTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
42 17 0.35
43 13 0.27
44 19 0.39
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
Found at i:9213 original size:20 final size:20
Alignment explanation
Indices: 9161--9236 Score: 100
Period size: 20 Copynumber: 3.7 Consensus size: 20
9151 GCATCTTTAT
*
9161 GGTGTATCGATGCACAT-TCAA
1 GGTGTATCGATGCAC-TGT-TA
*
9182 GGATGCATCGATGCACTGTTA
1 GG-TGTATCGATGCACTGTTA
9203 GGTGTATCGATGCACTGTTA
1 GGTGTATCGATGCACTGTTA
9223 GGTGTATCGATGCA
1 GGTGTATCGATGCA
9237 TGAAGCACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
20 31 0.62
21 6 0.12
22 13 0.26
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (20 bp):
GGTGTATCGATGCACTGTTA
Found at i:15914 original size:21 final size:21
Alignment explanation
Indices: 15866--15938 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 21
15856 TATTTCAATA
*
15866 ATATATAATAA-ATTATTGAT
1 ATATTTAATAATATTATTGAT
* *
15886 A-A-TGAATAATATTATTTAT
1 ATATTTAATAATATTATTGAT
* *
15905 ATATTTAATATTATTATAG-T
1 ATATTTAATAATATTATTGAT
*
15925 A-ATCTAATAATATT
1 ATATTTAATAATATT
15939 TTAATAAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 5 0.12
19 21 0.51
20 4 0.10
21 11 0.27
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (21 bp):
ATATTTAATAATATTATTGAT
Found at i:15966 original size:24 final size:24
Alignment explanation
Indices: 15933--15982 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
15923 GTAATCTAAT
*
15933 AATATTTTAATAAAAAATGTTTAA
1 AATATATTAATAAAAAATGTTTAA
* * *
15957 AATATATTAATTAATAATTTTTAA
1 AATATATTAATAAAAAATGTTTAA
15981 AA
1 AA
15983 ATAATATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATATTAATAAAAAATGTTTAA
Found at i:21626 original size:29 final size:29
Alignment explanation
Indices: 21573--21628 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
21563 TTGAATAACA
*
21573 AAATGAAACGTTAGGCGCTAACTGAAACG
1 AAATGAAACGTTAGGCACTAACTGAAACG
*
21602 AAAT-AAACGTTAGGTACTACACTGAAA
1 AAATGAAACGTTAGGCACTA-ACTGAAA
21629 AAAAAATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (29 bp):
AAATGAAACGTTAGGCACTAACTGAAACG
Found at i:22896 original size:21 final size:19
Alignment explanation
Indices: 22846--22884 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22836 TTGTTTAAAC
*
22846 ATTTAAAAAT-CATAAAATA
1 ATTTATAAATACA-AAAATA
22865 ATTTATAAATACAAAAATA
1 ATTTATAAATACAAAAATA
22884 A
1 A
22885 ATTTTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTATAAATACAAAAATA
Found at i:23583 original size:31 final size:31
Alignment explanation
Indices: 23479--23567 Score: 108
Period size: 31 Copynumber: 2.8 Consensus size: 31
23469 GGGCCCGAAA
* * * *
23479 GCCTACCCAAGAAGGTTACTC-AGGGCCACAAG
1 GCCTACCCAAGAAAGAT-CTCGA-GGCCGCAGG
23511 GCCTACCCAAGAAAGATCTCGAGGCCGCAGG
1 GCCTACCCAAGAAAGATCTCGAGGCCGCAGG
*
23542 GCCTACCCAAGAAAGATCTCGGGGCC
1 GCCTACCCAAGAAAGATCTCGAGGCC
23568 TTGGAGCCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
31 35 0.69
32 16 0.31
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCGAGGCCGCAGG
Found at i:25149 original size:64 final size:66
Alignment explanation
Indices: 25081--25218 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 66
25071 TGCACTAAGA
* * *
25081 GTGCATCGATGCAT-ATAATGCATTCGATG-TTTCA-AAATAGCCTGAGTGCATCGATGCATGG-
1 GTGCATCGATGCATCA-AATACATTCGATGTTTTCATAAA-ACCCTGAGTACATCGATGCATGGA
25142 CTG
64 CTG
* *
25145 GTGCATCGATGCATCAAATACATTCTATGTTTTCATAAAACCCTGAGTACATCGATGCATGGATT
1 GTGCATCGATGCATCAAATACATTCGATGTTTTCATAAAACCCTGAGTACATCGATGCATGGACT
25210 G
66 G
25211 GTGCATCG
1 GTGCATCG
25219 GTGAATCACT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
64 25 0.38
65 27 0.42
66 13 0.20
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (66 bp):
GTGCATCGATGCATCAAATACATTCGATGTTTTCATAAAACCCTGAGTACATCGATGCATGGACT
G
Found at i:33709 original size:65 final size:65
Alignment explanation
Indices: 33511--33718 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 65
33501 TAGACCCTTA
* * * *
33511 GTGCATCGGTGCATGTAATGCATTCGATGTTTCAA-AATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAATACCCTGAGTGCATCGATGCATGGTTG
* * * *
33575 GTGCATCGATGCATCAAATACATTCGATGTTTTC-ATAAAACCCTGAGTTCATCGATGCATGGTA
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAATAATACCCTGAGTGCATCGATGCATGGT-
33639 T-
64 TG
* ** *
33640 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA-TAATACCCTGAGTGCATCGATGCATGG-T
33703 TG
64 TG
*
33705 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
33719 CACTTTGAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
63 3 0.03
64 43 0.36
65 73 0.61
66 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAATACCCTGAGTGCATCGATGCATGGTTG
Found at i:35778 original size:19 final size:19
Alignment explanation
Indices: 35754--35799 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
35744 ATTTGTGTAC
35754 CGATGCACAGGTAGTGCAT
1 CGATGCACAGGTAGTGCAT
35773 CGATGCACAGGTAGTGCAT
1 CGATGCACAGGTAGTGCAT
35792 CGATGCAC
1 CGATGCAC
35800 CCGTTAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (19 bp):
CGATGCACAGGTAGTGCAT
Found at i:36192 original size:24 final size:24
Alignment explanation
Indices: 36160--36207 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
36150 TATGAATTAT
36160 ATGTTGTTGTAAGTATGATATAAC
1 ATGTTGTTGTAAGTATGATATAAC
36184 ATGTTGTTGTAAGTATGATATAAC
1 ATGTTGTTGTAAGTATGATATAAC
36208 TTGTATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (24 bp):
ATGTTGTTGTAAGTATGATATAAC
Found at i:36424 original size:13 final size:14
Alignment explanation
Indices: 36395--36424 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36385 AACCATGCAA
36395 GTGATATGAACTAT
1 GTGATATGAACTAT
36409 GTGATATGAA-TAT
1 GTGATATGAACTAT
36422 GTG
1 GTG
36425 GAATATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:36607 original size:23 final size:24
Alignment explanation
Indices: 36576--36621 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
36566 GGGTCTACGC
* *
36576 GGTCCTTCGGG-ATATTTCATAGT
1 GGTCATTCGGGCAAATTTCATAGT
36599 GGTCATTCGGGCAAATTTCATAG
1 GGTCATTCGGGCAAATTTCATAG
36622 CCCCTAGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (24 bp):
GGTCATTCGGGCAAATTTCATAGT
Found at i:40736 original size:13 final size:14
Alignment explanation
Indices: 40707--40736 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
40697 AACCATACAA
40707 GTGATATGAACTAT
1 GTGATATGAACTAT
40721 GTGATATGAA-TAT
1 GTGATATGAACTAT
40734 GTG
1 GTG
40737 GAATATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:45770 original size:64 final size:64
Alignment explanation
Indices: 45699--45861 Score: 199
Period size: 64 Copynumber: 2.6 Consensus size: 64
45689 ATCCCTTGAC
*
45699 GGGTGCATCGATGCACTATC-TATGCATCGATACA-TAAATCCCATTCGATGTTTGTATTTTAAA
1 GGGTGCATCGATGCACTATCATGTGCATCGATACACT-AATCCCATTCGATGTTTGTATTTTAAA
* * * ** *
45762 TGGGTGCATCGATGCACTA-CTTGTGTATCGATACACTGATGGCATTCGATGTTTTTATTTTAAA
1 -GGGTGCATCGATGCACTATCATGTGCATCGATACACTAATCCCATTCGATGTTTGTATTTTAAA
*
45826 GGAGTGCATCGATACACT-TCATGTGCATCGATACAC
1 GG-GTGCATCGATGCACTATCATGTGCATCGATACAC
45862 CTTGAAGAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
63 3 0.03
64 82 0.95
65 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
GGGTGCATCGATGCACTATCATGTGCATCGATACACTAATCCCATTCGATGTTTGTATTTTAAA
Found at i:49011 original size:13 final size:14
Alignment explanation
Indices: 48982--49011 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48972 AATCATACAA
48982 GTGATATGAACTAT
1 GTGATATGAACTAT
48996 GTGATATGAA-TAT
1 GTGATATGAACTAT
49009 GTG
1 GTG
49012 GAATATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:54038 original size:64 final size:63
Alignment explanation
Indices: 53966--54109 Score: 166
Period size: 64 Copynumber: 2.3 Consensus size: 63
53956 TCCCTTGACA
* *
53966 GGTGCATCGATGCACTA-TCTATGCATCGGTACA-TAAATCTCATTCGATGTTTGTATTTTAAAC
1 GGTGCATCGATGCACTACT-TATGCATCGATACACT-AATCGCATTCGATGTTTGTATTTTAAA-
54029 G
63 G
* * * *
54030 GGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGCATTCGATGTTTTTATTTTAAAG
1 GGTGCATCGATGCACTACTTATGCATCGATACACTAATCGCATTCGATGTTTGTATTTTAAAG
* *
54093 GAGTGCATAGATACACT
1 G-GTGCATCGATGCACT
54110 TCATGTGCAT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 2 0.03
64 65 0.94
65 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (63 bp):
GGTGCATCGATGCACTACTTATGCATCGATACACTAATCGCATTCGATGTTTGTATTTTAAAG
Found at i:54117 original size:64 final size:64
Alignment explanation
Indices: 54006--54126 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
53996 ACATAAATCT
* * * *
54006 CATTCGATGTTTGTATTTTAAACGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAACGGGTGCATAGATACACTACATGTGCATCAATACACTGATGG
* *
54070 CATTCGATGTTTTTATTTTAAA-GGAGTGCATAGATACACTTCATGTGCATCAATACA
1 CATTCGATGTTTGTATTTTAAACGG-GTGCATAGATACACTACATGTGCATCAATACA
54127 ACTTGAAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 48 0.96
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAACGGGTGCATAGATACACTACATGTGCATCAATACACTGATGG
Found at i:60184 original size:18 final size:18
Alignment explanation
Indices: 60161--60196 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60151 AGTGAATATT
60161 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
60179 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
60197 GATATGTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:60205 original size:22 final size:22
Alignment explanation
Indices: 60161--60239 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
60151 AGTGAATATT
60161 TGTCCCGAAGGACCAC----TA
1 TGTCCCGAAGGACCACTAGATA
60179 TGTCCCGAAGGACCACTAGATA
1 TGTCCCGAAGGACCACTAGATA
*
60201 TGTCCCGCAGGACCACTAGATA
1 TGTCCCGAAGGACCACTAGATA
*
60223 TGTCCCGCAGGACCACT
1 TGTCCCGAAGGACCACT
60240 GCAACCCTTG
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
18 16 0.29
22 40 0.71
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.18
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTAGATA
Found at i:60941 original size:64 final size:64
Alignment explanation
Indices: 60830--60951 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
60820 ACATAAATCC
** *
60830 CATTCGATGTTTGTATTTTAAACGGGTGCATCAATGTACTACTTGTGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAACGGGTGCATCAATACACTACATGTGCATCGATACACTGATGG
* * *
60894 CATTCGATGTTTTTATTTTAAA-GGAGTGCATCGATACACTTCATGTGCATCGATACAC
1 CATTCGATGTTTGTATTTTAAACGG-GTGCATCAATACACTACATGTGCATCGATACAC
60952 CTTGAACAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 49 0.96
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAACGGGTGCATCAATACACTACATGTGCATCGATACACTGATGG
Found at i:65243 original size:42 final size:42
Alignment explanation
Indices: 65194--65277 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
65184 GAGGGAAAAG
* *
65194 TCTCGATACTGAAATTCCAGAATGCCATTTTGGTACCGATAC
1 TCTCGATACTAAAATTCCAGAATGCCATTTTGGTACCAATAC
** *
65236 TCTCGATACTAAAATTCTTGAATTCCATTTTGGTACCAATAC
1 TCTCGATACTAAAATTCCAGAATGCCATTTTGGTACCAATAC
65278 GCATGAGAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (42 bp):
TCTCGATACTAAAATTCCAGAATGCCATTTTGGTACCAATAC
Found at i:68120 original size:20 final size:20
Alignment explanation
Indices: 68095--68132 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
68085 TTTGGTTCAC
68095 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
68115 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
68133 GGAATAGGAT
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:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:72233 original size:22 final size:22
Alignment explanation
Indices: 72208--72261 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 22
72198 AACCGATTCA
72208 ATCGGTCGAACCGGTCCGACCG
1 ATCGGTCGAACCGGTCCGACCG
72230 A----TCGAACCGGTCCGACCG
1 ATCGGTCGAACCGGTCCGACCG
**
72248 ATCGGAAGAACCGG
1 ATCGGTCGAACCGG
72262 ACTATGTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 18 0.69
22 8 0.31
ACGTcount: A:0.24, C:0.33, G:0.31, T:0.11
Consensus pattern (22 bp):
ATCGGTCGAACCGGTCCGACCG
Found at i:72234 original size:18 final size:18
Alignment explanation
Indices: 72213--72251 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
72203 ATTCAATCGG
72213 TCGAACCGGTCCGACCGA
1 TCGAACCGGTCCGACCGA
72231 TCGAACCGGTCCGACCGA
1 TCGAACCGGTCCGACCGA
72249 TCG
1 TCG
72252 GAAGAACCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.13
Consensus pattern (18 bp):
TCGAACCGGTCCGACCGA
Found at i:74037 original size:14 final size:14
Alignment explanation
Indices: 74020--74071 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
74010 TGCATACTAT
74020 TAAATGCCCATGAA
1 TAAATGCCCATGAA
*
74034 TAAATGCATGCAGTGAAA
1 TAAATGC--CCA-TG-AA
74052 TAAATGCCCATGAA
1 TAAATGCCCATGAA
*
74066 TGAATG
1 TAAATG
74072 AATGAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 14 0.45
15 2 0.06
16 4 0.13
17 2 0.06
18 9 0.29
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (14 bp):
TAAATGCCCATGAA
Found at i:75060 original size:16 final size:16
Alignment explanation
Indices: 75036--75074 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
75026 AGGTATATAA
75036 TATTAATTGATTTATT
1 TATTAATTGATTTATT
*
75052 TATTGATTGATTTATT
1 TATTAATTGATTTATT
75068 TA-TAATT
1 TATTAATT
75075 ATATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TATTAATTGATTTATT
Found at i:76723 original size:19 final size:19
Alignment explanation
Indices: 76700--76755 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
76690 AACCATCACT
*
76700 ATTAAATTATTATTAAATC
1 ATTAAATAATTATTAAATC
* *
76719 CTTAAATAATTATTAATTC
1 ATTAAATAATTATTAAATC
*
76738 ATTAAATCATTATTAAAT
1 ATTAAATAATTATTAAAT
76756 TGTTAAATCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAAATAATTATTAAATC
Found at i:76761 original size:19 final size:19
Alignment explanation
Indices: 76699--76764 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
76689 AAACCATCAC
*
76699 TATTAAATTATTATTAAAT
1 TATTAAATCATTATTAAAT
** *
76718 CCTTAAATAATTATT-AAT
1 TATTAAATCATTATTAAAT
76736 TCATTAAATCATTATTAAAT
1 T-ATTAAATCATTATTAAAT
*
76756 TGTTAAATC
1 TATTAAATC
76765 GTTAAACCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 3 0.08
19 31 0.82
20 4 0.11
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (19 bp):
TATTAAATCATTATTAAAT
Found at i:80925 original size:22 final size:22
Alignment explanation
Indices: 80861--80942 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 22
80851 GTGATAAGAG
* *
80861 ATATGTGAAAGTGATCTATGTGA
1 ATATGTGATA-TGATATATGTGA
*
80884 CTATATGTCTATATGA-ATATGTGA
1 --ATATGT-GATATGATATATGTGA
*
80908 ATATGTGATATGATATATATG-
1 ATATGTGATATGATATATGTGA
*
80929 ATAATGAGATATGA
1 AT-ATGTGATATGA
80943 GACTCTATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
21 8 0.17
22 22 0.46
24 7 0.15
25 9 0.19
26 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATGTGATATGATATATGTGA
Found at i:81280 original size:2 final size:2
Alignment explanation
Indices: 81261--81302 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
81251 GATAAAACAA
*
81261 AT AT AT -T AT AT GT GAT 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
81303 GATTTGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.94
3 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81280 original size:14 final size:15
Alignment explanation
Indices: 81261--81305 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
81251 GATAAAACAA
*
81261 ATATAT-TATATGTG
1 ATATATATATATATG
81275 ATATATATATATAT-
1 ATATATATATATATG
81289 ATATATATATATATG
1 ATATATATATATATG
81304 AT
1 AT
81306 TTGTTATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (15 bp):
ATATATATATATATG
Found at i:83727 original size:21 final size:21
Alignment explanation
Indices: 83694--83740 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
83684 ATTCTGACTA
*
83694 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGAGATTTCCCAAAT
* * *
83715 TCGCGTTGAGATTTTCCTAAT
1 TCGCATTGAGATTTCCCAAAT
83736 TCGCA
1 TCGCA
83741 ATGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGAGATTTCCCAAAT
Found at i:83869 original size:20 final size:20
Alignment explanation
Indices: 83736--83862 Score: 218
Period size: 20 Copynumber: 6.3 Consensus size: 20
83726 TTTTCCTAAT
*
83736 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
83756 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
83777 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
83797 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
83817 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
83837 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
83857 TCGCAA
1 TCGCAA
83863 CGAGATTCTG
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
20 84 0.83
21 17 0.17
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:84731 original size:24 final size:24
Alignment explanation
Indices: 84704--84757 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
84694 GTATTCGAAA
84704 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
84728 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
84752 TTTGAT
1 TTTGAT
84758 GATTTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:87308 original size:19 final size:20
Alignment explanation
Indices: 87266--87319 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
87256 CAATCATCTT
*
87266 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
87286 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
**
87305 AATGAAAATCGCAAC
1 AATGACTATCGCAAC
87320 AAGAGAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:87339 original size:33 final size:33
Alignment explanation
Indices: 87297--87419 Score: 183
Period size: 33 Copynumber: 3.7 Consensus size: 33
87287 ATGACTATCG
87297 CAATGCGAAATGAAAATCGCAACAAGAGAATCA
1 CAATGCGAAATGAAAATCGCAACAAGAGAATCA
* *
87330 CAATGCGAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAACAAGAGAATCA
* * *
87363 CAATGCGAAATGAAAATCGCAACGAGGGAATCT
1 CAATGCGAAATGAAAATCGCAACAAGAGAATCA
* *
87396 TAAAGCGAAATGAAAATCGCAACA
1 CAATGCGAAATGAAAATCGCAACA
87420 CGAATTTAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACAAGAGAATCA
Found at i:87370 original size:66 final size:66
Alignment explanation
Indices: 87293--87418 Score: 207
Period size: 66 Copynumber: 1.9 Consensus size: 66
87283 GGAAATGACT
*
87293 ATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCACAATGCGAAATGAAAATCGCAACGAGAG
1 ATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCACAAAGCGAAATGAAAATCGCAACGAGAG
87358 A
66 A
* * **
87359 ATCGCAATGCGAAATGAAAATCGCAACGAGGGAATCTTAAAGCGAAATGAAAATCGCAAC
1 ATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCACAAAGCGAAATGAAAATCGCAAC
87419 ACGAATTTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCACAAAGCGAAATGAAAATCGCAACGAGAG
A
Found at i:87382 original size:19 final size:19
Alignment explanation
Indices: 87273--87384 Score: 91
Period size: 19 Copynumber: 6.4 Consensus size: 19
87263 CTTAATGTCT
* **
87273 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
87293 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87312 ATCGCAA--C--AA-GAGA
1 ATCGCAATGCGAAATGAAA
*
87326 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87345 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
87359 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
87378 ATCGCAA
1 ATCGCAA
87385 CGAGGGAATC
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 19 0.26
15 3 0.04
16 3 0.04
17 3 0.04
18 3 0.04
19 33 0.45
20 9 0.12
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:87446 original size:19 final size:18
Alignment explanation
Indices: 87424--87513 Score: 107
Period size: 19 Copynumber: 5.0 Consensus size: 18
87414 GCAACACGAA
87424 TTTAGTTTCGCGTTGCGAT
1 TTTA-TTTCGCGTTGCGAT
87443 TTTAGTTTCGCGTTGCGAT
1 TTTA-TTTCGCGTTGCGAT
87462 TTTA--T-G-GTTGCGAT
1 TTTATTTCGCGTTGCGAT
87476 TTTCATTTCGCGTTGCGATT
1 TTT-ATTTCGCGTTGCGA-T
*
87496 TTTATTTCGCATTGCGAT
1 TTTATTTCGCGTTGCGAT
87514 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
14 11 0.17
15 2 0.03
16 1 0.02
17 1 0.02
18 2 0.03
19 43 0.67
20 4 0.06
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (18 bp):
TTTATTTCGCGTTGCGAT
Found at i:87477 original size:33 final size:33
Alignment explanation
Indices: 87435--87497 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
87425 TTAGTTTCGC
87435 GTTGCGATTTT-AGTTTCGCGTTGCGATTTTATG
1 GTTGCGATTTTCA-TTTCGCGTTGCGATTTTATG
87468 GTTGCGATTTTCATTTCGCGTTGCGATTTT
1 GTTGCGATTTTCATTTCGCGTTGCGATTTT
87498 TATTTCGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.49
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTTTATG
Found at i:87521 original size:19 final size:19
Alignment explanation
Indices: 87478--87521 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
87468 GTTGCGATTT
* **
87478 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTGCGATAG
*
87497 TTATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
87516 TCATTT
1 TCATTT
87522 TTGCCTTCAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:87639 original size:14 final size:14
Alignment explanation
Indices: 87620--87656 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
87610 CATCAATTAA
87620 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
87634 ACAAATCATCTTTT
1 ACAAATCAACTTTT
87648 ACAAATCAA
1 ACAAATCAA
87657 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:88934 original size:21 final size:21
Alignment explanation
Indices: 88868--88934 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
88858 GTGAATCGGG
*
88868 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
88888 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
88910 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
88931 CTCT
1 CTCT
88935 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:88953 original size:42 final size:41
Alignment explanation
Indices: 88868--88990 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
88858 GTGAATCGGG
* * * *
88868 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
88910 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
88952 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
88991 TGAGTTAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:89427 original size:19 final size:19
Alignment explanation
Indices: 89387--89512 Score: 127
Period size: 19 Copynumber: 6.8 Consensus size: 19
89377 TCTGGAACTT
*
89387 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
89408 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
* *
89427 AAAATCACAACGCGAAACG
1 AAAATCGCAACGCGAAATG
89446 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
89465 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
89479 AGAATCGCAATGTGAAATG
1 AAAATCGCAACGCGAAATG
89498 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
89513 TTATAGTTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 1 0.01
17 2 0.02
18 1 0.01
19 60 0.70
21 11 0.13
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:89459 original size:38 final size:36
Alignment explanation
Indices: 89411--89512 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 36
89401 AAAAATGACT
*
89411 ATCGCAACGCGAAATGAAAATCACAACGCGAAACGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGCG-AA-GAAA
*
89449 ATCGCAACGCGAAATGAAAATCGCAA--CG-AGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGCGAAGAAA
* *
89482 ATCGCAATGTGAAATGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGAAAATCGCAACGCGA
89513 TTATAGTTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
33 27 0.47
34 1 0.02
35 2 0.04
36 2 0.04
38 25 0.44
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (36 bp):
ATCGCAACGCGAAATGAAAATCGCAACGCGAAGAAA
Found at i:89543 original size:20 final size:20
Alignment explanation
Indices: 89518--89555 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
89508 CGCGATTATA
89518 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
89538 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
89556 GTTGTTGCGA
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:0.05, C:0.16, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:89581 original size:33 final size:33
Alignment explanation
Indices: 89519--89622 Score: 145
Period size: 33 Copynumber: 3.1 Consensus size: 33
89509 GCGATTATAG
* *
89519 TTTCGCGTTGCGATTTTTGGTTTCGCGTTGCGAT
1 TTTCTCGTTGCGA-TTTTCGTTTCGCGTTGCGAT
* * *
89553 TTTGTTGTTGCGATTTTCATTTCGCGTTGCGAT
1 TTTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
*
89586 TCTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
1 TTTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
89619 TTTC
1 TTTC
89623 ATTCTCTCGT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 50 0.83
34 10 0.17
ACGTcount: A:0.07, C:0.19, G:0.25, T:0.49
Consensus pattern (33 bp):
TTTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
Found at i:89635 original size:20 final size:20
Alignment explanation
Indices: 89584--89645 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
89574 TCGCGTTGCG
89584 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* *
89604 GTT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
89623 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
89643 ATT
1 ATT
89646 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 17 0.46
20 20 0.54
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.50
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:89638 original size:39 final size:36
Alignment explanation
Indices: 89524--89647 Score: 134
Period size: 33 Copynumber: 3.5 Consensus size: 36
89514 TATAGTTTCG
** *
89524 CGTTGCGATTTTTGGTTTCGCGTTGCGATT-TTGT-T
1 CGTTGCGA-TTTTCATTTCGCGTTGCGATTATTCTCT
89559 -GTTGCGATTTTCATTTCGCGTTGCG---ATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTATTCTCT
*
89591 CGTTGCGATTTTCGTTTCGCGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGA--TT-ATTCTCT
89630 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
89648 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
31 3 0.04
32 1 0.01
33 40 0.53
34 7 0.09
39 24 0.32
ACGTcount: A:0.08, C:0.20, G:0.23, T:0.49
Consensus pattern (36 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTATTCTCT
Found at i:89850 original size:94 final size:94
Alignment explanation
Indices: 89738--90113 Score: 593
Period size: 94 Copynumber: 4.1 Consensus size: 94
89728 ATGGATTGCA
* *
89738 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
89802 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
89831 TTACTTTCAACCAAAAGACAAAACAAAAACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
89896 TTAGTAGAATTGACAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
89925 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
89990 TTAGTAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
90019 TTAC-TTCAACGAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
90079 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
90109 TTACT
1 TTACT
90114 AAGCAATCTA
Statistics
Matches: 267, Mismatches: 13, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
90 40 0.15
93 22 0.08
94 205 0.77
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:91827 original size:20 final size:19
Alignment explanation
Indices: 91800--91945 Score: 141
Period size: 19 Copynumber: 8.1 Consensus size: 19
91790 TCTTTTGGTT
91800 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
91819 GAGAATGAAAATCGCAACGCA
1 GA-AATGAAAATCGCAACG-A
** *
91840 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGA
91859 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
91878 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
91892 GAAATTAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
91911 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
91925 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGA
91944 GA
1 GA
91946 TTCTGGTTTC
Statistics
Matches: 102, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.22
16 3 0.03
17 3 0.03
19 41 0.40
20 30 0.29
21 3 0.03
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:91886 original size:14 final size:14
Alignment explanation
Indices: 91867--91923 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
91857 GCGAAATGAA
91867 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
91881 AATCGCAACGCGAAATTAA
1 AATCGCAA--CG--A-GAG
91900 AATCGCAACGAGAG
1 AATCGCAACGAGAG
91914 AATCGCAACG
1 AATCGCAACG
91924 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:91891 original size:33 final size:33
Alignment explanation
Indices: 91808--91945 Score: 186
Period size: 33 Copynumber: 4.0 Consensus size: 33
91798 TTGAAATGAA
*
91808 AATCGCAACGAGAGAATGAAAATCGCAACGCAGAAATG
1 AATCGCAACGCGA-AATGAAAATCGCAACG-AG--A-G
91846 ACTATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 A--ATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
91881 AATCGCAACGCGAAATTAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
91914 AATCGCAACGCGAAATGAAAATCGCAATGAGA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGA
91946 TTCTGGTTTC
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
33 61 0.65
35 2 0.02
36 1 0.01
38 3 0.03
39 16 0.17
40 11 0.12
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:92010 original size:21 final size:21
Alignment explanation
Indices: 91984--92042 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
91974 TGCGTTGCGA
91984 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
92005 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
92026 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
92043 AAGTTTAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.12, C:0.20, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:92617 original size:20 final size:20
Alignment explanation
Indices: 92594--92704 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 20
92584 CGATAGTCAG
92594 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
92614 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
* * * *
92634 AATTCACAATGCGA-ATATGT
1 -ATTCGCATTGCGATTTACGT
* *
92654 AAATCGCA--AC-ATTTACGT
1 -ATTCGCATTGCGATTTACGT
* * *
92672 AATCGCGTTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
92692 ATTCGCATTGCGA
1 ATTCGCATTGCGA
92705 ATTAGGAAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
17 7 0.10
18 5 0.07
19 1 0.01
20 44 0.65
21 11 0.16
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:92722 original size:78 final size:78
Alignment explanation
Indices: 92596--92740 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 78
92586 ATAGTCAGAT
** ** *
92596 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCACAATGCGAATATGTAAATCGC
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTAGCAAAATTCACAATGCGAATACGTAAATCGC
92661 AACATTTACGTAA
66 AACATTTACGTAA
* * * *
92674 TCGCGTTGCGATTTATGTATTCGCATTGCGAATTAGGAAAATT-GCAATGCGAATACGTAAATCG
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTAGCAAAATTCACAATGCGAATACGTAAATCG
92738 CAA
65 CAA
92741 TGCGAATTAG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 50 0.88
79 7 0.12
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (78 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTAGCAAAATTCACAATGCGAATACGTAAATCGC
AACATTTACGTAA
Found at i:92740 original size:20 final size:21
Alignment explanation
Indices: 92694--92787 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
92684 ATTTATGTAT
*
92694 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
92715 TTGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTAGGAAAA
92735 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
92756 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
92777 TCGCAATGCGA
1 TCGCAATGCGA
92788 TAGTCAGAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.28
21 44 0.72
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:93483 original size:3 final size:3
Alignment explanation
Indices: 93475--93546 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
93465 ATTTTAATAG
93475 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
93523 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
93547 CTTTGAGCTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:96402 original size:19 final size:20
Alignment explanation
Indices: 96378--96418 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
96368 TTTTAAATAA
* *
96378 ATTTTAACAT-AAAATATAT
1 ATTTTAAAATGAAAATAAAT
96397 ATTTTAAAATGAAAATAAAT
1 ATTTTAAAATGAAAATAAAT
96417 AT
1 AT
96419 AAAAAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTTAAAATGAAAATAAAT
Found at i:105253 original size:39 final size:39
Alignment explanation
Indices: 105164--105749 Score: 867
Period size: 39 Copynumber: 15.4 Consensus size: 39
105154 AGGGATCAAC
* *
105164 ATCTCGCTTGAGGTAGTTTCACTCAAAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
105202 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
105241 ATCTCGCTTGAGATAGTTTCACTCG--A-A-AAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
105275 ATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
105313 ATCTCTC-TGAGATAGTTTCACTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
105351 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
105389 ATCTCGCTTGAGATAGTTTCACTCGAAACGGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
105428 ATCTCGCTTGAGATAGTTTCACTC--AA-AGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
105464 TTCTCACTTGAGATAGTTTCAATCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
105503 ATCTCGCTTGAGATAGTTTCACTTGAAACAAAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
105541 ATCTCACTTGAGATAGTTTCACTCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
105580 ATCTCGCTTGAGGTAGTTTCACTTGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
105619 ATCTCCCTTGAGATAGTTTCACTTGAAACAAAAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
*
105659 ATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
105698 ATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
105736 ATCTCACTTGAGAT
1 ATCTCGCTTGAGAT
105750 TATTTTTCTT
Statistics
Matches: 501, Mismatches: 34, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
34 28 0.06
35 4 0.01
36 32 0.06
37 29 0.06
38 145 0.29
39 227 0.45
40 36 0.07
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:105413 original size:19 final size:19
Alignment explanation
Indices: 105353--105413 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
105343 AAGATTTTAT
105353 CTCGCTTGAGATAGTTTCA
1 CTCGCTTGAGATAGTTTCA
****
105372 CTCGAAACAGA-AGATTT-A
1 CTCGCTTGAGATAG-TTTCA
105390 TCTCGCTTGAGATAGTTTCA
1 -CTCGCTTGAGATAGTTTCA
105410 CTCG
1 CTCG
105414 AAACGGAAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (19 bp):
CTCGCTTGAGATAGTTTCA
Found at i:105443 original size:77 final size:78
Alignment explanation
Indices: 105164--105749 Score: 867
Period size: 77 Copynumber: 7.7 Consensus size: 78
105154 AGGGATCAAC
* * *
105164 ATCTCGCTTGAGGTAGTTTCACTCAAAACAGAAGA-TTTATCTCGCTTGAGATAGTTTCACTCAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
105228 AACAGAAGATTTT
66 AACAGAAGATTTT
105241 ATCTCGCTTGAGATAGTTTCACTCG--A-A-AAGA-TTTATCTCGCTTGAGATAGTTTCACTCGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
*
105301 AATAGAAGA-TTT
66 AACAGAAGATTTT
* *
105313 ATCTCTC-TGAGATAGTTTCACTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
105377 AACAGAAGA-TTT
66 AACAGAAGATTTT
*
105389 ATCTCGCTTGAGATAGTTTCACTCGAAACGGAAGATTTTATCTCGCTTGAGATAGTTTCACTC--
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
105452 AA-AGAAGATTTT
66 AACAGAAGATTTT
* * * *
105464 TTCTCACTTGAGATAGTTTCAATCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTTGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
*
105529 AACAAAAGA-TTT
66 AACAGAAGATTTT
* * * *
105541 ATCTCACTTGAGATAGTTTCACTCGAAATAGAAGATTTTATCTCGCTTGAGGTAGTTTCACTTGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
105606 AACAGAAGATTTT
66 AACAGAAGATTTT
* * * *
105619 ATCTCCCTTGAGATAGTTTCACTTGAAACAAAAGATTTTTATCTCACTTGAGATAGTTTCACTCG
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTTATCTCGCTTGAGATAGTTTCACTCG
105684 AAACAGAAGATTTT
65 AAACAGAAGATTTT
* *
105698 ATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGA-TTTATCTCACTTGAGAT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGAT
105750 TATTTTTCTT
Statistics
Matches: 466, Mismatches: 31, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
71 17 0.04
72 9 0.02
73 41 0.09
74 8 0.02
75 68 0.15
76 46 0.10
77 167 0.36
78 39 0.08
79 71 0.15
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (78 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
AACAGAAGATTTT
Found at i:106458 original size:17 final size:17
Alignment explanation
Indices: 106438--106496 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
106428 GGTTACTTTA
*
106438 TTTTTTATTTATGTTGT
1 TTTTTTATTTATGTTAT
*
106455 TTTTTGT-TTTTTGTTAT
1 TTTTT-TATTTATGTTAT
*
106472 TTATTTATTTAT-TTAAT
1 TTTTTTATTTATGTT-AT
106489 ATTTTTTA
1 -TTTTTTA
106497 AATTAAGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 3 0.09
17 23 0.70
18 7 0.21
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (17 bp):
TTTTTTATTTATGTTAT
Found at i:107930 original size:10 final size:10
Alignment explanation
Indices: 107917--108013 Score: 54
Period size: 10 Copynumber: 9.3 Consensus size: 10
107907 TTATAATAAT
107917 TTATTATATA
1 TTATTATATA
*
107927 TTATTTAAATA
1 TTA-TTATATA
** *
107938 AGAATATATA
1 TTATTATATA
* *
107948 GTATCATATA
1 TTATTATATA
107958 TTATTATAATA
1 TTATTAT-ATA
*
107969 TAATTGAGTATA
1 TTATT-A-TATA
*
107981 TTATTGTAATA
1 TTATTAT-ATA
107992 TATATTAT-TA
1 T-TATTATATA
108002 -TATTATATA
1 TTATTATATA
108011 TTA
1 TTA
108014 AAAATATTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
8 6 0.09
9 2 0.03
10 24 0.38
11 18 0.28
12 13 0.20
13 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (10 bp):
TTATTATATA
Found at i:107969 original size:23 final size:23
Alignment explanation
Indices: 107943--108007 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
107933 AAATAAGAAT
107943 ATATAGTATCA-TATATTATTATA
1 ATATA-TATCAGTATATTATTATA
* *
107966 ATATA-ATTGAGTATATTATTGTA
1 ATATATA-TCAGTATATTATTATA
* *
107989 ATATATATTATTATATTAT
1 ATATATATCAGTATATTAT
108008 ATATTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 2 0.06
23 31 0.89
24 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (23 bp):
ATATATATCAGTATATTATTATA
Found at i:107995 original size:15 final size:15
Alignment explanation
Indices: 107977--108013 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
107967 TATAATTGAG
*
107977 TATATTATTGTAATA
1 TATATTATTATAATA
*
107992 TATATTATTATATTA
1 TATATTATTATAATA
108007 TATATTA
1 TATATTA
108014 AAAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATTATTATAATA
Found at i:108030 original size:21 final size:21
Alignment explanation
Indices: 108006--108047 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
107996 TTATTATATT
108006 ATATATTAAAAATATTAATAA
1 ATATATTAAAAATATTAATAA
* * *
108027 ATATTTTAAATATGTTAATAA
1 ATATATTAAAAATATTAATAA
108048 TTAATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATATTAAAAATATTAATAA
Found at i:108030 original size:38 final size:38
Alignment explanation
Indices: 107953--108030 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 38
107943 ATATAGTATC
* ** * *
107953 ATATATTATTATAATATAATTGAGTATATTATTGTAAT
1 ATATATTATTATAATATAATTAAAAATATTAATGAAAT
*
107991 ATATATTATTATATTATATATTAAAAATATTAAT-AAAT
1 ATATATTATTATAATATA-ATTAAAAATATTAATGAAAT
108029 AT
1 AT
108031 TTTAAATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
38 22 0.67
39 11 0.33
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (38 bp):
ATATATTATTATAATATAATTAAAAATATTAATGAAAT
Found at i:114765 original size:48 final size:48
Alignment explanation
Indices: 114713--114813 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 48
114703 AAAATACCTT
*
114713 AGTTCACCATGATCCTTCATCTTGAAATTTATGTTCAAAATTCCTTTG
1 AGTTCACCATGATCATTCATCTTGAAATTTATGTTCAAAATTCCTTTG
114761 AGTTCACCATGATCATTCATCTTGAAATTTATGTTCAAAATTCCTTTG
1 AGTTCACCATGATCATTCATCTTGAAATTTATGTTCAAAATTCCTTTG
114809 AGTTC
1 AGTTC
114814 CTCAATTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.42
Consensus pattern (48 bp):
AGTTCACCATGATCATTCATCTTGAAATTTATGTTCAAAATTCCTTTG
Found at i:122282 original size:2 final size:2
Alignment explanation
Indices: 122270--122317 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
122260 TATCTTATTC
*
122270 AT AT AT GT 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
122312 AT AT AT
1 AT AT AT
122318 CCGCAGACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126143 original size:19 final size:19
Alignment explanation
Indices: 126119--126158 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
126109 ATGACTTCAA
126119 CAAGATGATTGAGAGCTTT
1 CAAGATGATTGAGAGCTTT
126138 CAAGATGATTGAGAGCTTT
1 CAAGATGATTGAGAGCTTT
126157 CA
1 CA
126159 TTGTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (19 bp):
CAAGATGATTGAGAGCTTT
Found at i:126411 original size:15 final size:15
Alignment explanation
Indices: 126391--126427 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
126381 TGAAACCTTA
126391 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
126406 CCCGCCCCGTATCCG
1 CCCGCCCCGCATCCG
126421 CCCGCCC
1 CCCGCCC
126428 TACATATGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.68, G:0.19, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:140630 original size:35 final size:35
Alignment explanation
Indices: 140591--140703 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 35
140581 GAAGCATCGA
* *
140591 CACTTTTGATTCAAGGGAACGAAAGGAAGCATAAG
1 CACTTTCGATTCAAGAGAACGAAAGGAAGCATAAG
* *
140626 CACTTTCGATTCAAGAAGAACAAAAGGAAGCATCAG
1 CACTTTCGATTCAAG-AGAACGAAAGGAAGCATAAG
* * **
140662 CACTTTCGATTTAAGTGAACGGGAGGAAGCATAAG
1 CACTTTCGATTCAAGAGAACGAAAGGAAGCATAAG
*
140697 CATTTTC
1 CACTTTC
140704 AATTTAATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
35 35 0.53
36 31 0.47
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (35 bp):
CACTTTCGATTCAAGAGAACGAAAGGAAGCATAAG
Found at i:140659 original size:71 final size:71
Alignment explanation
Indices: 140567--140703 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 71
140557 GAAGGTGAAT
* *
140567 AAGAAGAATGAAAAGAAGCATC-GACACTTTTGATTCAAGGGAACGAAAGGAAGCATAAGCACTT
1 AAGAAGAATCAAAAGAAGCATCAG-CACTTTCGATTCAAGGGAACGAAAGGAAGCATAAGCACTT
140631 TCGATTC
65 TCGATTC
* * ** *
140638 AAGAAGAA-CAAAAGGAAGCATCAGCACTTTCGATTTAAGTGAACGGGAGGAAGCATAAGCATTT
1 AAGAAGAATCAAAA-GAAGCATCAGCACTTTCGATTCAAGGGAACGAAAGGAAGCATAAGCACTT
140702 TC
65 TC
140704 AATTTAATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 4 0.07
71 52 0.91
72 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (71 bp):
AAGAAGAATCAAAAGAAGCATCAGCACTTTCGATTCAAGGGAACGAAAGGAAGCATAAGCACTTT
CGATTC
Found at i:140664 original size:36 final size:36
Alignment explanation
Indices: 140567--140672 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
140557 GAAGGTGAAT
* *
140567 AAGAAGAATGAAAA-GAAGCATC-GACACTTTTGATTC
1 AAGAAGAA-CAAAAGGAAGCATCAG-CACTTTCGATTC
* * *
140603 AAG-GGAACGAAAGGAAGCATAAGCACTTTCGATTC
1 AAGAAGAACAAAAGGAAGCATCAGCACTTTCGATTC
140638 AAGAAGAACAAAAGGAAGCATCAGCACTTTCGATT
1 AAGAAGAACAAAAGGAAGCATCAGCACTTTCGATT
140673 TAAGTGAACG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 3 0.05
35 24 0.41
36 32 0.54
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (36 bp):
AAGAAGAACAAAAGGAAGCATCAGCACTTTCGATTC
Found at i:140709 original size:35 final size:36
Alignment explanation
Indices: 140607--140710 Score: 120
Period size: 36 Copynumber: 2.9 Consensus size: 36
140597 TGATTCAAGG
* *
140607 GAACGAAAGGAAGCATAAGCACTTTCGATTCAAGAA
1 GAACAAAAGGAAGCATAAGCACTTTCGATTTAAGAA
* *
140643 GAACAAAAGGAAGCATCAGCACTTTCGATTTAAG-T
1 GAACAAAAGGAAGCATAAGCACTTTCGATTTAAGAA
*** * *
140678 GAACGGGAGGAAGCATAAGCATTTTCAATTTAA
1 GAACAAAAGGAAGCATAAGCACTTTCGATTTAA
140711 TTGTTCATCT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
35 27 0.47
36 31 0.53
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (36 bp):
GAACAAAAGGAAGCATAAGCACTTTCGATTTAAGAA
Found at i:140982 original size:83 final size:82
Alignment explanation
Indices: 140869--141023 Score: 197
Period size: 83 Copynumber: 1.9 Consensus size: 82
140859 ATAATATAGC
* * * *
140869 GGCGTTTCTTCAAAAAATGCCGTAATAGAGTAGTAATTTAGTGGCGTTTTTGGAACAAACGCCGG
1 GGCGTTTCTTCAAAAAATGCCGTAAAAGAGTAGTAATTTAGCGACGTTTTT-GAACAAACGCCGC
140934 TATAGAGTTATTTATTGT
65 TATAGAGTTATTTATTGT
* * *
140952 GGCGTTT-TATCAACAAAA-GCCGTAAAAGAGTAGTCATTTAGCGATGTTTTTGTACAAACGCCG
1 GGCGTTTCT-TCAA-AAAATGCCGTAAAAGAGTAGTAATTTAGCGACGTTTTTGAACAAACGCCG
*
141015 CTATTGAGT
64 CTATAGAGT
141024 ATTAATGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
82 19 0.31
83 39 0.63
84 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (82 bp):
GGCGTTTCTTCAAAAAATGCCGTAAAAGAGTAGTAATTTAGCGACGTTTTTGAACAAACGCCGCT
ATAGAGTTATTTATTGT
Found at i:143131 original size:41 final size:44
Alignment explanation
Indices: 143033--143133 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 44
143023 GCAAAAGGGT
*** *
143033 TAATCTATAGTGGCGTTTTTTTAACAAACGCCGTAATAGAGTAG
1 TAATCTATAGTGGCGTTTTGGGAACAAACGCAGTAATAGAGTAG
* * *
143077 T-A-CTTTAGCGGCGTTTTGGGAA-AAACGCAGTGATAG-GTA-
1 TAATCTATAGTGGCGTTTTGGGAACAAACGCAGTAATAGAGTAG
143116 TAATCTATAGTGGCGTTT
1 TAATCTATAGTGGCGTTT
143134 GTTTTTTACA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.02
40 4 0.09
41 24 0.52
42 15 0.33
43 1 0.02
44 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (44 bp):
TAATCTATAGTGGCGTTTTGGGAACAAACGCAGTAATAGAGTAG
Found at i:144462 original size:43 final size:43
Alignment explanation
Indices: 144289--144482 Score: 165
Period size: 43 Copynumber: 4.5 Consensus size: 43
144279 ATTTTCGACG
* * * ** *
144289 AAAATGCCGCTAAATCTCAAGACATATTCTGCGGCGTTTGTAGGA
1 AAAATGCCGCTAAATATCAACACCTA-T-TGCGGCGTTTGTCTGC
* * * * * * * **
144334 AAAACGCCGGTAAAAATAAACATCTACTACGGCGTTTGTGAAG-
1 AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGT-CTGC
* * *
144377 AAAACGCCGCTAAAAATCAACGCCTATTGCGGCGTTTGTCTGC
1 AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCTGC
* * *
144420 CAAATGCCGTTAAATATCAACACCTATTGCGGCGTTTTTCTGC
1 AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCTGC
144463 AAAATGCCGCTAAATATCAA
1 AAAATGCCGCTAAATATCAA
144483 TACTTTTTAC
Statistics
Matches: 120, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
42 1 0.01
43 99 0.82
44 2 0.02
45 18 0.15
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCTGC
Found at i:154873 original size:51 final size:51
Alignment explanation
Indices: 154771--154874 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
154761 CATTTAATGG
* * * *
154771 AAGGCGCGTCCCCGAGGATGTGCTTTCCACACGTGGCAGTCGAGCTGGCGA
1 AAGGCGCGTCCCCGAGGATGCGCTTTCCACACGTGGCAGTCCAACTAGCGA
* *
154822 AAGGCGCGTCCCTGGGGATGCGCTTTCCACACGTGGCA-TCCAACTCAGCGA
1 AAGGCGCGTCCCCGAGGATGCGCTTTCCACACGTGGCAGTCCAACT-AGCGA
154873 AA
1 AA
154875 ACACGGGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 5 0.11
51 41 0.89
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (51 bp):
AAGGCGCGTCCCCGAGGATGCGCTTTCCACACGTGGCAGTCCAACTAGCGA
Found at i:155031 original size:36 final size:36
Alignment explanation
Indices: 154978--155050 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
154968 AATAGCCTAA
* * *
154978 AAATTAAGCCTTTCATATTTTCGTAGAAAACAATAG
1 AAATTAAGCCTTCCATATATTCATAGAAAACAATAG
*
155014 AAATTAAGCGTTCCATATATTCATAGAAAACAATAG
1 AAATTAAGCCTTCCATATATTCATAGAAAACAATAG
155050 A
1 A
155051 TCATAAGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (36 bp):
AAATTAAGCCTTCCATATATTCATAGAAAACAATAG
Found at i:158022 original size:21 final size:22
Alignment explanation
Indices: 157998--158038 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
157988 GCGATTTTAG
*
157998 GGGAGGAGGAGGA-GGAGAGGT
1 GGGACGAGGAGGAGGGAGAGGT
*
158019 GGGACGAGGCGGAGGGAGAG
1 GGGACGAGGAGGAGGGAGAG
158039 ACGGTGGCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.05, G:0.66, T:0.02
Consensus pattern (22 bp):
GGGACGAGGAGGAGGGAGAGGT
Found at i:159578 original size:21 final size:21
Alignment explanation
Indices: 159548--159606 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
159538 CTTAAACCCC
* *
159548 TAAATTATAAACTTTAAATCA
1 TAAATCATAAACTCTAAATCA
*
159569 TAACTCATAAACTCTAAATCA
1 TAAATCATAAACTCTAAATCA
*
159590 TAAATCCTAAACTCTAA
1 TAAATCATAAACTCTAA
159607 TTTGAGGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATCATAAACTCTAAATCA
Found at i:162225 original size:23 final size:21
Alignment explanation
Indices: 162177--162221 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
162167 ACTAAGGATT
162177 GATCTCTCATAAAAAATGATC
1 GATCTCTCATAAAAAATGATC
*
162198 GATCTCTTATAAAAAATGATC
1 GATCTCTCATAAAAAATGATC
162219 GAT
1 GAT
162222 ATCTTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (21 bp):
GATCTCTCATAAAAAATGATC
Found at i:162226 original size:21 final size:21
Alignment explanation
Indices: 162185--162226 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
162175 TTGATCTCTC
*
162185 ATAAAAAATGATCGATCTCTT
1 ATAAAAAATGATCGATATCTT
162206 ATAAAAAATGATCGATATCTT
1 ATAAAAAATGATCGATATCTT
162227 CTTTTGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
ATAAAAAATGATCGATATCTT
Found at i:162765 original size:30 final size:31
Alignment explanation
Indices: 162725--162787 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
162715 AATTAAAAAC
162725 TTAATACG-TTTAGTACCTAAACTATCAATT
1 TTAATACGTTTTAGTACCTAAACTATCAATT
* * *
162755 TTAATCCGTTTTAGTATCTAAACTTTCAATT
1 TTAATACGTTTTAGTACCTAAACTATCAATT
162786 TT
1 TT
162788 TTCAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (31 bp):
TTAATACGTTTTAGTACCTAAACTATCAATT
Found at i:167694 original size:15 final size:15
Alignment explanation
Indices: 167674--167702 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
167664 CTCACTGTCA
167674 TCATCATCATCGTCT
1 TCATCATCATCGTCT
167689 TCATCATCATCGTC
1 TCATCATCATCGTC
167703 ATTAAGAGCA
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:0.34, G:0.07, T:0.38
Consensus pattern (15 bp):
TCATCATCATCGTCT
Found at i:169739 original size:20 final size:20
Alignment explanation
Indices: 169715--169801 Score: 56
Period size: 21 Copynumber: 4.3 Consensus size: 20
169705 TATAACTGTA
*
169715 AAAAAAATAAAATAATTAAAT
1 AAAATAATAAAA-AATTAAAT
* *
169736 AAAATACTAAAAAATTAACT
1 AAAATAATAAAAAATTAAAT
*
169756 --AAT--TAAATAATTAAAT
1 AAAATAATAAAAAATTAAAT
*
169772 AAAATACTAATAAAATATTAAAT
1 -AAA-A-TAATAAAAAATTAAAT
*
169795 AGAATAA
1 AAAATAA
169802 AATATACCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
16 11 0.22
18 3 0.06
19 1 0.02
20 11 0.22
21 12 0.24
22 2 0.04
23 11 0.22
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (20 bp):
AAAATAATAAAAAATTAAAT
Found at i:169800 original size:12 final size:12
Alignment explanation
Indices: 169719--169800 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
169709 ACTGTAAAAA
169719 AAATAAAATAATT
1 AAATAAAAT-ATT
*
169732 AAATAAAATACT
1 AAATAAAATATT
* *
169744 AAA-AAATTAACT
1 AAATAAAAT-ATT
*
169756 -AATTAAATAATT
1 AAATAAAAT-ATT
*
169768 AAATAAAATACT
1 AAATAAAATATT
169780 -AATAAAATATT
1 AAATAAAATATT
*
169791 AAATAGAATA
1 AAATAAAATA
169801 AAATATACCT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 16 0.29
12 24 0.43
13 16 0.29
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (12 bp):
AAATAAAATATT
Found at i:173257 original size:36 final size:36
Alignment explanation
Indices: 173206--173284 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
173196 CGTATTCATT
173206 GAAACATTATCGGCATTTAATAGATTATATTTTGGA
1 GAAACATTATCGGCATTTAATAGATTATATTTTGGA
*
173242 GAAACATTATTGGCATTTAATAGATTATATTTTGGA
1 GAAACATTATCGGCATTTAATAGATTATATTTTGGA
173278 GAAACAT
1 GAAACAT
173285 CGCAATGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (36 bp):
GAAACATTATCGGCATTTAATAGATTATATTTTGGA
Found at i:176815 original size:22 final size:22
Alignment explanation
Indices: 176789--176832 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
176779 TCTCTCTCTA
* *
176789 TTTCTCTGGTTTTTTTAGATTT
1 TTTCTCTAGTTTTATTAGATTT
*
176811 TTTCTCTAGTTTTATTATATTT
1 TTTCTCTAGTTTTATTAGATTT
176833 CAAAATCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTTCTCTAGTTTTATTAGATTT
Found at i:180299 original size:21 final size:21
Alignment explanation
Indices: 180252--180309 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
180242 TTTTCTGGCT
*
180252 CAAAGGATCGATCCGTTAGTA
1 CAAAGGATCGATCCCTTAGTA
*
180273 -AAAGGATCGATCCCTTTG-A
1 CAAAGGATCGATCCCTTAGTA
180292 CCAAAGGATCGATCCCTT
1 -CAAAGGATCGATCCCTT
180310 GGATAACAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 16 0.48
21 16 0.48
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (21 bp):
CAAAGGATCGATCCCTTAGTA
Found at i:180352 original size:20 final size:21
Alignment explanation
Indices: 180327--180374 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
180317 AGTGAGTTTG
*
180327 GGATCGACCCCTTGAC-AAAA
1 GGATCGACCCCTTCACAAAAA
* *
180347 GGATCGATCCCTTCCCAAAAA
1 GGATCGACCCCTTCACAAAAA
180368 GGATCGA
1 GGATCGA
180375 TTTCTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (21 bp):
GGATCGACCCCTTCACAAAAA
Found at i:183443 original size:16 final size:16
Alignment explanation
Indices: 183422--183494 Score: 112
Period size: 16 Copynumber: 4.6 Consensus size: 16
183412 CCAAAGCCTC
183422 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
183438 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
*
183454 GGAATCATTCAGCATT
1 TGAATCATTCAGCATT
* *
183470 TGAATCATTTAGCACT
1 TGAATCATTCAGCATT
183486 T-AATCATTC
1 TGAATCATTC
183495 TAAAGTAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
15 7 0.13
16 45 0.87
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:184736 original size:3 final size:3
Alignment explanation
Indices: 184728--184792 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
184718 CTACAAACGA
184728 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
184774 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
184793 CAGTCCACGC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:189937 original size:13 final size:13
Alignment explanation
Indices: 189921--189950 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
189911 GATAATTATG
189921 TTTAAATTATGCC
1 TTTAAATTATGCC
*
189934 TTTAAATTATGTC
1 TTTAAATTATGCC
189947 TTTA
1 TTTA
189951 GGAAAGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (13 bp):
TTTAAATTATGCC
Found at i:193292 original size:54 final size:55
Alignment explanation
Indices: 193233--193417 Score: 189
Period size: 55 Copynumber: 3.4 Consensus size: 55
193223 TATACGGAAA
* * *
193233 TCATCAAATCATGATGAATTCTGTGG-GTTACACACATATTGTC-TGTACGGTGAT
1 TCATCAACTCATGATGAATTCTGTGGAGTTACACACAAAGTG-CATGTACGGTGAT
* * *
193287 TCATCAACTCATAATGAATT-TCGTGGATTTGCACACAAAGTGCATGTACGGTGAT
1 TCATCAACTCATGATGAATTCT-GTGGAGTTACACACAAAGTGCATGTACGGTGAT
* * * ** * *
193342 TCATCAACCCATGAAGAATTCTGT-GAATATGTACACAAAGTCCATGTATGGTGAT
1 TCATCAACTCATGATGAATTCTGTGGAGT-TACACACAAAGTGCATGTACGGTGAT
*
193397 TCATCAACCCATGATGAATTC
1 TCATCAACTCATGATGAATTC
193418 CGTTGATGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 26 0.23
55 84 0.75
56 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (55 bp):
TCATCAACTCATGATGAATTCTGTGGAGTTACACACAAAGTGCATGTACGGTGAT
Found at i:193338 original size:55 final size:56
Alignment explanation
Indices: 193276--193553 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 56
193266 ACATATTGTC
* * * *
193276 TGTACGGTGATTCATCAACTCATAATGAATTTC-GTGGATTTGCACACAAAGTGCA
1 TGTACGGTGATTCATCAACCCATAATGAATTTCTGTGAATATGCACACAAAGTCCA
*
193331 TGTACGGTGATTCATCAACCCATGAA-GAA-TTCTGTGAATATGTACACAAAGTCCA
1 TGTACGGTGATTCATCAACCCAT-AATGAATTTCTGTGAATATGCACACAAAGTCCA
* * * *
193386 TGTATGGTGATTCATCAACCCATGATGAATTCCGTTGATGAATTCCGTGAATATGCACACAAATT
1 TGTACGGTGATTCATCAACCC---AT-AA------TGA--ATTTCTGTGAATATGCACACAAAGT
*
193451 GCA
54 CCA
* * *
193454 TATACGGTGATTCATCAACCCATGATGAA-TTCTGTGAATATGCACACAAAGTGCA
1 TGTACGGTGATTCATCAACCCATAATGAATTTCTGTGAATATGCACACAAAGTCCA
* *
193509 TGTACGGTGATTCATCAACCCATGATGAA-TTCCGTGAATATGCAC
1 TGTACGGTGATTCATCAACCCATAATGAATTTCTGTGAATATGCAC
193554 GCAAGGTGCC
Statistics
Matches: 191, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
54 3 0.02
55 130 0.68
56 3 0.02
58 8 0.04
64 1 0.01
65 4 0.02
67 1 0.01
68 41 0.21
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (56 bp):
TGTACGGTGATTCATCAACCCATAATGAATTTCTGTGAATATGCACACAAAGTCCA
Found at i:193426 original size:13 final size:13
Alignment explanation
Indices: 193408--193433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193398 CATCAACCCA
193408 TGATGAATTCCGT
1 TGATGAATTCCGT
193421 TGATGAATTCCGT
1 TGATGAATTCCGT
193434 GAATATGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TGATGAATTCCGT
Found at i:193466 original size:68 final size:68
Alignment explanation
Indices: 193357--193485 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 68
193347 AACCCATGAA
* * * *
193357 GAATTCTGTGAATATGTACACAAAGTCCATGTATGGTGATTCATCAACCCATGATGAATTCCGTT
1 GAATTCCGTGAATATGCACACAAAGTCCATATACGGTGATTCATCAACCCATGATGAATTCCGTT
193422 GAT
66 GAT
* *
193425 GAATTCCGTGAATATGCACACAAATTGCATATACGGTGATTCATCAACCCATGATGAATTC
1 GAATTCCGTGAATATGCACACAAAGTCCATATACGGTGATTCATCAACCCATGATGAATTC
193486 TGTGAATATG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (68 bp):
GAATTCCGTGAATATGCACACAAAGTCCATATACGGTGATTCATCAACCCATGATGAATTCCGTT
GAT
Found at i:193519 original size:123 final size:123
Alignment explanation
Indices: 193300--193543 Score: 407
Period size: 123 Copynumber: 2.0 Consensus size: 123
193290 TCAACTCATA
* * * *
193300 ATGAATTTCGTGGATTTGCACACAAAGTGCATGTACGGTGATTCATCAACCCATGAAGAATTCTG
1 ATGAATTCCGTGAATATGCACACAAAGTGCATATACGGTGATTCATCAACCCATGAAGAATTCTG
* *
193365 TGAATATGTACACAAAGTCCATGTATGGTGATTCATCAACCCATGATGAATTCCGTTG
66 TGAATATGCACACAAAGTCCATGTACGGTGATTCATCAACCCATGATGAATTCCGTTG
* *
193423 ATGAATTCCGTGAATATGCACACAAATTGCATATACGGTGATTCATCAACCCATGATGAATTCTG
1 ATGAATTCCGTGAATATGCACACAAAGTGCATATACGGTGATTCATCAACCCATGAAGAATTCTG
*
193488 TGAATATGCACACAAAGTGCATGTACGGTGATTCATCAACCCATGATGAATTCCGT
66 TGAATATGCACACAAAGTCCATGTACGGTGATTCATCAACCCATGATGAATTCCGT
193544 GAATATGCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 112 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (123 bp):
ATGAATTCCGTGAATATGCACACAAAGTGCATATACGGTGATTCATCAACCCATGAAGAATTCTG
TGAATATGCACACAAAGTCCATGTACGGTGATTCATCAACCCATGATGAATTCCGTTG
Found at i:194009 original size:20 final size:20
Alignment explanation
Indices: 193984--194035 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
193974 CGATGTTGCC
193984 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
194004 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
194024 TGGTATCGATAC
1 TGGTATCGATAC
194036 TATCATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCTTACCA
Found at i:194101 original size:113 final size:116
Alignment explanation
Indices: 193886--194129 Score: 323
Period size: 113 Copynumber: 2.1 Consensus size: 116
193876 ATTTCTGGCT
* * * * * *
193886 CCATAGTATCGATACTATTTCCCTGGTACCGATACTTTTATACTATGGTATCGATACCCCCATCC
1 CCATGGTATCGATACCATTACCATGGTACCGATACTATCATACTATGGTATCGATACCCCCATCC
* *
193951 GATATCGATACCAAAATTAGGTTCGATGTTGCCTGGTATCGATA-CCCTTA
66 GATATCGATACCAAAATTAGATTCGATGTTGCCTGGTATAGATACCCCTTA
* * *
194001 CCATGGTATCGATACCCTTACCATGGTATCGATACTATCATACTATGGTA-CGATA-CCCCTTCC
1 CCATGGTATCGATACCATTACCATGGTACCGATACTATCATACTATGGTATCGATACCCCCATCC
* * *
194064 GGTATCGATATCAAAATTAGATTCGATGTTGCTTGGTATAGATACCCCTTA
66 GATATCGATACCAAAATTAGATTCGATGTTGCCTGGTATAGATACCCCTTA
* *
194115 TCATGGTATGGATAC
1 CCATGGTATCGATAC
194130 TACCTCGTCG
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
113 46 0.41
114 24 0.21
115 42 0.38
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (116 bp):
CCATGGTATCGATACCATTACCATGGTACCGATACTATCATACTATGGTATCGATACCCCCATCC
GATATCGATACCAAAATTAGATTCGATGTTGCCTGGTATAGATACCCCTTA
Found at i:197754 original size:20 final size:20
Alignment explanation
Indices: 197729--197769 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
197719 CTATCGGTTC
*
197729 CCCTCTATGGGGTATCGGTA
1 CCCTCTATGGGGTATCAGTA
197749 CCCTCTATGGGGTATCAGTA
1 CCCTCTATGGGGTATCAGTA
197769 C
1 C
197770 TACCTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (20 bp):
CCCTCTATGGGGTATCAGTA
Found at i:198240 original size:20 final size:19
Alignment explanation
Indices: 198207--198262 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 19
198197 ATGTTTAATG
198207 AAAAAGATATCAATTGTTT
1 AAAAAGATATCAATTGTTT
* *
198226 ACAAAGGATACCAATTG-TT
1 A-AAAAGATATCAATTGTTT
198245 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
198263 GGAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 13 0.42
19 5 0.16
20 13 0.42
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTT
Done.