Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005092.1 Hibiscus syriacus cultivar Beakdansim tig00011449_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: 117777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:2917 original size:16 final size:17
Alignment explanation
Indices: 2896--2941 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
2886 TGTTTATGAG
*
2896 GGAATTGAAATGTG-AA
1 GGAATTGAAATCTGTAA
*
2912 GGAATTGAAATCTGTCA
1 GGAATTGAAATCTGTAA
2929 GGAATTGAAATCT
1 GGAATTGAAATCT
2942 AATTTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (17 bp):
GGAATTGAAATCTGTAA
Found at i:5076 original size:108 final size:108
Alignment explanation
Indices: 4887--5102 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
4877 GAGCTTTCGA
4887 ACGAGGAGAAAGCTAGCAGATTGTGCAGTTCTCGTTGAGCAGAGCTGGTGTGTATTGTATTTGAA
1 ACGAGGAGAAAGCTAGCAGATTGTGCAGTTCTCGTTGAGCAGAGCTGGTGTGTATTGTATTTGAA
4952 TGTTCTATATTACCTTTCTATTGGTAATTTTGTATTTGTTTTC
66 TGTTCTATATTACCTTTCTATTGGTAATTTTGTATTTGTTTTC
*
4995 ACGAGGAGAAAGCTAGCAGATTGTGCATTTCTCGTTGAGCAGAGCTGGTGTGTATTGTATTTGAA
1 ACGAGGAGAAAGCTAGCAGATTGTGCAGTTCTCGTTGAGCAGAGCTGGTGTGTATTGTATTTGAA
5060 TGTTCTATATTACCTTTCTATTGGTAATTTTGTATTTGTTTTC
66 TGTTCTATATTACCTTTCTATTGGTAATTTTGTATTTGTTTTC
5103 CCTAATGCAA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.42
Consensus pattern (108 bp):
ACGAGGAGAAAGCTAGCAGATTGTGCAGTTCTCGTTGAGCAGAGCTGGTGTGTATTGTATTTGAA
TGTTCTATATTACCTTTCTATTGGTAATTTTGTATTTGTTTTC
Found at i:18049 original size:26 final size:27
Alignment explanation
Indices: 17989--18042 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
17979 TTCTTCTGAA
* * *
17989 TATCTAATACACCTTTTTTTTTTATAG
1 TATCTAATACACCTTTTATTGTTAGAG
18016 TATCTAATACACCTTTTATTGTT-GAG
1 TATCTAATACACCTTTTATTGTTAGAG
18042 T
1 T
18043 TTGTAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (27 bp):
TATCTAATACACCTTTTATTGTTAGAG
Found at i:22253 original size:14 final size:14
Alignment explanation
Indices: 22234--22265 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22224 GACTCAACAA
*
22234 CATCTTCTTAAAAC
1 CATCTTCTCAAAAC
22248 CATCTTCTCAAAAC
1 CATCTTCTCAAAAC
22262 CATC
1 CATC
22266 CTCATTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (14 bp):
CATCTTCTCAAAAC
Found at i:47235 original size:57 final size:57
Alignment explanation
Indices: 47171--47285 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
47161 TAGGGTAAAC
47171 ATATACACATATATTATAAATAAAATTTGATTTGATTAGAAGAGATTATTATTTTTT
1 ATATACACATATATTATAAATAAAATTTGATTTGATTAGAAGAGATTATTATTTTTT
* *
47228 ATATACACATATATTATAAATAAAATTTGATTTGATTAGAAGAGATTGTTTTTTTTT
1 ATATACACATATATTATAAATAAAATTTGATTTGATTAGAAGAGATTATTATTTTTT
47285 A
1 A
47286 ACAAAAGACA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (57 bp):
ATATACACATATATTATAAATAAAATTTGATTTGATTAGAAGAGATTATTATTTTTT
Found at i:49857 original size:58 final size:58
Alignment explanation
Indices: 49708--49878 Score: 193
Period size: 59 Copynumber: 2.9 Consensus size: 58
49698 AAAATCATGT
* * *
49708 ATTATAGGATGTTGTTTTGTTGAGTCATCGACTATTAAAAGTTACAAAACGATCCTCCA
1 ATTATAGGA-GTTGCTTTGTTGAGTCCTCGACTATTAAAAGTTACAAAATGATCCTCCA
** * * * *
49767 ACAATAAGGTGTTACTTTGTTGAGT-CTCCGACTATT-AAAGTTACAAAATGATCCTTCG
1 ATTAT-AGGAGTTGCTTTGTTGAGTCCT-CGACTATTAAAAGTTACAAAATGATCCTCCA
* *
49825 ATTATAGGACTTGCTTTGTTGAGTTCCTCGACTATTAAAAGTTTCAAAATGATC
1 ATTATAGGAGTTGCTTTGTTGAG-TCCTCGACTATTAAAAGTTACAAAATGATC
49879 AATCGACTAT
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
57 15 0.16
58 32 0.35
59 42 0.46
60 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (58 bp):
ATTATAGGAGTTGCTTTGTTGAGTCCTCGACTATTAAAAGTTACAAAATGATCCTCCA
Found at i:61983 original size:18 final size:18
Alignment explanation
Indices: 61951--61989 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
61941 CATGTCTTTT
61951 AAAAGCAAAACATATATAG
1 AAAAGCAAAACATATA-AG
*
61970 AAAAG-AAAAGATATAAG
1 AAAAGCAAAACATATAAG
61987 AAA
1 AAA
61990 TCAATTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 5 0.26
ACGTcount: A:0.69, C:0.05, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAGCAAAACATATAAG
Found at i:63312 original size:14 final size:14
Alignment explanation
Indices: 63276--63317 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
63266 AACTAATAAC
*
63276 TAATATTTTA-TAA
1 TAATATTTTATTTA
*
63289 AAATACTTTTATTTA
1 TAATA-TTTTATTTA
63304 TAATATTTTATTTA
1 TAATATTTTATTTA
63318 ATATAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
15 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATATTTTATTTA
Found at i:63807 original size:24 final size:23
Alignment explanation
Indices: 63779--63832 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
63769 AATTTAATTT
*
63779 TTTAAAAAATCA-ATAAGAATCAAA
1 TTTAAAAAA-CAGATAA-AATAAAA
63803 TTTAATAAAACAGATAAAATAAAA
1 TTTAA-AAAACAGATAAAATAAAA
63827 TTTAAA
1 TTTAAA
63833 TCTACACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 8 0.30
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (23 bp):
TTTAAAAAACAGATAAAATAAAA
Found at i:65973 original size:27 final size:27
Alignment explanation
Indices: 65926--66094 Score: 137
Period size: 27 Copynumber: 6.3 Consensus size: 27
65916 AGATCAAGCG
* *
65926 ATGGTCATCAAGAACGC-ATGCCAAACC
1 ATGGTGATCAACAAC-CTATGCCAAACC
*
65953 ATGGTGATCAACCACCTATGCC-AACC
1 ATGGTGATCAACAACCTATGCCAAACC
* *
65979 TATGGTGATCAACAAACTATGCCAACCC
1 -ATGGTGATCAACAACCTATGCCAAACC
* * * *
66007 ATGGCGATCAACTACCCATGCCAATCC
1 ATGGTGATCAACAACCTATGCCAAACC
* * * **
66034 ATGGGGATCAACAATCTAT-ACAAAGTG
1 ATGGTGATCAACAACCTATGCCAAA-CC
* * *
66061 ATGGTGATCAGCAACCTGTGCCTAACC
1 ATGGTGATCAACAACCTATGCCAAACC
66088 ATGGTGA
1 ATGGTGA
66095 ACGTGTAAAT
Statistics
Matches: 110, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
26 8 0.07
27 96 0.87
28 6 0.05
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (27 bp):
ATGGTGATCAACAACCTATGCCAAACC
Found at i:70053 original size:228 final size:228
Alignment explanation
Indices: 69656--70713 Score: 1234
Period size: 228 Copynumber: 4.6 Consensus size: 228
69646 ATCGTCGAAG
* * * * * * * * * * *
69656 ATGCAGATCTTTGTGAAGACCCTCACCGGAAAAACAATCACCCTAGAGGTTGAAAGCTCAGACAC
1 ATGCAGATATTCGTCAAAACCCTGACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
* * * **
69721 TATAGATAATGTCAAGGCCAAGATTCAAGATAAAGAAGGCATTCCTGTGGACCAGCAGCGATTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
*
69786 TCTTCGCCGGGAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
131 TCTTCGCCGGCAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
* *
69851 ACTCTTCATCTGGTCCTCCGTCTCCGAGGTGGT
196 ACTCTTCATCTGGTCCTCCGTCTCCGCGGTGGC
* * * * * *
69884 ATGCAGATCTTCGTTAAAACCCTGACTGGCAAGACTATCACTCTTGAAGTGGAAAGCTCCGACAC
1 ATGCAGATATTCGTCAAAACCCTGACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
* * * * * * *
69949 AATTGATAATGTCAAGGCTAAGATTCAAGACAAAGAAGGGATTCCTCCGGACCAGCAGAGGTTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
* * * * *
70014 TTTTCGCCGGGAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAGAAGGAGTCA
131 TCTTCGCCGGCAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
70079 ACTCTTCATCTGGTCCTCCGTCTCCGCGGTGGC
196 ACTCTTCATCTGGTCCTCCGTCTCCGCGGTGGC
*
70112 ATGCAGATATTCGTCAAAACCCTAACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
1 ATGCAGATATTCGTCAAAACCCTGACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
* * *
70177 CATAGATAATGTCAAAGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGATCAGCAGCGTTTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
* * ** * * * * * *
70242 TCTTCGCCGGCAAGCAGCTGGAGGACGGCCGTACACTCGCCGATTATAACATCCAGAAGGAGTCG
131 TCTTCGCCGGCAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
* *
70307 ACTCTGCATCTGGTCCTCCGTCTACGCGGTGGC
196 ACTCTTCATCTGGTCCTCCGTCTCCGCGGTGGC
* * *
70340 ATGCAGATATTCGTGAAAACCCTGACCGGCAAGACTATCACTCTTGAAGTCGAAAGCTCCGACAC
1 ATGCAGATATTCGTCAAAACCCTGACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
* *
70405 CATAGATAATGTCAAAGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGATCAGCAGCGATTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
* * * ** * * * * *
70470 TCTTCGCCGGCAAACAACTGGAGGATGGTCGCACCTTGGCCGATTACAATATCCAAAAGGAATCG
131 TCTTCGCCGGCAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
* * * * * * *
70535 ACTCTCCATCTGGTCCTCAGGCTTCGTGGCGGT
196 ACTCTTCATCTGGTCCTCCGTCTCCGCGGTGGC
* * * * * * * * * * * *
70568 ATGCAGATATTTGTCAAAACCTTGACGGGAAAAACAATTACCCTCGAGGTGGAGAGCTCGGATAC
1 ATGCAGATATTCGTCAAAACCCTGACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
* * * * * * * * * * *
70633 GATCGACAACGTGAAGGCTAAAATTCAGGATAAAGAAGGGATCCCTCCGGACCAACAGAGGTTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
70698 TCTTCGCCGGCAAGCA
131 TCTTCGCCGGCAAGCA
70714 TGGAGGACGG
Statistics
Matches: 720, Mismatches: 110, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
228 720 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (228 bp):
ATGCAGATATTCGTCAAAACCCTGACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
TCTTCGCCGGCAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
ACTCTTCATCTGGTCCTCCGTCTCCGCGGTGGC
Found at i:70523 original size:456 final size:456
Alignment explanation
Indices: 69656--70765 Score: 1360
Period size: 456 Copynumber: 2.4 Consensus size: 456
69646 ATCGTCGAAG
* * * * *
69656 ATGCAGATCTTTGTGAAGACCCTCACCGGAAAAACAATCACCCTAGAGGTTGAAAGCTCAGACAC
1 ATGCAGATATTTGTCAAAACCCTAACCGGAAAAACAATCACCCTAGAGGTCGAAAGCTCAGACAC
* * * **
69721 TATAGATAATGTCAAGGCCAAGATTCAAGATAAAGAAGGCATTCCTGTGGACCAGCAGCGATTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
* * * * * * * *
69786 TCTTCGCCGGGAAGCAGCTGGAAGATGGAAGGACCCTCGCCGACTATAATATCCAAAAGGAATCG
131 TCTTCGCCGGCAAGCAGCTGGAGGACGGCAGGACACTCGCCGATTATAATATCCAGAAGGAGTCG
* * * * * *
69851 ACTCTTCATCTGGTCCTCCGTCTCCGAGGTGGTATGCAGATCTTCGTTAAAACCCTGACTGGCAA
196 ACTCTGCATCTGGTCCTCCGTCTACGAGGTGGCATGCAGATATTCGTGAAAACCCTGACCGGCAA
* * *
69916 GACTATCACTCTTGAAGTGGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATTCAAGACA
261 GACTATCACTCTTGAAGTCGAAAGCTCCGACACAATAGATAATGTCAAAGCTAAGATTCAAGACA
* * * * * * * *
69981 AAGAAGGGATTCCTCCGGACCAGCAGAGGTTGATTTTCGCCGGGAAGCAGCTGGAAGATGGAAGG
326 AAGAAGGCATCCCTCCGGACCAGCAGAGATTGATCTTCGCCGGCAAACAACTGGAAGATGGAAGC
* * * * * * *
70046 ACCCTCGCCGACTATAATATCCAGAAGGAGTCAACTCTTCATCTGGTCCTCCGTCTCCGCGGTGG
391 ACCCTCGCCGACTACAATATCCAAAAGGAATCAACTCTCCATCTGGTCCTCAGGCTCCGCGGCGG
70111 C
456 C
* * * * * *
70112 ATGCAGATATTCGTCAAAACCCTAACCGGAAAGACAATCACTCTTGAAGTCGAAAGCTCCGACAC
1 ATGCAGATATTTGTCAAAACCCTAACCGGAAAAACAATCACCCTAGAGGTCGAAAGCTCAGACAC
* * *
70177 CATAGATAATGTCAAAGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGATCAGCAGCGTTTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
* * *
70242 TCTTCGCCGGCAAGCAGCTGGAGGACGGCCGTACACTCGCCGATTATAACATCCAGAAGGAGTCG
131 TCTTCGCCGGCAAGCAGCTGGAGGACGGCAGGACACTCGCCGATTATAATATCCAGAAGGAGTCG
*
70307 ACTCTGCATCTGGTCCTCCGTCTACGCGGTGGCATGCAGATATTCGTGAAAACCCTGACCGGCAA
196 ACTCTGCATCTGGTCCTCCGTCTACGAGGTGGCATGCAGATATTCGTGAAAACCCTGACCGGCAA
* *
70372 GACTATCACTCTTGAAGTCGAAAGCTCCGACACCATAGATAATGTCAAAGCTAAGATTCAAGATA
261 GACTATCACTCTTGAAGTCGAAAGCTCCGACACAATAGATAATGTCAAAGCTAAGATTCAAGACA
* * * **
70437 AAGAAGGCATCCCTCCGGATCAGCAGCGATTGATCTTCGCCGGCAAACAACTGGAGGATGGTCGC
326 AAGAAGGCATCCCTCCGGACCAGCAGAGATTGATCTTCGCCGGCAAACAACTGGAAGATGGAAGC
* * * * * *
70502 ACCTTGGCCGATTACAATATCCAAAAGGAATCGACTCTCCATCTGGTCCTCAGGCTTCGTGGCGG
391 ACCCTCGCCGACTACAATATCCAAAAGGAATCAACTCTCCATCTGGTCCTCAGGCTCCGCGGCGG
*
70567 T
456 C
* * * * * * * * *
70568 ATGCAGATATTTGTCAAAACCTTGACGGGAAAAACAATTACCCTCGAGGTGGAGAGCTCGGATAC
1 ATGCAGATATTTGTCAAAACCCTAACCGGAAAAACAATCACCCTAGAGGTCGAAAGCTCAGACAC
* * * * * * * * * * *
70633 GATCGACAACGTGAAGGCTAAAATTCAGGATAAAGAAGGGATCCCTCCGGACCAACAGAGGTTGA
66 CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
* * * * *
70698 TCTTCGCCGGCAAGCA--TGGAGGACGGCAGGACACTTGCAGATTACAATATCCAGAAAGAGTCT
131 TCTTCGCCGGCAAGCAGCTGGAGGACGGCAGGACACTCGCCGATTATAATATCCAGAAGGAGTCG
70761 ACTCT
196 ACTCT
70766 CCACCTTGTG
Statistics
Matches: 551, Mismatches: 103, Indels: 2
0.84 0.16 0.00
Matches are distributed among these distances:
454 44 0.08
456 507 0.92
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (456 bp):
ATGCAGATATTTGTCAAAACCCTAACCGGAAAAACAATCACCCTAGAGGTCGAAAGCTCAGACAC
CATAGATAATGTCAAGGCTAAGATTCAAGATAAAGAAGGCATCCCTCCGGACCAGCAGCGATTGA
TCTTCGCCGGCAAGCAGCTGGAGGACGGCAGGACACTCGCCGATTATAATATCCAGAAGGAGTCG
ACTCTGCATCTGGTCCTCCGTCTACGAGGTGGCATGCAGATATTCGTGAAAACCCTGACCGGCAA
GACTATCACTCTTGAAGTCGAAAGCTCCGACACAATAGATAATGTCAAAGCTAAGATTCAAGACA
AAGAAGGCATCCCTCCGGACCAGCAGAGATTGATCTTCGCCGGCAAACAACTGGAAGATGGAAGC
ACCCTCGCCGACTACAATATCCAAAAGGAATCAACTCTCCATCTGGTCCTCAGGCTCCGCGGCGG
C
Found at i:71585 original size:20 final size:20
Alignment explanation
Indices: 71557--71601 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
71547 ATAATTGTTC
*
71557 GAATTTAAAATATCTAAGGA
1 GAATATAAAATATCTAAGGA
71577 GAATATAAAATATCTAAGGA
1 GAATATAAAATATCTAAGGA
71597 GAATA
1 GAATA
71602 ATATTTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (20 bp):
GAATATAAAATATCTAAGGA
Found at i:73700 original size:15 final size:15
Alignment explanation
Indices: 73678--73825 Score: 172
Period size: 15 Copynumber: 9.5 Consensus size: 15
73668 TAATAAGGTT
73678 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
73693 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
*
73708 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
73723 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
73738 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
73753 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
73768 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
73787 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
73805 ATTTATTTTAAAAT-
1 ATTTATTTTAAAATA
73819 ATTTATT
1 ATTTATT
73826 AGTATAGATT
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
14 7 0.06
15 87 0.76
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:73843 original size:32 final size:31
Alignment explanation
Indices: 73805--73957 Score: 117
Period size: 32 Copynumber: 5.4 Consensus size: 31
73795 TTTTAAAATA
73805 ATTTATTTTAAAATATTTATTAGTATAGATTG
1 ATTTATTTTAAAA-ATTTATTAGTATAGATTG
73837 ATTTATTTT---AA---A--A-TATAGATTG
1 ATTTATTTTAAAAATTTATTAGTATAGATTG
* *
73859 GTTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAA-AATTTATTAGTATAGATTG
73891 ATTTATTTT-AAAA--TA-T-G----GATTG
1 ATTTATTTTAAAAATTTATTAGTATAGATTG
* *
73913 ATTTATTTTAAATAATTTATTAATATAAATTG
1 ATTTATTTTAAA-AATTTATTAGTATAGATTG
73945 ATTTATTTTAAAA
1 ATTTATTTTAAAA
73958 TATGGATTGA
Statistics
Matches: 96, Mismatches: 5, Indels: 41
0.68 0.04 0.29
Matches are distributed among these distances:
22 31 0.32
23 3 0.03
24 2 0.02
25 1 0.01
26 5 0.05
27 2 0.02
28 3 0.03
29 2 0.02
30 2 0.02
31 4 0.04
32 41 0.43
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (31 bp):
ATTTATTTTAAAAATTTATTAGTATAGATTG
Found at i:73844 original size:22 final size:22
Alignment explanation
Indices: 73828--73924 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
73818 TATTTATTAG
73828 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
73850 TATAGATTGGTTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
73874 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
*
73904 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
73925 TAATTTATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
22 27 0.45
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 5 0.08
28 5 0.08
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:73868 original size:54 final size:54
Alignment explanation
Indices: 73805--73973 Score: 277
Period size: 54 Copynumber: 3.1 Consensus size: 54
73795 TTTTAAAATA
*
73805 ATTTATTTTAAA-ATATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
73859 GTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
73913 ATTTATTTTAAATAATTTATTAATATAAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
73967 ATTTATT
1 ATTTATT
73974 ATTGTATTTG
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 106 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
Found at i:73870 original size:69 final size:67
Alignment explanation
Indices: 73723--73880 Score: 196
Period size: 67 Copynumber: 2.3 Consensus size: 67
73713 TTATAAAATA
*
73723 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATAGAT
73788 TG
66 TG
* * * * *
73790 ATTTATTTTAAAATAATTTATTTTAAAAT-ATTTA-TTAGTATAGATTGATTTATTTTAAAATAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTT--TA-A-AATAAATTATTATAAAATAT
73853 AGATTG
62 AGATTG
*
73859 GTTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
73881 GTATGGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
65 2 0.03
66 5 0.06
67 30 0.38
68 13 0.16
69 29 0.37
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTTAAAATAAATTATTATAAAATATAGAT
TG
Found at i:74019 original size:32 final size:32
Alignment explanation
Indices: 73978--74292 Score: 273
Period size: 32 Copynumber: 10.8 Consensus size: 32
73968 TTTATTATTG
* *
73978 TATTTGTATGGATTTATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
74010 TATTAGTATGGATTGATTTA-TTT---TAA--
1 TATTAGTATGGATTGATTTATTTTAAATAATT
74036 -A--A-TATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
74064 TATTAGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
* *
74096 TATTTGTATGGATTGATTGA-TTT--AT--TT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
* * * *
74123 TA-AAATATAGATTGATTTA--TT--AT--TG
1 TATTAGTATGGATTGATTTATTTTAAATAATT
* *
74148 TAGTT-TTATGAATTGATTTATTTTAAATAATT
1 TA-TTAGTATGGATTGATTTATTTTAAATAATT
*
74180 TATTAGTATGAATTGATTTA-TTT---TAA--
1 TATTAGTATGGATTGATTTATTTTAAATAATT
74206 -A--A-TATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
74234 TATTAGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
* *
74266 TATTTGTATAGATTGATTTATTTTAAA
1 TATTAGTATGGATTGATTTATTTTAAA
74293 ATATAGATTG
Statistics
Matches: 235, Mismatches: 19, Indels: 58
0.75 0.06 0.19
Matches are distributed among these distances:
22 27 0.11
23 8 0.03
25 9 0.04
26 30 0.13
27 4 0.02
28 8 0.03
29 4 0.02
30 2 0.01
31 13 0.06
32 130 0.55
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (32 bp):
TATTAGTATGGATTGATTTATTTTAAATAATT
Found at i:74041 original size:22 final size:22
Alignment explanation
Indices: 74016--74058 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
74006 AATTTATTAG
74016 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
74038 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
74059 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:74063 original size:54 final size:54
Alignment explanation
Indices: 73984--74404 Score: 383
Period size: 54 Copynumber: 7.6 Consensus size: 54
73974 ATTGTATTTG
*
73984 TATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
74038 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** ** * * * * * * ***
74091 TAATTTATTTGTATGGATTGATTGATTTATTT-TAAAATATAGATTGATTTATTATTGTAGTTT
1 T-ATGGA-TTG-ATTTATT--TTAAATAATTTAT-TAGTATGGATTGATTTA-T-TT-TA-AAA
* *
74154 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
74208 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA
* * * ***
74264 TTTATTTGTATAGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTG
1 --TA--TG----GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
*
74320 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
74374 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
74405 TTGTAGTTGT
Statistics
Matches: 293, Mismatches: 44, Indels: 60
0.74 0.11 0.15
Matches are distributed among these distances:
48 14 0.05
49 2 0.01
50 2 0.01
52 3 0.01
53 7 0.02
54 139 0.47
55 14 0.05
56 10 0.03
57 8 0.03
58 52 0.18
59 5 0.02
60 11 0.04
61 4 0.01
62 5 0.02
63 3 0.01
64 14 0.05
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:74138 original size:170 final size:167
Alignment explanation
Indices: 73904--74404 Score: 864
Period size: 170 Copynumber: 3.0 Consensus size: 167
73894 TATTTTAAAA
** * *
73904 TATGGATTGATTTATTTTAAATAATTTATTAATATA-AATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATATGATTGATTTATTTTAAAATATAGATTGA
*
73968 TTTATTATTGTATTTGTATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
66 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
74033 TAAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 TAAAATATGGATTGATTTATTTTAAATAATTTATTAG
74070 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATAGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTAT--A-TGATTGATTTATTTTAAAATATAGAT
* *
74135 TGATTTATTATTGTAGTTT-TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTT
63 TGATTTATTATTGTA-TTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT
74199 ATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
127 ATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
74240 TATGGATTGATTTATTTTAAATAATTTATTTGTATA-GATTGATTTATTTTAAAATATAGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATATGATTGATTTATTTTAAAATATAGATTGA
* *
74304 TTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
66 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
74369 TAAAATATGGATTGATTTATTTTAAATAATTTATTA
131 TAAAATATGGATTGATTTATTTTAAATAATTTATTA
74405 TTGTAGTTGT
Statistics
Matches: 318, Mismatches: 11, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
165 2 0.01
166 155 0.49
168 2 0.01
170 156 0.49
171 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (167 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATATGATTGATTTATTTTAAAATATAGATTGA
TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
TAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:74211 original size:22 final size:22
Alignment explanation
Indices: 74186--74228 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
74176 AATTTATTAG
74186 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
74208 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
74229 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:74284 original size:18 final size:16
Alignment explanation
Indices: 74212--74291 Score: 60
Period size: 14 Copynumber: 5.0 Consensus size: 16
74202 TTAAAATATG
74212 GATTGATTTATTTTAA
1 GATTGATTTATTTTAA
* * *
74228 -A-TAATTTATTAGTATG
1 GATTGATTTATT-TTA-A
74244 GATTGATTTATTTTAA
1 GATTGATTTATTTTAA
*
74260 -A-TAATTTATTTGTATA
1 GATTGATTTATTT-TA-A
74276 GATTGATTTATTTTAA
1 GATTGATTTATTTTAA
74292 AATATAGATT
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
14 17 0.35
15 6 0.12
16 2 0.04
17 6 0.12
18 17 0.35
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
GATTGATTTATTTTAA
Found at i:74374 original size:166 final size:165
Alignment explanation
Indices: 73904--74404 Score: 867
Period size: 166 Copynumber: 3.0 Consensus size: 165
73894 TATTTTAAAA
** * *
73904 TATGGATTGATTTATTTTAAATAATTTATTAATATAAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATAGATTGAT
* *
73969 TTATTATTGTATTTGTATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
74034 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
130 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
74070 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATAGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTAT--A--GATTGATTTATTTTAAAATATAGAT
* *
74135 TGATTTATTATTGTAGTTTTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA
62 TGATTTATTATTGTAGTTGTATG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
74200 TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
126 TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
74240 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATAGATTGAT
74305 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTAT-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
74370 AAAATATGGATTGATTTATTTTAAATAATTTATTA
130 AAAATATGGATTGATTTATTTTAAATAATTTATTA
74405 TTGTAGTTGT
Statistics
Matches: 319, Mismatches: 10, Indels: 12
0.94 0.03 0.04
Matches are distributed among these distances:
166 158 0.50
167 1 0.00
168 2 0.01
169 1 0.00
170 157 0.49
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (165 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATAGATTGAT
TTATTATTGTAGTTGTATGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
AAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:74377 original size:22 final size:22
Alignment explanation
Indices: 74352--74394 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
74342 AATTTATTAG
74352 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
74374 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
74395 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:74459 original size:31 final size:31
Alignment explanation
Indices: 74419--74477 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
74409 AGTTGTATGG
* *
74419 ATTACTTAAATTTCAGTATTGTAAAACTAAA
1 ATTACTTAAATATCAGTATTGCAAAACTAAA
*
74450 ATTATTTAAATATCAGTATTGCAAAACT
1 ATTACTTAAATATCAGTATTGCAAAACT
74478 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTACTTAAATATCAGTATTGCAAAACTAAA
Found at i:75553 original size:17 final size:19
Alignment explanation
Indices: 75520--75558 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
75510 TTATATAACT
75520 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
75539 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
75557 TA
1 TA
75559 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:76104 original size:24 final size:24
Alignment explanation
Indices: 76066--76135 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
76056 CAAATCAGAG
* * *
76066 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCAAATAAAAA
* *
76090 TTCAGGTCAAATATCAAATAAGAA
1 TCCAGGTCAAATATCAAATAAAAA
* *
76114 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCAAATAAA
76136 CTATTTATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (24 bp):
TCCAGGTCAAATATCAAATAAAAA
Found at i:76135 original size:48 final size:47
Alignment explanation
Indices: 76041--76135 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 47
76031 ATTAAAACAT
* * * * ** *
76041 AATTCAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATAAGAATCCAGGTCAAAAATCAGATAAA
76088 AATTCAGGTCAAATATCAAATAAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATAAGAATCCAGGTCAAAAATCAGATAAA
76136 CTATTTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 14 0.35
48 26 0.65
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATAAGAATCCAGGTCAAAAATCAGATAAA
Found at i:76876 original size:29 final size:29
Alignment explanation
Indices: 76842--76953 Score: 188
Period size: 29 Copynumber: 3.9 Consensus size: 29
76832 ATCACCCTAT
*
76842 TCGAATTAATTCCCAAAATATCACCAAAA
1 TCGAATTAATTCCCAGAATATCACCAAAA
* *
76871 TTGAATTAATTCCCATAATATCACCAAAA
1 TCGAATTAATTCCCAGAATATCACCAAAA
76900 TCGAATTAATTCCCAGAATATCACCAAAA
1 TCGAATTAATTCCCAGAATATCACCAAAA
*
76929 TCGATTTAATTCCCAGAATATCACC
1 TCGAATTAATTCCCAGAATATCACC
76954 GGTCAACTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (29 bp):
TCGAATTAATTCCCAGAATATCACCAAAA
Found at i:80879 original size:17 final size:19
Alignment explanation
Indices: 80846--80884 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
80836 TTATATAACT
80846 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
80865 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
80883 TA
1 TA
80885 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:82206 original size:29 final size:29
Alignment explanation
Indices: 82158--82281 Score: 194
Period size: 29 Copynumber: 4.3 Consensus size: 29
82148 CATTTTACAG
* * *
82158 AAATAGCACCATATTCGAATTAATTCCCA
1 AAATATCACCAAAATCGAATTAATTCCCA
*
82187 AAATATCACCAAAATTGAATTAATTCCCA
1 AAATATCACCAAAATCGAATTAATTCCCA
*
82216 GAATATCACCAAAATCGAATTAATTCCCA
1 AAATATCACCAAAATCGAATTAATTCCCA
82245 AAATATCACCAAAATCGAATTAATTCCCA
1 AAATATCACCAAAATCGAATTAATTCCCA
*
82274 TAATATCA
1 AAATATCA
82282 TCGATCAACG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATATCACCAAAATCGAATTAATTCCCA
Found at i:82703 original size:21 final size:21
Alignment explanation
Indices: 82657--82704 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
82647 AAGTCGATGC
* *
82657 TTTGACTTTAAATTCACGGCA
1 TTTGGCTTGAAATTCACGGCA
82678 TTTGGCTTGAAATTCACGGCA
1 TTTGGCTTGAAATTCACGGCA
82699 TTTGGC
1 TTTGGC
82705 AGCGTTTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTGGCTTGAAATTCACGGCA
Found at i:84871 original size:36 final size:36
Alignment explanation
Indices: 84831--84900 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 36
84821 GTAAAAGAAT
84831 AAAACTCTCTT-TCTCGTTCTTAGAAATTGGAGCTAA
1 AAAACTCTCTTGTC-CGTTCTTAGAAATTGGAGCTAA
84867 AAAACTCTCTTGTCCGTTCTTAGAAATTGGAGCT
1 AAAACTCTCTTGTCCGTTCTTAGAAATTGGAGCT
84901 TGTTAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (36 bp):
AAAACTCTCTTGTCCGTTCTTAGAAATTGGAGCTAA
Found at i:90803 original size:36 final size:36
Alignment explanation
Indices: 90751--90873 Score: 237
Period size: 36 Copynumber: 3.4 Consensus size: 36
90741 GAGAAGTGAG
*
90751 TAACATCAAAGATTCAATCTTTGACAACATTAATGC
1 TAACTTCAAAGATTCAATCTTTGACAACATTAATGC
90787 TAACTTCAAAGATTCAATCTTTGACAACATTAATGC
1 TAACTTCAAAGATTCAATCTTTGACAACATTAATGC
90823 TAACTTCAAAGATTCAATCTTTGACAACATTAATGC
1 TAACTTCAAAGATTCAATCTTTGACAACATTAATGC
90859 TAACTTCAAAGATTC
1 TAACTTCAAAGATTC
90874 TAGAGGTGGA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 86 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (36 bp):
TAACTTCAAAGATTCAATCTTTGACAACATTAATGC
Found at i:92208 original size:14 final size:14
Alignment explanation
Indices: 92180--92223 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
92170 ACTGTAAAAA
92180 AAATAAAAT-ATTT
1 AAATAAAATAATTT
92193 AAATAAAATAATTT
1 AAATAAAATAATTT
92207 AAATAAAATAATTT
1 AAATAAAATAATTT
92221 AAA
1 AAA
92224 AAATCAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 9 0.30
14 21 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAAAATAATTT
Found at i:92232 original size:27 final size:27
Alignment explanation
Indices: 92180--92245 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
92170 ACTGTAAAAA
92180 AAATAAAAT-ATTTAAATAAAATAATTT
1 AAATAAAATAATTTAAATAAAATAA-TT
92207 AAATAAAATAATTT-AA-AAAATCAATT
1 AAATAAAATAATTTAAATAAAAT-AATT
*
92233 -AATACAATAATTT
1 AAATAAAATAATTT
92246 GTTAGATTCG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 12 0.33
26 7 0.19
27 13 0.36
28 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
AAATAAAATAATTTAAATAAAATAATT
Found at i:98474 original size:7 final size:7
Alignment explanation
Indices: 98462--98497 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
98452 AATATGATGA
98462 AAGTTGT
1 AAGTTGT
98469 AAGTTGT
1 AAGTTGT
98476 AAGTTGT
1 AAGTTGT
98483 AAGTTGT
1 AAGTTGT
98490 AAGTTGT
1 AAGTTGT
98497 A
1 A
98498 TTCGGGGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.42
Consensus pattern (7 bp):
AAGTTGT
Found at i:99836 original size:60 final size:59
Alignment explanation
Indices: 99768--99881 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
99758 ATAAATAGTA
* * *
99768 CATTAACTATA-GTACGTTATTTTATTAAGTCTTATAATTATTAAAAGTTACAAAGTGAC
1 CATTAACTATAGGT-CATTATTTTATTAAGTCTCATAACTATTAAAAGTTACAAAGTGAC
* * * *
99827 CATTCAACTATAGGTCATTATTTTGTTGAGTCTCCTGACTATTAAAAGTTACAAA
1 CATT-AACTATAGGTCATTATTTTATTAAGTCTCATAACTATTAAAAGTTACAAA
99882 ATGATCATCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 4 0.09
60 40 0.87
61 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (59 bp):
CATTAACTATAGGTCATTATTTTATTAAGTCTCATAACTATTAAAAGTTACAAAGTGAC
Found at i:100193 original size:20 final size:20
Alignment explanation
Indices: 100170--100216 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
100160 ACAGTACTAT
100170 CGCAACGCAATTTTCAAATA
1 CGCAACGCAATTTTCAAATA
* * *
100190 CGCAATGCGATTTTCAAATT
1 CGCAACGCAATTTTCAAATA
100210 CGCAACG
1 CGCAACG
100217 TTAATTACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (20 bp):
CGCAACGCAATTTTCAAATA
Found at i:100250 original size:97 final size:97
Alignment explanation
Indices: 100060--100785 Score: 736
Period size: 97 Copynumber: 7.5 Consensus size: 97
100050 ACCGATATAG
* * * *
100060 GTAAACAATACTATCGCAATGCGA-TTTCAAATTCGCAACACGATTTTCAAATTTGCAACTTTAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGTTAA
*
100124 TTACCGATACAGGTAAACAATACTATCGCAAT
66 TTACCGATACAGGTAAACAGTACTATCGCAAT
* * * * * *
100156 ATTAACAGTACTATCGCAACGCAATTTTCAAATACGCAATGCGATTTTCAAATTCGCAACGTTAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGTTAA
100221 TTACCGATACAGGTAAACAGTACTATCGCAAT
66 TTACCGATACAGGTAAACAGTACTATCGCAAT
* * * *
100253 TTTAACAGTACTATCGCAATGCGATTTTCAAAGTCGCAACGCGATTTTCAAATTCGCAACGCTAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGTTAA
*
100318 TTACCGATATAGGTAAACAGTACTATCGCAAT
66 TTACCGATACAGGTAAACAGTACTATCGCAAT
** ** * ** *
100350 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAG
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACG-CGATTTTC-AAATTCG-CAAC-G
* * * * * *
100415 -T-ACTATCG-CA-ATGTAAACAATACTATCACAAT
62 TTAATTACCGATACAGGTAAACAGTACTATCGCAAT
** *
100447 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACATGATTTTCAAATTCGCAACCTTAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGTTAA
* *
100512 TTACCGATATAGGTAAACAATACTATCGCAAT
66 TTACCGATACAGGTAAACAGTACTATCGCAAT
* * * ** * ** * **
100544 GTTAACAGTACTATCGGAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGC-GATTTTC-AAATTCG-CAACGT
* * *
100609 T-ATTATCG-CA-ATGTAAACAGTACTATCGCAAT
63 TAATTACCGATACAGGTAAACAGTACTATCGCAAT
** *** * * * *
100641 GTAAACAGTACTATCGCAATGTAAACAGT-ACTATT-GCAATGTGATTTTTAAATTCGCAAC-TC
1 GTAAACAGTACTATCGCAATG-CGATTTTCA-AATTCGCAACGCGATTTTCAAATTCGCAACGT-
*
100703 TAATTACCGATATCTGGTAAACAGTACTATCGCAAT
63 TAATTACCGATA-CAGGTAAACAGTACTATCGCAAT
*
100739 GTAAACAGTAATATCGCAATGCGATTTTCAAATTCGCAACGCGATTT
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTT
100786 ACCGATATAG
Statistics
Matches: 510, Mismatches: 99, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
94 8 0.02
95 19 0.04
96 29 0.06
97 360 0.71
98 66 0.13
99 19 0.04
100 8 0.02
101 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (97 bp):
GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGTTAA
TTACCGATACAGGTAAACAGTACTATCGCAAT
Found at i:100289 original size:20 final size:20
Alignment explanation
Indices: 100266--100314 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
100256 AACAGTACTA
*
100266 TCGCAATGCGATTTTCAAAG
1 TCGCAACGCGATTTTCAAAG
*
100286 TCGCAACGCGATTTTCAAAT
1 TCGCAACGCGATTTTCAAAG
100306 TCGCAACGC
1 TCGCAACGC
100315 TAATTACCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTTTCAAAG
Found at i:100355 original size:20 final size:20
Alignment explanation
Indices: 100330--100370 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
100320 ACCGATATAG
100330 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
100350 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
100370 G
1 G
100371 CGATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:100432 original size:20 final size:20
Alignment explanation
Indices: 100407--100467 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
100397 ACCGATATAG
100407 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
* *
100427 GTAAACAATACTATCACAAT
1 GTAAACAGTACTATCGCAAT
100447 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
100467 G
1 G
100468 CGATTTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:100433 original size:194 final size:194
Alignment explanation
Indices: 100060--100877 Score: 1013
Period size: 194 Copynumber: 4.2 Consensus size: 194
100050 ACCGATATAG
* * * *
100060 GTAAACAATACTATCGCAATGCGATT-TCAAATTCGCAACACGATTTTCAAATTTGCAACTTTAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACTCTAA
* * * * *
100124 TTACCGATACAGGTAAACAATACTATCGCAATATTAACAGTACTATCGCAACGCAATTTTCAAAT
66 TTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAAT
* * * ** * ** * * * * * *
100189 ACGCAATGC-GATTTTC-AAATTCG-CAAC-GTTAATTACCGATACAGGTAAACAGTACTATCGC
131 TCGCAACGCTAATTACCGATATAGGTAAACAG-T-ACTATCG-CA-ATGTAAACAATACTATCGC
100250 AAT
192 AAT
* * * *
100253 TTTAACAGTACTATCGCAATGCGATTTTCAAAGTCGCAACGCGATTTTCAAATTCGCAACGCTAA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACTCTAA
*
100318 TTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAAT
66 TTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAAT
* *
100383 TCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCACAAT
131 TCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCGCAAT
**
100447 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACATGATTTTCAAATTCGCAAC-CTTA
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACTC-TA
* *
100511 ATTACCGATATAGGTAAACAATACTATCGCAATGTTAACAGTACTATCGGAATGCGATTTTCAAA
65 ATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAA
* * *
100576 TTCGCAACGCTAATTACCGATATAGGTAAACAATATTATCGCAATGTAAACAGTACTATCGCAAT
130 TTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCGCAAT
** *** * * * *
100641 GTAAACAGTACTATCGCAATGTAAACAGT-ACTATT-GCAATGTGATTTTTAAATTCGCAACTCT
1 GTAAACAGTACTATCGCAATG-CGATTTTCA-AATTCGCAACGCGATTTTCAAATTCGCAACTCT
* * *
100704 AATTACCGATATCTGGTAAACAGTACTATCGCAATGTAAACAGTAATATCGCAATGCGATTTTCA
64 AATTACCGATAT-AGGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCA
* * *
100769 AATTCGCAACGCGATTTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCGTA
128 AATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCGCA
100834 AT
193 AT
** *
100836 GTAAACAACACTATCGCAATGCGATTTTCAAATTCACAACGC
1 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGC
100878 TAATTACCGA
Statistics
Matches: 539, Mismatches: 74, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
193 24 0.04
194 358 0.66
195 143 0.27
196 9 0.02
197 4 0.01
198 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (194 bp):
GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACTCTAA
TTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAAT
TCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCGCAAT
Found at i:100439 original size:77 final size:77
Alignment explanation
Indices: 100286--100447 Score: 288
Period size: 77 Copynumber: 2.1 Consensus size: 77
100276 ATTTTCAAAG
*
100286 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATG
1 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATG
*
100351 TAAACAGTACTA
66 TAAACAATACTA
*
100363 TCGCAATGCGATTTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATG
1 TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATG
100428 TAAACAATACTA
66 TAAACAATACTA
*
100440 TCACAATG
1 TCGCAATG
100448 TAAACAGTAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (77 bp):
TCGCAATGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATG
TAAACAATACTA
Found at i:100461 original size:117 final size:116
Alignment explanation
Indices: 100330--100558 Score: 309
Period size: 117 Copynumber: 2.0 Consensus size: 116
100320 ACCGATATAG
* ** *
100330 GTAAACAGTACTATCGCAAT-G-TAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGTT
1 GTAAACAGTACTATCGCAATCGATAAACA--AAT-TCGCAACACGATTTTCAAATTCGCAACCTT
*
100393 AATTACCGATATAGGTAAACAGTACTATCGCAATGTAAACAATACTATCACAAT
63 AATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAATACTATCACAAT
*** *
100447 GTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACATGATTTTCAAATTCGCAACCTTAA
1 GTAAACAGTACTATCGCAAT-CGATAAACAAATTCGCAACACGATTTTCAAATTCGCAACCTTAA
* *
100512 TTACCGATATAGGTAAACAATACTATCGCAATGTTAACAGTACTATC
65 TTACCGATATAGGTAAACAATACTATCGCAATGTAAACAATACTATC
100559 GGAATGCGAT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
117 92 0.94
118 2 0.02
119 1 0.01
120 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (116 bp):
GTAAACAGTACTATCGCAATCGATAAACAAATTCGCAACACGATTTTCAAATTCGCAACCTTAAT
TACCGATATAGGTAAACAATACTATCGCAATGTAAACAATACTATCACAAT
Found at i:100483 original size:20 final size:20
Alignment explanation
Indices: 100468--100506 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100458 TATCGCAATG
100468 CGATTTTCAAATTCGCAACA
1 CGATTTTCAAATTCGCAACA
*
100488 TGATTTTCAAATTCGCAAC
1 CGATTTTCAAATTCGCAAC
100507 CTTAATTACC
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
CGATTTTCAAATTCGCAACA
Found at i:100539 original size:77 final size:77
Alignment explanation
Indices: 100447--100639 Score: 207
Period size: 77 Copynumber: 2.5 Consensus size: 77
100437 CTATCACAAT
* ** *
100447 GTAAACAGTACTATCGCAATGCGATTTTCA-AAT-TCGCAACATGATTTTCAAATTCGCAAC-CT
1 GTAAACAATACTATCGCAATG-G-TTAACAGAATATCGCAACACGATTTTCAAATTCGCAACGC-
100509 TAATTACCGATATAG
63 TAATTACCGATATAG
* * **
100524 GTAAACAATACTATCGCAAT-GTTAACAGTACTATCGGAATGCGATTTTCAAATTCGCAACGCTA
1 GTAAACAATACTATCGCAATGGTTAACAG-AATATCGCAACACGATTTTCAAATTCGCAACGCTA
100588 ATTACCGATATAG
65 ATTACCGATATAG
* * *
100601 GTAAACAATATTATCGCAAT-GTAAACAGTACTATCGCAA
1 GTAAACAATACTATCGCAATGGTTAACAG-AATATCGCAA
100640 TGTAAACAGT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
74 4 0.04
75 1 0.01
76 2 0.02
77 93 0.92
78 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (77 bp):
GTAAACAATACTATCGCAATGGTTAACAGAATATCGCAACACGATTTTCAAATTCGCAACGCTAA
TTACCGATATAG
Found at i:100555 original size:20 final size:20
Alignment explanation
Indices: 100527--100564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100517 GATATAGGTA
100527 AACAATACTATCGCAATGTT
1 AACAATACTATCGCAATGTT
* *
100547 AACAGTACTATCGGAATG
1 AACAATACTATCGCAATG
100565 CGATTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
AACAATACTATCGCAATGTT
Found at i:100626 original size:20 final size:20
Alignment explanation
Indices: 100601--100682 Score: 137
Period size: 20 Copynumber: 4.1 Consensus size: 20
100591 ACCGATATAG
* *
100601 GTAAACAATATTATCGCAAT
1 GTAAACAGTACTATCGCAAT
100621 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
100641 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
*
100661 GTAAACAGTACTATTGCAAT
1 GTAAACAGTACTATCGCAAT
100681 GT
1 GT
100683 GATTTTTAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:100645 original size:117 final size:118
Alignment explanation
Indices: 100524--100759 Score: 366
Period size: 117 Copynumber: 2.0 Consensus size: 118
100514 ACCGATATAG
* *
100524 GTAAACAATACTATCGCAATGTTAACAGTACTATCGGAATGCGATTTTCAAATTCGCAACGCTAA
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAA
* *
100589 TTACCGATAT-AGGTAAACAATATTATCGCAATGTAAACAGTACTATCGCAAT
66 TTACCGATATCAGGTAAACAATACTATCGCAATGTAAACAGTAATATCGCAAT
* * * * *
100641 GTAAACAGTACTATCGCAATGTAAACAGTACTATTGCAATGTGATTTTTAAATTCGCAACTCTAA
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAA
* *
100706 TTACCGATATCTGGTAAACAGTACTATCGCAATGTAAACAGTAATATCGCAAT
66 TTACCGATATCAGGTAAACAATACTATCGCAATGTAAACAGTAATATCGCAAT
100759 G
1 G
100760 CGATTTTCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
117 68 0.64
118 39 0.36
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (118 bp):
GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCTAA
TTACCGATATCAGGTAAACAATACTATCGCAATGTAAACAGTAATATCGCAAT
Found at i:100659 original size:77 final size:76
Alignment explanation
Indices: 100495--100647 Score: 213
Period size: 77 Copynumber: 2.0 Consensus size: 76
100485 ACATGATTTT
*
100495 CAAATTCGCAACCTTAATTACCGATATAGGTAAACAATACTATCGCAATGTTAACAGTACTATCG
1 CAAATTCGCAACCTTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATCG
* ***
100560 GAATGCGATTTT
66 CAAT-CGATAAA
*
100572 CAAATTCGCAACGC-TAATTACCGATATAGGTAAACAATATTATCGCAATGTAAACAGTACTATC
1 CAAATTCGCAAC-CTTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATC
100636 GCAAT-G-TAAA
65 GCAATCGATAAA
100646 CA
1 CA
100648 GTACTATCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
74 3 0.04
75 1 0.01
77 64 0.93
78 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (76 bp):
CAAATTCGCAACCTTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTATCG
CAATCGATAAA
Found at i:100744 original size:20 final size:20
Alignment explanation
Indices: 100719--100759 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
100709 CCGATATCTG
*
100719 GTAAACAGTACTATCGCAAT
1 GTAAACAGTAATATCGCAAT
100739 GTAAACAGTAATATCGCAAT
1 GTAAACAGTAATATCGCAAT
100759 G
1 G
100760 CGATTTTCAA
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:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
GTAAACAGTAATATCGCAAT
Found at i:100821 original size:20 final size:20
Alignment explanation
Indices: 100796--100856 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
100786 ACCGATATAG
*
100796 GTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAAT
*
100816 GTAAACAATACTATCGTAAT
1 GTAAACAATACTATCGCAAT
*
100836 GTAAACAACACTATCGCAAT
1 GTAAACAATACTATCGCAAT
100856 G
1 G
100857 CGATTTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (20 bp):
GTAAACAATACTATCGCAAT
Found at i:100831 original size:77 final size:78
Alignment explanation
Indices: 100641--100836 Score: 295
Period size: 78 Copynumber: 2.5 Consensus size: 78
100631 CTATCGCAAT
* * * * *
100641 GTAAACAGTACTATCGCAATGTAAACAGTACTATTGCAATGTGATTTTTAAATTCGCAACTCTAA
1 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
*
100706 TTACCGATATCTG
66 TTACCGATATCAG
* *
100719 GTAAACAGTACTATCGCAATGTAAACAGTAATATCGCAATGCGATTTTCAAATTCGCAACGCGAT
1 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
100784 TTACCGATAT-AG
66 TTACCGATATCAG
* *
100796 GTAAACAGTACTATCGCAATGTAAACAATACTATCGTAATG
1 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATG
100837 TAAACAACAC
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 39 0.36
78 68 0.64
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (78 bp):
GTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
TTACCGATATCAG
Found at i:100851 original size:97 final size:97
Alignment explanation
Indices: 100233--100911 Score: 551
Period size: 97 Copynumber: 7.0 Consensus size: 97
100223 ACCGATACAG
* * * *
100233 GTAAACAGTACTATCGCAATTTTAACAGTACTATCGCAATGCGATTTTCAAAGTCGCAACGCG-A
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
** * ** * * * *
100297 TTTTC-AAATTCG-CAACGCTAATTACCG-ATAT
66 TTACCGATATAGGTAAACACT-ACTATCGCA-AT
* **
100328 AGGTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGTT
1 --GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCG
*
100393 AATTACCGATATAGGTAAACAGTACTATCGCAAT
64 AATTACCGATATAGGTAAACACTACTATCGCAAT
* **
100427 GTAAACAATACTATCACAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACATG-A
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
** * ** * * *
100491 TTTTC-AAATTCG-CAAC-CTTAATTACCG-ATAT
66 TTACCGATATAGGTAAACAC-T-ACTATCGCA-AT
* * *
100522 AGGTAAACAATACTATCGCAATGTTAACAGTACTATCGGAATGCGATTTTCAAATTCGCAACGCT
1 --GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCG
* *
100587 AATTACCGATATAGGTAAACAATATTATCGCAAT
64 AATTACCGATATAGGTAAACACTACTATCGCAAT
* ** *** * * *
100621 GTAAACAGTACTATCGCAATGTAAACAGTACTATCGCAATGTAAACAGT-ACTATT-GCAATGTG
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATG-CGATTTTCA-AATTCGCAACGCG
*** * ** * * * *
100684 -ATT-TTTAAATTCG-CAACTCTAATTACCG-ATATCT
64 AATTACCGATATAGGTAAACACT-ACTATCGCA-A--T
* *
100718 GGTAAACAGTACTATCGCAATGTAAACAGTAATATCGCAATGCGATTTTCAAATTCGCAACGCGA
1 -GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGA
* *
100783 TTTACCGATATAGGTAAACAGTACTATCGCAAT
65 ATTACCGATATAGGTAAACACTACTATCGCAAT
* ** * *
100816 GTAAACAATACTATCGTAATGTAAACAACACTATCGCAATGCGATTTTCAAATTCACAACGCTAA
1 GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
*
100881 TTACCGATATAGGTAAACACAACTATCGCAA
66 TTACCGATATAGGTAAACACTACTATCGCAA
100912 CGCGAATTTC
Statistics
Matches: 460, Mismatches: 95, Indels: 54
0.76 0.16 0.09
Matches are distributed among these distances:
94 10 0.02
95 22 0.05
96 7 0.02
97 310 0.67
98 61 0.13
99 25 0.05
100 20 0.04
101 5 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (97 bp):
GTAAACAATACTATCGCAATGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCAACGCGAA
TTACCGATATAGGTAAACACTACTATCGCAAT
Found at i:100860 original size:77 final size:77
Alignment explanation
Indices: 100641--100862 Score: 207
Period size: 78 Copynumber: 2.9 Consensus size: 77
100631 CTATCGCAAT
* * * * **** * * *
100641 GTAAACAGTACTATCGCAATGTAAACAGTACTATTGCAATGTGATTTTTAAATTCGCAACTCTAA
1 GTAAACAGTACTATCGCAATGTAAACAATAATATCGCAAT-CGATAAACAAATTCGCAACGCGAT
*
100706 TTACCGATATCTG
65 TTACCGATATCAG
* ***
100719 GTAAACAGTACTATCGCAATGTAAACAGTAATATCGCAATGCGATTTTCAAATTCGCAACGCGAT
1 GTAAACAGTACTATCGCAATGTAAACAATAATATCGCAAT-CGATAAACAAATTCGCAACGCGAT
100784 TTACCGATAT-AG
65 TTACCGATATCAG
* * *
100796 GTAAACAGTACTATCGCAATGTAAACAATACTATCGTAAT-G-TAAACAACACTATCGCAATGCG
1 GTAAACAGTACTATCGCAATGTAAACAATAATATCGCAATCGATAAACAA-A-T-TCGCAACGCG
100859 ATTT
63 ATTT
100863 TCAAATTCAC
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
74 4 0.03
75 2 0.02
76 1 0.01
77 51 0.40
78 68 0.54
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (77 bp):
GTAAACAGTACTATCGCAATGTAAACAATAATATCGCAATCGATAAACAAATTCGCAACGCGATT
TACCGATATCAG
Found at i:100947 original size:21 final size:22
Alignment explanation
Indices: 100913--100963 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
100903 CTATCGCAAC
100913 GCGAATTTCCGAAACT-GAGTT
1 GCGAATTTCCGAAACTCGAGTT
** * *
100934 GCGAATTTGTGAAATTCGCGTT
1 GCGAATTTCCGAAACTCGAGTT
100956 GCGAATTT
1 GCGAATTT
100964 AGAAAATCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (22 bp):
GCGAATTTCCGAAACTCGAGTT
Found at i:100976 original size:21 final size:22
Alignment explanation
Indices: 100931--100977 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
100921 CCGAAACTGA
* * *
100931 GTTGCGAATTTGTGAAATTCGC
1 GTTGCGAATTTGAGAAAATCCC
100953 GTTGCGAATTT-AGAAAATCCC
1 GTTGCGAATTTGAGAAAATCCC
100974 GTTG
1 GTTG
100978 TGATTTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (22 bp):
GTTGCGAATTTGAGAAAATCCC
Found at i:110577 original size:187 final size:188
Alignment explanation
Indices: 110237--110610 Score: 538
Period size: 187 Copynumber: 2.0 Consensus size: 188
110227 TTCGAATTTT
*
110237 GTTGTCCCTTGTTCCCATATGTAATGGGGGCAAAGGGAGGTAAGATAGTAGACTGCCCCAACACC
1 GTTGTCCCTTGTTCCCATATGTAATGGGGACAAAGGGAGGTAAGATAGTAGACTGCCCCAACACC
* * *
110302 AGGTTGAGAGCAGCTTCCGTAGAAGACCTCCAAATTATGAAATGCCCTCCGTGGGACTCGATCCT
66 AGGTTGAGAGCAGCTTCC--AGAAGACCTCCAAATTATGAAATGCCCTCCATGAGACTCGATCCC
* * *
110367 ACGACCTCAATGTTAAGAACCTTGTGCTCTAACAACTGAGCTAGATAGTTATCTCAAATG
129 ACGACCTCAAGGTTAAAAACCTTGTGCTCTAACAACTGAGCTAGATAGTCATCTCAAATG
* * * **
110427 GTTGTCCCTTGTTCTCATATGTAAT-GGGATAAGGGGGAGGTAAGATAGTAGGTTGCCCCCAACA
1 GTTGTCCCTTGTTCCCATATGTAATGGGGACAA-AGGGAGGTAAGATAGTAGACTG-CCCCAACA
* *
110491 CTAGGTTGAGAGCAGCTTCC-G-AGACCTCCAAATTATGAAATGTCCTCCATGAGACTCGATCCC
64 CCAGGTTGAGAGCAGCTTCCAGAAGACCTCCAAATTATGAAATGCCCTCCATGAGACTCGATCCC
* * *
110554 ACGACCTCAAGGTTAAAAACCTTGTGCTCTACCAACTGAGCTGGATGGTCATCTCAA
129 ACGACCTCAAGGTTAAAAACCTTGTGCTCTAACAACTGAGCTAGATAGTCATCTCAA
110611 TAGTTCGAAT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
187 89 0.54
188 1 0.01
189 5 0.03
190 43 0.26
191 27 0.16
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (188 bp):
GTTGTCCCTTGTTCCCATATGTAATGGGGACAAAGGGAGGTAAGATAGTAGACTGCCCCAACACC
AGGTTGAGAGCAGCTTCCAGAAGACCTCCAAATTATGAAATGCCCTCCATGAGACTCGATCCCAC
GACCTCAAGGTTAAAAACCTTGTGCTCTAACAACTGAGCTAGATAGTCATCTCAAATG
Found at i:111138 original size:17 final size:17
Alignment explanation
Indices: 111118--111150 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
111108 GTATATTTTA
111118 ATTATTTTTATAAATAT
1 ATTATTTTTATAAATAT
*
111135 ATTATTTTTATCAATA
1 ATTATTTTTATAAATA
111151 CGTTTGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTTTTATAAATAT
Done.