Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 304 of 313
Found at i:93353943 original size:23 final size:23
Alignment explanation
Indices: 93353919--93354001 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
93353909 TGTCAAAAAG
* * *
93353919 GCCAAACAGAATACGCCACGCAG
1 GCCAAACAAAATACGCCACACAA
*
93353942 GCCATACAAAATACGCCACACAA
1 GCCAAACAAAATACGCCACACAA
* *
93353965 GCCAAACAAAATATGCCACAAAA
1 GCCAAACAAAATACGCCACACAA
*
93353988 GCCAAACAGAATAC
1 GCCAAACAAAATAC
93354002 TCCATAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.48, C:0.31, G:0.13, T:0.07
Consensus pattern (23 bp):
GCCAAACAAAATACGCCACACAA
Found at i:93356355 original size:40 final size:41
Alignment explanation
Indices: 93356306--93356386 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
93356296 TTTTTTTAAA
93356306 AAAATATAATTTTTATA-TCTTTTTAATAGTTTTT-AAATTTT
1 AAAATATAATTTTTATACT-TTTTTAA-AGTTTTTAAAATTTT
*
93356347 AAAA-ATAATTTTTATACTTTTTTAAATTTTTTAAAATTTT
1 AAAATATAATTTTTATACTTTTTTAAAGTTTTTAAAATTTT
93356387 GAAAGTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
39 6 0.16
40 26 0.70
41 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (41 bp):
AAAATATAATTTTTATACTTTTTTAAAGTTTTTAAAATTTT
Found at i:93366843 original size:19 final size:19
Alignment explanation
Indices: 93366819--93366859 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
93366809 ATTTAATCTT
93366819 AATTCTAATAAAATTATAA
1 AATTCTAATAAAATTATAA
* *
93366838 AATTCTCATAAAATTTTAA
1 AATTCTAATAAAATTATAA
93366857 AAT
1 AAT
93366860 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCTAATAAAATTATAA
Found at i:93371918 original size:17 final size:17
Alignment explanation
Indices: 93371896--93371934 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
93371886 TATTGAGGTT
93371896 AAATATAA-ATATTAATA
1 AAATATAATATA-TAATA
*
93371913 AAATATAATATATATTA
1 AAATATAATATATAATA
93371930 AAATA
1 AAATA
93371935 ATTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATATATAATA
Found at i:93374470 original size:13 final size:13
Alignment explanation
Indices: 93374454--93374519 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
93374444 TTTAAACCAA
93374454 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
93374467 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
* *
93374480 ACTTTTTC-ACATC
1 AC-TTTTCAAAAGC
*
93374493 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
93374506 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
93374519 A
1 A
93374520 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 5 0.12
13 33 0.79
14 4 0.10
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:93375651 original size:76 final size:77
Alignment explanation
Indices: 93375571--93375776 Score: 202
Period size: 76 Copynumber: 2.7 Consensus size: 77
93375561 TTTTCGTTGG
* * * *
93375571 CAAATATTTTATTTAACCCAACTTTTTTTGTATTGCCTTTATCTTCTCATGATTTATCCCAACCT
1 CAAATATTTGATCTAACCCAACTTTTTTTGTATTGCCTTTGTCTTCTCATGATTTATACCAACCT
93375636 CCTTATT-TTAA
66 CCTTATTGTTAA
** * * * *
93375647 CAAATATTTGGCCTAACCCAACCTTTTTT-AAGTTGCCTTTGT-TTGCTCTTGATTTATACCAAT
1 CAAATATTTGATCTAACCCAACTTTTTTTGTA-TTGCCTTTGTCTT-CTCATGATTTATACCAAC
* ** * *
93375710 TTTTTTTTTGTTGA
64 CTCCTTATTGTTAA
* * *
93375724 CAAATATTTGATCTAACCTAACCTTTTTTTGTATTGTCTTTGTCTGCTCATGA
1 CAAATATTTGATCTAACCCAA-CTTTTTTTGTATTGCCTTTGTCTTCTCATGA
93375777 ACTATTATTA
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
75 3 0.03
76 53 0.52
77 21 0.21
78 22 0.22
79 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (77 bp):
CAAATATTTGATCTAACCCAACTTTTTTTGTATTGCCTTTGTCTTCTCATGATTTATACCAACCT
CCTTATTGTTAA
Found at i:93378989 original size:39 final size:39
Alignment explanation
Indices: 93378958--93379046 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
93378948 GTTATGATTT
*
93378958 TTATTAATTTATATTTTAATAATAATTATGTTAAGAATG
1 TTATTAAATTATATTTTAATAATAATTATGTTAAGAATG
* *
93378997 TTATTAAATTGTA-TTTAATTAATAATTATGTTAA-AATA
1 TTATTAAATTATATTTTAA-TAATAATTATGTTAAGAATG
*
93379035 TGATTAAATTAT
1 TTATTAAATTAT
93379047 TTGTTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 18 0.41
39 26 0.59
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (39 bp):
TTATTAAATTATATTTTAATAATAATTATGTTAAGAATG
Found at i:93379041 original size:38 final size:38
Alignment explanation
Indices: 93378972--93379044 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
93378962 TAATTTATAT
* *
93378972 TTTAATAATAATTATGTTAAGAATGTTATTAAATTGTA
1 TTTAATAATAATTATGTTAAGAATATGATTAAATTGTA
93379010 TTTAATTAATAATTATGTTAA-AATATGATTAAATT
1 TTTAA-TAATAATTATGTTAAGAATATGATTAAATT
93379045 ATTTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 17 0.53
39 15 0.47
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (38 bp):
TTTAATAATAATTATGTTAAGAATATGATTAAATTGTA
Found at i:93379753 original size:2 final size:2
Alignment explanation
Indices: 93379746--93379774 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93379736 CTTACACCCT
93379746 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
93379775 TTAATGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:93380443 original size:42 final size:42
Alignment explanation
Indices: 93380384--93380489 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
93380374 AAATTAGGTT
93380384 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
93380426 TAATATCATAAAAATTAAAATGGGATGAAATGATTAAGTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
93380468 TAATAATGATAATAA-TAAAATA
1 TAAT-ATCATAAAAATTAAAATA
93380490 TTAAAATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 50 0.86
43 8 0.14
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (42 bp):
TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
Found at i:93387151 original size:18 final size:18
Alignment explanation
Indices: 93387128--93387220 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
93387118 CCCAACTACT
*
93387128 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
93387146 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
93387164 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
93387182 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
93387200 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
93387218 GTA
1 GTA
93387221 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:93387180 original size:36 final size:36
Alignment explanation
Indices: 93387128--93387220 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
93387118 CCCAACTACT
*
93387128 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
93387164 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
93387200 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
93387221 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:93387805 original size:22 final size:21
Alignment explanation
Indices: 93387753--93387806 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
93387743 TTGACCTTTC
*
93387753 CAAGGGATGGGTAGGTATGGA
1 CAAGGGATGGGAAGGTATGGA
* * * *
93387774 AAATGTATGGGCAAGGTATGGG
1 CAAGGGATGGG-AAGGTATGGA
93387796 CAAGGGATGGG
1 CAAGGGATGGG
93387807 TATATTCTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.19
Consensus pattern (21 bp):
CAAGGGATGGGAAGGTATGGA
Found at i:93391680 original size:17 final size:17
Alignment explanation
Indices: 93391655--93391692 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
93391645 GTTATGTGAA
93391655 AAATCAAA-TAAAAAATT
1 AAATCAAATTAAAAAA-T
*
93391672 AAATTAAATTAAAAAAT
1 AAATCAAATTAAAAAAT
93391689 AAAT
1 AAAT
93391693 AAGCATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATCAAATTAAAAAAT
Found at i:93392184 original size:29 final size:30
Alignment explanation
Indices: 93392152--93392215 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
93392142 ATAGTTCAAA
*
93392152 TACTACATT-AGATATTT-TCAAAGTACAAG
1 TACTACATTGA-ACATTTATCAAAGTACAAG
* *
93392181 TACTACATTGAACATTTATGAAAGTACATG
1 TACTACATTGAACATTTATCAAAGTACAAG
93392211 TACTA
1 TACTA
93392216 AATGTGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (30 bp):
TACTACATTGAACATTTATCAAAGTACAAG
Found at i:93397428 original size:27 final size:28
Alignment explanation
Indices: 93397344--93397441 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
93397334 CATGAGATTG
* * * *
93397344 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
93397373 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
93397401 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
93397428 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
93397442 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:93397452 original size:27 final size:27
Alignment explanation
Indices: 93397372--93397454 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
93397362 TAAATTGTAC
* *
93397372 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
93397400 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
93397427 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
93397454 A
1 A
93397455 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:93397455 original size:29 final size:27
Alignment explanation
Indices: 93397344--93397455 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
93397334 CATGAGATTG
** * *
93397344 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
93397373 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
93397401 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
93397428 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
93397456 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:93405922 original size:12 final size:12
Alignment explanation
Indices: 93405905--93405931 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93405895 ATTCCGAAGT
93405905 ATATATATATAC
1 ATATATATATAC
93405917 ATATATATATAC
1 ATATATATATAC
93405929 ATA
1 ATA
93405932 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:93406462 original size:27 final size:28
Alignment explanation
Indices: 93406378--93406475 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
93406368 CATGAGATTG
* * * *
93406378 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
93406407 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
93406435 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
93406462 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
93406476 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:93406486 original size:27 final size:27
Alignment explanation
Indices: 93406406--93406488 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
93406396 TAAATTGTAC
* *
93406406 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
93406434 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
93406461 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
93406488 A
1 A
93406489 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:93406489 original size:29 final size:27
Alignment explanation
Indices: 93406378--93406489 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
93406368 CATGAGATTG
** * *
93406378 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
93406407 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
93406435 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
93406462 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
93406490 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:93412219 original size:14 final size:14
Alignment explanation
Indices: 93412200--93412226 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93412190 TATTCCTAAA
93412200 TTGTTTTATAAAGG
1 TTGTTTTATAAAGG
93412214 TTGTTTTATAAAG
1 TTGTTTTATAAAG
93412227 AATTACCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TTGTTTTATAAAGG
Found at i:93413170 original size:9 final size:9
Alignment explanation
Indices: 93413145--93413179 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
93413135 AGAAGAGACT
93413145 GAGAGAGA-
1 GAGAGAGAG
93413153 GAGAGAGAG
1 GAGAGAGAG
*
93413162 GACAGAGAG
1 GAGAGAGAG
93413171 GAGAGAGAG
1 GAGAGAGAG
93413180 CATTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (9 bp):
GAGAGAGAG
Found at i:93413829 original size:3 final size:3
Alignment explanation
Indices: 93413823--93413905 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
93413813 TATTTATTAT
93413823 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
93413871 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
93413906 TTATTATCAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:93413996 original size:38 final size:39
Alignment explanation
Indices: 93413953--93414036 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
93413943 TATTCTTTTC
* * *
93413953 TTTATTTGCTTATTTTC-AATTTTTTT-TATTTTTTTGTT
1 TTTATTTGCTTATTTACTAATTTTTTTATAATTTGTTG-T
* *
93413991 TTTATTTGTTTATTTACTTATTTTTTTATAATTTGTTGT
1 TTTATTTGCTTATTTACTAATTTTTTTATAATTTGTTGT
93414030 TTTATTT
1 TTTATTT
93414037 TTATTCTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 15 0.38
39 16 0.41
40 8 0.21
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (39 bp):
TTTATTTGCTTATTTACTAATTTTTTTATAATTTGTTGT
Found at i:93414096 original size:38 final size:38
Alignment explanation
Indices: 93414029--93414104 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
93414019 TAATTTGTTG
* *
93414029 TTTTATTTTTATTCTATTTCTTTTATTATTTATCTTAT
1 TTTTATTTTTATTCTACTTCTTTTATTATTTATATTAT
*
93414067 TTTTAATTTTT-TTCT-CTTCTTATTGTTATTTATATTAT
1 TTTT-ATTTTTATTCTACTTCTT-TTATTATTTATATTAT
93414105 CGCATTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 5 0.15
38 22 0.67
39 6 0.18
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.72
Consensus pattern (38 bp):
TTTTATTTTTATTCTACTTCTTTTATTATTTATATTAT
Found at i:93420367 original size:20 final size:19
Alignment explanation
Indices: 93420329--93420368 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
93420319 CATATGAAGT
*
93420329 AGATTTCCTGGTGATGGAC
1 AGATTTCCTGCTGATGGAC
93420348 AGATTTCCTGCTGNATGGAC
1 AGATTTCCTGCTG-ATGGAC
93420368 A
1 A
93420369 TTAAGCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.30
Consensus pattern (19 bp):
AGATTTCCTGCTGATGGAC
Found at i:93420824 original size:58 final size:58
Alignment explanation
Indices: 93420744--93420859 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
93420734 TTCTGATGGA
* * *
93420744 TAAACGAAGAAAAAGTTAGAGAAGAAGTAGAAAAGGAGAAGAGCACGATTAAGTGAAG
1 TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
* * * *
93420802 TAAAAGAAGAAAGAGTTGGAGAAGAAGCAGAAAATGAGAAGAGTACGATTAAGCGAAG
1 TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
93420860 AAGAAGTCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.53, C:0.05, G:0.30, T:0.12
Consensus pattern (58 bp):
TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
Found at i:93425738 original size:44 final size:44
Alignment explanation
Indices: 93425643--93425741 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
93425633 AGTTATTATG
* * *
93425643 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCC
1 GCGAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGAC
* * ** * * *
93425687 ACTAATCTTATCTCCCTAAAGTTACAGTAGAGTATATTGAGGAT
1 GCGAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGAC
93425731 GCGAATCTTAT
1 GCGAATCTTAT
93425742 TTCCTTGAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGAC
Found at i:93426077 original size:140 final size:133
Alignment explanation
Indices: 93425878--93426234 Score: 387
Period size: 140 Copynumber: 2.6 Consensus size: 133
93425868 CTAAAACCAT
* **
93425878 AAACCTTATCTCCCTGAAGTTATAATGGAGCAGGTTGAAACGACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
* * * *
93425943 GCAATGGAGCAGA-CTGAAGATAGCGAATCTTATTTCCCTGAAGTT-ACAGTAGAACAGATTAAA
66 GCAGTGGAGCAGATC-GAAGATAGCAAATCTTATCTCCCTAAAGTTGA-AGTAGAACAGA-TAAA
*
93426006 GCTGCAAATTAC
128 -AT-C----TAC
* * * *
93426018 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTA-TAGATCTTATCTCCCTGAAGG
1 AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAG-TCTTATCTCCCTGAAGT
* * * * *
93426082 TGCAGTGGAGTAGATCGAATATAGCAAATCTTATCTCTCTAAAGTTGAGGTAGACCAGATAAAAT
65 TGCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTAGAACAGATAAAAT
*
93426147 CTAT
130 CTAC
* * * *
93426151 AAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCGGAAGTT
1 AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
* *
93426216 GCAGTGGAGTAAATCGAAG
66 GCAGTGGAGCAGATCGAAG
93426235 CGACAATTTC
Statistics
Matches: 185, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
133 73 0.39
134 2 0.01
137 1 0.01
138 1 0.01
139 6 0.03
140 100 0.54
141 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTAGAACAGATAAAATC
TAC
Found at i:93426225 original size:44 final size:44
Alignment explanation
Indices: 93426011--93426226 Score: 195
Period size: 44 Copynumber: 4.9 Consensus size: 44
93426001 TTAAAGCTGC
* *
93426011 AAATTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTG
1 AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
* * * * *
93426055 AAATTATAGATCTTATCTCCCTGAAGGTGCAGTGGAGTAGATCG
1 AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
* * * ** * *
93426099 -AATATAGCAAATCTTATCTCTCTAAAGTTG-AGGTAGACCA-GATA
1 AAAT-TA-CAAATCTTATCTCCCTGAAGTTGCA-GTGGAGTAGGTTG
* * *
93426143 AAATCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTG
1 AAAT-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
* * *
93426188 AAGTTACAAGTCTTATCTCCCGGAAGTTGCAGTGGAGTA
1 AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTA
93426227 AATCGAAGCG
Statistics
Matches: 131, Mismatches: 35, Indels: 12
0.74 0.20 0.07
Matches are distributed among these distances:
43 3 0.02
44 94 0.72
45 34 0.26
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
Found at i:93426452 original size:21 final size:18
Alignment explanation
Indices: 93426427--93426471 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
93426417 TGGCCGAAAT
93426427 AATAAATAAAACCCAAAACCA
1 AATAAATAAAA-CCAAAA--A
*
93426448 AATAAGTAAAACCAAAAA
1 AATAAATAAAACCAAAAA
93426466 AATAAA
1 AATAAA
93426472 AAGTCCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.71, C:0.16, G:0.02, T:0.11
Consensus pattern (18 bp):
AATAAATAAAACCAAAAA
Found at i:93427572 original size:23 final size:22
Alignment explanation
Indices: 93427527--93427572 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
93427517 CAACCAATCC
*
93427527 AATTCAACATATTTTCAAGATA
1 AATTCAACATATTTTCAAAATA
93427549 AATTCATACATATTTAT-AAAATA
1 AATTCA-ACATATTT-TCAAAATA
93427572 A
1 A
93427573 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTCAACATATTTTCAAAATA
Found at i:93429914 original size:918 final size:916
Alignment explanation
Indices: 93427830--93430108 Score: 4076
Period size: 917 Copynumber: 2.5 Consensus size: 916
93427820 TTAACAAGAA
93427830 TTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTCAATGCA
1 TTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTCAATGCA
*
93427895 TTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAATAATTTCCATGTACCAATAAT
66 TTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGTACCAATAAT
93427960 ATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTTTTCCATATTT
131 ATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTTTTCCATATTT
*
93428025 ATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACAATTCCGG
196 ATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACATTTCC-G
* * *
93428090 GTCCGTCAATTCATATTCATGTGCGCACATATCCATTTCAAAGAGCACACTCCCGCGAACCTCAA
260 GTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCAA
93428155 CCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCGG
325 CCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCGG
93428220 GATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTAC
390 GATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTAC
* *
93428285 CAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCGGGCTAAATCCATTTTCCACATA
455 CAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCAGGCGAAATCCATTTTCCACATA
*
93428350 TTCTTCGGGAGGGCTATATCAGGATAAGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCAATT
520 TTCTTCGAGAGGGCTATATCAGGATAAGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCAATT
* * *
93428415 TCTTTTCACAGATCCATCGAATTTTCCTTTCATTCAACCGGGATTTCTTCCCATTTTATCAAATA
585 CCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCATTTTATCAAATA
*
93428480 TATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATCAAAAACATGCAT
650 TATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATGCAT
*
93428545 TTCAAGCATTTAAGAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAAAA
715 TTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAAAA
*
93428610 AAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGGATC
780 AAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGGATC
93428675 TAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATT
845 TAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATT
93428740 CAACTAT
910 CAACTAT
* *
93428747 TTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATTTATCAATTCAATGCA
1 TTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTCAATGCA
*
93428812 TTATTACCCTAATATGCACAAACTCAACATTCAGGTTAGTACAAAAATTTCCATGTACCAATAAT
66 TTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGTACCAATAAT
* * * *
93428877 ATATACCATGATT-AGTGAACTCCTCAATATCATGATTTCCATTTCCTTGTTATTTTTTCATATT
131 ATATACCATGATTGA-TGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTTTTCCATATT
*
93428941 TATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTAGATTTCCT
195 TATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACATTTCC-
* *
93429006 GGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCTCGCTAACCTCA
259 GGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCA
* * * *
93429071 ACCGTGCAGTGGGATTACCAATCCAGGCTAAATCCCCTGCAATATAAACTTATAGAGTATTGTCG
324 ACCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
* * * * * *
93429136 TGATTACCAGTCTAGGCCAAATCCCCTGCAACGATAATTACTCTAATGAGCTTGTATCTGACTTA
389 GGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTA
* *
93429201 CCAGTCCAGGCTAAATTCAGATCCTAATTCGGATTACCCGTCCAGGCGAAATCCATTTTCTACAT
454 CCAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCAGGCGAAATCCATTTTCCACAT
*
93429266 ATTCTTCGAGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCAAT
519 ATTCTTCGAGAGGGCTATATCAGGATAAGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCAAT
* *
93429331 TCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACTGGGATTTCTTCCCCTTTTATCAAAT
584 TCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCATTTTATCAAAT
*
93429396 ATATCAATGTTTCATAAATTTCTATATAATGAACATTCAAATCATATTCATATAAAAAAACATGC
649 ATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATAT-AAAAAACATGC
93429461 ATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAA
713 ATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAA
93429526 AAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGGA
778 AAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGGA
93429591 TCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAA
843 TCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAA
93429656 TTCAACTAT
908 TTCAACTAT
*
93429665 TTATACTTACCTCATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTCAATGCA
1 TTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTCAATGCA
93429730 TTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGTACCAATAAT
66 TTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGTACCAATAAT
*
93429795 ATATACCATGATTGATGAGCTCATCAATACCATTATTTCCATTTCCTTGTTATTTTTCCATATTT
131 ATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTTTTCCATATTT
*
93429860 ATGCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACATTTCCGA
196 ATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACATTTCCG-
*
93429925 GTCCGTGAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACAC-CCCTGCGAACCTCA
260 GTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCC-GCGAACCTCA
* *
93429989 ACCTTGCAGCGGGATTACTAGTCGAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
324 ACCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
93430054 GGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGG
389 GGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGG
93430109 CTTACAGCAC
Statistics
Matches: 1291, Mismatches: 66, Indels: 9
0.95 0.05 0.01
Matches are distributed among these distances:
916 1 0.00
917 665 0.52
918 624 0.48
919 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (916 bp):
TTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCCATTCAATGCA
TTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATGTACCAATAAT
ATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTTTTCCATATTT
ATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGTACATTTCCGG
TCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCAAC
CTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCGGG
ATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTACC
AGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCAGGCGAAATCCATTTTCCACATAT
TCTTCGAGAGGGCTATATCAGGATAAGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCAATTC
CTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGGGATTTCTTCCCATTTTATCAAATAT
ATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATGCATT
TCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACAAAAA
AAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGGATCT
AAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATAATTC
AACTAT
Found at i:93431276 original size:3 final size:3
Alignment explanation
Indices: 93431268--93431301 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
93431258 CTCTACTTAT
*
93431268 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
93431302 CATTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:93431458 original size:16 final size:16
Alignment explanation
Indices: 93431437--93431480 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
93431427 ATTATTTATC
93431437 TTATTTTTATTTCTTA
1 TTATTTTTATTTCTTA
*
93431453 TTATTTTT-TGCTCTTA
1 TTATTTTTAT-TTCTTA
*
93431469 TTATTGTTATTT
1 TTATTTTTATTT
93431481 ATATTATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (16 bp):
TTATTTTTATTTCTTA
Found at i:93432462 original size:13 final size:13
Alignment explanation
Indices: 93432439--93432489 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
93432429 AGTTCTTCAT
*
93432439 TGCTTTTGAAAAG
1 TGCTTTGGAAAAG
*
93432452 TGCTGTGGAAAAG
1 TGCTTTGGAAAAG
* *
93432465 TGCTTTTGAGAAG
1 TGCTTTGGAAAAG
93432478 TGCTTTGGAAAA
1 TGCTTTGGAAAA
93432490 ATTTAAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (13 bp):
TGCTTTGGAAAAG
Found at i:93432478 original size:26 final size:26
Alignment explanation
Indices: 93432439--93432489 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
93432429 AGTTCTTCAT
93432439 TGCTTTTGAAAAGTGCTGTGGAAAAG
1 TGCTTTTGAAAAGTGCTGTGGAAAAG
* *
93432465 TGCTTTTGAGAAGTGCTTTGGAAAA
1 TGCTTTTGAAAAGTGCTGTGGAAAA
93432490 ATTTAAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTGTGGAAAAG
Found at i:93443229 original size:30 final size:28
Alignment explanation
Indices: 93443165--93443229 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
93443155 TACCACATTG
*
93443165 GACATTTTCAAAGTACAATTACAATATT
1 GACATTTTAAAAGTACAATTACAATATT
*
93443193 GAACATTTATAAAAGTACATTTACTAA-ATGT
1 G-ACATTT-TAAAAGTACAATTAC-AATAT-T
93443224 GACATT
1 GACATT
93443230 ATCTCGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 6 0.19
30 20 0.65
31 4 0.13
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (28 bp):
GACATTTTAAAAGTACAATTACAATATT
Found at i:93456626 original size:40 final size:40
Alignment explanation
Indices: 93456543--93456765 Score: 168
Period size: 40 Copynumber: 5.6 Consensus size: 40
93456533 TTGAATGCTG
* * * * *
93456543 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
93456583 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
93456623 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * **
93456663 TCC-GAGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGA-CTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
93456703 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
93456742 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
93456766 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.23
40 110 0.70
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:93456680 original size:80 final size:79
Alignment explanation
Indices: 93456543--93456767 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 79
93456533 TTGAATGCTG
* * * * * * * *
93456543 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCG-GACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGAG-CTAAG-TCCCGAAGGCAT
93456606 TTGTGCGAGATACTAAA
63 TTGTGCGAGATACTAAA
* * * *
93456623 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGAGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATTT
* **
93456688 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
93456703 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATTTG
93456768 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 35 0.29
80 82 0.67
81 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:93466738 original size:69 final size:70
Alignment explanation
Indices: 93466606--93466738 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
93466596 TAGTTTATTA
* * * * * *
93466606 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCGAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
93466671 CTTAG
66 CTTAG
93466676 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
93466739 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:93468588 original size:48 final size:48
Alignment explanation
Indices: 93468517--93468756 Score: 399
Period size: 48 Copynumber: 5.0 Consensus size: 48
93468507 CACAAGATTA
93468517 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
93468565 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
93468613 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
93468663 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
93468711 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
93468757 GGAGGTGTGG
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 135 0.74
49 4 0.02
50 43 0.24
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:93468772 original size:98 final size:96
Alignment explanation
Indices: 93468517--93468756 Score: 399
Period size: 98 Copynumber: 2.5 Consensus size: 96
93468507 CACAAGATTA
93468517 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
93468582 AAAGCCGAATGGCTAATGTGAAATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATGTATG
* *
93468613 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTG
*
93468678 GTAAAGCCGAATGGCTAGTGTGAAATATGTATG
64 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
93468711 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
93468757 GGAGGTGTGG
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
96 41 0.31
97 4 0.03
98 88 0.66
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:93468947 original size:37 final size:37
Alignment explanation
Indices: 93468892--93469006 Score: 221
Period size: 37 Copynumber: 3.1 Consensus size: 37
93468882 ACATGAAACT
93468892 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
*
93468929 TGGAAATATATTCTGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
93468966 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
93469003 TGGA
1 TGGA
93469007 GATTTCATCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:93472348 original size:40 final size:40
Alignment explanation
Indices: 93472304--93472405 Score: 186
Period size: 40 Copynumber: 2.5 Consensus size: 40
93472294 AACCAAGTAG
*
93472304 CTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
*
93472344 CTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
93472384 CTTCGGGACTTAGCCCGGTTAT
1 CTTCGGGACTTAGCCCGGTTAT
93472406 CATCCGAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
Found at i:93479683 original size:308 final size:308
Alignment explanation
Indices: 93479116--93479734 Score: 1161
Period size: 308 Copynumber: 2.0 Consensus size: 308
93479106 TTCATATGAC
*
93479116 TAAACGAATAATTTCATATATACATATTCTCACAATCATACCTACTTCACATTTCCAACCCTTAT
1 TAAACGAATAATTTCATATACACATATTCTCACAATCATACCTACTTCACATTTCCAACCCTTAT
*
93479181 ATTCATCCATAAGGAATCAACTTGACTAAAGGCCGGAAGCTTGTTAATCGATTGAGCGAATACTA
66 ATTCATACATAAGGAATCAACTTGACTAAAGGCCGGAAGCTTGTTAATCGATTGAGCGAATACTA
93479246 TTTAAAAGGAATCATTATTCCAATGCATATACAAAACATACCTCATCGTTGGGGTTTTATGAGCA
131 TTTAAAAGGAATCATTATTCCAATGCATATACAAAACATACCTCATCGTTGGGGTTTTATGAGCA
* *
93479311 TATTAATTGAAATTATTACAGCAAGATTGCTCATTCCCAAACCAAGTAGCTTCGAGATTTAGCCC
196 TATTAATTGAAATTATTACAGCAAGATTGCTCATTCCCAAACCAAATAGCTTCGAGACTTAGCCC
93479376 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
261 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
93479424 TAAACGAATAATTTCATATACACATATTCTCACAATCATACCTACTTCACATTTCCAACCCTTAT
1 TAAACGAATAATTTCATATACACATATTCTCACAATCATACCTACTTCACATTTCCAACCCTTAT
93479489 ATTCATACATAAGGAATCAACTTGACTAAAGGCCGGAAGCTTGTTAATCGATTGAGCGAATACTA
66 ATTCATACATAAGGAATCAACTTGACTAAAGGCCGGAAGCTTGTTAATCGATTGAGCGAATACTA
93479554 TTTAAAAGGAATCATTATTCCAATGCATATACAAAACATACCTCATCGTTGGGGTTTTATGAGCA
131 TTTAAAAGGAATCATTATTCCAATGCATATACAAAACATACCTCATCGTTGGGGTTTTATGAGCA
*
93479619 TATTAATTGAAATTATTACAGCAAGATTGCTCATTCCCAAGA-CAAAT-GCCTTCGGGACTTAGC
196 TATTAATTGAAATTATTACAGCAAGATTGCTCATTCCCAA-ACCAAATAG-CTTCGAGACTTAGC
93479682 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
259 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
93479732 TAA
1 TAA
93479735 CTCGCACAAA
Statistics
Matches: 304, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
307 1 0.00
308 302 0.99
309 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (308 bp):
TAAACGAATAATTTCATATACACATATTCTCACAATCATACCTACTTCACATTTCCAACCCTTAT
ATTCATACATAAGGAATCAACTTGACTAAAGGCCGGAAGCTTGTTAATCGATTGAGCGAATACTA
TTTAAAAGGAATCATTATTCCAATGCATATACAAAACATACCTCATCGTTGGGGTTTTATGAGCA
TATTAATTGAAATTATTACAGCAAGATTGCTCATTCCCAAACCAAATAGCTTCGAGACTTAGCCC
GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
Found at i:93479715 original size:40 final size:40
Alignment explanation
Indices: 93479660--93479769 Score: 202
Period size: 40 Copynumber: 2.8 Consensus size: 40
93479650 CATTCCCAAG
93479660 ACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGC
1 ACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGC
93479700 ACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGC
1 ACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGC
* *
93479740 ACAAATGCCTTTGGGACTTTGCCCGGTTAT
1 ACAAATGCCTTCGGGACTTAGCCCGGTTAT
93479770 CATCCGAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
ACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGC
Found at i:93482114 original size:28 final size:28
Alignment explanation
Indices: 93482074--93482180 Score: 135
Period size: 28 Copynumber: 3.8 Consensus size: 28
93482064 GCAATCAAAT
* *
93482074 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
93482102 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
93482130 ATGGCACTTAGTGTGC-AAGATATTGAGA
1 ATGGCACTTAGTGTACGAA-ATATTGAGA
* * * *
93482158 ATGACACTTCGTGTCCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
93482181 CGAATGATTC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 67 0.94
29 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:93482443 original size:41 final size:40
Alignment explanation
Indices: 93482353--93482500 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 40
93482343 TGGGCTTCGG
* *
93482353 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTAA
1 GCCTAGCAGGC-AAAATGCCGGTG-AATGAT-TCGGGCTTAAA
* *
93482396 GCCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCAAAATGCCGGTGAATGA-TTCGGGCTTAAA
* **** *
93482437 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCAAAATGCCGGTGAATG-ATTCGGGCTTAAA
* *
93482477 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCAAAATGCCGGTGA
93482501 TTTGATAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
40 30 0.35
41 32 0.38
42 12 0.14
43 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
GCCTAGCAGGCAAAATGCCGGTGAATGATTCGGGCTTAAA
Found at i:93482501 original size:40 final size:41
Alignment explanation
Indices: 93482353--93482500 Score: 149
Period size: 40 Copynumber: 3.6 Consensus size: 41
93482343 TGGGCTTCGG
93482353 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTT-AA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGG-TTTAAA
* * * **
93482396 GCCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
* ***
93482437 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
*
93482477 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
93482501 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
40 33 0.40
41 27 0.33
42 11 0.13
43 12 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
Found at i:93484465 original size:18 final size:18
Alignment explanation
Indices: 93484439--93484473 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93484429 TCGTAACATT
*
93484439 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
93484457 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
93484474 CATCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:93485363 original size:26 final size:26
Alignment explanation
Indices: 93485305--93485414 Score: 179
Period size: 26 Copynumber: 4.3 Consensus size: 26
93485295 GATAAATTGT
*
93485305 GCCCTTTT-GATAAACTGGGGCA-AA
1 GCCCTTTTCAATAAACTGGGGCATAA
*
93485329 GCCCTTTTCATTAAACTGGGGCATAA
1 GCCCTTTTCAATAAACTGGGGCATAA
93485355 GCCCTTTTCAATAAACTGGGGCATAA
1 GCCCTTTTCAATAAACTGGGGCATAA
*
93485381 GCCCTTTTCAATAAACTAGGGCATAA
1 GCCCTTTTCAATAAACTGGGGCATAA
93485407 GCCCTTTT
1 GCCCTTTT
93485415 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 8 0.10
25 12 0.15
26 60 0.75
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
GCCCTTTTCAATAAACTGGGGCATAA
Found at i:93485495 original size:11 final size:11
Alignment explanation
Indices: 93485464--93485539 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
93485454 TTATGAATAC
93485464 ATCATGTGCAT
1 ATCATGTGCAT
* *
93485475 TTCA--TACAT
1 ATCATGTGCAT
93485484 ATCATGTGCAT
1 ATCATGTGCAT
*
93485495 ATCA--TACAT
1 ATCATGTGCAT
*
93485504 GTCATGTGCAT
1 ATCATGTGCAT
*
93485515 ATCA--TACAT
1 ATCATGTGCAT
*
93485524 GTCATGTGCAT
1 ATCATGTGCAT
93485535 ATCAT
1 ATCAT
93485540 ATCAACCATG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 21 0.45
11 26 0.55
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:93485549 original size:25 final size:24
Alignment explanation
Indices: 93485492--93485550 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 24
93485482 ATATCATGTG
93485492 CATATCATACATGTCATGTGCATAT
1 CATATCA-ACATGTCATGTGCATAT
93485517 C--AT--ACATGTCATGTGCATAT
1 CATATCAACATGTCATGTGCATAT
93485537 CATATCAACCATGT
1 CATATCAA-CATGT
93485551 ATATCATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
20 18 0.62
22 2 0.07
23 2 0.07
24 1 0.03
25 6 0.21
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (24 bp):
CATATCAACATGTCATGTGCATAT
Found at i:93485550 original size:20 final size:20
Alignment explanation
Indices: 93485464--93485540 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
93485454 TTATGAATAC
*
93485464 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
93485484 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93485504 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93485524 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
93485541 TCAACCATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:93485550 original size:40 final size:40
Alignment explanation
Indices: 93485466--93485558 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
93485456 ATGAATACAT
* **
93485466 CATGTGCATTTCATACATATCATGTGCATATCATACATGT
1 CATGTGCATATCATACATATCATGTGCATATCATACATAC
*
93485506 CATGTGCATATCATACATGTCATGTGCATATCATATCA-AC
1 CATGTGCATATCATACATATCATGTGCATATCATA-CATAC
93485546 CATGT--ATATCATA
1 CATGTGCATATCATA
93485559 TCCCATGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 8 0.17
40 38 0.79
41 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (40 bp):
CATGTGCATATCATACATATCATGTGCATATCATACATAC
Found at i:93485566 original size:16 final size:17
Alignment explanation
Indices: 93485533--93485568 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
93485523 TGTCATGTGC
93485533 ATATCATATCAACCATGT
1 ATATCATATC-ACCATGT
93485551 ATATCATATC-CCATGT
1 ATATCATATCACCATGT
93485567 AT
1 AT
93485569 CAAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATCATATCACCATGT
Found at i:93491272 original size:18 final size:18
Alignment explanation
Indices: 93491246--93491280 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93491236 TCGTAACGTT
*
93491246 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
93491264 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
93491281 CGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:93491970 original size:26 final size:26
Alignment explanation
Indices: 93491887--93492021 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
93491877 CTGGAGGCCT
93491887 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
93491911 AGCCCTTTT-GATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
93491935 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
93491961 AGCCCTTTTCAATAAATTGGGACATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
93491987 AGCCCCTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
93492013 AGCCCTTTT
1 AGCCCTTTT
93492022 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 7 0.07
24 24 0.24
25 13 0.13
26 57 0.56
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:93492096 original size:20 final size:20
Alignment explanation
Indices: 93492071--93492147 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
93492061 TTATGAATAC
*
93492071 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
93492091 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93492111 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93492131 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
93492148 TCAACAATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:93492157 original size:25 final size:24
Alignment explanation
Indices: 93492099--93492153 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 24
93492089 ATATCATGTC
93492099 CATATCATACATGTCATGTGCATAT
1 CATATCA-ACATGTCATGTGCATAT
93492124 C--AT--ACATGTCATGTGCATAT
1 CATATCAACATGTCATGTGCATAT
93492144 CATATCAACA
1 CATATCAACA
93492154 ATGTATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 18 0.69
22 2 0.08
23 2 0.08
24 3 0.12
25 1 0.04
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (24 bp):
CATATCAACATGTCATGTGCATAT
Found at i:93492239 original size:25 final size:25
Alignment explanation
Indices: 93492193--93492240 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
93492183 ATAAGTAAAC
* * * *
93492193 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
93492218 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
93492241 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:93497769 original size:15 final size:17
Alignment explanation
Indices: 93497739--93497770 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
93497729 AGCAATATCT
93497739 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
93497756 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
93497771 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:93504576 original size:30 final size:30
Alignment explanation
Indices: 93504531--93504596 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
93504521 AATGTAGGGG
* *
93504531 TCACATGGCCATGTGGCCAATCCGTGTGAC
1 TCACACGGCCATGTGGCCAAGCCGTGTGAC
* *
93504561 TTACACGGCCGTGTGGCCAAGCCGTGTGAC
1 TCACACGGCCATGTGGCCAAGCCGTGTGAC
93504591 TCACAC
1 TCACAC
93504597 AGCTAAGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.21
Consensus pattern (30 bp):
TCACACGGCCATGTGGCCAAGCCGTGTGAC
Found at i:93508161 original size:40 final size:40
Alignment explanation
Indices: 93508102--93508409 Score: 562
Period size: 40 Copynumber: 7.7 Consensus size: 40
93508092 GAGCATTGGA
*
93508102 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93508142 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93508182 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
93508222 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
93508262 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
93508302 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93508342 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
93508382 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
93508410 ATGTGTTTGC
Statistics
Matches: 263, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 263 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:93520797 original size:17 final size:18
Alignment explanation
Indices: 93520761--93520797 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
93520751 GCCCGTGTGC
*
93520761 CATGCCCTTGTGGTCCCA
1 CATGCCCATGTGGTCCCA
93520779 CATGCCCATGTGG-CCCA
1 CATGCCCATGTGGTCCCA
93520796 CA
1 CA
93520798 CGGCCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.22
Consensus pattern (18 bp):
CATGCCCATGTGGTCCCA
Found at i:93525326 original size:16 final size:16
Alignment explanation
Indices: 93525305--93525336 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93525295 CCTCAAACAA
93525305 GCCCTAGTAGCTCTCC
1 GCCCTAGTAGCTCTCC
93525321 GCCCTAGTAGCTCTCC
1 GCCCTAGTAGCTCTCC
93525337 AACACTAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.44, G:0.19, T:0.25
Consensus pattern (16 bp):
GCCCTAGTAGCTCTCC
Found at i:93527196 original size:40 final size:40
Alignment explanation
Indices: 93527133--93527224 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
93527123 ATCTCCGTCT
* * *
93527133 AACCCAACACACC--ATGTGGGGATAAAATCGACCCACCC
1 AACCCTACACACCAGATATGGGGATAAAATCAACCCACCC
* * * *
93527171 AGCCCTACACACCAGATATGGGGATATAATCAACCCATCT
1 AACCCTACACACCAGATATGGGGATAAAATCAACCCACCC
93527211 AACCCTACACACCA
1 AACCCTACACACCA
93527225 AATGTACCGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 11 0.25
40 33 0.75
ACGTcount: A:0.37, C:0.36, G:0.13, T:0.14
Consensus pattern (40 bp):
AACCCTACACACCAGATATGGGGATAAAATCAACCCACCC
Found at i:93527612 original size:18 final size:18
Alignment explanation
Indices: 93527572--93527608 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
93527562 CCGTGTGCCT
93527572 TGCCCGTGCTGGCCCACA
1 TGCCCGTGCTGGCCCACA
*
93527590 TGCCCGTG-TGGCCTACA
1 TGCCCGTGCTGGCCCACA
93527607 TG
1 TG
93527609 GCCCAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.11, C:0.38, G:0.30, T:0.22
Consensus pattern (18 bp):
TGCCCGTGCTGGCCCACA
Found at i:93529512 original size:26 final size:27
Alignment explanation
Indices: 93529464--93529526 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
93529454 CCTTTACATA
* *
93529464 TATGCTCACATAAGTTATTAAATGAG-
1 TATGCTCACACAAGTTATGAAATGAGC
* *
93529490 TATGCTCACACAAGTTGTGAAATGGGC
1 TATGCTCACACAAGTTATGAAATGAGC
93529517 T-TGCTCACAC
1 TATGCTCACAC
93529527 GAGCTATCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
TATGCTCACACAAGTTATGAAATGAGC
Found at i:93532970 original size:41 final size:41
Alignment explanation
Indices: 93532913--93533095 Score: 242
Period size: 41 Copynumber: 4.4 Consensus size: 41
93532903 CAAAAATTTA
* ** *
93532913 GCTATGTATAGCACTTAGTGCACGAGATCGAGATAGCTTTG
1 GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
* *
93532954 GCTATGTATGGCACTTAGTGTGCGAGATCGAGATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
*
93532995 GCTATTTATGGCACTTAGTGTGCGAGATCAAGATAGCTTT-
1 GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
* * * *
93533035 TCTTATGTATGGCACTTAGTGTGCGAGATTAAAATAGCCTTG
1 GC-TATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
93533077 GCTATGTATTGGCACTTAG
1 GCTATGTA-TGGCACTTAG
93533096 AGTACGGGAT
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 114 0.90
42 11 0.09
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
GCTATGTATGGCACTTAGTGTGCGAGATCAAGATAGCTTTG
Found at i:93539008 original size:30 final size:30
Alignment explanation
Indices: 93538974--93539034 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
93538964 CTAGTAGTTG
93538974 TGACTAAGATTATTATTTATGACTTTTGCC
1 TGACTAAGATTATTATTTATGACTTTTGCC
93539004 TGACTAAGATTATTATTTATGACTTTTGCC
1 TGACTAAGATTATTATTTATGACTTTTGCC
93539034 T
1 T
93539035 TTTTGAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (30 bp):
TGACTAAGATTATTATTTATGACTTTTGCC
Found at i:93548392 original size:23 final size:23
Alignment explanation
Indices: 93548362--93548412 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
93548352 AAAGGAAAAT
93548362 CGATAGTGCTCACTTAAACTTCC
1 CGATAGTGCTCACTTAAACTTCC
* *
93548385 CGATAGTGCTCGCTTGAACTTCC
1 CGATAGTGCTCACTTAAACTTCC
93548408 CGATA
1 CGATA
93548413 TATGGCTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (23 bp):
CGATAGTGCTCACTTAAACTTCC
Found at i:93550257 original size:17 final size:17
Alignment explanation
Indices: 93550235--93550267 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
93550225 ATAAAATTGT
93550235 GAGCTTATTAAGACTAC
1 GAGCTTATTAAGACTAC
93550252 GAGCTTATTAAGACTA
1 GAGCTTATTAAGACTA
93550268 AGAGATCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (17 bp):
GAGCTTATTAAGACTAC
Found at i:93557776 original size:24 final size:25
Alignment explanation
Indices: 93557745--93557803 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
93557735 TATAAAAGTG
*
93557745 TAAAATAAATATTA-TA-AAGAATAT
1 TAAAATAAATAATAGTAGAAGAAT-T
*
93557769 TAAAATAAATAATAGTAGAATAATT
1 TAAAATAAATAATAGTAGAAGAATT
93557794 TAAAATAAAT
1 TAAAATAAAT
93557804 GAAAAGAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 13 0.42
25 13 0.42
26 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (25 bp):
TAAAATAAATAATAGTAGAAGAATT
Found at i:93564570 original size:49 final size:48
Alignment explanation
Indices: 93564493--93564589 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
93564483 CAGAAGTTGT
*
93564493 ATGGAGACCAACTTGGACCCATAAGTATGCTACCTCCTAACTCTTTCC
1 ATGGAGACCAACCTGGACCCATAAGTATGCTACCTCCTAACTCTTTCC
* **
93564541 NATGGCGACCAACCTGGACCCATGGGTATGCTACCTCCTAACTCTTTCC
1 -ATGGAGACCAACCTGGACCCATAAGTATGCTACCTCCTAACTCTTTCC
93564590 CTAATCTGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGGAGACCAACCTGGACCCATAAGTATGCTACCTCCTAACTCTTTCC
Found at i:93573092 original size:21 final size:21
Alignment explanation
Indices: 93573065--93573135 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 21
93573055 ATTTCGTCTT
93573065 TTTTTTGTCCATATAATTTAAA
1 TTTTTTGTCCATATAATTT-AA
* *
93573087 TTTTTGGTCCCTATAATTCTAA
1 TTTTTTGTCCATATAATT-TAA
* *
93573109 TTTTTTGTCCATGTAGTTTAA
1 TTTTTTGTCCATATAATTTAA
93573130 TTTTTT
1 TTTTTT
93573136 CCTCCCTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 9 0.21
22 32 0.76
23 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTTTTGTCCATATAATTTAA
Found at i:93573142 original size:44 final size:43
Alignment explanation
Indices: 93573065--93573206 Score: 131
Period size: 44 Copynumber: 3.1 Consensus size: 43
93573055 ATTTCGTCTT
* * *
93573065 TTTTTTGTCCATATAATTTAAATTTTTGGTCCCTATAATTCTAA
1 TTTTTTGTCCATGTAATTTAATTTTTTCGTCCCTATAATTC-AA
* * * *
93573109 TTTTTTGTCCATGTAGTTTAATTTTTTCCTCCCTGTAAGTCAAA
1 TTTTTTGTCCATGTAATTTAATTTTTTCGTCCCTATAATTC-AA
* * *
93573153 TTTTCTTCTCCCTGTAATTTGACTTTTTTTTCGTCCCTATAATTCAA
1 TTTT-TTGTCCATGTAATTT-A--ATTTTTTCGTCCCTATAATTCAA
93573200 TATTTTT
1 T-TTTTT
93573207 AGTTTATGTA
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
44 40 0.51
45 12 0.15
46 1 0.01
47 5 0.06
48 20 0.26
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.54
Consensus pattern (43 bp):
TTTTTTGTCCATGTAATTTAATTTTTTCGTCCCTATAATTCAA
Found at i:93573145 original size:22 final size:21
Alignment explanation
Indices: 93573104--93573168 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 21
93573094 TCCCTATAAT
* *
93573104 TCTAATTTTTTGTCCATGTAG
1 TCTAATTTTTTCTCCCTGTAG
*
93573125 TTTAATTTTTTCCTCCCTGTAAG
1 TCTAATTTTTT-CTCCCTGT-AG
*
93573148 TCAAATTTTCTTCTCCCTGTA
1 TCTAATTTT-TTCTCCCTGTA
93573169 ATTTGACTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.28
22 7 0.19
23 17 0.47
24 2 0.06
ACGTcount: A:0.18, C:0.22, G:0.09, T:0.51
Consensus pattern (21 bp):
TCTAATTTTTTCTCCCTGTAG
Found at i:93573719 original size:16 final size:17
Alignment explanation
Indices: 93573695--93573734 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
93573685 TTATTAGTTG
* *
93573695 TATTGGATTGTAAT-GT
1 TATTAGATTATAATGGT
93573711 TATTAGATTATAATGGT
1 TATTAGATTATAATGGT
93573728 TATTAGA
1 TATTAGA
93573735 CATGCTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (17 bp):
TATTAGATTATAATGGT
Found at i:93580582 original size:14 final size:14
Alignment explanation
Indices: 93580565--93580593 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
93580555 TTTTGATTTC
93580565 TTTTTTTT-TTAAA
1 TTTTTTTTGTTAAA
93580578 TTTTTTTTGTTAAA
1 TTTTTTTTGTTAAA
93580592 TT
1 TT
93580594 AGTTGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTTTTGTTAAA
Found at i:93581327 original size:22 final size:23
Alignment explanation
Indices: 93581288--93581330 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
93581278 GGTTTTGCCA
93581288 ATTTGGGGTTCGGATTGTTTTTT
1 ATTTGGGGTTCGGATTGTTTTTT
* *
93581311 ATTTGGGTTTTGG-TTGTTTT
1 ATTTGGGGTTCGGATTGTTTT
93581331 ATGACCAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.07, C:0.02, G:0.30, T:0.60
Consensus pattern (23 bp):
ATTTGGGGTTCGGATTGTTTTTT
Found at i:93585688 original size:36 final size:37
Alignment explanation
Indices: 93585639--93585709 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
93585629 TCTGATTGCC
*
93585639 TTCTTACATAGAACAAAATATATGA-ATAGTTTTGAA
1 TTCTTACAGAGAACAAAATATATGACATAGTTTTGAA
*
93585675 TTCTTTCAGAGAACAAAATATATGATCATAGTTTT
1 TTCTTACAGAGAACAAAATATATGA-CATAGTTTT
93585710 ATGTAGAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 23 0.74
38 8 0.26
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (37 bp):
TTCTTACAGAGAACAAAATATATGACATAGTTTTGAA
Found at i:93596266 original size:53 final size:53
Alignment explanation
Indices: 93596186--93596288 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
93596176 TAACCCCTCT
*
93596186 CAATCTAACAAGGGAAGTAATCAAACTATAAGGCATTAGACCTATCACCAACA
1 CAATCTAACAAGGGAAGTAATCAAACTATAAGGCATTAGACCTACCACCAACA
* *
93596239 CAATCTAACAAGTGAAGTAATCAAACTATTAGGCATTAGACCTACCACCA
1 CAATCTAACAAGGGAAGTAATCAAACTATAAGGCATTAGACCTACCACCA
93596289 CCAGCCATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (53 bp):
CAATCTAACAAGGGAAGTAATCAAACTATAAGGCATTAGACCTACCACCAACA
Found at i:93598668 original size:7 final size:7
Alignment explanation
Indices: 93598656--93598680 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
93598646 TTTTTCAAAG
93598656 AAAAATC
1 AAAAATC
93598663 AAAAATC
1 AAAAATC
93598670 AAAAATC
1 AAAAATC
93598677 AAAA
1 AAAA
93598681 CCCAAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:93603366 original size:13 final size:13
Alignment explanation
Indices: 93603348--93603408 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
93603338 GATCTGCTCA
93603348 CGCATATAGGGTT
1 CGCATATAGGGTT
93603361 CGCATATAAAGGGTT
1 CGCATAT--AGGGTT
* *
93603376 CACACATACAGGGTT
1 --CGCATATAGGGTT
*
93603391 CGCATCTACGGGTT
1 CGCATATA-GGGTT
93603405 CGCA
1 CGCA
93603409 CATATAAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
13 12 0.32
14 9 0.24
15 12 0.32
17 5 0.13
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (13 bp):
CGCATATAGGGTT
Found at i:93603375 original size:15 final size:15
Alignment explanation
Indices: 93603355--93603408 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
93603345 TCACGCATAT
93603355 AGGGTTCGCATATAA
1 AGGGTTCGCATATAA
* * *
93603370 AGGGTTCACACATAC
1 AGGGTTCGCATATAA
*
93603385 AGGGTTCGCATCT-A
1 AGGGTTCGCATATAA
*
93603399 CGGGTTCGCA
1 AGGGTTCGCA
93603409 CATATAAGGT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (15 bp):
AGGGTTCGCATATAA
Found at i:93603419 original size:29 final size:30
Alignment explanation
Indices: 93603345--93603419 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
93603335 TAGGATCTGC
*
93603345 TCACGCATATAGGGTTCGCATATAAAGGGT
1 TCACACATATAGGGTTCGCATATAAAGGGT
* * *
93603375 TCACACATACAGGGTTCGCATCT-ACGGGT
1 TCACACATATAGGGTTCGCATATAAAGGGT
* *
93603404 TCGCACATATAAGGTT
1 TCACACATATAGGGTT
93603420 TGTGTATCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (30 bp):
TCACACATATAGGGTTCGCATATAAAGGGT
Found at i:93608060 original size:5 final size:5
Alignment explanation
Indices: 93608050--93608117 Score: 90
Period size: 5 Copynumber: 14.2 Consensus size: 5
93608040 TAAATGAATA
*
93608050 AATTC AATTC AAATC AA-T- AATT- -ATTC AATTC AATTC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC
93608096 AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC -AATTC A
93608118 TATTTTAGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
3 5 0.09
4 2 0.03
5 46 0.79
6 5 0.09
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:93610928 original size:26 final size:28
Alignment explanation
Indices: 93610894--93610960 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
93610884 TATATACTAT
* *
93610894 AAAGAAAGAGAGAAA-AT-ACAAAAAAA
1 AAAGTAAGAGAGAAACATCAAAAAAAAA
*
93610920 AAAGTAAGA-AGAAACCTCAAAAAAAAA
1 AAAGTAAGAGAGAAACATCAAAAAAAAA
*
93610947 AAAGTAAAAGAGAA
1 AAAGTAAGAGAGAA
93610961 TTAAGATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 5 0.15
26 9 0.26
27 16 0.47
28 4 0.12
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (28 bp):
AAAGTAAGAGAGAAACATCAAAAAAAAA
Found at i:93611003 original size:2 final size:2
Alignment explanation
Indices: 93610996--93611021 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93610986 AGCCTTCCAC
93610996 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
93611022 CATAAAATTG
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:93611115 original size:2 final size:2
Alignment explanation
Indices: 93611108--93611134 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93611098 CTCATAATGT
93611108 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
93611135 TAATTCACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93626893 original size:30 final size:30
Alignment explanation
Indices: 93626859--93626921 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
93626849 ACTTAACAAG
93626859 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
93626889 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
93626919 CAA
1 CAA
93626922 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:93629124 original size:25 final size:25
Alignment explanation
Indices: 93629091--93629142 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
93629081 TTTCGGGTGA
*
93629091 TAGAAACTGTCGATTGTCGACTGGG
1 TAGAAACTGTCGATTGTCCACTGGG
* * *
93629116 TAGAGACTGTCGGTTGTCCATTGGG
1 TAGAAACTGTCGATTGTCCACTGGG
93629141 TA
1 TA
93629143 TCCTGCCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (25 bp):
TAGAAACTGTCGATTGTCCACTGGG
Found at i:93629692 original size:48 final size:48
Alignment explanation
Indices: 93629632--93629808 Score: 223
Period size: 48 Copynumber: 3.7 Consensus size: 48
93629622 TATTTGCATA
* * * *
93629632 AACTTGATTGTCACATATATTTGCATAAACTTGTAAAATATTTAAACG
1 AACTTGATTGGCACGTATATTTGCATGAACTTGTAAAATATTTAAATG
* * *
93629680 AACTTGATTGTCATGTATATTTGCATGAACTTGTAAAATATTTAAATA
1 AACTTGATTGGCACGTATATTTGCATGAACTTGTAAAATATTTAAATG
* * *
93629728 AATTTG-TTGGGCATGTATATTTGCATGAACTTGTAAAAT-TTTGAATG
1 AACTTGATT-GGCACGTATATTTGCATGAACTTGTAAAATATTTAAATG
* *
93629775 AACTTGATAGGCACGCATATTTGCATGAACTTGT
1 AACTTGATTGGCACGTATATTTGCATGAACTTGT
93629809 TTCAAACATT
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
47 36 0.32
48 78 0.68
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (48 bp):
AACTTGATTGGCACGTATATTTGCATGAACTTGTAAAATATTTAAATG
Found at i:93634122 original size:18 final size:18
Alignment explanation
Indices: 93634096--93634147 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
93634086 AAAGAAAATT
* *
93634096 AATTGTAATATTTTTATA
1 AATTTTAATATTTTTAAA
93634114 AATTTTAATAATATTTTAAA
1 AATTTTAAT-AT-TTTTAAA
93634134 AATTTTAATTATTT
1 AATTTTAA-TATTT
93634148 GTCCAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 8 0.28
19 4 0.14
20 16 0.55
21 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTTAATATTTTTAAA
Found at i:93634124 original size:10 final size:10
Alignment explanation
Indices: 93634105--93634142 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
93634095 TAATTGTAAT
*
93634105 ATTTTTATAA
1 ATTTTAATAA
93634115 ATTTTAATAA
1 ATTTTAATAA
93634125 TATTTTAA-AA
1 -ATTTTAATAA
93634135 ATTTTAAT
1 ATTTTAAT
93634143 TATTTGTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAATAA
Found at i:93634136 original size:20 final size:21
Alignment explanation
Indices: 93634101--93634142 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
93634091 AAATTAATTG
*
93634101 TAATATTTTTATAAATTTTAA
1 TAATATTTTTAAAAATTTTAA
93634122 TAATA-TTTTAAAAATTTTAA
1 TAATATTTTTAAAAATTTTAA
93634142 T
1 T
93634143 TATTTGTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATATTTTTAAAAATTTTAA
Found at i:93640427 original size:21 final size:22
Alignment explanation
Indices: 93640398--93640444 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
93640388 CAGAAGGAGT
*
93640398 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
93640420 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
93640441 GAGT
1 GAGT
93640445 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:93645426 original size:18 final size:18
Alignment explanation
Indices: 93645403--93645437 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93645393 TATTTGAGCA
*
93645403 TTTATGTATTGTTTTGCT
1 TTTATGTATTATTTTGCT
93645421 TTTATGTATTATTTTGC
1 TTTATGTATTATTTTGC
93645438 AACTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTATGTATTATTTTGCT
Found at i:93648355 original size:5 final size:6
Alignment explanation
Indices: 93648341--93648379 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
93648331 TTTTATTGCA
* * *
93648341 TTTTAT TTTTAT TTTTAT TTTTAG TTTAAT TCTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
93648380 CTACTTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:93652903 original size:55 final size:55
Alignment explanation
Indices: 93652835--93652945 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
93652825 CAACAGAGAA
93652835 AGACCACACTAACGAACAATTTGGTAAATTTCTTAAACCTTTAAAAAAATTGCAT
1 AGACCACACTAACGAACAATTTGGTAAATTTCTTAAACCTTTAAAAAAATTGCAT
93652890 AGACCACACTAACGAACAATTTGGTAAATTTCTTAAACCTTTAAAAAAATTGCAT
1 AGACCACACTAACGAACAATTTGGTAAATTTCTTAAACCTTTAAAAAAATTGCAT
93652945 A
1 A
93652946 TTAATTTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (55 bp):
AGACCACACTAACGAACAATTTGGTAAATTTCTTAAACCTTTAAAAAAATTGCAT
Found at i:93654129 original size:13 final size:13
Alignment explanation
Indices: 93654111--93654136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93654101 TTTAAAATCT
93654111 TAAAAATAAAAAA
1 TAAAAATAAAAAA
93654124 TAAAAATAAAAAA
1 TAAAAATAAAAAA
93654137 GAAGAAGAAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:93654697 original size:10 final size:10
Alignment explanation
Indices: 93654682--93654758 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
93654672 GCCACCCCAT
93654682 TTTTATTTTA
1 TTTTATTTTA
*
93654692 TTTTATTCTA
1 TTTTATTTTA
93654702 -TTTATTATTA
1 TTTTATT-TTA
*
93654712 -TTTATTATA
1 TTTTATTTTA
93654721 TTATTTATTATTA
1 -T-TTTATT-TTA
*
93654734 TTTTACTAATT-
1 TTTTA-T-TTTA
93654745 TTTTATTTTA
1 TTTTATTTTA
93654755 TTTT
1 TTTT
93654759 TAATTTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
9 10 0.19
10 22 0.42
11 9 0.17
12 10 0.19
13 2 0.04
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:93654719 original size:22 final size:21
Alignment explanation
Indices: 93654683--93654760 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
93654673 CCACCCCATT
93654683 TTTATT-TTA-TTTTAT-TCTA
1 TTTATTATTATTTTTATAT-TA
93654702 TTTATTATTATTTATTATATTA
1 TTTATTATTATTT-TTATATTA
*
93654724 TTTATTATTA-TTTTACTAATTT
1 TTTATTATTATTTTTA-T-ATTA
93654746 TTTATT-TTATTTTTA
1 TTTATTATTATTTTTA
93654761 ATTTATTATT
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
19 6 0.12
20 6 0.12
21 8 0.16
22 30 0.59
23 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTATTATTTTTATATTA
Found at i:93654722 original size:12 final size:12
Alignment explanation
Indices: 93654707--93654731 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93654697 TTCTATTTAT
93654707 TATTATTTATTA
1 TATTATTTATTA
93654719 TATTATTTATTA
1 TATTATTTATTA
93654731 T
1 T
93654732 TATTTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:93654745 original size:19 final size:18
Alignment explanation
Indices: 93654683--93654770 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 18
93654673 CCACCCCATT
*
93654683 TTTATT-TTATTTTATTCTA
1 TTTATTATTATTTTA-T-AA
93654702 TTTATTATTATTTATTATATTA
1 TTTATTATTA-TT-TTATA--A
93654724 TTTATTATTATTTTACTAA
1 TTTATTATTATTTTA-TAA
*
93654743 TTTTTTATTTTATTTT-TAA
1 TTTATTA--TTATTTTATAA
93654762 TTTATTATT
1 TTTATTATT
93654771 CCTATACTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
17 2 0.03
19 22 0.38
20 6 0.10
21 14 0.24
22 14 0.24
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATTATTTTATAA
Found at i:93657710 original size:22 final size:22
Alignment explanation
Indices: 93657676--93657751 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 22
93657666 AAATATTAAT
* *
93657676 AATTAATTTAATTAATTTATCA
1 AATTAACTAAATTAATTTATCA
93657698 AATTAACTAAATTAATTTAACTAATCA
1 AATTAACTAAATTAA-TT---T-ATCA
*
93657725 AATTAACTAAATTAATTTCTC-
1 AATTAACTAAATTAATTTATCA
93657746 AATTAA
1 AATTAA
93657752 ATAATTTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
21 6 0.13
22 15 0.33
23 3 0.07
26 3 0.07
27 19 0.41
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTAACTAAATTAATTTATCA
Found at i:93657710 original size:27 final size:26
Alignment explanation
Indices: 93657683--93657741 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
93657673 AATAATTAAT
* *
93657683 TTAATTAATTTATCAAATTAACTAAA
1 TTAATTAACTAATCAAATTAACTAAA
93657709 TTAATTTAACTAATCAAATTAACTAAA
1 TTAA-TTAACTAATCAAATTAACTAAA
93657736 TTAATT
1 TTAATT
93657742 TCTCAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATTAACTAATCAAATTAACTAAA
Found at i:93657714 original size:13 final size:13
Alignment explanation
Indices: 93657698--93657741 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
93657688 TAATTTATCA
93657698 AATTAACTAAATT
1 AATTAACTAAATT
*
93657711 AATTTAACT-AATCA
1 AA-TTAACTAAAT-T
93657725 AATTAACTAAATT
1 AATTAACTAAATT
93657738 AATT
1 AATT
93657742 TCTCAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (13 bp):
AATTAACTAAATT
Found at i:93657719 original size:14 final size:14
Alignment explanation
Indices: 93657700--93657742 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
93657690 ATTTATCAAA
93657700 TTAACTAAATTAAT
1 TTAACTAAATTAAT
* *
93657714 TTAACT-AATCAAA
1 TTAACTAAATTAAT
93657727 TTAACTAAATTAAT
1 TTAACTAAATTAAT
93657741 TT
1 TT
93657743 CTCAATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAACTAAATTAAT
Found at i:93663748 original size:271 final size:272
Alignment explanation
Indices: 93663215--93663754 Score: 885
Period size: 271 Copynumber: 2.0 Consensus size: 272
93663205 CCATAGACTG
93663215 CCTATCAAAACTTTCTTATAGTCTTTTTTGCTAGCAAACTTCACTAAAGAATAGTTATTATCAAG
1 CCTATCAAAACTTTCTTATAGTCTTTTTTGCTAGCAAACTTCACTAAAGAATAGTTATTATCAAG
* *
93663280 GTCAACCAATTGATAATCACCCGATAGATTCCAAATACCTTTGATTCTACTATCTAGAACCCTAT
66 GTCAACCAATTGATAATCACCCGACAGATTCCAAAGACCTTTGATTCTACTATCTAGAACCCTAT
* *
93663345 AATTGTTTGTTTTCATACGAAGTCGAACAATCAATGTTTTCTTCATACTATGATTAATTAGATCA
131 AATTGTTTGTTTTCATACGAAGTCGAACAATCAATGTTTTCTTCATACTATAATTAATTAAATCA
*
93663410 TTCACATGTTTTGAAAATAAAATCTCAGGGTACTTCCCATCCAAACAGATTTCAACATCATCCTC
196 TTCACATGTTTTGAAAACAAAATCTCAGGGTACTTCCCATCCAAACAGATTTCAACATCATCCTC
93663475 ATGAATAGACCA
261 ATGAATAGACCA
*
93663487 CCTATCAAAACTTTCTTATAGTCTTTTTTTCTAGCAAACTTCACTAGAA-AATAGTTATTATCAA
1 CCTATCAAAACTTTCTTATAGTCTTTTTTGCTAGCAAACTTCACTA-AAGAATAGTTATTATCAA
* * *
93663551 GGTCAACCAATTGATAATCACCTGACAGATTCCAAAGACTTTTGATTCTACTATCTAG-AGCCT-
65 GGTCAACCAATTGATAATCACCCGACAGATTCCAAAGACCTTTGATTCTACTATCTAGAACCCTA
* *
93663614 TGAATTGTTTTTTTTAGCA-A-GAAG-CTGAACAATCAATGTTTTCTTCATACTCTAATTAATTA
130 T-AATTGTTTGTTTT--CATACGAAGTC-GAACAATCAATGTTTTCTTCATACTATAATTAATTA
*
93663676 AATCATTCACATGTTTTGAAAACAAAATCTCAGGGTACTTCCTATCCAAACAGATTTCAACATCA
191 AATCATTCACATGTTTTGAAAACAAAATCTCAGGGTACTTCCCATCCAAACAGATTTCAACATCA
93663741 TCCTCATGAATAGA
256 TCCTCATGAATAGA
93663755 GATTTCATCA
Statistics
Matches: 251, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
270 2 0.01
271 130 0.52
272 115 0.46
273 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (272 bp):
CCTATCAAAACTTTCTTATAGTCTTTTTTGCTAGCAAACTTCACTAAAGAATAGTTATTATCAAG
GTCAACCAATTGATAATCACCCGACAGATTCCAAAGACCTTTGATTCTACTATCTAGAACCCTAT
AATTGTTTGTTTTCATACGAAGTCGAACAATCAATGTTTTCTTCATACTATAATTAATTAAATCA
TTCACATGTTTTGAAAACAAAATCTCAGGGTACTTCCCATCCAAACAGATTTCAACATCATCCTC
ATGAATAGACCA
Found at i:93667945 original size:3 final size:3
Alignment explanation
Indices: 93667939--93668130 Score: 120
Period size: 3 Copynumber: 64.0 Consensus size: 3
93667929 TAATGATGAA
** * * **
93667939 AAT AAT AAT AAT AAT AAT AAT AAT AAT GTT GAT AAT AAT AAT AGT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
93667987 AGT AAA AAT AAT AAT ACT AAT GAT AAT AAT AA- AAGT AAT AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * * * * *
93668032 AAT ATT AAT ATT AGT ATT AAT AAT AAT GAT AAT AGT AGAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * *
93668078 AAT AAA AAT AAT -AT AGT AAT AAT AAT AA- AAGC AAA AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
93668122 AAT AAT AAT
1 AAT AAT AAT
93668131 GGTAAATATT
Statistics
Matches: 145, Mismatches: 38, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
2 6 0.04
3 134 0.92
4 5 0.03
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93668811 original size:3 final size:3
Alignment explanation
Indices: 93668803--93668827 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
93668793 ATTTGATTGA
93668803 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
93668828 CAGTCGTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:93679880 original size:40 final size:40
Alignment explanation
Indices: 93679737--93679881 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
93679727 TGAATGATGT
* * * *
93679737 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
93679777 CCGGACTAAGAT-CCGAAGGCA-TTGATGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTG-TGCGAGTTACTATAA
* *
93679816 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93679857 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
93679882 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 76 0.87
41 9 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:93679888 original size:80 final size:79
Alignment explanation
Indices: 93679743--93679904 Score: 179
Period size: 80 Copynumber: 2.0 Consensus size: 79
93679733 ATGTCCGGGC
* *
93679743 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTGATGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTGATACGAG
93679808 TTA-CTAAATCCAGGT
66 -TAGCTAAATCC-GGT
* * * * *
93679823 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTGA-AC
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCA-TTGATAC
*
93679885 GAGTAGCTATATCCGGT
63 GAGTAGCTAAATCCGGT
93679902 TAA
1 TAA
93679905 ATTCTGAAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
79 9 0.13
80 50 0.71
81 11 0.16
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTGATACGAG
TAGCTAAATCCGGT
Found at i:93693905 original size:92 final size:92
Alignment explanation
Indices: 93693613--93693889 Score: 545
Period size: 92 Copynumber: 3.0 Consensus size: 92
93693603 AAACAAACTA
93693613 AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
1 AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
*
93693678 AATATATAAAAAGATATTGCTGAAGAG
66 AATATAAAAAAAGATATTGCTGAAGAG
93693705 AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
1 AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
93693770 AATATAAAAAAAGATATTGCTGAAGAG
66 AATATAAAAAAAGATATTGCTGAAGAG
93693797 AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
1 AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
93693862 AATATAAAAAAAGATATTGCTGAAGAG
66 AATATAAAAAAAGATATTGCTGAAGAG
93693889 A
1 A
93693890 CCGTGACCAA
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 184 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (92 bp):
AACTAAAACAAGAACCATTACAGTCTTCAAAGAAAATATAGTGCATTGAAAATAAAAATTAAAAA
AATATAAAAAAAGATATTGCTGAAGAG
Found at i:93706113 original size:17 final size:17
Alignment explanation
Indices: 93706091--93706125 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
93706081 CTTATTAGGC
*
93706091 TTGTAAATCACAATTTT
1 TTGTAAATAACAATTTT
*
93706108 TTGTAATTAACAATTTT
1 TTGTAAATAACAATTTT
93706125 T
1 T
93706126 AATTTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (17 bp):
TTGTAAATAACAATTTT
Done.