Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 36 of 332
Found at i:11027489 original size:42 final size:42
Alignment explanation
Indices: 11027430--11027521 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
11027420 TAGTCTCCCC
* * ** *
11027430 AAATGGGATTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
11027472 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
11027514 AAATGGGC
1 AAATGGGC
11027522 CTATAGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:11027583 original size:31 final size:31
Alignment explanation
Indices: 11027545--11027623 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
11027535 CGTTTACAGT
*
11027545 AAAGGCTTCGACCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
11027576 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
11027607 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
11027624 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:11029994 original size:12 final size:12
Alignment explanation
Indices: 11029977--11030002 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11029967 CCCTCAAAGT
11029977 TTTCTCTTAATC
1 TTTCTCTTAATC
11029989 TTTCTCTTAATC
1 TTTCTCTTAATC
11030001 TT
1 TT
11030003 GATGTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCTCTTAATC
Found at i:11039844 original size:43 final size:43
Alignment explanation
Indices: 11039717--11039862 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
11039707 TCGAGATGAT
* * *
11039717 ATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCAGTA-TATG
* * * *
11039760 ATTACGTGTAAGACCATGTTTGAGACATTGACATCATTATATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCAGTATATG
* * * * *
11039803 ATTTCGTGTAAGAGCACGTCTGGGACGTTGGCATCGGTATATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCAGTATATG
** *
11039846 AAAACATGTAAGACCAT
1 ATTACGTGTAAGACCAT
11039863 ATTTGGGATA
Statistics
Matches: 80, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 78 0.98
44 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCAGTATATG
Found at i:11050842 original size:46 final size:46
Alignment explanation
Indices: 11050775--11050935 Score: 211
Period size: 46 Copynumber: 3.5 Consensus size: 46
11050765 TTTATGTGCT
*
11050775 AGTGTAAGACATGTTTGGGACATGCATTGGCCTCTAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATATAAGCC
* * * *
11050821 AGTGTAAGACATGTCTGGGACATGTATCGG-CTAC-A-TTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCT-CTAGATA-TA-AGCC
* *
11050867 AGTGTAAGACATGTCTGGGATATGCATTGGCCTTTAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATATAAGCC
11050913 AGTGTAAGACATGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
11050936 ACATCTCAGT
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
44 2 0.02
45 4 0.04
46 85 0.88
47 4 0.04
48 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATATAAGCC
Found at i:11051019 original size:50 final size:49
Alignment explanation
Indices: 11050941--11051117 Score: 148
Period size: 49 Copynumber: 3.6 Consensus size: 49
11050931 GACATACATC
* * * * * *
11050941 TCAGTGTAAGACCATGTCTAGTATATGGCATCGGCACGGATATGTGAGT-G
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CGCA-ATGTCAATAG
* * *
11050991 -CTGGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTCAATAG
1 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCGCAATGTCAATAG
* ** *
11051040 TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAATG--GATAAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCGCAATGTCAAT-AG
* *
11051087 CCAATGTAAGACCATGTCTGGGACATGGCAT
1 TCAGTGTAAGACCATGTCTGGGACATGGCAT
11051118 TATACCCTAT
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
46 2 0.02
47 31 0.29
48 11 0.10
49 33 0.31
50 30 0.28
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCGCAATGTCAATAG
Found at i:11051113 original size:47 final size:49
Alignment explanation
Indices: 11050995--11051117 Score: 162
Period size: 47 Copynumber: 2.6 Consensus size: 49
11050985 TGAGTGCTGG
* * * *
11050995 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTCAATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGACTCAATTGCAATAGCCAA
* *
11051044 TGTAAGACCATGTCTGGGACATGGCATC-GACTTAA-TG-GATAAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGACTCAATTGCAAT-AGCCAA
11051091 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
11051118 TATACCCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.03
47 32 0.48
48 5 0.07
49 28 0.42
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGACTCAATTGCAATAGCCAA
Found at i:11055626 original size:16 final size:16
Alignment explanation
Indices: 11055605--11055635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11055595 CTCTGCATGC
*
11055605 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
11055621 AAAATACAAAAGACA
1 AAAATACAAAAGACA
11055636 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:11057035 original size:29 final size:29
Alignment explanation
Indices: 11057002--11057060 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11056992 CAACAAGGTT
11057002 AGTTTCTTCACAATTGAATATAAAACATG
1 AGTTTCTTCACAATTGAATATAAAACATG
11057031 AGTTTCTTCACAATTGAATATAAAACATG
1 AGTTTCTTCACAATTGAATATAAAACATG
11057060 A
1 A
11057061 TTTATGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (29 bp):
AGTTTCTTCACAATTGAATATAAAACATG
Found at i:11063442 original size:10 final size:9
Alignment explanation
Indices: 11063404--11063440 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
11063394 GGTTGCAATG
11063404 AATTTTTTA
1 AATTTTTTA
11063413 AATTTTTTA
1 AATTTTTTA
11063422 AA-TTTTTA
1 AATTTTTTA
11063430 ATATTTTTTA
1 A-ATTTTTTA
11063440 A
1 A
11063441 TAGAACCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 7 0.27
9 12 0.46
10 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATTTTTTA
Found at i:11063806 original size:34 final size:35
Alignment explanation
Indices: 11063764--11063837 Score: 141
Period size: 34 Copynumber: 2.1 Consensus size: 35
11063754 GTTTTTACTC
11063764 ATCTTTCTAATTGCATATTTAAATCTATACTAATT
1 ATCTTTCTAATTGCATATTTAAATCTATACTAATT
11063799 -TCTTTCTAATTGCATATTTAAATCTATACTAATT
1 ATCTTTCTAATTGCATATTTAAATCTATACTAATT
11063833 ATCTT
1 ATCTT
11063838 AATTTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (35 bp):
ATCTTTCTAATTGCATATTTAAATCTATACTAATT
Found at i:11069186 original size:33 final size:33
Alignment explanation
Indices: 11069140--11069222 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
11069130 GAGAAGAATA
* *
11069140 GAGTACGGCGGTGGATACGGGCTG-GAAGGAGTG
1 GAGTACGGCGGTGGATACGGGCCGAG-AGCAGTG
*
11069173 GAGTACGGTGGTGGATACGGGCCGAGAGCAGTG
1 GAGTACGGCGGTGGATACGGGCCGAGAGCAGTG
11069206 GAGTACGGCGGTGGATA
1 GAGTACGGCGGTGGATA
11069223 GGGGACGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 44 0.98
34 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.49, T:0.16
Consensus pattern (33 bp):
GAGTACGGCGGTGGATACGGGCCGAGAGCAGTG
Found at i:11069253 original size:33 final size:33
Alignment explanation
Indices: 11069216--11069286 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
11069206 GAGTACGGCG
* * *
11069216 GTGGATAGGGGACGAAAGGAGCGAAGTATTGAA
1 GTGGATACGGGACAAAAGGAGCGAAGTACTGAA
* * *
11069249 GTGGATACGGGCCAAAAGGAGCGGAGTACTGAG
1 GTGGATACGGGACAAAAGGAGCGAAGTACTGAA
11069282 GTGGA
1 GTGGA
11069287 CACGAGCCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.44, T:0.14
Consensus pattern (33 bp):
GTGGATACGGGACAAAAGGAGCGAAGTACTGAA
Found at i:11069296 original size:33 final size:33
Alignment explanation
Indices: 11069230--11069296 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
11069220 ATAGGGGACG
* * *
11069230 AAAGGAGCGAAGTATTGAAGTGGATACGGGCCA
1 AAAGGAGCGAAGTACTGAAGTGGACACGAGCCA
* *
11069263 AAAGGAGCGGAGTACTGAGGTGGACACGAGCCA
1 AAAGGAGCGAAGTACTGAAGTGGACACGAGCCA
11069296 A
1 A
11069297 GATGATTGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.37, T:0.12
Consensus pattern (33 bp):
AAAGGAGCGAAGTACTGAAGTGGACACGAGCCA
Found at i:11071832 original size:60 final size:60
Alignment explanation
Indices: 11071748--11071866 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
11071738 ATACTAAACT
* * * * *
11071748 AAACGCAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATGATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
11071808 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
11071867 TAAAAAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:11072090 original size:28 final size:28
Alignment explanation
Indices: 11072028--11072090 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
11072018 TAATACATTA
* *
11072028 TCTTCTTTTTTTTTTTATTCTTTCTTCT
1 TCTTCTTTTTCTTTTTATTCTTTCCTCT
11072056 TCTTCTTTTTCTTTTT-TTCTTTTCCT-T
1 TCTTCTTTTTCTTTTTATTC-TTTCCTCT
11072083 TCTCTCTT
1 TCT-TCTT
11072091 CCGGTGGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (28 bp):
TCTTCTTTTTCTTTTTATTCTTTCCTCT
Found at i:11072382 original size:24 final size:26
Alignment explanation
Indices: 11072355--11072410 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
11072345 TATTTTTAAC
11072355 AAAAATAAAAAATA-ATATTTT-AT-T
1 AAAAA-AAAAAATATATATTTTAATAT
*
11072379 AAAAAACAAAATATATATTTTAATAT
1 AAAAAAAAAAATATATATTTTAATAT
11072405 AAAAAA
1 AAAAAA
11072411 GAAATTATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.25
24 12 0.43
25 2 0.07
26 7 0.25
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAAAAAAAAATATATATTTTAATAT
Found at i:11072383 original size:25 final size:26
Alignment explanation
Indices: 11072355--11072410 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
11072345 TATTTTTAAC
*
11072355 AAAAATAAAAAATAATATTTT-AT-TA
1 AAAAACAAAAAAT-ATATTTTAATATA
*
11072380 AAAAACAAAATATATATTTTAATATA
1 AAAAACAAAAAATATATTTTAATATA
11072406 AAAAA
1 AAAAA
11072411 GAAATTATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 7 0.26
25 13 0.48
26 7 0.26
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAAACAAAAAATATATTTTAATATA
Found at i:11073165 original size:20 final size:20
Alignment explanation
Indices: 11073140--11073177 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11073130 TGGCTTAATG
* *
11073140 ATTTAATATATATAATTATT
1 ATTTAACATATACAATTATT
11073160 ATTTAACATATACAATTA
1 ATTTAACATATACAATTA
11073178 ATATAATTAT
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:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAACATATACAATTATT
Found at i:11078924 original size:19 final size:21
Alignment explanation
Indices: 11078876--11078925 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
11078866 TTATTTAGGA
*
11078876 ATGA-TATAATGTATTATTTC
1 ATGATTATAATATATTATTTC
*
11078896 AT-ATTTTAATAT-TTATTT-
1 ATGATTATAATATATTATTTC
11078914 ATGATTATAATA
1 ATGATTATAATA
11078926 ATAATTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (21 bp):
ATGATTATAATATATTATTTC
Found at i:11082865 original size:33 final size:33
Alignment explanation
Indices: 11082795--11082907 Score: 127
Period size: 33 Copynumber: 3.4 Consensus size: 33
11082785 TCTGCCCAGT
* * *
11082795 GCTGGGCACAAATTGTCGGTTCATCCAAATCGT
1 GCTGGGCACAAATTGTCGGTTCATCCAACTAGA
* *
11082828 GCTGGGCACAAATTGTCGGTTCATCCGACTAGC
1 GCTGGGCACAAATTGTCGGTTCATCCAACTAGA
* * *
11082861 GCTGGGCGCAATCACTGTTGGTTCATCCAACTAGA
1 GCTGGGCACAA--ATTGTCGGTTCATCCAACTAGA
*
11082896 GCTGGGCTCAAA
1 GCTGGGCACAAA
11082908 ATCAATATCG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
33 40 0.59
35 28 0.41
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.25
Consensus pattern (33 bp):
GCTGGGCACAAATTGTCGGTTCATCCAACTAGA
Found at i:11087911 original size:43 final size:41
Alignment explanation
Indices: 11087780--11087933 Score: 200
Period size: 42 Copynumber: 3.7 Consensus size: 41
11087770 TAAGTCTATG
*
11087780 TGTAAGACCATATCTAGGATATGGCATCAATATGAGACTTCG
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTCA
* *
11087822 TGTAAGACCATATCTGGGATATGACATCAATATGAGATTTCA
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTCA
* * * *
11087864 TGTAAGACCATAGCTAGGCTATTGGCATCGATATAAGATTACA
1 TGTAAGACCATATCTAGGATA-TGGCATCAATATGAGATT-CA
*
11087907 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
11087934 TGGTATGGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTCA
Found at i:11099102 original size:30 final size:30
Alignment explanation
Indices: 11099068--11099129 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11099058 ACTTATTTTA
*
11099068 TTGTT-AATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAAATTTT-TTATTATTTTAAAGGCAT
*
11099098 TTGTTAAATTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTTTATTATTTTAAAGGCAT
11099128 TT
1 TT
11099130 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAAATTTTTTATTATTTTAAAGGCAT
Found at i:11099596 original size:16 final size:16
Alignment explanation
Indices: 11099577--11099611 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11099567 ATATAGGTTC
11099577 AAAAAATAAATTTTAA
1 AAAAAATAAATTTTAA
* *
11099593 AAAATATATATTTTAA
1 AAAAAATAAATTTTAA
11099609 AAA
1 AAA
11099612 CGAACTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAAATAAATTTTAA
Found at i:11104148 original size:11 final size:11
Alignment explanation
Indices: 11104129--11104165 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
11104119 CATTAACAAG
11104129 AAAATAATAAC
1 AAAATAATAAC
* *
11104140 AATATAATAAT
1 AAAATAATAAC
11104151 AAAATAATAAC
1 AAAATAATAAC
11104162 AAAA
1 AAAA
11104166 AGTGAGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:11104200 original size:22 final size:21
Alignment explanation
Indices: 11104172--11104218 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
11104162 AAAAAGTGAG
*
11104172 AAAACAACAATAAAATATAAAA
1 AAAACAACAACAAAA-ATAAAA
*
11104194 AAAACAACAGCAAAAATAAAA
1 AAAACAACAACAAAAATAAAA
11104215 AAAA
1 AAAA
11104219 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.79, C:0.11, G:0.02, T:0.09
Consensus pattern (21 bp):
AAAACAACAACAAAAATAAAA
Found at i:11111408 original size:49 final size:47
Alignment explanation
Indices: 11111318--11111542 Score: 326
Period size: 47 Copynumber: 4.7 Consensus size: 47
11111308 TTAGGATTCT
* *
11111318 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
11111365 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
11111414 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
11111461 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
11111508 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
11111543 TCCCGAAGGG
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 116 0.71
49 46 0.28
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:11111418 original size:96 final size:94
Alignment explanation
Indices: 11111318--11111542 Score: 335
Period size: 96 Copynumber: 2.4 Consensus size: 94
11111308 TTAGGATTCT
*
11111318 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
11111382 GTGTATATATATGTGATAAGGCCTAATGGCCG
65 GTG--TATATATGTGACAAGGCCGAATGGCCA
*
11111414 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
11111479 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGTGACAAGGCCGAATGGCCA
* *
11111508 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
11111543 TCCCGAAGGG
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 54 0.46
95 1 0.01
96 63 0.53
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGACAAGGCCGAATGGCCA
Found at i:11111717 original size:37 final size:37
Alignment explanation
Indices: 11111661--11111739 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
11111651 CCGAGCTCTA
* *
11111661 AAGACCCGATGACTACGTGT-GAGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGA-GATTATGTCCGGGT
*
11111698 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
11111735 AAGAC
1 AAGAC
11111740 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:11113339 original size:28 final size:29
Alignment explanation
Indices: 11113299--11113408 Score: 65
Period size: 28 Copynumber: 4.0 Consensus size: 29
11113289 ACATGAACAC
*
11113299 CAAATTCAT-AACCCCAAATCATTGAACT
1 CAAACTCATAAACCCCAAATCATTGAACT
* ** *
11113327 CAAA-TCATAAACCCGAGCTCA-T-AACC
1 CAAACTCATAAACCCCAAATCATTGAACT
* *
11113353 CATAACCCA-AAACCCTTAAA-CATTGAACT
1 CA-AACTCATAAACCC-CAAATCATTGAACT
*
11113382 CAAA-TCATAAACCTCAAACTC-TTGAAC
1 CAAACTCATAAACCCCAAA-TCATTGAAC
11113409 CATAAACTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
26 5 0.08
27 20 0.33
28 30 0.49
29 6 0.10
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.21
Consensus pattern (29 bp):
CAAACTCATAAACCCCAAATCATTGAACT
Found at i:11113916 original size:3 final size:3
Alignment explanation
Indices: 11113910--11113935 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11113900 AAATGATGTA
11113910 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
11113936 AGGGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11116036 original size:33 final size:33
Alignment explanation
Indices: 11115994--11116058 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
11115984 ATCCTTCTGT
*
11115994 TTTTTTTTGT-TAAAAAAGTATTTTTATAAAGTC
1 TTTTTTTTGTCTAAAAAA-TATTTTTAAAAAGTC
* *
11116027 TTTTTTTTGTCTCAATAATATTTTTAAAAAGT
1 TTTTTTTTGTCTAAAAAATATTTTTAAAAAGT
11116059 TAAAAAGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (33 bp):
TTTTTTTTGTCTAAAAAATATTTTTAAAAAGTC
Found at i:11120460 original size:39 final size:40
Alignment explanation
Indices: 11120417--11120501 Score: 113
Period size: 38 Copynumber: 2.2 Consensus size: 40
11120407 TTGTCTGAAC
11120417 TAAAAACA-AGTATTAAAGACAT-CTAAACTAAGACAT-AT
1 TAAAAACATA-TATTAAAGACATCCTAAACTAAGACATAAT
* * *
11120455 TTAAAACATATATTAAAGATATCCTAAACTATGACATAAT
1 TAAAAACATATATTAAAGACATCCTAAACTAAGACATAAT
11120495 TAAAAAC
1 TAAAAAC
11120502 CCTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 18 0.45
39 14 0.35
40 8 0.20
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (40 bp):
TAAAAACATATATTAAAGACATCCTAAACTAAGACATAAT
Found at i:11120461 original size:38 final size:39
Alignment explanation
Indices: 11120419--11120499 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
11120409 GTCTGAACTA
*
11120419 AAAACA-AGTATTAAAGACAT-CTAAACTAAGACATATTT
1 AAAACATA-TATTAAAGACATCCTAAACTAAGACATAATT
* *
11120457 AAAACATATATTAAAGATATCCTAAACTATGACATAATT
1 AAAACATATATTAAAGACATCCTAAACTAAGACATAATT
11120496 AAAA
1 AAAA
11120500 ACCCTTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 17 0.45
39 21 0.55
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (39 bp):
AAAACATATATTAAAGACATCCTAAACTAAGACATAATT
Found at i:11122062 original size:20 final size:20
Alignment explanation
Indices: 11122037--11122084 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
11122027 ATAAATAAAA
*
11122037 TCATTCA-TTTCAATTCCATG
1 TCATTCACTGTCAATT-CATG
*
11122057 TCATTCACTGTCAATTCTTG
1 TCATTCACTGTCAATTCATG
11122077 TCATTCAC
1 TCATTCAC
11122085 AACTTCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.23, C:0.27, G:0.06, T:0.44
Consensus pattern (20 bp):
TCATTCACTGTCAATTCATG
Found at i:11122300 original size:21 final size:21
Alignment explanation
Indices: 11122263--11122321 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
11122253 ATATGCCAAC
11122263 AGAAGCTCG-AA-AGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAT
11122282 AGAAGCTCGTAAGAGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAT
11122303 AGAAGCTCGTAAGAGCTGA
1 AGAAGCTCGTAAGAGCTGA
11122322 TTCACCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.24
20 2 0.05
21 27 0.71
ACGTcount: A:0.39, C:0.15, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAT
Found at i:11145454 original size:13 final size:13
Alignment explanation
Indices: 11145436--11145461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11145426 GCTATTTTTG
11145436 CTTAAATAAATAA
1 CTTAAATAAATAA
11145449 CTTAAATAAATAA
1 CTTAAATAAATAA
11145462 ATAAATTAAC
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
CTTAAATAAATAA
Found at i:11145460 original size:17 final size:17
Alignment explanation
Indices: 11145438--11145470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11145428 TATTTTTGCT
*
11145438 TAAATAAATAACTTAAA
1 TAAATAAATAAATTAAA
11145455 TAAATAAATAAATTAA
1 TAAATAAATAAATTAA
11145471 CTTCGTGAAA
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATAAATAAATTAAA
Found at i:11155068 original size:17 final size:17
Alignment explanation
Indices: 11155048--11155087 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11155038 TTTTCACTTT
11155048 TTCTTTCTCTCTT-TTCG
1 TTCTTTCTCTCTTCTT-G
*
11155065 TTCTTTCTCTGTTCTTG
1 TTCTTTCTCTCTTCTTG
11155082 TTCTTT
1 TTCTTT
11155088 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.00, C:0.25, G:0.07, T:0.68
Consensus pattern (17 bp):
TTCTTTCTCTCTTCTTG
Found at i:11155109 original size:10 final size:11
Alignment explanation
Indices: 11155085--11155152 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 11
11155075 GTTCTTGTTC
11155085 TTTATTT-TA-
1 TTTATTTATAT
11155094 TTTATTTAT-T
1 TTTATTTATAT
11155104 TTTATTT-TAT
1 TTTATTTATAT
* *
11155114 TTTACATTATGT
1 TTTA-TTTATAT
11155126 TTTA-TTATAT
1 TTTATTTATAT
11155136 TATTATATTATAT
1 T-TTAT-TTATAT
11155149 TTTA
1 TTTA
11155153 GTAATAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
9 8 0.17
10 19 0.40
11 5 0.10
12 9 0.19
13 7 0.15
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (11 bp):
TTTATTTATAT
Found at i:11155167 original size:23 final size:23
Alignment explanation
Indices: 11155119--11155168 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11155109 TTTATTTTAC
* * *
11155119 ATTATGTTTTATTATATTATTAT
1 ATTATATTTTAGTATATAATTAT
11155142 ATTATATTTTAGTA-ATAATTATT
1 ATTATATTTTAGTATATAATTA-T
11155165 ATTA
1 ATTA
11155169 ACTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
ATTATATTTTAGTATATAATTAT
Found at i:11156018 original size:44 final size:44
Alignment explanation
Indices: 11155968--11156128 Score: 223
Period size: 44 Copynumber: 3.5 Consensus size: 44
11155958 TTGATCACAT
* *
11155968 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
11156012 TTATCACTTGTCATTGATCATATAAGTGTAGCTAAAGCTACCACTTATC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-C-C--A-C
11156061 ATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 --TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
11156107 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
11156129 AGTACTCAAA
Statistics
Matches: 106, Mismatches: 4, Indels: 14
0.85 0.03 0.11
Matches are distributed among these distances:
44 60 0.57
45 1 0.01
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 1 0.01
51 38 0.36
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:11156067 original size:51 final size:51
Alignment explanation
Indices: 11155965--11156121 Score: 220
Period size: 51 Copynumber: 3.2 Consensus size: 51
11155955 ACATTGATCA
*
11155965 CATTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTA-C-C--A-
1 CATTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
11156011 C--TTATCACTTGTCATTGATCATATAAGTGTAGCTAAAGCTACCACTTAT
1 CATTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
11156060 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CATTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
11156111 CACTTGTCACT
1 CATTTATCACT
11156122 GATCAGAAGT
Statistics
Matches: 98, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
44 38 0.39
45 1 0.01
46 2 0.02
48 1 0.01
49 1 0.01
51 55 0.56
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
CATTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:11168013 original size:22 final size:21
Alignment explanation
Indices: 11167966--11168029 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
11167956 ATAACCAAGT
* *
11167966 GGTTGCCCCAACTCAGTAACA
1 GGTTACCCCAACTCAGTTACA
* *
11167987 TGTTACCCCCAACTCAGTTAGA
1 GGTTA-CCCCAACTCAGTTACA
*
11168009 GGTTACCCTAACTCAGTTACA
1 GGTTACCCCAACTCAGTTACA
11168030 AACTTCCCCA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (21 bp):
GGTTACCCCAACTCAGTTACA
Found at i:11169066 original size:12 final size:11
Alignment explanation
Indices: 11169045--11169085 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
11169035 TCTCTATTTT
11169045 TTCTCTTCTCC
1 TTCTCTTCTCC
11169056 TTCTCCTTCTCC
1 TTCT-CTTCTCC
11169068 -T-TCTTCTCC
1 TTCTCTTCTCC
*
11169077 TCCTCTTCT
1 TTCTCTTCT
11169086 TTTTTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 7 0.27
10 1 0.04
11 11 0.42
12 7 0.27
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (11 bp):
TTCTCTTCTCC
Found at i:11169110 original size:21 final size:21
Alignment explanation
Indices: 11169041--11169111 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
11169031 AGCATCTCTA
* *
11169041 TTTTTTCTCTTCTCCTTCTCC
1 TTTTTTTTCTTCTCCTCCTCC
* **
11169062 TTCTCCTTCTTCTCCTCCTCTTC
1 TTTTTTTTCTTCTCCTCCTC--C
*
11169085 TTTTTTTTTCTTCTTCTCCTCC
1 -TTTTTTTTCTTCTCCTCCTCC
11169107 TTTTT
1 TTTTT
11169112 CTACTACCTA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 20 0.53
22 1 0.03
23 1 0.03
24 16 0.42
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTTTCTTCTCCTCCTCC
Found at i:11171663 original size:13 final size:13
Alignment explanation
Indices: 11171627--11171655 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11171617 AAATAAACAA
11171627 ATAACACTTTTTC
1 ATAACACTTTTTC
11171640 ATAACACTTTTTC
1 ATAACACTTTTTC
11171653 ATA
1 ATA
11171656 GCTCTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (13 bp):
ATAACACTTTTTC
Found at i:11176217 original size:129 final size:131
Alignment explanation
Indices: 11175987--11176246 Score: 497
Period size: 129 Copynumber: 2.0 Consensus size: 131
11175977 ATGATGAGTA
11175987 ATCCATTTCATTGAGATGTAGATTTCCTCAAGACCCTGTTTTCCAGGGTGAACTTACTTGAGGCG
1 ATCCATTTCATTGAGATGTAGATTTCCTCAAGACCCTGTTTTCCAGGGTGAACTTACTTGAGGCG
11176052 CTACATTGTTCATGACTTTACTGGATCTACGTGAGACC-TCC-CTTTTTTTCAATAAAAAATCTT
66 CTACATTGTTCATGACTTTACTGGATCTACGTGAGACCTTCCTCTTTTTTTCAATAAAAAATCTT
11176115 T
131 T
11176116 ATCCATTTCATTGAGATGTAGATTTCCTCAAGACCCTGTTTTCCAGGGTGAACTTACTTGAGGCG
1 ATCCATTTCATTGAGATGTAGATTTCCTCAAGACCCTGTTTTCCAGGGTGAACTTACTTGAGGCG
*
11176181 CTACATTGTTCATGACTTTACTGGATCTACGTGAGACCTTCCTTTTTTTTTCAATAAAAAATCTT
66 CTACATTGTTCATGACTTTACTGGATCTACGTGAGACCTTCCTCTTTTTTTCAATAAAAAATCTT
11176246 T
131 T
11176247 CTTTTCTGCT
Statistics
Matches: 128, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
129 103 0.80
130 3 0.02
131 22 0.17
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (131 bp):
ATCCATTTCATTGAGATGTAGATTTCCTCAAGACCCTGTTTTCCAGGGTGAACTTACTTGAGGCG
CTACATTGTTCATGACTTTACTGGATCTACGTGAGACCTTCCTCTTTTTTTCAATAAAAAATCTT
T
Found at i:11184643 original size:72 final size:72
Alignment explanation
Indices: 11184557--11184699 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
11184547 GGGCTTGCAT
* ** *
11184557 TTTGCTGCTCGCAACTATACACCTTTGACAGGCTCGCTTTTTTGCTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
11184622 CTTCAAC
66 CTTCAAC
* ***
11184629 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAGTTGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
11184694 CTTCAA
66 CTTCAA
11184700 TAGGCTCGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
CTTCAAC
Found at i:11186806 original size:21 final size:21
Alignment explanation
Indices: 11186720--11186810 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 21
11186710 TAAACACCAC
11186720 ACCCTAAATCTCAAATCATAA
1 ACCCTAAATCTCAAATCATAA
* * * *
11186741 CCCCTTGAGAT-TAAAAACGATAA
1 ACCC-T-AAATCTCAAATC-ATAA
* * * *
11186764 A-CCTTAATCCCAACACCTTAA
1 ACCCTAAATCTCAA-ATCATAA
11186785 ACCCTAAATCTCAAATCATAA
1 ACCCTAAATCTCAAATCATAA
11186806 ACCCT
1 ACCCT
11186811 TAAAACTCCA
Statistics
Matches: 49, Mismatches: 15, Indels: 12
0.64 0.20 0.16
Matches are distributed among these distances:
20 2 0.04
21 20 0.41
22 20 0.41
23 7 0.14
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.23
Consensus pattern (21 bp):
ACCCTAAATCTCAAATCATAA
Found at i:11186858 original size:14 final size:15
Alignment explanation
Indices: 11186841--11186873 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11186831 CCTAACACCC
*
11186841 AAACCCCAA-TCCTT
1 AAACCCCAAGTCCTA
11186855 AAACCCCAAGTCCTA
1 AAACCCCAAGTCCTA
11186870 AAAC
1 AAAC
11186874 TAACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.42, C:0.39, G:0.03, T:0.15
Consensus pattern (15 bp):
AAACCCCAAGTCCTA
Found at i:11186920 original size:28 final size:28
Alignment explanation
Indices: 11186882--11186955 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
11186872 ACTAACTTTT
* * *
11186882 AAACCCATAAAATGTAAATCATAAATCCC
1 AAACCC-TAAAATATAAACCATAAATCAC
* * *
11186911 AAACCCTAAACTATAACCCATAAATCAT
1 AAACCCTAAAATATAAACCATAAATCAC
*
11186939 AAACCCTAAAATCTAAA
1 AAACCCTAAAATATAAA
11186956 AATAAATTTC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 30 0.83
29 6 0.17
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.20
Consensus pattern (28 bp):
AAACCCTAAAATATAAACCATAAATCAC
Found at i:11187118 original size:9 final size:8
Alignment explanation
Indices: 11187100--11187156 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 8
11187090 TTTATATGTT
11187100 AATTTAAA
1 AATTTAAA
11187108 AATTATAAAA
1 AATT-T-AAA
11187118 ATATTTAAAA
1 A-ATTT-AAA
*
11187128 AAATTAAA
1 AATTTAAA
11187136 AA-TTAAA
1 AATTTAAA
11187143 AA-TTAAA
1 AATTTAAA
11187150 AATTTAA
1 AATTTAA
11187157 TATTTTAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
7 14 0.32
8 13 0.30
9 4 0.09
10 10 0.23
11 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:11187143 original size:6 final size:7
Alignment explanation
Indices: 11187126--11187153 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11187116 AAATATTTAA
11187126 AAAAATT
1 AAAAATT
11187133 AAAAATT
1 AAAAATT
11187140 AAAAATT
1 AAAAATT
11187147 AAAAATT
1 AAAAATT
11187154 TAATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:11191473 original size:43 final size:43
Alignment explanation
Indices: 11191426--11191514 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 43
11191416 GTTATATAGT
* * * * *
11191426 GGCGTCTTGAAAAAAAGTGCTGCTAAATGTCATGGTTTTTAGC
1 GGCGTCTTGAAAAAAAGCGCCGCGAAAAGTCATGGTCTTTAGC
* ** *
11191469 GGCGTTTTTTAAAAAAGCGCCGCGAAAAGTCTTGGTCTTTAGC
1 GGCGTCTTGAAAAAAAGCGCCGCGAAAAGTCATGGTCTTTAGC
11191512 GGC
1 GGC
11191515 ATTTTTTTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
GGCGTCTTGAAAAAAAGCGCCGCGAAAAGTCATGGTCTTTAGC
Found at i:11193122 original size:11 final size:11
Alignment explanation
Indices: 11193066--11193125 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
11193056 TAATTATTAG
*
11193066 TTATTAATATT
1 TTATTATTATT
*
11193077 TTAATT-TGATT
1 TT-ATTATTATT
* * *
11193088 TTTTTATGATA
1 TTATTATTATT
11193099 TT-TTATTATT
1 TTATTATTATT
11193109 TTATTATTATT
1 TTATTATTATT
11193120 TTATTA
1 TTATTA
11193126 GTATATGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
10 10 0.25
11 27 0.68
12 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTATTATTATT
Found at i:11202261 original size:16 final size:16
Alignment explanation
Indices: 11202240--11202271 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11202230 CTGTAAGAAG
11202240 ATTGATAGCTTTATTT
1 ATTGATAGCTTTATTT
11202256 ATTGATAGCTTTATTT
1 ATTGATAGCTTTATTT
11202272 TAGCAACATA
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:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTGATAGCTTTATTT
Found at i:11205834 original size:19 final size:19
Alignment explanation
Indices: 11205812--11205851 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11205802 TTTTTCTTTT
11205812 TCTTTTTTAAATTTAACTC
1 TCTTTTTTAAATTTAACTC
11205831 TCTTTTTTAAATTTAACTC
1 TCTTTTTTAAATTTAACTC
11205850 TC
1 TC
11205852 AATTACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.57
Consensus pattern (19 bp):
TCTTTTTTAAATTTAACTC
Found at i:11205999 original size:26 final size:26
Alignment explanation
Indices: 11205950--11206004 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
11205940 TTATATTAGT
* *
11205950 ATTTTTTAATTTTTATACACTTTTCA
1 ATTTTTAAATTTTTATACACTTTTAA
*
11205976 ATTTTTAAATTTTT-TATCATTTTTAA
1 ATTTTTAAATTTTTATA-CACTTTTAA
11206002 ATT
1 ATT
11206005 ATGTATTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTTTAAATTTTTATACACTTTTAA
Found at i:11206167 original size:24 final size:22
Alignment explanation
Indices: 11206140--11206184 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
11206130 TTTTTAAAGT
11206140 TAATGACTAAATTTAACTAAAAAA
1 TAATGACTAAA-TTAAC-AAAAAA
**
11206164 TAATGGTTAAATTAACAAAAA
1 TAATGACTAAATTAACAAAAA
11206185 TGTAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (22 bp):
TAATGACTAAATTAACAAAAAA
Found at i:11209834 original size:13 final size:13
Alignment explanation
Indices: 11209818--11209859 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11209808 TAATTTTGAC
*
11209818 TTTTTTATTTTAT
1 TTTTTTATTTTAA
* *
11209831 TTTTTTACTTAAA
1 TTTTTTATTTTAA
11209844 TTTTTTATTTTAA
1 TTTTTTATTTTAA
11209857 TTT
1 TTT
11209860 GATATTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTTAA
Found at i:11209868 original size:26 final size:26
Alignment explanation
Indices: 11209818--11209869 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11209808 TAATTTTGAC
* **
11209818 TTTTTTATTTTATTTTTTTACTTAAA
1 TTTTTTATTTTAATTTGATACTTAAA
*
11209844 TTTTTTATTTTAATTTGATATTTAAA
1 TTTTTTATTTTAATTTGATACTTAAA
11209870 ATATTAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTTTATTTTAATTTGATACTTAAA
Found at i:11222101 original size:41 final size:39
Alignment explanation
Indices: 11222034--11222164 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
11222024 TAATATACAT
* * * * *
11222034 TAGCGGCGTTTGTCCGAAACGCCACTAAAAGCTAAACTA
1 TAGCGGCGTTTTTCCAAAACGCCACTAAAAGCTGATCAA
* *
11222073 TAGCGGCGTTTTTGCCAAAAACGCCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTT-CC-AAAACGCCACTAAAAGCTGATCAA
* *
11222114 TAGTGGCGTTTTTATCAAAACGCCACTAAAAGCTGATCAA
1 TAGCGGCGTTTTT-CCAAAACGCCACTAAAAGCTGATCAA
11222154 TAGCGGCGTTT
1 TAGCGGCGTTT
11222165 GAATCTCAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 12 0.16
40 34 0.44
41 31 0.40
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (39 bp):
TAGCGGCGTTTTTCCAAAACGCCACTAAAAGCTGATCAA
Found at i:11222154 original size:40 final size:41
Alignment explanation
Indices: 11222050--11222279 Score: 158
Period size: 41 Copynumber: 5.9 Consensus size: 41
11222040 CGTTTGTCCG
* * * **
11222050 AAACGCCACTAAAAGCTAAACTATAGCGGCGTTTTTGCCAA
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTATCAA
* * *
11222091 AAACGCCACTAAAAACTGGTCAATAGTGGCGTTTTTATC-A
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTATCAA
** **
11222131 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTGAATCTC
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTATCAA
* **
11222172 AAACGCCACT--AA----AT---T-GCGGCGTTTTTTTCCC
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTATCAA
* * * * * *
11222203 AAACGCCACAAAAAACCGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTATCAA
* * * *
11222244 AAACGCCATTAAAAACTGATTAATAGCGGTGTTTTT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTT
11222280 GGTCCAAACG
Statistics
Matches: 149, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
31 21 0.14
32 1 0.01
33 2 0.01
35 2 0.01
37 2 0.01
39 2 0.01
40 36 0.24
41 83 0.56
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTTATCAA
Found at i:11222278 original size:41 final size:41
Alignment explanation
Indices: 11222187--11222298 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 41
11222177 CCACTAAATT
* * *
11222187 GCGGCGTTTTTTTCCCAAACGCCACAAAAAACCGATCAATT
1 GCGGCGTTTTTATCCAAAACGCCACAAAAAACCGATCAATA
* ** * *
11222228 GTGGCGTTTTTATCCAAAACGCCATTAAAAACTGATTAATA
1 GCGGCGTTTTTATCCAAAACGCCACAAAAAACCGATCAATA
* * *
11222269 GCGGTGTTTTTGGTCC-AAACGCCGCAAAAA
1 GCGGCGTTTTT-ATCCAAAACGCCACAAAAA
11222299 GTTTAGCAGG
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 53 0.95
42 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
GCGGCGTTTTTATCCAAAACGCCACAAAAAACCGATCAATA
Found at i:11222485 original size:41 final size:41
Alignment explanation
Indices: 11222420--11222535 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
11222410 AACGCCACTA
* *
11222420 AATTGCGGCGTTTTTTTCCCAAACGCCACAAAAAACTGATC
1 AATTGCGGCGTTTTTATCCAAAACGCCACAAAAAACTGATC
* * ** *
11222461 AATTGTGGCGTTTTTATCTAAAACGCCATTAAAAACTGATT
1 AATTGCGGCGTTTTTATCCAAAACGCCACAAAAAACTGATC
* * * *
11222502 AATAGCGGTGTTTTTGGTCC-AAACGCCGCAAAAA
1 AATTGCGGCGTTTTT-ATCCAAAACGCCACAAAAA
11222536 GTTTAGCAGG
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
41 57 0.97
42 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
AATTGCGGCGTTTTTATCCAAAACGCCACAAAAAACTGATC
Found at i:11222546 original size:237 final size:237
Alignment explanation
Indices: 11222131--11222605 Score: 932
Period size: 237 Copynumber: 2.0 Consensus size: 237
11222121 GTTTTTATCA
11222131 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTGAATCTCAAACGCCACTAAATTGCGGCGTTT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTGAATCTCAAACGCCACTAAATTGCGGCGTTT
11222196 TTTTCCCAAACGCCACAAAAAACCGATCAATTGTGGCGTTTTTATCCAAAACGCCATTAAAAACT
66 TTTTCCCAAACGCCACAAAAAACCGATCAATTGTGGCGTTTTTATCCAAAACGCCATTAAAAACT
11222261 GATTAATAGCGGTGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGCAGGCATTTTTTAGTAGGGTA
131 GATTAATAGCGGTGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGCAGGCATTTTTTAGTAGGGTA
11222326 ACCGACACTCGTTTTGATTTGATCTGATTTAATTTTCATATT
196 ACCGACACTCGTTTTGATTTGATCTGATTTAATTTTCATATT
11222368 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTGAATCTCAAACGCCACTAAATTGCGGCGTTT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTGAATCTCAAACGCCACTAAATTGCGGCGTTT
* *
11222433 TTTTCCCAAACGCCACAAAAAACTGATCAATTGTGGCGTTTTTATCTAAAACGCCATTAAAAACT
66 TTTTCCCAAACGCCACAAAAAACCGATCAATTGTGGCGTTTTTATCCAAAACGCCATTAAAAACT
11222498 GATTAATAGCGGTGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGCAGGCATTTTTTAGTAGGGTA
131 GATTAATAGCGGTGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGCAGGCATTTTTTAGTAGGGTA
11222563 ACCGACACTCGTTTTGATTTGATCTGATTTAATTTTCATATT
196 ACCGACACTCGTTTTGATTTGATCTGATTTAATTTTCATATT
11222605 A
1 A
11222606 TTTTCTTATT
Statistics
Matches: 236, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 236 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (237 bp):
AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTGAATCTCAAACGCCACTAAATTGCGGCGTTT
TTTTCCCAAACGCCACAAAAAACCGATCAATTGTGGCGTTTTTATCCAAAACGCCATTAAAAACT
GATTAATAGCGGTGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGCAGGCATTTTTTAGTAGGGTA
ACCGACACTCGTTTTGATTTGATCTGATTTAATTTTCATATT
Found at i:11222878 original size:28 final size:28
Alignment explanation
Indices: 11222818--11222893 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
11222808 TGGCTTTCTG
* *
11222818 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAATCTTAAACATTAAAACA
*
11222847 TAAACCCTAAATTTTAAATCA-TAAAACA
1 TAAACCCTAAATCTTAAA-CATTAAAACA
*
11222875 TAAACACT-AATCTATAAAC
1 TAAACCCTAAATCT-TAAAC
11222894 TCCAAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 26 0.65
29 9 0.22
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAACATTAAAACA
Found at i:11224861 original size:14 final size:15
Alignment explanation
Indices: 11224842--11224871 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11224832 TGTGTTTATA
11224842 TAAATACAT-AATTC
1 TAAATACATAAATTC
11224856 TAAATACATAAATTC
1 TAAATACATAAATTC
11224871 T
1 T
11224872 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:11229115 original size:371 final size:373
Alignment explanation
Indices: 11228288--11229200 Score: 1803
Period size: 371 Copynumber: 2.5 Consensus size: 373
11228278 CTTGTCCATT
*
11228288 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
11228353 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
11228418 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
11228483 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
11228548 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
11228613 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
11228661 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
11228726 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
11228791 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTG-AAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
11228855 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
11228920 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
11228984 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
11229032 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
11229097 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
11229162 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
11229201 TGTTTCAATT
Statistics
Matches: 539, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
371 245 0.45
372 118 0.22
373 176 0.33
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (373 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
Found at i:11229313 original size:24 final size:24
Alignment explanation
Indices: 11229286--11229353 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
11229276 ATTATTATTG
*
11229286 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
11229310 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
11229334 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
11229354 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:11229574 original size:15 final size:15
Alignment explanation
Indices: 11229530--11229585 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
11229520 AACGACATGT
11229530 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
11229546 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
11229559 ATATTATTTAATTAA
1 ATATTATTTAATTAA
11229574 ATATTATTTAAT
1 ATATTATTTAAT
11229586 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:11229702 original size:9 final size:9
Alignment explanation
Indices: 11229690--11229906 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
11229680 TATTTGATAT
*
11229690 CATAATTTA
1 CATAACTTA
11229699 CATAACTTA
1 CATAACTTA
* *
11229708 TATAACATA
1 CATAACTTA
*
11229717 TATAACTTA
1 CATAACTTA
11229726 CATAACTTA
1 CATAACTTA
* *
11229735 TATAACATA
1 CATAACTTA
11229744 CATAACTTA
1 CATAACTTA
*
11229753 TATAACTTA
1 CATAACTTA
* *
11229762 GATAA-ATA
1 CATAACTTA
*
11229770 TATAACTTA
1 CATAACTTA
11229779 CATAACTTA
1 CATAACTTA
11229788 CATAATACTTA
1 CAT-A-ACTTA
* *
11229799 AATATATTTTATA
1 CATA-A--CT-TA
*
11229812 TCATAATTTA
1 -CATAACTTA
11229822 CATAACTTA
1 CATAACTTA
11229831 CATAACTTA
1 CATAACTTA
*
11229840 TATAACTTA
1 CATAACTTA
* *
11229849 GATAA-ATA
1 CATAACTTA
* *
11229857 TATAATTTA
1 CATAACTTA
*
11229866 CATAA-ATA
1 CATAACTTA
* * *
11229874 TATATCATA
1 CATAACTTA
*
11229883 TCATAAATTA
1 -CATAACTTA
11229893 CATAACTTA
1 CATAACTTA
11229902 CATAA
1 CATAA
11229907 TATATATCAT
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 121 0.73
10 11 0.07
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:11229712 original size:18 final size:18
Alignment explanation
Indices: 11229690--11229906 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
11229680 TATTTGATAT
* *
11229690 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
11229708 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
11229726 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
11229744 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
11229762 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
11229779 CATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* *
11229799 AATATA-TTTTAT-A--T-
1 CATA-ACTTATATAACTTA
* *
11229813 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
11229831 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
11229849 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
11229866 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
11229883 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
11229902 CATAA
1 CATAA
11229907 TATATATCAT
Statistics
Matches: 156, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 2 0.01
17 40 0.26
18 84 0.54
19 9 0.06
20 12 0.08
21 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:11229813 original size:123 final size:123
Alignment explanation
Indices: 11229659--11229906 Score: 347
Period size: 123 Copynumber: 2.0 Consensus size: 123
11229649 TGAAATAAAA
*
11229659 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTATATAACATATATAACT
1 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACATAACATATATAACT
* * * * *
11229724 TACATAACTTATATAACATACATAACTTATATAACTTA-GATAAA-TATATAACTTACAT
66 TACATAA-ATATATAACATACATAA-ATATATAACATATCATAAATTACATAACTTACAT
* * *
11229782 AACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTATATAACT
1 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACATAACATATATAACT
* ** *
11229847 TAGATAAATATATAATTTACATAAATATATATCATATCATAAATTACATAACTTACAT
66 TACATAAATATATAACATACATAAATATATAACATATCATAAATTACATAACTTACAT
11229905 AA
1 AA
11229907 TATATATCAT
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
121 9 0.08
122 19 0.17
123 82 0.75
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (123 bp):
AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACATAACATATATAACT
TACATAAATATATAACATACATAAATATATAACATATCATAAATTACATAACTTACAT
Found at i:11229894 original size:114 final size:114
Alignment explanation
Indices: 11229699--11229908 Score: 271
Period size: 114 Copynumber: 1.8 Consensus size: 114
11229689 TCATAATTTA
* * * * *
11229699 CATAACTTATATAACATATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
*
11229764 TAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATAT
66 TAAATATATAAATTACATAACTTACATAATACTTAAATATATTTTATAT
* * * * * *
11229813 CATAATTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
*
11229876 TATCATATCATAAATTACATAACTTACATAATA
66 TA-AATAT-ATAAATTACATAACTTACATAATA
11229909 TATATCATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
112 5 0.06
113 18 0.22
114 58 0.72
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (114 bp):
CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
TAAATATATAAATTACATAACTTACATAATACTTAAATATATTTTATAT
Found at i:11229914 original size:35 final size:35
Alignment explanation
Indices: 11229718--11229922 Score: 175
Period size: 35 Copynumber: 5.8 Consensus size: 35
11229708 TATAACATAT
* * *
11229718 ATAACTTACATAACTTATATAACATACATAACTTAT
1 ATAACTTACATAA-ATATATAACATACATAAATTAC
* * *
11229754 ATAACTTAGATAAATATATAACTTACATAACTTAC
1 ATAACTTACATAAATATATAACATACATAAATTAC
* *** *
11229789 ATAA--TACTTAAATATATTTTATATCATAATTTAC
1 ATAACTTACATAAATATATAACATA-CATAAATTAC
* * * *
11229823 ATAACTTACATAACTTATATAACTTAGATAAA-TAT
1 ATAACTTACATAA-ATATATAACATACATAAATTAC
* *
11229858 ATAATTTACATAAATATATATCATATCATAAATTAC
1 ATAACTTACATAAATATATAACATA-CATAAATTAC
*
11229894 ATAACTTACAT-AATATATATCATATCATA
1 ATAACTTACATAAATATATAACATA-CATA
11229923 CATAACTAGT
Statistics
Matches: 136, Mismatches: 27, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
33 13 0.10
34 22 0.16
35 60 0.44
36 34 0.25
37 7 0.05
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (35 bp):
ATAACTTACATAAATATATAACATACATAAATTAC
Found at i:11229936 original size:114 final size:114
Alignment explanation
Indices: 11229709--11229958 Score: 249
Period size: 114 Copynumber: 2.2 Consensus size: 114
11229699 CATAACTTAT
* * * * *
11229709 ATAACATATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATAAATATATA
* ** * *
11229774 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC-
66 AATTACATAACTTACATAATAC-TAAATATATCATACATAATAATTTACG
* * * * *
11229823 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATA-AATAT-A
* *
11229886 TAAATTACATAACTTACATAATA-TATATCATATCATACATAACTAGTTTACG
64 TAAATTACATAACTTACATAATACTAAAT-ATATCATACATAA-TAATTTACG
* *
11229938 A-AATTTACTTAACTTACATAA
1 ATAACTTACATAACTTACATAA
11229959 TACATAAATC
Statistics
Matches: 111, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
112 9 0.08
113 27 0.24
114 74 0.67
115 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (114 bp):
ATAACTTACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTAAATATATCATACATAATAATTTACG
Found at i:11235979 original size:43 final size:43
Alignment explanation
Indices: 11235931--11236032 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
11235921 AATATGCCAA
11235931 ATTTAGCGGC-ATTTGT-AAAAAAAGCGCCGCTAAAAGCCTTGAC
1 ATTTAGCGGCGATTT-TCAAAAAAA-CGCCGCTAAAAGCCTTGAC
* ** *
11235974 ATTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
1 ATTTAGCGGCGATTTTCAAAAAAACGCCGCTAAAAGCCTTGAC
* * *
11236017 CTTTAGCAGCGTTTTT
1 ATTTAGCGGCGATTTT
11236033 TCCCAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 43 0.86
44 7 0.14
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
ATTTAGCGGCGATTTTCAAAAAAACGCCGCTAAAAGCCTTGAC
Found at i:11246406 original size:31 final size:31
Alignment explanation
Indices: 11246371--11246482 Score: 110
Period size: 31 Copynumber: 3.8 Consensus size: 31
11246361 TTAATATAAC
*
11246371 ATTTGGTATCTAAACTTGATAATTTTTTCTA
1 ATTTGGTACCTAAACTTGATAATTTTTTCTA
*
11246402 ATTTGGTACCTAAAC-T--T--TTTTGTCTA
1 ATTTGGTACCTAAACTTGATAATTTTTTCTA
* * * *
11246428 ATTTGATATCC-AAACTTGACACTTTTTCCTA
1 ATTTGGTA-CCTAAACTTGATAATTTTTTCTA
*
11246459 ATTTGGTACCTAAACTTAATAATT
1 ATTTGGTACCTAAACTTGATAATT
11246483 CTCTTAAGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
26 19 0.30
27 3 0.05
28 1 0.02
30 3 0.05
31 38 0.59
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGATAATTTTTTCTA
Found at i:11247682 original size:24 final size:23
Alignment explanation
Indices: 11247625--11247689 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
11247615 AATTAACAAT
* *
11247625 TATAAATTAAATATTATAATTAT
1 TATAAAATAAATATTATAATTAA
*
11247648 TTTAAATATAAAT-TTAATAATATAA
1 TATAAA-ATAAATATT-ATAAT-TAA
*
11247673 TATAAAATAAAAATTAT
1 TATAAAATAAATATTAT
11247690 TGTTGTAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
23 7 0.21
24 17 0.52
25 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAAAATAAATATTATAATTAA
Found at i:11249605 original size:19 final size:19
Alignment explanation
Indices: 11249581--11249634 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
11249571 ATCCGGGACT
*
11249581 AATTTAAAATAA-TTCAAAA
1 AATTTAAAAAAAGTT-AAAA
11249600 AATTTAGAAAAAAGTTAAAA
1 AATTTA-AAAAAAGTTAAAA
11249620 AATTTGAAAACAAAG
1 AATTT-AAAA-AAAG
11249635 GTCACACGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.20
20 17 0.57
21 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (19 bp):
AATTTAAAAAAAGTTAAAA
Found at i:11256266 original size:12 final size:12
Alignment explanation
Indices: 11256249--11256279 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11256239 AGTTTGTACA
11256249 TTTAAATAATGT
1 TTTAAATAATGT
*
11256261 TTTAAATTATGT
1 TTTAAATAATGT
11256273 TTTAAAT
1 TTTAAAT
11256280 GCTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
TTTAAATAATGT
Found at i:11256449 original size:29 final size:30
Alignment explanation
Indices: 11256411--11256476 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
11256401 CTATCGAATT
*
11256411 ATGAAAAGGGTTGGTGATGACCATC-AACA
1 ATGAAAAGGGGTGGTGATGACCATCGAACA
11256440 ATGAAAAGGGGTGGTGATGACCATCGAACA
1 ATGAAAAGGGGTGGTGATGACCATCGAACA
11256470 ATGAAAA
1 ATGAAAA
11256477 TGGATATCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGGTGGTGATGACCATCGAACA
Found at i:11256496 original size:30 final size:30
Alignment explanation
Indices: 11256462--11256524 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
11256452 GGTGATGACC
* *
11256462 ATCGAACAATGAAAATGGATATCTTCAGCT
1 ATCGAACAATGAAAAGGGATAGCTTCAGCT
** *
11256492 ATCGAATTATGAACAGGGATAGCTTCAGCT
1 ATCGAACAATGAAAAGGGATAGCTTCAGCT
11256522 ATC
1 ATC
11256525 AAATTATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (30 bp):
ATCGAACAATGAAAAGGGATAGCTTCAGCT
Found at i:11256556 original size:30 final size:29
Alignment explanation
Indices: 11256522--11256600 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
11256512 AGCTTCAGCT
* * * *
11256522 ATCAAATTATAAAAAGTGATGGTGGCGACC
1 ATCAAA-TATGAAAAGGGATGGTGACAACC
11256552 ATCAACA-ATGAAAAGGGATGGTGACAACC
1 ATCAA-ATATGAAAAGGGATGGTGACAACC
11256581 ATCAAATAATGAAAAGGGAT
1 ATCAAAT-ATGAAAAGGGAT
11256601 AGCTTCGGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 23 0.55
30 17 0.40
31 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.19
Consensus pattern (29 bp):
ATCAAATATGAAAAGGGATGGTGACAACC
Found at i:11256566 original size:29 final size:30
Alignment explanation
Indices: 11256533--11256600 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
11256523 TCAAATTATA
* * *
11256533 AAAAGTGATGGTGGCGACCATC-AACAATG
1 AAAAGGGATGGTGACAACCATCAAACAATG
*
11256562 AAAAGGGATGGTGACAACCATCAAATAATG
1 AAAAGGGATGGTGACAACCATCAAACAATG
11256592 AAAAGGGAT
1 AAAAGGGAT
11256601 AGCTTCGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.16
Consensus pattern (30 bp):
AAAAGGGATGGTGACAACCATCAAACAATG
Found at i:11256592 original size:119 final size:119
Alignment explanation
Indices: 11256381--11256614 Score: 308
Period size: 119 Copynumber: 2.0 Consensus size: 119
11256371 TGTTAAAACA
* * * *
11256381 ATGAAAAGGGATAGCCTCGCCTATCGAATTATGAAAAGGGTTGGTGATGACCATCAACAATGAAA
1 ATGAAAAGGGATAGCCTCGCCTATCAAATTATAAAAAGGGATGGTGACGACCATCAACAATGAAA
* ** * * *
11256446 AGGGGTGGTGATGACCATCGAACAATGAAAATGGATATCTTCAGCTATCGAATT
66 AGGGATGGTGACAACCATCAAACAATGAAAAGGGATAGCTTCAGCTATCGAATT
* * * *
11256500 ATGAACAGGGATAGCTTCAG-CTATCAAATTATAAAAAGTGATGGTGGCGACCATCAACAATGAA
1 ATGAAAAGGGATAGCCTC-GCCTATCAAATTATAAAAAGGGATGGTGACGACCATCAACAATGAA
* *
11256564 AAGGGATGGTGACAACCATCAAATAATGAAAAGGGATAGCTTCGGCTATCG
65 AAGGGATGGTGACAACCATCAAACAATGAAAAGGGATAGCTTCAGCTATCG
11256615 TGCTATGAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 97 0.99
120 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (119 bp):
ATGAAAAGGGATAGCCTCGCCTATCAAATTATAAAAAGGGATGGTGACGACCATCAACAATGAAA
AGGGATGGTGACAACCATCAAACAATGAAAAGGGATAGCTTCAGCTATCGAATT
Found at i:11267891 original size:47 final size:47
Alignment explanation
Indices: 11267831--11267925 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
11267821 AAAACCAAGC
11267831 CAACATTAGCATCATAATTGATATATCATCACATGTATTTAAACTTA
1 CAACATTAGCATCATAATTGATATATCATCACATGTATTTAAACTTA
11267878 CAACATTAGCATCATAATTGATATATCATCACATGTATTTAAACTTA
1 CAACATTAGCATCATAATTGATATATCATCACATGTATTTAAACTTA
11267925 C
1 C
11267926 CTTTTGAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (47 bp):
CAACATTAGCATCATAATTGATATATCATCACATGTATTTAAACTTA
Found at i:11275375 original size:6 final size:6
Alignment explanation
Indices: 11275364--11275389 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11275354 ATTATGTCAC
11275364 TGCATG TGCATG TGCATG TGCATG TG
1 TGCATG TGCATG TGCATG TGCATG TG
11275390 TTTTTCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.35, T:0.35
Consensus pattern (6 bp):
TGCATG
Found at i:11277928 original size:3 final size:3
Alignment explanation
Indices: 11277922--11277959 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11277912 CACCAATGCT
11277922 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11277960 TGTTAGGAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11280127 original size:23 final size:20
Alignment explanation
Indices: 11280097--11280139 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
11280087 ATAAAAATTA
11280097 TTATTTTTAAATATTGTATTAAT
1 TTATTTTT--ATATT-TATTAAT
11280120 TTATTTTTATATTTATTAAT
1 TTATTTTTATATTTATTAAT
11280140 AACTATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
23 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATTTTTATATTTATTAAT
Found at i:11280220 original size:21 final size:23
Alignment explanation
Indices: 11280178--11280230 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
11280168 TATTATAAGT
** *
11280178 ATATAAAACAATATTCTTTCTA-
1 ATATAAAACAATATAATATCTAG
11280200 ATATAAAAC-ATATAATATCTAG
1 ATATAAAACAATATAATATCTAG
11280222 ATATTAAAA
1 ATA-TAAAA
11280231 TAATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 12 0.46
23 5 0.19
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAAAACAATATAATATCTAG
Found at i:11281447 original size:18 final size:18
Alignment explanation
Indices: 11281424--11281460 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11281414 CGAATAACTT
*
11281424 AGTCATTCAGGGGGTCAA
1 AGTCATTCAGGGGATCAA
*
11281442 AGTCATTCTGGGGATCAA
1 AGTCATTCAGGGGATCAA
11281460 A
1 A
11281461 CGTAGTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (18 bp):
AGTCATTCAGGGGATCAA
Found at i:11282502 original size:20 final size:19
Alignment explanation
Indices: 11282466--11282512 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
11282456 AAATGGTTTG
11282466 ACTTG-TTAAAAGAATTTTT
1 ACTTGATTAAAAGAA-TTTT
**
11282485 ACTTGATTAAAATCATTTT
1 ACTTGATTAAAAGAATTTT
11282504 AGCTTGATT
1 A-CTTGATT
11282513 TTAAAGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.47
Consensus pattern (19 bp):
ACTTGATTAAAAGAATTTT
Found at i:11283514 original size:11 final size:12
Alignment explanation
Indices: 11283488--11283521 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
11283478 AAGAAGAGGA
11283488 AGAAAACCTAAG
1 AGAAAACCTAAG
11283500 AGAAAACCT-AG
1 AGAAAACCTAAG
11283511 AGAAAA-CTAAG
1 AGAAAACCTAAG
11283522 CCTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 10 0.48
12 9 0.43
ACGTcount: A:0.59, C:0.15, G:0.18, T:0.09
Consensus pattern (12 bp):
AGAAAACCTAAG
Found at i:11289794 original size:5 final size:5
Alignment explanation
Indices: 11289775--11289819 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
11289765 AAAAAAATTC
* *
11289775 AAAATG AAAAA AAAAG AAAAG AAAAG AAAAG AGAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
11289820 AATAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:11291503 original size:96 final size:98
Alignment explanation
Indices: 11291386--11291618 Score: 269
Period size: 96 Copynumber: 2.3 Consensus size: 98
11291376 AATTTTAAGG
* * ** *
11291386 TTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACT-AATTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGAGTTACTTAAGTAAATTAATTA-TAAATTT
* *
11291450 T-AAAAAATTAGATTATGG-TTTAGTGTTTATGGT
65 TAAAAAAATTAGATTA-GGATTTAGGGTTTAGGGT
*
11291483 TTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGAGTTACTTAAGTAAATTAATTATAAATTTT
11291547 AAAAAAATTAGATTAGGATTTTAGGGTTTAGGG-
66 AAAAAAATTAGATTAGGA-TTTAGGGTTTAGGGT
*
11291580 TTTTAGGGTATTTAAAAAAAATCAAATAAATTAGGGTTT
1 TTTTAAGG------AAAAAAATCAAATAAATTAGGGTTT
11291619 GGGGTTTAGG
Statistics
Matches: 116, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
95 1 0.01
96 50 0.43
97 29 0.25
98 12 0.10
104 24 0.21
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (98 bp):
TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGAGTTACTTAAGTAAATTAATTATAAATTTT
AAAAAAATTAGATTAGGATTTAGGGTTTAGGGT
Found at i:11291583 original size:15 final size:15
Alignment explanation
Indices: 11291559--11291588 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11291549 AAAAATTAGA
11291559 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
11291574 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
11291589 ATTTAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:11291886 original size:126 final size:126
Alignment explanation
Indices: 11291672--11292207 Score: 826
Period size: 126 Copynumber: 4.3 Consensus size: 126
11291662 AGCTTCTATA
*
11291672 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
*
11291737 GTGTCAAAAACGCTTCAAGCAGGATGTATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
66 GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
* * * *
11291798 TGGACGCTCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTTTGTGCAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
* * *
11291863 GTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAAAAGCTTCCACG
66 GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
*
11291924 TGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
*
11291989 GTGGT-AAAAACGCTTCAAGCAGGATGCATT-TCCAGCAAAATTACT-AGAAGAAGCTCCCACG
66 GT-GTCAAAAACGCTTCAAGCAGGATGCATTGT-CAGCAAAAGTACTGA-AAGAAGCTCCCACG
* * * * **
11292050 TAGATGCTCTTTTGCTACAGTGGTCTCTGGAAAAATAATTTTGAGAAGACGTGTCTGCATAAATA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
*
11292115 GTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCACG
66 GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
* * * *
11292176 TAGACGCTATTTTGCTACAGTGGTTTCTGAAA
1 TGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
11292208 TAACTTAGGC
Statistics
Matches: 375, Mismatches: 29, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
125 4 0.01
126 367 0.98
127 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
TGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATA
GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
Found at i:11295404 original size:116 final size:116
Alignment explanation
Indices: 11295229--11295611 Score: 667
Period size: 116 Copynumber: 3.3 Consensus size: 116
11295219 TTTATATTTT
* * *
11295229 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
11295294 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
* *
11295345 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATCA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
11295410 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
11295461 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
11295526 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACTTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
*
11295577 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
11295612 TGTACAAATA
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 254 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
Found at i:11295408 original size:61 final size:59
Alignment explanation
Indices: 11295224--11295523 Score: 218
Period size: 61 Copynumber: 5.1 Consensus size: 59
11295214 TATTATTTAT
*
11295224 ATTTTATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTC
1 ATTTTATCACATGAAATAATATAAAAATATTCAAAAT-TTGCTTTATTTAAAATAA-TTTC
* * * * *
11295285 ATTTTAT----T-AAA-AATATAAAAGTAAATT-ATAA-TTACTTTATTTAAAACAACATTTT
1 ATTTTATCACATGAAATAATATAAAA--ATATTCAAAATTTGCTTTATTTAAAA-TA-ATTTC
* *
11295340 ATATTATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCC
1 ATTTTATCACATGAAATAATATAAAAATATTCAAAAT-TTGCTTTATTTAAAATAATTT-C
* * * *
11295401 ATTTTATCA-A--AAAT-ATA-AAAGTAA-ATT-ACAA-TTACTTTATTTAAAACAACCTTTT
1 ATTTTATCACATGAAATAATATAAA--AATATTCAAAATTTGCTTTATTTAAAATAA--TTTC
* * * *
11295456 ATCTAATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCC
1 ATTTTATCACATGAAATAATATAAAAATATTCAAAAT-TTGCTTTATTTAAAATAATTT-C
11295517 ATTTTAT
1 ATTTTAT
11295524 TAAAAATATA
Statistics
Matches: 183, Mismatches: 28, Indels: 56
0.69 0.10 0.21
Matches are distributed among these distances:
54 29 0.16
55 25 0.14
56 17 0.09
57 11 0.06
58 12 0.07
59 11 0.06
60 20 0.11
61 30 0.16
62 28 0.15
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (59 bp):
ATTTTATCACATGAAATAATATAAAAATATTCAAAATTTGCTTTATTTAAAATAATTTC
Found at i:11296022 original size:18 final size:18
Alignment explanation
Indices: 11295996--11296038 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11295986 GACTAGAAAA
* *
11295996 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
11296014 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
11296032 AGGATAC
1 AGGATAC
11296039 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11296132 original size:30 final size:30
Alignment explanation
Indices: 11296091--11296155 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
11296081 GTTGAACTGT
* *
11296091 TGGGCCCGGTGACTGTGTAGGTC-CTGTTGC
1 TGGGCCCGGTGACTGTGT-GGGCGCTGTTGA
* *
11296121 TGGGCCGGGTGATTGTGTGGGCGCTGTTGA
1 TGGGCCCGGTGACTGTGTGGGCGCTGTTGA
11296151 TGGGC
1 TGGGC
11296156 TTGCGTCGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.06, C:0.18, G:0.46, T:0.29
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTGGGCGCTGTTGA
Found at i:11296664 original size:7 final size:7
Alignment explanation
Indices: 11296654--11296680 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11296644 GTTAAATAAA
11296654 AAATACT
1 AAATACT
11296661 AAATACT
1 AAATACT
11296668 AAATACT
1 AAATACT
11296675 AAATAC
1 AAATAC
11296681 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:11296665 original size:14 final size:14
Alignment explanation
Indices: 11296646--11296679 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11296636 AAATATTAGT
11296646 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
11296660 TAAATACTAAATAC
1 TAAATAAAAAATAC
11296674 TAAATA
1 TAAATA
11296680 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:11297803 original size:15 final size:15
Alignment explanation
Indices: 11297783--11297813 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11297773 TTTTTATTTT
*
11297783 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
11297798 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
11297813 A
1 A
11297814 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:11297873 original size:20 final size:22
Alignment explanation
Indices: 11297840--11297892 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
11297830 TAACGAGAGT
11297840 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
11297862 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
11297882 TTTGAG-GGAAT
1 TTTGAGAGGAAT
11297893 ATTGAAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 18 0.64
21 3 0.11
22 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:11297885 original size:11 final size:11
Alignment explanation
Indices: 11297840--11297887 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
11297830 TAACGAGAGT
*
11297840 TTTGAGAGGAA
1 TTTGAGAGAAA
*
11297851 TTTAAGAGAAA
1 TTTGAGAGAAA
11297862 TTTGAGAG--A
1 TTTGAGAGAAA
11297871 TTTGAGAGAAA
1 TTTGAGAGAAA
11297882 TTTGAG
1 TTTGAG
11297888 GGAATATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 9 0.28
11 23 0.72
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:11297903 original size:31 final size:31
Alignment explanation
Indices: 11297840--11297903 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
11297830 TAACGAGAGT
* *
11297840 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
* *
11297871 TTTGAGAGAAATTTGAG-GGAATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
11297902 TT
1 TT
11297904 GCAGATTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:11301016 original size:15 final size:15
Alignment explanation
Indices: 11300996--11301025 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11300986 CATTTTATTT
*
11300996 ATATTAGGATAATTA
1 ATATTAAGATAATTA
11301011 ATATTAAGATAATTA
1 ATATTAAGATAATTA
11301026 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:11301053 original size:27 final size:26
Alignment explanation
Indices: 11300992--11301054 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11300982 ACTCCATTTT
11300992 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
11301019 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
11301047 ATTTTATT
1 ATTTTATT
11301055 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11302386 original size:21 final size:20
Alignment explanation
Indices: 11302357--11302407 Score: 84
Period size: 21 Copynumber: 2.5 Consensus size: 20
11302347 ATTTTCTGTT
11302357 CTGCTCCGCCTCCCTCGCTG
1 CTGCTCCGCCTCCCTCGCTG
11302377 CTGCTTCCGCCTCCCTCGCTG
1 CTGC-TCCGCCTCCCTCGCTG
11302398 CTGCCTCCGC
1 CTG-CTCCGC
11302408 TCTAAGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.00, C:0.55, G:0.20, T:0.25
Consensus pattern (20 bp):
CTGCTCCGCCTCCCTCGCTG
Found at i:11302995 original size:18 final size:18
Alignment explanation
Indices: 11302963--11303000 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
11302953 TACAATATAG
11302963 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
11302982 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
11302999 TA
1 TA
11303001 CTTAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:11307931 original size:9 final size:9
Alignment explanation
Indices: 11307917--11307992 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
11307907 TTTAAGGAAA
*
11307917 TTATGTGAG
1 TTATGTAAG
11307926 TTATGTAAGTTG
1 TTATGTAA---G
*
11307938 TTATGTAAA
1 TTATGTAAG
11307947 TTATGTAAG
1 TTATGTAAG
* *
11307956 TTATATGAG
1 TTATGTAAG
11307965 TTATGTAAG
1 TTATGTAAG
*
11307974 TTATGTAAT
1 TTATGTAAG
*
11307983 TTATTTAAG
1 TTATGTAAG
11307992 T
1 T
11307993 AATGATCAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 45 0.83
12 9 0.17
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11309026 original size:53 final size:53
Alignment explanation
Indices: 11308961--11309102 Score: 214
Period size: 53 Copynumber: 2.7 Consensus size: 53
11308951 GTGGCATATC
* *
11308961 ATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATT
1 ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATT
*
11309014 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATT
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATT
** *
11309067 GCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
11309103 GCACACTTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 1 0.01
53 81 0.99
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (53 bp):
ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATT
Found at i:11313420 original size:53 final size:53
Alignment explanation
Indices: 11313339--11313489 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
11313329 CTTACACGGT
* *
11313339 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
11313394 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
11313447 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
11313490 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:11318141 original size:96 final size:97
Alignment explanation
Indices: 11317974--11318160 Score: 322
Period size: 96 Copynumber: 1.9 Consensus size: 97
11317964 TAATTTTTAA
11317974 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
* * *
11318039 TCAATATGTTCTTAAG-AAAAATAAAAATTAG
66 TCAATATATCCCTAAGTAAAAATAAAAATTAG
*
11318070 GAATGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
*
11318135 TTAATATATCCCTAAGTAAAAATAAA
66 TCAATATATCCCTAAGTAAAAATAAA
11318161 TAAATTAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
96 76 0.89
97 9 0.11
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (97 bp):
GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
TCAATATATCCCTAAGTAAAAATAAAAATTAG
Found at i:11318726 original size:15 final size:15
Alignment explanation
Indices: 11318706--11318735 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11318696 CATTTTATTT
11318706 ATATTAAGATAATTA
1 ATATTAAGATAATTA
11318721 ATATTAAGATAATTA
1 ATATTAAGATAATTA
11318736 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:11320725 original size:28 final size:28
Alignment explanation
Indices: 11320687--11320748 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
11320677 CTGATGGACA
*
11320687 GAGAG-GAAGGAGAACGACTGTTGTGAAT
1 GAGAGTGAAGGAGAACGACTGCTGTG-AT
11320715 -AGAGTGAAGGAGAACGACTGCTGTGAT
1 GAGAGTGAAGGAGAACGACTGCTGTGAT
11320742 GAGAGTG
1 GAGAGTG
11320749 GAGAAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.34, C:0.08, G:0.40, T:0.18
Consensus pattern (28 bp):
GAGAGTGAAGGAGAACGACTGCTGTGAT
Done.