Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 37
Found at i:510984 original size:22 final size:22
Alignment explanation
Indices: 510935--510983 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
510925 ATAAATTATT
**
510935 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
510957 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
510980 TAAA
1 TAAA
510984 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:511002 original size:22 final size:22
Alignment explanation
Indices: 510977--511020 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
510967 CAATCCATAC
510977 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
510999 TAATCCATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
511021 CAATTCATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:511029 original size:22 final size:22
Alignment explanation
Indices: 510987--511029 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
510977 TAATAAATTA
*
510987 TTTAAAATAAATTAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
511009 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
511030 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:511170 original size:77 final size:76
Alignment explanation
Indices: 511045--511188 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 76
511035 AAATTATTAA
*
511045 AATAAATCAATCAATATTTTAAAAATCAATCAATATTAATAAATTATTTAAAATAAATCAATCCA
1 AATAAATCAATCAATATTTTAAAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
511110 TACACTACAAT
66 TACACTACAAT
* *
511121 AATAAATCAATCTATATTTTAAAAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCC
1 AATAAATCAATCAATATTTT-AAAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCC
511186 ATA
65 ATA
511189 TTTTAAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
76 19 0.30
77 45 0.70
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (76 bp):
AATAAATCAATCAATATTTTAAAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
TACACTACAAT
Found at i:511184 original size:32 final size:30
Alignment explanation
Indices: 511135--511279 Score: 94
Period size: 22 Copynumber: 5.3 Consensus size: 30
511125 AATCAATCTA
*
511135 TATTTTAAA-AAATCAATCTATACTAATAAAT
1 TATTTAAAATAAATCAATC-ATACTAAT-AAT
511166 TATTTAAAATAAATCAATC---C--AT-A-
1 TATTTAAAATAAATCAATCATACTAATAAT
511189 T-TTTAAAATAAATCAATCCATACTAATAAT
1 TATTTAAAATAAATCAAT-CATACTAATAAT
511219 TATTTAAAAT-AATC-ATC---C--AT-A-
1 TATTTAAAATAAATCAATCATACTAATAAT
*
511240 T-TTTGAAATAAATCAATCTATACTAATAAAT
1 TATTTAAAATAAATCAATC-ATACTAAT-AAT
511271 TATTTAAAA
1 TATTTAAAA
511280 ATCAATCCAT
Statistics
Matches: 89, Mismatches: 3, Indels: 43
0.66 0.02 0.32
Matches are distributed among these distances:
20 7 0.08
21 5 0.06
22 20 0.22
23 4 0.04
24 1 0.01
25 1 0.01
26 4 0.04
28 6 0.07
29 3 0.03
30 6 0.07
31 17 0.19
32 15 0.17
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (30 bp):
TATTTAAAATAAATCAATCATACTAATAAT
Found at i:511291 original size:29 final size:28
Alignment explanation
Indices: 511142--511291 Score: 90
Period size: 26 Copynumber: 5.6 Consensus size: 28
511132 CTATATTTTA
*
511142 AAAAATCAATCTATACTAATAAATTATTT
1 AAAAATCAATCCATACTAAT-AATTATTT
* * * *
511171 -AAAATAAATCAAT-C-CAT-ATT-TTAA
1 AAAAATCAATCCATACTAATAATTATT-T
511195 AATAAATCAATCCATACTAATAATTATTT
1 AA-AAATCAATCCATACTAATAATTATTT
* *
511224 -AAAAT-AAT-CAT-C-CAT-ATT-TTGA
1 AAAAATCAATCCATACTAATAATTATT-T
*
511246 AATAAATCAATCTATACTAATAAATTATTT
1 AA-AAATCAATCCATACTAAT-AATTATTT
511276 AAAAATCAATCCATAC
1 AAAAATCAATCCATAC
511292 AACTACAATA
Statistics
Matches: 90, Mismatches: 14, Indels: 34
0.65 0.10 0.25
Matches are distributed among these distances:
21 2 0.02
22 3 0.03
23 5 0.06
24 8 0.09
25 7 0.08
26 17 0.19
27 7 0.08
28 16 0.18
29 16 0.18
30 7 0.08
31 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAATCAATCCATACTAATAATTATTT
Found at i:511433 original size:128 final size:129
Alignment explanation
Indices: 511036--511573 Score: 495
Period size: 128 Copynumber: 4.2 Consensus size: 129
511026 CATACTAATA
* *
511036 AATTATTAAAATAAATCAATCAATATTTT--AA-AAATCAATCAATATTAATAAATTATTTAAAA
1 AATT-TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAA
*** * * * ** * * * *
511098 TAAATCAATCCATACACTACAATAATAAATCAAT-CT-ATATTTTA-AAAAATCAATCTATACTA
65 TAAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTAAAATAAATCAAT-C-C
511160 AT
128 AT
*
511162 AAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
1 -AA-T-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
* * *
511226 AAT-AATC-ATCCATATTTTGAAATAAATCAATCTATACTAATAAATTATT-TAA-AAATCAATC
63 AATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTAAAATAAATCAATC
511287 CAT
127 CAT
* ** * *
511290 ACAACTACAATAATAAACCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 --AATTTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
511355 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTAAAATAAATCAATC
63 AATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTAAAATAAATCAATC
511419 CAT
127 CAT
* ** * * * *
511422 -ATTTTAAAATAAATCAATCTATACTAATAATTATTTAAAGTAAATCAAT-C-GATACAACTA--
1 AATTTTAAAATAAATCAATCCATA-TTTTAA--A-ATAAA-TCAATCAATACTAATA-AATTATT
*
511482 T--AATAAATCAATTCATATTTTAAAATAATCAATCCATACTAATAAATTATTTAAAATAAATCA
60 TAAAATAAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTA-TTAAAATAAATCA
511545 ATCCAT
124 ATCCAT
511551 -ATTTTAAAATAAATCAATCCATA
1 AATTTTAAAATAAATCAATCCATA
511574 CTAATAAATT
Statistics
Matches: 347, Mismatches: 40, Indels: 46
0.80 0.09 0.11
Matches are distributed among these distances:
127 22 0.06
128 121 0.35
129 79 0.23
130 35 0.10
131 62 0.18
132 21 0.06
133 7 0.02
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (129 bp):
AATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAAT
AAATCAATCCATATTTTAAAATAATCAATCCATACTAATAAATTATTAAAATAAATCAATCCAT
Found at i:511440 original size:22 final size:22
Alignment explanation
Indices: 511350--511392 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
511340 TAATAAATTA
511350 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
511372 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
511393 CTAATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:511544 original size:32 final size:32
Alignment explanation
Indices: 511500--511870 Score: 140
Period size: 32 Copynumber: 12.4 Consensus size: 32
511490 CAATTCATAT
511500 TTTAAAAT-AATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
511531 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
511553 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
511585 TTTAAAATAAATC-A---AT-CT-AT--ATT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
511608 TTAAAAATAAATCAATTCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
511640 -TTAAAATAAATC-ATCCATATTTAAAATAAATCAATA
1 TTTAAAATAAATCAATCCATA-CT--AATAAAT---TA
** * * ** * *
511676 CATACTAATAAAT-TATTTAAAATAAATAAATCTA
1 TTTA-AAATAAATCAATCCATACT-AATAAAT-TA
* * * * *
511710 -TTCAACTACAAT-AAT--AAACCAATCCACA-T-
1 TTTAAAATA-AATCAATCCATACTAAT--AAATTA
511739 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
511771 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
511793 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
511825 TTT-AAATAAATCAA-CCATATTTATAATAAATTA
1 TTTAAAATAAATCAATCCATA---CTAATAAATTA
511858 TTTTAAAATAAAT
1 -TTTAAAATAAAT
511871 TATTTTAAAA
Statistics
Matches: 260, Mismatches: 27, Indels: 102
0.67 0.07 0.26
Matches are distributed among these distances:
22 32 0.12
23 15 0.06
24 6 0.02
26 8 0.03
27 4 0.02
28 9 0.03
29 5 0.02
30 27 0.10
31 44 0.17
32 50 0.19
33 23 0.09
34 5 0.02
35 8 0.03
36 10 0.04
37 3 0.01
38 11 0.04
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:511557 original size:22 final size:22
Alignment explanation
Indices: 511531--511573 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
511521 TAATAAATTA
511531 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
511553 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
511574 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:511568 original size:129 final size:129
Alignment explanation
Indices: 511355--511601 Score: 435
Period size: 129 Copynumber: 1.9 Consensus size: 129
511345 AATTATTTAA
511355 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTAAAATAAATCAATCC
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTAAAATAAATCAATCC
* *
511420 ATATTTTAAAATAAATCAATCTATACTAAT-AATTATTTAAAGTAAATCAATCGATACAACTAT
66 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCGATACAACTAT
*
511483 AATAAATCAATTCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTA-TTAAAATAAATCAAT
511547 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
64 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
511602 TATATTTTAA
Statistics
Matches: 113, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
127 17 0.15
128 29 0.26
129 46 0.41
130 21 0.19
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (129 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTAAAATAAATCAATCC
ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCGATACAACTAT
Found at i:511582 original size:22 final size:22
Alignment explanation
Indices: 511533--511581 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
511523 ATAAATTATT
**
511533 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
511555 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
511578 TAAA
1 TAAA
511582 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:511781 original size:54 final size:53
Alignment explanation
Indices: 511722--511855 Score: 209
Period size: 54 Copynumber: 2.5 Consensus size: 53
511712 CAACTACAAT
* *
511722 AATAAACCAATCCACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT-A
*
511776 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
*
511829 AATAAATCAA-CCATA-TTTATAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAAT
511856 TATTTTAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
51 11 0.14
52 5 0.07
53 11 0.14
54 49 0.64
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (53 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
Found at i:511822 original size:22 final size:22
Alignment explanation
Indices: 511773--511821 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
511763 ATAAATTATT
**
511773 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
511795 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
511818 TAAA
1 TAAA
511822 TTATTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:511832 original size:31 final size:34
Alignment explanation
Indices: 511790--511870 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 34
511780 AATCAATCCA
*
511790 TATTTTAAAATAAATCAATC-TA-TACTAATAAAT
1 TATTTTAAAATAAATCAACCATATTA-TAATAAAT
511823 TA-TTT-AAATAAATCAACCATATTTATAATAAAT
1 TATTTTAAAATAAATCAACCATA-TTATAATAAAT
511856 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
511871 TATTTTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
31 12 0.29
32 5 0.12
33 12 0.29
34 5 0.12
35 8 0.19
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (34 bp):
TATTTTAAAATAAATCAACCATATTATAATAAAT
Found at i:511867 original size:15 final size:15
Alignment explanation
Indices: 511844--511885 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
511834 ATCAACCATA
*
511844 TTTATAATAAATTAT
1 TTTAAAATAAATTAT
511859 TTTAAAATAAATTAT
1 TTTAAAATAAATTAT
511874 TTTAAAATAAAT
1 TTTAAAATAAAT
511886 AACCTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAAATAAATTAT
Found at i:511911 original size:28 final size:26
Alignment explanation
Indices: 511866--511934 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 26
511856 TATTTTAAAA
511866 TAAATTATTTTAAAATAAATAACCTTTAG
1 TAAATTA-TTTAAAATAAATAA-C-TTAG
*
511895 TAAATTATTTAAAATAAATAACTTAT
1 TAAATTATTTAAAATAAATAACTTAG
511921 TAAATTA-TTAAAAT
1 TAAATTATTTAAAAT
511935 TATTTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 7 0.18
26 10 0.26
27 1 0.03
28 14 0.36
29 7 0.18
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (26 bp):
TAAATTATTTAAAATAAATAACTTAG
Found at i:511912 original size:14 final size:15
Alignment explanation
Indices: 511844--511918 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
511834 ATCAACCATA
* *
511844 TTTATAATAAATTAT
1 TTTAAAATAAATTAC
*
511859 TTTAAAATAAATTAT
1 TTTAAAATAAATTAC
*
511874 TTTAAAATAAATAACC
1 TTTAAAATAAATTA-C
*
511890 TTT--AGTAAATTA-
1 TTTAAAATAAATTAC
*
511902 TTTAAAATAAATAAC
1 TTTAAAATAAATTAC
511917 TT
1 TT
511919 ATTAAATTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
12 3 0.06
14 14 0.29
15 29 0.59
16 3 0.06
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (15 bp):
TTTAAAATAAATTAC
Found at i:513760 original size:168 final size:168
Alignment explanation
Indices: 513551--513886 Score: 656
Period size: 168 Copynumber: 2.0 Consensus size: 168
513541 AGCTTTGTGG
513551 CTCTTTCAAGTGCATGTACAATTTAAGGACTAAGGCTTTAGTTTGCCCAAATATTCTAATGTGAT
1 CTCTTTCAAGTGCATGTACAATTTAAGGACTAAGGCTTTAGTTTGCCCAAATATTCTAATGTGAT
513616 GAATCATCATGTGTCATCAAATGTTAATTTAACTATTTT-TTAATTAAAGAAATGAACAATTTAA
66 GAATCATCATGTGTCATCAAATGTTAATTTAACTATTTTCTTAATTAAAGAAATGAACAATTTAA
513680 TGCAAATCGGTGGGGGTAATCTACGGCAACAACATTTT
131 TGCAAATCGGTGGGGGTAATCTACGGCAACAACATTTT
513718 CTCTTTCAAGTGCATGTACAAGTTTAAGGACTAAGGCTTTAGTTTGCCCAAATATTCTAATGTGA
1 CTCTTTCAAGTGCATGTACAA-TTTAAGGACTAAGGCTTTAGTTTGCCCAAATATTCTAATGTGA
513783 TGAATCATCATGTGTCATCAAATGTTAATTTAACTATTTTCTTAATTAAAGAAATGAACAATTTA
65 TGAATCATCATGTGTCATCAAATGTTAATTTAACTATTTTCTTAATTAAAGAAATGAACAATTTA
513848 ATGCAAATCGGTGGGGGTAATCTACGGCAACAACATTTT
130 ATGCAAATCGGTGGGGGTAATCTACGGCAACAACATTTT
513887 GCAAGGAGAG
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
167 21 0.13
168 83 0.50
169 63 0.38
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (168 bp):
CTCTTTCAAGTGCATGTACAATTTAAGGACTAAGGCTTTAGTTTGCCCAAATATTCTAATGTGAT
GAATCATCATGTGTCATCAAATGTTAATTTAACTATTTTCTTAATTAAAGAAATGAACAATTTAA
TGCAAATCGGTGGGGGTAATCTACGGCAACAACATTTT
Found at i:516175 original size:16 final size:16
Alignment explanation
Indices: 516154--516188 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
516144 TTTAAAAAAC
*
516154 TAAATTTAAATATTTT
1 TAAATTTAAATAATTT
*
516170 TAAATTTAACTAATTT
1 TAAATTTAAATAATTT
516186 TAA
1 TAA
516189 GCTTGAACTA
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:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTTAAATAATTT
Found at i:516389 original size:27 final size:27
Alignment explanation
Indices: 516337--516393 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
516327 ATTTCGATTC
*
516337 ATTAAAAATTCAAATAAAATCTATTTAA
1 ATTAAAAATT-AAATAAAATCAATTTAA
*
516365 ATTAAAAATT-AATCAAATCAAATTTAA
1 ATTAAAAATTAAATAAAATC-AATTTAA
516392 AT
1 AT
516394 AACTTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 8 0.31
28 10 0.38
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTAAAAATTAAATAAAATCAATTTAA
Found at i:534278 original size:45 final size:37
Alignment explanation
Indices: 534255--534351 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
534245 TTTTATGAAA
*
534255 AATATTTTAAAATTCATGTAATTAT-ATTATTTTTTG
1 AATATTTTAAAATTCATGTAATTATAACTATTTTTTG
*
534291 AATATTTTAAAATTCATGTAATTAT-ATTATTATTTTTG
1 AATATTTTAAAATTCATGTAATTATAACTA-T-TTTTTG
**
534329 AATATTTTACTATTCATGTAATT
1 AATATTTTAAAATTCATGTAATT
534352 GTATTATTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
36 29 0.51
37 1 0.02
38 27 0.47
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (37 bp):
AATATTTTAAAATTCATGTAATTATAACTATTTTTTG
Found at i:534336 original size:38 final size:38
Alignment explanation
Indices: 534255--534370 Score: 182
Period size: 38 Copynumber: 3.1 Consensus size: 38
534245 TTTTATGAAA
534255 AATATTTTAAAATTCATGTAATTATATTA-T-TTTTTG
1 AATATTTTAAAATTCATGTAATTATATTATTATTTTTG
534291 AATATTTTAAAATTCATGTAATTATATTATTATTTTTG
1 AATATTTTAAAATTCATGTAATTATATTATTATTTTTG
** * *
534329 AATATTTTACTATTCATGTAATTGTATTATTATTTTTA
1 AATATTTTAAAATTCATGTAATTATATTATTATTTTTG
534367 AATA
1 AATA
534371 GAATGTAATT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
36 29 0.39
37 1 0.01
38 44 0.59
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (38 bp):
AATATTTTAAAATTCATGTAATTATATTATTATTTTTG
Found at i:542045 original size:2 final size:2
Alignment explanation
Indices: 542038--542075 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
542028 TAAAATTCTT
542038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
542076 GATCTAGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:544129 original size:31 final size:34
Alignment explanation
Indices: 544064--544130 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 34
544054 ATTCAAATCA
*
544064 AAATTTTATATTTAAATGATTCAAATGTTATTATC
1 AAATTTTATATTTAAA-GATTCAAATATTATTATC
544099 AAATTTTATATTT-AA-ATT-AAATATTATTATC
1 AAATTTTATATTTAAAGATTCAAATATTATTATC
544130 A
1 A
544131 GTTAAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 13 0.42
32 3 0.10
34 2 0.06
35 13 0.42
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (34 bp):
AAATTTTATATTTAAAGATTCAAATATTATTATC
Found at i:545745 original size:2 final size:2
Alignment explanation
Indices: 545738--545763 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
545728 ATAAATTTTA
545738 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
545764 GGAGTATTTA
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:555630 original size:30 final size:30
Alignment explanation
Indices: 555573--555631 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
555563 ATTGTAATAA
*
555573 AAAAGTTATCAAATCGTCCAAACATCTTCT
1 AAAAGTTATCAAATCGGCCAAACATCTTCT
* *
555603 AAAAGTTATCTAAT-GGCCTAAATATCTTC
1 AAAAGTTATCAAATCGGCC-AAACATCTTC
555632 CTACTTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAAGTTATCAAATCGGCCAAACATCTTCT
Found at i:556065 original size:3 final size:3
Alignment explanation
Indices: 556051--556085 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
556041 TCTTTGTTTG
*
556051 ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
556086 ATCAGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:557024 original size:15 final size:15
Alignment explanation
Indices: 557006--557049 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
556996 ATTATCAATA
*
557006 TTATTATAAATATTT
1 TTATTTTAAATATTT
557021 TTATTTTAAATTAGTTT
1 TTATTTTAAA-TA-TTT
557038 TT-TTTTAAATAT
1 TTATTTTAAATAT
557050 ATTCAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 9 0.35
17 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTATTTTAAATATTT
Found at i:560699 original size:22 final size:21
Alignment explanation
Indices: 560674--560765 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 21
560664 ACTGAACATA
*
560674 TAAACTAACAGTAAATGAA-TAC
1 TAAAC-AACACTAAATGAACT-C
560696 TAAACAAGCACTAAATGAACTC
1 TAAACAA-CACTAAATGAACTC
* *
560718 TAAACGAACACTAAA-CAAGCAC
1 TAAAC-AACACTAAATGAA-CTC
* *
560740 TAAACGAACACTGAATGAACGC
1 TAAAC-AACACTAAATGAACTC
560762 TAAA
1 TAAA
560766 AGAATATGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.07
22 50 0.85
23 5 0.08
ACGTcount: A:0.52, C:0.21, G:0.11, T:0.16
Consensus pattern (21 bp):
TAAACAACACTAAATGAACTC
Found at i:560708 original size:11 final size:10
Alignment explanation
Indices: 560694--560751 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 10
560684 GTAAATGAAT
560694 ACTAAACAAGC
1 ACTAAACAA-C
*
560705 ACTAAATGAAC
1 ACTAAA-CAAC
*
560716 TCTAAACGAAC
1 ACTAAAC-AAC
560727 ACTAAACAAGC
1 ACTAAACAA-C
560738 ACTAAACGAAC
1 ACTAAAC-AAC
560749 ACT
1 ACT
560752 GAATGAACGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 2 0.05
11 33 0.85
12 4 0.10
ACGTcount: A:0.52, C:0.26, G:0.09, T:0.14
Consensus pattern (10 bp):
ACTAAACAAC
Found at i:560765 original size:33 final size:33
Alignment explanation
Indices: 560674--560765 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
560664 ACTGAACATA
* * * *
560674 TAAACTAACAGTAAATGAATACTAAACAAGCAC
1 TAAACGAACACTAAACGAACACTAAACAAGCAC
* *
560707 TAAATGAACTCTAAACGAACACTAAACAAGCAC
1 TAAACGAACACTAAACGAACACTAAACAAGCAC
* * *
560740 TAAACGAACACTGAATGAACGCTAAA
1 TAAACGAACACTAAACGAACACTAAA
560766 AGAATATGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.52, C:0.21, G:0.11, T:0.16
Consensus pattern (33 bp):
TAAACGAACACTAAACGAACACTAAACAAGCAC
Found at i:565563 original size:2 final size:2
Alignment explanation
Indices: 565558--565582 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
565548 CAATGAGCGG
565558 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 T
565583 TGCAGTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:574179 original size:12 final size:11
Alignment explanation
Indices: 574162--574199 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
574152 AAGATATATT
574162 AATAAATAAATA
1 AATAAAT-AATA
574174 AATAAATAAT-
1 AATAAATAATA
574184 AATATAATAATA
1 AATA-AATAATA
574196 AATA
1 AATA
574200 GTAATAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 9 0.38
12 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAATAATA
Found at i:574219 original size:22 final size:21
Alignment explanation
Indices: 574166--574215 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
574156 TATATTAATA
574166 AATAAATAAATAAATAATAATAT
1 AATAAATAAAT-AATAATAA-AT
* *
574189 AAT-AATAAATAGTAAT-AGT
1 AATAAATAAATAATAATAAAT
574208 AATAAATA
1 AATAAATA
574216 TAAAGGGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 4 0.17
20 5 0.21
21 5 0.21
22 7 0.29
23 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
AATAAATAAATAATAATAAAT
Found at i:574964 original size:19 final size:19
Alignment explanation
Indices: 574908--574970 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
574898 CTATTTAAAC
**
574908 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
574928 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
574948 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
574967 TAAA
1 TAAA
574971 CTAAAAATAC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:575016 original size:76 final size:76
Alignment explanation
Indices: 574928--575093 Score: 237
Period size: 76 Copynumber: 2.2 Consensus size: 76
574918 AAAAAATAAT
*
574928 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAAATACAAAGATAAAGA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACT-AAAATACAAAGATAAA-A
574992 TAAAAT-ATAAAA
64 TAAAATGATAAAA
* *
575004 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
575069 TAATGTTTAAA
66 AAATGATAAAA
*
575080 ATATTATCCTAAAT
1 ATAATATCCTAAAT
575094 TTGAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
75 6 0.08
76 58 0.73
77 16 0.20
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:576959 original size:20 final size:19
Alignment explanation
Indices: 576927--576967 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
576917 TAAAGTTCGC
*
576927 TAAAAAAATAAAACGAAAA
1 TAAAAAAATAAAACAAAAA
576946 TAAAAAAATAAAAACAAAAA
1 TAAAAAAAT-AAAACAAAAA
576966 TA
1 TA
576968 TAACGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.12
Consensus pattern (19 bp):
TAAAAAAATAAAACAAAAA
Found at i:581772 original size:33 final size:33
Alignment explanation
Indices: 581730--581798 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
581720 CCTAGCAAGC
*
581730 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
*
581763 GTTTCATCTCGCGCCGCAACTTCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
581796 GTT
1 GTT
581799 CCCTCGCGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.32
Consensus pattern (33 bp):
GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:581808 original size:31 final size:33
Alignment explanation
Indices: 581730--581808 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
581720 CCTAGCAAGC
* *
581730 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
* *
581763 GTTTCATCTCGCGCCGCAACTTCCTTGGTCAGA
1 GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
581796 G-TTC-CCTCGCGCC
1 GTTTCACCTCGCGCC
581809 TCACGCACCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 8 0.19
32 3 0.07
33 32 0.74
ACGTcount: A:0.13, C:0.37, G:0.22, T:0.29
Consensus pattern (33 bp):
GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:593547 original size:7 final size:7
Alignment explanation
Indices: 593532--593567 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
593522 TCCTAAGTTG
593532 AAAAA-A
1 AAAAACA
593538 AAAAACA
1 AAAAACA
593545 AAAAACA
1 AAAAACA
593552 AAAAACA
1 AAAAACA
593559 AAAAA-A
1 AAAAACA
593565 AAA
1 AAA
593568 CGTTTAGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 9 0.31
7 20 0.69
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:595288 original size:105 final size:105
Alignment explanation
Indices: 594375--595273 Score: 1534
Period size: 105 Copynumber: 8.6 Consensus size: 105
594365 AGGTTTTACC
* * *
594375 CAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCTAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
594440 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
*
594480 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
594545 ACGAAGGGACCGTTGGTTGTCACCAAACATTTCTTCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTC-TCAATTT
*
594585 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
594650 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
*
594690 CAGAGCCAATCTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
594755 ACGAAGGGACCGCTGGTTGTCAACAAACGTTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
594795 CAGAGCCAATTTCAACCTCATAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
594860 ACGAAGGGACCACTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
594900 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
594965 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
595005 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
595070 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * * *
595110 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGAAAGTTTAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
595175 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
595216 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
595274 TCTCATGACG
Statistics
Matches: 758, Mismatches: 32, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
104 4 0.01
105 688 0.91
106 66 0.09
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:595664 original size:33 final size:33
Alignment explanation
Indices: 595622--595690 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
595612 CCTAGCAAGC
*
595622 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
*
595655 GTTTCATCTCGCGCCGCAACTTCCTTGGTCAGA
1 GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
595688 GTT
1 GTT
595691 CCCTCGCGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.32
Consensus pattern (33 bp):
GTTTCATCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:595700 original size:31 final size:33
Alignment explanation
Indices: 595622--595700 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
595612 CCTAGCAAGC
* *
595622 GTTTCATCTCGCGCCGTAACTCCCTTGGTCAGA
1 GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
* *
595655 GTTTCATCTCGCGCCGCAACTTCCTTGGTCAGA
1 GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
595688 G-TTC-CCTCGCGCC
1 GTTTCACCTCGCGCC
595701 TCACGCACCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 8 0.19
32 3 0.07
33 32 0.74
ACGTcount: A:0.13, C:0.37, G:0.22, T:0.29
Consensus pattern (33 bp):
GTTTCACCTCGCGCCGCAACTCCCTTGGTCAGA
Found at i:596664 original size:2 final size:2
Alignment explanation
Indices: 596647--596732 Score: 151
Period size: 2 Copynumber: 44.5 Consensus size: 2
596637 TCACTTATGT
596647 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
596687 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
596728 TA TA T
1 TA TA T
596733 GTACACATTT
Statistics
Matches: 81, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 3 0.04
2 78 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:598546 original size:22 final size:21
Alignment explanation
Indices: 598517--598558 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
598507 AAAAAATAAA
598517 AATATAATAATAATAAATATT
1 AATATAATAATAATAAATATT
*
598538 AATAGTAATAGTAATAAATAT
1 AATA-TAATAATAATAAATAT
598559 AAAAGGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AATATAATAATAATAAATATT
Found at i:598627 original size:21 final size:22
Alignment explanation
Indices: 598594--598634 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
598584 GGTTAAAATA
598594 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
598616 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
598635 CAAATTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:599218 original size:21 final size:20
Alignment explanation
Indices: 599194--599239 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
599184 TTCAAAATCC
599194 TAAAAACAAACTAAAACATCT
1 TAAAAACAAACTAAAACA-CT
** *
599215 TAAATTCTAACTAAAACACT
1 TAAAAACAAACTAAAACACT
599235 TAAAA
1 TAAAA
599240 CTATTTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAACAAACTAAAACACT
Found at i:599306 original size:19 final size:19
Alignment explanation
Indices: 599250--599312 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
599240 CTATTTAAAC
**
599250 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
599270 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
599290 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
599309 TAAA
1 TAAA
599313 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:599340 original size:64 final size:68
Alignment explanation
Indices: 599215--599410 Score: 188
Period size: 64 Copynumber: 2.8 Consensus size: 68
599205 TAAAACATCT
* * * ** *
599215 TAAATTCTAACTAAAACACTTAAAA-CTATTTAAACTAAAATAC--CTA-AAAAAT-AATATAAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAAT
599275 ATTC-
65 A-TCA
599279 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC------AAAGATAAAA-ATAAA
599344 AATAATATCA
59 AATAATATCA
* *
599354 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAATA
1 TAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAAATA
599411 TAATGTTTAA
Statistics
Matches: 110, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
63 5 0.05
64 34 0.31
69 3 0.03
70 10 0.09
72 1 0.01
73 4 0.04
74 4 0.04
75 26 0.24
76 23 0.21
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.28
Consensus pattern (68 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAATA
TCA
Found at i:603571 original size:8 final size:8
Alignment explanation
Indices: 603558--603598 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
603548 CTCATTTTCA
603558 GAGAATTT
1 GAGAATTT
603566 GAGAATTT
1 GAGAATTT
*
603574 -AGAGTTT
1 GAGAATTT
*
603581 GGGAATTT
1 GAGAATTT
603589 GAGAATTT
1 GAGAATTT
603597 GA
1 GA
603599 AAGCTTATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:603909 original size:128 final size:127
Alignment explanation
Indices: 603681--604283 Score: 1048
Period size: 128 Copynumber: 4.7 Consensus size: 127
603671 TATTCACATA
603681 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
603746 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
66 ATGTCACTCATGTCCCTC-GGGACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
*
603809 AAGGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
*
603874 ATGTAACTCATGTCCCTCGGAGACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
66 ATGTCACTCATGTCCCTCGG-GACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
*
603937 AAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
*
604002 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 ATGTCACTCATGTCCCTC-GGGACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
* * *
604065 AAGACGTGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
* *
604130 ATGTCACTCATGTCCCTCAGGGATACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 ATGTCACTCATGTCCCTC-GGGACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
* *
604193 AAGGCGCGTTTCCGGGGGCGCGTCTTCCATTA-TTTGTCAGAGAAATATGTTATCATTG-CCTAT
1 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAG-AATATGTTATCATTGCCCTAT
604256 TATGTCACTCATGTCCCTCGGGACACTA
65 TATGTCACTCATGTCCCTCGGGACACTA
604284 GATGGATTGT
Statistics
Matches: 454, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
126 8 0.02
127 36 0.08
128 408 0.90
129 2 0.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (127 bp):
AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
ATGTCACTCATGTCCCTCGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGAACTTG
Found at i:604752 original size:32 final size:33
Alignment explanation
Indices: 604684--604776 Score: 134
Period size: 32 Copynumber: 2.8 Consensus size: 33
604674 ATTTAATGTT
* **
604684 AATTTCGAATACTATAATTTATATTAAATTTTA
1 AATTTCGAATAATATAATTTATATTTTATTTTA
*
604717 AATTTCGAATAATATTATTT-TATTTTATTTTA
1 AATTTCGAATAATATAATTTATATTTTATTTTA
*
604749 AATTTCGAATAATATAATTTGTATTTTA
1 AATTTCGAATAATATAATTTATATTTTA
604777 AAAACATTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (33 bp):
AATTTCGAATAATATAATTTATATTTTATTTTA
Found at i:605351 original size:21 final size:21
Alignment explanation
Indices: 605284--605352 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
605274 TATGGTATAA
* *
605284 AACCCTGTGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
605305 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
605326 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
605347 AACCCT
1 AACCCT
605353 ACGGAGATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 3 0.07
21 37 0.86
22 3 0.07
ACGTcount: A:0.22, C:0.26, G:0.32, T:0.20
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:605386 original size:21 final size:21
Alignment explanation
Indices: 605360--605407 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
605350 CCTACGGAGA
*
605360 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
605381 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
605402 GGGCAT
1 TGGCAT
605408 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:607163 original size:31 final size:33
Alignment explanation
Indices: 607098--607177 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
607088 TTAATAATTC
* *
607098 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
607132 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
607163 TATAAAATATAATAA
1 TA-AAAAAATAATAA
607178 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:609593 original size:27 final size:28
Alignment explanation
Indices: 609563--609617 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
609553 CCTCTTAACC
*
609563 TGCTAAG-TGAATATAGTATGCAGGTCT
1 TGCTAAGCGGAATATAGTATGCAGGTCT
* *
609590 TGCTAAGCGGATTATAGTCTGCAGGTCT
1 TGCTAAGCGGAATATAGTATGCAGGTCT
609618 GCTTTTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (28 bp):
TGCTAAGCGGAATATAGTATGCAGGTCT
Found at i:613728 original size:26 final size:26
Alignment explanation
Indices: 613699--613771 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
613689 AAAGGTTAGT
613699 AAAAAAATAAATAATAATAAT-AAACA
1 AAAAAAATAAATAA-AATAATAAAACA
* * *
613725 AAAATAATACAAGAAAATAATAAAAGA
1 AAAAAAATA-AATAAAATAATAAAACA
*
613752 AAATAAAATGAATAAAATAA
1 AAA-AAAATAAATAAAATAA
613772 AAAGTAAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 14 0.37
27 20 0.53
28 4 0.11
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAAAAATAAATAAAATAATAAAACA
Found at i:613751 original size:13 final size:13
Alignment explanation
Indices: 613714--613757 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
613704 AATAAATAAT
613714 AATAATAAACA-AA
1 AATAATAAA-AGAA
*
613727 AATAATACAAGAA
1 AATAATAAAAGAA
613740 AATAATAAAAGAA
1 AATAATAAAAGAA
613753 AATAA
1 AATAA
613758 AATGAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (13 bp):
AATAATAAAAGAA
Found at i:613767 original size:19 final size:18
Alignment explanation
Indices: 613738--613773 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
613728 ATAATACAAG
613738 AAAATAATAAAAGAAAAT
1 AAAATAATAAAAGAAAAT
*
613756 AAAATGAATAAAATAAAA
1 AAAAT-AATAAAAGAAAA
613774 AGTAAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAATAATAAAAGAAAAT
Found at i:614498 original size:16 final size:17
Alignment explanation
Indices: 614465--614498 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
614455 TGTTGATGGT
*
614465 TCGTGTTTTGCTTGTGA
1 TCGTGTTTGGCTTGTGA
614482 TCGTGTTTGGCTT-TGA
1 TCGTGTTTGGCTTGTGA
614498 T
1 T
614499 GATGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.29, T:0.53
Consensus pattern (17 bp):
TCGTGTTTGGCTTGTGA
Found at i:615022 original size:29 final size:32
Alignment explanation
Indices: 614975--615043 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
614965 AAAATTATAT
* *
614975 ATTATATACTTTTTAAAAAATG-TTTT-CAAA
1 ATTATATACGTTTTAAAAAATGTTTTTAAAAA
*
615005 ATTATATA-GTTTTCAAAAATGTTTTTAAAAA
1 ATTATATACGTTTTAAAAAATGTTTTTAAAAA
615036 ATTATATA
1 ATTATATA
615044 TTATATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 11 0.32
30 12 0.35
31 11 0.32
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (32 bp):
ATTATATACGTTTTAAAAAATGTTTTTAAAAA
Found at i:615057 original size:29 final size:29
Alignment explanation
Indices: 615025--615092 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
615015 TTTCAAAAAT
615025 GTTTTTAAAAAA--TTATATATTATATATAA
1 GTTTTTAAAAAATGTTATATA-TA-ATATAA
* * *
615054 GTTTTCAAAAAATGTTTTATATAATATAT
1 GTTTTTAAAAAATGTTATATATAATATAA
615083 GTTTTTAAAA
1 GTTTTTAAAA
615093 TGTTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 25 0.76
30 2 0.06
31 6 0.18
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (29 bp):
GTTTTTAAAAAATGTTATATATAATATAA
Found at i:615118 original size:36 final size:36
Alignment explanation
Indices: 615071--615174 Score: 127
Period size: 36 Copynumber: 2.8 Consensus size: 36
615061 AAAAATGTTT
* *
615071 TATATAATATATGTTTTTAAAATGTTTTAAAAACTA
1 TATATTATATATGTTTTAAAAATGTTTTAAAAACTA
** *
615107 TATATTATATATACTTTCAAAATGTTTTAAAAACTA
1 TATATTATATATGTTTTAAAAATGTTTTAAAAACTA
*
615143 TATAATATATAAATGTTTTCAAAAATGTTTTA
1 TAT-AT-TATATATGTTTT-AAAAATGTTTTA
615175 TATAATATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 35 0.61
37 2 0.04
38 9 0.16
39 11 0.19
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATTATATATGTTTTAAAAATGTTTTAAAAACTA
Found at i:615156 original size:27 final size:26
Alignment explanation
Indices: 615126--615208 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 26
615116 TATACTTTCA
615126 AAATGTTTTAAAAACTATATAATATAT
1 AAATGTTTTAAAAA-TATATAATATAT
* * *
615153 AAATGTTTTCAAAAATGTTTTATATAAT
1 AAATGTTTT-AAAAATATATAATAT-AT
* * *
615181 ATATGTTTTTAAAATTATATATTATAT
1 AAATG-TTTTAAAAATATATAATATAT
615208 A
1 A
615209 TACTTTCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
27 19 0.43
28 21 0.48
29 4 0.09
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (26 bp):
AAATGTTTTAAAAATATATAATATAT
Found at i:615201 original size:91 final size:91
Alignment explanation
Indices: 615092--615257 Score: 305
Period size: 91 Copynumber: 1.8 Consensus size: 91
615082 TGTTTTTAAA
*
615092 ATGTTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTAAAAACTATATAATATATAAAT
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTAAAAACCATATAATATATAAAT
615157 GTTTTCAAAAATGTTTTATATAATAT
66 GTTTTCAAAAATGTTTTATATAATAT
* *
615183 ATGTTTTTAAAATTATATATTATATATACTTTCAAAATGTTTTAAAAACCATATAATATATAAAT
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTAAAAACCATATAATATATAAAT
615248 GTTTTCAAAA
66 GTTTTCAAAA
615258 TATTTTTTCA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (91 bp):
ATGTTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTAAAAACCATATAATATATAAAT
GTTTTCAAAAATGTTTTATATAATAT
Found at i:615209 original size:27 final size:26
Alignment explanation
Indices: 615128--615210 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 26
615118 TACTTTCAAA
* *
615128 ATGTTTTAAAAACTATATAATATATAA
1 ATGTTTTAAAAATTATAT-ATATATAT
*
615155 ATGTTTTCAAAAATGT-TTTATATAATAT
1 ATGTTTT-AAAAAT-TATATATAT-ATAT
*
615183 ATGTTTTTAAAATTATATATTATATAT
1 ATGTTTTAAAAATTATATA-TATATAT
615210 A
1 A
615211 CTTTCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
26 1 0.02
27 24 0.52
28 20 0.43
29 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (26 bp):
ATGTTTTAAAAATTATATATATATAT
Found at i:615219 original size:25 final size:25
Alignment explanation
Indices: 615173--615220 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
615163 AAAAATGTTT
** *
615173 TATATAATATATGTTTTTAAAATTA
1 TATATAATATATACTTTCAAAATTA
*
615198 TATATTATATATACTTTCAAAAT
1 TATATAATATATACTTTCAAAAT
615221 GTTTTAAAAA
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:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TATATAATATATACTTTCAAAATTA
Found at i:615320 original size:37 final size:37
Alignment explanation
Indices: 615197--615321 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 37
615187 TTTTAAAATT
* * * *
615197 ATATATTATATATACTTTCAAAATGTTTT-AAAAACC
1 ATATAATATATAAATTTTAAAAATGTTTTCAAAAACC
*
615233 ATATAATATATAAATGTTTTCAAAATATTTTTTC-AAAACC
1 ATATAATATATAAA--TTTT-AAAA-ATGTTTTCAAAAACC
* * * *
615273 ATATACTATATAGATTTTAAAAACGTTTTCAAAAACT
1 ATATAATATATAAATTTTAAAAATGTTTTCAAAAACC
615310 ATATAATATATA
1 ATATAATATATA
615322 CTTATTTTCG
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
36 18 0.25
37 20 0.28
38 7 0.10
39 3 0.04
40 24 0.33
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (37 bp):
ATATAATATATAAATTTTAAAAATGTTTTCAAAAACC
Found at i:622092 original size:69 final size:69
Alignment explanation
Indices: 621976--622111 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
621966 GCCTGGATTG
* * * *
621976 AGGATTATCCGGCATCGTTATTGCTTCGTCGAGGTCGAATTGATGAGTGATATAGGGGATGATTA
1 AGGATTATCCGGCATCGTAATTGCATCGTCGAGGTCGAATTGATGAGTGAGATAAGGGATGATTA
622041 CAGA
66 CAGA
* * * *
622045 AGGATTTTCCGGCATCGTAATTGCATCGTCGAGGTCGAATTGCTGAGTGGGATAAGGGATTATTA
1 AGGATTATCCGGCATCGTAATTGCATCGTCGAGGTCGAATTGATGAGTGAGATAAGGGATGATTA
622110 CA
66 CA
622112 AAGTTATTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (69 bp):
AGGATTATCCGGCATCGTAATTGCATCGTCGAGGTCGAATTGATGAGTGAGATAAGGGATGATTA
CAGA
Found at i:622176 original size:2 final size:2
Alignment explanation
Indices: 622169--622201 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
622159 TCGCCGGAGT
*
622169 GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
622202 GAGTTTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:623076 original size:23 final size:23
Alignment explanation
Indices: 623049--623092 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
623039 CAAATGACCG
623049 AAAACATACCATAAAGACAGAGA
1 AAAACATACCATAAAGACAGAGA
* *
623072 AAAACCTATCATAAAGACAGA
1 AAAACATACCATAAAGACAGA
623093 ATAATGCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.18, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAACATACCATAAAGACAGAGA
Found at i:623113 original size:22 final size:23
Alignment explanation
Indices: 623081--623135 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
623071 AAAAACCTAT
*
623081 CATAAAGACAGAATAATGCGTGC
1 CATAAAGACAGAAGAATGCGTGC
* *
623104 TAT-AAGACAGAAGAATGTGTGC
1 CATAAAGACAGAAGAATGCGTGC
623126 CATAAAGACA
1 CATAAAGACA
623136 TAATTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (23 bp):
CATAAAGACAGAAGAATGCGTGC
Found at i:623918 original size:16 final size:16
Alignment explanation
Indices: 623899--623931 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
623889 AATAGTATTC
*
623899 ACGATAAATGATCATT
1 ACGATAAATAATCATT
623915 ACGATAAATAATCATT
1 ACGATAAATAATCATT
623931 A
1 A
623932 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (16 bp):
ACGATAAATAATCATT
Found at i:628486 original size:68 final size:68
Alignment explanation
Indices: 628363--628497 Score: 164
Period size: 68 Copynumber: 2.0 Consensus size: 68
628353 CCTGGCTTGA
* * * *
628363 GGTTTTCCGACATCGTAATAGCTTCGTCGAGTTCGAATTGATGAGATAGGAAAGGGATCATCAAA
1 GGTTTTCCGACATCGTAATAGCGTCGTCGAGGTCGAATTGATAAGAGAGGAAAGGGATCATCAAA
628428 GAG
66 GAG
* * * * * *
628431 GGTTTTCCGGCATCGTGATTGCGTCGTCGAGGTCGAATTGATAAGCGA-GACAAGGGGTTATCAA
1 GGTTTTCCGACATCGTAATAGCGTCGTCGAGGTCGAATTGATAAGAGAGGA-AAGGGATCATCAA
628495 AGA
65 AGA
628498 ATCATTGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 2 0.04
68 54 0.96
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (68 bp):
GGTTTTCCGACATCGTAATAGCGTCGTCGAGGTCGAATTGATAAGAGAGGAAAGGGATCATCAAA
GAG
Found at i:630543 original size:21 final size:21
Alignment explanation
Indices: 630519--630564 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
630509 TATGACCACA
630519 ATGCTCGAGAAACAAACAAAC
1 ATGCTCGAGAAACAAACAAAC
630540 ATGCTCGAGAAACAAACAAAC
1 ATGCTCGAGAAACAAACAAAC
630561 ATGC
1 ATGC
630565 AACAAGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.15, T:0.11
Consensus pattern (21 bp):
ATGCTCGAGAAACAAACAAAC
Found at i:631644 original size:15 final size:16
Alignment explanation
Indices: 631592--631649 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
631582 TTACCCGACC
631592 TGTTTTCAACCTGACT
1 TGTTTTCAACCTGACT
* *
631608 TGTTTTCAACTTGACA
1 TGTTTTCAACCTGACT
631624 TGTTTT-AACCTGACT
1 TGTTTTCAACCTGACT
* *
631639 TATTTTTAACC
1 TGTTTTCAACC
631650 GACCTGTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (16 bp):
TGTTTTCAACCTGACT
Found at i:631851 original size:13 final size:13
Alignment explanation
Indices: 631835--631859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
631825 GAACTATTAT
631835 ATAAAATTATTTA
1 ATAAAATTATTTA
631848 ATAAAATTATTT
1 ATAAAATTATTT
631860 TAAATATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:632006 original size:15 final size:15
Alignment explanation
Indices: 631986--632050 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
631976 TTGGCATAAA
631986 ATAATAATTAAATTG
1 ATAATAATTAAATTG
* *
632001 ATAATAACTGAA-TG
1 ATAATAATTAAATTG
* *
632015 -TTA-AATTAAACATG
1 ATAATAATTAAA-TTG
632029 ATTAATAATTAAATTG
1 A-TAATAATTAAATTG
632045 ATAATA
1 ATAATA
632051 GCTGAATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
12 5 0.13
13 2 0.05
14 4 0.11
15 15 0.39
16 5 0.13
17 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (15 bp):
ATAATAATTAAATTG
Found at i:632061 original size:22 final size:22
Alignment explanation
Indices: 631992--632062 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
631982 TAAAATAATA
*
631992 ATTAAATTGATAATAACTGAAT
1 ATTAAATTGATAATAGCTGAAT
* * * *
632014 GTTAAATT-A-AACATGATTAAT
1 ATTAAATTGATAATA-GCTGAAT
632035 AATTAAATTGATAATAGCTGAAT
1 -ATTAAATTGATAATAGCTGAAT
632058 ATTAA
1 ATTAA
632063 TTAAATTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 19 0.53
23 6 0.17
24 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (22 bp):
ATTAAATTGATAATAGCTGAAT
Found at i:632858 original size:20 final size:20
Alignment explanation
Indices: 632818--632858 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
632808 TATCAAGTAG
*
632818 AACAAACAATATCAAACAGA
1 AACAAACAATATAAAACAGA
*
632838 AACAAACAATATAAAATAGA
1 AACAAACAATATAAAACAGA
632858 A
1 A
632859 TAATGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.15, G:0.05, T:0.12
Consensus pattern (20 bp):
AACAAACAATATAAAACAGA
Found at i:634367 original size:21 final size:21
Alignment explanation
Indices: 634342--634382 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
634332 GGAGAAAATG
634342 ATATTTATAATTAATATTAAA
1 ATATTTATAATTAATATTAAA
634363 ATATTTATAATTAATATTAA
1 ATATTTATAATTAATATTAA
634383 CTTATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTATAATTAATATTAAA
Found at i:634408 original size:31 final size:31
Alignment explanation
Indices: 634373--634453 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 31
634363 ATATTTATAA
*
634373 TTAATATTAACTT-ATATTAATATAATATAGT
1 TTAATATTAA-TTAATATTAATATAAAATAGT
*
634404 TTAATTTTAATTAATATTAATATAAAATAGT
1 TTAATATTAATTAATATTAATATAAAATAGT
*
634435 CTATAAAATTAATTAATAT
1 -T-TAATATTAATTAATAT
634454 AAACTATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.05
31 26 0.60
32 1 0.02
33 14 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
TTAATATTAATTAATATTAATATAAAATAGT
Found at i:634417 original size:10 final size:10
Alignment explanation
Indices: 634349--634424 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
634339 ATGATATTTA
634349 TAATTAATAT
1 TAATTAATAT
634359 TAA--AATATTT
1 TAATTAATA--T
634369 ATAATTAATAT
1 -TAATTAATAT
634380 TAACTT-ATAT
1 TAA-TTAATAT
634390 TAATATAATA-
1 TAAT-TAATAT
* *
634400 TAGTTTAATTT
1 TA-ATTAATAT
634411 TAATTAATAT
1 TAATTAATAT
634421 TAAT
1 TAAT
634425 ATAAAATAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 20
0.68 0.05 0.26
Matches are distributed among these distances:
8 4 0.08
9 1 0.02
10 31 0.60
11 12 0.23
13 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (10 bp):
TAATTAATAT
Found at i:634503 original size:21 final size:21
Alignment explanation
Indices: 634451--634504 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
634441 AATTAATTAA
* *
634451 TATAAACTATATGTTATAAAT
1 TATATACTATATGTTATAAAC
**
634472 TATATTGTATA-GTTTATAAAC
1 TATATACTATATG-TTATAAAC
634493 TATATACTATAT
1 TATATACTATAT
634505 TAATATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATACTATATGTTATAAAC
Found at i:634645 original size:11 final size:11
Alignment explanation
Indices: 634631--634719 Score: 53
Period size: 11 Copynumber: 8.3 Consensus size: 11
634621 TATAGGTTAC
634631 ATATATAGTTT
1 ATATATAGTTT
*
634642 ATATA-ACTTAT
1 ATATATAGTT-T
*
634653 AAATATATTGTTT
1 --ATATATAGTTT
* *
634666 ATATA-AATAT
1 ATATATAGTTT
*
634676 AT-TATAGGTT
1 ATATATAGTTT
634686 ATATATAGTTT
1 ATATATAGTTT
*
634697 ATATAT-G-CT
1 ATATATAGTTT
*
634706 ATACATAGTTT
1 ATATATAGTTT
634717 ATA
1 ATA
634720 CATACATATA
Statistics
Matches: 57, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
9 8 0.14
10 13 0.23
11 28 0.49
13 6 0.11
14 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (11 bp):
ATATATAGTTT
Found at i:634701 original size:20 final size:20
Alignment explanation
Indices: 634678--634719 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
634668 ATAAATATAT
* *
634678 TATAGGTTATATATAGTTTA
1 TATAGGCTATACATAGTTTA
*
634698 TATATGCTATACATAGTTTA
1 TATAGGCTATACATAGTTTA
634718 TA
1 TA
634720 CATACATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (20 bp):
TATAGGCTATACATAGTTTA
Found at i:634745 original size:55 final size:57
Alignment explanation
Indices: 634619--634752 Score: 152
Period size: 55 Copynumber: 2.4 Consensus size: 57
634609 TTGCTTATAA
* *
634619 ACTATAGGTTACATATATAGTTTATATAACTTATAAATATATTGTTTATATAAATAT
1 ACTATAGGTTACATATATAGTTTATATAACTTATAAATATATTGTATACATAAATAT
* * * * *
634676 ATTATAGGTT--ATATATAGTTTATATATGC-TATACATA-GTT-TATACATACATAT
1 ACTATAGGTTACATATATAGTTTATATA-ACTTATAAATATATTGTATACATAAATAT
*
634729 ACTATAAGTTACATATATAGTTTA
1 ACTATAGGTTACATATATAGTTTA
634753 CATGTATACA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
53 18 0.28
54 2 0.03
55 35 0.54
56 1 0.02
57 9 0.14
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (57 bp):
ACTATAGGTTACATATATAGTTTATATAACTTATAAATATATTGTATACATAAATAT
Found at i:634750 original size:35 final size:36
Alignment explanation
Indices: 634710--634783 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
634700 TATGCTATAC
*
634710 ATAGTTT-ATACATACATATACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACACAT
** *
634745 ATAGTTTACATGTATACATATACTATAGGTTACACAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACACAT
634782 AT
1 AT
634784 TAACTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 7 0.21
37 26 0.79
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACACAT
Found at i:635007 original size:77 final size:70
Alignment explanation
Indices: 634925--635077 Score: 173
Period size: 70 Copynumber: 2.1 Consensus size: 70
634915 TATATATATA
*
634925 TATATATTCTATAGATTACTTATA-TTAGTTATACATACATATATATACTATATTAATATAAATT
1 TATATATTCTATAGATT--TTA-ACATAG-TATACATA-ATATATAT--TATATTAATAT-AATT
634989 ATAATTTATAAAC
58 ATAATTTATAAAC
* * ** *
635002 TATATATTTTATATATTTTAACATAGTATTTATAATATATATTATATTAATATAATTATATTTTA
1 TATATATTCTATAGATTTTAACATAGTATACATAATATATATTATATTAATATAATTATAATTTA
635067 TAAAC
66 TAAAC
635072 TATATA
1 TATATA
635078 CTTTTTATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
70 22 0.32
71 11 0.16
73 8 0.12
74 7 0.10
75 6 0.09
77 15 0.22
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (70 bp):
TATATATTCTATAGATTTTAACATAGTATACATAATATATATTATATTAATATAATTATAATTTA
TAAAC
Found at i:635068 original size:26 final size:28
Alignment explanation
Indices: 635004--635068 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 28
634994 TTATAAACTA
* *
635004 TATATTTTATATATTTTAACATAGTATT
1 TATATTTTATATATATTAACATAGTAAT
* *
635032 TATAATATATATTATATT-A-ATA-TAAT
1 TATATTTTATA-TATATTAACATAGTAAT
635058 TATATTTTATA
1 TATATTTTATA
635069 AACTATATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
26 12 0.40
27 3 0.10
28 10 0.33
29 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
TATATTTTATATATATTAACATAGTAAT
Found at i:635076 original size:33 final size:33
Alignment explanation
Indices: 634968--635076 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 33
634958 CATACATATA
* *
634968 TATACTATATTAATATAAATTATAATTTATAAAC
1 TATATTATATTAATAT-AATTATATTTTATAAAC
* *
635002 TATA-TATTTTATATATTTTAA-CATAGTATTTATAATA-
1 TATATTATATTA-ATA---TAATTATA-T-TTTATAA-AC
635039 TATATTATATTAATATAATTATATTTTATAAAC
1 TATATTATATTAATATAATTATATTTTATAAAC
635072 TATAT
1 TATAT
635077 ACTTTTTATA
Statistics
Matches: 60, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
32 1 0.02
33 18 0.30
34 11 0.18
35 6 0.10
36 2 0.03
37 15 0.25
38 7 0.12
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (33 bp):
TATATTATATTAATATAATTATATTTTATAAAC
Found at i:635096 original size:70 final size:71
Alignment explanation
Indices: 634965--635105 Score: 198
Period size: 70 Copynumber: 2.0 Consensus size: 71
634955 ATACATACAT
*
634965 ATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTATATATTTTAACATAGTA
1 ATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTATATATTATAACATAGTA
*
635030 TTTATA
66 GTTATA
* * *
635036 ATATATATTATATTAATAT-AATTATATTTTATAAACTATATACTTTT-TATAGTTAT-ACATAT
1 ATATATACTATATTAATATAAATTATAATTTATAAACTATATA-TTTTATATA-TTATAACATAG
635098 TAGTTATA
64 TAGTTATA
635106 TAGTTTATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
70 38 0.60
71 25 0.40
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (71 bp):
ATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTATATATTATAACATAGTA
GTTATA
Found at i:635118 original size:11 final size:11
Alignment explanation
Indices: 635102--635129 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
635092 ACATATTAGT
635102 TATATAGTTTA
1 TATATAGTTTA
635113 TATATAGTTTA
1 TATATAGTTTA
635124 TATATA
1 TATATA
635130 ACTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:635251 original size:18 final size:18
Alignment explanation
Indices: 635228--635262 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
635218 AATAACTATA
635228 TATAGTTAATATGTAAAC
1 TATAGTTAATATGTAAAC
*
635246 TATAGTTCATATGTAAA
1 TATAGTTAATATGTAAA
635263 TTACATAGGT
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:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
TATAGTTAATATGTAAAC
Found at i:635295 original size:14 final size:14
Alignment explanation
Indices: 635272--635315 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
635262 ATTACATAGG
* *
635272 TAAGAGTTAAGGTT
1 TAAGATTTAAAGTT
635286 TAAGATTTAAAGTT
1 TAAGATTTAAAGTT
* *
635300 TAGGATTTAGAGTT
1 TAAGATTTAAAGTT
635314 TA
1 TA
635316 GGGTATTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (14 bp):
TAAGATTTAAAGTT
Found at i:635316 original size:14 final size:14
Alignment explanation
Indices: 635283--635331 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
635273 AAGAGTTAAG
* *
635283 GTTTAAGATTTAAA
1 GTTTAGGATTTAGA
635297 GTTTAGGATTTAGA
1 GTTTAGGATTTAGA
*
635311 GTTTAGGGTATTAG-
1 GTTTAGGAT-TTAGA
635325 GTTTAGG
1 GTTTAGG
635332 GTTATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GTTTAGGATTTAGA
Found at i:635514 original size:42 final size:42
Alignment explanation
Indices: 635447--635554 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
635437 TAGTTTATAC
*
635447 ATACATGTACTATAAGTTAC--ATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
635487 ATACATATACTATAAGTTACATATATAGTTTACATTGCATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
635529 ATACACATACTATAAGTTACATATAT
1 ATACATATACTATAAGTTACATATAT
635555 TAACTATTGT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 19 0.30
42 44 0.70
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (42 bp):
ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:635765 original size:2 final size:2
Alignment explanation
Indices: 635760--635891 Score: 111
Period size: 2 Copynumber: 69.0 Consensus size: 2
635750 TGTTTTTTTA
635760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
635801 AT -T AT A- AT -T AT -T AT AC AT AC AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
635838 A- AT AA AC AT AT A- AT -T AT AT AGT TT AT AC AT AT AT AGT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT
635879 AT AT AT ACT AT AT
1 AT AT AT A-T AT AT
635892 TAATAAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
1 9 0.09
2 92 0.88
3 4 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:635850 original size:43 final size:44
Alignment explanation
Indices: 635765--635885 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 44
635755 TTTTAATATA
* * * *
635765 TATATATATATATATATATATATATATTATATATATATTATAAT
1 TATATATATATACATATATATATATAATATATATAAAATATAAT
*
635809 TAT-TATACATACATATATATATATAATATA-ATAAACATATAAT
1 TATATATATATACATATATATATATAATATATATAAA-ATATAAT
* *
635852 TATATAGTTTATACATATATAGTTTAT-ATATATA
1 TATATA-TATATACATATATA-TATATAATATATA
635886 CTATATTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 4 0.06
43 33 0.52
44 5 0.08
45 17 0.27
46 5 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (44 bp):
TATATATATATACATATATATATATAATATATATAAAATATAAT
Found at i:636015 original size:18 final size:18
Alignment explanation
Indices: 635970--636120 Score: 123
Period size: 18 Copynumber: 8.2 Consensus size: 18
635960 AAACATAATT
*
635970 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
635988 TA-ATATATAGTTTATAA
1 TATATATATAGTTTATAA
*
636005 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
636023 TTTTATATACATAGTTT-TATA
1 ---TATATATATAGTTTATA-A
* **
636044 TATAGTGCACATA-AATATAA
1 TATA-T--ATATAGTTTATAA
*
636064 TTTATATATAGTTTATAA
1 TATATATATAGTTTATAA
636082 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
636100 TATAAATATAGTTTAT-A
1 TATATATATAGTTTATAA
636117 TATA
1 TATA
636121 ATTTTTTATT
Statistics
Matches: 109, Mismatches: 12, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
17 26 0.24
18 53 0.49
19 3 0.03
20 7 0.06
21 20 0.18
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:636057 original size:96 final size:96
Alignment explanation
Indices: 635874--636118 Score: 308
Period size: 95 Copynumber: 2.6 Consensus size: 96
635864 ACATATATAG
* *
635874 TTTATATATATA-CTATATTAATAA-ATATAGTTTATAA-ACT--ATATACTTTTTATAGTTTAT
1 TTTATATATATAGCT-TA-TAATAATATATAGTTTATAATA-TAAATATAGTTTATATAGTTTAT
* *
635934 ACATATAATTTATATATAGTTCACATAAACATAA
63 ACACATAATTTATATATAGTGCACATAAACATAA
* *
635968 TTTATATATATAGCTTATAATAATATATAGTTTATAATATAAATATAGTTTATA-ATTTTATATA
1 TTTATATATATAGCTTATAATAATATATAGTTTATAATATAAATATAGTTTATATAGTTTATACA
* *
636032 CATAGTTTTATATATAGTGCACATAAATATAA
66 CATA-ATTTATATATAGTGCACATAAACATAA
*
636064 -TT-TATATATAGTTTATAATAATTATATAGTTTATAATATAAATATAGTTTATATA
1 TTTATATATATAGCTTATAATAA-TATATAGTTTATAATATAAATATAGTTTATATA
636119 TAATTTTTTA
Statistics
Matches: 134, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
93 6 0.04
94 46 0.34
95 47 0.35
96 35 0.26
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (96 bp):
TTTATATATATAGCTTATAATAATATATAGTTTATAATATAAATATAGTTTATATAGTTTATACA
CATAATTTATATATAGTGCACATAAACATAA
Found at i:636932 original size:64 final size:64
Alignment explanation
Indices: 636794--636933 Score: 183
Period size: 64 Copynumber: 2.2 Consensus size: 64
636784 GAACTGAAAA
* *
636794 TTACCCGACCTGAACTCGATCTGGATCTGGTGTCAAATCAACCTTAAAATAACCCGAACTGATT
1 TTACCCGACCTGAACCCGATCTGGATCTGGTGTCAAATCAACCTTAAAATAACCCGAACCGATT
* * * * ** *
636858 TGACCTGACCTGAACCCGATCTGGATCTGGTGTCAAATCAACC-TAAATTGACTTGTACCCGATT
1 TTACCCGACCTGAACCCGATCTGGATCTGGTGTCAAATCAACCTTAAAATAACCCG-AACCGATT
636922 TTACCCGACCTG
1 TTACCCGACCTG
636934 CCAAGATCCG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 8 0.12
64 56 0.88
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (64 bp):
TTACCCGACCTGAACCCGATCTGGATCTGGTGTCAAATCAACCTTAAAATAACCCGAACCGATT
Found at i:645463 original size:36 final size:36
Alignment explanation
Indices: 645419--645490 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
645409 TGGCAACCAA
* *
645419 CTTTG-AAAAATGTTTTTCAAAGTGTGGTAAATGTTT
1 CTTTGAAAAAATATTTTTCAAAATGTGGTAAA-GTTT
* *
645455 CTTTGAAAAAATATTTTTTAAAATTTGGTAAAGTTT
1 CTTTGAAAAAATATTTTTCAAAATGTGGTAAAGTTT
645491 GGTAGATTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 9 0.29
37 22 0.71
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (36 bp):
CTTTGAAAAAATATTTTTCAAAATGTGGTAAAGTTT
Found at i:649474 original size:36 final size:37
Alignment explanation
Indices: 649422--649497 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
649412 AACCAACTTG
*
649422 AAAAATGTTTTCCAAAATTTGGTA-ATGTTTCT-TTGA
1 AAAAATATTTTCCAAAATTTGGTAGATGTTT-TGTTGA
*
649458 AAAAATATTTTTCAAAATTTGGTAGATGTTTTGTTGA
1 AAAAATATTTTCCAAAATTTGGTAGATGTTTTGTTGA
649495 AAA
1 AAA
649498 TAGGAATGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 23 0.64
37 13 0.36
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.43
Consensus pattern (37 bp):
AAAAATATTTTCCAAAATTTGGTAGATGTTTTGTTGA
Found at i:652625 original size:16 final size:17
Alignment explanation
Indices: 652585--652680 Score: 79
Period size: 17 Copynumber: 5.5 Consensus size: 17
652575 TTTCGTCCCC
652585 TATATATATTTTTTAAT
1 TATATATATTTTTTAAT
*
652602 TATATATATTTTTTATT
1 TATATATATTTTTTAAT
* *
652619 TACTATATTCCTTTTTTTATT
1 TA-TATA-T--ATTTTTTAAT
*
652640 TATATATATTATTT-A-
1 TATATATATTTTTTAAT
* * *
652655 TATATATATCTTATCAT
1 TATATATATTTTTTAAT
652672 TATATATAT
1 TATATATAT
652681 ATAGATGTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 32 0.49
18 4 0.06
19 2 0.03
20 4 0.06
21 11 0.17
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATATTTTTTAAT
Found at i:652653 original size:13 final size:13
Alignment explanation
Indices: 652635--652661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
652625 ATTCCTTTTT
652635 TTATTTATATATA
1 TTATTTATATATA
652648 TTATTTATATATA
1 TTATTTATATATA
652661 T
1 T
652662 ATCTTATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTATATATA
Found at i:652668 original size:13 final size:12
Alignment explanation
Indices: 652636--652683 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
652626 TTCCTTTTTT
652636 TATTTATATATA
1 TATTTATATATA
652648 TTATTTATATATA
1 -TATTTATATATA
652661 TATCTTATCAT-TA
1 TAT-TTAT-ATATA
*
652674 TATATATATA
1 TATTTATATA
652684 GATGTATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 2 0.06
12 6 0.19
13 21 0.68
14 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTATATATA
Found at i:652754 original size:2 final size:2
Alignment explanation
Indices: 652747--652812 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
652737 TTCATACGTT
652747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
652789 TA TA TA T- TA TA TA TA T- TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
652813 TCTATTTTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 58 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:652878 original size:47 final size:49
Alignment explanation
Indices: 652787--652879 Score: 122
Period size: 47 Copynumber: 1.9 Consensus size: 49
652777 TATATATATA
*
652787 TATATATATTATATATATTATTATATTCTATTTTTGTTTTTTATTTATT
1 TATATATATTATATATATTATTATATTCTATTTTTGTTTATTATTTATT
*
652836 TATATATATTATAT-T-TTACTT-TATTTTATTTTT-TTCTATTATTT
1 TATATATATTATATATATTA-TTATATTCTATTTTTGTT-TATTATTT
652880 TTTTTCTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
46 2 0.05
47 21 0.52
48 3 0.08
49 14 0.35
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (49 bp):
TATATATATTATATATATTATTATATTCTATTTTTGTTTATTATTTATT
Found at i:652914 original size:36 final size:35
Alignment explanation
Indices: 652874--652956 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
652864 TTTTTTTCTA
*
652874 TTATTTTTTTTCTTAATATCATGTATATATTTATTT
1 TTATTTTTTTTCTTAATATCATATATATA-TTATTT
* * * *
652910 TTATTTGTTTTACTTAGTATTATATATTTATTATTT
1 TTATTT-TTTTTCTTAATATCATATATATATTATTT
*
652946 TTATTTGTTTT
1 TTATTTTTTTT
652957 AATAAATACT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 3 0.08
36 18 0.46
37 18 0.46
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.69
Consensus pattern (35 bp):
TTATTTTTTTTCTTAATATCATATATATATTATTT
Found at i:653147 original size:26 final size:27
Alignment explanation
Indices: 653088--653153 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
653078 ATTCATTTTG
653088 TTTATTT-TTTAT-TATTTTTTACATGT
1 TTTATTTATTT-TCTATTTTTTACATGT
* *
653114 TTT-GTTATTTTCTATTTTTT-CTTGT
1 TTTATTTATTTTCTATTTTTTACATGT
653139 TTTATTTATTATTCT
1 TTTATTTATT-TTCT
653154 CACATTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 10 0.30
26 19 0.58
27 4 0.12
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTATTTATTTTCTATTTTTTACATGT
Found at i:656277 original size:27 final size:25
Alignment explanation
Indices: 656247--656298 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 25
656237 ATAAAAAAGA
656247 AAAAAGAGAAAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAA-CAAAG-GAAAAT
656274 AAAAAGAGAAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAACAAAGGAAAAT
656299 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 14 0.56
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAAACAAAGGAAAAT
Found at i:656279 original size:13 final size:13
Alignment explanation
Indices: 656249--656297 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
656239 AAAAAAGAAA
656249 AAAGAGAAAAAAGC
1 AAAGAGAAAAAA-C
656263 AAAGAGAAAATAA-
1 AAAGAGAAAA-AAC
656276 AAAGAGAAAAAAC
1 AAAGAGAAAAAAC
656289 AAAG-GAAAA
1 AAAGAGAAAA
656298 TTGAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
14 10 0.30
15 2 0.06
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:656449 original size:67 final size:67
Alignment explanation
Indices: 656370--656496 Score: 227
Period size: 67 Copynumber: 1.9 Consensus size: 67
656360 GATTCAAACT
*
656370 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAAAATC
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAAAATC
656435 AA
66 AA
* *
656437 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTCCACTCGAAGATCATA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATA
656497 GAGCATTAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.25
Consensus pattern (67 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAAAATC
AA
Found at i:658019 original size:37 final size:38
Alignment explanation
Indices: 657973--658047 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
657963 GAAGATTTTA
* * *
657973 TCTCGCTTGAGATAGTTTCCCTTGAAACA-AAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
**
658010 TCTCCCTTGAGACAGTTTCTTTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
658048 AAAACATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
Found at i:658101 original size:36 final size:36
Alignment explanation
Indices: 658054--658140 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 36
658044 ATTGAAAACA
* * *
658054 TTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
658090 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAA-CAAATTTCGTCTCTCTTGAGACAG
* *
658127 TTTCTCTTTAAACA
1 TTTCCCTTGAAACA
658141 TAAACATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:658121 original size:37 final size:36
Alignment explanation
Indices: 658054--658130 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
658044 ATTGAAAACA
** * *
658054 TTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAG
658090 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAA-AAAATTTTGTCTCCCTTGAGACAG
658127 TTTC
1 TTTC
658131 TCTTTAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.33
37 24 0.67
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAG
Found at i:658143 original size:102 final size:101
Alignment explanation
Indices: 657967--658236 Score: 407
Period size: 102 Copynumber: 2.7 Consensus size: 101
657957 AAAACAGAAG
* *
657967 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTTT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAA-AAAATTTTGTCTCCCTTGAGACAGTTTCTTT
* *
658032 TGAAACATAAACATTGAAAACATTTCCCTTGAAACGA
65 TGAAACATAAACATTAAAAACATTTCCCTTGAAACAA
*
658069 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAA-AAAATTTTGTCTCCCTTGAGACAGTTTCT-T
*
658134 TT-AAACATAAACATTAAAAACATTTCCCTTGAAATAA
64 TTGAAACATAAACATTAAAAACATTTCCCTTGAAACAA
* * * * *
658171 AGTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTTTT
658236 G
66 G
658237 GAACTAAGTT
Statistics
Matches: 153, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
100 3 0.02
101 27 0.18
102 120 0.78
103 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (101 bp):
ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTTTT
GAAACATAAACATTAAAAACATTTCCCTTGAAACAA
Found at i:658262 original size:37 final size:36
Alignment explanation
Indices: 658156--658312 Score: 206
Period size: 36 Copynumber: 4.3 Consensus size: 36
658146 ATTAAAAACA
* * * *
658156 TTTCCCTTGAAATAAAGTTCATCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
658192 TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
658228 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
658265 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
658301 TTTCCCTTGAAA
1 TTTCTCTTGAAA
658313 TAAAATCTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
36 74 0.70
37 31 0.30
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Done.