Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 54
Found at i:7499592 original size:21 final size:21
Alignment explanation
Indices: 7499566--7499683 Score: 137
Period size: 21 Copynumber: 5.6 Consensus size: 21
7499556 GTGAATCGGG
* **
7499566 CTCTTGAACGGTGGGAGAAAC
1 CTCTTGAACGATGGGAGAGGC
** *
7499587 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGAGGC
* *
7499608 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGAGGC
*
7499629 CTCTTGAACGATGAGAGAGGC
1 CTCTTGAACGATGGGAGAGGC
* *
7499650 CTCTTGAACGATAGGAGACGC
1 CTCTTGAACGATGGGAGAGGC
7499671 CTCTTGAACGATG
1 CTCTTGAACGATG
7499684 ACAGGTGCAT
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGAGGC
Found at i:7499632 original size:42 final size:42
Alignment explanation
Indices: 7499566--7499688 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
7499556 GTGAATCGGG
*
7499566 CTCTTGAACGGTGGGAGAAACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGAAGCCTCTTGAACGATGACAGGGGC
** * *
7499608 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGAGGC
1 CTCTTGAACGGTGGGAGAAGCCTCTTGAACGATGACAGGGGC
* * *
7499650 CTCTTGAACGATAGGAGACGCCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAGAAGCCTCTTGAACGATGACAGG
7499689 TGCATCGGGC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAAGCCTCTTGAACGATGACAGGGGC
Found at i:7500115 original size:21 final size:21
Alignment explanation
Indices: 7500091--7500131 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7500081 CATTGTCTTC
7500091 ACGCAAAGCACCGACCTCATG
1 ACGCAAAGCACCGACCTCATG
*
7500112 ACGCAAAGCACCGATCTCAT
1 ACGCAAAGCACCGACCTCAT
7500132 CACGTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.37, G:0.17, T:0.12
Consensus pattern (21 bp):
ACGCAAAGCACCGACCTCATG
Found at i:7501852 original size:20 final size:20
Alignment explanation
Indices: 7501829--7501921 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
7501819 AAACTTAAAT
*
7501829 TCGCAAAGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
7501849 TCGCAATGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
7501869 CCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
7501889 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
7501909 TCGCAACACGAAA
1 TCGCAACGCGAAA
7501922 CTAAATTCGC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.49, C:0.22, G:0.19, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:7502507 original size:20 final size:20
Alignment explanation
Indices: 7502484--7502521 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7502474 ACAAATTCGC
*
7502484 GTTGCAAATTTGGAAAATGG
1 GTTGCAAAATTGGAAAATGG
*
7502504 GTTGTAAAATTGGAAAAT
1 GTTGCAAAATTGGAAAAT
7502522 CGCAACGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCAAAATTGGAAAATGG
Found at i:7517015 original size:20 final size:22
Alignment explanation
Indices: 7516975--7517017 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7516965 ATAAATTAAT
7516975 ATATATATATTATTTATTTATA
1 ATATATATATTATTTATTTATA
*
7516997 ATATATTTATT-TTTA-TTATA
1 ATATATATATTATTTATTTATA
7517017 A
1 A
7517018 AAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATATATTATTTATTTATA
Found at i:7518001 original size:38 final size:38
Alignment explanation
Indices: 7517959--7518048 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 38
7517949 GATGATGTTC
*
7517959 TATTATTTA-AAGATTCATATTCAATTAAAATATGAATA
1 TATTATTTACAA-ATTCATATTCAACTAAAATATGAATA
* ** *
7517997 TATTA-TTACAAATTTATATTTGACTGAAATATGAATA
1 TATTATTTACAAATTCATATTCAACTAAAATATGAATA
* *
7518034 CATTATTTATAAATT
1 TATTATTTACAAATT
7518049 TATTTTTGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 28 0.65
38 15 0.35
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (38 bp):
TATTATTTACAAATTCATATTCAACTAAAATATGAATA
Found at i:7518027 original size:37 final size:38
Alignment explanation
Indices: 7517986--7518057 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
7517976 TATTCAATTA
*
7517986 AAATATGAATATATTA-TTACAAATTTATATTTGACTG
1 AAATATGAATACATTATTTACAAATTTATATTTGACTG
* *
7518023 AAATATGAATACATTATTTATAAATTTATTTTTGA
1 AAATATGAATACATTATTTACAAATTTATATTTGA
7518058 TTAATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (38 bp):
AAATATGAATACATTATTTACAAATTTATATTTGACTG
Found at i:7518125 original size:37 final size:37
Alignment explanation
Indices: 7517975--7518128 Score: 125
Period size: 37 Copynumber: 4.2 Consensus size: 37
7517965 TTAAAGATTC
* * *
7517975 ATATTCAATTAAAATATGAATATATTATTACAAATTT
1 ATATTCAATTTAAATATAAATATATTATTATAAATTT
** * * * *
7518012 ATATTTGACTGAAATATGAATACATTATTTATAAATTT
1 ATATTCAATTTAAATATAAATATATTA-TTATAAATTT
* ** * *
7518050 ATTTTTGATTAATAAATATAAAT-TA-T-TTATGAACTT
1 ATATTCAATT--TAAATATAAATATATTATTATAAATTT
*
7518086 ATATTCAATTTAAATATAAATATATTATTATGAATTT
1 ATATTCAATTTAAATATAAATATATTATTATAAATTT
7518123 ATATTC
1 ATATTC
7518129 GATTGGAATA
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
34 11 0.12
35 2 0.02
36 16 0.17
37 37 0.39
38 18 0.19
39 1 0.01
40 9 0.10
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (37 bp):
ATATTCAATTTAAATATAAATATATTATTATAAATTT
Found at i:7520654 original size:45 final size:45
Alignment explanation
Indices: 7520548--7520936 Score: 532
Period size: 45 Copynumber: 8.7 Consensus size: 45
7520538 GCTTCATTCA
* *
7520548 TGTTTATAATGCA-CCATTATGCATTTTTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
*
7520594 TGTTG---AT--ACCCATATGCATTTCAACTATAGCATACATTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
7520634 TGTTGATAATGCACCCATATGCATTTCAACTATTGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
7520679 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
7520724 TGTTGATAATGCACCCATATGCATTTCAACTATCA-CATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTAT-AGCATACTTTTC
*
7520769 TGTTGATAATGCACCCATATGCATTTCAACTAT-GCCATAATTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTTC
*
7520814 TGTTGATAATGCACCCATATGCATTTCAACTAT-GCCATGA-TTTTA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CAT-ACTTTTC
* * *
7520859 TTTTGACAATGCACCCATATGCATTGCAACTATAGCATACTTTT-
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
7520903 TAGTTGACT-ATGCACCCATATGCATTTCAACTAT
1 T-GTTGA-TAATGCACCCATATGCATTTCAACTAT
7520937 GGAATCCTTT
Statistics
Matches: 314, Mismatches: 15, Indels: 29
0.88 0.04 0.08
Matches are distributed among these distances:
40 25 0.08
41 7 0.02
42 3 0.01
43 4 0.01
44 2 0.01
45 266 0.85
46 7 0.02
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:7521485 original size:20 final size:22
Alignment explanation
Indices: 7521460--7521508 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
7521450 TTTTCTGATA
7521460 TCGATAC-A-CATACCATGGTC
1 TCGATACTACCATACCATGGTC
*
7521480 TCGATACTACCATACTATGGTAC
1 TCGATACTACCATACCATGGT-C
7521503 -CGATAC
1 TCGATAC
7521509 CCCCTTACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 1 0.04
22 16 0.64
23 1 0.04
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (22 bp):
TCGATACTACCATACCATGGTC
Found at i:7529141 original size:22 final size:22
Alignment explanation
Indices: 7529113--7529192 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
7529103 ACACCTAACA
7529113 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
7529135 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
* *
7529157 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
*
7529180 GTGCATCAATGCA
1 GTGCATCGATGCA
7529193 AAAGGCCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 34 0.64
23 19 0.36
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:7536854 original size:45 final size:45
Alignment explanation
Indices: 7536773--7537117 Score: 373
Period size: 45 Copynumber: 7.7 Consensus size: 45
7536763 CCTCCATTCA
* * *
7536773 TGTTTATAATGCA-TCATTATGCATTTTTAACTATAGCATAATTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATAATTTTC
* * * *
7536819 TGTTGATAATGTACCCATATGAATTTCAATTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATAATTTTC
* * * * *
7536864 TATTGATAATGCACCCATATGCCTTTTAACTATAGCATATTTTTA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATAATTTTC
* *
7536909 TGTTGATAATGCA-CCATATGCATTTCAACTATCGCATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATAATTTTC
* * *
7536953 TGTTGATAATCCACCCATATGCATTTCAAGTAT-GCCATAATTTTT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATAATTTTC
*
7536998 TGTTGATAATGCACCCATATGCATTTCAACTAT-GCCATAAGTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATAATTTTC
* * *
7537043 TGTTAACAATGCACCCATATGCATTT---CTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATAATTTTC
** *
7537085 AT-TTGACCATGCTCCCATATGCATTTCAACTAT
1 -TGTTGATAATGCACCCATATGCATTTCAACTAT
7537118 GCCATCCTTT
Statistics
Matches: 256, Mismatches: 35, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
42 33 0.13
43 2 0.01
44 40 0.16
45 163 0.64
46 16 0.06
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATAATTTTC
Found at i:7537054 original size:134 final size:133
Alignment explanation
Indices: 7536780--7537122 Score: 381
Period size: 134 Copynumber: 2.6 Consensus size: 133
7536770 TCATGTTTAT
* * *
7536780 AATGCATCATTATGCATTTTTAACTATAGCATAATTTTCTGTTGATAATGTACCCATATGAATTT
1 AATGCACCA-TATGCA--TTTAACTATAGCATAATTTTCTGTTGATAATGCACCCATATGCATTT
* * * * **
7536845 CAATTATAG-CATACTTTTCTATTGATAATGCACCCATATGCCTTTTAACTATAGCATATTTTTA
63 CAACTAT-GCCATAATTTTCTATTGATAATGCACCCATATGCATTTCAACTATAGCATAAGTTTA
* *
7536909 TGTTGAT
127 TGTTAAC
* * *
7536916 AATGCACCATATGCATTTCAACTATCGCATATTTTTCTGTTGATAATCCACCCATATGCATTTCA
1 AATGCACCATATGCATTT-AACTATAGCATAATTTTCTGTTGATAATGCACCCATATGCATTTCA
* * * *
7536981 AGTATGCCATAATTTTTTGTTGATAATGCACCCATATGCATTTCAACTAT-GCCATAAGTTTCTG
65 ACTATGCCATAATTTTCTATTGATAATGCACCCATATGCATTTCAACTATAG-CATAAGTTTATG
7537045 TTAAC
129 TTAAC
* ** *
7537050 AATGCACCCATATGCATTT--CTATAGCATACTTTTCAT-TTGACCATGCTCCCATATGCATTTC
1 AATGCA-CCATATGCATTTAACTATAGCATAATTTTC-TGTTGATAATGCACCCATATGCATTTC
7537112 AACTATGCCAT
64 AACTATGCCAT
7537123 CCTTTCATGC
Statistics
Matches: 178, Mismatches: 24, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
132 45 0.25
133 6 0.03
134 101 0.57
135 18 0.10
136 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (133 bp):
AATGCACCATATGCATTTAACTATAGCATAATTTTCTGTTGATAATGCACCCATATGCATTTCAA
CTATGCCATAATTTTCTATTGATAATGCACCCATATGCATTTCAACTATAGCATAAGTTTATGTT
AAC
Found at i:7537141 original size:87 final size:85
Alignment explanation
Indices: 7536803--7537154 Score: 309
Period size: 90 Copynumber: 4.0 Consensus size: 85
7536793 GCATTTTTAA
* * * * *
7536803 CTATAGCATAATTTTCTGTTGATAATGTACCCATATGAATTTCAATTATAG-CAT-ACTTTTCTA
1 CTATAGCAT-ATTTTATGTTGATAATG-CCCCATATGCATTTCAACTAT-GCCATAAC-TTTCTG
* *
7536866 TTGATAATGCACCCATATGCCTTTT
62 TTAATAATGCACCCATATG-CATTT
* **
7536891 AACTATAGCATATTTTTATGTTGATAATGCACCATATGCATTTCAACTAT-CGCATATTTTTCTG
1 --CTATAGCATA-TTTTATGTTGATAATGCCCCATATGCATTTCAACTATGC-CATAACTTTCTG
* *
7536955 TTGATAATCCACCCATATGCATTT
62 TTAATAATGCACCCATATGCATTT
* * *
7536979 CAAGTATGCCATAATTTTTTGTTGATAATGCACCCATATGCATTTCAACTATGCCATAAGTTTCT
1 CTA-TA-G-CAT-ATTTTATGTTGATAATGC-CCCATATGCATTTCAACTATGCCATAACTTTCT
*
7537044 GTTAACAATGCACCCATATGCATTT
61 GTTAATAATGCACCCATATGCATTT
** *
7537069 CTATAGCATACTTTTCAT-TTGACCATGCTCCCATATGCATTTCAACTATGCCAT-CCTTTCATG
1 CTATAGCATA-TTTT-ATGTTGATAATGC-CCCATATGCATTTCAACTATGCCATAACTTTC-TG
** *
7537132 CCAATAATGCCCCCATATGCATT
62 TTAATAATGCACCCATATGCATT
7537155 ATTATTTTCA
Statistics
Matches: 220, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
86 7 0.03
87 63 0.29
88 7 0.03
89 65 0.30
90 77 0.35
91 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.39
Consensus pattern (85 bp):
CTATAGCATATTTTATGTTGATAATGCCCCATATGCATTTCAACTATGCCATAACTTTCTGTTAA
TAATGCACCCATATGCATTT
Found at i:7537153 original size:45 final size:46
Alignment explanation
Indices: 7536769--7537154 Score: 248
Period size: 45 Copynumber: 8.6 Consensus size: 46
7536759 GTAACCTCCA
* * * *
7536769 TTCATGTTTATAATGCA-TCATTATGCATTTTTAACTATAG-CATAATT
1 TTCATGTTAATAATGCACCCA-TATGCA-TTTCAACTAT-GCCATAAAT
* * * * **
7536816 TTC-TGTTGATAATGTACCCATATGAATTTCAATTATAG-CATACTT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTAT-GCCATAAAT
* * * * *
7536861 TTC-TATTGATAATGCACCCATATGCCTTTTAACTATAG-CAT-ATT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTAT-GCCATAAAT
* * **
7536905 TTTATGTTGATAATGCA-CCATATGCATTTCAACTAT-CGCATATTT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTATGC-CATAAAT
* * *
7536950 TTC-TGTTGATAATCCACCCATATGCATTTCAAGTATGCCAT-AAT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTATGCCATAAAT
** * *
7536994 TTTTTGTTGATAATGCACCCATATGCATTTCAACTATGCCATAAGT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTATGCCATAAAT
* * **
7537040 TTC-TGTTAACAATGCACCCATATGCATTTCTA-TA-G-CATACTT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTATGCCATAAAT
* ** * **
7537082 TTCAT-TTGACCATGCTCCCATATGCATTTCAACTATGCCAT-CCT
1 TTCATGTTAATAATGCACCCATATGCATTTCAACTATGCCATAAAT
** *
7537126 TTCATGCCAATAATGCCCCCATATGCATT
1 TTCATGTTAATAATGCACCCATATGCATT
7537155 ATTATTTTCA
Statistics
Matches: 280, Mismatches: 45, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
42 31 0.11
43 4 0.01
44 49 0.17
45 170 0.61
46 21 0.08
47 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (46 bp):
TTCATGTTAATAATGCACCCATATGCATTTCAACTATGCCATAAAT
Found at i:7540297 original size:74 final size:73
Alignment explanation
Indices: 7540158--7540331 Score: 215
Period size: 74 Copynumber: 2.4 Consensus size: 73
7540148 TTATTTAAGG
* * *
7540158 ATTTATATTTAATTAAAATATGAATATATTATTATAAATTTATATTCGATTGAAATAGGAATATA
1 ATTTATATTTGATTAAAATAT-AATATATTATTATAAATTTATATTCAATTAAAATAGGAATATA
7540223 TTATTTATAA
65 TTA-TTATAA
** *
7540233 ATTTATATTTGATT-AAATATAATATATTATTTATGGATTTTTATTCAATTAAAATAGGAATATA
1 ATTTATATTTGATTAAAATATAATATATTA-TTATAAATTTATATTCAATTAAAATAGGAATATA
*
7540297 TTATTATGA
65 TTATTATAA
* * * *
7540306 ATTTATACTCGATTGAAATACAATAT
1 ATTTATATTTGATTAAAATATAATAT
7540332 TGTAGTTTTG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
73 26 0.30
74 48 0.55
75 13 0.15
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (73 bp):
ATTTATATTTGATTAAAATATAATATATTATTATAAATTTATATTCAATTAAAATAGGAATATAT
TATTATAA
Found at i:7540325 original size:37 final size:38
Alignment explanation
Indices: 7540158--7540325 Score: 191
Period size: 37 Copynumber: 4.5 Consensus size: 38
7540148 TTATTTAAGG
** * *
7540158 ATTTATATTTAATTAAAATATGAATATATTA-TTATAA
1 ATTTATATTCGATTGAAATAGGAATATATTATTTATAA
7540195 ATTTATATTCGATTGAAATAGGAATATATTATTTATAA
1 ATTTATATTCGATTGAAATAGGAATATATTATTTATAA
* * **
7540233 ATTTATATTTGATT-AAATA-TAATATATTATTTATGG
1 ATTTATATTCGATTGAAATAGGAATATATTATTTATAA
* * * *
7540269 ATTTTTATTCAATTAAAATAGGAATATATTA-TTATGA
1 ATTTATATTCGATTGAAATAGGAATATATTATTTATAA
*
7540306 ATTTATACTCGATTGAAATA
1 ATTTATATTCGATTGAAATA
7540326 CAATATTGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
36 25 0.23
37 58 0.52
38 28 0.25
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (38 bp):
ATTTATATTCGATTGAAATAGGAATATATTATTTATAA
Found at i:7540843 original size:3 final size:3
Alignment explanation
Indices: 7540835--7540906 Score: 128
Period size: 3 Copynumber: 24.0 Consensus size: 3
7540825 ATGATGTTTG
7540835 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7540883 ATT ATT ATT ATT ATT -TT ATCT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT
7540907 TCATTCTCCG
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7543616 original size:21 final size:22
Alignment explanation
Indices: 7543586--7543637 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7543576 AATGATTTAG
*
7543586 AGTTTCAAAAAT-CAAAATTGA
1 AGTTTAAAAAATACAAAATTGA
* *
7543607 AGTTTAAAAAATATAAAATTTA
1 AGTTTAAAAAATACAAAATTGA
*
7543629 AATTTAAAA
1 AGTTTAAAA
7543638 GTTAAGTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
AGTTTAAAAAATACAAAATTGA
Found at i:7549090 original size:22 final size:23
Alignment explanation
Indices: 7549048--7549092 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
7549038 ATAAATCACC
7549048 CCTCCCCTTCCCCGACCTTTCTG
1 CCTCCCCTTCCCCGACCTTTCTG
7549071 CCTCCCCTTCCCC-ACCTTTCTG
1 CCTCCCCTTCCCCGACCTTTCTG
7549093 GTTCTGACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.04, C:0.58, G:0.07, T:0.31
Consensus pattern (23 bp):
CCTCCCCTTCCCCGACCTTTCTG
Found at i:7552214 original size:11 final size:11
Alignment explanation
Indices: 7552198--7552225 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7552188 ATAGTATCTT
7552198 AAAGAAGACTC
1 AAAGAAGACTC
7552209 AAAGAAGACTC
1 AAAGAAGACTC
7552220 AAAGAA
1 AAAGAA
7552226 TAACCAATGT
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:0.61, C:0.14, G:0.18, T:0.07
Consensus pattern (11 bp):
AAAGAAGACTC
Found at i:7554313 original size:24 final size:21
Alignment explanation
Indices: 7554278--7554320 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
7554268 GGCACATTCT
*
7554278 TTTGAATTTCAAGAGGTACATCA
1 TTTGAATGTCAA-AGG-ACATCA
7554301 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
7554321 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCA
Found at i:7555669 original size:23 final size:23
Alignment explanation
Indices: 7555631--7555689 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
7555621 TTCTTTCTTT
7555631 CTTG-CTTTTTCTTTTTGGAGTG
1 CTTGACTTTTTCTTTTTGGAGTG
*
7555653 TTTGACTTTCTTC-TTTTGGAGTG
1 CTTGACTTT-TTCTTTTTGGAGTG
7555676 CTTGAC-TTTTCTTT
1 CTTGACTTTTTCTTT
7555690 GCTGATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 7 0.22
23 19 0.59
24 3 0.09
ACGTcount: A:0.07, C:0.15, G:0.19, T:0.59
Consensus pattern (23 bp):
CTTGACTTTTTCTTTTTGGAGTG
Found at i:7556056 original size:11 final size:11
Alignment explanation
Indices: 7556040--7556067 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7556030 ATAGTATCTT
7556040 AAAGAAGACTC
1 AAAGAAGACTC
7556051 AAAGAAGACTC
1 AAAGAAGACTC
7556062 AAAGAA
1 AAAGAA
7556068 TAACCAATGC
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:0.61, C:0.14, G:0.18, T:0.07
Consensus pattern (11 bp):
AAAGAAGACTC
Found at i:7557867 original size:36 final size:36
Alignment explanation
Indices: 7557820--7557898 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
7557810 ACCAAACCCG
7557820 TCCCCATCCCCGTTTAACATAAACAGTTTTTCCCCA
1 TCCCCATCCCCGTTTAACATAAACAGTTTTTCCCCA
* * * * *
7557856 TCCCCGTCCCCGTTTAGCATAAACGGTTTTTTCCCG
1 TCCCCATCCCCGTTTAACATAAACAGTTTTTCCCCA
7557892 TCCCCAT
1 TCCCCAT
7557899 TTAATTCGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.39, G:0.10, T:0.32
Consensus pattern (36 bp):
TCCCCATCCCCGTTTAACATAAACAGTTTTTCCCCA
Found at i:7565350 original size:22 final size:22
Alignment explanation
Indices: 7565322--7565375 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
7565312 AAATTTCAAA
7565322 TACAACTCATCATTAGACAACT
1 TACAACTCATCATTAGACAACT
*
7565344 TACAACTCATCATTAGATAACT
1 TACAACTCATCATTAGACAACT
**
7565366 TGTAACTCAT
1 TACAACTCAT
7565376 TAAACGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (22 bp):
TACAACTCATCATTAGACAACT
Found at i:7565482 original size:18 final size:18
Alignment explanation
Indices: 7565459--7565504 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
7565449 GTTGGCTACT
*
7565459 TCATCTTCATCATTTGAG
1 TCATCTTCATCATTGGAG
7565477 TCATCTTCATCATTGGAG
1 TCATCTTCATCATTGGAG
7565495 TCATCTTCAT
1 TCATCTTCAT
7565505 AACTCCAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (18 bp):
TCATCTTCATCATTGGAG
Found at i:7565819 original size:19 final size:20
Alignment explanation
Indices: 7565789--7565827 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7565779 ATTCTTCTTG
*
7565789 TTCTTCTTTTCTTTATCATC
1 TTCTTCTTTTCTTTACCATC
7565809 TTCTT-TTTTCTTTACCATC
1 TTCTTCTTTTCTTTACCATC
7565828 AACTCATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTTTTCTTTACCATC
Found at i:7567769 original size:42 final size:41
Alignment explanation
Indices: 7567723--7567830 Score: 132
Period size: 41 Copynumber: 2.6 Consensus size: 41
7567713 TAAACAATAA
*
7567723 CGGCGTTTATAGTAAAAACGCCGCAATATAGTAG-ATATTTAG
1 CGGCGTTTATAGTAAAAACGCCGCAATATAGT-GTA-ATATAG
7567765 CGGCGTTT-TAGCT-AAAACGCCGCAATATAGTGTAATATAG
1 CGGCGTTTATAG-TAAAAACGCCGCAATATAGTGTAATATAG
* * *
7567805 CGACGTTTATTGTATAAACGCCGCAA
1 CGGCGTTTATAGTAAAAACGCCGCAA
7567831 AAACAGTGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
40 14 0.24
41 35 0.60
42 9 0.16
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (41 bp):
CGGCGTTTATAGTAAAAACGCCGCAATATAGTGTAATATAG
Found at i:7568887 original size:57 final size:57
Alignment explanation
Indices: 7568820--7569026 Score: 359
Period size: 57 Copynumber: 3.7 Consensus size: 57
7568810 GTGAAGACTG
*
7568820 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTTTTAAGTAGTT
1 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGTT
7568877 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGTT
1 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGTT
*
7568934 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTCTGTTGTTAAGTAGTT
1 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGTT
*
7568991 TTATGCATAAGTACTTT--TGTTT-T-AATTAAAATGTAT
1 TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
7569027 GGTTGTAACT
Statistics
Matches: 147, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
53 12 0.08
54 1 0.01
55 5 0.03
57 129 0.88
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (57 bp):
TTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGTT
Found at i:7569302 original size:41 final size:41
Alignment explanation
Indices: 7569257--7569351 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
7569247 ATATTTGTAT
* *
7569257 TTTAGTGGCGTTTGTATGAACACGCCACTATAGACTTC-TAC
1 TTTAGTGGCGTTTGTATAAAAACGCCACTATAGAC-TCGTAC
* * *
7569298 TTTAGTGGTGTTCGTATAAAAACGCCACTGTAGACTCGTAC
1 TTTAGTGGCGTTTGTATAAAAACGCCACTATAGACTCGTAC
7569339 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
7569352 TCGTAGAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTATAAAAACGCCACTATAGACTCGTAC
Found at i:7569362 original size:41 final size:41
Alignment explanation
Indices: 7569257--7569364 Score: 109
Period size: 41 Copynumber: 2.6 Consensus size: 41
7569247 ATATTTGTAT
7569257 TTTAGTGGCG-TTT-GTATGAACACGCCACTATAGACTTCTAC
1 TTTAGTGGCGTTTTCGTA-GAA-ACGCCACTATAGACTTCTAC
* * *
7569298 TTTAGT-G-GTGTTCGTATAAAAACGCCACTGTAGAC-TCGTAC
1 TTTAGTGGCGTTTTCG--TAGAAACGCCACTATAGACTTC-TAC
7569339 TTTAGTGGCGTTTTCGTAGAAACGCC
1 TTTAGTGGCGTTTTCGTAGAAACGCC
7569365 GCAAAGTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
39 1 0.02
40 5 0.09
41 38 0.69
42 3 0.05
43 8 0.15
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTAGTGGCGTTTTCGTAGAAACGCCACTATAGACTTCTAC
Found at i:7569384 original size:41 final size:42
Alignment explanation
Indices: 7569339--7569451 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
7569329 AGACTCGTAC
* *
7569339 TTTAGTGGCGTTTT-CGT-AGAAACGCCGCAAA-GTATTAGTAA
1 TTTAGTGGCGTTTTGC-TAACAAACGCCGCAAATG-ATGAGTAA
** * *
7569380 TTTAGCAGCGTTTTGCTAACAAACGCCGCAAATGATGCGTAC
1 TTTAGTGGCGTTTTGCTAACAAACGCCGCAAATGATGAGTAA
*
7569422 TTTAGTGGCGTTTTGAC-AAAAAACGCCGCA
1 TTTAGTGGCGTTTTG-CTAACAAACGCCGCA
7569452 GATGTTTAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 13 0.22
42 44 0.75
43 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (42 bp):
TTTAGTGGCGTTTTGCTAACAAACGCCGCAAATGATGAGTAA
Found at i:7570329 original size:46 final size:46
Alignment explanation
Indices: 7570259--7570349 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
7570249 CTAAGGTACT
*
7570259 TACTTGCCTTCGTTCCTCTTTCTTGTTTGACCATGTAGTTATTTCG
1 TACTTGCCTTCGTTCCTCTGTCTTGTTTGACCATGTAGTTATTTCG
7570305 TACTTGCCTTCGTTCCTCTGTCTTGTTTGACCATGTAGTTATTTC
1 TACTTGCCTTCGTTCCTCTGTCTTGTTTGACCATGTAGTTATTTC
7570350 AGAATCGCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.11, C:0.24, G:0.15, T:0.49
Consensus pattern (46 bp):
TACTTGCCTTCGTTCCTCTGTCTTGTTTGACCATGTAGTTATTTCG
Found at i:7571042 original size:162 final size:165
Alignment explanation
Indices: 7570774--7571103 Score: 630
Period size: 162 Copynumber: 2.0 Consensus size: 165
7570764 AAGATTGGCT
*
7570774 CTTCTTTTTTCCTTTGAATGTTGCCTTCTTTATTTTATATTTTGAGATTGGTTAAGCCAAAACCC
1 CTTCTTTTTTCCTTTGAATGTTGCATTCTTTATTTTATATTTTGAGATTGGTTAAGCCAAAACCC
7570839 TTATGAAAATGAGGTATTTCTTTATTTACCCTTTCATGAGACAATCCATTACATATGCAC-CATT
66 TTATGAAAATGAGGTATTTCTTTATTTACCCTTTCATGAGACAATCCATTACATATGCACGCATT
7570903 ATTACCC-CAGATCTGCCATTAGTTTGCTAAAAAG
131 ATTACCCTCAGATCTGCCATTAGTTTGCTAAAAAG
7570937 CTTCTTTTTTCCTTTGAATGTTGCATTCTTTA-TTTATATTTTGAGATTGGTTAAGCCAAAACCC
1 CTTCTTTTTTCCTTTGAATGTTGCATTCTTTATTTTATATTTTGAGATTGGTTAAGCCAAAACCC
7571001 TTATGAAAATGAGGTATTTCTTTATTTACCCTTTCATGAGACAATCCATTACATATGCACGCATT
66 TTATGAAAATGAGGTATTTCTTTATTTACCCTTTCATGAGACAATCCATTACATATGCACGCATT
7571066 ATTACCCTCAGATCTGCCATTAGTTTGCTAAAAAG
131 ATTACCCTCAGATCTGCCATTAGTTTGCTAAAAAG
7571101 CTT
1 CTT
7571104 TCACTTTATT
Statistics
Matches: 164, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
162 92 0.56
163 42 0.26
164 30 0.18
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (165 bp):
CTTCTTTTTTCCTTTGAATGTTGCATTCTTTATTTTATATTTTGAGATTGGTTAAGCCAAAACCC
TTATGAAAATGAGGTATTTCTTTATTTACCCTTTCATGAGACAATCCATTACATATGCACGCATT
ATTACCCTCAGATCTGCCATTAGTTTGCTAAAAAG
Found at i:7572323 original size:16 final size:17
Alignment explanation
Indices: 7572295--7572351 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 17
7572285 ACTTGAAAAT
7572295 GAGCAAGGGAAGCAGAGA
1 GAGC-AGGGAAGCAGAGA
7572313 GAGCA-GGAAGCAGCCAGA
1 GAGCAGGGAAGCAG--AGA
7572331 GCAGCAGTGGAAGCAGAGA
1 G-AGCAG-GGAAGCAGAGA
7572350 GA
1 GA
7572352 AACAGTGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 9 0.26
19 8 0.24
21 8 0.24
ACGTcount: A:0.40, C:0.16, G:0.42, T:0.02
Consensus pattern (17 bp):
GAGCAGGGAAGCAGAGA
Found at i:7572350 original size:19 final size:18
Alignment explanation
Indices: 7572302--7572351 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 18
7572292 AATGAGCAAG
7572302 GGAAGCAGAGAGAGCA--
1 GGAAGCAGAGAGAGCAGT
7572318 GGAAGCAGCCAGAGCAGCAGT
1 GGAAGCAG--AGAG-AGCAGT
7572339 GGAAGCAGAGAGA
1 GGAAGCAGAGAGA
7572352 AACAGTGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 8 0.28
18 5 0.17
19 8 0.28
21 8 0.28
ACGTcount: A:0.40, C:0.16, G:0.42, T:0.02
Consensus pattern (18 bp):
GGAAGCAGAGAGAGCAGT
Found at i:7572382 original size:21 final size:21
Alignment explanation
Indices: 7572358--7572412 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
7572348 GAGAAACAGT
*
7572358 GGCAGCACAACGAGAGGCAGC
1 GGCAGCACAAAGAGAGGCAGC
7572379 GGCAGCACAAAGAGAGGCAGC
1 GGCAGCACAAAGAGAGGCAGC
7572400 GGCAGCACAAAGA
1 GGCAGCACAAAGA
7572413 AGCAACATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.36, T:0.00
Consensus pattern (21 bp):
GGCAGCACAAAGAGAGGCAGC
Found at i:7573029 original size:38 final size:39
Alignment explanation
Indices: 7572935--7573046 Score: 144
Period size: 38 Copynumber: 3.0 Consensus size: 39
7572925 CGAAACCTAC
* *
7572935 TGCGGCGTTTGTCTTCCAAATGCCG---AATATCAACAT
1 TGCGCCGTTTGTCTTCCAAACGCCGCTAAATATCAACAT
7572971 TGCGCCGTTTGTCTTCCAAACGCCGCTAAATATCAA-AT
1 TGCGCCGTTTGTCTTCCAAACGCCGCTAAATATCAACAT
* *
7573009 TGTGGCGTTTGTCTGT-CAAACGCCGCTAAATATCAACA
1 TGCGCCGTTTGTCT-TCCAAACGCCGCTAAATATCAACA
7573047 CCTATTGCGG
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
36 23 0.34
38 34 0.51
39 10 0.15
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (39 bp):
TGCGCCGTTTGTCTTCCAAACGCCGCTAAATATCAACAT
Found at i:7575182 original size:16 final size:16
Alignment explanation
Indices: 7575163--7575214 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
7575153 AAATAAACTT
7575163 ATTATAAATTATATTA
1 ATTATAAATTATATTA
** * *
7575179 ATTATTTATTAAAATA
1 ATTATAAATTATATTA
7575195 ATTATAAA-T-TATTA
1 ATTATAAATTATATTA
7575209 ATTATA
1 ATTATA
7575215 TAAATTACTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 9 0.32
15 1 0.04
16 18 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATAAATTATATTA
Found at i:7575189 original size:23 final size:24
Alignment explanation
Indices: 7575161--7575255 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 24
7575151 TAAAATAAAC
7575161 TTATTATAAATTA-TATTAATTAT
1 TTATTATAAATTATTATTAATTAT
* *
7575184 TTATTA-AAATAATTATAAATTAT
1 TTATTATAAATTATTATTAATTAT
* *
7575207 TAATTATATAAATTACTTATTAAAATAT
1 TTA-T-TATAAATTA-TTATT-AATTAT
7575235 TAATATTATAATATTA-TATTA
1 T--TATTATAA-ATTATTATTA
7575256 TATTTTAAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
22 5 0.09
23 17 0.30
24 1 0.02
25 2 0.04
26 6 0.11
27 8 0.14
28 11 0.20
29 5 0.09
30 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATTATAAATTATTATTAATTAT
Found at i:7575215 original size:39 final size:37
Alignment explanation
Indices: 7575163--7575255 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 37
7575153 AAATAAACTT
*
7575163 ATTATAAATTATATTAATTATTTATTAAAATAATTATAA
1 ATTATAAATTATATTAATTACTTATTAAAAT-ATTA-AA
* * *
7575202 ATTATTAATTATATAAATTACTTATTAAAATATTAAT
1 ATTATAAATTATATTAATTACTTATTAAAATATTAAA
7575239 ATTATAATATTATATTA
1 ATTATAA-ATTATATTA
7575256 TATTTTAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 7 0.15
38 12 0.26
39 28 0.60
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTATAAATTATATTAATTACTTATTAAAATATTAAA
Found at i:7575247 original size:14 final size:13
Alignment explanation
Indices: 7575162--7575257 Score: 55
Period size: 14 Copynumber: 7.5 Consensus size: 13
7575152 AAAATAAACT
7575162 TATTATAA-ATTA
1 TATTATAATATTA
*
7575174 TATTA-ATTATT-
1 TATTATAATATTA
7575185 TATTA-AA-A-TA
1 TATTATAATATTA
7575195 -ATTATAA-ATTA
1 TATTATAATATTA
*
7575206 TTAATTATATAAATTA
1 -T-ATTATA-ATATTA
*
7575222 CTTATTAAAATATTAA
1 --TATTATAATATT-A
7575238 TATTATAATATTA
1 TATTATAATATTA
7575251 TATTATA
1 TATTATA
7575258 TTTTAAGGAG
Statistics
Matches: 68, Mismatches: 5, Indels: 21
0.72 0.05 0.22
Matches are distributed among these distances:
9 5 0.07
10 4 0.06
11 9 0.13
12 8 0.12
13 8 0.12
14 17 0.25
15 5 0.07
16 10 0.15
17 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTATAATATTA
Found at i:7576080 original size:37 final size:37
Alignment explanation
Indices: 7576038--7576123 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 37
7576028 ATTAATAATT
*
7576038 TATTATATATTATGAA-AATAA-AAATATAATATTATGA
1 TATTATA-ATTAT-AACAACAATAAATATAATATTATGA
7576075 TATTATAATTATAACAACAATAAATATAATATTAT-A
1 TATTATAATTATAACAACAATAAATATAATATTATGA
*
7576111 TTATTAAAATTAT
1 -TATTATAATTAT
7576124 CAATAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
35 2 0.05
36 10 0.23
37 32 0.73
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (37 bp):
TATTATAATTATAACAACAATAAATATAATATTATGA
Found at i:7576087 original size:22 final size:22
Alignment explanation
Indices: 7576039--7576088 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7576029 TTAATAATTT
7576039 ATTAT-ATATTATGAAAATAAA
1 ATTATAATATTATGAAAATAAA
* * * *
7576060 AATATAATATTATGATATTATA
1 ATTATAATATTATGAAAATAAA
7576082 ATTATAA
1 ATTATAA
7576089 CAACAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
ATTATAATATTATGAAAATAAA
Found at i:7577004 original size:3 final size:3
Alignment explanation
Indices: 7576996--7577043 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
7576986 TCCGAATTTA
* * *
7576996 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAC TAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7577044 GATAATTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7577061 original size:108 final size:109
Alignment explanation
Indices: 7576935--7577147 Score: 320
Period size: 108 Copynumber: 2.0 Consensus size: 109
7576925 TCCATACTAC
* * *
7576935 GATAATTTTCAACGTATAAAGAATAATTAAAAATGTATATATTCGTTTTTGTCCGAATTTATATT
1 GATAATTTTCAACGTATAAAGAATAATTAAAAAGGTAGATATTCGTTTTTATCCGAATTTATATT
* * * *
7577000 ATTATTATTATTATTATTGTTATTACTATTATTAATATTATTAT
66 ATTATTATAATTATTACTATTATTAATATTATTAATATTATTAT
* * *
7577044 GATAA-TTTCAACTTATAAAGAATAATTAAAAAGGTAGATATTCGTTTTTATCTGGATTTATATT
1 GATAATTTTCAACGTATAAAGAATAATTAAAAAGGTAGATATTCGTTTTTATCCGAATTTATATT
*
7577108 ATTATTATAATTATTACTATTATTAATATTATTATTATTA
66 ATTATTATAATTATTACTATTATTAATATTATTAATATTA
7577148 CATTTGTAGG
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
108 88 0.95
109 5 0.05
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (109 bp):
GATAATTTTCAACGTATAAAGAATAATTAAAAAGGTAGATATTCGTTTTTATCCGAATTTATATT
ATTATTATAATTATTACTATTATTAATATTATTAATATTATTAT
Found at i:7577112 original size:3 final size:3
Alignment explanation
Indices: 7577104--7577147 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
7577094 TCTGGATTTA
* * *
7577104 TAT TAT TAT TAT AAT TAT TAC TAT TAT TAA TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7577148 CATTTGTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7584875 original size:3 final size:3
Alignment explanation
Indices: 7584867--7584922 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
7584857 TCCGGGTTTA
* * * * *
7584867 TAT TAT TAT TAT TAT TAC TAT TAC TAT TAC TAT TAT TAA TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7584915 TAT TAT TA
1 TAT TAT TA
7584923 CATTTGCTGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:7599029 original size:2 final size:2
Alignment explanation
Indices: 7599022--7599055 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7599012 ATGTAGAGAA
7599022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7599056 CAATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7605701 original size:21 final size:21
Alignment explanation
Indices: 7605675--7605714 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7605665 CCCCCTTTGA
*
7605675 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
7605696 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
7605715 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:7608246 original size:22 final size:23
Alignment explanation
Indices: 7608221--7608264 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
7608211 AATTAAGTTT
7608221 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
7608243 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
7608265 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:7608399 original size:21 final size:21
Alignment explanation
Indices: 7608375--7608431 Score: 98
Period size: 20 Copynumber: 2.8 Consensus size: 21
7608365 TATGCTCGGA
7608375 GGGAACCGATTCCCCCCCAGG
1 GGGAACCGATTCCCCCCCAGG
7608396 GGGAACCGATT-CCCCCCAGG
1 GGGAACCGATTCCCCCCCAGG
*
7608416 GGGTACCGATTCCCCC
1 GGGAACCGATTCCCCC
7608432 TTGAATAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.18, C:0.42, G:0.28, T:0.12
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCCAGG
Found at i:7609229 original size:2 final size:2
Alignment explanation
Indices: 7609222--7609265 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7609212 AGGAACCATA
7609222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7609264 AT
1 AT
7609266 TAAATGCGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7609366 original size:2 final size:2
Alignment explanation
Indices: 7609359--7609387 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7609349 ATAAATAAGC
7609359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7609388 CGAAAGGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7610759 original size:31 final size:31
Alignment explanation
Indices: 7610723--7610781 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7610713 AACTTAAAAG
*
7610723 AGTTTTGCAATACT-AAGATTTAAATAATTTT
1 AGTTTTACAATACTGAA-ATTTAAATAATTTT
7610754 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
7610782 CTATACAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:7610832 original size:22 final size:22
Alignment explanation
Indices: 7610806--7610848 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7610796 TAATAAATTA
7610806 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
7610828 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
7610849 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:7610857 original size:22 final size:22
Alignment explanation
Indices: 7610808--7610856 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
7610798 ATAAATTATT
**
7610808 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
7610830 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
7610853 TAAA
1 TAAA
7610857 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:7610860 original size:54 final size:54
Alignment explanation
Indices: 7610796--7610992 Score: 275
Period size: 54 Copynumber: 3.8 Consensus size: 54
7610786 ACAACTACAA
7610796 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
7610850 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * *
7610904 TAATAAATTATTTAAAATAAACCAATCCATA--CT--AATAAAT-TAT--TTA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
7610950 AAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAA
7610993 TTTATTTTAA
Statistics
Matches: 131, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
46 9 0.07
47 22 0.17
49 3 0.02
50 7 0.05
51 5 0.04
52 1 0.01
54 84 0.64
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:7610866 original size:32 final size:32
Alignment explanation
Indices: 7610828--7610957 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
7610818 CAATCCATAT
7610828 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
7610860 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
7610882 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
7610914 TTTAAAATAAACCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
7610946 TTTAAAATAAAT
1 TTTAAAATAAAT
7610958 TATTTTAAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 20
0.80 0.02 0.19
Matches are distributed among these distances:
22 16 0.19
23 2 0.02
24 1 0.01
26 3 0.03
28 3 0.03
30 1 0.01
31 2 0.02
32 58 0.67
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:7610886 original size:22 final size:22
Alignment explanation
Indices: 7610860--7610902 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7610850 TAATAAATTA
7610860 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
7610882 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
7610903 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:7610911 original size:22 final size:22
Alignment explanation
Indices: 7610862--7610910 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
7610852 ATAAATTATT
**
7610862 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
7610884 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
7610907 TAAA
1 TAAA
7610911 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:7610966 original size:15 final size:15
Alignment explanation
Indices: 7610937--7611128 Score: 219
Period size: 15 Copynumber: 12.5 Consensus size: 15
7610927 AATCCATACT
7610937 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
7610951 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
7610966 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
7610988 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
7611003 AATAAATTATTTTAT
1 AATAAATTATTTTAA
7611018 AATAAATTATTTTAA
1 AATAAATTATTTTAA
* * *
7611033 AACAATTTATTTTAT
1 AATAAATTATTTTAA
7611048 AATAAATTATTTTTAA
1 AATAAATTA-TTTTAA
*
7611064 AA-AAATTATTTTAT
1 AATAAATTATTTTAA
7611078 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
7611093 AA-AAATTATTTTAT
1 AATAAATTATTTTAA
7611107 AATAAATTATTTTAA
1 AATAAATTATTTTAA
7611122 AATAAAT
1 AATAAAT
7611129 AATCTTATTA
Statistics
Matches: 151, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
14 29 0.19
15 98 0.65
16 7 0.05
17 1 0.01
18 2 0.01
19 3 0.02
20 1 0.01
22 10 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:7610977 original size:47 final size:49
Alignment explanation
Indices: 7610797--7611113 Score: 178
Period size: 54 Copynumber: 6.4 Consensus size: 49
7610787 CAACTACAAT
* * ** *
7610797 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
1 AATAAATTATTTTAAAATAAATCAATCCATA---TATAATAAAT-TAT-TTTA-A
* * ** *
7610851 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
1 AATAAATTATTTTAAAATAAATCAATCCATA---TATAATAAAT-TAT-TTTA-A
* *
7610905 AATAAATTA-TTTAAAATAAACCAATCCATA-CTAATAAATTA-TTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
*
7610951 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATA---TATAATAAATTATTTTAA
* * * * * * *
7611003 AATAAATTATTTTATAATAAAT-TAT---TTTAAAACAATTTATTTTAT
1 AATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
* *
7611048 AATAAATTATTTTTAAAA-AAAT-TAT---TTTATAATAAATTATTTTAA
1 AATAAATTA-TTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
*
7611093 AA-AAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
7611114 TATTTTAAAA
Statistics
Matches: 233, Mismatches: 22, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
43 7 0.03
44 10 0.04
45 49 0.21
46 16 0.07
47 22 0.09
48 1 0.00
49 1 0.00
50 7 0.03
51 11 0.05
52 26 0.11
54 83 0.36
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (49 bp):
AATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
Found at i:7611016 original size:30 final size:29
Alignment explanation
Indices: 7610980--7611150 Score: 249
Period size: 30 Copynumber: 5.9 Consensus size: 29
7610970 AATCAATCCA
*
7610980 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAA-AAAT
*
7611010 TATTTTATAATAAATTATTTTAAAACAATT
1 TATTTTATAATAAATTATTTTAAAA-AAAT
7611040 TATTTTATAATAAATTATTTTTAAAAAAAT
1 TATTTTATAATAAATTA-TTTTAAAAAAAT
7611070 TATTTTATAATAAATTATTTTAAAAAAAT
1 TATTTTATAATAAATTATTTTAAAAAAAT
7611099 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAA-AAAT
* *
7611129 AATCTTAT--TAAATTA-TTTAAAA
1 TATTTTATAATAAATTATTTTAAAA
7611151 TTATTTTAAT
Statistics
Matches: 133, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
27 7 0.05
28 7 0.05
29 37 0.28
30 74 0.56
31 8 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
TATTTTATAATAAATTATTTTAAAAAAAT
Found at i:7611936 original size:23 final size:22
Alignment explanation
Indices: 7611902--7611970 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
7611892 CACCACAGCT
*
7611902 CGTATAAATGCATCGAAGTGCCA
1 CGTAGAAATGCA-CGAAGTGCCA
* * *
7611925 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCA-CGAAGTGCCA
7611948 CGTAGAAATGCACTGAAGTGCCA
1 CGTAGAAATGCAC-GAAGTGCCA
7611971 TATAAGATTG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
CGTAGAAATGCACGAAGTGCCA
Found at i:7613446 original size:24 final size:20
Alignment explanation
Indices: 7613393--7613450 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
7613383 TTCCCCTTGA
*
7613393 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
7613413 AGTGCATCGATGCATTCCTTAAC
1 AGTGCATCGATGCATT-C-T-AC
7613436 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
7613451 CTATCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 15 0.45
21 1 0.03
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:7616989 original size:23 final size:23
Alignment explanation
Indices: 7616963--7617031 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
7616953 CACCACAGCT
*
7616963 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
7616986 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
7617009 CGTAGAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
7617032 TATAAGATTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:7619831 original size:8 final size:7
Alignment explanation
Indices: 7619818--7619873 Score: 60
Period size: 8 Copynumber: 7.4 Consensus size: 7
7619808 ATTCGTAAAA
7619818 ATAATACT
1 ATAATA-T
7619826 ATAATAT
1 ATAATAT
7619833 AT-ATAT
1 ATAATAT
7619839 ATATATAT
1 ATA-ATAT
7619847 ATATATAT
1 ATA-ATAT
7619855 ATATATAT
1 ATA-ATAT
7619863 ATATATAT
1 ATA-ATAT
7619871 ATA
1 ATA
7619874 GACAGACCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.13
7 3 0.07
8 37 0.80
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (7 bp):
ATAATAT
Found at i:7619836 original size:2 final size:2
Alignment explanation
Indices: 7619825--7619873 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
7619815 AAAATAATAC
7619825 TA TA -A 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
7619866 TA TA TA TA
1 TA TA TA TA
7619874 GACAGACCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7620594 original size:130 final size:130
Alignment explanation
Indices: 7620271--7620597 Score: 478
Period size: 130 Copynumber: 2.5 Consensus size: 130
7620261 TTTTGATCCA
* * * * *
7620271 CTGCTCTTCACGAAAGATTGAATCAAACTTGATTTACTTCGCTACTCTTCAATG-AGACCAAATA
1 CTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTACTCTTCAA-GAAGACCAAATC
* * * *
7620335 TGAAAGAAGAAGAATCTGCCTCACTTTTTTGGGTAATCAGATCTTGAAAAATTTTGATTCACTTC
65 TAAAAGAAGAAGAATCTACCTCACTTTTTTGGGTAATCAAATCTTGAAAAATTTTGATTCACTGC
7620400 G
130 G
* * * *
7620401 CTGCTCTTCGGGGAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACTAAATCT
1 CTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTACTCTTCAAGAAGACCAAATCT
*
7620466 AAAAGAAGAAGAATCTA-CTCCACTTTTTTGGGTAATCAAATCTTGAAATATTTTGATTCACTGC
66 AAAAGAAGAAGAATCTACCT-CACTTTTTTGGGTAATCAAATCTTGAAAAATTTTGATTCACTGC
*
7620530 T
130 G
*
7620531 TTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTACTCTTCAAGAAGACCAAATCT
1 CTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTACTCTTCAAGAAGACCAAATCT
7620596 AA
66 AA
7620598 GAAAAATGAG
Statistics
Matches: 175, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
129 3 0.02
130 172 0.98
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (130 bp):
CTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCGCTACTCTTCAAGAAGACCAAATCT
AAAAGAAGAAGAATCTACCTCACTTTTTTGGGTAATCAAATCTTGAAAAATTTTGATTCACTGCG
Found at i:7621892 original size:7 final size:7
Alignment explanation
Indices: 7621866--7621917 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
7621856 ATTTTATTTA
*
7621866 TTTTGTT
1 TTTTCTT
7621873 TTTTCTT
1 TTTTCTT
*
7621880 CTTTTTTT
1 -TTTTCTT
7621888 CTTTTCTTT
1 -TTTTC-TT
7621897 TTTTCTT
1 TTTTCTT
*
7621904 TTCTCTT
1 TTTTCTT
7621911 TTTTCTT
1 TTTTCTT
7621918 CAGGCAAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
7 20 0.53
8 16 0.42
9 2 0.05
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:7621900 original size:14 final size:13
Alignment explanation
Indices: 7621878--7621917 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
7621868 TTGTTTTTTC
7621878 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
7621891 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
7621904 TTCTCTTTTTTCTT
1 TTCT-TTTTTTCTT
7621918 CAGGCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:7621913 original size:21 final size:22
Alignment explanation
Indices: 7621872--7621912 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
7621862 TTTATTTTGT
*
7621872 TTTTTCTTCTTTTTTTCTTTTC
1 TTTTTCTTCTTTTTCTCTTTTC
7621894 TTTTT-TTC-TTTTCTCTTTT
1 TTTTTCTTCTTTTTCTCTTTT
7621913 TTCTTCAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCTCTTTTC
Found at i:7629036 original size:45 final size:45
Alignment explanation
Indices: 7628972--7629306 Score: 505
Period size: 45 Copynumber: 7.4 Consensus size: 45
7628962 TGATTAAGAT
7628972 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
*
7629017 AATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7629062 AATGCATATGGGTGCATTATTGGCATGAAAAGATGTCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
*
7629107 AATACATATGGGTGCATTATTGGCATGAAAGGATGCCATCAA-TGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAT-AATTGA
* *
7629152 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATCATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7629197 AATGCATATGGGTGCATTATTGGCATTAAAGGATGTCAT-ATTCGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATT-GA
* * *
7629242 AATGCATATGGGTGCATGATTGGCATGAAA-AATGCTATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7629286 AGATGCATAAGTGTGCATTAT
1 A-ATGCATATGGGTGCATTAT
7629307 AGTTATGAAT
Statistics
Matches: 266, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
44 12 0.05
45 252 0.95
46 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
Found at i:7629195 original size:22 final size:22
Alignment explanation
Indices: 7629125--7629195 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
7629115 TGGGTGCATT
*
7629125 ATTGGCATGAAAGGATGCCATC
1 ATTGGCATGAAATGATGCCATC
* ** * * *
7629147 AATGAAATGCATATGGGTG-CATT
1 ATTGGCATG-AAAT-GATGCCATC
7629170 ATTGGCATGAAATGATGCCATC
1 ATTGGCATGAAATGATGCCATC
7629192 ATTG
1 ATTG
7629196 AAATGCATAT
Statistics
Matches: 33, Mismatches: 13, Indels: 6
0.63 0.25 0.12
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 11 0.33
24 3 0.09
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (22 bp):
ATTGGCATGAAATGATGCCATC
Found at i:7636112 original size:45 final size:45
Alignment explanation
Indices: 7636061--7636620 Score: 827
Period size: 45 Copynumber: 12.4 Consensus size: 45
7636051 TGATTAAGAT
* *
7636061 AATGCATATGGGTGCATTATTGGCATGAAAGGATTCTATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7636106 AATGCATATGGGTGCATTATTGGCATAAAAGGAGGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7636151 AATGCATATGGGTGCATTATTGGAATGAAAGGATTCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * * *
7636196 AGTGCATATGGGTGTATTATTGGTATGAAAGGATGCCATCATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
*
7636241 AATGCATATGGGTGCATTATTGGCATGAAAAGG-TGCCATATTTGA
1 AATGCATATGGGTGCATTATTGGCATG-AAAGGATGCCATAATTGA
* * *
7636286 AATGCATATGGGTGCATTATTGGCATTAAAGGGTGCCATATTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * *
7636331 AATGCATATGGGTGCATTATTGGCATAAAAAGAGGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
7636376 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * * *
7636421 AGTGCATATGGGTGTATTATTGGTATGAAAGGATGCCATCATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7636466 AATGCATATGGGTGCATTATTGGCATGAAAGGGTGCCATATTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
7636511 AATGCATATGGGTGCATTATTGGCATGAAAGGGTGCCATATTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * *
7636556 AATGCATATGGGTGCATGATTGGCATG-AAGAATGTCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
*
7636600 AGATGCATAAGGGTGCATTAT
1 A-ATGCATATGGGTGCATTAT
7636621 AGGTATAAAT
Statistics
Matches: 468, Mismatches: 44, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
44 19 0.04
45 444 0.95
46 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
Found at i:7638730 original size:19 final size:19
Alignment explanation
Indices: 7638703--7638742 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7638693 ACTATTATGT
7638703 AATGCG-AAAGATAAAATGC
1 AATGCGAAAAGA-AAAATGC
*
7638722 AATGTGAAAAGAAAAATGC
1 AATGCGAAAAGAAAAATGC
7638741 AA
1 AA
7638743 ATGCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.15
Consensus pattern (19 bp):
AATGCGAAAAGAAAAATGC
Found at i:7638750 original size:19 final size:19
Alignment explanation
Indices: 7638703--7638750 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
7638693 ACTATTATGT
*
7638703 AATGCGAAAGATAAAATGC
1 AATGCAAAAGATAAAATGC
*
7638722 AATGTGAAAAGA-AAAATGC
1 AATG-CAAAAGATAAAATGC
7638741 AAATGCAAAA
1 -AATGCAAAA
7638751 TGCAAGGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (19 bp):
AATGCAAAAGATAAAATGC
Found at i:7639593 original size:22 final size:22
Alignment explanation
Indices: 7639568--7639611 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7639558 GCCTTAAAAA
* *
7639568 TCACGCATGGCTAGTTTTAACG
1 TCACGCATAGCTAATTTTAACG
7639590 TCACGCATAGCTAATTTTAACG
1 TCACGCATAGCTAATTTTAACG
7639612 AAGATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (22 bp):
TCACGCATAGCTAATTTTAACG
Found at i:7641802 original size:64 final size:66
Alignment explanation
Indices: 7641644--7641805 Score: 206
Period size: 67 Copynumber: 2.5 Consensus size: 66
7641634 AAATAAATTG
* * * *
7641644 AACATTGAATGCATTTAATGCATCGATGCA-CATACGATGCATCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTAT--
7641708 AAA
64 AAA
* *
7641711 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGATATTT-T-
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGAT-TTTATA
7641773 AA
65 AA
*
7641775 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
7641806 TCTTAGTGCA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 32 0.37
67 49 0.57
68 5 0.06
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATAA
A
Found at i:7641805 original size:17 final size:19
Alignment explanation
Indices: 7641777--7641825 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
7641767 TATTTTAAAA
7641777 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
7641795 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
7641814 CACCGATGCACT
1 CATCGATGCACT
7641826 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:7650412 original size:65 final size:65
Alignment explanation
Indices: 7650309--7650468 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
7650299 AAATAAATTG
* * * * *
7650309 AACATTGAATGCATTTCATGCATCGATGCA-TATACCATGCATTGATGCACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATATTT-TG
7650372 AA
65 -A
* * *
7650374 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATATTTTGA
* *
7650438 AACATCAAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
7650469 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 30 0.36
65 49 0.59
66 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATATTTTGA
Found at i:7650468 original size:17 final size:19
Alignment explanation
Indices: 7650446--7650488 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
7650436 GAAACATCAA
*
7650446 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
7650463 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
7650482 ATGCACT
1 ATGCACT
7650489 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:7652125 original size:5 final size:5
Alignment explanation
Indices: 7652115--7652139 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7652105 CAAGTTAGAG
7652115 TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA
7652140 GATCCCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:7652751 original size:75 final size:74
Alignment explanation
Indices: 7652628--7652776 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 74
7652618 AGCCCAATTG
*
7652628 TTTGAATCGAGTCGAGTGATGCTTACGAGGGTGTCATACATGTCAATTTTGAAAGGATAAGTTAC
1 TTTGAATCGAGTCGAGTGATGCTTACGAGGGTGTCATACATGTCAA-TTTGAAAGGATAAATTAC
7652693 ACCTAAACCT
65 ACCTAAACCT
7652703 TTTGAATCGAGTCGAGTGATGCTTACGAGGGTGTCATACATGTCAATTTGAAAGGATAAATTACA
1 TTTGAATCGAGTCGAGTGATGCTTACGAGGGTGTCATACATGTCAATTTGAAAGGATAAATTACA
7652768 CCTAAACCT
66 CCTAAACCT
7652777 ATATGTACAA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 27 0.37
75 46 0.63
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (74 bp):
TTTGAATCGAGTCGAGTGATGCTTACGAGGGTGTCATACATGTCAATTTGAAAGGATAAATTACA
CCTAAACCT
Found at i:7653246 original size:2 final size:2
Alignment explanation
Indices: 7653239--7653316 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
7653229 GGTCATAAAC
7653239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7653281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7653317 CAGGCACTAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7654624 original size:2 final size:2
Alignment explanation
Indices: 7654613--7654653 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7654603 ATAACAATAC
7654613 TA TA -A 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
7654654 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7654725 original size:2 final size:2
Alignment explanation
Indices: 7654718--7654744 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7654708 CTAACTAATG
7654718 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7654745 CACACACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7654822 original size:28 final size:28
Alignment explanation
Indices: 7654791--7654847 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
7654781 TAATCCTTAT
*
7654791 ATAACTAGTAATAAT-ATAACATATATAA
1 ATAACTAATAATAATAAT-ACATATATAA
* *
7654819 ATAACTAATTATAATAATATATATATAA
1 ATAACTAATAATAATAATACATATATAA
7654847 A
1 A
7654848 CCCAAACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAACTAATAATAATAATACATATATAA
Found at i:7655935 original size:21 final size:22
Alignment explanation
Indices: 7655909--7655981 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
7655899 TTCTGTATTG
**
7655909 AATTTTATCT-TGGATAATAAA
1 AATTTTATCTATCCATAATAAA
*
7655930 AATTTTATTTATCCATAATAAA
1 AATTTTATCTATCCATAATAAA
* * *
7655952 AATTTTATTTATCCAAAAAAAA
1 AATTTTATCTATCCATAATAAA
*
7655974 AATATTAT
1 AATTTTAT
7655982 TTATAAAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
21 9 0.20
22 36 0.80
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (22 bp):
AATTTTATCTATCCATAATAAA
Found at i:7655950 original size:22 final size:22
Alignment explanation
Indices: 7655922--7655985 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
7655912 TTTATCTTGG
7655922 ATAATAAAAATTTTATTTATCC
1 ATAATAAAAATTTTATTTATCC
7655944 ATAATAAAAATTTTATTTATCC
1 ATAATAAAAATTTTATTTATCC
* * *
7655966 AAAAAAAAAATATTATTTAT
1 ATAATAAAAATTTTATTTAT
7655986 AAAGAACTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATAAAAATTTTATTTATCC
Found at i:7656075 original size:2 final size:2
Alignment explanation
Indices: 7656063--7656092 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7656053 CAATAAATTA
*
7656063 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7656093 TCACATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7661724 original size:178 final size:179
Alignment explanation
Indices: 7661425--7661781 Score: 707
Period size: 178 Copynumber: 2.0 Consensus size: 179
7661415 GCTTCAGCTC
7661425 CACTGGTGAAGCTTCTAATGTAGACGAGTACCTATGGTTGATGGGGAGAGCTTGCTACAAACCTG
1 CACTGGTGAAGCTTCTAATGTAGACGAGTACCTATGGTTGATGGGGAGAGCTTGCTACAAACCTG
7661490 TCATTGAATATTGTGGTGGTACTGAAGTTGGTGGTGGTTTTGCTTCTGGATCATTTCTACAGCCC
66 TCATTGAATATTGTGGTGGTACTGAAGTTGGTGGTGGTTTTGCTTCTGGATCATTTCTACAGCCC
7661555 CAATCGTTAGCTGCTTTCAGTACA-CAGTTATGGGTTGCCGCTTATTTA
131 CAATCGTTAGCTGCTTTCAGTACACCAGTTATGGGTTGCCGCTTATTTA
7661603 CACTGGTGAAGCTTCTAATGTAGACGAGTACCTATGGTTGATGGGGAGAGCTTGCTACAAACCTG
1 CACTGGTGAAGCTTCTAATGTAGACGAGTACCTATGGTTGATGGGGAGAGCTTGCTACAAACCTG
7661668 TCATTGAATATTGTGGTGGTACTGAAGTTGGTGGTGGTTTTGCTTCTGGATCATTTCTACAGCCC
66 TCATTGAATATTGTGGTGGTACTGAAGTTGGTGGTGGTTTTGCTTCTGGATCATTTCTACAGCCC
7661733 CAATCGTTAGCTGCTTTCAGTACACCAGTTATGGGTTGCCGCTTATTTA
131 CAATCGTTAGCTGCTTTCAGTACACCAGTTATGGGTTGCCGCTTATTTA
7661782 TTCTTGGTGA
Statistics
Matches: 178, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
178 154 0.87
179 24 0.13
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (179 bp):
CACTGGTGAAGCTTCTAATGTAGACGAGTACCTATGGTTGATGGGGAGAGCTTGCTACAAACCTG
TCATTGAATATTGTGGTGGTACTGAAGTTGGTGGTGGTTTTGCTTCTGGATCATTTCTACAGCCC
CAATCGTTAGCTGCTTTCAGTACACCAGTTATGGGTTGCCGCTTATTTA
Found at i:7669310 original size:19 final size:19
Alignment explanation
Indices: 7669264--7669310 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
7669254 TTTTGTGTAC
*
7669264 CGATGCACAAGGCATGCAT
1 CGATGCACTAGGCATGCAT
7669283 CGATGCACTAGGCATGCAT
1 CGATGCACTAGGCATGCAT
7669302 CGATGCACT
1 CGATGCACT
7669311 CCTGAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (19 bp):
CGATGCACTAGGCATGCAT
Found at i:7671378 original size:21 final size:21
Alignment explanation
Indices: 7671354--7671415 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
7671344 TAAGACTTTA
7671354 TTTTCAAAATAT-AAAAATGAT
1 TTTTCAAAAT-TGAAAAATGAT
7671375 TTTTCAAAATTGAAAAATGAT
1 TTTTCAAAATTGAAAAATGAT
*
7671396 ATTTCAAAATTGAAAAATGA
1 TTTTCAAAATTGAAAAATGA
7671416 AAACAGTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 1 0.03
21 38 0.97
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (21 bp):
TTTTCAAAATTGAAAAATGAT
Found at i:7676191 original size:27 final size:26
Alignment explanation
Indices: 7676162--7676215 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
7676152 AACACTTTGA
*
7676162 TTTTTTGGATTGTTTTGGATGTTTGAATT
1 TTTTTTGGA-TG-ATTGGATGTTTGAA-T
7676191 TTTTTTGGATGATTGGATGTTTGAA
1 TTTTTTGGATGATTGGATGTTTGAA
7676216 CTTATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
29 9 0.38
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (26 bp):
TTTTTTGGATGATTGGATGTTTGAAT
Found at i:7687021 original size:29 final size:29
Alignment explanation
Indices: 7686980--7687053 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
7686970 TAATCCATGT
* *
7686980 TCTT-ATTTTGCATGGGATTTATTCCTCG
1 TCTTGATTCTGCATGGGATTTATTCCCCG
*
7687008 TCTTGATTCTGCATGTGATTTATTCCCCG
1 TCTTGATTCTGCATGGGATTTATTCCCCG
*
7687037 TCTTGATTCTGTATGGG
1 TCTTGATTCTGCATGGG
7687054 CTTAGTCCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 4 0.10
29 36 0.90
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (29 bp):
TCTTGATTCTGCATGGGATTTATTCCCCG
Found at i:7690284 original size:10 final size:9
Alignment explanation
Indices: 7690256--7690286 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7690246 CACCTTAAAG
*
7690256 TTTCAATTT
1 TTTCACTTT
7690265 TTTCACTTT
1 TTTCACTTT
7690274 TTTCACTTT
1 TTTCACTTT
7690283 TTTC
1 TTTC
7690287 TATCATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTCACTTT
Found at i:7696607 original size:22 final size:21
Alignment explanation
Indices: 7696565--7696604 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7696555 GAGTTTATTT
*
7696565 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
7696586 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
7696605 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:7700331 original size:24 final size:26
Alignment explanation
Indices: 7700304--7700364 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 26
7700294 AAAATATTTT
7700304 ATTA-CTTAAGAATTTATT-TTAATA
1 ATTATCTTAAGAATTTATTATTAATA
* * *
7700328 ATTATTTTAGGTATTTATTACTTAATA
1 ATTATCTTAAGAATTTATTA-TTAATA
*
7700355 ATTATTTTAA
1 ATTATCTTAA
7700365 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 11 0.37
27 15 0.50
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (26 bp):
ATTATCTTAAGAATTTATTATTAATA
Found at i:7700334 original size:12 final size:12
Alignment explanation
Indices: 7700317--7700373 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
7700307 ACTTAAGAAT
7700317 TTATTTTAATAA
1 TTATTTTAATAA
* *
7700329 TTATTTTAGGTAT
1 TTATTTTA-ATAA
7700342 TTATTACTTAATAA
1 TTATT--TTAATAA
7700356 TTATTTTAAT--
1 TTATTTTAATAA
7700366 TTATTTTA
1 TTATTTTA
7700374 TATTTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 8 0.21
12 13 0.34
13 7 0.18
14 7 0.18
15 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (12 bp):
TTATTTTAATAA
Found at i:7700367 original size:24 final size:22
Alignment explanation
Indices: 7700314--7700391 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 22
7700304 ATTACTTAAG
7700314 AATTTATTTTAATAATTATTTT
1 AATTTATTTTAATAATTATTTT
7700336 AGGTATTTATTACTTAATAATTATTTT
1 A---ATTTATT--TTAATAATTATTTT
** *
7700363 AATTTATTTTATATTTTTATTAT
1 AATTTATTTTA-ATAATTATTTT
7700386 AATTTA
1 AATTTA
7700392 AGTGATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.09
23 14 0.30
24 7 0.15
25 7 0.15
27 15 0.32
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.62
Consensus pattern (22 bp):
AATTTATTTTAATAATTATTTT
Found at i:7700382 original size:37 final size:39
Alignment explanation
Indices: 7700300--7700384 Score: 111
Period size: 37 Copynumber: 2.2 Consensus size: 39
7700290 TTAAAAAATA
*
7700300 TTTTATTACTTAAGAATTTATTTTAATAATTATTTTAGGT
1 TTTTATTACTTAAGAATTTATTTTAAT-ATTATTTTAGAT
* * *
7700340 ATTTATTACTTAATAA-TTATTTTAAT-TTATTTTATAT
1 TTTTATTACTTAAGAATTTATTTTAATATTATTTTAGAT
7700377 TTTTATTA
1 TTTTATTA
7700385 TAATTTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 16 0.40
39 10 0.25
40 14 0.35
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (39 bp):
TTTTATTACTTAAGAATTTATTTTAATATTATTTTAGAT
Found at i:7701281 original size:27 final size:28
Alignment explanation
Indices: 7701244--7701296 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
7701234 TATGTTAATG
7701244 TAATTTAATTTAAT-AATTTATTCCTGT
1 TAATTTAATTTAATAAATTTATTCCTGT
7701271 TAATTTAATTTAATAAATTTATTCCT
1 TAATTTAATTTAATAAATTTATTCCT
7701297 CCAATCAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.55
Consensus pattern (28 bp):
TAATTTAATTTAATAAATTTATTCCTGT
Found at i:7701430 original size:20 final size:20
Alignment explanation
Indices: 7701401--7701442 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7701391 TGGAATTATT
*
7701401 ATAATATTTTAAAATTAATA
1 ATAATATTTTAAAATAAATA
* *
7701421 ATAATTTTTTATAATAAATA
1 ATAATATTTTAAAATAAATA
7701441 AT
1 AT
7701443 TATTATTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAATATTTTAAAATAAATA
Found at i:7701460 original size:22 final size:20
Alignment explanation
Indices: 7701407--7701466 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
7701397 TATTATAATA
* * *
7701407 TTTTAAAATTAATAATAATT
1 TTTTATAATAAATAATTATT
7701427 TTTTATAATAAATAATTATT
1 TTTTATAATAAATAATTATT
*
7701447 ATTATTATATTAAATAATTA
1 -TT-TTATAATAAATAATTA
7701467 CAATTAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 15 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTATAATAAATAATTATT
Found at i:7701472 original size:22 final size:23
Alignment explanation
Indices: 7701429--7701490 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
7701419 TAATAATTTT
* **
7701429 TTATAATAAATAATTATTATT-A
1 TTATATTAAATAATTACAATTAA
7701451 TTATATTAAATAATTACAATTAA
1 TTATATTAAATAATTACAATTAA
* * *
7701474 TCATTTTAAAAAATTAC
1 TTATATTAAATAATTAC
7701491 CAATAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATATTAAATAATTACAATTAA
Found at i:7705032 original size:138 final size:136
Alignment explanation
Indices: 7704810--7705144 Score: 537
Period size: 138 Copynumber: 2.4 Consensus size: 136
7704800 CGGGGGGGCG
*
7704810 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG-TCCCATGGG
1 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTTCCC-CGGG
* *
7704874 AAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTGGAAAAGTGGTGAAAGTGTGTTCCC
65 AAACTATTCATGTCAGTACCTA-TATTTTTTAGGGGACTTGGAAAAGTGGTGAAAGCGCGTTCCC
7704939 GAGGGCACA
129 G-GGGCACA
*
7704948 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTTCCCCGGGG
1 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTTCCCCGGGA
* *
7705013 AACTATTCATGTCAGTACCTATATTTTTTAGGGGACTTGGCAAAGTGGTGAATGCGCGTTCCCGG
66 AACTATTCATGTCAGTACCTATATTTTTTAGGGGACTTGGAAAAGTGGTGAAAGCGCGTTCCCGG
** *
7705078 GGGGCG
131 GGCACA
* *
7705084 CCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCC
1 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTTCCCC
7705145 AGAGGTTTGG
Statistics
Matches: 185, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
136 63 0.34
137 39 0.21
138 79 0.43
139 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (136 bp):
CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTTCCCCGGGA
AACTATTCATGTCAGTACCTATATTTTTTAGGGGACTTGGAAAAGTGGTGAAAGCGCGTTCCCGG
GGCACA
Found at i:7705228 original size:63 final size:63
Alignment explanation
Indices: 7705149--7706029 Score: 1602
Period size: 63 Copynumber: 14.0 Consensus size: 63
7705139 TCCCCCAGAG
* *
7705149 GTTTGGATAAATTGGATAAAATGATATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
*
7705212 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAATCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
* *
7705275 GTTTGAATAAATTGGATAAAATGTTATGGATAAGTTGAATAAATGTGAAGTGATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
*
7705338 GTTTGAATAAATTGGATAAAATGTTATAGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
7705401 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
*
7705464 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTAAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
7705527 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
*
7705590 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCAGAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
* *
7705653 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAAGAAATGTGAAGTGATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
*
7705716 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGCTT-GTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAG-TTGGTT
* *
7705779 GTTTAAATAAATTGGATAAAATGTTATGGATAAATTGAAGAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
*
7705842 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAAGAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
7705905 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
* *
7705968 GTTTGAATAAATTGTATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGT
7706030 GTTGACATTG
Statistics
Matches: 792, Mismatches: 24, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
62 2 0.00
63 788 0.99
64 2 0.00
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTCATAAGTTGGTT
Found at i:7705770 original size:23 final size:23
Alignment explanation
Indices: 7705722--7705771 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
7705712 GGTTGTTTGA
* * *
7705722 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
7705745 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
7705768 ATAA
1 ATAA
7705772 GCTTGTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:7705812 original size:23 final size:23
Alignment explanation
Indices: 7705785--7706010 Score: 84
Period size: 23 Copynumber: 10.6 Consensus size: 23
7705775 TGTTGTTTAA
7705785 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGGATAAAATGTTATGG
* * *
7705808 ATAAATT-GA-AGAAATGTGAAGTC
1 ATAAATTGGATA-AAATGTTATG-G
* *
7705831 ATAAGTTGG-T----TGTT-TGA
1 ATAAATTGGATAAAATGTTATGG
7705848 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGGATAAAATGTTATGG
* * *
7705871 ATAAATT-GA-AGAAATGTGAAGTC
1 ATAAATTGGATA-AAATGTTATG-G
* *
7705894 ATAAGTTGG-T----TGTT-TGA
1 ATAAATTGGATAAAATGTTATGG
7705911 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGGATAAAATGTTATGG
* * * *
7705934 ATAAATTGAAT-AAATGTGAAGTC
1 ATAAATTGGATAAAATGTTATG-G
* *
7705957 ATAAGTTGG-T----TGTT-TGA
1 ATAAATTGGATAAAATGTTATGG
*
7705974 ATAAATTGTATAAAATGTTATGG
1 ATAAATTGGATAAAATGTTATGG
*
7705997 ATAAATTGAATAAA
1 ATAAATTGGATAAA
7706011 TGTGAAGTGA
Statistics
Matches: 145, Mismatches: 31, Indels: 54
0.63 0.13 0.23
Matches are distributed among these distances:
17 23 0.16
18 6 0.04
19 9 0.06
21 2 0.01
22 41 0.28
23 62 0.43
24 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.22, T:0.35
Consensus pattern (23 bp):
ATAAATTGGATAAAATGTTATGG
Found at i:7706022 original size:23 final size:23
Alignment explanation
Indices: 7705974--7706023 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
7705964 GGTTGTTTGA
* * *
7705974 ATAAATTGTATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
7705997 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
7706020 ATAA
1 ATAA
7706024 GTTGGTGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:7706145 original size:14 final size:14
Alignment explanation
Indices: 7706122--7706152 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7706112 TAACACGTGG
7706122 GTTTTAATGTATAT
1 GTTTTAATGTATAT
*
7706136 GTTTTCATGTATAT
1 GTTTTAATGTATAT
7706150 GTT
1 GTT
7706153 AAGGATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:7707338 original size:90 final size:89
Alignment explanation
Indices: 7707228--7707404 Score: 327
Period size: 90 Copynumber: 2.0 Consensus size: 89
7707218 TAATCCCGAA
*
7707228 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
7707293 TAGGGTAACTTGGATATAAAAGGAT
65 TAGGGTAACTTGGATATAAAAGGAT
7707318 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
7707383 AGGGTAACTTGGCTATAAAAGG
66 AGGGTAACTTGGATATAAAAGG
7707405 GTGTGTTAGG
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
89 34 0.40
90 51 0.60
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (89 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:7708048 original size:21 final size:21
Alignment explanation
Indices: 7708024--7708083 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
7708014 ATAAAACCCT
*
7708024 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
7708045 GCGGGCTAGGAATGTAACCCT-
1 GCGGGCTAGGAATGTAA-CCTG
*
7708066 GC-AGCTAGGAATGTAACC
1 GCGGGCTAGGAATGTAACC
7708084 CTGCGGAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 13 0.36
21 18 0.50
22 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.18
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACCTG
Found at i:7708074 original size:20 final size:21
Alignment explanation
Indices: 7708018--7708089 Score: 103
Period size: 20 Copynumber: 3.5 Consensus size: 21
7708008 GGTGTCATAA
*
7708018 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
7708039 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
7708060 AACCCTGC-AGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
7708080 AACCCTGCGG
1 AACCCTGCGG
7708090 AGATGGAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 22 0.49
21 20 0.44
22 3 0.07
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:7708155 original size:42 final size:42
Alignment explanation
Indices: 7708082--7708170 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
7708072 AGGAATGTAA
* ***
7708082 CCCTGCGGAGATGGAATATGAACTGGTGGGCT-TGGCATATAC
1 CCCTGAGGAGATGGAATATGAACTACAGGGCTAT-GCATATAC
* * *
7708124 CCCTGAGGAGATGGCATCTGAACTACAGGGCTATGCATGTAC
1 CCCTGAGGAGATGGAATATGAACTACAGGGCTATGCATATAC
7708166 CCCTG
1 CCCTG
7708171 TGGTATCATC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (42 bp):
CCCTGAGGAGATGGAATATGAACTACAGGGCTATGCATATAC
Found at i:7709909 original size:15 final size:14
Alignment explanation
Indices: 7709878--7709938 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
7709868 ATAATTAAGT
7709878 AATAAATTTAAATA
1 AATAAATTTAAATA
*
7709892 AATAAATATTATATA
1 AATAAAT-TTAAATA
* *
7709907 AATATTATTTTAATAA
1 AATA-AATTTAAAT-A
*
7709923 AATAATATTTATATA
1 AATAA-ATTTAAATA
7709938 A
1 A
7709939 TTATAATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
14 7 0.19
15 16 0.44
16 13 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAAATTTAAATA
Done.