Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 43 of 211
Found at i:12716540 original size:22 final size:22
Alignment explanation
Indices: 12715828--12716540 Score: 896
Period size: 22 Copynumber: 33.0 Consensus size: 22
12715818 TCAAATTATA
*
12715828 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12715849 TTAAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
12715870 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12715891 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12715913 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12715935 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12715957 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12715978 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716000 TTTAAGTTAAGGGTTTATGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716021 TTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716042 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716064 TTTATGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
12716086 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716107 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
12716129 TTTAGGTTAAGGGTTTATGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716151 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716172 TTTAAGTTAAGGGTTTAAGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716194 TTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716216 TTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716237 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
12716259 TTTAGGTTAAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716281 TTAAAGTCAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716302 TTTAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716324 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716346 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* ** *
12716368 TTAAAGTTAAATG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716389 TTTAAGTTAAGGG-CTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716410 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716432 TTAAAGTTAA-TGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716453 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716475 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
12716497 TTTAATTTAAGGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
12716518 TTTAAGTTAAGGGTTTTGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
12716540 T
1 T
12716541 GTCAATTAAA
Statistics
Matches: 599, Mismatches: 82, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
20 5 0.01
21 242 0.40
22 352 0.59
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:12717782 original size:7 final size:7
Alignment explanation
Indices: 12717772--12717814 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
12717762 TTATATACAT
12717772 AATACTA
1 AATACTA
12717779 AATACTA
1 AATACTA
12717786 AATACTA
1 AATACTA
*
12717793 AATACTC
1 AATACTA
*
12717800 AATACTC
1 AATACTA
12717807 AATACTA
1 AATACTA
12717814 A
1 A
12717815 TCGATTAGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:12717790 original size:21 final size:20
Alignment explanation
Indices: 12717766--12717815 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
12717756 TATTAGTTAT
12717766 ATACATAATACTAAATACTAA
1 ATAC-TAATACTAAATACTAA
* *
12717787 ATACTAAATACTCAATACTCA
1 ATACT-AATACTAAATACTAA
12717808 ATACTAAT
1 ATACTAAT
12717816 CGATTAGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (20 bp):
ATACTAATACTAAATACTAA
Found at i:12718017 original size:20 final size:21
Alignment explanation
Indices: 12717975--12718018 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
12717965 ATACTTTTAT
*
12717975 TTTTAAAAATCTACATAATAA
1 TTTTAAAAATCTACATAAAAA
12717996 TTTT-AAAATCTA-ATATAAAA
1 TTTTAAAAATCTACATA-AAAA
12718016 TTT
1 TTT
12718019 ACCTCGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAAAAATCTACATAAAAA
Found at i:12718999 original size:40 final size:40
Alignment explanation
Indices: 12718955--12719043 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
12718945 AATTATTTAA
* *
12718955 AAATTGGGATTTAAGA-GAAATTTA-AGAGGAAATTGAGAGC
1 AAATTGAGATTAAAGATG-AATTTAGA-AGGAAATTGAGAGC
* * *
12718995 AAATTGAGATTAAATATGAATTTGGAAGGAATTTGAGAGC
1 AAATTGAGATTAAAGATGAATTTAGAAGGAAATTGAGAGC
12719035 AAATTGAGA
1 AAATTGAGA
12719044 GGAAATTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.26, T:0.27
Consensus pattern (40 bp):
AAATTGAGATTAAAGATGAATTTAGAAGGAAATTGAGAGC
Found at i:12719046 original size:22 final size:23
Alignment explanation
Indices: 12719024--12719079 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
12719014 ATTTGGAAGG
*
12719024 AATTTGAGAGCAAATTGAGAGGA
1 AATTTGAGAGAAAATTGAGAGGA
12719047 AATTT-AGAGAAAATTGAGAGGA
1 AATTTGAGAGAAAATTGAGAGGA
12719069 AATTTGAGAGA
1 AATTTGAGAGA
12719080 GGATTAGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (23 bp):
AATTTGAGAGAAAATTGAGAGGA
Found at i:12719075 original size:12 final size:12
Alignment explanation
Indices: 12719024--12719078 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
12719014 ATTTGGAAGG
*
12719024 AATTTGAGAGCA
1 AATTTGAGAGGA
12719036 AA-TTGAGAGGA
1 AATTTGAGAGGA
12719047 AATTT-AGA-GA
1 AATTTGAGAGGA
*
12719057 AAATTGAGAGGA
1 AATTTGAGAGGA
12719069 AATTTGAGAG
1 AATTTGAGAG
12719079 AGGATTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.16
11 16 0.43
12 15 0.41
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:12727669 original size:14 final size:15
Alignment explanation
Indices: 12727644--12727672 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12727634 CCATTCAATT
12727644 AATCAGTTCATAACA
1 AATCAGTTCATAACA
12727659 AATCA-TTCATAACA
1 AATCAGTTCATAACA
12727673 TATTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
AATCAGTTCATAACA
Found at i:12727918 original size:40 final size:40
Alignment explanation
Indices: 12727863--12727994 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
12727853 CCAGTTTGGT
* *
12727863 ACCCAGTACCTCATCGGATAATTCGAAGTAATAAGTTGAC
1 ACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGAC
* * *
12727903 ACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA-TTGAC
1 ACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGAC
* *
12727940 ACCCAATGCCTCATCGAATTAATCCGAAGTAAT-AGATTGAC
1 ACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAAG-TTGAC
*
12727981 ACCCAGTGTCTCAT
1 ACCCAGTGCCTCAT
12727995 GGACTCGTAG
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
37 19 0.25
38 12 0.16
39 3 0.04
40 24 0.32
41 17 0.23
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
ACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGAC
Found at i:12727953 original size:37 final size:40
Alignment explanation
Indices: 12727871--12727994 Score: 121
Period size: 37 Copynumber: 3.1 Consensus size: 40
12727861 GTACCCAGTA
** *
12727871 CCTCATCGGATAATTCGAAGTAATAAGTTGACACCCAGTG
1 CCTCATCGGATAAACCGAAGTAATAAGTTGACACCCAATG
* *
12727911 TCTCATCGGCTAAACCGAAGT-A-AA-TTGACACCCAATG
1 CCTCATCGGATAAACCGAAGTAATAAGTTGACACCCAATG
* * *
12727948 CCTCATCGAATTAATCCGAAGTAAT-AGATTGACACCCAGTG
1 CCTCATCGGA-TAAACCGAAGTAATAAG-TTGACACCCAATG
*
12727989 TCTCAT
1 CCTCAT
12727995 GGACTCGTAG
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
37 19 0.28
38 12 0.18
39 3 0.04
40 17 0.25
41 17 0.25
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CCTCATCGGATAAACCGAAGTAATAAGTTGACACCCAATG
Found at i:12734748 original size:5 final size:5
Alignment explanation
Indices: 12734740--12734787 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
12734730 TACTACAAAA
12734740 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
12734788 TACTTAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:12735414 original size:17 final size:17
Alignment explanation
Indices: 12735385--12735417 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12735375 ATTTGATGTA
12735385 TTATATTTTTTTAAAAT
1 TTATATTTTTTTAAAAT
12735402 TTAT-TTTTATTTAAAA
1 TTATATTTT-TTTAAAA
12735418 ATAATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTTTTTAAAAT
Found at i:12738465 original size:27 final size:27
Alignment explanation
Indices: 12738423--12738546 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
12738413 AACACATTAG
* *
12738423 GAAAGAATAACCTTTGTGGAAAACTAT
1 GAAAGAATAGCTTTTGTGGAAAACTAT
12738450 GAAAGAATAGCTTTTGT-GACAAACTAT
1 GAAAGAATAGCTTTTGTGGA-AAACTAT
* ** *
12738477 GAAATAATAG-TCTTTGTGGCGAATTAT
1 GAAAGAATAGCT-TTTGTGGAAAACTAT
** * *
12738504 GAAAGAATAGCCATTGTGGCAAATTAT
1 GAAAGAATAGCTTTTGTGGAAAACTAT
*
12738531 GAAGGAATAGCTTTTG
1 GAAAGAATAGCTTTTG
12738547 GTGGTGTACT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.04
27 76 0.95
28 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (27 bp):
GAAAGAATAGCTTTTGTGGAAAACTAT
Found at i:12747675 original size:105 final size:101
Alignment explanation
Indices: 12747497--12747691 Score: 264
Period size: 105 Copynumber: 1.9 Consensus size: 101
12747487 AATTGACGGA
* * *
12747497 TAAGACCATGGTTGGACCATGACAGTGTTTAAATGTAAGACCATATCTAGGCTATGAAATTTTAA
1 TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA
12747562 TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG
** * * *
12747598 TAAGACCATGGTTGGACCATGGTAGTATATATACATGTGTAAGACCATAGCTGGGCTATGACATT
1 TAAGACCATGGTTGGACCATGACAGTAT-T-TA-A-ATGTAAGACCATAGCTAGGCTATGAAATT
* *
12747663 CTGATGATAAGACCATAACTGGGTTATGG
62 CTAATGAAAAGACCATAACTGGGTTATGG
12747692 CACTACAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 25 0.31
102 1 0.01
103 2 0.03
104 1 0.01
105 51 0.64
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA
TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG
Found at i:12747706 original size:105 final size:101
Alignment explanation
Indices: 12747497--12747713 Score: 256
Period size: 105 Copynumber: 2.1 Consensus size: 101
12747487 AATTGACGGA
* * *
12747497 TAAGACCATGGTTGGACCATGACAGTGTTTAAATGTAAGACCATATCTAGGCTATGAAATTTTAA
1 TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA
**
12747562 TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGTAACTCAAACG
** * * *
12747598 TAAGACCATGGTTGGACCATGGTAGTATATATACATGTGTAAGACCATAGCTGGGCTATGACATT
1 TAAGACCATGGTTGGACCATGACAGTAT-T-TA-A-ATGTAAGACCATAGCTAGGCTATGAAATT
* * * *
12747663 CTGATGATAAGACCATAACTGGGTTATGG-CACTACAAATG
62 CTAATGAAAAGACCATAACTGGGTTATGGTAACT-CAAACG
12747703 TAAGACCATGG
1 TAAGACCATGG
12747714 CAGGGCCATG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 25 0.26
102 1 0.01
103 2 0.02
104 4 0.04
105 65 0.67
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA
TGAAAAGACCATAACTGGGTTATGGTAACTCAAACG
Found at i:12747707 original size:33 final size:32
Alignment explanation
Indices: 12747635--12747711 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
12747625 TATATACATG
* * **
12747635 TGTAAGACCATAGCTGGGCTATGACATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
* *
12747667 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
12747701 TGTAAGACCAT
1 TGTAAGACCAT
12747712 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:12747723 original size:105 final size:105
Alignment explanation
Indices: 12747530--12747726 Score: 261
Period size: 105 Copynumber: 1.9 Consensus size: 105
12747520 AGTGTTTAAA
* * **
12747530 TGTAAGACCATATCTAGGCTATGAAATTTTAATGAAAAGACCATAACTGGGTTATGGTAACTTGA
1 TGTAAGACCATAGCTAGGCTATGAAATTCTAATGAAAAGACCATAACTGGGTTATGGTAACTCAA
**
12747595 ACGTAAGACCATGGTTGGACCATGGTAGTATATATACATG
66 ACGTAAGACCATGGCAGGACCATGGTAGTATATATACATG
* * * * *
12747635 TGTAAGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGG-CACTACA
1 TGTAAGACCATAGCTAGGCTATGAAATTCTAATGAAAAGACCATAACTGGGTTATGGTAACT-CA
* *
12747699 AATGTAAGACCATGGCAGGGCCATGGTA
65 AACGTAAGACCATGGCAGGACCATGGTA
12747727 ATGCATGTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 3 0.04
105 75 0.96
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (105 bp):
TGTAAGACCATAGCTAGGCTATGAAATTCTAATGAAAAGACCATAACTGGGTTATGGTAACTCAA
ACGTAAGACCATGGCAGGACCATGGTAGTATATATACATG
Found at i:12749930 original size:48 final size:48
Alignment explanation
Indices: 12749859--12749961 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
12749849 GAGTCCAAAA
*
12749859 GTTAATTAGCAACACAGAAGTTAACCAACCGCTGTCTGTTATTAATTT
1 GTTAATTAGCAACACAGAAGTTAACCAACCACTGTCTGTTATTAATTT
*
12749907 GTTAATTAGCAACATAGAAGTTAACCAACCACTGTCTGTTATTAATTT
1 GTTAATTAGCAACACAGAAGTTAACCAACCACTGTCTGTTATTAATTT
12749955 GTTAATT
1 GTTAATT
12749962 TCATAAGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (48 bp):
GTTAATTAGCAACACAGAAGTTAACCAACCACTGTCTGTTATTAATTT
Found at i:12754271 original size:14 final size:14
Alignment explanation
Indices: 12754217--12754251 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
12754207 ATTTTAAATA
12754217 TTTTTAAAATACTT
1 TTTTTAAAATACTT
12754231 TTTTTAAAATACTT
1 TTTTTAAAATACTT
12754245 TTTTTAA
1 TTTTTAA
12754252 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAAAATACTT
Found at i:12754287 original size:65 final size:61
Alignment explanation
Indices: 12754199--12754328 Score: 215
Period size: 62 Copynumber: 2.1 Consensus size: 61
12754189 TTTTACATAC
12754199 TTTTTTAAATTTTAAATATTTTTAAAATACTTTTTTTAAAATACTTTTTTTAATTTTAAAATAT
1 TTTTTTAAATTTTAAATATTTTTAAAATAC-TTTTTTAAAAT--TTTTTTTAATTTTAAAATAT
*
12754263 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT
1 TTTTTTAAATTTT-AAATATTTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT
12754325 TTTT
1 TTTT
12754329 AAAATACTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
62 24 0.38
64 23 0.36
65 17 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (61 bp):
TTTTTTAAATTTTAAATATTTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT
Found at i:12754318 original size:31 final size:30
Alignment explanation
Indices: 12754218--12754364 Score: 70
Period size: 32 Copynumber: 4.7 Consensus size: 30
12754208 TTTTAAATAT
12754218 TTTTAAAATACTTTTTTTAAAATACTTTTTTTAA
1 TTTTAAAATA--TTTTTTAAAAT--TTTTTTTAA
** ***
12754252 TTTTAAAATATTTTTTTTAA-TTTTAAAATA
1 TTTTAAAATATTTTTTAAAATTTTTTTTA-A
* ** * *
12754282 TTTTTAAA-ATACTTTTTTAAAATTTTTTTTAA
1 TTTTAAAATATTTTTTA--AAATTTT-TTTTAA
12754314 TTTTAAAATA-TTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTTAAAAT--TTTTTTTAA
12754345 TTTTTAAAA-A-TTTTTAAAAT
1 -TTTTAAAATATTTTTTAAAAT
12754365 AAAAATGGGC
Statistics
Matches: 87, Mismatches: 17, Indels: 21
0.70 0.14 0.17
Matches are distributed among these distances:
29 11 0.13
30 11 0.13
31 19 0.22
32 33 0.38
33 3 0.03
34 10 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTAAAATATTTTTTAAAATTTTTTTTAA
Found at i:12754318 original size:42 final size:42
Alignment explanation
Indices: 12754252--12754349 Score: 162
Period size: 42 Copynumber: 2.3 Consensus size: 42
12754242 CTTTTTTTAA
*
12754252 TTTTAAAATATTTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAAA-ATTTTTTTTAATTTTAAAATATTTTTAAAATACT
12754295 TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT
*
12754337 TTTTT-TAATTTTT
1 TTTTTAAAATTTTT
12754350 AAAAATTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 7 0.13
42 39 0.74
43 7 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (42 bp):
TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:12754360 original size:42 final size:42
Alignment explanation
Indices: 12754270--12754365 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
12754260 TATTTTTTTT
***
12754270 AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTAAA
*
12754312 AATTTTAAAATATTTTTAAAATACTTTTTT-TAATTTTTAAA
1 AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTAAA
12754353 AATTTTTAAAATA
1 AA-TTTTAAAATA
12754366 AAAATGGGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 9 0.18
42 40 0.82
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (42 bp):
AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTAAA
Found at i:12754365 original size:31 final size:31
Alignment explanation
Indices: 12754231--12754365 Score: 136
Period size: 31 Copynumber: 4.4 Consensus size: 31
12754221 TAAAATACTT
12754231 TTTTTAAAATACTTTTTTTAATTTTAAAATA
1 TTTTTAAAATACTTTTTTTAATTTTAAAATA
** *** *
12754262 TTTTTTTTAAT--TTTAAAATATTTTTAAAATA
1 -TTTTTAAAATACTTT-TTTTAATTTTAAAATA
12754293 CTTTTTTAAAAT--TTTTTTTAATTTTAAAATA
1 --TTTTTAAAATACTTTTTTTAATTTTAAAATA
12754324 TTTTTAAAATACTTTTTTTAATTTTTAAAA-A
1 TTTTTAAAATACTTTTTTTAA-TTTTAAAATA
12754355 TTTTTAAAATA
1 TTTTTAAAATA
12754366 AAAATGGGCC
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
29 10 0.12
30 3 0.03
31 45 0.52
32 28 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTAAAATACTTTTTTTAATTTTAAAATA
Found at i:12756680 original size:18 final size:19
Alignment explanation
Indices: 12756657--12756711 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
12756647 CTTTATACTT
12756657 TTTTTAATTTTTTTTATA-
1 TTTTTAATTTTTTTTATAC
* *
12756675 TTTTTAATATTTTATA-AC
1 TTTTTAATTTTTTTTATAC
* *
12756693 TTTTAAATTATTTTTATAC
1 TTTTTAATTTTTTTTATAC
12756712 ATGGTATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAATTTTTTTTATAC
Found at i:12762880 original size:18 final size:18
Alignment explanation
Indices: 12762857--12762913 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
12762847 CCCAACTACT
*
12762857 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
12762875 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
12762893 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
12762911 GTA
1 GTA
12762914 AACAGTCGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:12768840 original size:18 final size:17
Alignment explanation
Indices: 12768817--12768866 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
12768807 CGTTTATGGT
12768817 ACTATTCACGTATACGGC
1 ACTATTCACGTATAC-GC
*
12768835 ACTATTCACGTATACGT
1 ACTATTCACGTATACGC
12768852 ACTATTCACGTATAC
1 ACTATTCACGTATAC
12768867 AGTAGTTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (17 bp):
ACTATTCACGTATACGC
Found at i:12768857 original size:17 final size:18
Alignment explanation
Indices: 12768814--12768866 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
12768804 GACCGTTTAT
12768814 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
12768832 GGCACTATTCACGTATAC
1 GGTACTATTCACGTATAC
12768850 -GTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
12768867 AGTAGTTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:12774303 original size:50 final size:50
Alignment explanation
Indices: 12774242--12774343 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
12774232 TCTATAATAC
*
12774242 TTCTTTTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT
1 TTCTTCTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT
* *
12774292 TTCTTCTTCAATATTTTGGTATCATGGCATGCATTTCATAACAAATATAT
1 TTCTTCTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT
12774342 TT
1 TT
12774344 GGCATTTGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (50 bp):
TTCTTCTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT
Found at i:12781872 original size:62 final size:62
Alignment explanation
Indices: 12781793--12781948 Score: 249
Period size: 62 Copynumber: 2.5 Consensus size: 62
12781783 TTAAAGTGTC
12781793 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT
* * * *
12781855 TTAATATTTAATTTAATTTAATGTTAATCTTGTAGATAAATATTTTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT
* * *
12781917 TTAATATTAAATTTATTTTAGTATTTATCTTG
1 TTAATATTAAATTTAATTTAATGTTTATCTTG
12781949 ATAAATACTA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (62 bp):
TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT
Found at i:12783181 original size:14 final size:14
Alignment explanation
Indices: 12783162--12783192 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
12783152 AGTAATATAT
12783162 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
12783176 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
12783190 TTT
1 TTT
12783193 ACTTTTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:12783201 original size:20 final size:20
Alignment explanation
Indices: 12783176--12783221 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
12783166 TGGAAAATGA
12783176 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
12783196 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
12783215 TTTCTGG
1 TTTCTGG
12783222 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:12785301 original size:56 final size:57
Alignment explanation
Indices: 12785239--12785348 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
12785229 AAGAAGCTAG
12785239 AGATAAATTATACATGCATAATACAG-AAAAAAAGATATATATATATATATATATAT
1 AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATATAT
12785295 AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATA
1 AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATA
12785349 GAGAGAGCTC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 26 0.49
57 27 0.51
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.31
Consensus pattern (57 bp):
AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATATAT
Found at i:12787239 original size:66 final size:66
Alignment explanation
Indices: 12787162--12787305 Score: 288
Period size: 66 Copynumber: 2.2 Consensus size: 66
12787152 AAACGTTGTT
12787162 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA
1 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA
12787227 A
66 A
12787228 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA
1 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA
12787293 A
66 A
12787294 GGCTTCTTTTCC
1 GGCTTCTTTTCC
12787306 CGTGTTTTGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 78 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (66 bp):
GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA
A
Found at i:12790004 original size:60 final size:60
Alignment explanation
Indices: 12789938--12790138 Score: 143
Period size: 60 Copynumber: 3.1 Consensus size: 60
12789928 ACATAACAAT
*
12789938 TTATTGAAATAATAGAACTTTATTTATATTGAAGTTTAGCATACTTAACAAAATTTCAAA
1 TTATTGAAATAATAGAACTTTATTTATAATGAAGTTTAGCATACTTAACAAAATTTCAAA
* * * * * ** *
12789998 TTATTGAACAAAATATGTCCTAATCAGCTTTATTAAAAAT-ACATTTATATCATTGTTCAGCTAA
1 TTATTGAA-ATAATA-G-----A--A-CTTTATTTATAATGA-AGTT-TAGCATACTT-AAC-AA
* ** *
12790062 CATAACAAT
52 AATTTCAAA
*
12790071 TTATTGAAATAATAGAACTTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAA
1 TTATTGAAATAATAGAACTTTATTTATAATGAAGTTTAGCATACTTAACAAAATTTCAAA
12790131 TTATTGAA
1 TTATTGAA
12790139 CAAAATATGT
Statistics
Matches: 100, Mismatches: 26, Indels: 30
0.64 0.17 0.19
Matches are distributed among these distances:
60 23 0.23
61 7 0.07
62 8 0.08
63 13 0.13
64 2 0.02
66 1 0.01
67 1 0.01
69 2 0.02
70 13 0.13
71 8 0.08
72 7 0.07
73 15 0.15
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (60 bp):
TTATTGAAATAATAGAACTTTATTTATAATGAAGTTTAGCATACTTAACAAAATTTCAAA
Found at i:12790129 original size:133 final size:133
Alignment explanation
Indices: 12789891--12790156 Score: 496
Period size: 133 Copynumber: 2.0 Consensus size: 133
12789881 CGATTTGTAT
12789891 GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC
1 GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC
*
12789956 TTTATTTATATTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA
66 TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA
12790021 TCA
131 TCA
* * *
12790024 GCTTTATTAAAAATACATTTATATCATTGTTCAGCTAACATAACAATTTATTGAAATAATAGAAC
1 GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC
12790089 TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA
66 TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA
12790154 TCA
131 TCA
12790157 TAATTAAAAG
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (133 bp):
GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC
TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA
TCA
Found at i:12797093 original size:20 final size:20
Alignment explanation
Indices: 12797068--12797109 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
12797058 ATATTGATGA
12797068 TACTTGAGATGCGAGTGAAG
1 TACTTGAGATGCGAGTGAAG
12797088 TACTTGAGATGCGAGTGAAG
1 TACTTGAGATGCGAGTGAAG
12797108 TA
1 TA
12797110 AGAGCGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (20 bp):
TACTTGAGATGCGAGTGAAG
Found at i:12797346 original size:17 final size:17
Alignment explanation
Indices: 12797324--12797368 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
12797314 CAATGTGGGA
*
12797324 TTCCGTAATGAGGGCAC
1 TTCCGTAATAAGGGCAC
12797341 TTCCGTAATAAGGGCAC
1 TTCCGTAATAAGGGCAC
*
12797358 CTCCGTAATAA
1 TTCCGTAATAA
12797369 TTATTTGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (17 bp):
TTCCGTAATAAGGGCAC
Found at i:12801863 original size:26 final size:26
Alignment explanation
Indices: 12801834--12801885 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12801824 ACCATTTATG
12801834 AGTGATGGATTTTTATGATAAATTAA
1 AGTGATGGATTTTTATGATAAATTAA
*
12801860 AGTGATGGATTTTTATGATGAATTAA
1 AGTGATGGATTTTTATGATAAATTAA
12801886 CATGAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (26 bp):
AGTGATGGATTTTTATGATAAATTAA
Found at i:12802528 original size:105 final size:104
Alignment explanation
Indices: 12802347--12802609 Score: 301
Period size: 105 Copynumber: 2.6 Consensus size: 104
12802337 GAATTGAGGA
* * * *
12802347 TAAGACCATGGTTGGACCATGGCAATGT-TTA-A-ATGTAAGACCATAGCTGAGCTATGGCATTT
1 TAAGACCATGGTTGGACCATGGCAATGTAATACATGTGTAAGACCATAGCTGGGCTATGGCATTC
* * **
12802409 TAATGAAAATACCATAACTGGGTTATGGCACCT-TGAACG
66 TAATGAAAAGACCATAACTAGGTTATGGCA-CTACAAACG
*
12802448 TAAGATCATGGTTGGACCATGGCAATGTAGATACATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGGCAATGTA-ATACATGTGTAAGACCATAGCTGGGCTATGGCATT
* * *
12802513 CTGATGATAAGACCATAACTAGGTTATGGCACTACAAATG
65 CTAATGAAAAGACCATAACTAGGTTATGGCACTACAAACG
* * * *
12802553 TAAGACCATGGTAGGGCCATGG--A---AATACATGTGTAAGACCATAGTTGGACTATGGCA
1 TAAGACCATGGTTGGACCATGGCAATGTAATACATGTGTAAGACCATAGCTGGGCTATGGCA
12802610 CAAAAAGAAC
Statistics
Matches: 140, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
99 31 0.22
100 1 0.01
101 27 0.19
103 3 0.02
104 3 0.02
105 75 0.54
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (104 bp):
TAAGACCATGGTTGGACCATGGCAATGTAATACATGTGTAAGACCATAGCTGGGCTATGGCATTC
TAATGAAAAGACCATAACTAGGTTATGGCACTACAAACG
Found at i:12802557 original size:33 final size:32
Alignment explanation
Indices: 12802485--12802561 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
12802475 TAGATACATG
* * * **
12802485 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTAGGCTATGGCATACAAA
*
12802517 TGATAAGACCATAACTAGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTAGGCTATGGCA-TACAAA
12802551 TGTAAGACCAT
1 TGTAAGACCAT
12802562 GGTAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTAGGCTATGGCATACAAA
Found at i:12804657 original size:43 final size:43
Alignment explanation
Indices: 12804593--12804677 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
12804583 GACCTACGGC
* * *
12804593 TAGTGTGGGTAGTGTGGAAAATGTTCCTAAGCCCAAATGTAAA
1 TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAAA
12804636 TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAA
1 TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAA
12804678 GGCAGGAGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (43 bp):
TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAAA
Found at i:12817977 original size:105 final size:100
Alignment explanation
Indices: 12817796--12818058 Score: 298
Period size: 105 Copynumber: 2.6 Consensus size: 100
12817786 AATTGATGGA
* * * *
12817796 TAAGACCATGGTTGGACCATGGCAATGTTTAA-ATGTAAGACCATAGCTAGGCTATGACATTTTA
1 TAAGACCATGGTTGGACCATGGCAATG--TAATGTGTAAGACCATAGCTGGGCTATGGCATTCTA
* **
12817860 ATGAAAATACCATAACTGGGTTATGGCACCT-TGAACG
64 ATGAAAAGACCATAACTGGGTTATGGCA-CTACAAACG
12817897 TAAGACCATGGTTGGACCATGGCAGTATAGATAGATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGGCA--AT-G-TA-ATGTGTAAGACCATAGCTGGGCTATGGCATT
* * *
12817962 CTGATGATAAGACCATAACTGGGTTATGGCACTACAAATG
61 CTAATGAAAAGACCATAACTGGGTTATGGCACTACAAACG
** * * *
12818002 TAAGACCATGGCAGGGCCATGGCAATGT-ATGTGTAAGACCATAGTTGGACTATGGCA
1 TAAGACCATGGTTGGACCATGGCAATGTAATGTGTAAGACCATAGCTGGGCTATGGCA
12818059 CAAAAAGAAC
Statistics
Matches: 140, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
99 27 0.19
101 25 0.18
102 1 0.01
103 6 0.04
104 4 0.03
105 77 0.55
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (100 bp):
TAAGACCATGGTTGGACCATGGCAATGTAATGTGTAAGACCATAGCTGGGCTATGGCATTCTAAT
GAAAAGACCATAACTGGGTTATGGCACTACAAACG
Found at i:12817978 original size:33 final size:32
Alignment explanation
Indices: 12817934--12818058 Score: 108
Period size: 33 Copynumber: 3.8 Consensus size: 32
12817924 TAGATAGATG
12817934 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
* * * **
12817966 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAGCTGGGCTATGGCA-TTCTGA
* * * *
12818000 TGTAAGACCATGGCAGGGCCATGGCAATGTATG-
1 TGTAAGACCATAGCTGGGCTATGGC-AT-TCTGA
* *
12818033 TGTAAGACCATAGTTGGACTATGGCA
1 TGTAAGACCATAGCTGGGCTATGGCA
12818059 CAAAAAGAAC
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
32 3 0.04
33 61 0.87
34 6 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (32 bp):
TGTAAGACCATAGCTGGGCTATGGCATTCTGA
Found at i:12818056 original size:66 final size:66
Alignment explanation
Indices: 12817934--12818059 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
12817924 TAGATAGATG
* * * **
12817934 TGTAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTACAA
1 TGTAAGACCATAGCAGGGCCATGGCATTATGATGATAAGACCATAACTGGACTATGGCACTACAA
12817999 A
66 A
* **
12818000 TGTAAGACCATGGCAGGGCCATGGCAATGTATG-TG-TAAGACCATAGTTGGACTATGGCAC
1 TGTAAGACCATAGCAGGGCCATGGC-AT-TATGATGATAAGACCATAACTGGACTATGGCAC
12818060 AAAAAGAACG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
66 43 0.86
67 4 0.08
68 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (66 bp):
TGTAAGACCATAGCAGGGCCATGGCATTATGATGATAAGACCATAACTGGACTATGGCACTACAA
A
Found at i:12826919 original size:72 final size:71
Alignment explanation
Indices: 12826815--12827076 Score: 206
Period size: 72 Copynumber: 3.6 Consensus size: 71
12826805 TATTCAGCAA
* * * * * *
12826815 AAAATTACGCTAGTTATGCAATAAAAACTTATGCGAACTCTACAGTAGAAAATTATGCGAGCTAT
1 AAAATTATGCTAGCTATGCAGTAAAAACTTATGCGAACTGTACAGCAGAAAATTATGTGAGCTAT
12826880 GCAACGG
66 GCAAC-G
* * ** * ** *
12826887 AAAATTATGCTAGCTGTGCAGTGAAAAA-TTATGCTAGTTGTACAGCAGAAAATCATGTGAATTG
1 AAAATTATGCTAGCTATGCAGT-AAAAACTTATGCGAACTGTACAGCAGAAAATTATGTGAGCTA
12826951 TGCAACG
65 TGCAACG
* * * * * * *
12826958 AAAATTTTTGCTATCTATGCAGCAAAAAGATTTATGCGAACTGTGCAGCAAAAAATTATGTTAGC
1 AAAA-TTATGCTAGCTATGCAG-TAAAA-ACTTATGCGAACTGTACAGCAGAAAATTATGTGAGC
12827023 -AGTGCAACAG
63 TA-TGCAAC-G
* * * *
12827033 AAAATTATGCTAGCTGTGCCGCATAAAA-TTATGTGAACTGTACA
1 AAAATTATGCTAGCTATGCAGTA-AAAACTTATGCGAACTGTACA
12827077 ACATATATTA
Statistics
Matches: 147, Mismatches: 35, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
71 5 0.03
72 82 0.56
73 8 0.05
74 47 0.32
75 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (71 bp):
AAAATTATGCTAGCTATGCAGTAAAAACTTATGCGAACTGTACAGCAGAAAATTATGTGAGCTAT
GCAACG
Found at i:12826921 original size:24 final size:24
Alignment explanation
Indices: 12826863--12826923 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
12826853 TCTACAGTAG
* *
12826863 AAAATTATGCGAGCTATGCAACGG
1 AAAATTATGCTAGCTATGCAACGA
* **
12826887 AAAATTATGCTAGCTGTGCAGTGA
1 AAAATTATGCTAGCTATGCAACGA
12826911 AAAATTATGCTAG
1 AAAATTATGCTAG
12826924 TTGTACAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAATTATGCTAGCTATGCAACGA
Found at i:12826938 original size:24 final size:23
Alignment explanation
Indices: 12826855--12826939 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 23
12826845 ATGCGAACTC
* *
12826855 TACAGTAGAAAATTATGCGAGCTA
1 TACAG-AGAAAATTATGCTAGCTG
*
12826879 TGCA-ACGGAAAATTATGCTAGCTG
1 TACAGA--GAAAATTATGCTAGCTG
* * *
12826903 TGCAGTGAAAAATTATGCTAGTTG
1 TACAGAG-AAAATTATGCTAGCTG
12826927 TACAGCAGAAAAT
1 TACAG-AGAAAAT
12826940 CATGTGAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 46 0.94
25 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (23 bp):
TACAGAGAAAATTATGCTAGCTG
Found at i:12826938 original size:48 final size:48
Alignment explanation
Indices: 12826863--12827065 Score: 133
Period size: 48 Copynumber: 4.2 Consensus size: 48
12826853 TCTACAGTAG
* * * * * * *
12826863 AAAATTATGCGAGCTATGCAACGGAAAATTATGCTAGCTGTGCAGTGA
1 AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCTAACTGTGCAGCGA
* * * *
12826911 AAAATTATGCTAGTTGTACAGCAGAAAATCATG-TGAATTGTGCAACGA
1 AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCT-AACTGTGCAGCGA
* * * * * *
12826959 AAATTTTTGCTA-TCTATGCAGCAAAAAGATTTATGCGAACTGTGCAGCAA
1 AAAATTATGCTAGT-TGTGCAGCAGAAA-A-TTATGCTAACTGTGCAGCGA
* ** * * *
12827009 AAAATTATGTTAGCAGTGCAACAGAAAATTATGCTAGCTGTGCCGC-A
1 AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCTAACTGTGCAGCGA
12827056 TAAAATTATG
1 -AAAATTATG
12827066 TGAACTGTAC
Statistics
Matches: 116, Mismatches: 32, Indels: 14
0.72 0.20 0.09
Matches are distributed among these distances:
47 3 0.03
48 79 0.68
49 2 0.02
50 32 0.28
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCTAACTGTGCAGCGA
Found at i:12827073 original size:24 final size:24
Alignment explanation
Indices: 12826975--12827118 Score: 87
Period size: 24 Copynumber: 6.0 Consensus size: 24
12826965 TTGCTATCTA
*
12826975 TGCAGCAAAAAGATTTATGCGAACTG
1 TGCAGCAAAAA-A-TTATGTGAACTG
* * *
12827001 TGCAGCAAAAAATTATGTTAGCAG
1 TGCAGCAAAAAATTATGTGAACTG
* * *
12827025 TGCAACAGAAAATTATGCT-AGCTG
1 TGCAGCAAAAAATTATG-TGAACTG
* *
12827049 TGCCGCATAAAATTATGTGAACTG
1 TGCAGCAAAAAATTATGTGAACTG
* * * * *
12827073 TACAAC-ATATATTATGCT-AGCTG
1 TGCAGCAAAAAATTATG-TGAACTG
* *
12827096 TGCAGCAAAATATTATGCGAACT
1 TGCAGCAAAAAATTATGTGAACT
12827119 ATACAATAGA
Statistics
Matches: 90, Mismatches: 23, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
23 16 0.18
24 61 0.68
25 2 0.02
26 11 0.12
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (24 bp):
TGCAGCAAAAAATTATGTGAACTG
Found at i:12827111 original size:47 final size:47
Alignment explanation
Indices: 12826989--12827136 Score: 145
Period size: 48 Copynumber: 3.1 Consensus size: 47
12826979 GCAAAAAGAT
* * * * * *
12826989 TTATGCGAACTGTGCAGCAAAAAATTATGTTAGCAGTGCAACAGAAAA
1 TTATGCTAGCTGTGCAGC-AAAAATTATGTGAACTGTACAACAGAAAA
* * *
12827037 TTATGCTAGCTGTGCCGCATAAAATTATGTGAACTGTACAACA-TATA
1 TTATGCTAGCTGTGCAGCA-AAAATTATGTGAACTGTACAACAGAAAA
* * * *
12827084 TTATGCTAGCTGTGCAGCAAAATATTATGCGAACTATACAATAGAAAT
1 TTATGCTAGCTGTGCAGCAAAA-ATTATGTGAACTGTACAACAGAAAA
12827132 TTATG
1 TTATG
12827137 TAAACTGGTG
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
46 3 0.04
47 38 0.47
48 40 0.49
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (47 bp):
TTATGCTAGCTGTGCAGCAAAAATTATGTGAACTGTACAACAGAAAA
Found at i:12828522 original size:43 final size:43
Alignment explanation
Indices: 12828431--12828579 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
12828421 TTACTGAGAG
*
12828431 GTGATAACATGTAAGACCATGTCTAGGACATTGGCAT--TGTATT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCAT-TA-T
*
12828474 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATTAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCATTAT
* ** * * * * * *
12828517 ATGATTTCGTTTAAGACCCTCTCTGGGACAGTGGTATCGA-TAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATC-ATTAT
*
12828560 GTGATAACATTTAAGACCAT
1 GTGATAACATGTAAGACCAT
12828580 ATCTAGGATA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
43 84 0.95
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (43 bp):
GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCATTAT
Found at i:12829309 original size:26 final size:23
Alignment explanation
Indices: 12829223--12829314 Score: 78
Period size: 26 Copynumber: 3.7 Consensus size: 23
12829213 GTCACCACAA
*
12829223 CTCGTATGAGCTTACCGATATATCAG
1 CTCG-ATGAGCTTACCG-T-TTTCAG
* *
12829249 CTCTTATGAGCTTATCGTTTT-AG
1 CTC-GATGAGCTTACCGTTTTCAG
12829272 CTCGATAGAGCTTACCGTTCTTCAG
1 CTCGAT-GAGCTTACCGTT-TTCAG
12829297 CTCAGAATGAGCTTACCG
1 CTC-G-ATGAGCTTACCG
12829315 ATCATGGCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
22 2 0.04
23 16 0.29
24 4 0.07
25 6 0.11
26 25 0.45
27 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (23 bp):
CTCGATGAGCTTACCGTTTTCAG
Found at i:12830607 original size:59 final size:59
Alignment explanation
Indices: 12830526--12830740 Score: 270
Period size: 59 Copynumber: 3.6 Consensus size: 59
12830516 GGTCATGATT
* * * * * *
12830526 GTAAATCGACAAACCATAAGATTTTGAAAATCTTATAAGTGGTGTAAATAGTTGCGATC
1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGATA
** * * *
12830585 GTAAATCGGTGAACCGTGAGATTTTGAAAATCTTGTAATTAGAGTAAATAGTTGCGATT
1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGATA
* * *
12830644 GTCAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGCAAATGGTTGC-AGTA
1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGA-TA
* *
12830703 GTAAATTGACAAACCGTAAGATTTTGAAAATCTTGTAA
1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAA
12830741 ATGGGAGGTC
Statistics
Matches: 134, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
58 1 0.01
59 133 0.99
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (59 bp):
GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGATA
Found at i:12830785 original size:54 final size:54
Alignment explanation
Indices: 12830703--12830829 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
12830693 GGTTGCAGTA
* ** *
12830703 GTAAATTGACAAACCGTAAGATTTTGAAAATCTTGTAAATGGGAGGTCGCGATC
1 GTAAATTGACAAACAGTAAGATTTTGAAAATCTCATAAATAGGAGGTCGCGATC
* * *
12830757 GTAAATT-AGCAAACAGTGAGATTTTGAAAATCTCATAAGTAGGAGGTTGCGATC
1 GTAAATTGA-CAAACAGTAAGATTTTGAAAATCTCATAAATAGGAGGTCGCGATC
* *
12830811 GTAAATCGACAAACCGTAA
1 GTAAATTGACAAACAGTAA
12830830 TATGCTTGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
53 1 0.02
54 59 0.97
55 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (54 bp):
GTAAATTGACAAACAGTAAGATTTTGAAAATCTCATAAATAGGAGGTCGCGATC
Found at i:12834057 original size:60 final size:60
Alignment explanation
Indices: 12833964--12834092 Score: 258
Period size: 60 Copynumber: 2.1 Consensus size: 60
12833954 TCACTCAGAG
12833964 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC
1 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC
12834024 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC
1 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC
12834084 AAGATCGAA
1 AAGATCGAA
12834093 TATCTCCATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13
Consensus pattern (60 bp):
AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC
Found at i:12836557 original size:30 final size:30
Alignment explanation
Indices: 12836518--12836578 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
12836508 TGGCCTAAAA
*
12836518 TGACACATACAACTTGG-CGACATGGCCATG
1 TGACACATACAACCTGGAC-ACATGGCCATG
* *
12836548 TGACCCATACAACCTGGACACATGGGCATG
1 TGACACATACAACCTGGACACATGGCCATG
12836578 T
1 T
12836579 CTTAGGCCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (30 bp):
TGACACATACAACCTGGACACATGGCCATG
Found at i:12836875 original size:5 final size:5
Alignment explanation
Indices: 12836865--12836914 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
12836855 AAGCTACCCC
* *
12836865 TTTTA TTTTA TTTTA -TTTA TTATGA TTTTA TATTA -TTTA TTTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA TTTTA
12836915 CTAATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.19
5 22 0.59
6 8 0.22
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:12836912 original size:20 final size:20
Alignment explanation
Indices: 12836865--12836940 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
12836855 AAGCTACCCC
*
12836865 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
* *
12836885 TATGATTTTATATTATTTAT
1 TTTTATTTTATATTATTTAT
*
12836905 TTTTATTTTACTAATTTTTTAT
1 TTTTATTTTA-T-ATTATTTAT
12836927 TTATTATTCTTATA
1 TT-TTATT-TTATA
12836941 CATTGATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 25 0.54
21 1 0.02
22 11 0.24
23 6 0.13
24 3 0.07
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:12837993 original size:13 final size:13
Alignment explanation
Indices: 12837975--12838010 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
12837965 CTTATTGTTC
*
12837975 AAAAAAATCTAAG
1 AAAAAAATATAAG
*
12837988 AAAAAAATATAAT
1 AAAAAAATATAAG
12838001 AAAAAAATAT
1 AAAAAAATAT
12838011 TGATCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAAAAATATAAG
Found at i:12843533 original size:32 final size:33
Alignment explanation
Indices: 12843466--12843537 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
12843456 TGAAAAAGTT
*
12843466 AATATTTTCTGGTATTTAGATGAATTTATGTAA
1 AATATTTTCTGGTATTTAGATAAATTTATGTAA
* * *
12843499 AATATTTTCTGTTATTTTG-TAAATTT-TTTAAA
1 AATATTTTCTGGTATTTAGATAAATTTATGT-AA
12843531 AATATTT
1 AATATTT
12843538 CATAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.06
32 15 0.44
33 17 0.50
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (33 bp):
AATATTTTCTGGTATTTAGATAAATTTATGTAA
Found at i:12844013 original size:26 final size:26
Alignment explanation
Indices: 12843932--12844014 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 26
12843922 AATAAATATT
* *
12843932 TATTACTTTCAATAATACGTGAATAA
1 TATTATTTTTAATAATACGTGAATAA
* * **
12843958 TATT-TATTTAA-AATA--TTAATTT
1 TATTATTTTTAATAATACGTGAATAA
*
12843980 TGAATATTTTTAATAATACGTGAATAA
1 T-ATTATTTTTAATAATACGTGAATAA
12844007 TATTATTT
1 TATTATTT
12844015 AAAATTATTA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 10 0.25
25 8 0.20
26 10 0.25
27 5 0.12
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (26 bp):
TATTATTTTTAATAATACGTGAATAA
Found at i:12844038 original size:16 final size:16
Alignment explanation
Indices: 12844007--12844043 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12843997 ACGTGAATAA
12844007 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
12844023 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
12844039 TATTA
1 TATTA
12844044 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:12844103 original size:22 final size:20
Alignment explanation
Indices: 12844051--12844111 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
12844041 TTAAAATAAA
* * *
12844051 ATTAAAATATTAAATAATTT
1 ATTAAAATAATAATTTATTT
12844071 ATTAAAATAATCAATTATATTT
1 ATTAAAATAAT-AATT-TATTT
* *
12844093 ATTATATTAATAATTTATT
1 ATTAAAATAATAATTTATT
12844112 ATATGACTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 14 0.41
21 7 0.21
22 13 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAAATAATAATTTATTT
Found at i:12846969 original size:18 final size:19
Alignment explanation
Indices: 12846946--12846981 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12846936 AAACTTTAGC
*
12846946 TTTTTC-TTTATTTACAAG
1 TTTTTCATTAATTTACAAG
12846964 TTTTTCATTAATTTACAA
1 TTTTTCATTAATTTACAA
12846982 TGAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTCATTAATTTACAAG
Found at i:12848439 original size:21 final size:21
Alignment explanation
Indices: 12848384--12848439 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
12848374 ATGTTGTTGC
* *
12848384 TTTTTAA-ATTTTTAATTATT
1 TTTTTAACATGTTTAGTTATT
12848404 TTTTTAACATG-TTAGTTATT
1 TTTTTAACATGTTTAGTTATT
*
12848424 TTTGTT-AGATGTTTAG
1 TTT-TTAACATGTTTAG
12848440 ATAATTACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (21 bp):
TTTTTAACATGTTTAGTTATT
Found at i:12848816 original size:142 final size:142
Alignment explanation
Indices: 12848480--12848817 Score: 370
Period size: 142 Copynumber: 2.4 Consensus size: 142
12848470 TTTCTTTTAC
* * *
12848480 TATTTTTTATTTTATGTTGCTT-AAGCTTTTTTAATTTTTAATTAATTCTTTTTAACATATTAAT
1 TATTTTTTATTTTATGTTGTTTCAAGCTTTTTTTATTTTTAATTAATAC-TTTTAACATATTAAT
* * * *
12848544 TACTTTGTTAGATGGTTAGATAGTTGCAATTACATCCTTAAATCTTGAGGTTGATTTCTCTTTTA
65 TACTTTGATAGATGGTTAGATAATTGCAATTACATCCTTAAATCTTGAGGTTCATTTATCTTTTA
* *
12848609 CTCATATTTGTAT
130 CTAATATTTGAAT
* *
12848622 TTTTTTTTATTTTATGTT-TCTTCAAGC-TTTTTTATTTTTAATTAATATTTTTAACATATT-AT
1 TATTTTTTATTTTATGTTGT-TTCAAGCTTTTTTTATTTTTAATTAATACTTTTAACATATTAAT
* * * * *
12848684 CTCATTTTGATAGATTGTTAGATAATTGCGATTACATCCTTGAGT-TTGAGGCTTCA-TTAT-TT
65 -T-ACTTTGATAGATGGTTAGATAATTGCAATTACATCCTTAAATCTTGAGG-TTCATTTATCTT
12848746 TTA-TAAGTATATT-AAT
127 TTACTAA-TAT-TTGAAT
* * *
12848762 GTATTTTTTATTTCATGTTGTTTCAAACTTTTTTTATTTTTAATTAATGCTTTTAA
1 -TATTTTTTATTTTATGTTGTTTCAAGCTTTTTTTATTTTTAATTAATACTTTTAA
12848818 TTAATAAATA
Statistics
Matches: 165, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
139 2 0.01
140 12 0.07
141 46 0.28
142 101 0.61
143 4 0.02
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (142 bp):
TATTTTTTATTTTATGTTGTTTCAAGCTTTTTTTATTTTTAATTAATACTTTTAACATATTAATT
ACTTTGATAGATGGTTAGATAATTGCAATTACATCCTTAAATCTTGAGGTTCATTTATCTTTTAC
TAATATTTGAAT
Found at i:12849270 original size:146 final size:145
Alignment explanation
Indices: 12848992--12849253 Score: 331
Period size: 146 Copynumber: 1.8 Consensus size: 145
12848982 CTCAAAGATG
* * * *
12848992 TAATTACAATTATTTAACCATCTAACAAAAAGAGCTAATATGTTAAAAATATTAATTAAAAATAA
1 TAATTACAAATATCTAACCATCTAACAAAAAGAGCTAATATATTAAAAAAATTAATTAAAAATAA
* * *
12849057 AAAAATAGTTGGAAGCAACATGAAATAAAAAATATATATAAATGTGAGTAGGAGAGGAATCAAAC
66 AAAAATAGTTGAAAGCAACATGAAAT-AAAAATATATACAAATATGAGTAGGAGAGGAATCAAAC
12849122 TCAGAACTGAATGATA
130 TCAGAACTGAATGATA
** * *
12849138 TAATTACAAATATCTAACCATCTAACAAAACTA-CTCATATATTAAAAAAATTAATTAAAAAT-T
1 TAATTACAAATATCTAACCATCTAACAAAAAGAGCTAATATATTAAAAAAATTAATTAAAAATAA
* * *
12849201 TAAAA-AGCTT-AAAGTAACATGAAAT-AAAA-A-ATACAAATATGAGTAGGAAAGGA
66 AAAAATAG-TTGAAAGCAACATGAAATAAAAATATATACAAATATGAGTAGGAGAGGA
12849254 GTTGAACTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
139 20 0.20
140 1 0.01
141 4 0.04
143 15 0.15
144 6 0.06
145 26 0.26
146 29 0.29
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (145 bp):
TAATTACAAATATCTAACCATCTAACAAAAAGAGCTAATATATTAAAAAAATTAATTAAAAATAA
AAAAATAGTTGAAAGCAACATGAAATAAAAATATATACAAATATGAGTAGGAGAGGAATCAAACT
CAGAACTGAATGATA
Found at i:12851324 original size:3 final size:3
Alignment explanation
Indices: 12851316--12851361 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
12851306 TCATTTAACC
12851316 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12851362 AAACAACAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12852295 original size:27 final size:27
Alignment explanation
Indices: 12852245--12852296 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
12852235 CTCTAACAGA
*
12852245 TACATTACGGACTGTCCTGCGAACAAC
1 TACATTACGGACTGTCCCGCGAACAAC
*
12852272 TACATTACGGACTGTCCCGTGAACA
1 TACATTACGGACTGTCCCGCGAACA
12852297 GATAAACTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (27 bp):
TACATTACGGACTGTCCCGCGAACAAC
Found at i:12855077 original size:3 final size:3
Alignment explanation
Indices: 12855059--12855189 Score: 69
Period size: 3 Copynumber: 44.3 Consensus size: 3
12855049 ATTTTTTAAT
* * * * *
12855059 TTA TTA ATA CTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TAA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
12855107 TTA TCGTA TTA GT- TTA -TA TT- TTT TTA -CA TTA TT- TTA TT- TTA
1 TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
12855148 TTA TGTA TTG TTA TT- TTAA TTA TTT TTA TCA TTTA TTA TTA T
1 TTA T-TA TTA TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA T
12855190 CTGATTACAT
Statistics
Matches: 96, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
2 12 0.12
3 74 0.77
4 7 0.07
5 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:12856048 original size:46 final size:46
Alignment explanation
Indices: 12855979--12856230 Score: 447
Period size: 46 Copynumber: 5.5 Consensus size: 46
12855969 TACGTATGAT
* *
12855979 CACTTATCA-TTTGTC-CTTGATCAGATAAGTGTAGGTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
12856023 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
12856069 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
12856115 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
12856161 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
12856207 CACTTATCACTTTGTCAC-TGATCA
1 CACTTATCACTTTGTCACTTGATCA
12856231 AAAGTACTCA
Statistics
Matches: 201, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
44 9 0.04
45 12 0.06
46 180 0.90
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:12858968 original size:10 final size:10
Alignment explanation
Indices: 12858953--12858977 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12858943 CATTAATTAC
12858953 TTTTTTTATT
1 TTTTTTTATT
12858963 TTTTTTTATT
1 TTTTTTTATT
12858973 TTTTT
1 TTTTT
12858978 AAAATGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:12859642 original size:19 final size:19
Alignment explanation
Indices: 12859620--12859661 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
12859610 TAAAAAGATA
12859620 AACTTAATTTCGAAGATTG
1 AACTTAATTTCGAAGATTG
12859639 AACTTAATTTCGAAGATTG
1 AACTTAATTTCGAAGATTG
12859658 AACT
1 AACT
12859662 GTTGCACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AACTTAATTTCGAAGATTG
Found at i:12862753 original size:35 final size:35
Alignment explanation
Indices: 12862713--12862845 Score: 203
Period size: 35 Copynumber: 3.8 Consensus size: 35
12862703 TAATTCAAGA
*
12862713 TGAACAAGAAAGATTCCCTGCAACAAAATAATGTG
1 TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG
* *
12862748 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG
* *
12862783 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG
* *
12862818 TGAACAAGAAATATTCCCTGCAAGAAAA
1 TGAACAAGAAAGATTCCCTGCAACAAAA
12862846 GACAAGTGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.18
Consensus pattern (35 bp):
TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG
Found at i:12863110 original size:21 final size:22
Alignment explanation
Indices: 12863086--12863142 Score: 89
Period size: 23 Copynumber: 2.6 Consensus size: 22
12863076 AAATTTAATT
12863086 TTAAGTTTCCAAA-TTTTCAAA
1 TTAAGTTTCCAAATTTTTCAAA
*
12863107 TTAAGTTTTCAAATTTTTTCAAA
1 TTAAGTTTCCAAA-TTTTTCAAA
12863130 TTAAGTTTCCAAA
1 TTAAGTTTCCAAA
12863143 CTTAAGCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 12 0.38
23 20 0.62
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (22 bp):
TTAAGTTTCCAAATTTTTCAAA
Found at i:12863117 original size:13 final size:13
Alignment explanation
Indices: 12863099--12863159 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
12863089 AGTTTCCAAA
12863099 TTTTCAAATTAAG
1 TTTTCAAATTAAG
12863112 TTTTCAAATT---
1 TTTTCAAATTAAG
12863122 TTTTCAAATTAAG
1 TTTTCAAATTAAG
*
12863135 TTTCCAAACTTAAG
1 TTTTCAAA-TTAAG
*
12863149 CTTTCAAATTA
1 TTTTCAAATTA
12863160 CAAATATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 10 0.24
13 20 0.49
14 11 0.27
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:12865044 original size:24 final size:26
Alignment explanation
Indices: 12865002--12865053 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
12864992 TAACCTTTTA
*
12865002 TACTAATATTGTAACTT-AA-TTAAT
1 TACTAATATTGTAAATTAAACTTAAT
12865026 TACTAATTATT-TAAATTAAACTTAAT
1 TACTAA-TATTGTAAATTAAACTTAAT
12865052 TA
1 TA
12865054 ACTTAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 11 0.46
25 6 0.25
26 7 0.29
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (26 bp):
TACTAATATTGTAAATTAAACTTAAT
Found at i:12878098 original size:16 final size:16
Alignment explanation
Indices: 12878077--12878111 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
12878067 AATGGCGGAT
12878077 TGTTTAGTTGAAGAAA
1 TGTTTAGTTGAAGAAA
12878093 TGTTTAGTTGAAGAAA
1 TGTTTAGTTGAAGAAA
12878109 TGT
1 TGT
12878112 CATGTTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
TGTTTAGTTGAAGAAA
Found at i:12880031 original size:29 final size:29
Alignment explanation
Indices: 12879980--12880306 Score: 284
Period size: 29 Copynumber: 11.2 Consensus size: 29
12879970 TATCAACGAT
* * *
12879980 CATCGATCAATGAAAAGGGATAGTTTCGAC
1 CATCGAT-TATGAAAAGGGATGGTGTCGAC
* * * *
12880010 TATTGATTATGAAAAGGGATAGTTTCGAC
1 CATCGATTATGAAAAGGGATGGTGTCGAC
* * * *
12880039 TATCAAATATGAAAAGGGATGGTGACGAC
1 CATCGATTATGAAAAGGGATGGTGTCGAC
* * *
12880068 TATCAAATATGAAAAGGGATGGTGAT-GAC
1 CATCGATTATGAAAAGGGATGGTG-TCGAC
* * *
12880097 CATCG-TATATGAAAAGGGATAGTTTTGAC
1 CATCGAT-TATGAAAAGGGATGGTGTCGAC
* *
12880126 TC-TCGATTATGAAAAGGGATAGTTTCGAC
1 -CATCGATTATGAAAAGGGATGGTGTCGAC
* * * * *
12880155 TATTGACTATGGAAAGGGATGGTGACGAC
1 CATCGATTATGAAAAGGGATGGTGTCGAC
*
12880184 CATC-ATCTATGAAAAGGGATGGTGACGAC
1 CATCGAT-TATGAAAAGGGATGGTGTCGAC
* *
12880213 CATTGATTGATGAAAAGGGATGGTGACGAC
1 CATCGATT-ATGAAAAGGGATGGTGTCGAC
* *
12880243 CACCGATTTATGAAAAGGGATGGTGACGAC
1 CATCGA-TTATGAAAAGGGATGGTGTCGAC
* *
12880273 CATCGAATATGAAAAGGGATGGTTTCGAC
1 CATCGATTATGAAAAGGGATGGTGTCGAC
12880302 CATCG
1 CATCG
12880307 TTAGCACACT
Statistics
Matches: 253, Mismatches: 34, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.01
29 189 0.75
30 60 0.24
31 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25
Consensus pattern (29 bp):
CATCGATTATGAAAAGGGATGGTGTCGAC
Found at i:12880137 original size:87 final size:87
Alignment explanation
Indices: 12880017--12880301 Score: 320
Period size: 87 Copynumber: 3.3 Consensus size: 87
12880007 GACTATTGAT
* * *
12880017 TATGAAAAGGGATAGTTTCGACTATCAAATATGAAAAGGGATGGTGACGACTATCAAATATGAAA
1 TATGAAAAGGGATAGTTTCGACTCTCGATTATGAAAAGGGATGGTGACGACTATCAAATATGAAA
*
12880082 AGGGATGGTGATGACCATCGTA
66 AGGGATGGTGACGACCATCGTA
* * ** ** * *
12880104 TATGAAAAGGGATAGTTTTGACTCTCGATTATGAAAAGGGATAGTTTCGACTATTGACTATGGAA
1 TATGAAAAGGGATAGTTTCGACTCTCGATTATGAAAAGGGATGGTGACGACTATCAAATATGAAA
* *
12880169 AGGGATGGTGACGACCATCATC
66 AGGGATGGTGACGACCATCGTA
* ** * * * **
12880191 TATGAAAAGGGATGGTGACGAC-CATTGATTGATGAAAAGGGATGGTGACGACCACCGATTTATG
1 TATGAAAAGGGATAGTTTCGACTC-TCGATT-ATGAAAAGGGATGGTGACGACTATC-AAATATG
*
12880255 AAAAGGGATGGTGACGACCATCGAA
63 AAAAGGGATGGTGACGACCATCGTA
*
12880280 TATGAAAAGGGATGGTTTCGAC
1 TATGAAAAGGGATAGTTTCGAC
12880302 CATCGTTAGC
Statistics
Matches: 161, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
86 1 0.01
87 96 0.60
88 19 0.12
89 45 0.28
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (87 bp):
TATGAAAAGGGATAGTTTCGACTCTCGATTATGAAAAGGGATGGTGACGACTATCAAATATGAAA
AGGGATGGTGACGACCATCGTA
Found at i:12883701 original size:21 final size:21
Alignment explanation
Indices: 12883650--12883693 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
12883640 ATTTTGTCAA
12883650 ATACATCAAATATTCAGCCAC
1 ATACATCAAATATTCAGCCAC
12883671 ATACATCAAATATTCAGCCAC
1 ATACATCAAATATTCAGCCAC
12883692 AT
1 AT
12883694 TTCACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.05, T:0.25
Consensus pattern (21 bp):
ATACATCAAATATTCAGCCAC
Found at i:12886876 original size:32 final size:32
Alignment explanation
Indices: 12886835--12886899 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
12886825 AAAGCTAAAG
12886835 ATGACTTAAGAGGAGGTGAAATATGGATCCTT
1 ATGACTTAAGAGGAGGTGAAATATGGATCCTT
12886867 ATGACTTAAGAGGAGGTGAAATATGGATCCTT
1 ATGACTTAAGAGGAGGTGAAATATGGATCCTT
12886899 A
1 A
12886900 CCCACTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (32 bp):
ATGACTTAAGAGGAGGTGAAATATGGATCCTT
Found at i:12893893 original size:45 final size:45
Alignment explanation
Indices: 12893793--12893921 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 45
12893783 TCCAACAGTT
** *
12893793 TGCATGTATGAGTTTGTCATATCTATGAATCTTATTCTATGAATC
1 TGCATGTATGAGTACGTCATATCTATGAATCTTCTTCTATGAATC
** * * * *
12893838 CACATATATGAGTCCGCCATATCTATAAATCTTCTTCTATGAATC
1 TGCATGTATGAGTACGTCATATCTATGAATCTTCTTCTATGAATC
*
12893883 TGCATGTATGATTTAC-TCATATCTATGAATCTTCTTCTA
1 TGCATGTATGA-GTACGTCATATCTATGAATCTTCTTCTA
12893922 CAAGTTTGCC
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
45 66 0.97
46 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (45 bp):
TGCATGTATGAGTACGTCATATCTATGAATCTTCTTCTATGAATC
Found at i:12896187 original size:17 final size:17
Alignment explanation
Indices: 12896151--12896198 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
12896141 CATTTTCCCC
* *
12896151 AATGCACTAA-AATGAA
1 AATGCAATAACAATAAA
*
12896167 AATGTAATAACAATAAA
1 AATGCAATAACAATAAA
*
12896184 AATGCAATGACAATA
1 AATGCAATAACAATA
12896199 TGTACTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.21
Consensus pattern (17 bp):
AATGCAATAACAATAAA
Found at i:12896329 original size:15 final size:15
Alignment explanation
Indices: 12896309--12896338 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12896299 CTGCACGATG
*
12896309 TTTCTTCCTCCTCCT
1 TTTCTTCCTCATCCT
12896324 TTTCTTCCTCATCCT
1 TTTCTTCCTCATCCT
12896339 CTTATTGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.43, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTCTTCCTCATCCT
Found at i:12896655 original size:21 final size:21
Alignment explanation
Indices: 12896630--12896673 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
12896620 TCTCTTCTTT
* **
12896630 TTCTTTTTCATCTTCAACAAC
1 TTCTTCTTCATCAACAACAAC
*
12896651 TTCTTCTTCTTCAACAACAAC
1 TTCTTCTTCATCAACAACAAC
12896672 TT
1 TT
12896674 TCTCTTCTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (21 bp):
TTCTTCTTCATCAACAACAAC
Found at i:12896679 original size:18 final size:19
Alignment explanation
Indices: 12896635--12896680 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
12896625 TCTTTTTCTT
**
12896635 TTTCATCTTCAACAACTTC
1 TTTCATCTTCAACAACAAC
*
12896654 -TTCTTCTTCAACAACAAC
1 TTTCATCTTCAACAACAAC
12896672 TTTC-TCTTC
1 TTTCATCTTC
12896681 TACAGCAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCATCTTCAACAACAAC
Found at i:12896679 original size:21 final size:20
Alignment explanation
Indices: 12896644--12896706 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
12896634 TTTTCATCTT
12896644 CAACAACTTCTTCTTCTTCAA
1 CAACAACTTC-TCTTCTTCAA
* *
12896665 CAACAACTTTCTCTTCTACAG
1 CAACAAC-TTCTCTTCTTCAA
*
12896686 CAGCAACTTC-CTTC-TCAA
1 CAACAACTTCTCTTCTTCAA
12896704 CAA
1 CAA
12896707 AAGTGTCCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 3 0.09
21 21 0.60
22 3 0.09
ACGTcount: A:0.30, C:0.35, G:0.03, T:0.32
Consensus pattern (20 bp):
CAACAACTTCTCTTCTTCAA
Found at i:12906903 original size:23 final size:23
Alignment explanation
Indices: 12906877--12906925 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
12906867 GTTAAATTAA
*
12906877 AAGCTTGGATCAAAATCAAATCC
1 AAGCTTAGATCAAAATCAAATCC
12906900 AAGCTTAGATCAAAATCAAATCC
1 AAGCTTAGATCAAAATCAAATCC
12906923 AAG
1 AAG
12906926 TTAAACAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20
Consensus pattern (23 bp):
AAGCTTAGATCAAAATCAAATCC
Found at i:12913651 original size:43 final size:43
Alignment explanation
Indices: 12913603--12913719 Score: 225
Period size: 43 Copynumber: 2.7 Consensus size: 43
12913593 GATGTAATTT
12913603 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA
1 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA
12913646 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA
1 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA
*
12913689 CGTGTAAGACCATGTCTGGGACATTGGCATC
1 CGTGTAAGACCATGCCTGGGACATTGGCATC
12913720 ATATATGAGT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (43 bp):
CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA
Found at i:12919969 original size:25 final size:25
Alignment explanation
Indices: 12919939--12920047 Score: 137
Period size: 25 Copynumber: 4.4 Consensus size: 25
12919929 GCTCGAAATA
** *
12919939 GAGCTTACTAATATTCAGCTTATAT
1 GAGCTTACCGATATTCAGCTCATAT
*
12919964 GAGCTTACCGATATTTAGCTCATAT
1 GAGCTTACCGATATTCAGCTCATAT
**
12919989 GAGCTTACCGATATTCAGCTCGCAT
1 GAGCTTACCGATATTCAGCTCATAT
* *
12920014 GAGCTTACCGTTACTCAGCTCATAT
1 GAGCTTACCGATATTCAGCTCATAT
*
12920039 TAGCTTACC
1 GAGCTTACC
12920048 AATTATAGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 72 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCATAT
Found at i:12920005 original size:50 final size:50
Alignment explanation
Indices: 12919920--12920050 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
12919910 TTAAGGTTAT
* * * * *
12919920 CGATTCTCAGCTCGAAATAGAGCTTACTAATATTCAGCTTATATGAGCTTAC
1 CGATACTCAGCTC-ATAT-GAGCTTACCAATATTCAGCTCACATGAGCTTAC
* * * *
12919972 CGATATTTAGCTCATATGAGCTTACCGATATTCAGCTCGCATGAGCTTAC
1 CGATACTCAGCTCATATGAGCTTACCAATATTCAGCTCACATGAGCTTAC
* *
12920022 CGTTACTCAGCTCATATTAGCTTACCAAT
1 CGATACTCAGCTCATATGAGCTTACCAAT
12920051 TATAGCTCGT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 52 0.80
51 3 0.05
52 10 0.15
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (50 bp):
CGATACTCAGCTCATATGAGCTTACCAATATTCAGCTCACATGAGCTTAC
Found at i:12922626 original size:28 final size:28
Alignment explanation
Indices: 12922602--12922783 Score: 100
Period size: 28 Copynumber: 6.6 Consensus size: 28
12922592 CAGAGATAGG
*
12922602 CATAAATGCTTCCTTTTACAGAGATCAC
1 CATAAAGGCTTCCTTTTACAGAGATCAC
* * *
12922630 CATGAAGGCTTCCTTTAACAGAGATCAT
1 CATAAAGGCTTCCTTTTACAGAGATCAC
* **
12922658 CACAAAGGCTTCCTTTATA-A-AGATTGC
1 CATAAAGGCTTCCTTT-TACAGAGATCAC
* * * * **
12922685 CACAAAGGCTTCATTTAACAAAGATCGT
1 CATAAAGGCTTCCTTTTACAGAGATCAC
*** * * * *
12922713 TGCAAAGGTTTTCTTTAACAGAGATTAC
1 CATAAAGGCTTCCTTTTACAGAGATCAC
* * * **
12922741 CACAAAGGCTTCC-CTTATAGAGATTTC
1 CATAAAGGCTTCCTTTTACAGAGATCAC
*
12922768 CATAAAGGGTTCCTTT
1 CATAAAGGCTTCCTTT
12922784 ACAAATATTT
Statistics
Matches: 116, Mismatches: 34, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.01
27 41 0.35
28 73 0.63
29 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (28 bp):
CATAAAGGCTTCCTTTTACAGAGATCAC
Found at i:12922689 original size:27 final size:27
Alignment explanation
Indices: 12922658--12922832 Score: 109
Period size: 27 Copynumber: 6.3 Consensus size: 27
12922648 CAGAGATCAT
12922658 CACAAAGGCTTCCTTTATAAAGATTGC
1 CACAAAGGCTTCCTTTATAAAGATTGC
* * * *
12922685 CACAAAGGCTTCATTTAACAAAGATCGT
1 CACAAAGGCTTCCTTT-ATAAAGATTGC
** * * *
12922713 TGCAAAGGTTTTCTTTA-ACAGAGATTAC
1 CACAAAGGCTTCCTTTATA-A-AGATTGC
* * *
12922741 CACAAAGGCTTCCCTTATAGAGATTTC
1 CACAAAGGCTTCCTTTATAAAGATTGC
* * * * *
12922768 CATAAAGGGTTCCTTTACAAATATTTC
1 CACAAAGGCTTCCTTTATAAAGATTGC
* * *
12922795 CACAAAGGAATTTCTTTCTATAAGATTGC
1 CACAAAGG-CTTCCTTTATA-AAGATTGC
*
12922824 CACGAAGGC
1 CACAAAGGC
12922833 ATCCATTTTC
Statistics
Matches: 108, Mismatches: 34, Indels: 11
0.71 0.22 0.07
Matches are distributed among these distances:
26 1 0.01
27 51 0.47
28 42 0.39
29 14 0.13
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (27 bp):
CACAAAGGCTTCCTTTATAAAGATTGC
Found at i:12922710 original size:55 final size:56
Alignment explanation
Indices: 12922609--12922752 Score: 157
Period size: 55 Copynumber: 2.6 Consensus size: 56
12922599 AGGCATAAAT
* * ** * *
12922609 GCTTCCTTTTACAGAGATCACCATGAAGGCTTCCTTTAACAGAGATCATCACAAAG
1 GCTTCCTTTAACAGAGATTACCACAAAGGCTTCATTTAACAAAGATCATCACAAAG
* * **
12922665 GCTTCCTTTATA-A-AGATTGCCACAAAGGCTTCATTTAACAAAGATCGTTGCAAAG
1 GCTTCCTTTA-ACAGAGATTACCACAAAGGCTTCATTTAACAAAGATCATCACAAAG
* *
12922720 GTTTTCTTTAACAGAGATTACCACAAAGGCTTC
1 GCTTCCTTTAACAGAGATTACCACAAAGGCTTC
12922753 CCTTATAGAG
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
54 1 0.01
55 42 0.58
56 28 0.39
57 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (56 bp):
GCTTCCTTTAACAGAGATTACCACAAAGGCTTCATTTAACAAAGATCATCACAAAG
Found at i:12922809 original size:83 final size:82
Alignment explanation
Indices: 12922642--12922811 Score: 191
Period size: 83 Copynumber: 2.0 Consensus size: 82
12922632 TGAAGGCTTC
* *
12922642 CTTTAACAGAGATCATCACAAAGGCTTCCTTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA
1 CTTTAACAGAGATCACCACAAAGGCTTCCCTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA
* *
12922707 GATCGTTGCAAAGGTTTT
66 GATC-TTACAAAGGATTT
* * * * * *
12922725 CTTTAACAGAGATTACCACAAAGGCTTCCCTTATAGAGATTTCCATAAAGGGTTCCTTT-ACAAA
1 CTTTAACAGAGATCACCACAAAGGCTTCCCTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA
*
12922789 TAT-TTCCACAAAGGAATTT
66 GATCTT--ACAAAGG-ATTT
12922808 CTTT
1 CTTT
12922812 CTATAAGATT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
80 2 0.03
82 13 0.18
83 58 0.79
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (82 bp):
CTTTAACAGAGATCACCACAAAGGCTTCCCTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA
GATCTTACAAAGGATTT
Found at i:12923133 original size:52 final size:53
Alignment explanation
Indices: 12923070--12923215 Score: 186
Period size: 53 Copynumber: 2.8 Consensus size: 53
12923060 TTCCTTAAAT
* *
12923070 TTTCTCATATGATGCCATAACCCACCAATTATGATCTTACA-AATATGGTTTTC
1 TTTCT-ATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTC
* * * *
12923123 TTTCTATATGATGTCATAACCCACCAGTTACGGTCTTACACAGTATGGTCTTC
1 TTTCTATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTC
* ** *
12923176 TTTCCATAAAATCCCATAACCCACCAATTATGGTCTTACA
1 TTTCTATATGATGCCATAACCCACCAATTATGGTCTTACA
12923216 TGATATAGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 31 0.39
53 48 0.61
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (53 bp):
TTTCTATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTC
Found at i:12927313 original size:28 final size:28
Alignment explanation
Indices: 12927252--12927313 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12927242 CCTATTTAGT
*
12927252 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAATGTGGGCCTTAGCCCAA
* *
12927279 AATAGTAACAATGTGGGCCTTATCCCAA
1 AACAGTAACAATGTGGGCCTTAGCCCAA
*
12927307 TACAGTA
1 AACAGTA
12927314 TTTGTACAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
AACAGTAACAATGTGGGCCTTAGCCCAA
Found at i:12927697 original size:27 final size:26
Alignment explanation
Indices: 12927666--12927817 Score: 99
Period size: 27 Copynumber: 5.6 Consensus size: 26
12927656 CATCTCCTAG
12927666 GGGTATTATAGTCATTTTACCCTATTGA
1 GGGTATT-TAGTCATTTTACCCTA-TGA
* *
12927694 -GGTATTTCGATCATTTTATCCTATGA
1 GGGTATTTAG-TCATTTTACCCTATGA
* * *
12927720 GGGTAATTCAGTCATTTTACCCTGTGG
1 GGGT-ATTTAGTCATTTTACCCTATGA
** * * *
12927747 GGGTAATTCGGTCATTTTATCCTGTGG
1 GGGT-ATTTAGTCATTTTACCCTATGA
** * *
12927774 GGGTAATTCGGTTATTTTACCCTATGG
1 GGGT-ATTTAGTCATTTTACCCTATGA
*
12927801 GGGTAATTCAGTCATTT
1 GGGT-ATTTAGTCATTT
12927818 ATTGACCTCT
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.05
27 98 0.92
28 4 0.04
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (26 bp):
GGGTATTTAGTCATTTTACCCTATGA
Found at i:12927724 original size:54 final size:53
Alignment explanation
Indices: 12927666--12927817 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 53
12927656 CATCTCCTAG
* * *
12927666 GGGTATTATAGTCATTTTACCCTATTGAGGTATTTCGATCATTTTATCCTATGA
1 GGGTATT-CAGTCATTTTACCCTATGGAGGTAATTCGATCATTTTATCCTATGA
* * * * *
12927720 GGGTAATTCAGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTATCCTGTGG
1 GGGT-ATTCAGTCATTTTACCCTATGGAGGTAATTCGATCATTTTATCCTATGA
* * *
12927774 GGGTAATTCGGTTATTTTACCCTATGGGGGTAATTC-AGTCATTT
1 GGGT-ATTCAGTCATTTTACCCTATGGAGGTAATTCGA-TCATTT
12927818 ATTGACCTCT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 81 0.96
55 3 0.04
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (53 bp):
GGGTATTCAGTCATTTTACCCTATGGAGGTAATTCGATCATTTTATCCTATGA
Found at i:12928087 original size:20 final size:20
Alignment explanation
Indices: 12928062--12928104 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
12928052 GCGTATTTCA
12928062 GCCCAACGTGGCCCATTACG
1 GCCCAACGTGGCCCATTACG
*
12928082 GCCCAACGTGGCCTATTACG
1 GCCCAACGTGGCCCATTACG
12928102 GCC
1 GCC
12928105 TAAGCCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.40, G:0.26, T:0.16
Consensus pattern (20 bp):
GCCCAACGTGGCCCATTACG
Found at i:12930415 original size:11 final size:11
Alignment explanation
Indices: 12930399--12930424 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12930389 CGTTCTAAAG
12930399 CAACTTCACAT
1 CAACTTCACAT
12930410 CAACTTCACAT
1 CAACTTCACAT
12930421 CAAC
1 CAAC
12930425 ATCCCGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (11 bp):
CAACTTCACAT
Found at i:12930927 original size:39 final size:40
Alignment explanation
Indices: 12930812--12930941 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
12930802 CGCTTGGACA
* * *
12930812 AAAAACGCAGGTAAAAATCGAGCATTAGCGGCGCTTTATG
1 AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
* ** ** * *
12930852 GAAATTGCCACTAAAGATCGAGCATTAGTGGCGTTTTTTG
1 AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
* *
12930892 AAAAACGCCGGTAAAAAT-GGGCATTAGCGGCGTTTTTAG
1 AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
12930931 AAAAAACGCCG
1 -AAAAACGCCG
12930942 CAAAAAACCA
Statistics
Matches: 70, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 18 0.26
40 52 0.74
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG
Found at i:12930948 original size:40 final size:39
Alignment explanation
Indices: 12930873--12930948 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
12930863 TAAAGATCGA
* * **
12930873 GCATTAGTGGCGTTTTTTGAAAAACGCCGGTAAAAATGG
1 GCATTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAATGG
12930912 GCATTAGCGGCGTTTTTAGAAAAAACGCCGCAAAAAA
1 GCATTAGCGGCGTTTTTAG-AAAAACGCCGCAAAAAA
12930949 CCAAAGCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 17 0.53
40 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (39 bp):
GCATTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAATGG
Found at i:12931071 original size:42 final size:40
Alignment explanation
Indices: 12930982--12931100 Score: 175
Period size: 40 Copynumber: 2.9 Consensus size: 40
12930972 GTTACCTTTC
* * * *
12930982 GGGGCTTTAGCGGCGTTTTTGAAAAAACGCTGCTAATGTT
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCT
12931022 GAGGGCTTTAGCGGCGTTTTTTTGGAAAAGCGCCGCTAATGCT
1 G-GGGCTTTAGCGGCG--TTTTTGGAAAAGCGCCGCTAATGCT
12931065 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
12931101 AAATATTTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 22 0.31
41 14 0.19
42 14 0.19
43 22 0.31
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (40 bp):
GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCT
Found at i:12931439 original size:15 final size:15
Alignment explanation
Indices: 12931419--12931449 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12931409 ACTATTTTAA
12931419 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
12931434 GGTTTAGGGGGTATG
1 GGTTTAGGGAGTATG
12931449 G
1 G
12931450 ATTAGGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:12931521 original size:37 final size:36
Alignment explanation
Indices: 12931461--12931549 Score: 92
Period size: 37 Copynumber: 2.4 Consensus size: 36
12931451 TTAGGGTTTT
* * *
12931461 AGGGTTTAAGGGTTGAGATTTAAGGTTTAA-AGGTTAG
1 AGGGTTTAGGGGTT-AGAATTAAGGGTTAATA-GTTAG
12931498 AGGGTTTAGGGGTTAGACATTAAGGGTTAATAGTTAG
1 AGGGTTTAGGGGTTAGA-ATTAAGGGTTAATAGTTAG
* *
12931535 -GGATTTAGGGTTTAG
1 AGGGTTTAGGGGTTAG
12931550 GGATTCAGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 16 0.36
37 28 0.62
38 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.36, T:0.35
Consensus pattern (36 bp):
AGGGTTTAGGGGTTAGAATTAAGGGTTAATAGTTAG
Found at i:12931742 original size:15 final size:15
Alignment explanation
Indices: 12931722--12931752 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12931712 CATATTTTAA
12931722 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
12931737 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
12931752 G
1 G
12931753 ATTAGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:12931759 original size:14 final size:15
Alignment explanation
Indices: 12931725--12931764 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
12931715 ATTTTAAGGT
* *
12931725 TTAGGGAGTATGGGT
1 TTAGGGATTATGGGA
12931740 TTAGGGATTAT-GGA
1 TTAGGGATTATGGGA
12931754 TTAGGGATTAT
1 TTAGGGATTAT
12931765 TGTTTAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (15 bp):
TTAGGGATTATGGGA
Found at i:12932006 original size:276 final size:273
Alignment explanation
Indices: 12931546--12932075 Score: 812
Period size: 276 Copynumber: 1.9 Consensus size: 273
12931536 GATTTAGGGT
*
12931546 TTAGGGATTCAGGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTTA
1 TTAGGGATTCAGGGGTCGAGTTAGGATTTTGAGCGTTTAGATTAATTTTTTTAATTTATATTTTA
* * *
12931611 AATATGTTCTTATATAATTGAAAAGAGATGATAATAAATTTATTTAGGGTTTTAGTTTAGGGTAT
66 AATATGTTCTTATATAATTGAAAAGAGATAATAATAAATTCATTTAGGGTTTTAATTTAGGGTAT
* * * *
12931676 ATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGGTT
131 ATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATT
* * * *
12931741 TAGGGATTATGGATTAGGGATTATTGTTTAAGGGTTGGGATTTAAGGTTTAAGGGTTAGACGTAT
196 TAGGAATTATGGATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAAGGGTTAGACGTAT
12931806 TAGGGATTAAAAG
261 TAGGGATTAAAAG
* * *
12931819 TTAGGGATTTAGGGGTCGGGTTAGGGTTTT-AG-GTTTAGATTAATTATTTTTTTAATTTATATT
1 TTAGGGATTCAGGGGTCGAGTTAGGATTTTGAGCGTTTAGATT-A--ATTTTTTTAATTTATATT
* *
12931882 TTAAATATGTTCTTATATAATTGTAAAAGAGATAATAGTAAATTCGTTTAGGGTTTTTAATTTAG
63 TTAAATATGTTCTTATATAATTG-AAAAGAGATAATAATAAATTCATTTAGGG-TTTTAATTTAG
*
12931947 GGTATATAATTAATTTAAGATTTAAGGCTGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTAT
126 GGTATATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTAT
* * *
12932012 GGATTTATGAATTATGGATTAGGGATTATGGATTAAGGGTTTAGATTTAAGGTTTAGGGGTTAG
191 GGATTTAGGAATTATGGATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAAGGGTTAG
12932076 GGGTTTAGGG
Statistics
Matches: 231, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
271 9 0.04
272 2 0.01
273 27 0.12
274 41 0.18
275 25 0.11
276 127 0.55
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.43
Consensus pattern (273 bp):
TTAGGGATTCAGGGGTCGAGTTAGGATTTTGAGCGTTTAGATTAATTTTTTTAATTTATATTTTA
AATATGTTCTTATATAATTGAAAAGAGATAATAATAAATTCATTTAGGGTTTTAATTTAGGGTAT
ATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATT
TAGGAATTATGGATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAAGGGTTAGACGTAT
TAGGGATTAAAAG
Found at i:12932041 original size:14 final size:14
Alignment explanation
Indices: 12932001--12932046 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
12931991 ATTTTAAGGT
*
12932001 TTAGGGAGTATGGA
1 TTAGGGATTATGGA
* *
12932015 TTTATGAATTATGGA
1 -TTAGGGATTATGGA
12932030 TTAGGGATTATGGA
1 TTAGGGATTATGGA
12932044 TTA
1 TTA
12932047 AGGGTTTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:12932082 original size:15 final size:15
Alignment explanation
Indices: 12932062--12932090 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12932052 TTAGATTTAA
12932062 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
12932077 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
12932091 ACATTAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:12932772 original size:104 final size:103
Alignment explanation
Indices: 12932664--12932871 Score: 294
Period size: 103 Copynumber: 2.0 Consensus size: 103
12932654 AAATCAATTT
* *
12932664 ATAAA-AAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATA
1 ATAAATAAACAAAATAAAAAA-ATTT-GCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
*
12932728 ATTTTTTGTGGCG-TTTTTATGAAAAACGCCGCAAAAGATA
64 ATTTTTTGCGGCGATTTTTAT-AAAAACGCCGCAAAAGATA
* * * *
12932768 ATAAATCAATATATTAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAAT
1 ATAAATAAACAAAATAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAAT
* *
12932833 TTTTTGCGGCGATTTTTATTAAAACGCCTCAAAAGATA
66 TTTTTGCGGCGATTTTTATAAAAACGCCGCAAAAGATA
12932871 A
1 A
12932872 GCAATAGTGG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
103 67 0.72
104 15 0.16
105 11 0.12
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (103 bp):
ATAAATAAACAAAATAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAAT
TTTTTGCGGCGATTTTTATAAAAACGCCGCAAAAGATA
Found at i:12933052 original size:105 final size:105
Alignment explanation
Indices: 12932934--12933784 Score: 839
Period size: 106 Copynumber: 7.9 Consensus size: 105
12932924 AAAAGCAAAA
** ** *
12932934 TAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGGAAATGAAATAATTTTTTGTGGCGT
1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAATTTTTTGCGGCGT
* *
12932999 TTTTATGTAAAA-CGCCGCAAAAGATAATTAATCAATTTAT
65 TTTTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT
12933039 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTTTTCAAAATGAAATAATTTTTTTGCGGCG
1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCA-TTTTTTCAAAATGAAATAA-TTTTTTGCGGCG
* ** *
12933104 TTTTT-TATAAAAGCGCCGCAAAA-ATAAATCAATTTATAAAATAAAAAA
64 TTTTTATATAAAAGCGCCGCAAAAGAT-AAT-AA---AT-CAAT--TTAT
* * *
12933152 TAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTT
1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGCGTT
* ** *
12933217 TGTCATA-AAAAATGTCGCAAAAGATAATAAATCAATTTAT
66 T-TTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT
* *
12933257 T-AAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCAGCG
1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAA-TTTTTTGCGGCG
12933321 TTTTT-TATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT
64 TTTTTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT
* *
12933362 TAAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTATTCAAAACGAAATAATTTTTT-CTGGCG
1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAATTTTTTGC-GGCG
* * *** *
12933426 TTTTTTTATAAAAGCGCCGCAAAA-ATAAATCAATTTATAAAAAAACAA
64 TTTTTATATAAAAGCGCCGCAAAAGAT-AAT-AA---AT--CAATTTAT
* * *
12933474 TAAAAAAAATTTTAGCACAGTAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGT
1 TAAAAAAAA-TTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGCGT
*
12933539 TTTTCATA-AAAA-CGCCACAAAAGATAATAAATCAATTTATT
65 TTTT-ATATAAAAGCGCCGCAAAAGATAATAAATCAATTTA-T
* *
12933580 TTAAAAAAA-TTAGCATAGCAAAACGGCGTCATTTTATTCAAAACGAAATAATTTTTTTGCGGCG
1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAA-TTTTTTGCGGCG
* * * *** *
12933644 CTTTTT-TATAAAAGTGCTGCAAAA-ATAAATCAATTTATAAAAAAACA
64 -TTTTTATATAAAAGCGCCGCAAAAGAT-AAT-AA---ATCAATTTA-T
* * * * *
12933691 AAAGAAAAAATTTTTAGCACAGCAAAACGACGTCATTTTTTCAAAATGAAATAATTTTTTACGGT
1 TAA-AAAAAA--TTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGC
*
12933756 GTTTTTAT-TAAAAACGCCGCAAAAGATAA
63 GTTTTTATATAAAAGCGCCGCAAAAGATAA
12933785 GCAATAGCGG
Statistics
Matches: 623, Mismatches: 75, Indels: 89
0.79 0.10 0.11
Matches are distributed among these distances:
104 59 0.09
105 132 0.21
106 142 0.23
107 23 0.04
108 4 0.01
110 6 0.01
111 38 0.06
112 106 0.17
113 75 0.12
114 14 0.02
115 24 0.04
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (105 bp):
TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGCGTT
TTTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT
Found at i:12933307 original size:217 final size:217
Alignment explanation
Indices: 12932880--12933565 Score: 738
Period size: 217 Copynumber: 3.1 Consensus size: 217
12932870 AAGCAATAGT
* * *
12932880 GGCGTTTATTATAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAGCAAAATAAAAAATTTT
1 GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTAT-AAAAAA--AAAATAAAAAAATTT
* * * * **
12932945 TAGCATAGCAAAACGGCGTCATTTTGTTGGAAATGAAATAATTTTTTGTGGCGTTTTTATGTAAA
63 TAGCACAGCAAAACGGCGTCATTTTGTTGCAAATGAAATAATTTTTTGCGGCGTTTTCATAAAAA
*
12933010 ACGCCGCAAAAGATAATTAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT
128 ACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT
* *
12933075 TTTCAAAATGAAATAATTTTTTTGC
193 GTTCAAAACGAAATAATTTTTTTGC
12933100 GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAATAAAAAATAAAAAAATTTTA
1 GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAA-AAAAAATAAAAAAATTTTA
12933165 GCACAGCAAAACGGCGTCATTTT-TT-CAAACTGAAATAATTTTTTGCGGCGTTTGTCATAAAAA
65 GCACAGCAAAACGGCGTCATTTTGTTGCAAA-TGAAATAATTTTTTGCGGCGTTT-TCATAAAAA
* *
12933228 ATGTCGCAAAAGATAATAAATCAATTTATT-AAAAAAATTTAGCATAGCAAAACGGCGTCATTTT
128 ACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT
12933292 GTTCAAAACGAAATAATTTTTTTGC
193 GTTCAAAACGAAATAATTTTTTTGC
* * *** * *
12933317 AGCGTTTTTTATAAAAGCGCCGCAAAAGAT-AAT-AA---AT--CAATTTATTAAAAAAAATTTA
1 GGCGTTTTTTATAAAAGCGCCGCAAAA-ATAAATCAATTTATAAAAAAAAAATAAAAAAATTTTA
** * * **
12933375 GCTTAGCAAAACGGCGTCATTTTATT-CAAAACGAAATAATTTTTT-CTGGCGTTTTTTTATAAA
65 GCACAGCAAAACGGCGTCATTTTGTTGC-AAATGAAATAATTTTTTGC-GGCGTTTTCATA-AAA
* * *** * * *
12933438 AGCGCCGCAAAA-ATAAATCAATTTATAAAAAAACAATAAAAAAAATTTTAGCACAGTAAAACGG
127 AACGCCGCAAAAGAT-AAT-AA---AT--CAATTTATTAAAAAAAA-TTTAGCATAGCAAAACGG
12933502 CGTCATTTT-TTC-AAACTGAAATAA-TTTTTTGC
184 CGTCATTTTGTTCAAAAC-GAAATAATTTTTTTGC
* * *
12933534 GGCGTTTTTCATAAAAACGCCACAAAAGATAA
1 GGCGTTTTTTATAAAAGCGCCGCAAAA-ATAA
12933566 TAAATCAATT
Statistics
Matches: 407, Mismatches: 40, Indels: 40
0.84 0.08 0.08
Matches are distributed among these distances:
210 41 0.10
211 39 0.10
212 5 0.01
213 2 0.00
215 2 0.00
216 5 0.01
217 152 0.37
218 91 0.22
219 29 0.07
220 41 0.10
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (217 bp):
GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAAAATAAAAAAATTTTAG
CACAGCAAAACGGCGTCATTTTGTTGCAAATGAAATAATTTTTTGCGGCGTTTTCATAAAAAACG
CCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTT
CAAAACGAAATAATTTTTTTGC
Found at i:12933522 original size:323 final size:321
Alignment explanation
Indices: 12932934--12933688 Score: 1163
Period size: 323 Copynumber: 2.3 Consensus size: 321
12932924 AAAAGCAAAA
* ** *
12932934 TAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGGAAATGAAATAATTTTTTGTG-GCG
1 TAAAAAA-ATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTT-TGCGCG
* *
12932998 TTTTTATGTAAAA-CGCCGCAAAAGATAATTAATCAATTTATTAAAAAAAATTTAGCATAGCAAA
64 TTTTT-TATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAA
* *
12933062 ACGGCGTCATTTTTTTCAAAATGAAATAATTTTTTTGCGGCGTTTTTTATAAAAGCGCCGCAAAA
128 ACGGCGTCATTTTATTCAAAACGAAATAATTTTTTT-CGGCGTTTTTTATAAAAGCGCCGCAAAA
12933127 ATAAATCAATTTATAAAATAAAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCA
192 ATAAATCAATTTATAAAATAAAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCA
* * *
12933192 AACTGAAATAATTTTTTGCGGCGTTTGTCATAAAAAATGTCGCAAAAGATAATAAATCAATTTA-
257 AACTGAAATAATTTTTTGCGGCGTTTGTCAT-AAAAACGCCACAAAAGATAATAAATCAATTTAT
12933256 T
321 T
12933257 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCAGCGT
1 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGC-GCGT
*
12933322 TTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCTTAGCAAAAC
65 TTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAAC
12933387 GGCGTCATTTTATTCAAAACGAAATAA-TTTTTTCTGGCGTTTTTTTATAAAAGCGCCGCAAAAA
130 GGCGTCATTTTATTCAAAACGAAATAATTTTTTTC-GGCG-TTTTTTATAAAAGCGCCGCAAAAA
* *
12933451 TAAATCAATTTATAAAA-AAACAATAAAAAAAATTTTAGCACAGTAAAACGGCGTCATTTTTTCA
193 TAAATCAATTTATAAAATAAAAAAT-AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCA
*
12933515 AACTGAAATAATTTTTTGCGGCGTTTTTCATAAAAACGCCACAAAAGATAATAAATCAATTTATT
257 AACTGAAATAATTTTTTGCGGCGTTTGTCATAAAAACGCCACAAAAGATAATAAATCAATTTA-T
12933580 T
321 T
*
12933581 TAAAAAAA-TTAGCATAGCAAAACGGCGTCATTTTATTCAAAACGAAATAATTTTTTTGCGGCGC
1 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGC-GCG-
* *
12933645 TTTTTTATAAAAGTGCTGC--AA-A-AATAAATCAATTTA-TAAAAAAA
64 TTTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAA
12933689 CAAAAGAAAA
Statistics
Matches: 404, Mismatches: 19, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
319 8 0.02
320 14 0.03
321 4 0.01
322 99 0.25
323 253 0.63
324 26 0.06
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (321 bp):
TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGCGTT
TTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACG
GCGTCATTTTATTCAAAACGAAATAATTTTTTTCGGCGTTTTTTATAAAAGCGCCGCAAAAATAA
ATCAATTTATAAAATAAAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAACT
GAAATAATTTTTTGCGGCGTTTGTCATAAAAACGCCACAAAAGATAATAAATCAATTTATT
Found at i:12933781 original size:219 final size:216
Alignment explanation
Indices: 12933258--12933784 Score: 794
Period size: 219 Copynumber: 2.4 Consensus size: 216
12933248 TCAATTTATT
* *
12933258 AAAAAAA-TTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCAGCGT
1 AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAA-TTTTTTGC-G-GT
* *
12933322 -TTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCTTAGCAAAA
62 GTTTTTATAAAAACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAA
*
12933386 CGGCGTCATTTTATTCAAAACGAAATAATTTTTTCTGGCGTTTTTTTATAAAAGCGCCGCAAAAA
127 CGGCGTCATTTTATTCAAAACGAAATAATTTTTTCTGGCGCTTTTTTATAAAAGCGCCGCAAAAA
12933451 TAAATCAATTTATAAAAAAACAATA
192 TAAATCAATTTATAAAAAAACAATA
* * *
12933476 AAAAAAATTTTAGCACAGTAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTTT
1 AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGTGTTT
* *
12933541 TTCATAAAAACGCCACAAAAGATAATAAATCAATTTATTTTAAAAAAA-TTAGCATAGCAAAACG
66 TT-ATAAAAACGCCGCAAAAGATAATAAATCAATTTA-TTAAAAAAAATTTAGCATAGCAAAACG
* *
12933605 GCGTCATTTTATTCAAAACGAAATAATTTTTT-TGCGGCGCTTTTTTATAAAAGTGCTGCAAAAA
129 GCGTCATTTTATTCAAAACGAAATAATTTTTTCT--GGCGCTTTTTTATAAAAGCGCCGCAAAAA
12933669 TAAATCAATTTATAAAAAAACAA-A
192 TAAATCAATTTATAAAAAAACAATA
* *
12933693 AGAAAAAATTTTTAGCACAGCAAAACGACGTCATTTTTTCAAAATGAAATAATTTTTTACGGTGT
1 A-AAAAAA-TTTTAGCACAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGTGT
12933758 TTTTATTAAAAACGCCGCAAAAGATAA
64 TTTTA-TAAAAACGCCGCAAAAGATAA
12933785 GCAATAGCGG
Statistics
Matches: 282, Mismatches: 18, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
215 1 0.00
216 7 0.02
217 89 0.32
218 85 0.30
219 100 0.35
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (216 bp):
AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGTGTTT
TTATAAAAACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGC
GTCATTTTATTCAAAACGAAATAATTTTTTCTGGCGCTTTTTTATAAAAGCGCCGCAAAAATAAA
TCAATTTATAAAAAAACAATA
Found at i:12934021 original size:21 final size:21
Alignment explanation
Indices: 12933996--12934035 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12933986 CCTGCAATCT
12933996 TTTCCCCCC-TAAAATCCCTAA
1 TTTCCCCCCTTAAAA-CCCTAA
12934017 TTTCCCCCCTTAAAACCCT
1 TTTCCCCCCTTAAAACCCT
12934036 CAAGTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTCCCCCCTTAAAACCCTAA
Found at i:12937324 original size:43 final size:43
Alignment explanation
Indices: 12937261--12937588 Score: 399
Period size: 43 Copynumber: 7.6 Consensus size: 43
12937251 AAATATTTTT
* * * * *
12937261 TAAAGGTCATGTTTTTTAGCGGCGTTTTTGGGAAAAGCGTCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * * * *
12937304 AAAAGGTCTTGTTCTATAGCGGTGTTTGTGGAAAAAGTGTCGT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* **
12937347 TAAAAGGTGTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCTAC
1 T-AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
*
12937391 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT-AAAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * * *
12937433 TAAAGATTTTATTCTTTAGTGGCGTTTGT-GAAAGAAGCGCCGT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA-AAGCGCCGC
* * *
12937476 TAAATGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAACGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
12937519 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* *
12937562 TAAAGGTCTTATTCTTTAGCGGTGTTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTT
12937589 TTAGAAATAA
Statistics
Matches: 241, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
42 38 0.16
43 165 0.68
44 38 0.16
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
Done.