Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 151 of 193
Found at i:47093507 original size:20 final size:20
Alignment explanation
Indices: 47093468--47093508 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47093458 ACATTTTACA
*
47093468 AATAAAATATAATTATATTT
1 AATAAAATATAATTAAATTT
* *
47093488 AATAAAATTTAGTTAAATTT
1 AATAAAATATAATTAAATTT
47093508 A
1 A
47093509 TTTTTACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATAAAATATAATTAAATTT
Found at i:47098153 original size:13 final size:13
Alignment explanation
Indices: 47098135--47098164 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47098125 GAATGTGATG
47098135 TATTATATATATA
1 TATTATATATATA
*
47098148 TATTATGTATATA
1 TATTATATATATA
47098161 TATT
1 TATT
47098165 CAAATAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
TATTATATATATA
Found at i:47104972 original size:6 final size:6
Alignment explanation
Indices: 47104961--47104994 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
47104951 TTCATCATCC
47104961 GAATAT GAATAT GAATAT GAATAT GAATAT GAAT
1 GAATAT GAATAT GAATAT GAATAT GAATAT GAAT
47104995 TAATAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
GAATAT
Found at i:47108072 original size:2 final size:2
Alignment explanation
Indices: 47108065--47108100 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
47108055 AGTTACTCAT
*
47108065 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
47108101 CTTCTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:47108530 original size:16 final size:16
Alignment explanation
Indices: 47108509--47108548 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
47108499 CGTTTGGTTC
*
47108509 GCTGTAAT-AGAATAGG
1 GCTGTAATGA-AATAGA
47108525 GCTGTAATGAAATAGA
1 GCTGTAATGAAATAGA
47108541 GCTGTAAT
1 GCTGTAAT
47108549 CAATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:47109892 original size:26 final size:25
Alignment explanation
Indices: 47109863--47109945 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
47109853 TAAATATAAT
*
47109863 TTAATTATATTTTAACATAATTATTA
1 TTAATTACATTTTAA-ATAATTATTA
* * * * *
47109889 TTAAATACAATTTAATAAAATAATAA
1 TTAATTACATTTTAA-ATAATTATTA
*
47109915 TTTAATAACATTTTTAAATAATTATTA
1 -TTAATTACA-TTTTAAATAATTATTA
47109942 TTAA
1 TTAA
47109946 AATATGAATT
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
26 23 0.55
27 14 0.33
28 5 0.12
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATTACATTTTAAATAATTATTA
Found at i:47115568 original size:27 final size:27
Alignment explanation
Indices: 47115538--47115592 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47115528 TTCCCCTTTT
* * *
47115538 TTTATTCTTTTATATATATTTAAAAAA
1 TTTATTCATTTATATATAATAAAAAAA
*
47115565 TTTATTCATTTATGTATAATAAAAAAA
1 TTTATTCATTTATATATAATAAAAAAA
47115592 T
1 T
47115593 GTCAATGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (27 bp):
TTTATTCATTTATATATAATAAAAAAA
Found at i:47117115 original size:6 final size:6
Alignment explanation
Indices: 47117104--47117131 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47117094 TATGCATGTT
47117104 TGGCAA TGGCAA TGGCAA TGGCAA TGGC
1 TGGCAA TGGCAA TGGCAA TGGCAA TGGC
47117132 TGCTTTCGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.36, T:0.18
Consensus pattern (6 bp):
TGGCAA
Found at i:47117441 original size:29 final size:29
Alignment explanation
Indices: 47117366--47117452 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 29
47117356 TAAAAAAATC
** *
47117366 CATAAATATTTTTAAAAAATGTTTATTTT
1 CATAAATATTTTTAAAAAAAATCTATTTT
* *
47117395 CATAAATATTTTT--TAAAAACCTATTTT
1 CATAAATATTTTTAAAAAAAATCTATTTT
47117422 -AGTAAATATTTTTAAAAAAAAATCTATTTT
1 CA-TAAATATTTTT-AAAAAAAATCTATTTT
47117452 C
1 C
47117453 GAAAAAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
26 1 0.02
27 20 0.43
29 13 0.28
30 12 0.26
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (29 bp):
CATAAATATTTTTAAAAAAAATCTATTTT
Found at i:47117518 original size:43 final size:42
Alignment explanation
Indices: 47117460--47117542 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
47117450 TTCGAAAAAA
47117460 ATTTAAGAACACTTATTTCCATAAATATTTTCAAAAACGTCT
1 ATTTAAGAACACTTATTTCCATAAATATTTTCAAAAACGTCT
* * * * *
47117502 ATTTCAAGAACGCTTATTTTCGTAATTATTTTCAGAAACGT
1 ATTT-AAGAACACTTATTTCCATAAATATTTTCAAAAACGT
47117543 AATTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (42 bp):
ATTTAAGAACACTTATTTCCATAAATATTTTCAAAAACGTCT
Found at i:47123951 original size:13 final size:13
Alignment explanation
Indices: 47123935--47123983 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
47123925 TATTATATAT
47123935 AAATATATTTCTA
1 AAATATATTTCTA
47123948 AAATTATATTTCT-
1 AAA-TATATTTCTA
*
47123961 AAATATTATTTCCA
1 AAATA-TATTTCTA
47123975 AAATA-ATTT
1 AAATATATTT
47123984 AAATATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 6 0.19
13 12 0.38
14 14 0.44
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATATATTTCTA
Found at i:47129026 original size:20 final size:20
Alignment explanation
Indices: 47129003--47129045 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
47128993 AAAAATTATA
*
47129003 AAAAATTCATAATAATTTTC
1 AAAAATTCAAAATAATTTTC
47129023 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
47129043 AAA
1 AAA
47129046 TTTCTAAATA
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:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:47129069 original size:19 final size:19
Alignment explanation
Indices: 47129003--47129076 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
47128993 AAAAATTATA
47129003 AAAAATTC-ATAATAATTTT
1 AAAAATTCTA-AATAATTTT
*
47129022 CAAAAATTCAAAATAATTTT
1 -AAAAATTCTAAATAATTTT
* *
47129042 CAAATTTCTAAAT-ATTTAT
1 AAAAATTCTAAATAATTT-T
47129061 AAAAATTCTAAA-AATT
1 AAAAATTCTAAATAATT
47129077 ATAGATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.09
19 24 0.52
20 17 0.37
21 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCTAAATAATTTT
Found at i:47133536 original size:18 final size:18
Alignment explanation
Indices: 47133499--47133532 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47133489 TGATTGAATC
47133499 AAAAATTAGTTTTTTTTA
1 AAAAATTAGTTTTTTTTA
47133517 AAAAATT-GTTTTTTTT
1 AAAAATTAGTTTTTTTT
47133533 TAAATAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
AAAAATTAGTTTTTTTTA
Found at i:47136446 original size:9 final size:9
Alignment explanation
Indices: 47136427--47136459 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
47136417 CATTTAATTT
47136427 TTTTCTTTTA
1 TTTT-TTTTA
47136437 TTTTTTTTA
1 TTTTTTTTA
47136446 TTTTTTTTA
1 TTTTTTTTA
47136455 TTTTT
1 TTTTT
47136460 CATTTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:47146150 original size:70 final size:70
Alignment explanation
Indices: 47146027--47146158 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 70
47146017 AAAAATAATT
* * * * *
47146027 CTAATGAAAAAAATGTTTAAAAAAAATACTTTAAATGTAAATCCAAAATGTTATGTTTTTTTTAA
1 CTAATGAAAAAAACGTATAAAAAAAATACTTTAAATATAAATCCAAAAAGTTATGATTTTTTTAA
47146092 CAATA
66 CAATA
* * * *
47146097 CTAATGAAAACAACGTATGAAAAAAATACTTTAAATATAATTCTAAAAAGTTATGATTTTTT
1 CTAATGAAAAAAACGTATAAAAAAAATACTTTAAATATAAATCCAAAAAGTTATGATTTTTT
47146159 ATTTTAAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 53 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (70 bp):
CTAATGAAAAAAACGTATAAAAAAAATACTTTAAATATAAATCCAAAAAGTTATGATTTTTTTAA
CAATA
Found at i:47146624 original size:29 final size:29
Alignment explanation
Indices: 47146582--47146649 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
47146572 AAAAATTTGT
47146582 CACGTCAGCACCATTAGTCAACTAACGGC
1 CACGTCAGCACCATTAGTCAACTAACGGC
47146611 CACGTCAGCACCATTAGTCAACTAACGGC
1 CACGTCAGCACCATTAGTCAACTAACGGC
47146640 CACGTCAGCA
1 CACGTCAGCA
47146650 AGACTGTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.35, G:0.18, T:0.16
Consensus pattern (29 bp):
CACGTCAGCACCATTAGTCAACTAACGGC
Found at i:47149536 original size:16 final size:16
Alignment explanation
Indices: 47149515--47149548 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
47149505 ATATTCAATG
47149515 ATTTTATATATTTATA
1 ATTTTATATATTTATA
47149531 ATTTTATATATTTATA
1 ATTTTATATATTTATA
47149547 AT
1 AT
47149549 ATATTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTATATATTTATA
Found at i:47163143 original size:19 final size:19
Alignment explanation
Indices: 47163119--47163157 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47163109 GCTATTAGCG
*
47163119 TTGCTTTAAACCTTTCAAC
1 TTGCTTGAAACCTTTCAAC
**
47163138 TTGCTTGAAATGTTTCAAC
1 TTGCTTGAAACCTTTCAAC
47163157 T
1 T
47163158 AACTCATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (19 bp):
TTGCTTGAAACCTTTCAAC
Found at i:47172678 original size:41 final size:41
Alignment explanation
Indices: 47172623--47172716 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
47172613 ATTCATAGAA
* *
47172623 AATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACTAG
1 AATTATTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
*
47172664 AATTATTGTTAAGGTGGAGATTGTTAGAATTGGGTGATTAG
1 AATTATTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
*
47172705 AATTTTTGTTAA
1 AATTATTGTTAA
47172717 AATAAAATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (41 bp):
AATTATTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
Found at i:47184660 original size:22 final size:22
Alignment explanation
Indices: 47184634--47184678 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
47184624 TATAGAAGAA
47184634 GATTAATAAGAAAGACTTAAAT
1 GATTAATAAGAAAGACTTAAAT
*
47184656 GATTAATAAGAAAGACTTGAAT
1 GATTAATAAGAAAGACTTAAAT
47184678 G
1 G
47184679 TCTGGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (22 bp):
GATTAATAAGAAAGACTTAAAT
Found at i:47192746 original size:20 final size:20
Alignment explanation
Indices: 47192727--47192763 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47192717 AATTTTATTA
47192727 ATATTAA-ATAAAAATAATT
1 ATATTAATATAAAAATAATT
*
47192746 ATATTAATATTAAAATAA
1 ATATTAATATAAAAATAA
47192764 AAAAAACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATTAATATAAAAATAATT
Found at i:47192751 original size:25 final size:26
Alignment explanation
Indices: 47192717--47192766 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
47192707 CTTAAAATTA
*
47192717 AATTTTATTAATATT-AAATAAAAAT
1 AATTATATTAATATTAAAATAAAAAT
47192742 AATTATATTAATATTAAAATAAAAA
1 AATTATATTAATATTAAAATAAAAA
47192767 AAACTCTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTATATTAATATTAAAATAAAAAT
Found at i:47196351 original size:16 final size:18
Alignment explanation
Indices: 47196317--47196358 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
47196307 GAGAATTGTT
*
47196317 TAATATTTTAGAAATTTA
1 TAATTTTTTAGAAATTTA
47196335 TAATTTTTTA-AAA-TTA
1 TAATTTTTTAGAAATTTA
*
47196351 TTATTTTT
1 TAATTTTT
47196359 ATAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTTTTTAGAAATTTA
Found at i:47197606 original size:29 final size:29
Alignment explanation
Indices: 47197547--47197611 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
47197537 GCTTCATAGT
47197547 TCAAATTGGACCAAAATAAACTTTAAATA
1 TCAAATTGGACCAAAATAAACTTTAAATA
* * **
47197576 TCTAATTGGATCAAAATAAACTTTAGGTA
1 TCAAATTGGACCAAAATAAACTTTAAATA
47197605 TCAAATT
1 TCAAATT
47197612 AAACCTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (29 bp):
TCAAATTGGACCAAAATAAACTTTAAATA
Found at i:47197743 original size:49 final size:50
Alignment explanation
Indices: 47197668--47197769 Score: 170
Period size: 49 Copynumber: 2.0 Consensus size: 50
47197658 AGGTACCAAG
47197668 TTGAACATTGAAACCAAGTTCAAGTACCAAAATGTGTATTTACCCTTTTTTT
1 TTGAACATTGAAACC-A-TTCAAGTACCAAAATGTGTATTTACCCTTTTTTT
*
47197720 TTGAACATTGAAACC-TTCAAGTACCAAAATGTGTATTTAGCCTTTTTTT
1 TTGAACATTGAAACCATTCAAGTACCAAAATGTGTATTTACCCTTTTTTT
47197769 T
1 T
47197770 CCTTCTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
49 34 0.69
52 15 0.31
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (50 bp):
TTGAACATTGAAACCATTCAAGTACCAAAATGTGTATTTACCCTTTTTTT
Found at i:47198756 original size:31 final size:30
Alignment explanation
Indices: 47198707--47198773 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 30
47198697 ATTTACATTT
* *
47198707 CAGTCACTCAATTTTGAAAATTTGACAAAA
1 CAGTCCCTCAATTTTGAAAATATGACAAAA
47198737 CAGTCCCTCAACTTTTGAAAATATGACAAAA
1 CAGTCCCTCAA-TTTTGAAAATATGACAAAA
47198768 CAGTCC
1 CAGTCC
47198774 TTTTTCGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.27
Consensus pattern (30 bp):
CAGTCCCTCAATTTTGAAAATATGACAAAA
Found at i:47198849 original size:42 final size:42
Alignment explanation
Indices: 47198790--47198874 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
47198780 GTCATAGACA
47198790 TCACGAAACAGTGATGTGGCATGTGACGGCGTCGGAGGCGTG
1 TCACGAAACAGTGATGTGGCATGTGACGGCGTCGGAGGCGTG
47198832 TCACGAAACAGTGATGTGGCATGTGACGGCGTCGGAGGCGTG
1 TCACGAAACAGTGATGTGGCATGTGACGGCGTCGGAGGCGTG
47198874 T
1 T
47198875 GAAAATTTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.20
Consensus pattern (42 bp):
TCACGAAACAGTGATGTGGCATGTGACGGCGTCGGAGGCGTG
Found at i:47198969 original size:31 final size:30
Alignment explanation
Indices: 47198904--47198975 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
47198894 ATTACGTTTA
* ** *
47198904 ACAAAACAGTCACTCAACTTTGGAAATGTG
1 ACAAAACAGTCACTAAACTTTCAAAAAGTG
*
47198934 ACAAAACAGTCACTAAAGTTATCAAAAAGTG
1 ACAAAACAGTCACTAAACTT-TCAAAAAGTG
*
47198965 ACAAAATAGTC
1 ACAAAACAGTC
47198976 CTCTTGTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 18 0.51
31 17 0.49
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (30 bp):
ACAAAACAGTCACTAAACTTTCAAAAAGTG
Found at i:47200306 original size:30 final size:31
Alignment explanation
Indices: 47200242--47200311 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
47200232 ATAACAAGAG
*
47200242 GACTATTTTGTCACTTTTCGATAACTTTAGT
1 GACTATTTTGTCACTTTTCGATAACTTGAGT
*
47200273 GACTATTTTGTCACATTTTC-A-AAGTTGAGT
1 GACTATTTTGTCAC-TTTTCGATAACTTGAGT
*
47200303 GACTGTTTT
1 GACTATTTT
47200312 ATTACACGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 15 0.43
31 15 0.43
32 5 0.14
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (31 bp):
GACTATTTTGTCACTTTTCGATAACTTGAGT
Found at i:47201380 original size:2 final size:2
Alignment explanation
Indices: 47201373--47201425 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
47201363 TTAAAAATTG
47201373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
47201415 TA TT TA TA TA T
1 TA TA TA TA TA T
47201426 TTAAATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:47201993 original size:30 final size:29
Alignment explanation
Indices: 47201920--47202030 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 29
47201910 AATGTATAAA
*
47201920 AAAAAAATCTCGACTAGTTGAGTGACCAATTT
1 AAAAAAA-CTC-A-TAGTTGGGTGACCAATTT
47201952 AAAAAAA-TCATAGTTGGGTGACCAATTT
1 AAAAAAACTCATAGTTGGGTGACCAATTT
* * ***
47201980 AAAAAAACTTCATAATTGGATGACCAAAAA
1 AAAAAAAC-TCATAGTTGGGTGACCAATTT
47202010 AGAAAAAACTCATAGTTGGGT
1 A-AAAAAACTCATAGTTGGGT
47202031 AACCTATGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
28 24 0.35
29 1 0.01
30 29 0.43
31 7 0.10
32 7 0.10
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (29 bp):
AAAAAAACTCATAGTTGGGTGACCAATTT
Found at i:47203287 original size:42 final size:42
Alignment explanation
Indices: 47203240--47203323 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
47203230 AAAAAGAATT
* *
47203240 GTTTATGAGTGTTATTT-AGGAATAAAATTATATTTGGGTTTA
1 GTTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTA
*
47203282 GTTTATGAGTGTTTTTGAAGAATGAAATTATATTTGAGTTTA
1 GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTA
47203324 AAAATATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (42 bp):
GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTA
Found at i:47206375 original size:46 final size:46
Alignment explanation
Indices: 47206322--47206415 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
47206312 ATAAGATTAT
47206322 TTGCACAATTTGGTTGCCTTACTGCTAATCTCAATACAACAAATAA
1 TTGCACAATTTGGTTGCCTTACTGCTAATCTCAATACAACAAATAA
47206368 TTGCACAATTTGGTTGCCTTACTGCTAATCTCAATACAACAAATAA
1 TTGCACAATTTGGTTGCCTTACTGCTAATCTCAATACAACAAATAA
47206414 TT
1 TT
47206416 TAAATTCTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (46 bp):
TTGCACAATTTGGTTGCCTTACTGCTAATCTCAATACAACAAATAA
Found at i:47214864 original size:12 final size:13
Alignment explanation
Indices: 47214841--47214866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47214831 TTCAAAACCC
47214841 AAAATACAAAAAA
1 AAAATACAAAAAA
47214854 AAAATACAAAAAA
1 AAAATACAAAAAA
47214867 GAAAGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAATACAAAAAA
Found at i:47216852 original size:49 final size:48
Alignment explanation
Indices: 47216766--47217342 Score: 330
Period size: 49 Copynumber: 11.8 Consensus size: 48
47216756 CAAAGATATG
* * * * * *
47216766 GAGGGAAATATTTAAGCCGCAATGACGAATCC-AGTACCACAAGGATATA
1 GAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCAC-AGGACATA
* * * * **
47216815 GAGGGAAGGGTTTAAGTCGCAACGGCCAACCTTGTACCTCAAAAGCAT-
1 GAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACAGGA-CATA
* * * * * *
47216863 GAAGAGAAAAATTTAAGCCGCAACGGCGAATCC-AGTACCATGAGGACATG
1 G-AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCA-CAGGACATA
* * * * *
47216913 GAAGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCAT-
1 GAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACAGGA-CATA
* * *
47216961 GAAGGGAAAGATTTAAGCCGCAACGACGAATCC-AGTACCACGAGGACAT-
1 G-AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCAC-AGGACATA
* * * * * *
47217010 GAAAGAAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCAT-
1 G-AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACAGGA-CATA
* * * * * *
47217059 GAAGGGAAAGATTTAAGCCACAACGGTGAATCTAGTACCACGAGGACATG
1 G-AGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCAC-AGGACATA
* * * *
47217109 GAGGGAATGATTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACAT-
1 GAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACAG-GACATA
* * * * * *
47217157 GAAGGGAAAGATTTAATTCGCAACGGCGAATCC-AGTACCATGAAGATATG
1 G-AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCA-CAGGACATA
* * * *
47217207 GAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAACAT-
1 GAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACAG-GACATA
* * * * * *
47217255 GAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAT-TACCACGAAGATATG
1 G-AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCAC-AGGACATA
* * *
47217305 GAGGGAAAGGTTTAAGTCGCAACGGTGAACCTTATACC
1 GAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACC
47217343 TCAGAAACAT
Statistics
Matches: 403, Mismatches: 98, Indels: 54
0.73 0.18 0.10
Matches are distributed among these distances:
48 26 0.06
49 354 0.88
50 23 0.06
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.18
Consensus pattern (48 bp):
GAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACAGGACATA
Found at i:47216944 original size:98 final size:98
Alignment explanation
Indices: 47216767--47217385 Score: 835
Period size: 98 Copynumber: 6.3 Consensus size: 98
47216757 AAAGATATGG
* * * * * * *
47216767 AGGGAAATATTTAAGCCGCAATGACGAATCCAGTACCACAAGGATATAGAGGGAAGGGTTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
*
47216832 CGCAACGGCCAACCTTGTACCTCA-AAAGCATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAA-CATGA
* * * *
47216865 AGAGAAAAATTTAAGCCGCAACGGCGAATCCAGTACCATGAGGACATGGAAGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
* *
47216930 CGCAACGACGAACCTTGTACCTCAGAAGCATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * *
47216963 AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAGGACATGAAAGAAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
* *
47217028 CGCAACGACGAACCTTGTACCTCAGAAGCATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * * *
47217061 AGGGAAAGATTTAAGCCACAACGGTGAATCTAGTACCACGAGGACATGGAGGGAATGATTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
*
47217126 CGTAACGGCGAACCTTGTACCTCAGAAACATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
** * * *
47217159 AGGGAAAGATTTAATTCGCAACGGCGAATCCAGTACCATGAAGATATGGAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
*
47217224 CGCAACGGCAAACCTTGTACCTCAGAAACATGA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * *
47217257 AGGGAAAGATTTAAGCCGCAATGGCGAATCCATTACCACGAAGATATGGAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
* * *
47217322 CGCAACGGTGAACCTTATACCTCAGAAACATAA
66 CGCAACGGCGAACCTTGTACCTCAGAAACATGA
* * * *
47217355 ACGAAAAGATTGAGGCCGCAACGGCGAATCC
1 AGGGAAAGATTTAAGCCGCAACGGCGAATCC
47217386 GATACCATGA
Statistics
Matches: 463, Mismatches: 57, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
98 461 1.00
99 2 0.00
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (98 bp):
AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAGGACATGGAGGGAAAGGTTTAAGT
CGCAACGGCGAACCTTGTACCTCAGAAACATGA
Found at i:47224567 original size:38 final size:38
Alignment explanation
Indices: 47224525--47224601 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
47224515 GCTTAAACCC
*
47224525 AATCTACTATTACACAAAGGAGTAACTGCAACCCTAAT
1 AATCTACCATTACACAAAGGAGTAACTGCAACCCTAAT
* *
47224563 AATCTACCCTTACACAAAGGAGTAATTGCAACCCTAAT
1 AATCTACCATTACACAAAGGAGTAACTGCAACCCTAAT
47224601 A
1 A
47224602 CCTACTCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (38 bp):
AATCTACCATTACACAAAGGAGTAACTGCAACCCTAAT
Found at i:47227500 original size:10 final size:10
Alignment explanation
Indices: 47227485--47227517 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
47227475 TTATCAACCA
47227485 AATTTTAAAT
1 AATTTTAAAT
47227495 AATTTTAAA-
1 AATTTTAAAT
47227504 AATTTTAAAAT
1 AATTTT-AAAT
47227515 AAT
1 AAT
47227518 ATAATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 12 0.57
11 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AATTTTAAAT
Found at i:47227509 original size:9 final size:9
Alignment explanation
Indices: 47227484--47227513 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
47227474 ATTATCAACC
47227484 AAATTTTAA
1 AAATTTTAA
47227493 ATAATTTTAA
1 A-AATTTTAA
47227503 AAATTTTAA
1 AAATTTTAA
47227512 AA
1 AA
47227514 TAATATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATTTTAA
Found at i:47236240 original size:2 final size:2
Alignment explanation
Indices: 47236233--47236258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47236223 ATATTGTTGA
47236233 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47236259 CACCATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47236850 original size:14 final size:14
Alignment explanation
Indices: 47236821--47236859 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
47236811 ACATTATATC
*
47236821 AAAAATAATCTTTAT
1 AAAAA-AATATTTAT
*
47236836 ATAAAAATATTTAT
1 AAAAAAATATTTAT
47236850 AAAAAAATAT
1 AAAAAAATAT
47236860 GGAGAGATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAAAATATTTAT
Found at i:47239337 original size:19 final size:19
Alignment explanation
Indices: 47239288--47239338 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
47239278 ACATTTATAT
* * *
47239288 TAACAATATTCT-CAAATG
1 TAACAATATACTAAAAATA
* *
47239306 TAACATTAAACTAAAAATA
1 TAACAATATACTAAAAATA
47239325 TAACAATATACTAA
1 TAACAATATACTAA
47239339 TCTTTACACT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (19 bp):
TAACAATATACTAAAAATA
Found at i:47242089 original size:21 final size:22
Alignment explanation
Indices: 47242063--47242104 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47242053 TATATATATA
47242063 TTAAAT-AG-GATTAATTAAAGG
1 TTAAATAAGAGATTAA-TAAAGG
47242084 TTAAATAAGAGATTAATAAAG
1 TTAAATAAGAGATTAATAAAG
47242105 CTAATTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (22 bp):
TTAAATAAGAGATTAATAAAGG
Found at i:47246468 original size:41 final size:40
Alignment explanation
Indices: 47246420--47246520 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
47246410 TCGACCTCGA
** *
47246420 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
47246460 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
47246498 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
47246521 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:47248006 original size:150 final size:150
Alignment explanation
Indices: 47247730--47248039 Score: 602
Period size: 150 Copynumber: 2.1 Consensus size: 150
47247720 ATTACAACTG
* *
47247730 AGTGATTATAAATAAGGGGAATGCCTTTATTTATAGTTAAGCTCTCCTAGATCCAATGGTATAGA
1 AGTGTTTATAAATAAGAGGAATGCCTTTATTTATAGTTAAGCTCTCCTAGATCCAATGGTATAGA
47247795 TCAAATTACATCAACGGCTTAGATTTGTGTCTATCCACAATATGAGAGTCTTAAGGAACTTAAAC
66 TCAAATTACATCAACGGCTTAGATTTGTGTCTATCCACAATATGAGAGTCTTAAGGAACTTAAAC
47247860 TCTATATGATCTTATCCCTT
131 TCTATATGATCTTATCCCTT
47247880 AGTGTTTATAAATAAGAGGAATGCCTTTATTTATAGTTAAGCTCTCCTAGATCCAATGGTATAGA
1 AGTGTTTATAAATAAGAGGAATGCCTTTATTTATAGTTAAGCTCTCCTAGATCCAATGGTATAGA
47247945 TCAAATTACATCAACGGCTTAGATTTGTGTCTATCCACAATATGAGAGTCTTAAGGAACTTAAAC
66 TCAAATTACATCAACGGCTTAGATTTGTGTCTATCCACAATATGAGAGTCTTAAGGAACTTAAAC
47248010 TCTATATGATCTTATCCCTT
131 TCTATATGATCTTATCCCTT
47248030 AGTGTTTATA
1 AGTGTTTATA
47248040 TAAATCGTGG
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 158 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (150 bp):
AGTGTTTATAAATAAGAGGAATGCCTTTATTTATAGTTAAGCTCTCCTAGATCCAATGGTATAGA
TCAAATTACATCAACGGCTTAGATTTGTGTCTATCCACAATATGAGAGTCTTAAGGAACTTAAAC
TCTATATGATCTTATCCCTT
Found at i:47254705 original size:16 final size:17
Alignment explanation
Indices: 47254684--47254717 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47254674 GATAAAAACA
*
47254684 TAAAAAAT-TATAATTT
1 TAAAAAATATAAAATTT
47254700 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
47254717 T
1 T
47254718 TGTTGTCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAAAATATAAAATTT
Found at i:47255107 original size:5 final size:5
Alignment explanation
Indices: 47255097--47255125 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
47255087 AAGTGTTGTA
47255097 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
47255126 AAAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:47263470 original size:23 final size:23
Alignment explanation
Indices: 47263443--47263488 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47263433 TAAATTATTG
47263443 AAATACATTTAA-TATTATAAATT
1 AAATACATTTAATTATT-TAAATT
*
47263466 AAATATATTTAATTATTTAAATT
1 AAATACATTTAATTATTTAAATT
47263489 TTATTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATACATTTAATTATTTAAATT
Found at i:47266504 original size:242 final size:241
Alignment explanation
Indices: 47266075--47266534 Score: 823
Period size: 242 Copynumber: 1.9 Consensus size: 241
47266065 TTCCCAATAT
47266075 GATGATCACATGGTAGGAGTTTTGTTTAAGATGAAAGTCCTAGTTGAGGATAAACTCTTACATAG
1 GATGATCACATGGTAGGAGTTTTGTTTAAGATGAAAGTCCTAGTTGAGGATAAACTCTTACATAG
*
47266140 AGGTGCTCATGACCGGGCCATTCTAAACATGATATTAATATACTCTAATTGTATATATTTTTTAT
66 AGGTGCTCATGACCGGGCAATTCTAAACATGATATTAATATACTCTAATTGTATATATTTTTTAT
* *
47266205 TTATTGAAAATTTTTATATAGTCATCTTAACATTATTTGGATGTTTACATTAGAGTAATGTTATG
131 TTATTGAAAATTTTTATATAGTCATCTTAACATTATTTGGATATTTACATTAGAGTAATATTATG
47266270 AATTTAGTATAGGTTTATTTTTATATAGTCATCGTAACATTATTTG
196 AATTTAGTATAGGTTTATTTTTATATAGTCATCGTAACATTATTTG
*
47266316 GATGTTCACATGGT-GGTAGTTTTGTTTAAGATGAAAGTCCTAGTTGAGGATAAACTCTTACATA
1 GATGATCACATGGTAGG-AGTTTTGTTTAAGATGAAAGTCCTAGTTGAGGATAAACTCTTACATA
*
47266380 GAGGTGCTCATGACCGGGTCAATTCTAAACATGATATTAATATACTCTAGTTGTATATATTTTTT
65 GAGGTGCTCATGACCGGG-CAATTCTAAACATGATATTAATATACTCTAATTGTATATATTTTTT
*
47266445 ATTTATTGAAAATTTTTATATAGTCATCTTAATATTATTTGGATATTTACATTAGAGTAATATTA
129 ATTTATTGAAAATTTTTATATAGTCATCTTAACATTATTTGGATATTTACATTAGAGTAATATTA
* *
47266510 TGAATTTAGTATAGTTTTTTTTTTA
194 TGAATTTAGTATAGGTTTATTTTTA
47266535 ATGTGTTGTA
Statistics
Matches: 209, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
240 2 0.01
241 78 0.37
242 129 0.62
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (241 bp):
GATGATCACATGGTAGGAGTTTTGTTTAAGATGAAAGTCCTAGTTGAGGATAAACTCTTACATAG
AGGTGCTCATGACCGGGCAATTCTAAACATGATATTAATATACTCTAATTGTATATATTTTTTAT
TTATTGAAAATTTTTATATAGTCATCTTAACATTATTTGGATATTTACATTAGAGTAATATTATG
AATTTAGTATAGGTTTATTTTTATATAGTCATCGTAACATTATTTG
Found at i:47273883 original size:24 final size:26
Alignment explanation
Indices: 47273841--47273888 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
47273831 ATAAGGGTAA
*
47273841 TTTATAATTTAATATTATAAAAATAT
1 TTTATAATTAAATATTATAAAAATAT
*
47273867 TTTA-AATTAAATA-TATACAAAT
1 TTTATAATTAAATATTATAAAAAT
47273889 TTTGAAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 8 0.40
26 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTATAATTAAATATTATAAAAATAT
Found at i:47274385 original size:24 final size:22
Alignment explanation
Indices: 47274337--47274380 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
47274327 TCATTAAAAA
* *
47274337 AATATTGATATGTTTTTTTAAT
1 AATATTGATATATTTTTTAAAT
47274359 AATATTGATATATTTTTTAAAT
1 AATATTGATATATTTTTTAAAT
47274381 CTAATGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
AATATTGATATATTTTTTAAAT
Found at i:47276905 original size:24 final size:24
Alignment explanation
Indices: 47276877--47276938 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
47276867 GGAGATAATC
***
47276877 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAGTTAAACTCCATTTATTTG
*
47276901 TTTCAATTAAACTCCATTTATTTG
1 TTTCAGTTAAACTCCATTTATTTG
* *
47276925 TTTGAGTCAAACTC
1 TTTCAGTTAAACTC
47276939 TTATTAGTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.50
Consensus pattern (24 bp):
TTTCAGTTAAACTCCATTTATTTG
Found at i:47278882 original size:24 final size:24
Alignment explanation
Indices: 47278855--47278929 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
47278845 AGAAATAATC
*
47278855 TTTCGATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
*
47278879 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
*
47278903 TTTCAATTAAACTCCATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
47278927 TTT
1 TTT
47278930 GAGTCAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:47280233 original size:106 final size:106
Alignment explanation
Indices: 47279950--47280258 Score: 381
Period size: 105 Copynumber: 2.9 Consensus size: 106
47279940 TGATATGCGA
* * * * *
47279950 TATCAATGGTAGTAAAGAAAAAGGGGTCAAGTCTTCTAGTCCA-AGAGTAGAGAGGAAGAAGAAA
1 TATCAATGGTAGTGAAGAAAGAGGGGACAAGTCTTCTGGTCTAGA-AGTAGAGAGGAAGAAGAAA
* * * *
47280014 ATCCAAATCGGGTCTCTTTCAATACTGTCCCTTTCCCCGCGG
65 ATTCAAATCGAGTCTCTTTCAATACCGTCCCTTTCCCCACGG
* * * * *
47280056 TATCAACGGTAGTGAAGAAAGA-GGGACGAGTCTGCTGGTCTAGGAGTAGAGAGGAAGAAGACAA
1 TATCAATGGTAGTGAAGAAAGAGGGGACAAGTCTTCTGGTCTAGAAGTAGAGAGGAAGAAGAAAA
* * **
47280120 -TCTAAATCGAGTCTATTTCAATTCCGTCCCTTTCTTCACGG
66 TTC-AAATCGAGTCTCTTTCAATACCGTCCCTTTCCCCACGG
* *
47280161 TATCAATGGTAATGAAGAAAGAGGGGACAAGTCTTCTGGTCTAGAAGTAGAGAGGAAGAAGATAA
1 TATCAATGGTAGTGAAGAAAGAGGGGACAAGTCTTCTGGTCTAGAAGTAGAGAGGAAGAAGAAAA
* *
47280226 TTCAAATCGAGTCTCTTTCAGTACTGTCCCTTT
66 TTCAAATCGAGTCTCTTTCAATACCGTCCCTTT
47280259 TCCCTCCTCC
Statistics
Matches: 171, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
104 1 0.01
105 85 0.50
106 83 0.49
107 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (106 bp):
TATCAATGGTAGTGAAGAAAGAGGGGACAAGTCTTCTGGTCTAGAAGTAGAGAGGAAGAAGAAAA
TTCAAATCGAGTCTCTTTCAATACCGTCCCTTTCCCCACGG
Found at i:47280812 original size:2 final size:2
Alignment explanation
Indices: 47280807--47280831 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47280797 ATCCCATCCA
47280807 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
47280832 TTCATTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:47282431 original size:91 final size:91
Alignment explanation
Indices: 47282276--47282456 Score: 274
Period size: 91 Copynumber: 2.0 Consensus size: 91
47282266 ATTGAGTTTC
* * ** * *
47282276 ATATGATAATGGCTTCTTGCTTTCTTCCCCATGTTTATTTTCTTCTTATTTATACTGATTTTTAA
1 ATATGATAATGGCCTCTTGCTTTCTCCCCCATCATTATTTGCTTCTTATCTATACTGATTTTTAA
47282341 TAGTTAA-TATTTTTGTAGATATTTTG
66 TAGTTAACT-TTTTTGTAGATATTTTG
*
47282367 ATATGATAATGGCCTCTTGCTTTCTCCCCCCTCATTATTTGCTTCTTATCTATACTGATTTTTAA
1 ATATGATAATGGCCTCTTGCTTTCTCCCCCATCATTATTTGCTTCTTATCTATACTGATTTTTAA
*
47282432 TAGTTAACTTTTTTGTAGATGTTTT
66 TAGTTAACTTTTTTGTAGATATTTT
47282457 CACTTTAATC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 80 0.99
92 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.52
Consensus pattern (91 bp):
ATATGATAATGGCCTCTTGCTTTCTCCCCCATCATTATTTGCTTCTTATCTATACTGATTTTTAA
TAGTTAACTTTTTTGTAGATATTTTG
Found at i:47313216 original size:3 final size:3
Alignment explanation
Indices: 47313196--47313262 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
47313186 CCCTATCCAC
* * * * *
47313196 GTT GCT GTT GTT -TAT GTT GTT GTT GCT GTT GTG GTG GTT GTT GCT
1 GTT GTT GTT GTT GT-T GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
*
47313241 GTT GTG GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT G
47313263 GAGGTGGTGG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.02
3 50 0.96
4 1 0.02
ACGTcount: A:0.01, C:0.04, G:0.37, T:0.57
Consensus pattern (3 bp):
GTT
Found at i:47313225 original size:18 final size:18
Alignment explanation
Indices: 47313211--47313262 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
47313201 TGTTGTTTAT
47313211 GTTGTTGTTGCTGTTGTG
1 GTTGTTGTTGCTGTTGTG
*
47313229 GTGGTTGTTGCTGTTGTG
1 GTTGTTGTTGCTGTTGTG
*
47313247 GTTGTTGTTGTTGTTG
1 GTTGTTGTTGCTGTTG
47313263 GAGGTGGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.00, C:0.04, G:0.40, T:0.56
Consensus pattern (18 bp):
GTTGTTGTTGCTGTTGTG
Found at i:47313271 original size:3 final size:3
Alignment explanation
Indices: 47313265--47313299 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
47313255 TGTTGTTGGA
*
47313265 GGT GGT GGT GGT GGT GGT GGT GGT -GT CGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
47313300 TGAGGTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.03, G:0.63, T:0.34
Consensus pattern (3 bp):
GGT
Found at i:47319501 original size:15 final size:15
Alignment explanation
Indices: 47319477--47319510 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47319467 GCATTGTTGG
47319477 TGGTAATGTTTTGAC
1 TGGTAATGTTTTGAC
* *
47319492 TGGTAGTGTTTTGAG
1 TGGTAATGTTTTGAC
47319507 TGGT
1 TGGT
47319511 TGAACCTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.35, T:0.47
Consensus pattern (15 bp):
TGGTAATGTTTTGAC
Found at i:47319802 original size:23 final size:23
Alignment explanation
Indices: 47319776--47319820 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47319766 ATATTTGAAT
**
47319776 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
47319799 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
47319821 GATTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:47320118 original size:42 final size:42
Alignment explanation
Indices: 47320059--47320141 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
47320049 CAAATATTTT
**
47320059 TAAACCCAAATATAATTTCATTTTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAAC
*
47320101 TAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAA
1 TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAA
47320142 AAATTCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:47322307 original size:33 final size:34
Alignment explanation
Indices: 47322260--47322323 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
47322250 AATTATATTT
*
47322260 AATAATAATTTTATTATAAATTAAT-AACAATAAC
1 AATAATAATTTTATT-TAAAATAATGAACAATAAC
*
47322294 AATAATCA-TTTATTTAAAATAATGAACAAT
1 AATAATAATTTTATTTAAAATAATGAACAAT
47322324 GATTCTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 12 0.44
34 7 0.26
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (34 bp):
AATAATAATTTTATTTAAAATAATGAACAATAAC
Found at i:47323701 original size:6 final size:6
Alignment explanation
Indices: 47323690--47323718 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47323680 CTCTCCTACT
47323690 CAATTA CAATTA CAATTA CAATTA CAATT
1 CAATTA CAATTA CAATTA CAATTA CAATT
47323719 GACCCTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
CAATTA
Found at i:47326598 original size:99 final size:99
Alignment explanation
Indices: 47326445--47326623 Score: 304
Period size: 99 Copynumber: 1.8 Consensus size: 99
47326435 TGTTGCCGTC
* * **
47326445 GGTGTTAGGGACAGCTGTTGCGGTGACATCAGTGTTGTTCACAGCAGCCCTATCCAGGTTGTTGT
1 GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCACAGCAGCCCTATCCACATTGTTGT
47326510 CGTTTTTGTTGTTGTTGTGGTGGTGGTGGTCGTT
66 CGTTTTTGTTGTTGTTGTGGTGGTGGTGGTCGTT
*
47326544 GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCTCAGCAGCCCTATCCACATTGTTGT
1 GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCACAGCAGCCCTATCCACATTGTTGT
*
47326609 CGTTTTTTTTGTTGT
66 CGTTTTTGTTGTTGT
47326624 CGTTGTCGTG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.13, C:0.17, G:0.31, T:0.39
Consensus pattern (99 bp):
GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCACAGCAGCCCTATCCACATTGTTGT
CGTTTTTGTTGTTGTTGTGGTGGTGGTGGTCGTT
Found at i:47326646 original size:99 final size:99
Alignment explanation
Indices: 47326445--47326646 Score: 296
Period size: 99 Copynumber: 2.0 Consensus size: 99
47326435 TGTTGCCGTC
* * **
47326445 GGTGTTAGGGACAGCTGTTGCGGTGACATCAGTGTTGTTCACAGCAGCCCTATCCAGGTTGTTGT
1 GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCACAGCAGCCCTATCCACATTGTTGT
* * *
47326510 CGTTTTTGTTGTTGTTGTGGTGGTGGTGGTCGTT
66 CGTTTTTGTTGTTGTCGTGGTCGTGGTGGTCGCT
*
47326544 GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCTCAGCAGCCCTATCCACATTGTTGT
1 GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCACAGCAGCCCTATCCACATTGTTGT
* * * *
47326609 CGTTTTTTTTGTTGTCGTTGTCGTGGTTGTTGCT
66 CGTTTTTGTTGTTGTCGTGGTCGTGGTGGTCGCT
47326643 GGTG
1 GGTG
47326647 GTGTTGTTGT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.11, C:0.17, G:0.33, T:0.39
Consensus pattern (99 bp):
GGTGTTAGGGACAGCTGTTGCAGTGACATCAGTGTCGTTCACAGCAGCCCTATCCACATTGTTGT
CGTTTTTGTTGTTGTCGTGGTCGTGGTGGTCGCT
Found at i:47327453 original size:20 final size:19
Alignment explanation
Indices: 47327398--47327455 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
47327388 ATTATTGAGG
47327398 AAGAGA-GAATCAGAGAAA
1 AAGAGAGGAATCAGAGAAA
**
47327416 AGAGGAGAGGAAGAAGAGAGAA
1 A-A-GAGAGGAATCAGAGA-AA
47327438 AAGAGAGGAATCAGAGAA
1 AAGAGAGGAATCAGAGAA
47327456 CCGTTCCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 17 0.53
21 9 0.28
22 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.36, T:0.03
Consensus pattern (19 bp):
AAGAGAGGAATCAGAGAAA
Found at i:47328735 original size:26 final size:25
Alignment explanation
Indices: 47328700--47328751 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
47328690 GAATTTGACA
47328700 TTTTTTTTAATTT-AGTATCTAAATT
1 TTTTTTTTAATTTGA-TATCTAAATT
*
47328725 TTTTTATTTAATTTGATATTTAAATT
1 TTTTT-TTTAATTTGATATCTAAATT
47328751 T
1 T
47328752 GATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 5 0.21
26 18 0.75
27 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTTTTTAATTTGATATCTAAATT
Found at i:47328746 original size:12 final size:13
Alignment explanation
Indices: 47328729--47328758 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
47328719 TAAATTTTTT
47328729 TATTT-AATTTGA
1 TATTTAAATTTGA
47328741 TATTTAAATTTGA
1 TATTTAAATTTGA
47328754 TATTT
1 TATTT
47328759 TTTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (13 bp):
TATTTAAATTTGA
Found at i:47329091 original size:32 final size:30
Alignment explanation
Indices: 47329055--47329161 Score: 92
Period size: 32 Copynumber: 3.5 Consensus size: 30
47329045 CTTAGGTGCT
* *
47329055 AAATTAGGAAAAAAATGCCAAATTTAGGCATC
1 AAATTAGGAAAAAAAT--CAAGTTTAGGTATC
* ** *
47329087 AAATTGGGTCAAAAA--AAGTTTAGGTACC
1 AAATTAGGAAAAAAATCAAGTTTAGGTATC
47329115 AAATTAGGAAAAAAATATCAAGTTTAGGTATC
1 AAATTAGG-AAAAAA-ATCAAGTTTAGGTATC
*
47329147 AAATTGAGTAAAAAA
1 AAATT-AGGAAAAAA
47329162 GATTTAAGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
28 17 0.29
29 4 0.07
30 1 0.02
32 35 0.59
33 2 0.03
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.24
Consensus pattern (30 bp):
AAATTAGGAAAAAAATCAAGTTTAGGTATC
Found at i:47329122 original size:60 final size:59
Alignment explanation
Indices: 47329037--47329161 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 59
47329027 ATTGAATCTA
* * * *
47329037 AAAAAAAGCTTAGGTGCTAAATTAGGAAAAAAATGCCAAATTTAGGCATCAAATTGGGT
1 AAAAAAAGCTTAGGTACCAAATTAGGAAAAAAATACCAAATTTAGGCATCAAATTGAGT
* * * *
47329096 CAAAAAAAGTTTAGGTACCAAATTAGGAAAAAAATATCAAGTTTAGGTATCAAATTGAGT
1 -AAAAAAAGCTTAGGTACCAAATTAGGAAAAAAATACCAAATTTAGGCATCAAATTGAGT
47329156 AAAAAA
1 AAAAAA
47329162 GATTTAAGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 6 0.11
60 51 0.89
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.24
Consensus pattern (59 bp):
AAAAAAAGCTTAGGTACCAAATTAGGAAAAAAATACCAAATTTAGGCATCAAATTGAGT
Found at i:47329208 original size:58 final size:58
Alignment explanation
Indices: 47329098--47329208 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
47329088 AATTGGGTCA
* * * * * *
47329098 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATATCAAGTTTAGGTATCAAATTGAGT
1 AAAAAAGTTTAAGTACCAAACTAAGAAAAAAATATCAAGTTCAGATACCAAATTGAGT
* *
47329156 AAAAAAGATTTAAGTATCAAACTAAG-AAAAAGTATCAAGTTCAGATACCAAAT
1 AAAAAAG-TTTAAGTACCAAACTAAGAAAAAAATATCAAGTTCAGATACCAAAT
47329209 ATCATATTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
58 30 0.68
59 14 0.32
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.25
Consensus pattern (58 bp):
AAAAAAGTTTAAGTACCAAACTAAGAAAAAAATATCAAGTTCAGATACCAAATTGAGT
Found at i:47330005 original size:19 final size:19
Alignment explanation
Indices: 47329983--47330032 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
47329973 CTTTATAAAT
47329983 AATATATATATTTAAATTA
1 AATATATATATTTAAATTA
* *
47330002 AATA-ATACAATATAAATTA
1 AATATATA-TATTTAAATTA
47330021 AA-AT-TATATTTA
1 AATATATATATTTA
47330033 CACTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATATATATTTAAATTA
Found at i:47330052 original size:29 final size:30
Alignment explanation
Indices: 47330019--47330089 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
47330009 CAATATAAAT
47330019 TAAAATTATATTTACACTAAAA-TAAATTA
1 TAAAATTATATTTACACTAAAATTAAATTA
* ** *
47330048 TAAAATTTTATTTTTATTAAAATTAAATTA
1 TAAAATTATATTTACACTAAAATTAAATTA
47330078 TAAAA--ATATTTA
1 TAAAATTATATTTA
47330090 TATTATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
28 5 0.14
29 18 0.51
30 12 0.34
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TAAAATTATATTTACACTAAAATTAAATTA
Found at i:47335742 original size:18 final size:21
Alignment explanation
Indices: 47335704--47335742 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47335694 AATAATATAA
47335704 ATAATATATATAAATAAAATT
1 ATAATATATATAAATAAAATT
47335725 ATAATAT-T-TAAA-AAAATT
1 ATAATATATATAAATAAAATT
47335743 TGAGGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 1 0.06
21 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATATATATAAATAAAATT
Found at i:47335958 original size:18 final size:18
Alignment explanation
Indices: 47335935--47335970 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47335925 TTTTTTTCTT
*
47335935 TTAAAGTTTAAATCTAAA
1 TTAAAGGTTAAATCTAAA
*
47335953 TTAAAGGTTAAATTTAAA
1 TTAAAGGTTAAATCTAAA
47335971 ATTGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAAAGGTTAAATCTAAA
Found at i:47336747 original size:9 final size:9
Alignment explanation
Indices: 47336735--47336796 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
47336725 TAATAAGTGT
47336735 TATTAATAA
1 TATTAATAA
47336744 TATTAATAA
1 TATTAATAA
*
47336753 TAATAAGTATAA
1 T-ATTA--ATAA
*
47336765 CATTAATAA
1 TATTAATAA
*
47336774 CCATTAATAA
1 -TATTAATAA
*
47336784 TATTGATAA
1 TATTAATAA
47336793 TATT
1 TATT
47336797 TTTAATAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 25 0.57
10 12 0.27
11 3 0.07
12 4 0.09
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (9 bp):
TATTAATAA
Found at i:47337040 original size:22 final size:21
Alignment explanation
Indices: 47337015--47337055 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
47337005 GAAAATAAAT
47337015 AAGAAAACA-AAAACAGTTTTAA
1 AAGAAAA-AGAAAA-AGTTTTAA
47337037 AAGAAAAAGAAAAAGTTTT
1 AAGAAAAAGAAAAAGTTTT
47337056 GAAACCTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGAAAAAGAAAAAGTTTTAA
Found at i:47337928 original size:30 final size:29
Alignment explanation
Indices: 47337892--47338208 Score: 159
Period size: 30 Copynumber: 10.8 Consensus size: 29
47337882 CTAAACTATC
*
47337892 CAAAAATTATATTTTGACCCCCAAACTTCT
1 CAAAAATTACATTTTGACCCCCAAACTT-T
* * * **
47337922 CCAAAATTGCATTTTTTACCCTGAAACTTT
1 CAAAAATTACA-TTTTGACCCCCAAACTTT
*
47337952 CAAAAATTACATTTTTG-CCCCTAAACTTT
1 CAAAAATTACA-TTTTGACCCCCAAACTTT
* * * *
47337981 CCAAAATTGA-ATTTTTGACCTCGAAACTTC
1 CAAAAATT-ACA-TTTTGACCCCCAAACTTT
47338011 CAAAAATTACATTTTG-CCCCCAAACTTT
1 CAAAAATTACATTTTGACCCCCAAACTTT
* * * * * *
47338039 CAATAATTCCATTTTTAACCTCGAAAC-CT
1 CAAAAATTACA-TTTTGACCCCCAAACTTT
* * *
47338068 CTAAAAATTTCATTTTTG-CCCCCGAA-TTC
1 C-AAAAATTACA-TTTTGACCCCCAAACTTT
* * * * *
47338097 CTAAAAATTCCATTTTTAACCCTAAAATTT
1 C-AAAAATTACATTTTGACCCCCAAACTTT
* * * *
47338127 CCCAAAATTACATTTTTACCCTCAAA-ATT
1 -CAAAAATTACATTTTGACCCCCAAACTTT
*
47338156 CTAAAAATTCCATTTTTTGA-CCCCAACACTTT
1 C-AAAAATTACA--TTTTGACCCCCAA-ACTTT
47338188 CAAAAA-TACCATTTT-ACCCCC
1 CAAAAATTA-CATTTTGACCCCC
47338209 GAATGTCCGA
Statistics
Matches: 218, Mismatches: 51, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
28 24 0.11
29 75 0.34
30 88 0.40
31 28 0.13
32 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAAAATTACATTTTGACCCCCAAACTTT
Found at i:47337966 original size:29 final size:29
Alignment explanation
Indices: 47337892--47338206 Score: 184
Period size: 29 Copynumber: 10.7 Consensus size: 29
47337882 CTAAACTATC
* * *
47337892 CAAAAATTATATTTTGACCCCCAAACTTCT
1 CAAAAATTACATTTTTACCCTCAAACTT-T
* * *
47337922 CCAAAATTGCATTTTTTACCCTGAAACTTT
1 CAAAAATTACA-TTTTTACCCTCAAACTTT
*
47337952 CAAAAATTACATTTTTGCCC-CTAAACTTT
1 CAAAAATTACATTTTTACCCTC-AAACTTT
* *
47337981 CCAAAATTGA-ATTTTTGA-CCTCGAAACTTC
1 CAAAAATT-ACATTTTT-ACCCTC-AAACTTT
* *
47338011 CAAAAATTACA-TTTTGCCCCCAAACTTT
1 CAAAAATTACATTTTTACCCTCAAACTTT
* * * *
47338039 CAATAATTCCATTTTTAACCTCGAAAC-CT
1 CAAAAATTACATTTTTACCCTC-AAACTTT
* * * * *
47338068 CTAAAAATTTCATTTTTGCCCCCGAA-TTC
1 C-AAAAATTACATTTTTACCCTCAAACTTT
* *
47338097 CTAAAAATTCCATTTTTAACCCT-AAAATTT
1 C-AAAAATTACATTTTT-ACCCTCAAACTTT
* *
47338127 CCCAAAATTACATTTTTACCCTCAAA-ATT
1 -CAAAAATTACATTTTTACCCTCAAACTTT
*
47338156 CTAAAAATTCCATTTTTTGACCC-CAACACTTT
1 C-AAAAATTACA-TTTTT-ACCCTCAA-ACTTT
47338188 CAAAAA-TACCA-TTTTACCC
1 CAAAAATTA-CATTTTTACCC
47338207 CCGAATGTCC
Statistics
Matches: 220, Mismatches: 44, Indels: 44
0.71 0.14 0.14
Matches are distributed among these distances:
28 20 0.09
29 86 0.39
30 84 0.38
31 27 0.12
32 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCTCAAACTTT
Found at i:47338036 original size:58 final size:59
Alignment explanation
Indices: 47337884--47338152 Score: 264
Period size: 59 Copynumber: 4.5 Consensus size: 59
47337874 GAAGGTCTCT
* *
47337884 AAACTATCCAAAAATTATA-TTTTGACCCCCAAACTTCTCCAAAATTGCATTTTTTACC-CTG
1 AAACT-TCCAAAAATTACATTTTTG-CCCCCAAACTT-TCCAAAATTGCATTTTTAACCTC-G
* * * *
47337945 AAACTTTCAAAAATTACATTTTTGCCCCTAAACTTTCCAAAATTGAATTTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTGCCCCCAAACTTTCCAAAATTGCATTTTTAACCTCG
*
47338004 AAACTTCCAAAAATTACA-TTTTGCCCCCAAACTTT-CAATAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTACATTTTTGCCCCCAAACTTTCCAA-AATTGCATTTTTAACCTCG
* * * * * *
47338062 AAACCTCTAAAAATTTCATTTTTGCCCCCGAA--TTCCTAAAAATTCCATTTTTAACC-CTA
1 AAACTTCCAAAAATTACATTTTTGCCCCCAAACTTTCC--AAAATTGCATTTTTAACCTC-G
* * * *
47338121 AAATTTCCCAAAATTACATTTTTACCCTCAAA
1 AAACTTCCAAAAATTACATTTTTGCCCCCAAA
47338153 ATTCTAAAAA
Statistics
Matches: 177, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
57 5 0.03
58 49 0.28
59 89 0.50
60 24 0.14
61 10 0.06
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (59 bp):
AAACTTCCAAAAATTACATTTTTGCCCCCAAACTTTCCAAAATTGCATTTTTAACCTCG
Found at i:47338143 original size:59 final size:59
Alignment explanation
Indices: 47337890--47338231 Score: 238
Period size: 59 Copynumber: 5.8 Consensus size: 59
47337880 CTCTAAACTA
* * * * * *
47337890 TCCAAAAATTATA-TTTTGACCCCCAAACTTCTCCAAAATTGCATTTTTTACCCTGAAACTT
1 TCCAAAAATTACATTTTTG-CCCCCAAA-TTC-CAAAAATTCCATTTTTAACCCTCAAAATT
* ** * * *
47337951 T-CAAAAATTACATTTTTGCCCCTAAACTTTCC-AAAATTGAATTTTTGA-CCTCGAAACT
1 TCCAAAAATTACATTTTTGCCCCCAAA--TTCCAAAAATTCCATTTTTAACCCTCAAAATT
* * * **
47338009 TCCAAAAATTACA-TTTTGCCCCCAAACTTTCAATAATTCCATTTTTAA-CCTCGAAACC
1 TCCAAAAATTACATTTTTGCCCCCAAA-TTCCAAAAATTCCATTTTTAACCCTCAAAATT
* * *
47338067 TCTAAAAATTTCATTTTTGCCCCCGAATTCCTAAAAATTCCATTTTTAACCCT-AAAATT
1 TCCAAAAATTACATTTTTGCCCCCAAATTCC-AAAAATTCCATTTTTAACCCTCAAAATT
* * * * * *
47338126 TCCCAAAATTACATTTTTACCCTCAAAATTCTAAAAATTCCATTTTTTGACCC-CAACACTT
1 TCCAAAAATTACATTTTTGCCC-CCAAATTCCAAAAATTCCA-TTTTTAACCCTCAA-AATT
* * *
47338187 T-CAAAAA-TACCA-TTTTACCCCCGAATGTCCGAAAATTCCATTTTT
1 TCCAAAAATTA-CATTTTTGCCCCCAAAT-TCCAAAAATTCCATTTTT
47338232 GATCTCGATG
Statistics
Matches: 229, Mismatches: 39, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
57 3 0.01
58 63 0.28
59 105 0.46
60 45 0.20
61 13 0.06
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (59 bp):
TCCAAAAATTACATTTTTGCCCCCAAATTCCAAAAATTCCATTTTTAACCCTCAAAATT
Found at i:47342627 original size:42 final size:42
Alignment explanation
Indices: 47342560--47342648 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
47342550 GCTCGACGTG
*
47342560 TTAAA-AAAAAAAAGATGGGTCGAAAATTCTTAAAAGGCATT
1 TTAAACAAAAAAAAGATGGGTCGAAAATTCGTAAAAGGCATT
* * *
47342601 TTAAACAAAAAAAAGATTGTTTGAAAATTCGTAAAAGGCATT
1 TTAAACAAAAAAAAGATGGGTCGAAAATTCGTAAAAGGCATT
47342643 TTAAAC
1 TTAAAC
47342649 CACCCCCCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 5 0.12
42 38 0.88
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.27
Consensus pattern (42 bp):
TTAAACAAAAAAAAGATGGGTCGAAAATTCGTAAAAGGCATT
Found at i:47343501 original size:6 final size:6
Alignment explanation
Indices: 47343485--47343587 Score: 95
Period size: 6 Copynumber: 16.5 Consensus size: 6
47343475 TTCAGTGAAT
*
47343485 AAAAG- AAAAGA AAAAGA AGAAGAAA AAAAGA AAAAGA AAAAGA AAAA-A
1 AAAAGA AAAAGA AAAAGA A-AA-AGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
47343533 TAAAAGA AGAAGAA AAAAGA AGAAGAAA AAAAGA AAAAGA AAAA-A GAAAAGA
1 -AAAAGA AAAAG-A AAAAGA A-AA-AGA AAAAGA AAAAGA AAAAGA -AAAAGA
47343585 AAA
1 AAA
47343588 GGAGAGGTCG
Statistics
Matches: 82, Mismatches: 6, Indels: 19
0.77 0.06 0.18
Matches are distributed among these distances:
5 7 0.09
6 54 0.66
7 15 0.18
8 6 0.07
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:47343550 original size:51 final size:50
Alignment explanation
Indices: 47343482--47343582 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 50
47343472 AGATTCAGTG
47343482 AATAAAAGAAAAGAAAAAGAAGAAGAAAAAAAGAAAAAG-AAAAAGAAAA
1 AATAAAAGAAAAGAAAAAGAAGAAGAAAAAAAGAAAAAGAAAAAAGAAAA
47343531 AATAAAAGAAGAAGAAAAAAGAAGAAGAAAAAAAGAAAAAGAAAAAAGAAAA
1 AATAAAAGAA-AAG-AAAAAGAAGAAGAAAAAAAGAAAAAGAAAAAAGAAAA
47343583 GAAAAGGAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
49 10 0.20
50 3 0.06
51 26 0.53
52 10 0.20
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (50 bp):
AATAAAAGAAAAGAAAAAGAAGAAGAAAAAAAGAAAAAGAAAAAAGAAAA
Found at i:47343583 original size:45 final size:44
Alignment explanation
Indices: 47343485--47343587 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
47343475 TTCAGTGAAT
*
47343485 AAAAGAAAAGAAAAAGAAGAAGAAAAAAAGAAAAAGAAAAAGAA
1 AAAAGAAAAGAAAAAGAAAAAGAAAAAAAGAAAAAGAAAAAGAA
* * *
47343529 AAAATAAAAGAAGAAGAAAAAAGAAGAAGAA-AAAAAGAAAAAGAA
1 AAAAGAAAAGAAAAAG-AAAAAGAA-AAAAAGAAAAAGAAAAAGAA
47343574 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
47343588 GGAGAGGTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 14 0.27
45 33 0.65
46 4 0.08
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (44 bp):
AAAAGAAAAGAAAAAGAAAAAGAAAAAAAGAAAAAGAAAAAGAA
Found at i:47344921 original size:100 final size:100
Alignment explanation
Indices: 47344742--47345012 Score: 285
Period size: 101 Copynumber: 2.7 Consensus size: 100
47344732 ATGAAGGGCG
* * * * * * *
47344742 AGATCTAAGACCGCAACAGCAGATCCAATACCACAAAGATGCCAAA-GGAAAGGTCTAAGTCACA
1 AGATTTAAG-CCGCAACGGCGGATCCAGTACCACAAAGAT-CAAAAGGGAAAGGTTTAAGTCATA
* * *
47344806 ACGACGGACCGTGTACCTCAA-AAAATAATAAGGGAA
64 ACGACGGACCGTGTACCTCAAGAAAACAAGAAAGGAA
47344842 AGATTTAAGCCGCAACGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTTTAAGTCATAA
1 AGATTTAAGCCGCAACGGCGGATCCAGTACCACAAAGAT-CAAAAGGGAAAGGTTTAAGTCATAA
** * *
47344907 CGGTGGACCGTGTACCTCAAGAAGACAGGAAAGGAA
65 CGACGGACCGTGTACCTCAAGAAAACAAGAAAGGAA
* * * * * *** *
47344943 GGATTCAAGCCGCAACGGTGAATCCAGTACCACGAAGATTTGAAGTGGAAAGGTTTAAGTCATGA
1 AGATTTAAGCCGCAACGGCGGATCCAGTACCACAAAGATCAAAAG-GGAAAGGTTTAAGTCATAA
47345008 CGACG
65 CGACG
47345013 AACCCGGTAC
Statistics
Matches: 142, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
99 31 0.22
100 46 0.32
101 65 0.46
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.15
Consensus pattern (100 bp):
AGATTTAAGCCGCAACGGCGGATCCAGTACCACAAAGATCAAAAGGGAAAGGTTTAAGTCATAAC
GACGGACCGTGTACCTCAAGAAAACAAGAAAGGAA
Found at i:47344922 original size:50 final size:50
Alignment explanation
Indices: 47344770--47344922 Score: 150
Period size: 50 Copynumber: 3.1 Consensus size: 50
47344760 GCAGATCCAA
* * * *
47344770 TACCACAAAGATGCCAAA-GGAAAGGTCTAAGTCACAACGACGGACCGTG
1 TACCACAAAGATACAAAAGGGAAAGGTTTAAGTCACAACGGCGGACCGTG
* * * * * * *
47344819 TACCTCAAAAAATA-ATAAGGGAAAGATTTAAGCCGCAACGGCGGATCC-AG
1 TACCAC-AAAGATACAAAAGGGAAAGGTTTAAGTCACAACGGCGGA-CCGTG
* *
47344869 TACCACAAAGATACAAAAGGGAAAGGTTTAAGTCATAACGGTGGACCGTG
1 TACCACAAAGATACAAAAGGGAAAGGTTTAAGTCACAACGGCGGACCGTG
47344919 TACC
1 TACC
47344923 TCAAGAAGAC
Statistics
Matches: 79, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
49 15 0.19
50 62 0.78
51 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.16
Consensus pattern (50 bp):
TACCACAAAGATACAAAAGGGAAAGGTTTAAGTCACAACGGCGGACCGTG
Found at i:47345788 original size:205 final size:205
Alignment explanation
Indices: 47345436--47346153 Score: 1060
Period size: 206 Copynumber: 3.5 Consensus size: 205
47345426 CCAACTTGAG
* * *
47345436 GCTCGATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCA
1 GCTCGATGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
* *
47345501 ATAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTTCTGATGAGATA
47345566 CAGAGAAGCGGATTGAAATAAACGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
131 CAGAGAAGCGGATTGAAATAAACGATGCG-TCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
*
47345631 ATC-AACCCAC
195 ATCAAATCCAC
*
47345641 GCTCGATGTAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
1 GCTCGATGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
* *
47345706 ATAGAATGGTTAGCTTCCTGATGAGATACTGAGAAGCAGACCAAATTCGTCTTTCTGATGAGATA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTTCTGATGAGATA
* * *
47345771 AAGAGAAGCGGATTGAAATAAACGATGCTGTCATCTTTCTGATGAGATATTGAGAAGAAGACCAA
131 CAGAGAAGCGGATTGAAATAAACGATGC-GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
*
47345836 ATCAAATCCAG
195 ATCAAATCCAC
* * * * **
47345847 GCTCAATGCAAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACATTGAGAAGTAGGTCGAAGTG
1 GCTCGATGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
* * ** *
47345912 ATAAAATGGTTAGCTTCCTGATGTGATATTGAGAATTGGACCAAATTCATCTTTCTGATGAGATA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTTCTGATGAGATA
* * * * *
47345977 CAGAGAAGCGGATTGAAACAAATGACGCGGTCATCTTCTTGATGAGATACAGAGAAGAAGACCAA
131 CAGAGAAGCGGATTGAAATAAACGATGC-GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAA
*
47346042 ATCAAATCGAC
195 ATCAAATCCAC
* ** * *
47346053 GCTCGATACTTGCAAATCTTCGAACCCCAACTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCA
1 GCTCGATGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
* * *
47346118 ATAAAATGGTCATCTTCCTGATGAGATACAGAGAAG
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAG
47346154 TATGCCAACT
Statistics
Matches: 456, Mismatches: 55, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
205 185 0.41
206 271 0.59
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (205 bp):
GCTCGATGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCA
ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTTCTGATGAGATA
CAGAGAAGCGGATTGAAATAAACGATGCGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAA
TCAAATCCAC
Found at i:47346048 original size:49 final size:50
Alignment explanation
Indices: 47345958--47346054 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 50
47345948 TGGACCAAAT
** **
47345958 TCATCTTTCTGATGAGATACAGAGAAGCGGATTGAAACAAAT-GACGCGG
1 TCATCTTTCTGATGAGATACAGAGAAGAAGATCCAAACAAATCGACGCGG
47346007 TCATC-TTCTTGATGAGATACAGAGAAGAAGA-CCAAATCAAATCGACGC
1 TCATCTTTC-TGATGAGATACAGAGAAGAAGATCCAAA-CAAATCGACGC
47346055 TCGATACTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 6 0.15
49 30 0.73
50 5 0.12
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (50 bp):
TCATCTTTCTGATGAGATACAGAGAAGAAGATCCAAACAAATCGACGCGG
Found at i:47346427 original size:201 final size:201
Alignment explanation
Indices: 47346127--47346655 Score: 898
Period size: 201 Copynumber: 2.6 Consensus size: 201
47346117 AATAAAATGG
* * *
47346127 TCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGATGCTCAATGCAAGTAAATCTTCGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCAATGCGAGCAAATCTTCGAA
* *
47346192 CCCCAACTTCTTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGA
66 CCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGA
* * * * *
47346257 GATACTGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATATAGAGAAGCGAATTGAAACAAGT
131 GATACTGAGAAGTGAACCAAATTCAG-CTTCCTGATGAGATACAAAGAAGCAAATTGAAACAAAT
47346321 GAGGCGA
195 GAGGCGA
*
47346328 TCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCGACGCTCAATGCGAGCAAATCTTCGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCAATGCGAGCAAATCTTCGAA
*
47346393 CCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGATTAGCTTCCTGATGA
66 CCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGA
47346458 GATACTGAGAAGTGAACCAAATTCAGCTTCCTGATGAGATACAAAGAAGCAAATTGAAACAAATG
131 GATACTGAGAAGTGAACCAAATTCAGCTTCCTGATGAGATACAAAGAAGCAAATTGAAACAAATG
*
47346523 AGGCGG
196 AGGCGA
* *
47346529 TCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCGATGTGAGCAAATCTTCGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCAATGCGAGCAAATCTTCGAA
*
47346594 CCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGA
66 CCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGA
47346656 AATGATACAG
Statistics
Matches: 309, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
201 308 1.00
202 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (201 bp):
TCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCAATGCGAGCAAATCTTCGAA
CCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGA
GATACTGAGAAGTGAACCAAATTCAGCTTCCTGATGAGATACAAAGAAGCAAATTGAAACAAATG
AGGCGA
Found at i:47347136 original size:18 final size:18
Alignment explanation
Indices: 47347113--47347148 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47347103 ATTTTTTCTT
*
47347113 TTAAAGTTTAAATCTAAA
1 TTAAAGATTAAATCTAAA
*
47347131 TTAAAGATTAAATTTAAA
1 TTAAAGATTAAATCTAAA
47347149 ATTGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
TTAAAGATTAAATCTAAA
Found at i:47351661 original size:11 final size:12
Alignment explanation
Indices: 47351639--47351682 Score: 51
Period size: 10 Copynumber: 4.0 Consensus size: 12
47351629 GACACACAAT
47351639 TAAAAGAAGAGA
1 TAAAAGAAGAGA
47351651 TAAAA-AAGAGA
1 TAAAAGAAGAGA
47351662 -AAAAGAAGA-A
1 TAAAAGAAGAGA
*
47351672 -AAAAAAAGAGA
1 TAAAAGAAGAGA
47351683 AAGAAAGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 13 0.45
11 11 0.38
12 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (12 bp):
TAAAAGAAGAGA
Found at i:47351676 original size:21 final size:22
Alignment explanation
Indices: 47351640--47351684 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
47351630 ACACACAATT
*
47351640 AAAAGAAGAGATAAAAAAGAGA
1 AAAAGAAGAGAAAAAAAAGAGA
47351662 AAAAGAAGA-AAAAAAAAGAGA
1 AAAAGAAGAGAAAAAAAAGAGA
47351683 AA
1 AA
47351685 GAAAGTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAAGAAGAGAAAAAAAAGAGA
Found at i:47351754 original size:16 final size:17
Alignment explanation
Indices: 47351733--47351774 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
47351723 TAAAAAAAAG
47351733 GAAAAGAAAA-GAAGAA
1 GAAAAGAAAAGGAAGAA
47351749 GAAAAGAAAAAGGAAGAA
1 GAAAAG-AAAAGGAAGAA
47351767 -AAAAGAAA
1 GAAAAGAAA
47351775 GTCAAGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
17 9 0.38
18 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAAGGAAGAA
Found at i:47351770 original size:17 final size:17
Alignment explanation
Indices: 47351733--47351774 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
47351723 TAAAAAAAAG
47351733 GAAAAG-AAAAGAAGAA
1 GAAAAGAAAAAGAAGAA
47351749 GAAAAGAAAAAGGAAGAA
1 GAAAAGAAAAA-GAAGAA
47351767 -AAAAGAAA
1 GAAAAGAAA
47351775 GTCAAGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
18 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAAAGAAGAA
Found at i:47352665 original size:16 final size:17
Alignment explanation
Indices: 47352646--47352680 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47352636 TTAAAAAAAG
47352646 AAGAAAAG-AAAAAGAA
1 AAGAAAAGAAAAAAGAA
*
47352662 AAGAGAAGAAAAAAGAA
1 AAGAAAAGAAAAAAGAA
47352679 AA
1 AA
47352681 AAGAGAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAAAAAGAA
Found at i:47352685 original size:19 final size:20
Alignment explanation
Indices: 47352638--47352686 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
47352628 ATAATAAATT
47352638 AAAAAA-AGAAGAAAAGAAA
1 AAAAAAGAGAAGAAAAGAAA
*
47352657 AAGAAAAGAGAAGAAAA-AAG
1 AA-AAAAGAGAAGAAAAGAAA
47352677 AAAAAAGAGA
1 AAAAAAGAGA
47352687 GGTCGAGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 8 0.30
21 9 0.33
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAAAGAGAAGAAAAGAAA
Found at i:47352687 original size:21 final size:21
Alignment explanation
Indices: 47352639--47352686 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
47352629 TAATAAATTA
*
47352639 AAAAAAGAAGAAAAGAAAAAG
1 AAAAGAGAAGAAAAGAAAAAG
*
47352660 AAAAGAGAAGAAAA-AAGAA-
1 AAAAGAGAAGAAAAGAAAAAG
47352679 AAAAGAGA
1 AAAAGAGA
47352687 GGTCGAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAAGAGAAGAAAAGAAAAAG
Found at i:47354097 original size:39 final size:39
Alignment explanation
Indices: 47354069--47355286 Score: 660
Period size: 39 Copynumber: 31.2 Consensus size: 39
47354059 CCGATCATAA
* * *
47354069 GGCAGATCACAGCCATCCGATCTTTTACCCCGAGCTTGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* *
47354108 AGCAGA-T-CA-CCATTAGCCAATCTCTTACCCCGAGCCTGG
1 GGCAGATTACAGCCA-T--CCAATCTTTTACCCCGAGCCTGG
* ** *
47354147 GGCAGATTGCAGTTATCCAATCTTTTACCCCGAGCCTAG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47354186 GGCAGATCACCA-TCAACCAATCTCTTACCCCGAGCCTGA
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47354225 AGTAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
*** *
47354264 AATAGATTACAGCCAT-CAGATCTTTTACCCCGAGCTTGG
1 GGCAGATTACAGCCATCCA-ATCTTTTACCCCGAGCCTGG
* * *
47354303 GGCAGATCACCATCAAT-CAATCTTTTACCCCGAGCCTGG
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* ** * * *
47354342 GACAGATTGTAGCTATCCGATCTTTTACCCCGAGCTTGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* ** * * * *
47354381 GGTAGATCCCCA-TCAGCCAATCTCTTACCCCGAGCTTGG
1 GGCAGAT-TACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *** * * *
47354420 GGTAGAATGCAACCATTTGATCTTTTACCCCGATCATTG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * *
47354459 GGCAGATCACAACCATCCGATCTTTTACCCCGAGCCTTG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47354498 GGCAGATCACCA-TCAACCAATCTCTTACCCCGAG-CTTG
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* * ** * * *
47354536 GGTAAATTACAGTAATCCGATCTTTTACCCCTAGCTTGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * ** * * * * *
47354575 GGCAAATCATTGTCAACCAATCTATTACCCCAAGCCTAG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * *
47354614 GGCAGATTGCAACCATCCGATCTTTTACCCCGAGCCTGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* *
47354653 GGCAGA-T-CA-CCATCAGCTAATCTCTTACCCCGAGCCTGA
1 GGCAGATTACAGCCATC--C-AATCTTTTACCCCGAGCCTGG
** * * *
47354692 GGCAGATTGTAGCCAT-CAGATCTTTTACCTCGAACCTAG
1 GGCAGATTACAGCCATCCA-ATCTTTTACCCCGAGCCTGG
* * * * * *
47354731 GGTAGATTACCA-TCAGCCAATCTCTTACCCCGAGCTTAG
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * * * *
47354770 GGCAGATTACAACCATTCGATCTTTTACCCCAATCATAG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * * *
47354809 GGCAGATCACTGCCATCCAATCTCTTACACCGCGACTAGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCT-GG
* * * * *
47354849 GGCAGATTACAACCATCCGATATTTTACCCCGAGCTTGA
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47354888 GACAGATTACCA-TCAACCAATCTCTTACTCCGAGCCTGG
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* * *
47354927 GGCAGATTGCAGCCAT-CAGATCTTTTACCCTGAGCCTGA
1 GGCAGATTACAGCCATCCA-ATCTTTTACCCCGAGCCTGG
* * * * * * *
47354966 GACAGATCACCA-TCAACCAATCTCTTACCCCAAGCCTAG
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47355005 GGCAGATTGCAGTCATCCGATCTTTTACCTCGAGCCAGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47355044 GGCAGATCATCA-TCAGCCAATCTCTTACCCCAAGCCTGG
1 GGCAGATTA-CAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * *
47355083 GGCAGATTACAACCATCCGATCTTTTACCCCGATCATGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
** * * * * *
47355122 GGCAGATCCCTGCCAGCCAATCTCTTACCCCGCG-ATAGGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCT--GG
** * *
47355162 GGCAGATTGTAGCCATCCAATCTTTTACCCCGATCATGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * *
47355201 GGCAGATCGTA-A-TCATCCAATCTCTTACCCCGATCATGT
1 GGCAGAT--TACAGCCATCCAATCTTTTACCCCGAGCCTGG
* * * * * *
47355240 GGCAGATTAAAACCATCTAATCTCTTACCCCGATCATGG
1 GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
47355279 GGCAGATT
1 GGCAGATT
47355287 GAAACCATAT
Statistics
Matches: 895, Mismatches: 242, Indels: 84
0.73 0.20 0.07
Matches are distributed among these distances:
36 8 0.01
37 9 0.01
38 52 0.06
39 732 0.82
40 82 0.09
41 7 0.01
42 5 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (39 bp):
GGCAGATTACAGCCATCCAATCTTTTACCCCGAGCCTGG
Found at i:47354151 original size:78 final size:78
Alignment explanation
Indices: 47354049--47355285 Score: 929
Period size: 78 Copynumber: 15.8 Consensus size: 78
47354039 GAAGGTTTCG
* * ** * *
47354049 ATCTCTTACCCCGATCATAAGGCAGATCACAGCCATCCGATCTTTTACCCCGAGCTTGGAGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
47354114 TCACCATTAGCCA
66 TCACCATCAGCCA
* ** * * *
47354127 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTTATCCAATCTTTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
47354192 TCACCATCAACCA
66 TCACCATCAGCCA
** * * * * ***
47354205 ATCTCTTACCCCGAGCCTGAAGTAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAGAATAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
47354270 TTACAGCCATCAG---
66 -T-CA-CCATCAGCCA
* * * * * * * *
47354283 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAAT-CAATCTTTTACCCCGAGCCTGGGACAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAG
* * * *
47354347 ATTGTAGC-T-ATCCG
65 A-T-CACCATCAGCCA
* * * ** * * * * *
47354361 ATCTTTTACCCCGAGCTTGGGGTAGATCCCCA-TCAGCCAATCTCTTACCCCGAGCTTGGGGTAG
1 ATCTCTTACCCCGAGCCTGGGGCAGAT-TACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAG
**
47354425 AATGCAACCATTTG---
65 -AT-C-ACCATCAGCCA
* * * * * *
47354439 ATCTTTTACCCCGATCATTGGGCAGATCACAACCATCCGATCTTTTACCCCGAGCCTT-GGGCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAG-CTTGGGGCAG
*
47354503 ATCACCATCAACCA
65 ATCACCATCAGCCA
* * * ** * *
47354517 ATCTCTTACCCCGAG-CTTGGGTAAATTACAGTAATCCGATCTTTTACCCCTAGCTTGGGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*** *
47354581 TCATTGTCAACCA
66 TCACCATCAGCCA
* * * * * *
47354594 ATCTATTACCCCAAGCCTAGGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
47354659 TCACCATCAGCTA
66 TCACCATCAGCCA
* ** * * * * * *
47354672 ATCTCTTACCCCGAGCCTGAGGCAGATTGTAGCCATCAGATCTTTTACCTCGAACCTAGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
47354737 TTACCATCAGCCA
66 TCACCATCAGCCA
* * * * * * * *
47354750 ATCTCTTACCCCGAGCTTAGGGCAGATTACAACCATTCGATCTTTTACCCCAATCATAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*** *
47354815 TCACTGCCATCCA
66 TCACCATCAGCCA
* * * * * * *
47354828 ATCTCTTACACCGCGACTAGGGGCAGATTACAACCATCCGATATTTTACCCCGAGCTTGAGACAG
1 ATCTCTTACCCCGAGCCT-GGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAG
* *
47354893 ATTACCATCAACCA
65 ATCACCATCAGCCA
* * * * * * *
47354907 ATCTCTTACTCCGAGCCTGGGGCAGATTGCAGCCATCAGATCTTTTACCCTGAGCCTGAGACAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
47354972 TCACCATCAACCA
66 TCACCATCAGCCA
* * * * * **
47354985 ATCTCTTACCCCAAGCCTAGGGCAGATTGCAGTCATCCGATCTTTTACCTCGAGCCAGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
47355050 TCATCATCAGCCA
66 TCACCATCAGCCA
* * * *
47355063 ATCTCTTACCCCAAGCCTGGGGCAGATTACAACCATCCGATCTTTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
47355128 TC-CC-TGCCAGCCA
66 TCACCAT--CAGCCA
* * ** * * *
47355141 ATCTCTTACCCCGCG-ATAGGGGGCAGATTGTAGCCATCCAATCTTTTACCCCGATCATGGGGCA
1 ATCTCTTACCCCGAGCCT--GGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCA
*** *
47355205 GATCGTAATCATCCA
64 GATCACCATCAGCCA
* * * * * ** * * *
47355220 ATCTCTTACCCCGATCATGTGGCAGATTAAAACCATCTAATCTCTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
47355285 T
66 T
47355286 TGAAACCATA
Statistics
Matches: 935, Mismatches: 196, Indels: 56
0.79 0.17 0.05
Matches are distributed among these distances:
75 6 0.01
76 6 0.01
77 68 0.07
78 706 0.76
79 137 0.15
80 5 0.01
81 7 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
TCACCATCAGCCA
Found at i:47355223 original size:313 final size:311
Alignment explanation
Indices: 47354049--47355272 Score: 951
Period size: 313 Copynumber: 3.9 Consensus size: 311
47354039 GAAGGTTTCG
* * * * ** * * * *
47354049 ATCTCTTACCCCGATCATAAGGCAGATCACAGCCATCCGATCTTTTACCCCG-AGCTTGGAGCAG
1 ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGCCATCAGATCTTTTACCTCGAACCTAGG-GCAG
* * * * *** *
47354113 ATCACCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTTATCCAATCTTTTACCCC
65 ATCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTACAACCATCCGATCTTTTACCCC
* * * * ** * *
47354178 GAGCCTAGGGCAGATCACCAT--CAACCAATCTCTTACCCCGAGCCT-GAAGTAGATTGCAGCCA
130 GATCATAGGGCAGATC-CC-TGCCAACCAATCTCTTACCCCGCG-ATAGGGGCAGATTACAGCCA
* * *** * * * * *
47354240 TCCGATCTTTTACCCCGAGCCTAGAATAGAT-TACAGCCATCAGATCTTTTACCCCGAGCTTGGG
192 TCCGATCTTTTACCCCGAGCTTGGGGCAGATCTA-ATCAACCA-ATCTCTTACCCCGAGCCTGGG
** * * * * * * *
47354304 GCAGATCACCATCAATCA-ATCTTTTACCCCGAGCCTGGGACAGATTGTAGC-T-ATCCG
255 GCAGAT-TGCAACCATCAGATCTTTTACCCCGAGCCTGAGACAGA-T-CACCATCAACCA
* * * * * * * * * * * *
47354361 ATCTTTTACCCCGAGCTTGGGGTAGA-T-C-CCCATCAGCCAATCTCTTACCCCGAGCTTGGGGT
1 ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGCCATCAG---ATCTTTTACCTCGAACCTAGGGC
** * * * * * *
47354423 AGAATGCAACCATTTG---ATCTTTTACCCCGATCATTGGGCAGATCACAACCATCCGATCTTTT
63 AG-AT-C-ACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTACAACCATCCGATCTTTT
* * * * * * * *
47354485 ACCCCGAGCCTTGGGCAGATCACCAT--CAACCAATCTCTTACCCCGAGCT-TGGGTAAATTACA
125 ACCCCGATCATAGGGCAGATC-CC-TGCCAACCAATCTCTTACCCCGCGATAGGGGCAGATTACA
** * * ** * *
47354547 GTAATCCGATCTTTTACCCCTAGCTTGGGGCAAATCATTGTCAACCAATCTATTACCCCAAGCCT
188 GCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATC-TAATCAACCAATCTCTTACCCCGAGCCT
* * * * * *
47354612 AGGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCTA
252 GGGGCAGATTGCAACCATCAGATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCA
* * *
47354672 ATCTCTTACCCCGAGCCTGAGGCAGATTGTAGCCATCAGATCTTTTACCTCGAACCTAGGGTAGA
1 ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGCCATCAGATCTTTTACCTCGAACCTAGGGCAGA
* * * * *
47354737 TTACCATCAGCCAATCTCTTACCCCGAGCTTAGGGCAGATTACAACCATTCGATCTTTTACCCCA
66 TCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTACAACCATCCGATCTTTTACCCCG
* * * *
47354802 ATCATAGGGCAGATCACTGCCATCCAATCTCTTACACCGCGACTAGGGGCAGATTACAACCATCC
131 ATCATAGGGCAGATCCCTGCCAACCAATCTCTTACCCCGCGA-TAGGGGCAGATTACAGCCATCC
* * * *
47354867 GATATTTTACCCCGAGCTTGAGACAGAT-TACCATCAACCAATCTCTTACTCCGAGCCTGGGGCA
195 GATCTTTTACCCCGAGCTTGGGGCAGATCTA--ATCAACCAATCTCTTACCCCGAGCCTGGGGCA
* *
47354931 GATTGCAGCCATCAGATCTTTTACCCTGAGCCTGAGACAGATCACCATCAACCA
258 GATTGCAACCATCAGATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCA
* * *
47354985 ATCTCTTACCCCAAGCCT-AGGGCAGATTGCAGTCATCCGATCTTTTACCTCGAGCC-AGGGGCA
1 ATCTCTTACCCCAAGCCTGA-GGCAGATTGCAGCCATCAGATCTTTTACCTCGAACCTA-GGGCA
* *
47355048 GATCATCATCAGCCAATCTCTTACCCCAAGCCTGGGGCAGATTACAACCATCCGATCTTTTACCC
64 GATCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTACAACCATCCGATCTTTTACCC
* * **
47355113 CGATCATGGGGCAGATCCCTGCCAGCCAATCTCTTACCCCGCGATAGGGGGCAGATTGTAGCCAT
129 CGATCATAGGGCAGATCCCTGCCAACCAATCTCTTACCCCGCGATA-GGGGCAGATTACAGCCAT
* * * * * * *
47355178 CCAATCTTTTACCCCGATCATGGGGCAGATCGTAATCATCCAATCTCTTACCCCGATCATGTGGC
193 CCGATCTTTTACCCCGAGCTTGGGGCAGATC-TAATCAACCAATCTCTTACCCCGAGCCTGGGGC
** *
47355243 AGATTAAAACCATCTA-ATCTCTTACCCCGA
257 AGATTGCAACCATC-AGATCTTTTACCCCGA
47355273 TCATGGGGCA
Statistics
Matches: 732, Mismatches: 150, Indels: 59
0.78 0.16 0.06
Matches are distributed among these distances:
308 6 0.01
309 9 0.01
310 12 0.02
311 204 0.28
312 127 0.17
313 356 0.49
314 9 0.01
315 9 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (311 bp):
ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGCCATCAGATCTTTTACCTCGAACCTAGGGCAGA
TCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTACAACCATCCGATCTTTTACCCCG
ATCATAGGGCAGATCCCTGCCAACCAATCTCTTACCCCGCGATAGGGGCAGATTACAGCCATCCG
ATCTTTTACCCCGAGCTTGGGGCAGATCTAATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
TGCAACCATCAGATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCA
Found at i:47355339 original size:46 final size:46
Alignment explanation
Indices: 47355279--47355391 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
47355269 CCGATCATGG
47355279 GGCAGATTGAAACCAT-ATTCTAATCTTTTACCCCTAAATCACGAGA
1 GGCAGATTGAAACCATCA-TCTAATCTTTTACCCCTAAATCACGAGA
* *
47355325 GGCAGATTGAAACCATCATCTAATCTTTTACCTCTAAATCACGAGG
1 GGCAGATTGAAACCATCATCTAATCTTTTACCCCTAAATCACGAGA
* *
47355371 GGCATATT-AAAGCCACCATCT
1 GGCAGATTGAAA-CCATCATCT
47355392 CACAGGAGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
45 3 0.05
46 57 0.93
47 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (46 bp):
GGCAGATTGAAACCATCATCTAATCTTTTACCCCTAAATCACGAGA
Found at i:47357115 original size:90 final size:89
Alignment explanation
Indices: 47356955--47357190 Score: 264
Period size: 90 Copynumber: 2.7 Consensus size: 89
47356945 TTCGATCCCT
* * ** *
47356955 TAAA-TTTTTCAAAATTACATTTTGA-CCTTAAACTTTTCTAAAAT-TACATTAGCCCCTAAACT
1 TAAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCTAAAATATATTTTAACCCCTAAACT
* **
47357017 TTTCCAAAATTGTATATTAACCCC
66 CTTCCAAAATTACATATTAACCCC
* *
47357041 TAAACTTTTCCAAAATTACATTTTGACCCCTAAACTTCTCTAAAATCATGTTTTAACCCCTAAAC
1 TAAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCTAAAAT-ATATTTTAACCCCTAAAC
* * * *
47357106 TCTTCCAAAATTACATTTTGATCTC
65 TCTTCCAAAATTACATATTAACCCC
* * *
47357131 TAAACTTTCCCAAAATCATATTTTGACCCC-AAACTTTTTCTAAAATTATATTTTAACCCC
1 TAAACTTTTCCAAAATTACATTTTGACCCCTAAAC-TTTTCTAAAA-TATATTTTAACCCC
47357191 ATATTCTCTG
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
86 4 0.03
87 20 0.16
88 17 0.14
89 4 0.03
90 79 0.63
91 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.39
Consensus pattern (89 bp):
TAAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCTAAAATATATTTTAACCCCTAAACT
CTTCCAAAATTACATATTAACCCC
Found at i:47357191 original size:30 final size:30
Alignment explanation
Indices: 47356955--47357190 Score: 212
Period size: 30 Copynumber: 8.0 Consensus size: 30
47356945 TTCGATCCCT
* * *
47356955 TAAA-TTTTTCAAAATTACATTTTGA-CCT
1 TAAACTTTTCCAAAATTACATTTTAACCCC
* *
47356983 TAAACTTTTCTAAAATTACA--TTAGCCCC
1 TAAACTTTTCCAAAATTACATTTTAACCCC
** *
47357011 TAAACTTTTCCAAAATTGTATATTAACCCC
1 TAAACTTTTCCAAAATTACATTTTAACCCC
*
47357041 TAAACTTTTCCAAAATTACATTTTGACCCC
1 TAAACTTTTCCAAAATTACATTTTAACCCC
* * * **
47357071 TAAACTTCTCTAAAATCATGTTTTAACCCC
1 TAAACTTTTCCAAAATTACATTTTAACCCC
* * * *
47357101 TAAACTCTTCCAAAATTACATTTTGATCTC
1 TAAACTTTTCCAAAATTACATTTTAACCCC
* * * *
47357131 TAAACTTTCCCAAAATCATATTTTGACCCC
1 TAAACTTTTCCAAAATTACATTTTAACCCC
* *
47357161 -AAACTTTTTCTAAAATTATATTTTAACCCC
1 TAAAC-TTTTCCAAAATTACATTTTAACCCC
47357191 ATATTCTCTG
Statistics
Matches: 165, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
27 2 0.01
28 23 0.14
29 17 0.10
30 123 0.75
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAACTTTTCCAAAATTACATTTTAACCCC
Found at i:47357416 original size:19 final size:19
Alignment explanation
Indices: 47357389--47357427 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47357379 TTTTTCCATT
* *
47357389 ATTTGCACATTCATCTTTA
1 ATTTACACACTCATCTTTA
47357408 ATTTACACACTCATCTTTA
1 ATTTACACACTCATCTTTA
47357427 A
1 A
47357428 ATTAAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTTACACACTCATCTTTA
Found at i:47365897 original size:19 final size:20
Alignment explanation
Indices: 47365860--47365897 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
47365850 TGTAAATTTT
* *
47365860 AATTTTGAAAACTCGAGAAA
1 AATTTTGAAAACCCAAGAAA
47365880 AATTTT-AAAACCCAAGAA
1 AATTTTGAAAACCCAAGAA
47365898 TCTTGGGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (20 bp):
AATTTTGAAAACCCAAGAAA
Found at i:47367886 original size:235 final size:232
Alignment explanation
Indices: 47367449--47367906 Score: 790
Period size: 235 Copynumber: 2.0 Consensus size: 232
47367439 ATTGGTTTCG
* *
47367449 TGAAGGACTTTCGTGTGAATCTTTAATTGTTAGTGGTTAGGCTGACTTAGACATGTTTGAATCGA
1 TGAAGGACTTTCGTGTGAATATTTAATTATTAGTGGTTAGGCTGACTTAGACATGTTTGAATCGA
*
47367514 TAGGATTGCTTAAGGCCGTACGGATTGCGAGACTAAAGTAGCCCCGTGACAATTGGTATAAAAGC
66 TAGGATTGCTTAAGGCCATACGGATTGCGAGACTAAAGTAGCCCCGTGACAATTGGTATAAAAGC
*
47367579 CAAGTTGTGAAGGCATCGTTGAGATGTCGGAAGAAGTTGTCGATCAGAATGAGTCAAAGGAGACA
131 CAAGTTGTGAAGGCATCGTTGAGATGTCGAAAGAAGTTGTCGATCAGAATGAGTCAAAGGAGACA
* * *
47367644 TGTTGGTAGGGCCAGAAAACTAGTCATTAAGATATCT
196 CGTTGGTAAGGCCAAAAAACTAGTCATTAAGATATCT
* *
47367681 TGAAGGACTTTCGTGTGAATATTTAATTATTGGTGGTTAGGCTGACTTAGACGTGTTTGAATCGA
1 TGAAGGACTTTCGTGTGAATATTTAATTATTAGTGGTTAGGCTGACTTAGACATGTTTGAATCGA
* *
47367746 TAGGATTGTTTAAGGCCATACGGATTGCGAGACTAAAGTTTTAGCCCCGTGACAATTGGTATCAA
66 TAGGATTGCTTAAGGCCATACGGATTGCGAGACTAAAG---TAGCCCCGTGACAATTGGTATAAA
47367811 AGCCAAGTTGTGAAGGCATCGTTGAGATGTCGAAAGAAGTTGTCGATCAGAATGAGTCAAAGGAG
128 AGCCAAGTTGTGAAGGCATCGTTGAGATGTCGAAAGAAGTTGTCGATCAGAATGAGTCAAAGGAG
47367876 ACACGTTGGTAAGGCCAAAAAACTAGTCATT
193 ACACGTTGGTAAGGCCAAAAAACTAGTCATT
47367907 TTGAAGGATA
Statistics
Matches: 212, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
232 97 0.46
235 115 0.54
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (232 bp):
TGAAGGACTTTCGTGTGAATATTTAATTATTAGTGGTTAGGCTGACTTAGACATGTTTGAATCGA
TAGGATTGCTTAAGGCCATACGGATTGCGAGACTAAAGTAGCCCCGTGACAATTGGTATAAAAGC
CAAGTTGTGAAGGCATCGTTGAGATGTCGAAAGAAGTTGTCGATCAGAATGAGTCAAAGGAGACA
CGTTGGTAAGGCCAAAAAACTAGTCATTAAGATATCT
Found at i:47370845 original size:19 final size:19
Alignment explanation
Indices: 47370818--47370868 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
47370808 CTAGATATCT
* *
47370818 GTTACGAGTAATTAGGGAA
1 GTTAGGAGTAATTAGAGAA
47370837 GTTAGGAGTAATTAGAGAA
1 GTTAGGAGTAATTAGAGAA
*
47370856 GTTAGGAGCAATT
1 GTTAGGAGTAATT
47370869 TATGGGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.27
Consensus pattern (19 bp):
GTTAGGAGTAATTAGAGAA
Found at i:47375387 original size:19 final size:19
Alignment explanation
Indices: 47375365--47375409 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
47375355 GGGTGTTACA
*
47375365 AGTAATTAGGGAAGTTAGG
1 AGTAATTAGAGAAGTTAGG
47375384 AGTAATTAGAGAAGTTAGG
1 AGTAATTAGAGAAGTTAGG
47375403 AGTAATT
1 AGTAATT
47375410 TATGGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (19 bp):
AGTAATTAGAGAAGTTAGG
Found at i:47377678 original size:148 final size:148
Alignment explanation
Indices: 47377410--47377707 Score: 587
Period size: 148 Copynumber: 2.0 Consensus size: 148
47377400 AACATATTAG
47377410 GAGGCTACTATGATCATGAAAACAGCCTGTGTCCTCACATGCTTGAGGATTTTTAGGGTGATTTT
1 GAGGCTACTATGATCATGAAAACAGCCTGTGTCCTCACATGCTTGAGGATTTTTAGGGTGATTTT
*
47377475 GGATGGACGGAACGTTTAACTGTGATTAGTGTAAAAATAATGGTGACAGTAAAATTAAATATTGT
66 GGATGGACGGAACGTTTAACTGTGATTAGTGTAAAAATAATGGTGACAGTAAAATTAAATATTAT
47377540 AGTGATATTATAACGAAA
131 AGTGATATTATAACGAAA
47377558 GAGGCTACTATGATCATGAAAACAGCCTGTGTCCTCACATGCTTGAGGATTTTTAGGGTGATTTT
1 GAGGCTACTATGATCATGAAAACAGCCTGTGTCCTCACATGCTTGAGGATTTTTAGGGTGATTTT
47377623 GGATGGACGGAACGTTTAACTGTGATTAGTGTAAAAATAATGGTGACAGTAAAATTAAATATTAT
66 GGATGGACGGAACGTTTAACTGTGATTAGTGTAAAAATAATGGTGACAGTAAAATTAAATATTAT
47377688 AGTGATATTATAACGAAA
131 AGTGATATTATAACGAAA
47377706 GA
1 GA
47377708 CATAAAGTAA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (148 bp):
GAGGCTACTATGATCATGAAAACAGCCTGTGTCCTCACATGCTTGAGGATTTTTAGGGTGATTTT
GGATGGACGGAACGTTTAACTGTGATTAGTGTAAAAATAATGGTGACAGTAAAATTAAATATTAT
AGTGATATTATAACGAAA
Found at i:47388422 original size:17 final size:19
Alignment explanation
Indices: 47388400--47388437 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47388390 TTAGTATTAC
47388400 AATTTT-ATTTTAA-TAAT
1 AATTTTAATTTTAAGTAAT
47388417 AATTTTAAATTTTAAGTAAT
1 AATTTT-AATTTTAAGTAAT
47388437 A
1 A
47388438 TACTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTTAATTTTAAGTAAT
Found at i:47389881 original size:10 final size:10
Alignment explanation
Indices: 47389866--47389891 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
47389856 AACAGGAGGA
47389866 GAAGAGGGAT
1 GAAGAGGGAT
47389876 GAAGAGGGAT
1 GAAGAGGGAT
47389886 GAAGAG
1 GAAGAG
47389892 AAGCAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (10 bp):
GAAGAGGGAT
Found at i:47391347 original size:10 final size:10
Alignment explanation
Indices: 47391332--47391363 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
47391322 GACAGGTTTA
47391332 AATTTTCTTT
1 AATTTTCTTT
47391342 AATTTTCTTT
1 AATTTTCTTT
*
47391352 TATTTTCTTT
1 AATTTTCTTT
47391362 AA
1 AA
47391364 AGTACCGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (10 bp):
AATTTTCTTT
Found at i:47394002 original size:7 final size:7
Alignment explanation
Indices: 47393990--47394030 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
47393980 GGCCCTCTAT
47393990 GTTTTTC
1 GTTTTTC
47393997 GTTTTTC
1 GTTTTTC
47394004 GTTTTTC
1 GTTTTTC
47394011 GTTTTTC
1 GTTTTTC
47394018 GTTTTTC
1 GTTTTTC
47394025 GTTTTT
1 GTTTTT
47394031 TTAAGAGTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (7 bp):
GTTTTTC
Found at i:47394571 original size:22 final size:23
Alignment explanation
Indices: 47394546--47394590 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
47394536 ATACCATCAA
*
47394546 CTCATTTA-AAAATATATA-TAAT
1 CTCAATTATAAAATA-ATACTAAT
47394568 CTCAATTATAAAATAATACTAAT
1 CTCAATTATAAAATAATACTAAT
47394591 AATAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
CTCAATTATAAAATAATACTAAT
Found at i:47399576 original size:20 final size:20
Alignment explanation
Indices: 47399547--47399610 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
47399537 CTAAAATATC
47399547 TAAATCCTTAAATATTTTGG
1 TAAATCCTTAAATATTTTGG
*
47399567 TAAAGT-CTTAGAA-ATATTGG
1 TAAA-TCCTTA-AATATTTTGG
*
47399587 TAAATCCTTAGATATTTTGG
1 TAAATCCTTAAATATTTTGG
47399607 TAAA
1 TAAA
47399611 AGCTTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.05
20 32 0.86
21 3 0.08
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (20 bp):
TAAATCCTTAAATATTTTGG
Found at i:47407368 original size:24 final size:21
Alignment explanation
Indices: 47407326--47407369 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47407316 AACAGGTAAT
*
47407326 AATCACAAAAATTTCAAAATC
1 AATCACAAAAACTTCAAAATC
47407347 AATCATCAAACAACTTCGAAAAT
1 AATCA-CAAA-AACTTC-AAAAT
47407370 AAACTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 5 0.26
24 5 0.26
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.23
Consensus pattern (21 bp):
AATCACAAAAACTTCAAAATC
Found at i:47407731 original size:30 final size:32
Alignment explanation
Indices: 47407664--47407746 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 32
47407654 AAATTATAAA
* *
47407664 TTAATAAA-AATAAAATTATACTTTAACTTTT
1 TTAAAAAATAATAAAATTATAATTTAACTTTT
*
47407695 TCTAAAAAATAATAAAATTTTAATTT-A-TTTT
1 T-TAAAAAATAATAAAATTATAATTTAACTTTT
* *
47407726 TT-AAAAATTATAAAAATATAA
1 TTAAAAAATAATAAAATTATAA
47407747 ATTATTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 16 0.36
30 1 0.02
31 6 0.14
32 7 0.16
33 14 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (32 bp):
TTAAAAAATAATAAAATTATAATTTAACTTTT
Done.