Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 147 of 253
Found at i:47016803 original size:79 final size:81
Alignment explanation
Indices: 47016667--47016849 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
47016657 TCGAATGATG
* *
47016667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
47016731 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
47016746 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
47016808 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
47016826 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47016850 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:47016865 original size:40 final size:40
Alignment explanation
Indices: 47016668--47016851 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
47016658 CGAATGATGT
* * * *
47016668 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
47016708 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
47016748 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47016786 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47016827 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47016852 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47016873 original size:79 final size:79
Alignment explanation
Indices: 47016720--47016884 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
47016710 GGACTAAGAT
* **
47016720 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
47016785 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
47016799 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
47016862 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
47016878 CCGAAGG
1 CCGAAGG
47016885 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:47018612 original size:18 final size:18
Alignment explanation
Indices: 47018589--47018626 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
47018579 GGAATATACC
47018589 TATACTTAACATTGCACA
1 TATACTTAACATTGCACA
47018607 TATACTTAACATTGCACA
1 TATACTTAACATTGCACA
47018625 TA
1 TA
47018627 CTTATAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (18 bp):
TATACTTAACATTGCACA
Found at i:47022139 original size:28 final size:28
Alignment explanation
Indices: 47022074--47022183 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
47022064 TTAGGAAATG
*
47022074 AAGCCTTTGTGGCAAA-TCATGAAATG-A
1 AAGCCTTTGTGGCAAAGT-ATGAAAAGAA
* ** *
47022101 AAGCCTCTGTGGTGAAGTATGAAAATAA
1 AAGCCTTTGTGGCAAAGTATGAAAAGAA
*
47022129 TAA-CCTTTGTGGCAAAGTAAGAAAAGAA
1 -AAGCCTTTGTGGCAAAGTATGAAAAGAA
47022157 AAGCCTTTGTGGCAAAGTATGAAAAGA
1 AAGCCTTTGTGGCAAAGTATGAAAAGA
47022184 TCAGCTTCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
27 21 0.31
28 45 0.66
29 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (28 bp):
AAGCCTTTGTGGCAAAGTATGAAAAGAA
Found at i:47022175 original size:56 final size:55
Alignment explanation
Indices: 47022077--47022181 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 55
47022067 GGAAATGAAG
* * **
47022077 CCTTTGTGGCAAATCATGAAATGAAAGCCTCTGTGGTGAAGTATGAAAATAATAA
1 CCTTTGTGGCAAATCAAGAAAAGAAAGCCTCTGTGGCAAAGTATGAAAATAATAA
*
47022132 CCTTTGTGGCAAAGT-AAGAAAAGAAAAGCCTTTGTGGCAAAGTATGAAAA
1 CCTTTGTGGCAAA-TCAAGAAAAG-AAAGCCTCTGTGGCAAAGTATGAAAA
47022182 GATCAGCTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 19 0.44
56 24 0.56
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (55 bp):
CCTTTGTGGCAAATCAAGAAAAGAAAGCCTCTGTGGCAAAGTATGAAAATAATAA
Found at i:47023413 original size:18 final size:17
Alignment explanation
Indices: 47023363--47023416 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
47023353 ACTATATAGA
*
47023363 TGAAAAACAATGATATT
1 TGAAAAATAATGATATT
* **
47023380 TGAAATATTTTAGATATT
1 TGAAAAATAAT-GATATT
47023398 TGAAAAAATAATGATATT
1 TG-AAAAATAATGATATT
47023416 T
1 T
47023417 TAAATAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 7 0.25
18 15 0.54
19 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (17 bp):
TGAAAAATAATGATATT
Found at i:47026974 original size:21 final size:21
Alignment explanation
Indices: 47026933--47026975 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
47026923 TGATTTAACT
*
47026933 CCACTATTCATGAACTCGACA
1 CCACTATTCATAAACTCGACA
47026954 CCACTATTCATAAGACT-GACA
1 CCACTATTCATAA-ACTCGACA
47026975 C
1 C
47026976 TCTAAGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.23
Consensus pattern (21 bp):
CCACTATTCATAAACTCGACA
Found at i:47032302 original size:46 final size:46
Alignment explanation
Indices: 47032159--47032517 Score: 216
Period size: 47 Copynumber: 7.6 Consensus size: 46
47032149 TGTGTGCTAC
* * *
47032159 TGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCCAG
** * * *
47032205 TGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAG
*
47032253 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAG
* * *
47032299 TGTAAGACATGTCTGGGACATGCATCGG-CT--ACATGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-GAGCCAG
* * * * * *
47032343 TAG-AAGACCATGTCTAGGACATGGCATCGTCATGGATACATGAGAGTCAG
1 T-GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG--AGATGAGAGCCAG
* * ** * * *
47032393 TGTAAGACCATGTCTGGGATATTGCATC-GACTTAACG-TTAGAGTCAA
1 TGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCGA-GATGAGAGCCAG
* * *
47032440 TGTAAGACCATGTCTGGGACATGGCATC-GACT-TAGCATGAGAGCCGG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG-ATGAGAGCCAG
* *
47032487 TGTAACACCAGGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
47032518 ATTATACCCT
Statistics
Matches: 251, Mismatches: 41, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 9 0.04
45 17 0.07
46 60 0.24
47 99 0.39
48 23 0.09
49 3 0.01
50 28 0.11
51 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAG
Found at i:47032388 original size:140 final size:141
Alignment explanation
Indices: 47032159--47032421 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 141
47032149 TGTGTGCTAC
* *
47032159 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATGTCTAGGA
* *
47032224 CATGGCATCGGTATTGAGACGAGAG-CTAGTGTAAGA-CATGTTTGGGACA-TGCATCGGCCTCG
65 CATGGCATCGGTATGGAGACGAGAGTC-AGTGTAAGACCATGTCTGGGACATTGCATCGGCCTCG
47032286 AGATGTAAGCCAG
129 AGATGTAAGCCAG
* * * *
47032299 TGTAAGACATGTCTGGGACATGCATCGGCTACATGAT-GTGTCAGTAG-AAGACCATGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGT-GTAAGACCATGTCTAGGA
* *
47032362 CATGGCATC-GTCATGGATACATGAGAGTCAGTGTAAGACCATGTCTGGGATATTGCATCG
65 CATGGCATCGGT-ATGGAGAC--GAGAGTCAGTGTAAGACCATGTCTGGGACATTGCATCG
47032422 ACTTAACGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
137 2 0.02
138 36 0.34
139 1 0.01
140 48 0.45
141 12 0.11
142 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGTCTAGGAC
ATGGCATCGGTATGGAGACGAGAGTCAGTGTAAGACCATGTCTGGGACATTGCATCGGCCTCGAG
ATGTAAGCCAG
Found at i:47036377 original size:20 final size:20
Alignment explanation
Indices: 47036352--47036390 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47036342 AAAATTTCAA
47036352 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
47036372 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
47036391 AATAGGCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:47042623 original size:39 final size:39
Alignment explanation
Indices: 47042580--47042953 Score: 457
Period size: 39 Copynumber: 9.6 Consensus size: 39
47042570 AATATGTCTT
*
47042580 TGAGTATTGTGATATATGCTTTAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* ** * *
47042619 TGAGTATTGTGATATAAGCTTAAACATTTTGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
47042658 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * ** *
47042697 TGAGTTTTGTGATATATTCTTAAACATTATGTGACTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* **
47042736 TGAGTATTGTGACATATGCTTAAACATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
47042775 TGAGTATTAT-AGTATATGATTAAATGTTATATGATTATA
1 TGAGTATTGTGA-TATATGCTTAAATGTTATGTGATTATA
* * *
47042814 TGAGCACTATGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
47042853 TGAGGACTGTGA-ATTATGCTTAAACGTTATGTGATTATA
1 TGAGTATTGTGATA-TATGCTTAAATGTTATGTGATTATA
* * *
47042892 TGAGTATTGTGACAT-TGTTTAAATGTTATGTGATTACA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
47042930 TGTGTAATGTGATATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
47042954 AGTGAATATG
Statistics
Matches: 288, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
38 34 0.12
39 252 0.88
40 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:47042814 original size:8 final size:8
Alignment explanation
Indices: 47042761--47042855 Score: 63
Period size: 8 Copynumber: 12.1 Consensus size: 8
47042751 ATGCTTAAAC
*
47042761 ATTATGTG
1 ATTATATG
47042769 ATTATATG
1 ATTATATG
*
47042777 AGTATTAT-
1 ATTA-TATG
*
47042785 AGTATATG
1 ATTATATG
*
47042793 ATTAAATG
1 ATTATATG
47042801 -TTATATG
1 ATTATATG
47042808 ATTATATG
1 ATTATATG
**
47042816 AGCACTATG
1 ATTA-TATG
47042825 A-TATATG
1 ATTATATG
* *
47042832 CTTAAATG
1 ATTATATG
*
47042840 -TTATGTG
1 ATTATATG
47042847 ATTATATG
1 ATTATATG
47042855 A
1 A
47042856 GGACTGTGAA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
7 18 0.26
8 42 0.62
9 8 0.12
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (8 bp):
ATTATATG
Found at i:47046382 original size:18 final size:18
Alignment explanation
Indices: 47046334--47046385 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
47046324 CACTTAAGCG
*
47046334 AATTCTCAAACTTAAGTAA
1 AATT-TCAAACTTAAGAAA
* *
47046353 ACTTTCACACTTAAGAAA
1 AATTTCAAACTTAAGAAA
*
47046371 AATTTTAAACTTAAG
1 AATTTCAAACTTAAG
47046386 CACAATTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (18 bp):
AATTTCAAACTTAAGAAA
Found at i:47046574 original size:70 final size:70
Alignment explanation
Indices: 47046494--47047104 Score: 532
Period size: 70 Copynumber: 8.7 Consensus size: 70
47046484 TTGAGCTTGT
* * * ** *
47046494 GAGCCTTAAGATCACAGTTAGGAGTTTGAGCTC-TAGCTAACTATTTAGGAGGCTATGGTGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCAT-GCTAACTATTTTGGAGGCTGCGATGTTGA
*
47046558 ACTTGC
65 ACCTGC
* * * ** *
47046564 GAGCCTTAAGATCACAGCTGGGAGTTTGACCTCGCGTTAACTATTTTGGAGGCTGC-AGTGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGA-TGTTGA
* *
47046628 ACTTGT
65 ACCTGC
** * ** * * * * * *
47046634 GAGCCTTAAGATCACAACTGGGAGCTTGAGCTTACACTAACTGTTTAGAAGGCTGTGCTGTTAAA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
47046699 CCTGC
66 CCTGC
* * * * * *
47046704 AAGCCTTAAGATCACAGTTGGGAGTTTGAACTCATGCTAACTATTTTGTTA-GCTGCAAAGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTG-GAGGCTGCGATGTTGA
* *
47046768 ACATAC
65 ACCTGC
* *
47046774 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTA-TTTGAGAGGCTACAATGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTG-GAGGCTGCGATGTTGA
**
47046838 ACCTAT
65 ACCTGC
* ** *
47046844 GAGCCTTAAGATCACA-TCTGGGTGCTTGAGCTCGCGCTAACTATTTTGGAGGCTACGATGTTGA
1 GAGCCTTAAGATCACAGT-TGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGA
*
47046908 ACCTGT
65 ACCTGC
* * * ** * * ** * * *
47046914 GCGCCATAAAATCACAACTAGGAGCTTGAGCTAACACTAACTATTTTGGAGGTTGCGGTGTTCAA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
47046979 CCTGC
66 CCTGC
*
47046984 GAGCCTTAAGATCACAGTTGGAAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGC-ATGTTGAA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
**
47047048 CCTAT
66 CCTGC
* * * * * * * **
47047053 GAACCTTAAAATCAAAGCTAGGAGCTTGAGTTCGTGCTAACTGCTTTGGAGG
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGG
47047105 ATCATATAAA
Statistics
Matches: 437, Mismatches: 96, Indels: 17
0.79 0.17 0.03
Matches are distributed among these distances:
69 57 0.13
70 375 0.86
71 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (70 bp):
GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
CCTGC
Found at i:47046838 original size:210 final size:210
Alignment explanation
Indices: 47046495--47047082 Score: 646
Period size: 210 Copynumber: 2.8 Consensus size: 210
47046485 TGAGCTTGTG
* **
47046495 AGCCTTAAGATCACAGTTAGGAGTTTGAGCTC-TAGCTAACTATTTAGGAGGCTATGGTGTTGAA
1 AGCCTTAAGATCACAGTTAGGAGTTTGAGCTCAT-GCTAACTATTTTGGAGGCTGCGGTGTTGAA
* * * * ** * *
47046559 CTTGCGAGCCTTAAGATCACAGCTGGGAGTTTGACCTCGCGTTAACTATTTTGGAGGCTGCAGTG
65 CATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCAATG
* * * * *
47046624 TTGAACTTGTGAGCCTTAAGATCACAACTGGGAGCTTGAGCTTACACTAACTGTTTAGAAGGCTG
130 TTGAACCTATGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACACTAACTATTTAGAAGGCTA
* *
47046689 TGCTGTTAAACCTGCA
195 CGATGTTAAACCTGCA
* * * ***
47046705 AGCCTTAAGATCACAGTTGGGAGTTTGAACTCATGCTAACTATTTTGTTA-GCTGCAAAGTTGAA
1 AGCCTTAAGATCACAGTTAGGAGTTTGAGCTCATGCTAACTATTTTG-GAGGCTGCGGTGTTGAA
* *
47046769 CATACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTA-TTTGAGAGGCTACAAT
65 CATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTG-GAGGCTGCAAT
* * * * * *
47046833 GTTGAACCTATGAGCCTTAAGATCACATCTGGGTGCTTGAGCTCGCGCTAACTATTTTGGAGGCT
129 GTTGAACCTATGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACACTAACTATTTAGAAGGCT
* **
47046898 ACGATGTTGAACCTGTG
194 ACGATGTTAAACCTGCA
* * * ** * * ** * *
47046915 CGCCATAAAATCACAACTAGGAGCTTGAGCTAACACTAACTATTTTGGAGGTTGCGGTGTTCAAC
1 AGCCTTAAGATCACAGTTAGGAGTTTGAGCTCATGCTAACTATTTTGGAGGCTGCGGTGTTGAAC
* *
47046980 CTGCGAGCCTTAAGATCACAGTTGGAAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGC-ATGT
66 ATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCAATGT
* * *
47047044 TGAACCTATGAACCTTAAAATCA-AAGCTAGGAGCTTGAG
131 TGAACCTATGAGCCTTAAGATCACAA-CTGGGAGCTTGAG
47047083 TTCGTGCTAA
Statistics
Matches: 311, Mismatches: 61, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
208 1 0.00
209 41 0.13
210 263 0.85
211 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (210 bp):
AGCCTTAAGATCACAGTTAGGAGTTTGAGCTCATGCTAACTATTTTGGAGGCTGCGGTGTTGAAC
ATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCAATGT
TGAACCTATGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACACTAACTATTTAGAAGGCTAC
GATGTTAAACCTGCA
Found at i:47051227 original size:25 final size:25
Alignment explanation
Indices: 47051197--47051246 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
47051187 GAAATGTATG
*
47051197 ATTATTATGTTGTAAGTTCGATAAT
1 ATTATTATGTTGTAAGTCCGATAAT
*
47051222 ATTATTGTGTTGTAAGTCCGATAAT
1 ATTATTATGTTGTAAGTCCGATAAT
47051247 TCTCCGTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (25 bp):
ATTATTATGTTGTAAGTCCGATAAT
Found at i:47060970 original size:13 final size:13
Alignment explanation
Indices: 47060952--47060979 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47060942 ACAAAATTGA
47060952 AAAGATGATAAAT
1 AAAGATGATAAAT
47060965 AAAGATGATAAAT
1 AAAGATGATAAAT
47060978 AA
1 AA
47060980 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:47062049 original size:26 final size:26
Alignment explanation
Indices: 47062020--47062077 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
47062010 CTCGATATAT
47062020 GGCTCTTCGTAAGCTTCCCGATTAAA
1 GGCTCTTCGTAAGCTTCCCGATTAAA
* * ** *
47062046 GGCTCTTTGTGAGCTTCTTGATTAAT
1 GGCTCTTCGTAAGCTTCCCGATTAAA
47062072 GGCTCT
1 GGCTCT
47062078 CAGACGCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTTCCCGATTAAA
Found at i:47071101 original size:46 final size:45
Alignment explanation
Indices: 47071020--47071234 Score: 136
Period size: 46 Copynumber: 4.6 Consensus size: 45
47071010 GTGTCGATGC
47071020 CATGTCCCAGACATGATCTTACACT-GACTATCATCTC-ACAGCCGACG
1 CATGT-CCAGACAT-ATCTTACACTAG-CTATCATCTCGA-AGCCGACG
* *
47071067 CATGTCTCAGACATATCTTACACTAGCT-TACATCTCGAGGCCGATG
1 CATGTC-CAGACATATCTTACACTAGCTAT-CATCTCGAAGCCGACG
* * * *
47071113 CATGTCCTAGACATGTCTTACACTAGC-ACTCGTCTC-AATACCGATG
1 CATGTCC-AGACATATCTTACACTAGCTA-TCATCTCGAA-GCCGACG
* * * * ** *
47071159 CCATGTCCCAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCCGATG
1 -CATGT-CCAGACAT-ATCTTACACTAGCTATCAT-CTCGAAGCCGACG
*
47071207 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGT-CCAGACATATCTTACACTAGCT
47071235 CACACAAGTG
Statistics
Matches: 140, Mismatches: 14, Indels: 29
0.77 0.08 0.16
Matches are distributed among these distances:
45 3 0.02
46 73 0.52
47 40 0.29
48 23 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (45 bp):
CATGTCCAGACATATCTTACACTAGCTATCATCTCGAAGCCGACG
Found at i:47073197 original size:29 final size:28
Alignment explanation
Indices: 47073165--47073237 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
47073155 GACAACCATC
*
47073165 GAATATGAAAAGGGATAGCTTCGGCTATT
1 GAATATGAAAA-GGATAGCTTCAGCTATT
* * *
47073194 GAATATGAAAAGGCTAGGTTTAGCTATT
1 GAATATGAAAAGGATAGCTTCAGCTATT
*
47073222 GATTATGAAAATGGAT
1 GAATATGAAAA-GGAT
47073238 GGTGATGACC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 23 0.62
29 14 0.38
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (28 bp):
GAATATGAAAAGGATAGCTTCAGCTATT
Found at i:47074130 original size:47 final size:44
Alignment explanation
Indices: 47074060--47074183 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 44
47074050 TTTGTGCGCT
*
47074060 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGG---CATTGACGAGAGCC
* * *
47074106 ATTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCATT--GACGAGAGCC
47074154 AGTGTAAGACATGTCTGGGACATGCATTGG
1 AGTGTAAGACATGTCTGGGACATGCATTGG
47074184 ATACAACATG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 4 0.06
46 14 0.21
47 28 0.42
48 21 0.31
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCATTGACGAGAGCC
Found at i:47074245 original size:94 final size:93
Alignment explanation
Indices: 47074057--47074324 Score: 254
Period size: 94 Copynumber: 2.8 Consensus size: 93
47074047 TCATTTGTGC
* ** *
47074057 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCCATTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGACACAACAT-AGAGCCAGTGTAAGACCATGTC
**
47074122 TGGGACATGGCATCGGCATTGAGACGAGA
65 TGGGACATGGCATCGGCACAGAGACGAGA
* * * *
47074151 GCTAGTGTAAGACATGTCTGGGACATGCATTGGATACAACAT-GTGTCAGTGTAAGACCATGTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGACACAACATAGAGCCAGTGTAAGACCATGTCT
* *
47074215 GGGACATGGCATCGGCACAGATATGTGAGA
66 GGGACATGGCATCGGCACAGAGA--CGAGA
* * * * * ** * *
47074245 GTTAGTGTGAGATAATGTTTGGGACATGGCA-TCGACTTGATAGAT-GAACCAGTGTAAGACCAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGAC-ACA-ACATAGAGCCAGTGTAAGACCAT
*
47074308 GTCTGGGACATAGCATC
62 GTCTGGGACATGGCATC
47074325 AGCATTATAC
Statistics
Matches: 142, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
92 38 0.27
94 52 0.37
95 15 0.11
96 4 0.03
97 33 0.23
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGACACAACATAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCACAGAGACGAGA
Found at i:47074318 original size:47 final size:48
Alignment explanation
Indices: 47074060--47074324 Score: 140
Period size: 47 Copynumber: 5.6 Consensus size: 48
47074050 TTTGTGCGCT
* * * * * *
47074060 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCACATTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGA-TACGATGAACC
* * * * * *
47074106 ATTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TAGATACGATGAACC
* * ***
47074154 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGA-TACA-AC-ATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGACTAGATACGATGAACC
* * **
47074198 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-AGATATG-TGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTAGATACGATGA-A-CC
* ** * *
47074248 AGTGTGAGATAATGTTTGGGACATGGCATCGACTTGATA-GATGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGATACGATGAACC
*
47074295 AGTGTAAGACCATGTCTGGGACATAGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
47074325 AGCATTATAC
Statistics
Matches: 169, Mismatches: 34, Indels: 31
0.72 0.15 0.13
Matches are distributed among these distances:
43 1 0.01
44 13 0.08
45 16 0.09
46 15 0.09
47 58 0.34
48 29 0.17
49 9 0.05
50 28 0.17
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGATACGATGAACC
Found at i:47083909 original size:26 final size:26
Alignment explanation
Indices: 47083875--47083924 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
47083865 CATGCTATTA
47083875 TAATGCTTATTATTTTCATATGGAAT
1 TAATGCTTATTATTTTCATATGGAAT
47083901 TAATGCTTATTATTTTCATATGGA
1 TAATGCTTATTATTTTCATATGGA
47083925 CTTACTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (26 bp):
TAATGCTTATTATTTTCATATGGAAT
Found at i:47084641 original size:55 final size:54
Alignment explanation
Indices: 47084582--47084686 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 54
47084572 TTAGTATAGG
* * *
47084582 ACATGGATAGGTCAAACA-GGCGTGTCTCATAGCCGTGTCCCAAAGTCAGTATTGA
1 ACATGGACAGG-C-AACAGGGCATGTCTCATAGCCGTGTCCAAAAGTCAGTATTGA
* *
47084637 ACATGGACAGGCAGCATGGGCATGTGTCATAGCCGTGTCCAAAAGTCAGT
1 ACATGGACAGGCAACA-GGGCATGTCTCATAGCCGTGTCCAAAAGTCAGT
47084687 GTTGCCCACG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.07
54 1 0.02
55 39 0.91
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (54 bp):
ACATGGACAGGCAACAGGGCATGTCTCATAGCCGTGTCCAAAAGTCAGTATTGA
Found at i:47089510 original size:46 final size:46
Alignment explanation
Indices: 47089299--47089555 Score: 215
Period size: 46 Copynumber: 5.5 Consensus size: 46
47089289 TATGTGAGCT
* * * *
47089299 AGTGTAAGACATGTCTGGGACATGCATCGGAC-AC-ATCATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCGG-CTACGA-GATGATAGTC
* *
47089345 AGTGTAAGACCATGTCTGGGACATG-GTATCGG-TATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGACATGCG--TCGGCTA-CGAGATGATAGT-C
* * * * *
47089392 TAATGTAAGACATGTCTGGTACATGCATCGACCT-CGAGATG-TAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCGTCG-GCTACGAGATGAT-AGTC
* *
47089439 AATGTAAGACATGTCTGGGACATGCGTCGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
*
47089485 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
* *
47089531 AGAGTAAGATCATGTCAGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
47089556 GCATTGACAC
Statistics
Matches: 173, Mismatches: 22, Indels: 31
0.77 0.10 0.14
Matches are distributed among these distances:
45 2 0.01
46 106 0.61
47 47 0.27
48 17 0.10
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
Found at i:47094339 original size:27 final size:26
Alignment explanation
Indices: 47094309--47094364 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
47094299 TAAATTGATG
* *
47094309 AAATAATCGTTATACCCCTAAGAGGTA
1 AAATAA-CATTATAACCCTAAGAGGTA
* *
47094336 AAATGACATTATAACCCTATGAGGTA
1 AAATAACATTATAACCCTAAGAGGTA
47094362 AAA
1 AAA
47094365 GACTGATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (26 bp):
AAATAACATTATAACCCTAAGAGGTA
Found at i:47096209 original size:7 final size:7
Alignment explanation
Indices: 47096197--47096232 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
47096187 AGATTAGGTT
47096197 TAGAGGG
1 TAGAGGG
47096204 TAGAGGG
1 TAGAGGG
47096211 TAGAGGG
1 TAGAGGG
47096218 TAGAGGG
1 TAGAGGG
47096225 TAGAGGG
1 TAGAGGG
47096232 T
1 T
47096233 GACGGGGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.56, T:0.17
Consensus pattern (7 bp):
TAGAGGG
Found at i:47097987 original size:7 final size:7
Alignment explanation
Indices: 47097977--47098012 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
47097967 TAGTTTAAAG
47097977 TTCAAAA
1 TTCAAAA
47097984 TTCAAAA
1 TTCAAAA
*
47097991 TTTAAAA
1 TTCAAAA
47097998 TTCAAAAA
1 TTC-AAAA
47098006 TTCAAAA
1 TTCAAAA
47098013 ATAATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCAAAA
Found at i:47098564 original size:7 final size:7
Alignment explanation
Indices: 47098549--47098579 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
47098539 TTTAAATTTC
47098549 AAAATTA
1 AAAATTA
*
47098556 AAGATTA
1 AAAATTA
47098563 AAAATTA
1 AAAATTA
47098570 AAAATTA
1 AAAATTA
47098577 AAA
1 AAA
47098580 CATAATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:47098679 original size:19 final size:19
Alignment explanation
Indices: 47098645--47098689 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
47098635 ATTTATTATT
*
47098645 TATTATAA-AGATAAATAC
1 TATTATAATAAATAAATAC
*
47098663 TATTATAATAAATAAATAT
1 TATTATAATAAATAAATAC
47098682 TATT-TAAT
1 TATTATAAT
47098690 TACCATAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TATTATAATAAATAAATAC
Found at i:47101895 original size:65 final size:65
Alignment explanation
Indices: 47101819--47101950 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 65
47101809 AGTTTACCCT
*
47101819 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAGGTCATACCACGAAGATTTTAACTATCAAATAAC
1 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCACGAAGATTTTAACTATCAAATAAC
*
47101884 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCATGAAGATTTTAACTATCAAATAAC
1 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCACGAAGATTTTAACTATCAAATAAC
47101949 TT
1 TT
47101951 AAATGAAAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (65 bp):
TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCACGAAGATTTTAACTATCAAATAAC
Found at i:47103938 original size:12 final size:12
Alignment explanation
Indices: 47103923--47103966 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
47103913 TTGGGAATTA
47103923 GATTTGGGTTTG
1 GATTTGGGTTTG
47103935 GATTTGGGTTTG
1 GATTTGGGTTTG
*
47103947 GATTTGGATTTG
1 GATTTGGGTTTG
*
47103959 GGTTTGGG
1 GATTTGGG
47103967 GCTGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (12 bp):
GATTTGGGTTTG
Found at i:47103940 original size:6 final size:6
Alignment explanation
Indices: 47103923--47103965 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
47103913 TTGGGAATTA
* * *
47103923 GATTTG GGTTTG GATTTG GGTTTG GATTTG GATTTG GGTTTG G
1 GATTTG GATTTG GATTTG GATTTG GATTTG GATTTG GATTTG G
47103966 GGCTGAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (6 bp):
GATTTG
Found at i:47103952 original size:18 final size:18
Alignment explanation
Indices: 47103925--47103965 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
47103915 GGGAATTAGA
*
47103925 TTTGGGTTTGGATTTGGG
1 TTTGGATTTGGATTTGGG
47103943 TTTGGATTTGGATTTGGG
1 TTTGGATTTGGATTTGGG
47103961 TTTGG
1 TTTGG
47103966 GGCTGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.51
Consensus pattern (18 bp):
TTTGGATTTGGATTTGGG
Found at i:47105871 original size:18 final size:17
Alignment explanation
Indices: 47105845--47105879 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
47105835 TCATATTACG
47105845 GCCCATGTGGGCCCACAT
1 GCCCATGT-GGCCCACAT
*
47105863 GCCCGTGTGGCCCACAT
1 GCCCATGTGGCCCACAT
47105880 AGCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (17 bp):
GCCCATGTGGCCCACAT
Found at i:47106682 original size:58 final size:58
Alignment explanation
Indices: 47106618--47106737 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
47106608 CAAAGAGGGA
47106618 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
1 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
47106676 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
1 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
47106734 GAAA
1 GAAA
47106738 AGGAATGACT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.53, C:0.22, G:0.12, T:0.13
Consensus pattern (58 bp):
GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
Found at i:47115858 original size:29 final size:29
Alignment explanation
Indices: 47115797--47115858 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
47115787 ATTTGTACAT
* * *
47115797 GATGGATTCTGAAAAAGTAGTTTTGAGGG
1 GATGGATTCTGAAAAAATAGTTTTGACGA
*
47115826 GATGGGTTCT-AAAGAAATAGTTTTGACGA
1 GATGGATTCTGAAA-AAATAGTTTTGACGA
47115855 GATG
1 GATG
47115859 AGTTGAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (29 bp):
GATGGATTCTGAAAAAATAGTTTTGACGA
Found at i:47129396 original size:47 final size:47
Alignment explanation
Indices: 47129236--47129703 Score: 759
Period size: 47 Copynumber: 10.1 Consensus size: 47
47129226 GAAATGATAG
47129236 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47129283 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47129327 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
47129374 TAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47129421 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47129468 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47129515 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47129560 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47129607 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
47129653 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47129700 TAAG
1 TAAG
47129704 TCCCGAAGGG
Statistics
Matches: 400, Mismatches: 15, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
44 20 0.05
45 36 0.09
46 128 0.32
47 216 0.54
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47129588 original size:139 final size:140
Alignment explanation
Indices: 47129236--47129703 Score: 757
Period size: 139 Copynumber: 3.4 Consensus size: 140
47129226 GAAATGATAG
47129236 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
47129301 TGATGAATGTGAAAGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
47129364 ATATGTGTGA
131 ATATATGTGA
* * *
47129374 TAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
*
47129439 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
65 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47129504 TATATATGTGA
130 TATATATGTGA
47129515 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
47129578 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47129643 TATA-ATGTGA
130 TATATATGTGA
* * * * * * * * *
47129653 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47129704 TCCCGAAGGG
Statistics
Matches: 307, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
138 68 0.22
139 138 0.45
140 36 0.12
141 65 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (140 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGA
Found at i:47129599 original size:38 final size:40
Alignment explanation
Indices: 47129509--47129647 Score: 131
Period size: 46 Copynumber: 3.2 Consensus size: 40
47129499 AAGTGTATAT
47129509 ATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
47129550 TATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -----ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
47129596 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-G
1 -----ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
47129641 -TGTATAA
1 ATGTATAA
47129648 TGTGACAGGG
Statistics
Matches: 91, Mismatches: 0, Indels: 12
0.88 0.00 0.12
Matches are distributed among these distances:
38 4 0.04
39 3 0.03
45 13 0.14
46 37 0.41
47 34 0.37
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (40 bp):
ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
Found at i:47129684 original size:232 final size:232
Alignment explanation
Indices: 47129236--47129703 Score: 776
Period size: 232 Copynumber: 2.0 Consensus size: 232
47129226 GAAATGATAG
*
47129236 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
*
47129301 TGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 TGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
47129366 ATGTGTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
131 ATATGTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAA
* * * *
47129431 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 TAGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
47129468 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
47129533 TGATGAATGTGAAAGTGTATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TGATGAATGTGAAAGTGTATATATG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * *
47129598 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-ATGTGACAGGGCCGA
130 TATATGTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGA
* * *
47129662 GTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
195 ATAGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
47129700 TAAG
1 TAAG
47129704 TCCCGAAGGG
Statistics
Matches: 219, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
232 134 0.61
233 85 0.39
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (232 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATG
TGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAA
TAGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
Found at i:47129878 original size:37 final size:37
Alignment explanation
Indices: 47129822--47129900 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
47129812 CCGAGCTCTA
* * * *
47129822 AAGACCTGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTACGGGT
*
47129859 AAGACCCGATAACTTCGTGTGGAGATTATGTACGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
47129896 AAGAC
1 AAGAC
47129901 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
Found at i:47132813 original size:37 final size:37
Alignment explanation
Indices: 47132759--47132833 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
47132749 CTTGCCATGG
*
47132759 ATCCTAAACCATGACATGTAATCCAGATTGCATACTA
1 ATCCTAAACCATAACATGTAATCCAGATTGCATACTA
*
47132796 ATCCTAAACCATAACATGTAATCCGGATTGCATACTA
1 ATCCTAAACCATAACATGTAATCCAGATTGCATACTA
47132833 A
1 A
47132834 CTCCGGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (37 bp):
ATCCTAAACCATAACATGTAATCCAGATTGCATACTA
Found at i:47135600 original size:11 final size:11
Alignment explanation
Indices: 47135582--47135612 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47135572 CCGCCCGTGT
47135582 TAATTTTTATA
1 TAATTTTTATA
*
47135593 TTATTTTTATA
1 TAATTTTTATA
47135604 TAATTTTTA
1 TAATTTTTA
47135613 AATACATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:47135645 original size:18 final size:19
Alignment explanation
Indices: 47135612--47135656 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
47135602 TATAATTTTT
*
47135612 AAATACATATAAACATCAA
1 AAATACATAAAAACATCAA
*
47135631 AAATAC-TAAAAACAT-TA
1 AAATACATAAAAACATCAA
47135648 AAATACATA
1 AAATACATA
47135657 TTTCCCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATACATAAAAACATCAA
Found at i:47135865 original size:22 final size:22
Alignment explanation
Indices: 47135824--47135866 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47135814 TATCCAAATA
*
47135824 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGCAGCAAC
* *
47135846 ATAATAGTAAAATGGCAGCAA
1 ATAATAATAAAATAGCAGCAA
47135867 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAATAAAATAGCAGCAAC
Found at i:47137323 original size:14 final size:14
Alignment explanation
Indices: 47137304--47137337 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
47137294 CAACCGTGGG
47137304 CAACACTGACTTAT
1 CAACACTGACTTAT
47137318 CAACACTGACTTAT
1 CAACACTGACTTAT
47137332 CAACAC
1 CAACAC
47137338 GGCCATGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.24
Consensus pattern (14 bp):
CAACACTGACTTAT
Found at i:47138869 original size:101 final size:103
Alignment explanation
Indices: 47138720--47138939 Score: 356
Period size: 101 Copynumber: 2.2 Consensus size: 103
47138710 GTTGTATAAA
** * *
47138720 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
47138784 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
47138823 A-GGGTTGCTAAGTGCTGATT-CCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
47138886 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
47138924 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47138940 GATATCCATT
Statistics
Matches: 109, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
101 76 0.70
102 32 0.29
103 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:47138991 original size:70 final size:72
Alignment explanation
Indices: 47138859--47139009 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
47138849 TCATTGGTGG
* *
47138859 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47138923 GAGGGGT
66 GAGGGGT
***
47138930 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47138994 GAGGGGT
66 GAGGGGT
47139001 TGCTAAGTG
1 TGCTAAGTG
47139010 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:47146382 original size:26 final size:26
Alignment explanation
Indices: 47146347--47146397 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47146337 AATGTGAAAG
*
47146347 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47146373 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
47146398 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:47146435 original size:103 final size:102
Alignment explanation
Indices: 47146270--47146490 Score: 372
Period size: 103 Copynumber: 2.2 Consensus size: 102
47146260 TGTATATAAA
** * *
47146270 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
47146335 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
47146372 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47146436 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
47146475 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
47146491 GATATCCATT
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
102 27 0.24
103 84 0.75
104 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:47146542 original size:70 final size:72
Alignment explanation
Indices: 47146410--47146560 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
47146400 TCATTGGTGG
* *
47146410 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47146474 GAGGGGT
66 GAGGGGT
***
47146481 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
47146545 GAGGGGT
66 GAGGGGT
47146552 TGCTAAGTG
1 TGCTAAGTG
47146561 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:47155623 original size:40 final size:40
Alignment explanation
Indices: 47155465--47155609 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
47155455 GGATTGATAC
* *
47155465 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
47155504 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
47155545 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
47155585 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47155610 AGCTAGTAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 97 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47163731 original size:40 final size:40
Alignment explanation
Indices: 47163573--47163717 Score: 247
Period size: 40 Copynumber: 3.6 Consensus size: 40
47163563 GGATTGATAC
* *
47163573 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47163612 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
47163653 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
47163693 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47163718 AGCTAGTAGC
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 99 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47169004 original size:37 final size:37
Alignment explanation
Indices: 47168954--47169032 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47168944 TTATTACGAA
* * *
47168954 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47168991 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47169028 GTCTT
1 GTCTT
47169033 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47169356 original size:46 final size:47
Alignment explanation
Indices: 47169150--47169454 Score: 517
Period size: 46 Copynumber: 6.4 Consensus size: 47
47169140 GCCCTTCGGG
47169150 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGG-CCTATCACA-ATATATAC
47169200 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACA-ATATATAC
47169249 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACA-ATATATAC
47169297 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACAATATATAC
*
47169343 ACTTTCACATTCATCACATCGGCCATTAGGCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACAATATATAC
47169389 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACAATATATAC
47169436 ACTTTCACATTCATCACAT
1 ACTTTCACATTCATCACAT
47169455 ATCACATATA
Statistics
Matches: 252, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
46 84 0.33
47 33 0.13
48 56 0.22
49 75 0.30
50 4 0.02
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACAATATATAC
Found at i:47169445 original size:16 final size:16
Alignment explanation
Indices: 47169424--47169477 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
47169414 TTAGGCCTTA
47169424 TCACATATATACACTT
1 TCACATATATACACTT
*
47169440 TCACAT-TCAT-CACATA
1 TCACATAT-ATACAC-TT
47169456 TCACATATATACACTT
1 TCACATATATACACTT
47169472 TCACAT
1 TCACAT
47169478 TCATCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:47169459 original size:32 final size:32
Alignment explanation
Indices: 47169422--47169486 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
47169412 CATTAGGCCT
47169422 TATCACATATATACACTTTCACATTCATCACA
1 TATCACATATATACACTTTCACATTCATCACA
47169454 TATCACATATATACACTTTCACATTCATCACA
1 TATCACATATATACACTTTCACATTCATCACA
47169486 T
1 T
47169487 CGGCCATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (32 bp):
TATCACATATATACACTTTCACATTCATCACA
Found at i:47169464 original size:79 final size:79
Alignment explanation
Indices: 47169375--47169533 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
47169365 CCATTAGGCT
*
47169375 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTT
47169440 TCACATTCATCACA
66 TCACATTCATCACA
47169454 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTT
47169519 TCACATTCATCACA
66 TCACATTCATCACA
47169533 T
1 T
47169534 CGGCCATTAG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (79 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTT
TCACATTCATCACA
Found at i:47169485 original size:25 final size:25
Alignment explanation
Indices: 47169455--47169533 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
47169445 TTCATCACAT
47169455 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
47169480 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
47169502 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
47169527 ATCACAT
1 ATCACAT
47169534 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:47169553 original size:126 final size:125
Alignment explanation
Indices: 47169329--47169580 Score: 495
Period size: 126 Copynumber: 2.0 Consensus size: 125
47169319 CCATTAGGCC
47169329 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTT
47169394 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47169454 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC-TTATCACATATATACACTT
47169519 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47169580 T
1 T
47169581 CGGCCATTAG
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 45 0.36
126 81 0.64
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (125 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:47169593 original size:47 final size:47
Alignment explanation
Indices: 47169454--47169593 Score: 271
Period size: 47 Copynumber: 3.0 Consensus size: 47
47169444 ATTCATCACA
*
47169454 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCAT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
47169501 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
47169548 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47169594 ATACTATCAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:47173264 original size:46 final size:46
Alignment explanation
Indices: 47173204--47173447 Score: 348
Period size: 46 Copynumber: 5.3 Consensus size: 46
47173194 TTTGACATGA
* * * * *
47173204 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
*
47173250 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
47173296 TGCCATGGTATCTTTCAACCATGGTCTTA-TCCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCACGT
** *
47173342 TGTTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
47173388 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
47173434 TGCCATGGTGTCTT
1 TGCCATGGTATCTT
47173448 ACACATTTCA
Statistics
Matches: 182, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 5 0.03
46 177 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:47173449 original size:32 final size:32
Alignment explanation
Indices: 47173411--47173479 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
47173401 TTCAACCATG
47173411 GTCTTACACATTTCATATCAGGTTGCCATGGT
1 GTCTTACACATTTCATATCAGGTTGCCATGGT
47173443 GTCTTACACATTTCATATCAGGTTGCCATGGT
1 GTCTTACACATTTCATATCAGGTTGCCATGGT
*
47173475 ATCTT
1 GTCTT
47173480 TCAACCATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (32 bp):
GTCTTACACATTTCATATCAGGTTGCCATGGT
Found at i:47173456 original size:78 final size:78
Alignment explanation
Indices: 47173365--47173525 Score: 304
Period size: 78 Copynumber: 2.1 Consensus size: 78
47173355 TTCAACCATG
47173365 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
1 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
47173430 AGGTTGCCATGGT
66 AGGTTGCCATGGT
*
47173443 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
1 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
47173508 AGGTTGCCATGGT
66 AGGTTGCCATGGT
*
47173521 ATCTT
1 GTCTT
47173526 TCAACCATGG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.38
Consensus pattern (78 bp):
GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
AGGTTGCCATGGT
Found at i:47173486 original size:124 final size:124
Alignment explanation
Indices: 47173319--47173555 Score: 422
Period size: 124 Copynumber: 1.9 Consensus size: 124
47173309 TTCAACCATG
**
47173319 GTCTTATCCATTTCATATCACGTTGTTATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
1 GTCTTATCCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
47173384 ACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
66 ACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
*
47173443 GTCTTA-CACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTCTTATC-CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
47173507 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
65 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
47173556 AGAGCACACT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
123 1 0.01
124 107 0.99
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (124 bp):
GTCTTATCCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
ACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
Found at i:47173505 original size:46 final size:46
Alignment explanation
Indices: 47173443--47173555 Score: 226
Period size: 46 Copynumber: 2.5 Consensus size: 46
47173433 TTGCCATGGT
47173443 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
1 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
47173489 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
1 GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
47173535 GTCTTACACATTTCATATCAG
1 GTCTTACACATTTCATATCAG
47173556 AGAGCACACT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (46 bp):
GTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATG
Found at i:47176761 original size:58 final size:58
Alignment explanation
Indices: 47176682--47176795 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 58
47176672 AATTTGGTGC
*
47176682 ATGTAAGGTAGCTACTACATCTAGTA-GACTTCAATGAATGCGTAAAATTAAGTTGAGG
1 ATGTAAGGTAGCTACTACATCTAG-AGGACTTCAATGAATGCGGAAAATTAAGTTGAGG
* * *
47176740 ATGTAAGGTGGCTACTGCATCTAGAGGACTTCAATGAATGTGGAAAATTAAGTTGA
1 ATGTAAGGTAGCTACTACATCTAGAGGACTTCAATGAATGCGGAAAATTAAGTTGA
47176796 AGATATGCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 1 0.02
58 50 0.98
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (58 bp):
ATGTAAGGTAGCTACTACATCTAGAGGACTTCAATGAATGCGGAAAATTAAGTTGAGG
Found at i:47177435 original size:5 final size:5
Alignment explanation
Indices: 47177427--47177462 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
47177417 ATTATTAGAT
47177427 TATTA TATTA TATTA TATTA TATTA TATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
47177463 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:47177744 original size:33 final size:33
Alignment explanation
Indices: 47177702--47177768 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
47177692 AGGGAAAGAA
47177702 AGAAAAAGGGGAAATTAGGGATTTTAAAGTTTG
1 AGAAAAAGGGGAAATTAGGGATTTTAAAGTTTG
47177735 AGAAAAAGGGGAAATTAGGGATTTTAAAGTTTG
1 AGAAAAAGGGGAAATTAGGGATTTTAAAGTTTG
47177768 A
1 A
47177769 AGTTTAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (33 bp):
AGAAAAAGGGGAAATTAGGGATTTTAAAGTTTG
Found at i:47178423 original size:18 final size:19
Alignment explanation
Indices: 47178388--47178426 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
47178378 TGAGTATTGA
47178388 TATTGAATTGAATGAAAATG
1 TATTGAATTG-ATGAAAATG
47178408 TATTGAATTG-TGAAAATG
1 TATTGAATTGATGAAAATG
47178426 T
1 T
47178427 GTGAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (19 bp):
TATTGAATTGATGAAAATG
Found at i:47181021 original size:24 final size:23
Alignment explanation
Indices: 47180994--47181047 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
47180984 GCACTTTCAT
* *
47180994 ATGTACCTCCGGTTGCACCTCTTG
1 ATGTACATCCGATTGCACCT-TTG
*
47181018 ATGTAAATCCGATTGCACCTTTG
1 ATGTACATCCGATTGCACCTTTG
47181041 ATTGTAC
1 A-TGTAC
47181048 GCAAAAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (23 bp):
ATGTACATCCGATTGCACCTTTG
Found at i:47189769 original size:11 final size:11
Alignment explanation
Indices: 47189753--47189777 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47189743 ATTGATTACT
47189753 TTTAAAAATGA
1 TTTAAAAATGA
47189764 TTTAAAAATGA
1 TTTAAAAATGA
47189775 TTT
1 TTT
47189778 TTTCTCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTAAAAATGA
Found at i:47191587 original size:30 final size:28
Alignment explanation
Indices: 47191551--47191618 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
47191541 GTTGGACTTG
*
47191551 AATTTTAAAATATGAAAAATAGAAAGACTA
1 AATTTTAAAA-AT-AAAAATACAAAGACTA
*
47191581 AATTTTATGAAATAAAAATACAAAGACTA
1 AATTTTA-AAAATAAAAATACAAAGACTA
47191610 AATTCTTAA
1 AATT-TTAA
47191619 TTTTCAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 19 0.58
30 12 0.36
31 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (28 bp):
AATTTTAAAAATAAAAATACAAAGACTA
Found at i:47193193 original size:28 final size:28
Alignment explanation
Indices: 47193161--47193215 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
47193151 CTTTTTTCCA
*
47193161 CAACGACTATTTAATTAGCTGTTGGGAT
1 CAACGACTATTTAATTAGCAGTTGGGAT
47193189 CAACGACTATTTAATTAGCAGTTGGGA
1 CAACGACTATTTAATTAGCAGTTGGGA
47193216 CCAATGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (28 bp):
CAACGACTATTTAATTAGCAGTTGGGAT
Found at i:47193448 original size:6 final size:6
Alignment explanation
Indices: 47193439--47193465 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47193429 AATGTATCGC
47193439 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
47193466 TAAAGAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:47196261 original size:46 final size:46
Alignment explanation
Indices: 47196210--47196532 Score: 391
Period size: 46 Copynumber: 7.0 Consensus size: 46
47196200 GTGTGCTCTC
* *
47196210 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
47196256 TGATATGAAATGTGTAAGACCATGGTTGCAAGGTACCATGACAACCA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CA
*
47196303 -GATATGAAATGAATAAGACCATGGTTGAAAGA-ACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
47196347 TGATGGGAAATGAATAAGCCCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * * *
47196393 TGATGGGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAGCA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
47196439 TGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
47196485 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
47196531 TG
1 TG
47196533 TCAAAGATAA
Statistics
Matches: 244, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
44 2 0.01
45 39 0.16
46 202 0.83
47 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:47196546 original size:137 final size:137
Alignment explanation
Indices: 47196224--47196546 Score: 328
Period size: 137 Copynumber: 2.4 Consensus size: 137
47196214 ATGAAATGTG
* * * *** *** * * *
47196224 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGCAAGG
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGATGCAAAATAAATAAAACCATGGTTGAAAGA
* * ** *
47196289 TACCATGACAACCAGATATGAAATGAATAAGACCATGGTTGAAAGAACCATGGCAACATGATGGG
66 TACCATGACAACCAGACATGAAATGAATAAGACCATGGTTGAAAAAACCATGGCAACATGACAGA
47196354 AAATGAA
131 AAATGAA
* * * ** *
47196361 TAAGCCCATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAAACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGATGCAAAATAAATAAAACCATGGTTGAAAGA
* * **
47196426 TACCATGGC-AGCATGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACA
66 TACCATGACAACCA-GACATGAAATGAATAAGACCATGGTTGAAAAA-ACCATGGCAACATGACA
*
47196490 GAAAATGAG
129 GAAAATGAA
* *
47196499 TAAGACCATAGTTGAAAGACACTATGGCATCATG-T-CAAAGATAAATAA
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGATGCAAA-ATAAATAA
47196547 GACCGTGGAT
Statistics
Matches: 156, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
136 5 0.03
137 100 0.64
138 51 0.33
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATAGTTGAAAGACACCATGGCAACATGATGCAAAATAAATAAAACCATGGTTGAAAGA
TACCATGACAACCAGACATGAAATGAATAAGACCATGGTTGAAAAAACCATGGCAACATGACAGA
AAATGAA
Found at i:47196834 original size:16 final size:17
Alignment explanation
Indices: 47196813--47196845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47196803 ATGATGGTGC
*
47196813 ATGAAAT-ATTGATATA
1 ATGAAATGATTAATATA
47196829 ATGAAATGATTAATATA
1 ATGAAATGATTAATATA
47196846 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTAATATA
Found at i:47203760 original size:46 final size:46
Alignment explanation
Indices: 47203707--47203882 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 46
47203697 TGGTTGAGCA
* *
47203707 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
** * *** * ** ** *
47203753 TTAGAACTCGTTGAGTTAAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGTAAACG
* * *
47203800 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
47203846 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47203883 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 31, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
46 68 0.69
47 30 0.31
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:47203868 original size:93 final size:93
Alignment explanation
Indices: 47203704--47203874 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
47203694 GGATGGTTGA
* * **
47203704 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTAGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCAGAACTCGTTGAGT
47203769 TAAGTCCGAGTTCGAGAGATGTAACTAG
66 TAAGTCCGAGTTCGAGAGATGTAACTAG
* ** * *
47203797 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCAGAACTCGTTGAGT
*
47203862 TGAGTCCGAGTTC
66 TAAGTCCGAGTTC
47203875 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCAGAACTCGTTGAGT
TAAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:47209426 original size:18 final size:20
Alignment explanation
Indices: 47209390--47209431 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
47209380 GAGATGTTTC
47209390 CTTTGGAACTCATTAAGTT-
1 CTTTGGAACTCATTAAGTTA
* *
47209409 CTTT-GAACTTATTTAGTTA
1 CTTTGGAACTCATTAAGTTA
47209428 CTTT
1 CTTT
47209432 TCCTTCTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (20 bp):
CTTTGGAACTCATTAAGTTA
Found at i:47226268 original size:15 final size:16
Alignment explanation
Indices: 47226230--47226299 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 16
47226220 GTATCTTGGG
47226230 TTCTTTA-TCATGGAT
1 TTCTTTATTCATGGAT
*
47226245 ATCTTTATTC-TGGAT
1 TTCTTTATTCATGGAT
*
47226260 TTCTTTATTC-CGG-T
1 TTCTTTATTCATGGAT
* *
47226274 TTCTCTA-TCTTGGAT
1 TTCTTTATTCATGGAT
47226289 TTCTTTTATTC
1 TTC-TTTATTC
47226300 GGTTTCCTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
13 2 0.05
14 9 0.20
15 26 0.59
16 5 0.11
17 2 0.05
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.57
Consensus pattern (16 bp):
TTCTTTATTCATGGAT
Found at i:47231728 original size:14 final size:14
Alignment explanation
Indices: 47231711--47231745 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
47231701 TATCTTGGGT
47231711 TCTTTATCTGGATA
1 TCTTTATCTGGATA
*
47231725 TCTTTATCTGGATT
1 TCTTTATCTGGATA
47231739 TCTTTAT
1 TCTTTAT
47231746 TCCGGTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.57
Consensus pattern (14 bp):
TCTTTATCTGGATA
Found at i:47247535 original size:27 final size:27
Alignment explanation
Indices: 47247505--47247654 Score: 126
Period size: 28 Copynumber: 5.5 Consensus size: 27
47247495 CAATCAACTT
* *
47247505 GCACACTTAGTGCCACGTAATCAAATC
1 GCACACTTAGTGCCACATAGTCAAATC
* *
47247532 GCACCACTTAGTG-CACATAGTTAGACTC
1 GCA-CACTTAGTGCCACATAGTCA-AATC
* * *
47247560 GCACACTTTAGTGCCGCATGGTCAATTC
1 GCACAC-TTAGTGCCACATAGTCAAATC
* **
47247588 GCACACTTAGTG--ATCATATTCATTTC
1 GCACACTTAGTGCCA-CATAGTCAAATC
* *
47247614 GCACACTTAGTGCAACATAGTCGAATC
1 GCACACTTAGTGCCACATAGTCAAATC
47247641 GCACAACTTAGTGC
1 GCAC-ACTTAGTGC
47247655 TGTACAATTT
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
26 21 0.21
27 31 0.31
28 40 0.40
29 7 0.07
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCCACATAGTCAAATC
Found at i:47255481 original size:27 final size:27
Alignment explanation
Indices: 47255432--47255608 Score: 142
Period size: 27 Copynumber: 6.5 Consensus size: 27
47255422 ATATTGAGCC
* * * *
47255432 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
47255459 TGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
47255486 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCCACATAATCA-ACT
* ** *
47255514 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
47255541 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
47255568 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCCACATAATC-AACT
47255595 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47255609 TGTACAATTT
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 96 0.79
28 24 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:47260993 original size:72 final size:75
Alignment explanation
Indices: 47260904--47261068 Score: 248
Period size: 76 Copynumber: 2.2 Consensus size: 75
47260894 GACAATCACC
* *
47260904 TTCTCATTACCAAACTTCTCATAGTAATC-AA-AA-AACCTACAAAATTGAAAT-GAACAATACA
1 TTCTCATTACCACACTTCTCATAGTAATCGAATAACAACCTACAAAAGTG-AATGGAACAATACA
47260965 ACACATGTATT
65 ACACATGTATT
* *
47260976 TTCTCATTACCACACTTCTCATAGTAATCGAATAACCTACCTATAAAAGTGAATGGAACAATACA
1 TTCTCATTACCACACTTCTCATAGTAATCGAATAA-CAACCTACAAAAGTGAATGGAACAATACA
47261041 ACACATGTATT
65 ACACATGTATT
47261052 TTCTCATTACCACACTT
1 TTCTCATTACCACACTT
47261069 TTTATCTTTA
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
72 28 0.33
73 2 0.02
74 2 0.02
75 3 0.04
76 49 0.58
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (75 bp):
TTCTCATTACCACACTTCTCATAGTAATCGAATAACAACCTACAAAAGTGAATGGAACAATACAA
CACATGTATT
Found at i:47267624 original size:6 final size:6
Alignment explanation
Indices: 47267580--47267635 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
47267570 GAAGTCTAAG
* * * * *
47267580 AAAATA ACAATA AACATA AAAATA GAAATA ATAAGA AAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
47267627 TAAAATA AA
1 -AAAATA AA
47267636 TGGACTCAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:47269204 original size:18 final size:18
Alignment explanation
Indices: 47269181--47269243 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
47269171 GAGAAATTGC
47269181 TAATAATAATACTACTAA
1 TAATAATAATACTACTAA
* *
47269199 TAATAATAATA-AAATGAAA
1 TAATAATAATACTACT--AA
47269218 TAA-AATAAT-CTATCTAA
1 TAATAATAATACTA-CTAA
47269235 TAATAATAA
1 TAATAATAA
47269244 AAGATAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.19
18 23 0.64
19 6 0.17
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAATAATACTACTAA
Found at i:47269261 original size:36 final size:36
Alignment explanation
Indices: 47269185--47269258 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
47269175 AATTGCTAAT
*
47269185 AATAATACTACTAATAATAATAATAAAATGAAATAA
1 AATAATACTACTAATAATAATAATAAAAAGAAATAA
47269221 AATAAT-CTATCTAATAATAATAA-AAGATAAGAAATAA
1 AATAATACTA-CTAATAATAATAATAA-A-AAGAAATAA
47269258 A
1 A
47269259 TAAAGAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
35 5 0.15
36 20 0.59
37 9 0.26
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (36 bp):
AATAATACTACTAATAATAATAATAAAAAGAAATAA
Found at i:47289873 original size:40 final size:40
Alignment explanation
Indices: 47289815--47289992 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
47289805 TAACCACTCG
* * * *
47289815 CAAA-GCCATCGGGCCTTAGCCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
47289854 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
***
47289894 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTTTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
47289934 CAAATGCCTTCGGGACTTAACCCAGA-ATTAATCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
*
47289974 CAAATGTCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
47289993 ACCCCGTTAT
Statistics
Matches: 121, Mismatches: 16, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
39 5 0.04
40 116 0.96
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:47289919 original size:80 final size:80
Alignment explanation
Indices: 47289785--47289992 Score: 237
Period size: 80 Copynumber: 2.6 Consensus size: 80
47289775 ACCTAATTAT
* * * * *
47289785 CTTCGGGATTTAG-CCGGATATAACCACTCG--CAAA-GCCATCGGGCCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
47289846 CACTAGCACAAATGC
66 AACTAGCACAAATGC
* *
47289861 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
***
47289926 AACTTTTACAAATGC
66 AACTAGCACAAATGC
* * * *
47289941 CTTCGGGACTTAACCCAGA-ATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATA-TAATCACTCGCACAAATGCCTTCGGGACTTA
47289993 ACCCCGTTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
76 12 0.11
77 14 0.13
79 5 0.05
80 79 0.72
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGC
Found at i:47300690 original size:51 final size:52
Alignment explanation
Indices: 47300577--47300752 Score: 224
Period size: 51 Copynumber: 3.5 Consensus size: 52
47300567 ACTAGTGACT
* *
47300577 CAAGTGTGGTACAATGTGATGGCCAC--TTTGAA-AAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAA-AGATAGCTTTGGTCA
*
47300626 CAAGTGTGCTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
*
47300678 CAAGT-TGGTACTATGTGAAGGCCACTTTTTGAAG-AAG-TAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTC-A
* *
47300727 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
47300753 CGGGTATCCG
Statistics
Matches: 114, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
48 2 0.02
49 35 0.31
50 22 0.19
51 41 0.36
52 14 0.12
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
Found at i:47302408 original size:16 final size:17
Alignment explanation
Indices: 47302375--47302409 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
47302365 GTGTCCCAAG
47302375 CCACACGGGCATGTGTGA
1 CCACACGGGCA-GTGTGA
47302393 CCACACGGGC-GTGTGA
1 CCACACGGGCAGTGTGA
47302409 C
1 C
47302410 TCTCCAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.20, C:0.31, G:0.34, T:0.14
Consensus pattern (17 bp):
CCACACGGGCAGTGTGA
Found at i:47319851 original size:43 final size:43
Alignment explanation
Indices: 47319803--47319947 Score: 186
Period size: 43 Copynumber: 3.4 Consensus size: 43
47319793 CTAGATATGC
* *
47319803 TCTTACATGTTATCATGTATCGATGCCAATGTCCCAGACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAGACATGG
* * *
47319846 TCTTACACGAAATCATATAACGATGCCAATGTCCCAGACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAGACATGG
*
47319889 TCTTACATGTAATCGCA-ATAT-GATGCCAATGTCTCAGACATGG
1 TCTTACATGTAAT--CATATATCGATGCCAATGTCCCAGACATGG
**
47319932 TCTTACACATAATCAT
1 TCTTACATGTAATCAT
47319948 GTCTTGTTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
43 81 0.92
44 3 0.03
45 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
TCTTACATGTAATCATATATCGATGCCAATGTCCCAGACATGG
Found at i:47321297 original size:33 final size:33
Alignment explanation
Indices: 47321246--47321325 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
47321236 TTAGCCCCTC
*
47321246 TTTCGGTAGCAGTAGCAGTCTGGGCCTAAGCCCA
1 TTTCAGTA-CAGTAGCAGTCTGGGCCTAAGCCCA
* *
47321280 -TTCAGTAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGT-ACAGTAGCAGTCTGGGCCTAAGCCCA
47321313 TTTCAGTACAGTA
1 TTTCAGTACAGTA
47321326 TACAAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 33 0.82
34 7 0.17
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (33 bp):
TTTCAGTACAGTAGCAGTCTGGGCCTAAGCCCA
Found at i:47322381 original size:18 final size:18
Alignment explanation
Indices: 47322358--47322392 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47322348 TAAGAGTGAG
47322358 GGATAATAATATTTGGCA
1 GGATAATAATATTTGGCA
47322376 GGATAATAATATTTGGC
1 GGATAATAATATTTGGC
47322393 CAACACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (18 bp):
GGATAATAATATTTGGCA
Found at i:47329183 original size:40 final size:40
Alignment explanation
Indices: 47329125--47329302 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
47329115 TAACCACTCG
* * * *
47329125 CAAA-GCCATCGGGCCTTAGCCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
47329164 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
47329204 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * * * *
47329244 AAAATGCCTTCGGGACTTAACCC-AAAATTAATCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
*
47329284 CAAATGTCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
47329303 ACCCCGTTAT
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.05
40 117 0.95
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:47329229 original size:80 final size:80
Alignment explanation
Indices: 47329095--47329302 Score: 237
Period size: 80 Copynumber: 2.6 Consensus size: 80
47329085 ACCCAATTAT
* * * * *
47329095 CTTCGGGATTTAG-CCGGATATAACCACTCG--CAAA-GCCATCGGGCCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
47329156 CACTAGCACAAATGC
66 AACTAGCAAAAATGC
* *
47329171 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
47329236 AACTCGCAAAAATGC
66 AACTAGCAAAAATGC
* * * * *
47329251 CTTCGGGACTTAACCC-AAAATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATA-TAATCACTCGCACAAATGCCTTCGGGACTTA
47329303 ACCCCGTTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
76 12 0.11
77 14 0.13
79 6 0.05
80 78 0.71
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCAAAAATGC
Found at i:47339998 original size:52 final size:52
Alignment explanation
Indices: 47339890--47340067 Score: 233
Period size: 51 Copynumber: 3.5 Consensus size: 52
47339880 ACTAGTGACT
* *
47339890 CAAGTGTGGTACAATGTGATGGCCAC--TTTGAA-AAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAA-AGATAGCTTTGGTCA
*
47339939 CAAGTGTGCTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
* *
47339991 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTC-A
* *
47340042 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
47340068 CGGGTATCCG
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
49 23 0.20
50 2 0.02
51 48 0.41
52 43 0.37
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAAGATAGCTTTGGTCA
Found at i:47341727 original size:16 final size:17
Alignment explanation
Indices: 47341694--47341728 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
47341684 GTGTCCCAAG
47341694 CCACACGGGCATGTGTGA
1 CCACACGGGCA-GTGTGA
47341712 CCACACGGGC-GTGTGA
1 CCACACGGGCAGTGTGA
47341728 C
1 C
47341729 TCTCCAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.20, C:0.31, G:0.34, T:0.14
Consensus pattern (17 bp):
CCACACGGGCAGTGTGA
Found at i:47345536 original size:50 final size:50
Alignment explanation
Indices: 47345461--47345697 Score: 204
Period size: 50 Copynumber: 4.7 Consensus size: 50
47345451 CTGGTACGCA
* * *
47345461 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCCGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
* * * * * *
47345511 TAGTAGCCTACACTTAGTATTACACACGTGACCTAACCATCTGATATATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
* * * * ** * ** ** * * *
47345561 TAGTATCTTGTACTTAGTACTACACACGTGTTCGAAGCTGTAGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CAATCTGATACACG
* ** *
47345612 TAGTAGCCTACACTTAGTACTACACATACGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
* *
47345662 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
47345698 AACTGTCTTA
Statistics
Matches: 141, Mismatches: 45, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
50 110 0.78
51 31 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:47347263 original size:13 final size:13
Alignment explanation
Indices: 47347245--47347269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47347235 GCTCAAACGT
47347245 CAAAATTTTCAAA
1 CAAAATTTTCAAA
47347258 CAAAATTTTCAA
1 CAAAATTTTCAA
47347270 GAAATCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:47348467 original size:22 final size:22
Alignment explanation
Indices: 47348441--47348503 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
47348431 CCACCCTGTA
*
47348441 AACCCCCTGCGAGCCTCATGTG
1 AACCCCTTGCGAGCCTCATGTG
* * *
47348463 AACCCCTTGAGAACCCCATGTG
1 AACCCCTTGCGAGCCTCATGTG
*
47348485 -AGCCCTTGCGAGCACTCAT
1 AACCCCTTGCGAGC-CTCAT
47348504 ACGAATCCCT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.22, C:0.38, G:0.21, T:0.19
Consensus pattern (22 bp):
AACCCCTTGCGAGCCTCATGTG
Found at i:47364278 original size:43 final size:43
Alignment explanation
Indices: 47364230--47364374 Score: 186
Period size: 43 Copynumber: 3.4 Consensus size: 43
47364220 CTAGATATGC
* *
47364230 TCTTACATGTTATCATGTATCGATGCCAATGTCCCAGACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAGACATGG
* * *
47364273 TCTTACACGAAATCATATAACGATGCCAATGTCCCAGACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAGACATGG
*
47364316 TCTTACATGTAATCGCA-ATAT-GATGCCAATGTCTCAGACATGG
1 TCTTACATGTAAT--CATATATCGATGCCAATGTCCCAGACATGG
**
47364359 TCTTACACATAATCAT
1 TCTTACATGTAATCAT
47364375 GTCTTGTTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
43 81 0.92
44 3 0.03
45 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
TCTTACATGTAATCATATATCGATGCCAATGTCCCAGACATGG
Found at i:47365724 original size:33 final size:33
Alignment explanation
Indices: 47365673--47365752 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
47365663 TTAGCCCCTC
*
47365673 TTTCGGTAGCAGTAGCAGTCTGGGCCTAAGCCCA
1 TTTCAGTA-CAGTAGCAGTCTGGGCCTAAGCCCA
* *
47365707 -TTCAGTAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGT-ACAGTAGCAGTCTGGGCCTAAGCCCA
47365740 TTTCAGTACAGTA
1 TTTCAGTACAGTA
47365753 TACAAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 33 0.82
34 7 0.17
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (33 bp):
TTTCAGTACAGTAGCAGTCTGGGCCTAAGCCCA
Found at i:47366808 original size:18 final size:18
Alignment explanation
Indices: 47366785--47366819 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47366775 TAAGAGTGAG
47366785 GGATAATAATATTTGGCA
1 GGATAATAATATTTGGCA
47366803 GGATAATAATATTTGGC
1 GGATAATAATATTTGGC
47366820 CAACACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (18 bp):
GGATAATAATATTTGGCA
Found at i:47378303 original size:27 final size:27
Alignment explanation
Indices: 47378258--47378409 Score: 130
Period size: 27 Copynumber: 5.6 Consensus size: 27
47378248 TTGGTTTACC
* ** *
47378258 AAATTACGAAAATGTCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAGTTTGTA
* **
47378285 AAATTACCAAAGTACCCTC-GATTTACA
1 AAATTACCAAAATACCCTCAG-TTTGTA
* * ** **
47378312 AAATTACTAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCAGTTTGTA
47378339 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
*
47378366 AAATTACCAAAATACCACT-AGTTTGTG
1 AAATTACCAAAATACC-CTCAGTTTGTA
47378393 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
47378410 CTGATTTACA
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.01
27 99 0.97
28 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAGTTTGTA
Found at i:47378397 original size:81 final size:82
Alignment explanation
Indices: 47378248--47378436 Score: 206
Period size: 81 Copynumber: 2.3 Consensus size: 82
47378238 TTAGAATACT
* * ** * *
47378248 TTGGTTTACCAAATTACGAAAAT-GTCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACA
1 TTGGTTTACAAAATTACCAAAATACCCCTCAATTTGTAAAATTACCAAAATACCCTAGATTTACA
*
47378312 AAATTACTAAAATACCA
66 AAATTACCAAAATACCA
* **
47378329 TTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCACTAG-TTTGT
1 TTGGTTTACAAAATTACCAAAATACCCCTCAATTTGTAAAATTACCAAAATACC-CTAGATTTAC
* *
47378392 GAAATTACCAAAATACCC
65 AAAATTACCAAAATACCA
* *
47378410 CTGATTTACAAAATTA-CAGAAATACCC
1 TTGGTTTACAAAATTACCA-AAATACCC
47378437 TTGGCTTTCT
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.02
81 83 0.91
82 6 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (82 bp):
TTGGTTTACAAAATTACCAAAATACCCCTCAATTTGTAAAATTACCAAAATACCCTAGATTTACA
AAATTACCAAAATACCA
Found at i:47378487 original size:27 final size:27
Alignment explanation
Indices: 47378284--47378522 Score: 180
Period size: 27 Copynumber: 8.8 Consensus size: 27
47378274 CTCAATTTGT
* * *
47378284 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTAC
* *
47378311 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTAC
* * **
47378338 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAC
* **
47378365 AAAATTACCAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTAC
* * *
47378392 GAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTAC
47378419 AAAATTA-CAGAAATACCCTTGGCTTT-C
1 AAAATTACCA-AAATACCCTTGG-TTTAC
* *
47378446 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACCA-AAATACCCTTGGTTTAC
** **
47378475 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAC
* * *
47378502 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
47378523 TAGGATGAAA
Statistics
Matches: 174, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.02
27 142 0.82
28 8 0.05
29 21 0.12
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTAC
Found at i:47378591 original size:27 final size:26
Alignment explanation
Indices: 47378530--47378617 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
47378520 TTGTAGGATG
* *
47378530 AAATGACTAAAATACCCCTAATAGGTA
1 AAATGACCATAATACCCCT-ATAGGTA
*
47378557 AAAAGACCATAA-AGCCCCTATAGGGTA
1 AAATGACCATAATA-CCCCTATA-GGTA
* * *
47378584 AAGTGACCGTAATACCCCTGTATGGTA
1 AAATGACCATAATACCCCTATA-GGTA
47378611 AAATGAC
1 AAATGAC
47378618 GAACATGCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.08
27 44 0.90
28 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATGACCATAATACCCCTATAGGTA
Found at i:47379465 original size:25 final size:25
Alignment explanation
Indices: 47379427--47379496 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
47379417 AGGAAGTGCT
* *
47379427 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
47379452 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
47379477 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
47379497 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:47379750 original size:30 final size:31
Alignment explanation
Indices: 47379716--47379786 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
47379706 CGCTTACAGT
*
47379716 AAAGGCTTCGG-CCAGTGATATGACTTATGA
1 AAAGGCTTCGGCCCAATGATATGACTTATGA
*
47379746 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGACTTATGA
47379777 AAAGGCTTCG
1 AAAGGCTTCG
47379787 ACCTAGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGACTTATGA
Found at i:47381996 original size:27 final size:27
Alignment explanation
Indices: 47381960--47382296 Score: 165
Period size: 27 Copynumber: 12.5 Consensus size: 27
47381950 AATACTTTAG
* * *
47381960 TTTACCAAATTACTAAAATATCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
** * *
47381987 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
*** *
47382014 TTTACAAAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* **** *
47382041 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* * *** *
47382068 TTTATAGAATTACCATTTTACCCTTAA
1 TTTACAAAATTACCAAAATACCCTCAA
*** *
47382095 TTTACAAAATTACCATTTTACCCTCTA
1 TTTACAAAATTACCAAAATACCCTCAA
* * *** *
47382122 TTTACAGAATTATCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* * ***
47382149 TTTACAAAATTACTAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTCAA
*
47382176 TTTACAAAATTACCAAAATACCC-CTAG
1 TTTACAAAATTACCAAAATACCCTC-AA
** * ***
47382203 TTTGTAAAATTACCAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTCAA
*** * *
47382230 TTTGTGAAATTATCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
** *
47382257 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-AA
47382284 TTTACAAAATTAC
1 TTTACAAAATTAC
47382297 AGAAAAATTA
Statistics
Matches: 251, Mismatches: 56, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 1 0.00
27 250 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCAA
Found at i:47382052 original size:54 final size:54
Alignment explanation
Indices: 47381992--47382190 Score: 227
Period size: 54 Copynumber: 3.7 Consensus size: 54
47381982 CTCAATTTGT
*
47381992 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
* *** * * **
47382046 AGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
** * * *
47382100 AAAATTACCATTTTACCCTCTATTTACAGAATTATCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
* * * * *
47382154 AAAATTACTAAAATACCATTGGTTTACAAAATTACCA
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACCA
47382191 AAATACCCCT
Statistics
Matches: 119, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
Found at i:47382198 original size:81 final size:81
Alignment explanation
Indices: 47381992--47382190 Score: 254
Period size: 81 Copynumber: 2.5 Consensus size: 81
47381982 CTCAATTTGT
* * ** *
47381992 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCATTAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCAT
*
47382057 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * * *
47382073 AGAATTACCATTTTACCCTTAATTTACAAAATTACCATTTTACCCTCTATTTACAGAATTATCAT
1 AAAATTACCAAAATACCATTAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCAT
47382138 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* **
47382154 AAAATTACTAAAATACCATTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCATTAATTTACAAAATTACCA
47382191 AAATACCCCT
Statistics
Matches: 100, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCATTAATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:47382351 original size:27 final size:27
Alignment explanation
Indices: 47382300--47382351 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
47382290 AAATTACAGA
*
47382300 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTAGTTTAC
*
47382327 AAAATTACTA-AAATACCCTTAGTTT
1 AAAATTA-TAGAAATACCATTAGTTT
47382352 GCATATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTAGTTTAC
Found at i:47383355 original size:24 final size:25
Alignment explanation
Indices: 47383279--47383348 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
47383269 AGGAAGTGCT
* * *
47383279 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
47383304 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
47383329 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
47383349 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Done.