Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 155 of 290
Found at i:49807566 original size:44 final size:42
Alignment explanation
Indices: 49807518--49807617 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 42
49807508 GTGTTGTCAC
49807518 GTAAGACCATGTCTGGGACATTGGCATCGACATAGGATTTGCGT
1 GTAAGACCATGTCTGGGACATTGGCATCG-CATAGGATTT-CGT
* * * * **
49807562 GTAAGACCACGTTTGGGACATTGTCATCGTATTTGATTTCGT
1 GTAAGACCATGTCTGGGACATTGGCATCGCATAGGATTTCGT
*
49807604 GTAAGACCCTGTCT
1 GTAAGACCATGTCT
49807618 TAGACGTTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 14 0.30
43 7 0.15
44 26 0.55
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATTGGCATCGCATAGGATTTCGT
Found at i:49814342 original size:37 final size:37
Alignment explanation
Indices: 49814292--49814370 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49814282 TTATTACGAA
* *
49814292 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
49814329 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
49814366 GTCTT
1 GTCTT
49814371 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:49814567 original size:47 final size:47
Alignment explanation
Indices: 49814489--49815105 Score: 1011
Period size: 47 Copynumber: 13.1 Consensus size: 47
49814479 CCCTTCGGGA
* * * * *
49814489 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
***
49814536 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49814583 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49814630 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49814677 CGTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49814724 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49814771 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49814818 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49814865 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49814912 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49814959 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49815006 CTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49815055 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49815102 CTTA
1 CTTA
49815106 CTATCATTTC
Statistics
Matches: 536, Mismatches: 31, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 2 0.00
47 490 0.91
49 44 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49818936 original size:19 final size:19
Alignment explanation
Indices: 49818912--49818953 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49818902 GTCTTTGAAT
*
49818912 TTTGGA-TAAATTTGAGTAA
1 TTTGGACTAAA-TTGAGAAA
49818931 TTTGGACTAAATTGAGAAA
1 TTTGGACTAAATTGAGAAA
49818950 TTTG
1 TTTG
49818954 TAAATTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (19 bp):
TTTGGACTAAATTGAGAAA
Found at i:49819594 original size:42 final size:44
Alignment explanation
Indices: 49819526--49819629 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 44
49819516 CATTGACTTA
* *
49819526 TGATTTACGTGTAAGACCATGTCTGGGA-CGTTGGCATC-ATATT
1 TGATTTACGTGTAAGACCATGCCTGGGATAG-TGGCATCGATATT
*
49819569 TGATTT-CGTGTAAGACCCTGCCTGGGATAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGCCTGGGATAGTGGCATCGATATT
* *
49819612 TGA-TTACATGTAATACCA
1 TGATTTACGTGTAAGACCA
49819630 AGTCTGGGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 28 0.54
43 24 0.46
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGCCTGGGATAGTGGCATCGATATT
Found at i:49819611 original size:43 final size:43
Alignment explanation
Indices: 49819526--49819647 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
49819516 CATTGACTTA
* *
49819526 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCATATT
1 TGATTTACGTGTAAGACCATGCCTGGGAAGTTGGCATCATATT
*
49819569 TGATTT-CGTGTAAGACCCTGCCTGGGATAG-TGGCATCGATATT
1 TGATTTACGTGTAAGACCATGCCTGGGA-AGTTGGCATC-ATATT
* * * * **
49819612 TGA-TTACATGTAATACCAAGTCTGGGTCGTTGGCAT
1 TGATTTACGTGTAAGACCATGCCTGGGAAGTTGGCAT
49819648 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGCCTGGGAAGTTGGCATCATATT
Found at i:49825340 original size:18 final size:18
Alignment explanation
Indices: 49825317--49825351 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49825307 TGGCGGATGC
49825317 ATAAACCGAAAAC-ACACG
1 ATAAACC-AAAACTACACG
49825335 ATAAACCAAAACTACAC
1 ATAAACCAAAACTACAC
49825352 CAAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.29, G:0.06, T:0.09
Consensus pattern (18 bp):
ATAAACCAAAACTACACG
Found at i:49825357 original size:17 final size:18
Alignment explanation
Indices: 49825316--49825357 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
49825306 CTGGCGGATG
49825316 CATAAACCGAAAACACAC
1 CATAAACCGAAAACACAC
*
49825334 GATAAACC-AAAACTACAC
1 CATAAACCGAAAAC-ACAC
49825352 CA-AAAC
1 CATAAAC
49825358 AAGCTCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.57, C:0.31, G:0.05, T:0.07
Consensus pattern (18 bp):
CATAAACCGAAAACACAC
Found at i:49828519 original size:17 final size:17
Alignment explanation
Indices: 49828497--49828530 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49828487 TTTAGGATAA
*
49828497 ATTTTGATTGATTTATC
1 ATTTTGATTGATATATC
49828514 ATTTTGATTGATATATC
1 ATTTTGATTGATATATC
49828531 TTGAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (17 bp):
ATTTTGATTGATATATC
Found at i:49832053 original size:24 final size:24
Alignment explanation
Indices: 49832011--49832082 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 24
49832001 CTGATGAGCT
49832011 GAATTAGTAAG-T-ATACGAGCTGA
1 GAATT-GTAAGCTCATACGAGCTGA
49832034 GAATTGTAAGCTCATACGAGCTGA
1 GAATTGTAAGCTCATACGAGCTGA
* * *
49832058 TATATCGATAAGCTCATATGAGCTG
1 GA-ATTG-TAAGCTCATACGAGCTG
49832083 TGGTGAGTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
24 12 0.29
25 3 0.07
26 16 0.38
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (24 bp):
GAATTGTAAGCTCATACGAGCTGA
Found at i:49837818 original size:51 final size:51
Alignment explanation
Indices: 49837601--49838142 Score: 669
Period size: 47 Copynumber: 10.8 Consensus size: 51
49837591 TTATCACATT
*
49837601 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837650 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--C-T-CATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837697 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACG----CA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837744 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACGTATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837795 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837846 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACG----CA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837893 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
*
49837944 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
* * ** * * *
49837995 T-TATCACATATAT-ATATACACTTTCACATTCATCACA-TCGGCCATTAGGC-CTTATCACGTA
1 TATA-CAC-T-T-TCACATTCA---TCACA-TCGGC-CATTAGGCC-TTA-TCACGTAT-A--TA
49838056 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACG----TA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
49838103 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
49838143 CTATCATTTC
Statistics
Matches: 438, Mismatches: 25, Indels: 62
0.83 0.05 0.12
Matches are distributed among these distances:
47 177 0.40
49 41 0.09
50 2 0.00
51 150 0.34
52 1 0.00
53 7 0.02
54 7 0.02
55 8 0.02
56 10 0.02
57 8 0.02
58 10 0.02
59 8 0.02
60 1 0.00
61 6 0.01
62 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (51 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
Found at i:49837823 original size:98 final size:97
Alignment explanation
Indices: 49837601--49838142 Score: 722
Period size: 98 Copynumber: 5.4 Consensus size: 97
49837591 TTATCACATT
*
49837601 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATT
*
49837666 CATCACATCGGCCATTAGGCCTTATCTC--ATA
65 CATCACATCGGCCATTAGGCCTTATCACGTATA
**
49837697 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-GCATATACACTTTCACATTC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
*
49837761 ATCACATCGGCTATTAGGCCTTATCACGTATATA
66 ATCACATCGGCCATTAGGCCTTATCACG--TATA
49837795 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATATATACACTTTCACA
*
49837860 TTCATCACATCGGCCATTAGGCCTTATCACG--CA
63 TTCATCACATCGGCCATTAGGCCTTATCACGTATA
49837893 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATATATACACTTTCACA
*
49837958 TTCATCACATCGGCCATTAGGCCTTATCACATATA
63 TTCATCACATCGGCCATTAGGCCTTATCACGTATA
* *
49837993 TATTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-GTAT
1 TA-TA-CAC-----T-T-T-CACATT--C----ATCACATCGGCCATTAGGCCTTATCACAATAT
49838057 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACG--TA
50 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
49838103 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
49838143 CTATCATTTC
Statistics
Matches: 405, Mismatches: 15, Indels: 54
0.85 0.03 0.11
Matches are distributed among these distances:
94 66 0.16
96 43 0.11
98 144 0.36
100 8 0.02
101 3 0.01
102 49 0.12
103 1 0.00
107 1 0.00
108 4 0.01
109 3 0.01
110 9 0.02
112 47 0.12
116 27 0.07
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (97 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACGTATA
Found at i:49838000 original size:14 final size:14
Alignment explanation
Indices: 49837981--49838009 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49837971 CCATTAGGCC
49837981 TTATCACATATATA
1 TTATCACATATATA
49837995 TTATCACATATATA
1 TTATCACATATATA
49838009 T
1 T
49838010 ATACACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (14 bp):
TTATCACATATATA
Found at i:49838006 original size:65 final size:65
Alignment explanation
Indices: 49837930--49838059 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
49837920 CCATTAGGCC
49837930 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
49837995 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
1 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
49838060 CACTTTCACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (65 bp):
TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:49838012 original size:163 final size:159
Alignment explanation
Indices: 49837832--49838142 Score: 568
Period size: 163 Copynumber: 1.9 Consensus size: 159
49837822 CCATTAGGCC
49837832 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATA
1 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATA
49837897 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCA
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTTTCACATTCA
49837962 TCACATCGGCCATTAGGCCTTATCACATATATA
127 TCACATCGGCCATTAGGCCTTATCACATATATA
*
49837995 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATA
1 TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATA
*
49838060 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCAC
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
49838125 ATCGGCCATTAGGCCTTA
131 ATCGGCCATTAGGCCTTA
49838143 CTATCATTTC
Statistics
Matches: 146, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
159 42 0.29
163 104 0.71
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (159 bp):
TTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATA
Found at i:49852575 original size:48 final size:48
Alignment explanation
Indices: 49852521--49852889 Score: 196
Period size: 48 Copynumber: 7.6 Consensus size: 48
49852511 ATATCGGTTT
* *
49852521 CGATGCCATGTCCTAGACATGGTTTTACACGGGACCTCATATCGATGC
1 CGATGCCATGTCCTAGACATGGTCTTACACGGGACCACATATCGATGC
* * * * * ** *
49852569 CAATGCCATATCCTGGATATGTTCTTACTTGAGA--ACATATACTGATGC
1 CGATGCCATGTCCTAGACATGGTCTTACACGGGACCACATAT-C-GATGC
* * * * * * * * *
49852617 CGATGTCATATCCCATATATTGTCTTACACTGG-CACACATATCAAAGC
1 CGATGCCATGTCCTAGACATGGTCTTACACGGGAC-CACATATCGATGC
* * * ** *
49852665 CAATGCCATGTCCCAGACATGGTCTTACATTC-GCA-CACATATTAATGT
1 CGATGCCATGTCCTAGACATGGTCTTACA--CGGGACCACATATCGATGC
* * *
49852713 CGATGCCATGTTCC-AGACATGGTCTTACACTGG-CACACATATCAACGC
1 CGATGCCATG-TCCTAGACATGGTCTTACACGGGAC-CACATATCGATGC
* ** * * *
49852761 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTTGGATGC
1 CGATGCCATGTCCTAGACATGGTCTTACACGGGAC-CACAT-ATCGATGC
* * * * * *
49852810 CAATGCCATGTCCTAGACATTGTCTTACACAGGATCTCATCTCAGATGC
1 CGATGCCATGTCCTAGACATGGTCTTACACGGGACCACATATC-GATGC
* * * *
49852859 TGGTGCCGTGTCCTAGACATGGTTTTACACG
1 CGATGCCATGTCCTAGACATGGTCTTACACG
49852890 AGATCTCATT
Statistics
Matches: 245, Mismatches: 60, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
46 6 0.02
47 5 0.02
48 156 0.64
49 71 0.29
50 7 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACATGGTCTTACACGGGACCACATATCGATGC
Found at i:49852691 original size:96 final size:96
Alignment explanation
Indices: 49852521--49852789 Score: 272
Period size: 96 Copynumber: 2.8 Consensus size: 96
49852511 ATATCGGTTT
* * * * * * * * **
49852521 CGATGCCATGTCCTAGACATGGTTTTACAC-GGGACCTCATATCGATGCCAATGCCATATCCTGG
1 CGATGCCATATCCCAGACATGGTCTTACACTGGCA-CACATATCAAAGCCAATGCCATGTCCCAG
* * * *
49852585 ATATGTTCTTAC-TTGAGAACATATACTGATGC
65 ACATGGTCTTACATT-AGAACACATACTAATGC
* * * *
49852617 CGATGTCATATCCCATATATTGTCTTACACTGGCACACATATCAAAGCCAATGCCATGTCCCAGA
1 CGATGCCATATCCCAGACATGGTCTTACACTGGCACACATATCAAAGCCAATGCCATGTCCCAGA
* * * *
49852682 CATGGTCTTACATTCGCACACATATTAATGT
66 CATGGTCTTACATTAGAACACATACTAATGC
* * * *
49852713 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGA
1 CGATGCCATATCCCAGACATGGTCTTACACTGGCACACATATCAAAGCCAATGCCATGTCCCAGA
49852778 CATGGTCTTACA
66 CATGGTCTTACA
49852790 CTAGCTCTCA
Statistics
Matches: 141, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
96 136 0.96
97 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (96 bp):
CGATGCCATATCCCAGACATGGTCTTACACTGGCACACATATCAAAGCCAATGCCATGTCCCAGA
CATGGTCTTACATTAGAACACATACTAATGC
Found at i:49852835 original size:49 final size:48
Alignment explanation
Indices: 49852663--49852898 Score: 160
Period size: 49 Copynumber: 4.9 Consensus size: 48
49852653 ACATATCAAA
* * * *
49852663 GCCAATGCCATGTCCCAGACATGGTCTTACATTC-GCA-CACATATTA-AT
1 GCCAATGCCATGTCCTAGACATGGTCTTACA--CAG-ATCTCATCTCAGAT
* * * * * *
49852711 GTCGATGCCATGTTCC-AGACATGGTCTTACACTGGCA-CACATATCA-AC
1 GCCAATGCCATG-TCCTAGACATGGTCTTACAC-AG-ATCTCATCTCAGAT
* * * **
49852759 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTGGAT
1 GCCAATGCCATGTCCTAGACATGGTCTTACAC-AGATCTCATCTCAGAT
*
49852808 GCCAATGCCATGTCCTAGACATTGTCTTACACAGGATCTCATCTCAGAT
1 GCCAATGCCATGTCCTAGACATGGTCTTACACA-GATCTCATCTCAGAT
*** * *
49852857 GCTGGTGCCGTGTCCTAGACATGGTTTTACACGAGATCTCAT
1 GCCAATGCCATGTCCTAGACATGGTCTTACAC-AGATCTCAT
49852899 TAACCATGGT
Statistics
Matches: 156, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 72 0.46
49 79 0.51
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCAATGCCATGTCCTAGACATGGTCTTACACAGATCTCATCTCAGAT
Found at i:49855729 original size:46 final size:44
Alignment explanation
Indices: 49855670--49855845 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 44
49855660 TGGTTGAGCA
* *
49855670 TCCGGACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
49855716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* * *
49855763 TCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * *
49855809 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49855846 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:49860559 original size:17 final size:17
Alignment explanation
Indices: 49860537--49860569 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49860527 TCAATAGATT
*
49860537 GTATCCACTTGCGGATG
1 GTATCCACTAGCGGATG
49860554 GTATCCACTAGCGGAT
1 GTATCCACTAGCGGAT
49860570 ACTTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (17 bp):
GTATCCACTAGCGGATG
Found at i:49871139 original size:46 final size:46
Alignment explanation
Indices: 49871037--49871213 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
49871027 ACATTTTCAG
* * * * * *
49871037 AGCCAGTGTAAGACCATGCCTAGCACATGGCATCGGC-ATTGAGACGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-CGAGACGAT
*
49871085 AGCTAGTGTAAGACATGTCTGGGACATGCAAT-GACCT-CGAGACG-T
1 AGCCAGTGTAAGACATGTCTGGGACATGC-ATCGA-CTACGAGACGAT
* *
49871130 AAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTATGAGATGAT
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGACGAT
*
49871177 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
49871214 ACTTTAACTA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
45 4 0.04
46 56 0.51
47 29 0.27
48 20 0.18
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGACGAT
Found at i:49876461 original size:11 final size:11
Alignment explanation
Indices: 49876440--49876472 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
49876430 TTCTTATTCT
49876440 CTTTCTTTTTTA
1 CTTT-TTTTTTA
49876452 CTTTTTTTTTA
1 CTTTTTTTTTA
49876463 CTTTTTTTTT
1 CTTTTTTTTT
49876473 CTCTCATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (11 bp):
CTTTTTTTTTA
Found at i:49882558 original size:29 final size:29
Alignment explanation
Indices: 49882495--49882562 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
49882485 TAATCAACCA
49882495 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* * **
49882524 CACACACTTAGTGTCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49882553 CGCACACTTA
1 CGCACACTTA
49882563 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49882674 original size:173 final size:173
Alignment explanation
Indices: 49882385--49882883 Score: 872
Period size: 173 Copynumber: 2.9 Consensus size: 173
49882375 AACTCAAGGT
* *
49882385 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
49882450 GAAAATATATATAGGGTTGCACGCATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATAGGGTTGCACGCATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
49882515 CTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
49882558 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
49882623 GAAAATATATATAGGGTTGCACGCATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATAGGGTTGCACGCATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
49882688 CTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
* *
49882731 ACTTACCTTTTCCGCTGTCCAAAATCGACTAGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * * * * * *
49882796 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATAGGGTT-GCACGCATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
* *
49882861 ACTTTAAACTCGCACGCTTAGTG
130 ACTTTAAACTCACACACTTAGTG
49882884 CTGTACAATT
Statistics
Matches: 312, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
173 251 0.80
174 61 0.20
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATAGGGTTGCACGCATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
Found at i:49882731 original size:29 final size:29
Alignment explanation
Indices: 49882668--49882735 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
49882658 TAATCAACCA
49882668 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* * **
49882697 CACACACTTAGTGTCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49882726 CGCACACTTA
1 CGCACACTTA
49882736 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49882880 original size:29 final size:30
Alignment explanation
Indices: 49882837--49882915 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
49882827 CTTAATAATC
49882837 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
* *
49882867 AACTCGCACGCTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
49882896 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49882916 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:49890869 original size:28 final size:29
Alignment explanation
Indices: 49890807--49890873 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
49890797 TAATCAACCA
49890807 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
49890836 CACACACTTAGTG-CATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49890864 CGCACACTTA
1 CGCACACTTA
49890874 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.09
28 18 0.55
29 12 0.36
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49891043 original size:30 final size:29
Alignment explanation
Indices: 49890979--49891047 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
49890969 TAATCAACCA
*
49890979 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTCAAACT
*
49891008 CGCACACTTAGTGCTCCATGCA-TTCAAATT
1 CGCACACTTAGTG--CCATGCACTTCAAACT
49891038 CGCACACTTA
1 CGCACACTTA
49891048 CCTTTCCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 13 0.36
30 16 0.44
31 7 0.19
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTCAAACT
Found at i:49935018 original size:27 final size:26
Alignment explanation
Indices: 49934988--49935142 Score: 159
Period size: 27 Copynumber: 5.7 Consensus size: 26
49934978 AAATTGTACA
*
49934988 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
49935015 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
49935042 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
* *
49935069 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
49935097 GCACTAAGTGTGCGATTGATTACGTG
1 GCACTAAGTGTGCGATTGACTATGTG
49935123 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGA-TTGA
49935143 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
26 22 0.20
27 62 0.57
28 24 0.22
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:49935048 original size:54 final size:55
Alignment explanation
Indices: 49934987--49935137 Score: 184
Period size: 54 Copynumber: 2.8 Consensus size: 55
49934977 TAAATTGTAC
*
49934987 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACTATGTGGCACTAAGTGTGCGAAATCGAACTATGT
* * * *
49935040 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCG-AGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTGGCACTAAGTGTGCGAAATCGAACTATGT
* *
49935096 AGCACTAAGTGTGCGATTGATTACGTGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGATTGACTATGTGGCACTAAGTGTGCGA
49935138 GTTGATTGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
53 3 0.04
54 58 0.70
55 21 0.25
56 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTGACTATGTGGCACTAAGTGTGCGAAATCGAACTATGT
Found at i:49935129 original size:81 final size:81
Alignment explanation
Indices: 49934988--49935142 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
49934978 AAATTGTACA
* * * *
49934988 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
49935053 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
49935069 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
49935132 GTGCGAGTTGA
64 GTGCGAATTGA
49935143 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.02
81 43 0.66
82 21 0.32
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49935153 original size:27 final size:26
Alignment explanation
Indices: 49934980--49935163 Score: 97
Period size: 27 Copynumber: 6.8 Consensus size: 26
49934970 GCGGGATTAA
*
49934980 ATTGTACAGCACTAAGTGTGCGATTCG
1 ATTGTATAGCACTAAGTGTGCGATT-G
*
49935007 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCG-ATTG
49935034 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCG-ATTG
*** *** *
49935061 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGA-T-TG
* * *
49935089 ACTATGTAGCACTAAGTGTGCGATTG
1 ATTGTATAGCACTAAGTGTGCGATTG
*** *
49935115 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGA-TTG
*
49935142 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
49935164 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
26 23 0.18
27 75 0.60
28 25 0.20
29 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
ATTGTATAGCACTAAGTGTGCGATTG
Found at i:49935154 original size:81 final size:81
Alignment explanation
Indices: 49934980--49935163 Score: 210
Period size: 81 Copynumber: 2.3 Consensus size: 81
49934970 GCGGGATTAA
* * * *
49934980 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
49935045 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * * *
49935061 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
49935124 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
49935142 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
49935164 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 60 0.73
82 21 0.26
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:49939152 original size:82 final size:81
Alignment explanation
Indices: 49939036--49939191 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
49939026 AAATTGTACA
* * * *
49939036 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
49939100 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49939117 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
49939182 TGCGAGTTGA
65 TGCGAATTGA
49939192 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49939159 original size:55 final size:52
Alignment explanation
Indices: 49939035--49939188 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
49939025 TAAATTGTAC
* *
49939035 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
49939088 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
49939143 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
49939189 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:49939193 original size:27 final size:27
Alignment explanation
Indices: 49939036--49939191 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
49939026 AAATTGTACA
*
49939036 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
49939063 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
49939090 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
49939117 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
49939145 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
49939172 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
49939192 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:49939202 original size:27 final size:27
Alignment explanation
Indices: 49939028--49939212 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
49939018 GCGGGATTAA
*
49939028 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
49939055 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
49939082 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
49939109 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
49939137 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
49939164 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
49939191 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
49939213 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:49939203 original size:82 final size:81
Alignment explanation
Indices: 49939028--49939212 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
49939018 GCGGGATTAA
* * * *
49939028 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
49939093 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
49939109 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
49939173 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
49939191 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
49939213 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:49941202 original size:37 final size:37
Alignment explanation
Indices: 49941141--49941219 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
49941131 TTATTACGAA
* * * *
49941141 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
49941178 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
49941215 GTCTT
1 GTCTT
49941220 TAGAGCTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:49941425 original size:47 final size:47
Alignment explanation
Indices: 49941338--49942028 Score: 968
Period size: 47 Copynumber: 14.4 Consensus size: 47
49941328 CCTTTCGGGA
* * * * * * * * *
49941338 CTTATCAGATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941385 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941432 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941479 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941526 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49941573 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49941620 CTTATCACACATATACACTTTCACACTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941667 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49941718 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941765 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49941812 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
49941863 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
49941914 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49941963 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49942010 CTTATCACACATATACACT
1 CTTATCACATATATACACT
49942029 CTCTTGGCTG
Statistics
Matches: 593, Mismatches: 39, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
47 407 0.69
48 1 0.00
49 62 0.10
50 1 0.00
51 114 0.19
53 4 0.01
55 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49941752 original size:145 final size:141
Alignment explanation
Indices: 49941391--49942028 Score: 1015
Period size: 145 Copynumber: 4.4 Consensus size: 141
49941381 CGGCCCTGTC
* *
49941391 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
* * *
49941456 ATTCATCGCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATCGGCCAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
49941521 TAGGCCTTATT
131 TAGGCCTTATT
49941532 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
* * * *
49941597 ATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACACTCATCACATCGGCTAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
49941662 TAGGCCTTATT
131 TAGGCCTTATT
49941673 ACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 AC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
* *
49941738 TCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
62 TCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
*
49941803 CTATTAGGCCTTATT
127 CCATTAGGCCTTATT
* *
49941818 ACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATAC
1 ACATATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACAT--ATAC
*
49941883 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCA
58 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT--ATACACTTTCACATTCATCA
49941948 CATCGGCCATTAGGCCTTATT
121 CATCGGCCATTAGGCCTTATT
49941969 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
49942029 CTCTTGGCTG
Statistics
Matches: 465, Mismatches: 18, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
141 138 0.30
143 15 0.03
145 177 0.38
147 41 0.09
149 44 0.09
151 50 0.11
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (141 bp):
ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
TAGGCCTTATT
Found at i:49944134 original size:50 final size:50
Alignment explanation
Indices: 49944079--49944179 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
49944069 TCACAACATA
* * *
49944079 GAATGAAATTCAGCACATGCAATTTGTTTTCAATGTTGTGACAACAACAG
1 GAATGAAATTCAGCACAGGAAATTTGTCTTCAATGTTGTGACAACAACAG
*
49944129 GAATGAAATTCAGCACAGGAAATTTGTCTTCGATGTTGTGACAACAACAG
1 GAATGAAATTCAGCACAGGAAATTTGTCTTCAATGTTGTGACAACAACAG
49944179 G
1 G
49944180 GTATGTCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (50 bp):
GAATGAAATTCAGCACAGGAAATTTGTCTTCAATGTTGTGACAACAACAG
Found at i:49956788 original size:47 final size:47
Alignment explanation
Indices: 49956710--49957062 Score: 447
Period size: 47 Copynumber: 7.6 Consensus size: 47
49956700 CCCTTCGGGA
* * * * * *
49956710 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49956756 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49956804 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49956851 CTTATCACATATAT--A----CAC-TT--TCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49956889 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49956940 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49956989 CTTATCACATATATATACATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
* *
49957037 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
49957063 CACAATTATC
Statistics
Matches: 273, Mismatches: 16, Indels: 35
0.84 0.05 0.11
Matches are distributed among these distances:
38 24 0.09
40 2 0.01
41 3 0.01
42 6 0.02
44 1 0.00
45 1 0.00
46 2 0.01
47 108 0.40
48 52 0.19
49 49 0.18
51 25 0.09
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49956828 original size:38 final size:41
Alignment explanation
Indices: 49956777--49957057 Score: 219
Period size: 49 Copynumber: 6.2 Consensus size: 41
49956767 ATATACACTT
*
49956777 TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATAT--A
*
49956821 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
*
49956866 -CAC-TT-TCACATCGGCCATTAGACCTTATCACATATATATATACA
1 TCACATTATCACATCGGCCATTAGGCCTTATCAC----ATATAT--A
49956910 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACA--TATAT--A
49956959 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATAT--A
49957008 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 --TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
49957052 T-ACATT
1 TCACATT
49957058 CACATCACAA
Statistics
Matches: 212, Mismatches: 5, Indels: 40
0.82 0.02 0.16
Matches are distributed among these distances:
38 24 0.11
40 2 0.01
41 8 0.04
42 7 0.03
44 2 0.01
45 1 0.00
46 6 0.03
47 40 0.19
48 40 0.19
49 56 0.26
51 26 0.12
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (41 bp):
TCACATTATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:49956928 original size:89 final size:87
Alignment explanation
Indices: 49956786--49957063 Score: 373
Period size: 89 Copynumber: 3.1 Consensus size: 87
49956776 TTCACATTCA
* *
49956786 TCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAG
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
49956849 GCCTTATCACATATATACACTT
66 GCCTTATCACATATATACACTT
*
49956871 TCACATCGGCCATTAGACCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATT
1 TCACATCGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATT
49956936 AGGCCTTATCACATGTATATACACTTTCACATT
64 AGGCCTTATCACA--TATAT--A----CAC-TT
49956969 CATCACATCGGCCATTAGGCCTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATT
1 --TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
* *
49957033 AGGCCTTATCACATATATATACAT
64 AGGCCTTATCACATATATACACTT
49957057 TCACATC
1 TCACATC
49957064 ACAATTATCC
Statistics
Matches: 172, Mismatches: 6, Indels: 29
0.83 0.03 0.14
Matches are distributed among these distances:
85 24 0.14
86 7 0.04
88 1 0.01
89 49 0.28
91 5 0.03
93 2 0.01
95 5 0.03
97 41 0.24
98 13 0.08
100 25 0.15
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (87 bp):
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATACACTT
Found at i:49956994 original size:138 final size:137
Alignment explanation
Indices: 49956765--49957015 Score: 450
Period size: 138 Copynumber: 1.8 Consensus size: 137
49956755 GCTCTGTCAC
49956765 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
*
49956830 TCATCACATCGGCTATTAGGCCTTATCACATATATACAC-TTTCACATCGGCCATTAGACCTTAT
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACATTTCACATCGGCCATTAGACCTTAT
49956894 CACATAT
131 CACATAT
*
49956901 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACA--TATATACACTTTCAC
*
49956966 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTCACAT
64 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATTTCACAT
49957016 TCATCACATC
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
136 47 0.43
138 54 0.50
139 8 0.07
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (137 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATACACATTTCACATCGGCCATTAGACCTTAT
CACATAT
Found at i:49957031 original size:48 final size:49
Alignment explanation
Indices: 49956871--49957062 Score: 327
Period size: 49 Copynumber: 3.9 Consensus size: 49
49956861 ATATACACTT
*
49956871 TCACATCGGCCATTAGACCTTATCACATATATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCA
*
49956922 TCACATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
49956971 TCACATCGGCCATTAGGCCTTATCACATATATATACA-TTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
49957019 TCACATCGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
49957063 CACAATTATC
Statistics
Matches: 138, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
47 7 0.05
48 48 0.35
49 58 0.42
51 25 0.18
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
Found at i:49957041 original size:97 final size:97
Alignment explanation
Indices: 49956871--49957062 Score: 325
Period size: 97 Copynumber: 2.0 Consensus size: 97
49956861 ATATACACTT
49956871 TCACATCGGCCATTAGACCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATT
1 TCACATCGGCCATTAGACCTTATCACA-ATATATATACACTTTCACATTCATCACATCGGCCATT
*
49956936 AGGCCTTATCACATGTATATACACTTTCACATTCA
65 AGGCCTTATCACATATATATACA--TTCACATTCA
*
49956971 TCACATCGGCCATTAGGCCTTATCAC-ATATATATACA-TTTCACATTCATCACATCGGCCATTA
1 TCACATCGGCCATTAGACCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTA
49957034 GGCCTTATCACATATATATACATTCACAT
66 GGCCTTATCACATATATATACATTCACAT
49957063 CACAATTATC
Statistics
Matches: 90, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
95 7 0.08
97 47 0.52
98 11 0.12
100 25 0.28
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (97 bp):
TCACATCGGCCATTAGACCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATATACATTCACATTCA
Found at i:49960912 original size:40 final size:40
Alignment explanation
Indices: 49960690--49960882 Score: 332
Period size: 40 Copynumber: 4.8 Consensus size: 40
49960680 CGAATACACG
* * * * *
49960690 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49960730 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49960770 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49960810 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49960850 TCACTAGCATGAATGCTCTTCGGGACTTAGCCC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCC
49960883 AGATTTAGTA
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49960927 original size:120 final size:120
Alignment explanation
Indices: 49960690--49960912 Score: 313
Period size: 120 Copynumber: 1.9 Consensus size: 120
49960680 CGAATACACG
* * *
49960690 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCATGAATGCTCTTCGGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCATGAATGCTCTTCGGGA
* ** **
49960755 CTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCCCAGATACATAACTAGCACCAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49960810 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCATGAATGCTCTTCGGGA
** *
49960875 CTTAGCCCAGATTTAGTAACTCGCACCAATGC-CTTCGG
66 CTTAGCCCAGATACA-TAACTAGCACCAATGCTCTTCGG
49960913 ATCTTAGTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 78 0.88
121 11 0.12
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCATGAATGCTCTTCGGGA
CTTAGCCCAGATACATAACTAGCACCAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49960951 original size:120 final size:120
Alignment explanation
Indices: 49960704--49960965 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 120
49960694 CAGCATGATT
* * * *
49960704 GCTCTTCGGGATTTAGCACGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATAC
1 GCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATAC
** ** * *
49960769 ATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAAT
66 ATAACTAGCACCAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAAA
**
49960824 GCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATTT
1 GCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATAC
* * * **
49960889 AGTAACTCGCACCAATGC-CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA-CAAA
66 A-TAACTAGCACCAATGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCATCAAA
*
49960945 GC-CTTCGAGACTTAGCCCGGA
1 GCTCTTCGGGACTTAGCCCGGA
49960966 CATCATTCGA
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 93 0.77
121 19 0.16
122 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
GCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATAC
ATAACTAGCACCAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAAA
Found at i:49961312 original size:29 final size:29
Alignment explanation
Indices: 49961273--49961351 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49961263 CTTAATAATC
*
49961273 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49961303 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49961332 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49961352 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49961395 original size:43 final size:43
Alignment explanation
Indices: 49961334--49961435 Score: 195
Period size: 43 Copynumber: 2.4 Consensus size: 43
49961324 GCATTTCAAG
49961334 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
*
49961377 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTG
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
49961420 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
49961436 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (43 bp):
CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
Found at i:49967739 original size:20 final size:20
Alignment explanation
Indices: 49967714--49967762 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
49967704 GAAAGGGGCG
49967714 GCAATGGAGCTTCTTGGGTA
1 GCAATGGAGCTTCTTGGGTA
49967734 GCAATGGAGCTTCTTGGGTA
1 GCAATGGAGCTTCTTGGGTA
49967754 GCAATGGAG
1 GCAATGGAG
49967763 ATCATTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (20 bp):
GCAATGGAGCTTCTTGGGTA
Found at i:49968461 original size:17 final size:18
Alignment explanation
Indices: 49968425--49968461 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49968415 ACTAACCCCT
49968425 ATTTTCTTAGTCATCAAA
1 ATTTTCTTAGTCATCAAA
49968443 ATTTTCTTAGTCA-CAAA
1 ATTTTCTTAGTCATCAAA
49968460 AT
1 AT
49968462 AAATTAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (18 bp):
ATTTTCTTAGTCATCAAA
Found at i:49977502 original size:49 final size:49
Alignment explanation
Indices: 49977445--49977546 Score: 195
Period size: 49 Copynumber: 2.1 Consensus size: 49
49977435 TCGATGCACA
*
49977445 CATAGTTTCTGTGCATACCTGTACTGTTATGTATCTATTCTCACCATTT
1 CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
49977494 CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
1 CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
49977543 CATA
1 CATA
49977547 TCTTCGATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (49 bp):
CATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
Found at i:49977669 original size:48 final size:48
Alignment explanation
Indices: 49977598--49977691 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
49977588 TACTGGAGAG
* *
49977598 TCTTGCACCCTAAGTGCGAATATCATGGCCCAAAGCCAACTCAATGAA
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
**
49977646 TCTTGCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATG
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATG
49977692 TAACCCCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (48 bp):
TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
Found at i:49980301 original size:18 final size:18
Alignment explanation
Indices: 49980275--49980309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49980265 AAGATGTACC
*
49980275 AAACTATTTTCATGCATG
1 AAACAATTTTCATGCATG
*
49980293 AAACAATTTTGATGCAT
1 AAACAATTTTCATGCAT
49980310 CATGCTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
AAACAATTTTCATGCATG
Found at i:49994025 original size:17 final size:19
Alignment explanation
Indices: 49994003--49994037 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
49993993 AATTAAGTAT
49994003 TTCAATT-AATCT-TAATA
1 TTCAATTCAATCTATAATA
49994020 TTCAATTCAATCTATAAT
1 TTCAATTCAATCTATAAT
49994038 TCACATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (19 bp):
TTCAATTCAATCTATAATA
Found at i:49997476 original size:40 final size:40
Alignment explanation
Indices: 49997413--49997596 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
49997403 TATTCGAATG
* * * *
49997413 ATATCCGGGCTAAGTCCCAAAGGCTTTTATGCTGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
49997453 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
49997493 ATATCCGGGCTAAGACCCGAAGGCATTTGTTCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
49997533 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
49997573 ATATCCGGTCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
49997597 CTCGTAAGAG
Statistics
Matches: 120, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 117 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:50005859 original size:123 final size:123
Alignment explanation
Indices: 50005640--50005874 Score: 454
Period size: 123 Copynumber: 1.9 Consensus size: 123
50005630 GACCAAAACA
50005640 TGCCAATTCAATACATACAAGTTTCACAATTTCAAAACACTTAATTGATCACTTTCAATTGTGCA
1 TGCCAATTCAATACATACAAGTTTCACAATTTCAAAACACTTAATTGATCACTTTCAATTGTGCA
50005705 CTAATTTACCTAAAACCACATATCTATCATAACTCTTAATTCATTCAATATCATGTTT
66 CTAATTTACCTAAAACCACATATCTATCATAACTCTTAATTCATTCAATATCATGTTT
50005763 TGCCAATTCAA-AGCATACAAGTTTCACAATTTCAAAACACTTAATTGATCACTTTCAATTGTGC
1 TGCCAATTCAATA-CATACAAGTTTCACAATTTCAAAACACTTAATTGATCACTTTCAATTGTGC
50005827 ACTAATTTACCTAAAACCACATATCTATCATAACTCTTAATTCATTCA
65 ACTAATTTACCTAAAACCACATATCTATCATAACTCTTAATTCATTCA
50005875 TGTGGTATAC
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
122 1 0.01
123 110 0.99
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (123 bp):
TGCCAATTCAATACATACAAGTTTCACAATTTCAAAACACTTAATTGATCACTTTCAATTGTGCA
CTAATTTACCTAAAACCACATATCTATCATAACTCTTAATTCATTCAATATCATGTTT
Found at i:50006459 original size:49 final size:49
Alignment explanation
Indices: 50006402--50006498 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
50006392 CGATGCACAC
*
50006402 ATAGTTTCTGTGCATACCTGTACTGTTATGTATCTATTCTCACCATTTA
1 ATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTTA
*
50006451 ATAGTTTCTGTACATACTTGTACTGTTATGTATCTATTCTCACCATTT
1 ATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTT
50006499 TATATCGTCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (49 bp):
ATAGTTTCTGTACATACCTGTACTGTTATGTATCTATTCTCACCATTTA
Found at i:50006625 original size:48 final size:48
Alignment explanation
Indices: 50006554--50006647 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
50006544 TACTCGAGAG
*
50006554 TCTTGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
**
50006602 TCTTGCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATG
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATG
50006648 TAACCCCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (48 bp):
TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
Found at i:50020029 original size:13 final size:13
Alignment explanation
Indices: 50020011--50020042 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50020001 TTATCTGCCA
*
50020011 CAAATTGATGTGG
1 CAAATTGATATGG
50020024 CAAATTGATATGG
1 CAAATTGATATGG
50020037 CAAATT
1 CAAATT
50020043 AAGCTTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (13 bp):
CAAATTGATATGG
Found at i:50026174 original size:39 final size:40
Alignment explanation
Indices: 50026048--50026225 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 40
50026038 GCTCCTCGTT
*
50026048 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
50026088 CAATAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 C-A-AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
50026130 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
50026168 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50026209 CAAA-GCCTTCGGGACTT
1 CAAATGCCTTCGGGACTT
50026226 CCCGGACATC
Statistics
Matches: 118, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
38 25 0.21
39 21 0.18
40 24 0.20
41 12 0.10
42 34 0.29
43 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50028660 original size:38 final size:40
Alignment explanation
Indices: 50028531--50028753 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
50028521 TTGAATGATG
* * *
50028531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
50028570 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
50028611 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
50028649 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
50028688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
50028727 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50028754 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
38 37 0.23
39 37 0.23
40 80 0.49
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:50036581 original size:40 final size:40
Alignment explanation
Indices: 50036498--50036721 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
50036488 TTGAATGATG
* * * *
50036498 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
50036537 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50036577 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50036616 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50036656 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
50036697 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50036722 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 44 0.27
40 112 0.68
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50036710 original size:80 final size:80
Alignment explanation
Indices: 50036498--50036721 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
50036488 TTGAATGATG
* * * * *
50036498 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
50036560 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
50036577 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
50036640 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
50036656 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
50036721 G
66 G
50036722 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 54 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:50036739 original size:80 final size:80
Alignment explanation
Indices: 50036536--50036754 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 80
50036526 AAGTGACCAT
* ** * *
50036536 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
50036598 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* ** *
50036615 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
50036680 TGTGCGAGTTACTATA
66 GGTGCGAGTTACTA-A
* * * *
50036696 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
50036755 TACGTGATTT
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.48
80 59 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTGCGAGTTACTAA
Found at i:50039891 original size:13 final size:13
Alignment explanation
Indices: 50039873--50039899 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50039863 AGGATAACTT
50039873 ATTTAAACTAATC
1 ATTTAAACTAATC
50039886 ATTTAAACTAATC
1 ATTTAAACTAATC
50039899 A
1 A
50039900 GCCACAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACTAATC
Found at i:50044515 original size:26 final size:26
Alignment explanation
Indices: 50044457--50044528 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
50044447 TCCTATACAC
* *
50044457 ATATGCTTACATGAGCTGCGAAATGA
1 ATATGCTCACATGAGCTGTGAAATGA
50044483 ATATGCTCACATGAGCTGTGAAAT-A
1 ATATGCTCACATGAGCTGTGAAATGA
* * *
50044508 GGTTTGCTCACACGAGCTGTG
1 -ATATGCTCACATGAGCTGTG
50044529 GAGTATCCGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (26 bp):
ATATGCTCACATGAGCTGTGAAATGA
Found at i:50047814 original size:119 final size:120
Alignment explanation
Indices: 50047598--50047822 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
50047588 TTGAATGATG
*
50047598 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
50047663 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
50047718 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
50047780 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
50047823 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 70 0.76
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50047829 original size:40 final size:40
Alignment explanation
Indices: 50047598--50047822 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
50047588 TTGAATGATG
* * * *
50047598 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
50047638 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
50047678 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
50047718 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50047757 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
50047798 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50047823 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50047844 original size:79 final size:79
Alignment explanation
Indices: 50047605--50047855 Score: 271
Period size: 79 Copynumber: 3.2 Consensus size: 79
50047595 ATGTCCGGGC
* * * *
50047605 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
50047668 AGATACTAAATCCGGAC
64 AGATACTAAATCCGG-T
*
50047685 TAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
50047747 AGTTACTAAATCCGGGT
64 AGATACTAAATCC-GGT
* * **
50047764 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
50047829 -TAGCTATATCCGGT
66 ATA-CTAAATCCGGT
* *
50047843 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
50047856 TACGTGATTT
Statistics
Matches: 147, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 83 0.56
80 55 0.37
81 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
ATACTAAATCCGGT
Found at i:50050471 original size:17 final size:16
Alignment explanation
Indices: 50050449--50050480 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
50050439 GTGAAACCCA
50050449 AATAAAAAAACTTAAAG
1 AATAAAAAAA-TTAAAG
50050466 AATAAAAAAATTAAA
1 AATAAAAAAATTAAA
50050481 ATGGTAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAAAAAATTAAAG
Found at i:50057755 original size:40 final size:39
Alignment explanation
Indices: 50057625--50057829 Score: 173
Period size: 40 Copynumber: 5.2 Consensus size: 39
50057615 ACCCAAGTAT
* * *
50057625 CTTCGGGAT-TTAGCCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCGGATATAATCACTAGCACAAATGC
* ** * * *
50057663 CTTCGGGTCTTAGCCCAGATATGGTCACGAGCATAAATTC
1 CTTCGGGTCTTAG-CCGGATATAATCACTAGCACAAATGC
* * *
50057703 CTTTGGGACTTAGCCTGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCC-GGATATAATCACTAGCACAAATGC
* *
50057743 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATATAATC-ACTAGCACAAATGC
* * * *
50057783 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAG-CCGGATATAATCACTAGCACAAATGC
50057823 CTTCGGG
1 CTTCGGG
50057830 ACTTGGCCCG
Statistics
Matches: 129, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
37 1 0.01
38 11 0.09
39 17 0.13
40 97 0.75
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCGGATATAATCACTAGCACAAATGC
Found at i:50057795 original size:80 final size:79
Alignment explanation
Indices: 50057625--50057844 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
50057615 ACCCAAGTAT
* * * * *
50057625 CTTCGGGAT-TTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCAGATATGGT
1 CTTC-GGATCTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
* *
50057688 CACGAGCATAAATTC
65 CACGAGCACAAATGC
* * *
50057703 CTTTGGGA-CTTAGCCTGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 C-TTCGGATCTTAGCC-GGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
**
50057767 -CAACTCGCACAAATGC
64 TC-ACGAGCACAAATGC
* * * * *
50057783 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTGGCCCGAATAT
1 CTTCGGATCTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
50057845 CATTCGAATA
Statistics
Matches: 116, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
78 10 0.09
79 23 0.20
80 81 0.70
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
ACGAGCACAAATGC
Found at i:50066379 original size:42 final size:42
Alignment explanation
Indices: 50066278--50066478 Score: 240
Period size: 42 Copynumber: 4.8 Consensus size: 42
50066268 TGCCAATCCT
* * ** * *
50066278 ATATCCCAGATATGGTTTTACATGGGATCACATATTGATGTCA
1 ATATCCCAGATATGGTCTTACACGAAATCACATATCGATG-CC
* * ** * *
50066321 ATAGCCCAGCTATGGTCTTACACGATGTCTCGTATCGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCC
* * *
50066363 ATGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCC
50066405 ATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCC
1 ATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCC
* *
50066447 ATATCCTAGATATGGTCTTACACAAAATCACA
1 ATATCCCAGATATGGTCTTACACGAAATCACA
50066479 CATAACCCTA
Statistics
Matches: 133, Mismatches: 25, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
42 103 0.77
43 30 0.23
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCC
Found at i:50068627 original size:14 final size:13
Alignment explanation
Indices: 50068610--50068644 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
50068600 TTCTTTATTG
50068610 ATTTATTTATTTCT
1 ATTTATTTATTT-T
50068624 ATTTATTTTATTTT
1 ATTTA-TTTATTTT
50068638 ATTTATT
1 ATTTATT
50068645 AATATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 11 0.55
15 7 0.35
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:50068650 original size:24 final size:24
Alignment explanation
Indices: 50068611--50068657 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
50068601 TCTTTATTGA
** *
50068611 TTTATTTATTTCTATTTATTTTAT
1 TTTATTTATTAATATTAATTTTAT
50068635 TTTATTTATTAATATTAATTTTA
1 TTTATTTATTAATATTAATTTTA
50068658 ATACTCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATTTATTAATATTAATTTTAT
Found at i:50073090 original size:16 final size:17
Alignment explanation
Indices: 50073064--50073095 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50073054 AAATAAGAAA
50073064 TAATAATTATAATAATT
1 TAATAATTATAATAATT
50073081 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
50073096 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:50073222 original size:11 final size:12
Alignment explanation
Indices: 50073191--50073224 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
50073181 AGGGAAAGAA
50073191 AGAAAGAAAAAG
1 AGAAAGAAAAAG
50073203 AGAAAGAAAAAG
1 AGAAAGAAAAAG
*
50073215 -GAAGGAAAAA
1 AGAAAGAAAAA
50073225 TAGGGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:50075008 original size:20 final size:20
Alignment explanation
Indices: 50074979--50075029 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
50074969 GGCCTTGCCC
* *
50074979 CACGGCCATGTCCCAGGGCA
1 CACGGGCATGTCCCAGGCCA
*
50074999 CACGGGCATGTCCTAGGCCA
1 CACGGGCATGTCCCAGGCCA
50075019 CACGGGCATGT
1 CACGGGCATGT
50075030 GCCCCTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.35, G:0.31, T:0.14
Consensus pattern (20 bp):
CACGGGCATGTCCCAGGCCA
Found at i:50077845 original size:40 final size:40
Alignment explanation
Indices: 50077795--50078044 Score: 378
Period size: 40 Copynumber: 6.2 Consensus size: 40
50077785 AACAAGGCCG
* * * *
50077795 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
50077835 TCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
50077875 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
*
50077915 TCGGGACTTAGTCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
*
50077955 TCGAGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
* * * *
50077995 TCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
50078035 TCGGGACTTA
1 TCGGGACTTA
50078045 ACCCCGTTAG
Statistics
Matches: 197, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 195 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
Found at i:50083822 original size:16 final size:17
Alignment explanation
Indices: 50083796--50083827 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50083786 AAATAAGAAA
50083796 TAATAATTATAATAATT
1 TAATAATTATAATAATT
50083813 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
50083828 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:50083869 original size:14 final size:15
Alignment explanation
Indices: 50083850--50083884 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
50083840 ATAATAAAAG
50083850 AAGAAAGAAAACA-A
1 AAGAAAGAAAACATA
*
50083864 AAGAAATAAAACATA
1 AAGAAAGAAAACATA
50083879 AAGAAA
1 AAGAAA
50083885 AAGAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (15 bp):
AAGAAAGAAAACATA
Found at i:50097131 original size:33 final size:32
Alignment explanation
Indices: 50097082--50097145 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
50097072 CTCGCTGCAA
* *
50097082 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
50097115 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
50097146 GTGACTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:50102913 original size:15 final size:15
Alignment explanation
Indices: 50102881--50102919 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
50102871 AATCCCTAAC
*
50102881 ATAATAATAATTCAA
1 ATAATAATAATACAA
*
50102896 ATAATAATAATACTA
1 ATAATAATAATACAA
*
50102911 ATATTAATA
1 ATAATAATA
50102920 TTAATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATAATAATACAA
Found at i:50103020 original size:10 final size:10
Alignment explanation
Indices: 50103005--50103030 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
50102995 AAGGTAGGGA
50103005 AGAAAATGGG
1 AGAAAATGGG
50103015 AGAAAATGGG
1 AGAAAATGGG
50103025 AGAAAA
1 AGAAAA
50103031 GGAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.08
Consensus pattern (10 bp):
AGAAAATGGG
Found at i:50113848 original size:55 final size:55
Alignment explanation
Indices: 50113732--50113853 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
50113722 CTGCCAAAGC
* * * * *
50113732 AACACGGGCGTGCGACATGCCTGTGTGGAAGACCCGTGGTTGAAACTGAGAAACT
1 AACACGGGCGTGAGACATGCCCGTGTGCAAGACCCGTGATTGAAACTGACAAACT
* * * * *
50113787 AGCACGGGCGTGAGACATGCCCGTGT-CCAGCACCCGTGATTGAACCTGTCAAATT
1 AACACGGGCGTGAGACATGCCCGTGTGCAAG-ACCCGTGATTGAAACTGACAAACT
*
50113842 AACACGGTCGTG
1 AACACGGGCGTG
50113854 CAACACGGCC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 2 0.04
55 52 0.96
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.19
Consensus pattern (55 bp):
AACACGGGCGTGAGACATGCCCGTGTGCAAGACCCGTGATTGAAACTGACAAACT
Found at i:50121423 original size:48 final size:48
Alignment explanation
Indices: 50121360--50122144 Score: 1281
Period size: 48 Copynumber: 16.4 Consensus size: 48
50121350 TATATATGTG
50121360 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
50121408 TGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50121456 TGTGGTAAAACCGAATGGTTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50121504 TGCGGTAAAGCCGAAAGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
50121552 TGAGGTAAAGTCGAATGACTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
50121600 CGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
50121648 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTACA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50121696 GGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
50121744 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50121792 TGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGATATGTAAA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
**
50121840 TGCAGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
50121888 TGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50121936 TGCGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50121984 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50122032 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG--A--TATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
50122076 TGTGGTAAATCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
50122124 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
50122145 GTGATTCGGC
Statistics
Matches: 690, Mismatches: 43, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
44 39 0.06
46 2 0.00
48 649 0.94
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:50124562 original size:30 final size:30
Alignment explanation
Indices: 50124527--50124592 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
50124517 GGGCATACCA
* *
50124527 TGTGTCGCACACAGCCTAGACACATTCCCG
1 TGTGTCACACACAGCCTAGACACATGCCCG
50124557 TGTGTCACACACAGCCTAGACACATGCCCG
1 TGTGTCACACACAGCCTAGACACATGCCCG
50124587 TGTGTC
1 TGTGTC
50124593 TAGTCGTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (30 bp):
TGTGTCACACACAGCCTAGACACATGCCCG
Found at i:50125523 original size:48 final size:45
Alignment explanation
Indices: 50125452--50125574 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
50125442 AAGCTGACGC
* *
50125452 CATGTCCCAGACAGGTCTTACACTAGCTTGTAT-ATCCCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CATGAT---GAGGCCAATG
* * *
50125500 CATGTCCCAGACATGTCTTACACTAGCACTCATGATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTCATGATGAGGCCAATG
*
50125546 CATGTCCCAGACATGTCTTACACTGGCTT
1 CATGTCCCAGACATGTCTTACACTAGCTT
50125575 ACATACCACT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.02
46 34 0.52
48 28 0.42
49 3 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCATGATGAGGCCAATG
Found at i:50136553 original size:7 final size:7
Alignment explanation
Indices: 50136541--50136565 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50136531 GTGGCCTAAG
50136541 TGTAAAA
1 TGTAAAA
50136548 TGTAAAA
1 TGTAAAA
50136555 TGTAAAA
1 TGTAAAA
50136562 TGTA
1 TGTA
50136566 CTATGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (7 bp):
TGTAAAA
Found at i:50142293 original size:15 final size:15
Alignment explanation
Indices: 50142273--50142302 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50142263 CTTATTATCG
*
50142273 TATCTATAATGTATA
1 TATCTATAATATATA
50142288 TATCTATAATATATA
1 TATCTATAATATATA
50142303 AAAACATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TATCTATAATATATA
Found at i:50144322 original size:22 final size:20
Alignment explanation
Indices: 50144297--50144336 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
50144287 TCGGTTGATG
50144297 AATTGGTTATATATAATTGAGT
1 AATTGGTT-TATA-AATTGAGT
50144319 AATTGGTTTATAAATTGA
1 AATTGGTTTATAAATTGA
50144337 ATTGAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (20 bp):
AATTGGTTTATAAATTGAGT
Found at i:50147057 original size:46 final size:46
Alignment explanation
Indices: 50147007--50147179 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
50146997 TGGTTGAGCA
50147007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50147053 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
50147098 CATCCGAACTCGTTGAGTTGAATCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50147146 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50147180 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50147163 original size:93 final size:93
Alignment explanation
Indices: 50147004--50147174 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
50146994 GGATGGTTGA
* * *
50147004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50147069 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
50147097 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50147162 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50147175 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50147441 original size:19 final size:20
Alignment explanation
Indices: 50147404--50147441 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50147394 ATAAGGTGGT
50147404 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
50147424 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
50147442 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:50151677 original size:23 final size:21
Alignment explanation
Indices: 50151631--50151683 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
50151621 GTTCTAATCT
50151631 TTGATTTATTATTCTATTTTA
1 TTGATTTATTATTCTATTTTA
50151652 TTGATCTTAGTTATT-TATTTTAA
1 TTGAT-TTA-TTATTCTATTTT-A
*
50151675 TTGTTTTAT
1 TTGATTTAT
50151684 CTTACTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 6 0.21
22 12 0.43
23 10 0.36
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.66
Consensus pattern (21 bp):
TTGATTTATTATTCTATTTTA
Found at i:50152881 original size:43 final size:43
Alignment explanation
Indices: 50152820--50152970 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
50152810 TGGAAAAAAA
* * * * *
50152820 GCCGCTATAGAACATGACCCTTAGCAGTGCTTTTTCCACAAGC
1 GCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTACCACAAAC
* **
50152863 GCCGCTATAGAACATGACCTTTAGTGGCGC-TTTACCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTACCACAAAC
* * * *
50152905 GTCACTAAAGAGCATGACCTTTAGCTA-CGCTTTTCCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGC-AGCGCTTTTACCACAAAC
*
50152948 GCCGCTAAAGAACATGACTTTTA
1 GCCGCTAAAGAACATGACCTTTA
50152971 AAAAAATATT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 33 0.37
43 56 0.63
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTACCACAAAC
Found at i:50156707 original size:21 final size:20
Alignment explanation
Indices: 50156683--50156734 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
50156673 TTATGCCACA
*
50156683 TCAGTATTCTTATTCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
50156704 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
*
50156724 TTAGTATTTTA
1 TCAGTATTTTA
50156735 ATTTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.52
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:50157516 original size:25 final size:25
Alignment explanation
Indices: 50157488--50157538 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
50157478 GCATGGAGAA
50157488 GAGGAATGAAGTAGTGCATTAAAAG
1 GAGGAATGAAGTAGTGCATTAAAAG
50157513 GAGGAATGAAGTAGTGCATTAAAAG
1 GAGGAATGAAGTAGTGCATTAAAAG
50157538 G
1 G
50157539 CGTTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.33, T:0.20
Consensus pattern (25 bp):
GAGGAATGAAGTAGTGCATTAAAAG
Found at i:50160504 original size:21 final size:22
Alignment explanation
Indices: 50160463--50160502 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
50160453 GCTAACACAT
*
50160463 AAAAAAAAACAAGAGAATTTGC
1 AAAAAAAAACAAGAAAATTTGC
50160485 AAAAAAAAA-AA-AAAATTT
1 AAAAAAAAACAAGAAAATTT
50160503 TGTAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAAAAAAACAAGAAAATTTGC
Found at i:50164719 original size:27 final size:27
Alignment explanation
Indices: 50164689--50164742 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
50164679 TCCAACCGTC
*
50164689 GAGCCTCCACATAACGAGGGCTCACAT
1 GAGCCTCCACATAACGAGGGCCCACAT
* *
50164716 GAGCCTCCATATAACTAGGGCCCACAT
1 GAGCCTCCACATAACGAGGGCCCACAT
50164743 ACTTACCCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (27 bp):
GAGCCTCCACATAACGAGGGCCCACAT
Found at i:50168834 original size:23 final size:22
Alignment explanation
Indices: 50168808--50168865 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 22
50168798 GGGGAAAAAG
*
50168808 GGGGAAATGAAATTCAGAAGAA
1 GGGGAAATGAAATTCAAAAGAA
50168830 CGGGGAAATGAAATTCAAAAGAA
1 -GGGGAAATGAAATTCAAAAGAA
50168853 GGTGGAAATGAAA
1 GG-GGAAATGAAA
50168866 ATTTTCGGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 2 0.06
23 31 0.94
ACGTcount: A:0.50, C:0.05, G:0.31, T:0.14
Consensus pattern (22 bp):
GGGGAAATGAAATTCAAAAGAA
Found at i:50169854 original size:14 final size:14
Alignment explanation
Indices: 50169834--50169878 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
50169824 TCTTAAACCT
50169834 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
50169848 TATACCCTAAACCA
1 TAAACCCTAAACTA
50169862 TAAACCCTAAACTA
1 TAAACCCTAAACTA
50169876 TAA
1 TAA
50169879 TGACAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:50170408 original size:40 final size:40
Alignment explanation
Indices: 50170353--50170515 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
50170343 TTTTGCTGCG
* * * * *
50170353 TTTTTCAAAAAGCGCCGCTAGTGGTCGACCTATAGCGGCA
1 TTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGGCA
*
50170393 TTTTTTAAAAAGCGCCACTAATGCTCCATCTATAGC-G-A
1 TTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGGCA
* * *
50170431 TGTTTTTCAAAAAGCGCCGCTAATTCTCGATCTATAGCAGCA
1 T-TTTTT-AAAAAGCGCCACTAATGCTCGATCTATAGCGGCA
* * * *
50170473 -TCTTTCAATAGCGCCACTAATGCTCGATCTATAGTGGCA
1 TTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGGCA
50170512 TTTT
1 TTTT
50170516 CTATCCAAAC
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.34
40 63 0.62
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGGCA
Found at i:50174188 original size:49 final size:48
Alignment explanation
Indices: 50173923--50174194 Score: 174
Period size: 46 Copynumber: 5.7 Consensus size: 48
50173913 CCACATTATG
* * **
50173923 TGAGTCAGTGTAAGACCATGTCTAGGACATGGGATCGGCATTGA-AACA
1 TGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAA-A
* * * *
50173971 AGAG-CTAGTGTAAGA-CGTGTCTGGGACAT-GCATCGAC-CTCG-TAAGG
1 TGAGTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAA-A
* * * * * *
50174017 TAAGCCAGTATAAGA-CATGTCAGGGACAT-GCATCAGCTA-CG--AGA
1 TGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACCGATAAA
* * **
50174061 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATG
1 TGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAAA
* * *
50174109 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGC-CTCGATGACAA
1 TGAG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAT-A-AA
50174161 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCAT
1 TGAGTCAGTGTAAGACCATGTCTGGGACATGGCAT
50174195 TGACTTGAGA
Statistics
Matches: 171, Mismatches: 37, Indels: 31
0.72 0.15 0.13
Matches are distributed among these distances:
44 11 0.06
45 15 0.09
46 47 0.27
47 14 0.08
48 16 0.09
49 29 0.17
50 35 0.20
51 3 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
TGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAAA
Found at i:50175375 original size:20 final size:21
Alignment explanation
Indices: 50175337--50175375 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50175327 TCTTAGTGAT
50175337 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
50175358 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
50175376 ATTTCAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:50178610 original size:28 final size:28
Alignment explanation
Indices: 50178547--50178700 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
50178537 ATATTAAGTC
* *
50178547 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
50178574 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
50178602 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
50178630 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
50178658 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
50178686 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50178701 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:50186585 original size:28 final size:28
Alignment explanation
Indices: 50186542--50186706 Score: 305
Period size: 28 Copynumber: 5.9 Consensus size: 28
50186532 ACTCAGTGAT
*
50186542 ATAATC-AACTCGCACACTTAGTGCTAT
1 ATAATCAAACTCGCACACTTAGTGCTAC
50186569 ATAATCAAACTCGCACACTTAGTGCTAC
1 ATAATCAAACTCGCACACTTAGTGCTAC
*
50186597 ATAATCAAGCTCGCACACTTAGTGCTAC
1 ATAATCAAACTCGCACACTTAGTGCTAC
50186625 ATAATCAAACTCGCACACTTAGTGCTAC
1 ATAATCAAACTCGCACACTTAGTGCTAC
50186653 ATAATCAAACTCGCACACTTAGTGCTAC
1 ATAATCAAACTCGCACACTTAGTGCTAC
50186681 ATAATCAAACTCGCACACTTAGTGCT
1 ATAATCAAACTCGCACACTTAGTGCT
50186707 GTACAATTTA
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 6 0.04
28 128 0.96
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
ATAATCAAACTCGCACACTTAGTGCTAC
Found at i:50197512 original size:68 final size:65
Alignment explanation
Indices: 50197305--50197555 Score: 224
Period size: 68 Copynumber: 3.8 Consensus size: 65
50197295 CATAATTTTG
* * *
50197305 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCCATGTGACCTAGCCA-CTTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATAGTATCA-CACATGTGACCTAGCTACCTCTATTCTCGT
50197368 A
65 A
** * * * * * ** *
50197369 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACACATGTGACCTAGCTACCTCTATTCTC
50197433 GTA
63 GTA
*
50197436 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACACATGTGACCTAGCTACCTC-T-AT-TCT
*
50197500 CATA
62 CGTA
* * *
50197504 GCTCTCTTGTACACATGGTATACATCCT-GTATTACACATGTGACCTAGCTAC
1 GCTCTCTTGTACACATGGTGTACA-CATAGTATCACACATGTGACCTAGCTAC
50197556 ATACCATCTG
Statistics
Matches: 148, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
64 44 0.30
65 1 0.01
66 14 0.09
67 37 0.25
68 49 0.33
69 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACACATGTGACCTAGCTACCTCTATTCTCGTA
Found at i:50200369 original size:46 final size:45
Alignment explanation
Indices: 50200308--50200487 Score: 179
Period size: 46 Copynumber: 3.9 Consensus size: 45
50200298 TTTGGGTCAC
* *
50200308 TTATGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA
1 TTATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CA
50200354 TTATGAGAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGG--CA
1 TTATGAGAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCA
* **
50200399 TTGA-GATGAATGCTAGTGTAAGACATGTCTAAGACATGCATCGGCCTCA
1 TT-ATGA-G-A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CA
** *
50200448 AGACGTAG-GCCAGTGTAAGACATGTCTGGGACATGCATCG
1 TTATG-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCG
50200488 ACTAAGAGTT
Statistics
Matches: 113, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
45 6 0.05
46 57 0.50
47 25 0.22
48 20 0.18
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
TTATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCA
Found at i:50202113 original size:49 final size:49
Alignment explanation
Indices: 50202060--50202177 Score: 184
Period size: 49 Copynumber: 2.4 Consensus size: 49
50202050 TTCGTAGGGT
*
50202060 ATGTTAGTTGCTAACCAGATGGGAAAATAAGATAGGCCACTAG-TAAGGC
1 ATGTTAGTTGCTAACCAGATGGCAAAATAAGATAGGCCACT-GCTAAGGC
* * *
50202109 ATGTTAGTTGCTAACCAGATGGCCAAATAAGATGGGCCACTGCTAGGGC
1 ATGTTAGTTGCTAACCAGATGGCAAAATAAGATAGGCCACTGCTAAGGC
50202158 ATGTTAGTTGCTAACCAGAT
1 ATGTTAGTTGCTAACCAGAT
50202178 TGGCGTAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
ATGTTAGTTGCTAACCAGATGGCAAAATAAGATAGGCCACTGCTAAGGC
Found at i:50203750 original size:49 final size:49
Alignment explanation
Indices: 50203678--50203774 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
50203668 ATGGTAGTTG
* ** *
50203678 TAATTCCTTTTGGGAAGAATATAATTTTTTTAATACTTTCCATATGTTA
1 TAATTCCTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATATGTTA
* *
50203727 TAATTCTTTTTGGAAAGAATATAACGTGTTTAATGCTTTCCATATGTT
1 TAATTCCTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATATGTT
50203775 CTTTATAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (49 bp):
TAATTCCTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATATGTTA
Found at i:50205652 original size:20 final size:20
Alignment explanation
Indices: 50205629--50205768 Score: 67
Period size: 20 Copynumber: 6.7 Consensus size: 20
50205619 AATTGCAAAA
50205629 AAAAAATTAAAATAATTTTT
1 AAAAAATTAAAATAATTTTT
*
50205649 -AAAATTTCAAAATAATTTTT
1 AAAAAATT-AAAATAATTTTT
*
50205669 --AAAATTCAAAAT-ATTTAT
1 AAAAAATT-AAAATAATTTTT
*
50205687 AAAAATTTCAAAATTTATATATTTTT
1 AAAAAATT--AAA---ATA-ATTTTT
*
50205713 AAAAAAATTATAAA-AATTTTA
1 -AAAAAATTA-AAATAATTTTT
* *
50205734 AAAAAATTCTAAAA-AATATAT
1 AAAAAA-T-TAAAATAATTTTT
50205755 AAAAAAGTTAAAAT
1 AAAAAA-TTAAAAT
50205769 TTTAAAAATG
Statistics
Matches: 94, Mismatches: 12, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
18 5 0.05
19 17 0.18
20 28 0.30
21 23 0.24
22 3 0.03
23 1 0.01
24 2 0.02
25 1 0.01
26 7 0.07
27 7 0.07
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (20 bp):
AAAAAATTAAAATAATTTTT
Found at i:50205667 original size:19 final size:20
Alignment explanation
Indices: 50205637--50205700 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
50205627 AAAAAAAATT
50205637 AAAATAATTTTTAAAATTTC
1 AAAATAATTTTTAAAATTTC
50205657 AAAATAATTTTTAAAA-TTC
1 AAAATAATTTTTAAAATTTC
*
50205676 AAAAT-ATTTATAAAAATTTC
1 AAAATAATTT-TTAAAATTTC
50205696 AAAAT
1 AAAAT
50205701 TTATATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 4 0.10
19 13 0.32
20 24 0.59
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATAATTTTTAAAATTTC
Found at i:50205702 original size:18 final size:18
Alignment explanation
Indices: 50205649--50205705 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
50205639 AATAATTTTT
* *
50205649 AAAATTTCAAAATAATTTTT
1 AAAATTTCAAAAT--TTATA
50205669 AAAA-TTCAAAATATTTATA
1 AAAATTTC-AAA-ATTTATA
50205688 AAAATTTCAAAATTTATA
1 AAAATTTCAAAATTTATA
50205706 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 7 0.22
19 13 0.41
20 10 0.31
21 2 0.06
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTCAAAATTTATA
Found at i:50205727 original size:10 final size:10
Alignment explanation
Indices: 50205714--50205760 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
50205704 TATATTTTTA
50205714 AAAAAATTAT
1 AAAAAATTAT
*
50205724 -AAAAATTTT
1 AAAAAATTAT
*
50205733 AAAAAAATTCT
1 -AAAAAATTAT
50205744 AAAAAATATAT
1 AAAAAAT-TAT
50205755 AAAAAA
1 AAAAAA
50205761 GTTAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.26
10 7 0.23
11 16 0.52
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Done.