Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:644257 original size:31 final size:31
Alignment explanation
Indices: 644221--644285 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
644211 TAACTAAATT
*
644221 TAATTTGTTATTTTGTCTATATAAATTATCA
1 TAATTTGTTATTTTGTCTAAATAAATTATCA
644252 TAATTTGTTATTTTGTCTAAATAAATTATCA
1 TAATTTGTTATTTTGTCTAAATAAATTATCA
644283 TAA
1 TAA
644286 ATTATCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TAATTTGTTATTTTGTCTAAATAAATTATCA
Found at i:646210 original size:2 final size:2
Alignment explanation
Indices: 646203--646242 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
646193 TAAATCTTAT
646203 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
646243 ATTATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:646380 original size:12 final size:13
Alignment explanation
Indices: 646364--646418 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 13
646354 ATCATTATTG
*
646364 TTTTTTATATTTA
1 TTTTTTATATATA
646377 TTTTATTATATATA
1 TTTT-TTATATATA
* *
646391 TTTTCTTATGTACA
1 TTTT-TTATATATA
*
646405 TTTTTTGTATATA
1 TTTTTTATATATA
646418 T
1 T
646419 ATATATTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 11 0.32
14 23 0.68
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (13 bp):
TTTTTTATATATA
Found at i:646445 original size:15 final size:14
Alignment explanation
Indices: 646425--646458 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
646415 ATATATATAT
646425 TTATTATTTTCATTA
1 TTATTATTTT-ATTA
646440 TTATTATTTTATTA
1 TTATTATTTTATTA
*
646454 CTATT
1 TTATT
646459 TTTACTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:646449 original size:41 final size:42
Alignment explanation
Indices: 646320--646449 Score: 108
Period size: 41 Copynumber: 3.1 Consensus size: 42
646310 ATATTTTAAA
* * *
646320 TTTTTAT-TATAATTATATTACTTATATTTCTTTCATCATTATTGT
1 TTTTTATATAT-ATTATATTA--TATATAT-TTTCATTATTATTAT
* * *
646365 TTTTTATATTTATTTTATTATATATATTTTC-TTATGTA-CAT
1 TTTTTATATATATTATATTATATATATTTTCATTAT-TATTAT
*
646406 TTTTTGTATATATATATATT-TAT-TATTTTCATTATTATTAT
1 TTTTTATATATAT-TATATTATATATATTTTCATTATTATTAT
646447 TTT
1 TTT
646450 ATTACTATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
40 9 0.13
41 27 0.39
42 11 0.16
43 6 0.09
45 15 0.21
46 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (42 bp):
TTTTTATATATATTATATTATATATATTTTCATTATTATTAT
Found at i:646736 original size:49 final size:48
Alignment explanation
Indices: 646683--646776 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
646673 GTACTTTTAT
*
646683 TTTTTTATCTAT-ATTTTCCTTGTTTTATTTACTTTTTATCTTTACTCCG
1 TTTTTT-TCTATCATTTTACTTGTTTTATTTACTTTTTAT-TTTACTCCG
* * *
646732 TTTTTTTCTCTCATTTTATTTGTTTTATTTATTTTTTATTTTACT
1 TTTTTTTCTATCATTTTACTTGTTTTATTTACTTTTTATTTTACT
646777 TTCTTCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 10 0.25
49 30 0.75
ACGTcount: A:0.14, C:0.13, G:0.03, T:0.70
Consensus pattern (48 bp):
TTTTTTTCTATCATTTTACTTGTTTTATTTACTTTTTATTTTACTCCG
Found at i:647713 original size:4 final size:4
Alignment explanation
Indices: 647704--647730 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
647694 TTTCCTTATT
647704 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
647731 TGTCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:651905 original size:110 final size:110
Alignment explanation
Indices: 651716--652438 Score: 997
Period size: 110 Copynumber: 6.7 Consensus size: 110
651706 TGATGGTTGT
* * *
651716 TCAACTTCAAAGCGAAGGGGCGA----CTATCAACAAACAACTTTTTAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
651777 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
66 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
* * *
651822 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAATAAATAACTTTTCAGTTTCATTCATAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
*
651887 TTTCAACTTCACAATGAAGGATATTGGACTCGAGACAACACAAGC
66 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
* * * * * *
651932 TCAACTTTACAGCGAAGGGGTGACTGGCTGTTAATAAACAACTTTTCAGTTTCAGTCATAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
* * *
651997 TTTCAACTTCACAGCGAAGGATATTAGACTCGAGAAAACACAAGC
66 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
* * * *
652042 TCAACTTCACAGCAAAGGGG-AACTGACTGTCAACAAACAACTTTTCAGTTTCATTGAGAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
*
652106 TTTCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGC
66 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
* *
652151 TCAACTTCATAGCGAAGGGGCGACTGACTGTCAAC--A-AAC--TTCAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
* **
652211 TTTCAACTTCACAGCGAAATATATTGGACTCGAGACAACACAAGC
66 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
* ** *
652256 TCAACTTCATAGCGAAAAGGCGACTGGCTGTCAATAAACAACTTTTCAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
* * *
652321 TTTCAACTTCACAGTGAAAGATATTAGACTCGAGACAACTCAAGC
66 TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
* ** * *
652366 TCAACTTCACAGTGAATAGGTGACTGGCTGTCAACAAACAACTTTCCAG-TT--TT-AGAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
*
652427 TTTAAACTTCAC
66 TTTCAACTTCAC
652439 GGCGAATGAC
Statistics
Matches: 556, Mismatches: 51, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
105 93 0.17
106 41 0.07
107 6 0.01
108 4 0.01
109 98 0.18
110 314 0.56
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (110 bp):
TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
TTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGC
Found at i:652346 original size:324 final size:326
Alignment explanation
Indices: 651716--652453 Score: 1062
Period size: 324 Copynumber: 2.3 Consensus size: 326
651706 TGATGGTTGT
* * * *
651716 TCAACTTCAAAGCGAAGGGG-C-GACTATCAACAAACAACTTTTTAGTTTCATTCAGAGTCAATT
1 TCAACTTCACAGCAAAGGGGACTGACTGTCAACAAACAACTTTTCAGTTTCATT-AGAGTCAATT
*
651779 TCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
65 TCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
* * * *
651844 ACTGGCTGTCAATAAATAACTTTTCAGTTTCATTCATAGTCAATTTCAACTTCACAATGAAGGAT
130 ACTGACTGTCAATAAATAAC-TTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAAGAT
* ** * *
651909 ATTGGACTCGAGACAACACAAGCTCAACTTTACAGCGAAGGGGTGACTGGCTGTTAATAAACAAC
194 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAAAGGCGACTGGCTGTCAATAAACAAC
* *
651974 TTTTCAGTTTCAGTCATAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGAAAACACA
259 TTTTCAGTTTCAGTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGAAAACACA
652039 AGC
324 AGC
652042 TCAACTTCACAGCAAAGGGGAACTGACTGTCAACAAACAACTTTTCAGTTTCATTGAGAGTCAAT
1 TCAACTTCACAGCAAAGGGG-ACTGACTGTCAACAAACAACTTTTCAGTTTCATT-AGAGTCAAT
*
652107 TTCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCATAGCGAAGGGGC
64 TTCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGC
* * *
652172 GACTGACTGTC-A-ACA-AAC-TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAATAT
129 GACTGACTGTCAATAAATAACTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAAGAT
*
652233 ATTGGACTCGAGACAACACAAGCTCAACTTCATAGCGAAAAGGCGACTGGCTGTCAATAAACAAC
194 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAAAGGCGACTGGCTGTCAATAAACAAC
* * * *
652298 TTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAAAGATATTAGACTCGAGACAACTCA
259 TTTTCAGTTTCAGTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGAAAACACA
652363 AGC
324 AGC
* * * *
652366 TCAACTTCACAGTGAATAGGTGACTGGCTGTCAACAAACAACTTTCCAG-TT--TTAGAGTCAAT
1 TCAACTTCACAG-CAA-AGGGGACTGACTGTCAACAAACAACTTTTCAGTTTCATTAGAGTCAAT
* * * *
652428 TTAAACTTCACGGCGAATGACATTGG
64 TTCAACTTCACAGTGAATGATATTGG
652454 CCTCAAAATA
Statistics
Matches: 373, Mismatches: 34, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
321 31 0.08
322 2 0.01
324 173 0.46
325 27 0.07
326 25 0.07
327 2 0.01
328 2 0.01
329 111 0.30
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (326 bp):
TCAACTTCACAGCAAAGGGGACTGACTGTCAACAAACAACTTTTCAGTTTCATTAGAGTCAATTT
CAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGA
CTGACTGTCAATAAATAACTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAAGATAT
TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAAAGGCGACTGGCTGTCAATAAACAACTT
TTCAGTTTCAGTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGAAAACACAAG
C
Found at i:652675 original size:85 final size:83
Alignment explanation
Indices: 652574--652939 Score: 389
Period size: 85 Copynumber: 4.4 Consensus size: 83
652564 GGAATCATGC
* * * * * *
652574 CCACCAAAGGCCTTCGAGTTCGACTATGCTCAGCTCCAAGGTACATTATTTGTAGCATAACTTAA
1 CCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAA
652639 GTCGAGAAGGGTTATCTG
66 GTCGAGAAGGGTTATCTG
* ** *
652657 CCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGGCACATCATTTGTAGTATAGCT
1 CC-ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAACATAACT
652721 TAAGTCGAGAAGGGTTATCTG
63 TAAGTCGAGAAGGGTTATCTG
* * * * * * *
652742 ---CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCA
1 CCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAACATAACTTA
* *
652804 AGGCTAGAAGGGTTATCTG
65 AGTCGAGAAGGGTTATCTG
* * *
652823 TCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTA
1 CCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTTA
* *
652888 AGTCAAGAAGGGCTATCTG
65 AGTCGAGAAGGGTTATCTG
* * * * *
652907 TCAACCGAAGACCTTCAAGTTCGATTACACTCA
1 -CCACCAAAGACCTTCGAGTTCGACTACGCTCA
652940 ACTCAGAGGC
Statistics
Matches: 235, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
80 26 0.11
81 39 0.17
82 1 0.00
83 2 0.01
84 71 0.30
85 96 0.41
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAA
GTCGAGAAGGGTTATCTG
Found at i:652816 original size:81 final size:80
Alignment explanation
Indices: 652576--652991 Score: 287
Period size: 85 Copynumber: 5.0 Consensus size: 80
652566 AATCATGCCC
* ** * * * ** * * *
652576 ACCAAAGGCCTTCGAGTTCGACTATGCTCAGCTCCAAGGTACATTATTTGTAGCATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCT-CAGGGCACATCATTTACAACATAACTCAAGG
* *
652641 CGAGAAGGGTTATCTG
65 CAAGAAGGGCTATCTG
* ** ** * *
652657 CCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGGCACATCATTTGTAGTATAGCTT
1 ---ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTC-AGGGCACATCATTTACAACATAACTC
* * *
652722 AAGTCGAGAAGGGTTATCTG
61 AAGGCAAGAAGGGCTATCTG
* *
652742 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TC-AGGGCACATCATTTACAACATAACTCAAG
* *
652806 GCTAGAAGGGTTATCTG
64 GCAAGAAGGGCTATCTG
* * * * * *
652823 TCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTA
1 --ACC-AAAGACCTTCGAGTTCGACTACACTCAGCT-CAGGGCACATCATTTACAACATAACTCA
*
652888 AGTCAAGAAGGGCTATCTG
62 AGGCAAGAAGGGCTATCTG
* * * * * *
652907 TCAACCGAAGACCTTCAAGTTCGATTACACTCAACTCAGAGGCAAACCAAATTTACAGA-ATAAC
1 ---ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAG-GGCACATC--ATTTACA-ACATAAC
652971 TCAAGGCAAGAAGGGCTATCT
59 TCAAGGCAAGAAGGGCTATCT
652992 ATAAAAAAAA
Statistics
Matches: 274, Mismatches: 45, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
80 26 0.09
81 42 0.15
83 2 0.01
84 76 0.28
85 98 0.36
86 29 0.11
87 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (80 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAGGGCACATCATTTACAACATAACTCAAGGC
AAGAAGGGCTATCTG
Found at i:652859 original size:165 final size:168
Alignment explanation
Indices: 652629--652991 Score: 452
Period size: 165 Copynumber: 2.2 Consensus size: 168
652619 TTATTTGTAG
* * *
652629 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* ** * * *
652694 -CAAGGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGTTATCTG-CCAAAGACCCTCGAG
66 CCAA-GGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGCTATCTGACCAAAGACCCTCAAG
* * *
652757 TTCGATTACACTCAGCTTC-GAGGGCACATC-ATTTACA-A
130 TTCGATTACACTCAAC-TCAGA-GGCAAACCAATTTACAGA
* * *
652795 CATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTTGACTACGCTCAGCT
1 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
652859 CCAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGCTATCTGTCAACCGAAGACCTTCA
66 CCAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGCTATCTG---ACCAAAGACCCTCA
652924 AGTTCGATTACACTCAACTCAGAGGCAAACCAAATTTACAGA
128 AGTTCGATTACACTCAACTCAGAGGCAAACC-AATTTACAGA
*
652966 -ATAACTCAAGGCAAGAAGGGCTATCT
1 CATAACTCAAGGCAAGAAGGGTTATCT
652992 ATAAAAAAAA
Statistics
Matches: 170, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
165 72 0.42
166 29 0.17
168 8 0.05
169 29 0.17
170 31 0.18
171 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (168 bp):
CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGCTATCTGACCAAAGACCCTCAAGT
TCGATTACACTCAACTCAGAGGCAAACCAATTTACAGA
Found at i:655882 original size:10 final size:10
Alignment explanation
Indices: 655869--655935 Score: 52
Period size: 12 Copynumber: 6.6 Consensus size: 10
655859 TTATTTATGC
655869 TATATTATAT
1 TATATTATAT
655879 TATATT-T-T
1 TATATTATAT
*
655887 TATATT-TTT
1 TATATTATAT
655896 TATA-TATAT
1 TATATTATAT
655905 ATATATATATAT
1 -TATAT-TATAT
655917 ATATATATATATT
1 -TATAT-TATA-T
655930 TATATT
1 TATATT
655936 TCTTTTCATC
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
8 9 0.18
9 8 0.16
10 10 0.20
11 1 0.02
12 21 0.42
13 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TATATTATAT
Found at i:655901 original size:2 final size:2
Alignment explanation
Indices: 655896--655934 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
655886 TTATATTTTT
*
655896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
655935 TTCTTTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:655964 original size:14 final size:14
Alignment explanation
Indices: 655947--656032 Score: 54
Period size: 14 Copynumber: 6.1 Consensus size: 14
655937 CTTTTCATCA
655947 TTATTTTTTATATT
1 TTATTTTTTATATT
*
655961 TTA-TTATTATATT
1 TTATTTTTTATATT
* * *
655974 TTCTTATGTATATT
1 TTATTTTTTATATT
655988 TT-TTTGTATATATATT
1 TTATTT-T-T-TATATT
*
656004 TT-TTATTTGATATT
1 TTATT-TTTTATATT
*
656018 TTATTTATTAT-TT
1 TTATTTTTTATATT
656031 TT
1 TT
656033 CATTATTATT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
13 17 0.30
14 24 0.43
15 3 0.05
16 11 0.20
17 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (14 bp):
TTATTTTTTATATT
Found at i:655991 original size:16 final size:15
Alignment explanation
Indices: 655955--656025 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 15
655945 CATTATTTTT
*
655955 TATA-TTTTATTAT-
1 TATATTTTTTTTATG
*
655968 TATA-TTTTCTTATG
1 TATATTTTTTTTATG
*
655982 TATATTTTTTTGTATA
1 TATATTTTTTT-TATG
655998 TATATTTTTTATT-TG
1 TATATTTTTT-TTATG
*
656013 -ATATTTTATTTAT
1 TATATTTTTTTTAT
656026 TATTTTTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 14 0.29
14 13 0.27
15 6 0.12
16 14 0.29
17 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (15 bp):
TATATTTTTTTTATG
Found at i:656026 original size:16 final size:14
Alignment explanation
Indices: 655953--656026 Score: 69
Period size: 14 Copynumber: 5.1 Consensus size: 14
655943 ATCATTATTT
*
655953 TTTATATTTTATTA
1 TTTATATTTTTTTA
*
655967 -TTATATTTTCTTA
1 TTTATATTTTTTTA
* *
655980 TGTATATTTTTTTG
1 TTTATATTTTTTTA
*
655994 TATATATATTTTTTA
1 TTTATAT-TTTTTTA
656009 TTTGATATTTTATTTA
1 TTT-ATATTTT-TTTA
656025 TT
1 TT
656027 ATTTTTCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 12 0.24
14 16 0.33
15 11 0.22
16 10 0.20
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTATATTTTTTTA
Found at i:656083 original size:27 final size:26
Alignment explanation
Indices: 656023--656094 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
656013 ATATTTTATT
* *
656023 TATTA-TTTTTCATTATTATTATTTTAA
1 TATTATTTTTTC--TATTATCATTATAA
*
656050 TACTATTTTTTCTATTATCATTATAA
1 TATTATTTTTTCTATTATCATTATAA
*
656076 CTATTATTTTTTCTCTTAT
1 -TATTATTTTTTCTATTAT
656095 ATGTTTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 12 0.32
27 20 0.53
28 6 0.16
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTATTTTTTCTATTATCATTATAA
Found at i:656371 original size:14 final size:13
Alignment explanation
Indices: 656350--656402 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
656340 TTTTCTCTCA
656350 TTTTT-TTTTATT
1 TTTTTATTTTATT
656362 TTTTTATTTTACTT
1 TTTTTATTTTA-TT
* *
656376 TCTTCATTTTATT
1 TTTTTATTTTATT
*
656389 TTATTACTTTTATT
1 TTTTTA-TTTTATT
656403 ACCTAACTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 5 0.15
13 10 0.30
14 18 0.55
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:662412 original size:45 final size:45
Alignment explanation
Indices: 662363--662453 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
662353 TTGTAATAAA
662363 ATTATTTAGTCATAGTAAAAAGTTATAATAAAATATTTAGTAACG
1 ATTATTTAGTCATAGTAAAAAGTTATAATAAAATATTTAGTAACG
662408 ATTATTTAGTCATAGTAAAAAGTTATAATAAAATATTTAGTAACG
1 ATTATTTAGTCATAGTAAAAAGTTATAATAAAATATTTAGTAACG
662453 A
1 A
662454 AATAAAAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.37
Consensus pattern (45 bp):
ATTATTTAGTCATAGTAAAAAGTTATAATAAAATATTTAGTAACG
Found at i:666030 original size:20 final size:20
Alignment explanation
Indices: 666001--666055 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
665991 ACGCACTATA
*
666001 AGTTTAGAAACTTTAGTAAG
1 AGTTTTGAAACTTTAGTAAG
666021 AGTTTTGAAACTTTAGTAAG
1 AGTTTTGAAACTTTAGTAAG
666041 AGTTTTGAAACTTTA
1 AGTTTTGAAACTTTA
666056 AAACACACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.40
Consensus pattern (20 bp):
AGTTTTGAAACTTTAGTAAG
Found at i:674005 original size:16 final size:15
Alignment explanation
Indices: 673981--674027 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
673971 CGTATTAAAA
673981 TTAAAATAAATTAAT
1 TTAAAATAAATTAAT
673996 TTAAATATAAATTAAT
1 TTAAA-ATAAATTAAT
*
674012 TAAAAAGTAAATTAAT
1 TTAAAA-TAAATTAAT
674028 AATTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAAAATAAATTAAT
Found at i:675144 original size:68 final size:68
Alignment explanation
Indices: 675028--675156 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
675018 TAATATATGG
* * * * * *
675028 ACAAAGACTTTTAACTATTTGACAATGAACGTTCATACCCCTATATACGTTCTTGAACTCGAGAT
1 ACAAAGACTTTCAAATATTTGACAATAAACGCTCATACCCCTACATACGTGCTTGAACTCGAGAT
675093 TGT
66 TGT
* * *
675096 ACAAAGACTTTCAAATATTTGACAATAAACGCTCGTACCCTTACATACGTGCTTGGACTCG
1 ACAAAGACTTTCAAATATTTGACAATAAACGCTCATACCCCTACATACGTGCTTGAACTCG
675157 GGACCTCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 52 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (68 bp):
ACAAAGACTTTCAAATATTTGACAATAAACGCTCATACCCCTACATACGTGCTTGAACTCGAGAT
TGT
Found at i:675302 original size:23 final size:23
Alignment explanation
Indices: 675276--675320 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
675266 TTTCGACCAC
675276 TGTCAATATTTAATTCTGGCTCA
1 TGTCAATATTTAATTCTGGCTCA
675299 TGTCAATATTTAATTCTGGCTC
1 TGTCAATATTTAATTCTGGCTC
675321 CGATCGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (23 bp):
TGTCAATATTTAATTCTGGCTCA
Found at i:675393 original size:16 final size:17
Alignment explanation
Indices: 675372--675410 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
675362 GTTTTCATTT
*
675372 CAAATAAGTTC-AACCG
1 CAAATAAGTTCAAACCC
675388 CAAATAAGTTCAAACCC
1 CAAATAAGTTCAAACCC
675405 CAAATA
1 CAAATA
675411 GAAAATTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.49, C:0.26, G:0.08, T:0.18
Consensus pattern (17 bp):
CAAATAAGTTCAAACCC
Found at i:676951 original size:29 final size:29
Alignment explanation
Indices: 676914--676974 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
676904 ATTTACGTTT
* *
676914 ATATTTGAATCATATTAATTTAAACTATA
1 ATATATGAATCATATAAATTTAAACTATA
*
676943 ATATATGAATTATATAAATTTAAACTATA
1 ATATATGAATCATATAAATTTAAACTATA
676972 ATA
1 ATA
676975 AAATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (29 bp):
ATATATGAATCATATAAATTTAAACTATA
Found at i:682063 original size:17 final size:17
Alignment explanation
Indices: 682041--682077 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
682031 ATGTTGTTCA
682041 TTAAGCATGCATTGCAT
1 TTAAGCATGCATTGCAT
* *
682058 TTAAGCATGTATTTCAT
1 TTAAGCATGCATTGCAT
682075 TTA
1 TTA
682078 GGGAATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (17 bp):
TTAAGCATGCATTGCAT
Found at i:685796 original size:17 final size:17
Alignment explanation
Indices: 685776--685834 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
685766 TTTAGGGAAG
685776 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
685793 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
685809 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
685826 TAGTTCATT
1 TAGTTCATT
685835 GAATAATGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:688403 original size:20 final size:20
Alignment explanation
Indices: 688332--688430 Score: 85
Period size: 20 Copynumber: 4.8 Consensus size: 20
688322 CACATAAGTC
*
688332 AAATTT-GCAACTCGATTTT
1 AAATTTCGCAACACGATTTT
688351 GACAATTTCGCAACACGAATTTCT
1 -A-AATTTCGCAACACG-ATTT-T
***
688375 TTTTTTCGCAACACGATTTT
1 AAATTTCGCAACACGATTTT
*
688395 AAATTTCGCAACTCGATTTTT
1 AAATTTCGCAACACGA-TTTT
*
688416 GAATTT-GCAACACGA
1 AAATTTCGCAACACGA
688431 ATCTTCTCCG
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
20 22 0.34
21 18 0.28
22 19 0.30
23 4 0.06
24 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
AAATTTCGCAACACGATTTT
Found at i:688473 original size:20 final size:19
Alignment explanation
Indices: 688450--688516 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
688440 GTAACTAGAT
*
688450 TTTCTTTTTCGCAACACCAA
1 TTTCTTTTT-GCAACACGAA
* *
688470 TTTCTTATTTGCAACTCGAT
1 TTTCTT-TTTGCAACACGAA
688490 TTTCTTTTTTGCAACACGAA
1 TTTC-TTTTTGCAACACGAA
688510 TTT-TTTT
1 TTTCTTTT
688517 GGGTATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 4 0.10
20 31 0.77
21 5 0.12
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (19 bp):
TTTCTTTTTGCAACACGAA
Found at i:689292 original size:12 final size:12
Alignment explanation
Indices: 689259--689286 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
689249 TCACCATTTC
689259 CAATACCAAACA
1 CAATACCAAACA
689271 CAATACCAAACA
1 CAATACCAAACA
689283 CAAT
1 CAAT
689287 CTCAAAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (12 bp):
CAATACCAAACA
Found at i:692077 original size:20 final size:19
Alignment explanation
Indices: 692035--692083 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
692025 ACTCAAATTT
* *
692035 GCAACGCGAAAATAAAATC
1 GCAACGCGATATTAAAATC
*
692054 GCAACTCGATATTAAAATTC
1 GCAACGCGATATTAAAA-TC
692074 GCAACGCGAT
1 GCAACGCGAT
692084 TTTTCGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (19 bp):
GCAACGCGATATTAAAATC
Found at i:692118 original size:20 final size:20
Alignment explanation
Indices: 692095--692148 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
692085 TTTCGTGTTA
*
692095 CGAATTTGATTTTCGCATTG
1 CGAATTCGATTTTCGCATTG
** *
692115 CGAAACCGATTTTCGCGTTG
1 CGAATTCGATTTTCGCATTG
692135 CGAATTCGATTTTC
1 CGAATTCGATTTTC
692149 TTAAACGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
CGAATTCGATTTTCGCATTG
Found at i:693686 original size:21 final size:21
Alignment explanation
Indices: 693660--693806 Score: 81
Period size: 21 Copynumber: 7.0 Consensus size: 21
693650 ATATATCGAC
*
693660 ATAGGATGTGGATCCTGAACG
1 ATAGGAGGTGGATCCTGAACG
*
693681 ATAGGAGGTGGATCTTGAACG
1 ATAGGAGGTGGATCCTGAACG
* ** *
693702 ATGGGAAGG-GCTTCTTGAACG
1 ATAGG-AGGTGGATCCTGAACG
* * * *
693723 ATGGGAGG-GGCCTCTTGAATG
1 ATAGGAGGTGG-ATCCTGAACG
693744 AT-GGAAGG-GG-TCTCTTGAACG
1 ATAGG-AGGTGGATC-C-TGAACG
* *
693765 AT-GAGAGGTGAATCCTGAACA
1 ATAG-GAGGTGGATCCTGAACG
*
693786 ATGGGAGGTGGATCCTGAACG
1 ATAGGAGGTGGATCCTGAACG
693807 GCTGTAGGTG
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
19 2 0.02
20 6 0.06
21 86 0.83
22 7 0.07
23 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.37, T:0.22
Consensus pattern (21 bp):
ATAGGAGGTGGATCCTGAACG
Found at i:693739 original size:42 final size:42
Alignment explanation
Indices: 693675--693789 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 42
693665 ATGTGGATCC
*
693675 TGAACGATAGGAGGTGGATCTTGAACGATGGGAAGGGCT-TCT
1 TGAACGATGGGAGGTGGATCTTGAACGAT-GGAAGGGCTCTCT
* * *
693717 TGAACGATGGGAGG-GGCCTCTTGAATGATGGAAGGGGTCTCT
1 TGAACGATGGGAGGTGG-ATCTTGAACGATGGAAGGGCTCTCT
* * * *
693759 TGAACGATGAGAGGTGAATCCTGAACAATGG
1 TGAACGATGGGAGGTGGATCTTGAACGATGG
693790 GAGGTGGATC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.17
42 49 0.82
43 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.37, T:0.23
Consensus pattern (42 bp):
TGAACGATGGGAGGTGGATCTTGAACGATGGAAGGGCTCTCT
Found at i:694203 original size:21 final size:21
Alignment explanation
Indices: 694118--694204 Score: 52
Period size: 21 Copynumber: 4.1 Consensus size: 21
694108 TAGAGCACCG
* * **
694118 ACCTCATCACATAAAGAAGCT
1 ACCTCACCACGTAAAGACCCT
*
694139 ACCTCACCACGTAAAGCACCAT
1 ACCTCACCACGTAAAG-ACCCT
** * * *
694161 -TGTCATCATGTAAA-ACAACT
1 ACCTCACCACGTAAAGAC-CCT
694181 ACCTCACCACGTAAAGACCCT
1 ACCTCACCACGTAAAGACCCT
694202 ACC
1 ACC
694205 GCATCACGCC
Statistics
Matches: 46, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
19 2 0.04
20 1 0.02
21 39 0.85
22 4 0.09
ACGTcount: A:0.38, C:0.34, G:0.09, T:0.18
Consensus pattern (21 bp):
ACCTCACCACGTAAAGACCCT
Found at i:694204 original size:63 final size:63
Alignment explanation
Indices: 694118--694237 Score: 150
Period size: 63 Copynumber: 1.9 Consensus size: 63
694108 TAGAGCACCG
* * * * *
694118 ACCTCATCACATAAAGAAGCTACCTCACCACGTAAAGCACCATTGTCATCATGTAAAACAACT
1 ACCTCACCACATAAAGAACCTACCGCACCACGCAAAGCACCATTGTCATCACGTAAAACAACT
* * * * *
694181 ACCTCACCACGTAAAGACCCTACCGCATCACGCCATGCACCATTGTCATCACGTAAA
1 ACCTCACCACATAAAGAACCTACCGCACCACGCAAAGCACCATTGTCATCACGTAAA
694238 GTATTGACCT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 47 1.00
ACGTcount: A:0.36, C:0.34, G:0.11, T:0.19
Consensus pattern (63 bp):
ACCTCACCACATAAAGAACCTACCGCACCACGCAAAGCACCATTGTCATCACGTAAAACAACT
Found at i:694469 original size:42 final size:41
Alignment explanation
Indices: 694371--694515 Score: 177
Period size: 42 Copynumber: 3.5 Consensus size: 41
694361 GTGATGGAAT
* *
694371 AGGTGATGGATCTCGGTGTCGAGGTGTATAGTCGGCT-A-G
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTGATG
* * *
694410 AGGTGATGGCTCTCGGTGTCGAGGTATAGAATCGGCTGGATC
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCT-GATG
* * * *
694452 AGGTGATGAATCTCGGTGTCGAAGTGGAGAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCT-GATG
694494 AGGTGATGGATCTCGGTGTCGA
1 AGGTGATGGATCTCGGTGTCGA
694516 ATTGAAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.37
41 1 0.01
42 55 0.62
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (41 bp):
AGGTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTGATG
Found at i:694516 original size:42 final size:42
Alignment explanation
Indices: 694371--694536 Score: 176
Period size: 42 Copynumber: 4.0 Consensus size: 42
694361 GTGATGGAAT
* * * *
694371 AGGTGATGGATCTCGGTGTCGAGGTGTATAGTCGGCT--A-G
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
* * * * * *
694410 AGGTGATGGCTCTCGGTGTCGAGGTATAGAATCGGCTGGATC
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
* *
694452 AGGTGATGAATCTCGGTGTCGAAGTGGAGAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
* * *
694494 AGGTGATGGATCTCGGTGTCGAATTGAAAAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
694536 A
1 A
694537 AAATGTGGGG
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
39 33 0.31
41 1 0.01
42 73 0.68
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.26
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAAGTGTAGAATCGACTCGATG
Found at i:696092 original size:14 final size:15
Alignment explanation
Indices: 696075--696107 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
696065 CTTGAAAATG
696075 AAATTTGCAACAC-A
1 AAATTTGCAACACGA
*
696089 AAATTTGTAACACGA
1 AAATTTGCAACACGA
696104 AAAT
1 AAAT
696108 CGAAACGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (15 bp):
AAATTTGCAACACGA
Found at i:696153 original size:19 final size:19
Alignment explanation
Indices: 696103--696169 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
696093 TTGTAACACG
*
696103 AAAATCGAAACGCGAAAAT
1 AAAATCGCAACGCGAAAAT
* *
696122 AAAATTTGCAACGTGAAAAT
1 AAAA-TCGCAACGCGAAAAT
696142 AAAATCGCAACGC-AAAACCT
1 AAAATCGCAACGCGAAAA--T
696162 AAAATCGC
1 AAAATCGC
696170 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 25 0.62
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGAAAAT
Found at i:696201 original size:20 final size:20
Alignment explanation
Indices: 696176--696214 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
696166 TCGCGTTGCG
696176 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
*
696196 ATTTTCGTGTTGCGGATTT
1 ATTTTCGTGTTGCGAATTT
696215 AAGTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:696673 original size:20 final size:20
Alignment explanation
Indices: 696648--696703 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
696638 ATTTACATTT
* *
696648 GTGTTGCGAAATTAATATTC
1 GTGTTGCGAAAATAAAATTC
*
696668 GTGTTGTGAAAATAAAATTC
1 GTGTTGCGAAAATAAAATTC
*
696688 GCGTTGCGAAAATAAA
1 GTGTTGCGAAAATAAA
696704 CGCGCTTTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (20 bp):
GTGTTGCGAAAATAAAATTC
Found at i:703862 original size:20 final size:20
Alignment explanation
Indices: 703839--703888 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
703829 CAGTCCTCTG
*
703839 GTATGGAGACCAGTCTTTCA
1 GTATGGAGACCAGTCTTCCA
** *
703859 GTATATAGATCAGTCTTCCA
1 GTATGGAGACCAGTCTTCCA
703879 GTATGGAGAC
1 GTATGGAGAC
703889 TAGTGGTCTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (20 bp):
GTATGGAGACCAGTCTTCCA
Found at i:704052 original size:20 final size:20
Alignment explanation
Indices: 704001--704054 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
703991 TAGAACAAGA
* *
704001 ACAATGTCGATACTGTTCAT
1 ACAATATCGACACTGTTCAT
*
704021 AC-ATCATTGACACTGTTCAT
1 ACAAT-ATCGACACTGTTCAT
704041 ACAATATCGACACT
1 ACAATATCGACACT
704055 ATCGCTCAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (20 bp):
ACAATATCGACACTGTTCAT
Found at i:707802 original size:16 final size:16
Alignment explanation
Indices: 707735--707826 Score: 78
Period size: 16 Copynumber: 5.8 Consensus size: 16
707725 TAAATTTTAG
*
707735 CCAAACCGAGAGTAAC
1 CCAAACCGAAAGTAAC
**
707751 CTGAACCGAAAGTAAC
1 CCAAACCGAAAGTAAC
* * * *
707767 CC-AACCCAAATTTTAG
1 CCAAACCGAAA-GTAAC
*
707783 CCAAACCAAAAGTAAC
1 CCAAACCGAAAGTAAC
707799 CCAAACCGAAAGTAAC
1 CCAAACCGAAAGTAAC
* *
707815 CCGAATCGAAAG
1 CCAAACCGAAAG
707827 CAACTGACAG
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
15 7 0.12
16 45 0.76
17 7 0.12
ACGTcount: A:0.46, C:0.29, G:0.14, T:0.11
Consensus pattern (16 bp):
CCAAACCGAAAGTAAC
Found at i:708466 original size:60 final size:60
Alignment explanation
Indices: 708334--708497 Score: 170
Period size: 60 Copynumber: 2.7 Consensus size: 60
708324 TTTGGATGAA
* * ** * * * * *
708334 TTTGAGGATGAATTTGAAAGATCGAAACGTTTAGGGACCAATTTAGAATTAGATTCATAG
1 TTTGAGGATGAAATTGAAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
* * *
708394 TTTGGGGATGAAATTTG-AATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCTTAG
1 TTTGAGGATGAAA-TTGAAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
* *
708454 TTTATAGG-TGAAATTGAAATATTTAAAAGGTTAAGGACTAATTT
1 TTT-GAGGATGAAATTGAAATATTTAAAAGTTTAAGGACTAATTT
708498 GAAGTTAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
59 3 0.04
60 77 0.91
61 5 0.06
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (60 bp):
TTTGAGGATGAAATTGAAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
Found at i:708515 original size:60 final size:60
Alignment explanation
Indices: 708402--708517 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
708392 AGTTTGGGGA
* * * ** *
708402 TGAAATTTGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCTTAGTTTATAGG
1 TGAAATTTGAATATTTAAAAGGTTAAGGACTAATTTAGAATGAAAACCATAGTTTATAGG
*
708462 TGAAA-TTGAAATATTTAAAAGGTTAAGGACTAATTT-GAAGTTAAAACCATAGTTTA
1 TGAAATTTG-AATATTTAAAAGGTTAAGGACTAATTTAGAA-TGAAAACCATAGTTTA
708518 GGGACATATG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 6 0.13
60 41 0.87
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (60 bp):
TGAAATTTGAATATTTAAAAGGTTAAGGACTAATTTAGAATGAAAACCATAGTTTATAGG
Found at i:708712 original size:24 final size:24
Alignment explanation
Indices: 708654--708723 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
708644 ATTTAAATTT
*
708654 AATATAAAAATAACTTATTTTTAT
1 AATATAAAAATAACTTATTTTTAC
* * *
708678 ACTACACAAATAACTTATTTTTAC
1 AATATAAAAATAACTTATTTTTAC
*
708702 AATATAAAAATATC-TATTTTTA
1 AATATAAAAATAACTTATTTTTA
708724 TTTATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 8 0.21
24 30 0.79
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATAAAAATAACTTATTTTTAC
Found at i:708787 original size:12 final size:11
Alignment explanation
Indices: 708763--708801 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
708753 GATATAATAA
708763 TATAATATCATT
1 TATAATAT-ATT
708775 TATAAATATATT
1 TAT-AATATATT
708787 TATAATAATATT
1 TATAAT-ATATT
708799 TAT
1 TAT
708802 TCAAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 17 0.68
13 5 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATATATT
Found at i:715580 original size:3 final size:3
Alignment explanation
Indices: 715559--715619 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
715549 TCTACAAAAA
* *
715559 TAT T-T TAT TA- TAT TA- TAT TATT TAT TAT TAT TAT TAT TAC TAA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
715602 TAT TTT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
715620 TTTACAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
2 8 0.17
3 37 0.77
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:715595 original size:26 final size:27
Alignment explanation
Indices: 715573--715624 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
715563 TTATTATATT
715573 ATATTATTTATTATTATTATTATTACTA
1 ATATT-TTTATTATTATTATTATTACTA
*
715601 ATATTTTTATT-TTATTATTTTTAC
1 ATATTTTTATTATTATTATTATTAC
715625 AGGCCCCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 6 0.26
28 5 0.22
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
ATATTTTTATTATTATTATTATTACTA
Found at i:716273 original size:2 final size:2
Alignment explanation
Indices: 716262--716294 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
716252 TATTCATTTA
716262 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
716295 TGAATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:719241 original size:29 final size:29
Alignment explanation
Indices: 719209--719264 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
719199 TGATGCGTCT
*
719209 TGTTT-GAATTTGTTTTTTTAACTTTCTCA
1 TGTTTGGAACTTG-TTTTTTAACTTTCTCA
719238 TGTTTGGAACTTGTTTTTTAACTTTCT
1 TGTTTGGAACTTGTTTTTTAACTTTCT
719265 TTGGATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.16, C:0.11, G:0.12, T:0.61
Consensus pattern (29 bp):
TGTTTGGAACTTGTTTTTTAACTTTCTCA
Found at i:721405 original size:165 final size:166
Alignment explanation
Indices: 721071--722220 Score: 1006
Period size: 165 Copynumber: 6.9 Consensus size: 166
721061 TAAAGAAACT
* * * * *
721071 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACAACAAA-AGACCTTTGAGTTCGACTAC
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAGAGACCTTCGAGTTCGACTAC
* * * * * * *
721135 GCTCAGC-TCTAAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAA
63 ACTCAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAA
* * *
721199 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGACATATC
128 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
721238 ATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGA-ACC-TCGAGTTCGATTACACT
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGAGACCTTCGAGTTCGACTACACT
* ** * *
721301 CAACTTCGAGGGCACATCATTTACAATATAACTCAAGGCTAGAAGGGTTATATGTCACCAACAGA
66 CAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAA-AGA
* * *
721366 CCTTCGAGTTCGACTACGCTAAGCTCTAAGGCATATC
130 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * *
721403 ATTTGCAACATAACTTAAGTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGACTACG
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA--AGAGACCTTCGAGTTCGACTACA
* * * * * *
721468 CTCAAC-TCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAG
64 CTCAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAG
* * * * * *
721529 ACCCTT-GAGTTCGATTACACTCGGCTTCGAGGGCACATT
129 A-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * *
721568 AGTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAA-AGACCTTCGAGTTCGACTGC
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG---CCAAAGAGACCTTCGAGTTCGACTAC
* * * * * * * * *
721632 GCTCAGCTT-TAAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
63 ACTCAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAA
* *
721696 AGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGTACATC
127 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
721736 ATCTACAGCATAACTTAAGTCGAGAAGGGCTATCTGCC-AA-AGACCCTCGAGTTCGATTACACT
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGAGACCTTCGAGTTCGACTACACT
* * * *
721799 CAGCTTCGAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGA
66 CAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGA
*
721864 CCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATC
130 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * *
721901 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACGC
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-AGAGACCTTCGAGTTCGACTACAC
* * * * * * * *
721966 TCAGCTTC-AAGACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT---ACCAAAGA
65 TCAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGA
* * * * * *
722027 CCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
130 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
722065 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACAAA-AGACCTTTGAGTTCGGCTACG
1 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-C-CAAAGAGACCTTCGAGTTCGACTACA
* * * * * * * * *
722129 CTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTCAAGTCGAGAAGGGCTATCTGCCAACCGAA
64 CTCAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAA
* * * *
722193 GACCTTTGAGTTTGATTACACTCAGCTC
128 GACCTTCGAGTTCGACTACGCTCAGCTC
722221 AGAGGCAAAC
Statistics
Matches: 821, Mismatches: 131, Indels: 62
0.81 0.13 0.06
Matches are distributed among these distances:
163 43 0.05
164 217 0.26
165 300 0.37
166 7 0.01
167 72 0.09
168 142 0.17
169 40 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (166 bp):
ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGAGACCTTCGAGTTCGACTACACT
CAACTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGAC
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:721416 original size:84 final size:83
Alignment explanation
Indices: 721071--722272 Score: 1074
Period size: 84 Copynumber: 14.5 Consensus size: 83
721061 TAAAGAAACT
* * * *
721071 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
721136 CTCAGCTCTAAGGCACATC
65 CTCAGCTCTAAGGCACATC
* * * * *
721155 ATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
721220 TCAGCT-TCAAGACATATC
66 TCAGCTCT-AAGGCACATC
* * * * * * * *
721238 ATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGAACC-TCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG-ACCTTCGAGTTCGACTACG
* * *
721299 CTCAACTTCGAGGGCACATC
65 CTCAGC-TCTAAGGCACATC
** *
721319 ATTTACAATATAACTCAAGGCTAGAAGGGTTATATGTCACCAACAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA-AGACCTTCGAGTTCGACTACG
* *
721384 CTAAGCTCTAAGGCATATC
65 CTCAGCTCTAAGGCACATC
* * * * * *
721403 ATTTGCAACATAACTTAA-GTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGACTAC
1 ATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
* *
721467 GCTCAACTCCAAGGCACATC
64 GCTCAGCTCTAAGGCACATC
* * * * * * *
721487 ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTT-GAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGA-CCTTCGAGTTCGACTACG
* * * *
721548 CTCGGCTTCGAGGGCACATT
65 CTCAGC-TCTAAGGCACATC
* * *
721568 AGTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTGCG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACG
* *
721633 CTCAGCTTTAAGGCATATC
65 CTCAGCTCTAAGGCACATC
* * * * * * *
721652 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
* *
721717 CTCAGCTCCAAGGTACATC
65 CTCAGCTCTAAGGCACATC
* * * * * * * *
721736 ATCTACAGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
721798 TCAGCTTCGAGGGCACATC
66 TCAGC-TCTAAGGCACATC
* *
721817 ATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACG
*
721882 CTCAGCTCCAAGGCACATC
65 CTCAGCTCTAAGGCACATC
* * * *
721901 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACGC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* *
721966 TCAGCT-TCAAGACATATC
66 TCAGCTCT-AAGGCACATC
* * * * * * * *
721984 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC--T-ACCAAAGACCCTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* * *
722046 TCAACTTCGAGGGCACATC
66 TCAGC-TCTAAGGCACATC
* * * *
722065 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACAAAAGACCTTTGAGTTCGGCTACGC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
*
722130 TCAGCTCCAAGGCACATC
66 TCAGCTCTAAGGCACATC
* * * * * * * * * * * *
722148 ATTTGCAGTATAGCTCAAGTCGAGAAGGGCTATCTGCCAACCGAAGACCTTTGAGTTTGATTACA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACG
* *
722213 CTCAGCTC-AGAGGCAAACC
65 CTCAGCTCTA-AGGCACATC
** * *
722232 AAATTTACATAATAGCTCAAGGC-AGGAAGGGCTATCTGTCA
1 --ATTTACAGCATAACTCAAGGCTA-GAAGGGTTATCTGTCA
722273 ATAAATTGGT
Statistics
Matches: 909, Mismatches: 173, Indels: 71
0.79 0.15 0.06
Matches are distributed among these distances:
80 97 0.11
81 160 0.18
82 1 0.00
83 180 0.20
84 366 0.40
85 74 0.08
86 31 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCTAAGGCACATC
Found at i:721562 original size:249 final size:249
Alignment explanation
Indices: 721071--722220 Score: 1644
Period size: 249 Copynumber: 4.6 Consensus size: 249
721061 TAAAGAAACT
* * * *
721071 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * *
721136 CTCAGCTCTAAGGCACATCATTTGCAACATAACTCAAGGCT-AGAAGGGCTATCTGCCAA-CAAA
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTCAA-GTTGAGAAGGGTTATCTGCCAACCAAA
* * * *
721199 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGACATATCATTTGCAACATAGCTTAAGTCGAGAA
130 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTACAGCATAGCTTAAGTCGAGAA
* *
721264 GGGTTATCTGCCAAAGAACCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
195 GGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
** * *
721319 ATTTACAATATAACTCAAGGCTAGAAGGGTTATATGTCACCAACAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * *
721384 CTAAGCTCTAAGGCATATCATTTGCAACATAACTTAAGTTGAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTCAAGTTGAGAAGGGTTATCTGCCAACCAAAG
* * *
721449 ACCTTCAAGTTCGACTACGCTCAACTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTACAGCATAGCTTAAGTCGAGAAG
* ** *
721514 GGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCGGCTTCGAGGGCACATT
196 GGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
* * *
721568 AGTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTGCG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * * *
721633 CTCAGCTTTAAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTCAAGTTGAGAAGGGTTATCTGCCAACCAAAG
* ** * *
721698 ACCTTCGAGTTCGACTATGCTCAGCTCCAAGGTACATCATCTACAGCATAACTTAAGTCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTACAGCATAGCTTAAGTCGAGAAG
*
721763 GGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
196 GGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
* *
721817 ATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * *
721882 CTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCT-AAAAGGGTTATCTGCCAA-CAAA
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTCAA-GTTGAGAAGGGTTATCTGCCAACCAAA
* * * *
721945 GACCTTCGAGTTTGACTACGCTCAGCTTCAAGACATATCATTTGCAGCATAGCTTAAGTCGAGAA
130 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTACAGCATAGCTTAAGTCGAGAA
* *
722010 GGGTTATCTACCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
195 GGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
* * *
722065 ATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCA-CAAAAGACCTTTGAGTTCGGCTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
* * * * * *
722129 CTCAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGTCGAGAAGGGCTATCTGCCAACCGAAG
66 CTCAGCTCTAAGGCACATCATTTGCAGCATAACTCAAGTTGAGAAGGGTTATCTGCCAACCAAAG
* * * *
722194 ACCTTTGAGTTTGATTACACTCAGCTC
131 ACCTTCGAGTTCGACTACGCTCAGCTC
722221 AGAGGCAAAC
Statistics
Matches: 807, Mismatches: 90, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
246 1 0.00
247 74 0.09
248 284 0.35
249 447 0.55
250 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCTAAGGCACATCATTTGCAGCATAACTCAAGTTGAGAAGGGTTATCTGCCAACCAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTACAGCATAGCTTAAGTCGAGAAG
GGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATC
Found at i:722719 original size:8 final size:9
Alignment explanation
Indices: 722693--722744 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
722683 TACAAAAACA
722693 TTATATTAT
1 TTATATTAT
722702 ATTATATTAT
1 -TTATATTAT
722712 TTAT-TTAT
1 TTATATTAT
*
722720 TAATATTAT
1 TTATATTAT
* *
722729 TAATAGTAT
1 TTATATTAT
*
722738 TTTTATT
1 TTATATT
722745 TTATTATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 7 0.19
9 20 0.56
10 9 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTATATTAT
Found at i:722725 original size:17 final size:17
Alignment explanation
Indices: 722696--722729 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
722686 AAAAACATTA
722696 TATTATATTATATTATT
1 TATTATATTATATTATT
722713 TATT-TATTAATATTATT
1 TATTATATT-ATATTATT
722730 AATAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATATTATATTATT
Found at i:723352 original size:25 final size:24
Alignment explanation
Indices: 723284--723349 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
723274 AAAAAGTTGG
723284 TTTTATT-TT-TTTATTTTA-GCATT
1 TTTTATTATTATTTATTTTATG--TT
723307 TTTTATTATTATTTATTTTATGTT
1 TTTTATTATTATTTATTTTATGTT
*
723331 TTTTACTTCTTA-TTATTTT
1 TTTTA-TTATTATTTATTTT
723350 TATTTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 7 0.18
24 16 0.42
25 14 0.37
26 1 0.03
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (24 bp):
TTTTATTATTATTTATTTTATGTT
Found at i:724345 original size:14 final size:14
Alignment explanation
Indices: 724326--724355 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
724316 CTGGGAGAAC
724326 TTCATATGTACTGA
1 TTCATATGTACTGA
724340 TTCATATGTACTGA
1 TTCATATGTACTGA
724354 TT
1 TT
724356 GTCGTAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (14 bp):
TTCATATGTACTGA
Found at i:724749 original size:27 final size:29
Alignment explanation
Indices: 724719--724772 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
724709 ATTTCAAAAT
724719 TATAATTAT-AA-AAAATATTAATTTATA
1 TATAATTATAAATAAAATATTAATTTATA
* *
724746 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
724773 GAAATATCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 2 0.09
29 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:728490 original size:23 final size:25
Alignment explanation
Indices: 728424--728490 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 25
728414 AGAAACGACC
728424 AAACG-ACTCATAAAGA-AAATGAAA
1 AAACGTACT-ATAAAGATAAATGAAA
*
728448 AAATGTACTATAAA-AGTAAA-G-AA
1 AAACGTACTATAAAGA-TAAATGAAA
728471 AAACGTACTATAAAGATAAA
1 AAACGTACTATAAAGATAAA
728491 ATTATTCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 20 0.54
24 11 0.30
25 6 0.16
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (25 bp):
AAACGTACTATAAAGATAAATGAAA
Found at i:731090 original size:71 final size:70
Alignment explanation
Indices: 730970--731104 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 70
730960 GAATGAGTTA
* * *
730970 GCTCAGGCAGGCATTTTCATGGGGTTACTTGTCCTCATATTCATGAGCAGAATGGGGTTATTGAA
1 GCTCAGACAGACATTTTCATAGGGTTACTTGTCCTCATATTCATGAGCAGAATGGGGTTATTGAA
731035 CAGCT
66 CAGCT
*
731040 GCTCAGACAGACATTTTTCATAGGGTTACTTGTCCTCATACTTC-TTAGCAGAATGGGGTTATTG
1 GCTCAGACAGACA-TTTTCATAGGGTTACTTGTCCTCATA-TTCATGAGCAGAATGGGGTTATTG
731104 A
64 A
731105 GCAGAATGAG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
70 11 0.19
71 45 0.76
72 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (70 bp):
GCTCAGACAGACATTTTCATAGGGTTACTTGTCCTCATATTCATGAGCAGAATGGGGTTATTGAA
CAGCT
Found at i:733409 original size:430 final size:430
Alignment explanation
Indices: 732609--733473 Score: 1730
Period size: 430 Copynumber: 2.0 Consensus size: 430
732599 AGCTGTTGGA
732609 GAGGACAAGTATGTCGGAGGCTACACTGACCATCACTCCTATGATTCTCAATAACAAGCTTAGTC
1 GAGGACAAGTATGTCGGAGGCTACACTGACCATCACTCCTATGATTCTCAATAACAAGCTTAGTC
732674 GCGATGACGGAAAACTGCTAGAAAATGCTCAAGAATTTCGAAGCATGGTCAAAGCGTTGTCGTAT
66 GCGATGACGGAAAACTGCTAGAAAATGCTCAAGAATTTCGAAGCATGGTCAAAGCGTTGTCGTAT
732739 GTCTGCCACACGATATCAGATATCATCTACAGTGTGAGCAAGGTAGCTCAATTCATGCATGAGCC
131 GTCTGCCACACGATATCAGATATCATCTACAGTGTGAGCAAGGTAGCTCAATTCATGCATGAGCC
732804 ACCTGAGTGTCATTTGTTGGCTACCAAACGAATCTTGCAATACATGTCTAGAACTGCGGAGTATG
196 ACCTGAGTGTCATTTGTTGGCTACCAAACGAATCTTGCAATACATGTCTAGAACTGCGGAGTATG
732869 GGTTGGGTTTTTCTCTGTCTAAGGCGGCATTGCGTGTGGTGGCGTGTGCTAATGCAAATTAGGGT
261 GGTTGGGTTTTTCTCTGTCTAAGGCGGCATTGCGTGTGGTGGCGTGTGCTAATGCAAATTAGGGT
732934 GGTTGTTCTGATGATCGAAGGTCCATATCAGGCCATTGTGTGCTGGTTGGTGATAATATGGTGTC
326 GGTTGTTCTGATGATCGAAGGTCCATATCAGGCCATTGTGTGCTGGTTGGTGATAATATGGTGTC
732999 GTGGAATGAGCAGAAGGTTGTCTTGAGGTCAACCATTGAG
391 GTGGAATGAGCAGAAGGTTGTCTTGAGGTCAACCATTGAG
733039 GAGGACAAGTATGTCGGAGGCTACACTGACCATCACTCCTATGATTCTCAATAACAAGCTTAGTC
1 GAGGACAAGTATGTCGGAGGCTACACTGACCATCACTCCTATGATTCTCAATAACAAGCTTAGTC
733104 GCGATGACGGAAAACTGCTAGAAAATGCTCAAGAATTTCGAAGCATGGTCAAAGCGTTGTCGTAT
66 GCGATGACGGAAAACTGCTAGAAAATGCTCAAGAATTTCGAAGCATGGTCAAAGCGTTGTCGTAT
733169 GTCTGCCACACGATATCAGATATCATCTACAGTGTGAGCAAGGTAGCTCAATTCATGCATGAGCC
131 GTCTGCCACACGATATCAGATATCATCTACAGTGTGAGCAAGGTAGCTCAATTCATGCATGAGCC
733234 ACCTGAGTGTCATTTGTTGGCTACCAAACGAATCTTGCAATACATGTCTAGAACTGCGGAGTATG
196 ACCTGAGTGTCATTTGTTGGCTACCAAACGAATCTTGCAATACATGTCTAGAACTGCGGAGTATG
733299 GGTTGGGTTTTTCTCTGTCTAAGGCGGCATTGCGTGTGGTGGCGTGTGCTAATGCAAATTAGGGT
261 GGTTGGGTTTTTCTCTGTCTAAGGCGGCATTGCGTGTGGTGGCGTGTGCTAATGCAAATTAGGGT
733364 GGTTGTTCTGATGATCGAAGGTCCATATCAGGCCATTGTGTGCTGGTTGGTGATAATATGGTGTC
326 GGTTGTTCTGATGATCGAAGGTCCATATCAGGCCATTGTGTGCTGGTTGGTGATAATATGGTGTC
733429 GTGGAATGAGCAGAAGGTTGTCTTGAGGTCAACCATTGAG
391 GTGGAATGAGCAGAAGGTTGTCTTGAGGTCAACCATTGAG
733469 GAGGA
1 GAGGA
733474 ATACAGTAGC
Statistics
Matches: 435, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
430 435 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (430 bp):
GAGGACAAGTATGTCGGAGGCTACACTGACCATCACTCCTATGATTCTCAATAACAAGCTTAGTC
GCGATGACGGAAAACTGCTAGAAAATGCTCAAGAATTTCGAAGCATGGTCAAAGCGTTGTCGTAT
GTCTGCCACACGATATCAGATATCATCTACAGTGTGAGCAAGGTAGCTCAATTCATGCATGAGCC
ACCTGAGTGTCATTTGTTGGCTACCAAACGAATCTTGCAATACATGTCTAGAACTGCGGAGTATG
GGTTGGGTTTTTCTCTGTCTAAGGCGGCATTGCGTGTGGTGGCGTGTGCTAATGCAAATTAGGGT
GGTTGTTCTGATGATCGAAGGTCCATATCAGGCCATTGTGTGCTGGTTGGTGATAATATGGTGTC
GTGGAATGAGCAGAAGGTTGTCTTGAGGTCAACCATTGAG
Found at i:734101 original size:21 final size:22
Alignment explanation
Indices: 734046--734103 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 22
734036 ATATAAATCA
* *
734046 AAAAT-ATATAATTATTATTTT
1 AAAATAATATAATTATTACTAT
*
734067 AAAAAAATTGATAATTATT-CTAT
1 AAAATAA-T-ATAATTATTACTAT
734090 AAAATAATATAATT
1 AAAATAATATAATT
734104 TATAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 10 0.33
22 2 0.07
23 9 0.30
24 9 0.30
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATAATATAATTATTACTAT
Found at i:739193 original size:13 final size:13
Alignment explanation
Indices: 739177--739235 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
739167 CAATGAGCGC
* *
739177 CATAAATGTGCAT
1 CATAAATGCGCGT
739190 CATAAATGCGCGT
1 CATAAATGCGCGT
*
739203 CATAAATGCGTGT
1 CATAAATGCGCGT
*
739216 CATAAATGTGCGT
1 CATAAATGCGCGT
739229 CATAAAT
1 CATAAAT
739236 TTATGACGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (13 bp):
CATAAATGCGCGT
Found at i:739197 original size:26 final size:26
Alignment explanation
Indices: 739168--739235 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
739158 AATGATGAGC
* *
739168 AATGAGCGCCATAAATGTGCATCATA
1 AATGAGCGTCATAAATGCGCATCATA
* **
739194 AATGCGCGTCATAAATGCGTGTCATA
1 AATGAGCGTCATAAATGCGCATCATA
*
739220 AATGTGCGTCATAAAT
1 AATGAGCGTCATAAAT
739236 TTATGACGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (26 bp):
AATGAGCGTCATAAATGCGCATCATA
Found at i:742813 original size:39 final size:39
Alignment explanation
Indices: 742769--743232 Score: 196
Period size: 39 Copynumber: 11.4 Consensus size: 39
742759 CGATAAGTTT
* * *
742769 TGATTTATTTCATTTTACAAAATAGGAAACTAAATCCAA
1 TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
* *
742808 TGATTTATTTTCTTTTTACAAAATAAGAAAATAAATCCAT
1 TGATTTA-TTTCCTTTTACAAAATAAGAAAATAAATCCAA
** * ***
742848 TGATTTATTTCCTTTTACAAACCAAGAAATTAAATTTTA
1 TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
* * *
742887 TGGTTTATTTCCTTTTTCAAAAATAGGAAAATAAATCCAA
1 TGATTTATTTCCTTTTAC-AAAATAAGAAAATAAATCCAA
* * * * * *
742927 CGATTTATTTCTTTTTA-AAAATCATAACCATACAAGATTCTTAGGAAAA
1 TGATTTATTTCCTTTTACAAAATAAGAA--A-ATAA-A-TC------CAA
* ** * * *
742976 TAAATTTATTGATTATTTTTTTTCAAAACAAGAAAAATAAATCCAC
1 T-GATTT----ATT-TCCTTTTACAAAATAAG-AAAATAAATCCAA
** * * * *
743022 CAATTTATTTCCTTTCATAAAACAAAAAAAATAAA-CTCAA
1 TGATTTATTTCCTTTTACAAAA-TAAGAAAATAAATC-CAA
* * ** * *
743062 CGATTTATTTCCTTCTATGAAATAGGAAAATAAATCTAA
1 TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
* * * * * * *
743101 CGATTTATTTCCATCTACGAAATAGGAAAATAAATTCAT
1 TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
* * * * **
743140 TGATTTATTTTCTTGTACAAGATAGGAAAATAAATTTAA
1 TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
** * *
743179 CAATTTATTTCCTTTTACAAACT-AGAAAATAAATCCAC
1 TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
*
743217 TGATATATTTCTCTTT
1 TGATTTATTTC-CTTT
743233 AAAAGATAGA
Statistics
Matches: 317, Mismatches: 83, Indels: 50
0.70 0.18 0.11
Matches are distributed among these distances:
38 26 0.08
39 145 0.46
40 100 0.32
41 8 0.03
42 1 0.00
43 2 0.01
45 5 0.02
46 1 0.00
49 2 0.01
50 4 0.01
52 2 0.01
53 1 0.00
54 6 0.02
55 7 0.02
56 5 0.02
57 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (39 bp):
TGATTTATTTCCTTTTACAAAATAAGAAAATAAATCCAA
Found at i:742830 original size:40 final size:39
Alignment explanation
Indices: 742769--742948 Score: 193
Period size: 40 Copynumber: 4.6 Consensus size: 39
742759 CGATAAGTTT
* * *
742769 TGATTTATTTCATTTTACAAAATAGGAAACTAAATCCAA
1 TGATTTATTTCTTTTTACAAAATAAGAAAATAAATCCAA
*
742808 TGATTTATTTTCTTTTTACAAAATAAGAAAATAAATCCAT
1 TGATTTA-TTTCTTTTTACAAAATAAGAAAATAAATCCAA
* ** * ***
742848 TGATTTATTTCCTTTTACAAACCAAGAAATTAAATTTTA
1 TGATTTATTTCTTTTTACAAAATAAGAAAATAAATCCAA
* *
742887 TGGTTTATTTCCTTTTT-CAAAAATAGGAAAATAAATCCAA
1 TGATTTATTT-CTTTTTAC-AAAATAAGAAAATAAATCCAA
*
742927 CGATTTATTTCTTTTTA-AAAAT
1 TGATTTATTTCTTTTTACAAAAT
742949 CATAACCATA
Statistics
Matches: 114, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
38 5 0.04
39 47 0.41
40 62 0.54
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (39 bp):
TGATTTATTTCTTTTTACAAAATAAGAAAATAAATCCAA
Found at i:742864 original size:79 final size:79
Alignment explanation
Indices: 742768--742948 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
742758 ACGATAAGTT
* *
742768 TTGATTTATTTCATTTTACAAAATAGGAAACTAAATCCAATGATTTATTTTCTTTTT-ACAAAAT
1 TTGATTTATTTCATTTTACAAAATAAGAAACTAAATCCAATGATTTATTTCCTTTTTCA-AAAAT
742832 AAGAAAATAAATCCA
65 AAGAAAATAAATCCA
* ** * *** *
742847 TTGATTTATTTCCTTTTACAAACCAAGAAATTAAATTTTATGGTTTATTTCCTTTTTCAAAAATA
1 TTGATTTATTTCATTTTACAAAATAAGAAACTAAATCCAATGATTTATTTCCTTTTTCAAAAATA
*
742912 GGAAAATAAATCCA
66 AGAAAATAAATCCA
** *
742926 ACGATTTATTTCTTTTTA-AAAAT
1 TTGATTTATTTCATTTTACAAAAT
742949 CATAACCATA
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
78 3 0.04
79 81 0.95
80 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (79 bp):
TTGATTTATTTCATTTTACAAAATAAGAAACTAAATCCAATGATTTATTTCCTTTTTCAAAAATA
AGAAAATAAATCCA
Found at i:743055 original size:40 final size:40
Alignment explanation
Indices: 743000--743075 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
742990 ATTTTTTTTC
* *
743000 AAAACAAGAAAAATAAA-TCCACCAATTTATTTCCTTTCAT
1 AAAACAAAAAAAATAAACT-CAACAATTTATTTCCTTTCAT
*
743040 AAAACAAAAAAAATAAACTCAACGATTTATTTCCTT
1 AAAACAAAAAAAATAAACTCAACAATTTATTTCCTT
743076 CTATGAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (40 bp):
AAAACAAAAAAAATAAACTCAACAATTTATTTCCTTTCAT
Found at i:743538 original size:59 final size:58
Alignment explanation
Indices: 743295--743624 Score: 341
Period size: 58 Copynumber: 5.7 Consensus size: 58
743285 TATTCTGAGA
* * * * *
743295 AAATAAATTTAACAATTTATTTTCTTTAACAAA-ATATAATCATTTAAGATTTTCAA--
1 AAATAAATTCAACAATTTATTTTCCTT-ACAAAGTTAGAATCATTTAAGATTCTCAAGG
* ** * * *
743351 AAA-AAATTTAACAATTTATTAACTTTTACAAA-ATAGAATCATTTAAGATTCTCAAGA
1 AAATAAATTCAACAATTTATTTTC-CTTACAAAGTTAGAATCATTTAAGATTCTCAAGG
** * * *
743408 AAATAAATTGGACAATTTATTTTCCTTACAAAGTTAAAATAATTCAAGATT-TCCAAGG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCT-CAAGG
743466 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTTAAGATTCTCAAGG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCA-TTTAAGATTCTCAAGG
* * * * *
743525 AAATAAATTCAACAATCTATTTTTCTTACAAAGTTAGAATCATTAAATATTCTCAATG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAAGG
* * * *
743583 AAATAAA-TCTAACTATTTATTTTTCTTACGAAGCTAGAATCA
1 AAATAAATTC-AACAATTTATTTTCCTTACAAAGTTAGAATCA
743625 ACACAAGATT
Statistics
Matches: 237, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
55 44 0.19
56 6 0.03
57 13 0.05
58 120 0.51
59 53 0.22
60 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (58 bp):
AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAAGG
Found at i:743546 original size:117 final size:114
Alignment explanation
Indices: 743292--743624 Score: 345
Period size: 117 Copynumber: 2.9 Consensus size: 114
743282 CAATATTCTG
* * * * *
743292 AGAAAATAAATTTAACAATTTATTTTCTTTAACAAA-ATATAATCATTTAAGATTTTCAA-AAA-
1 AGAAAATAAATTCAACAATTTATTTTCCTT-ACAAAGTTAAAATCA-TTAAGATTTCCAAGAAAT
* ** *
743354 AAATTTAACAATTTATTAACTTTTACAAA-ATAGAATCATTTAAGATTCTCA
64 AAATTCAACAATTTATTTTC-CTTACAAAGATAGAATCATTTAAGATTCTCA
** *
743405 AGAAAATAAATTGGACAATTTATTTTCCTTACAAAGTTAAAATAATTCAAGATTTCCAAGGAAAT
1 AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAAAATCATT-AAGATTTCCAA-GAAAT
*
743470 AAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTTAAGATTCTCA
64 AAATTCAACAATTTATTTTCCTTACAAAGATAGAATCA-TTTAAGATTCTCA
* * * *
743522 AGGAAATAAATTCAACAATCTATTTTTCTTACAAAGTTAGAATCATTAA-ATATTCTCAATGAAA
1 AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAAAATCATTAAGAT-TTC-CAA-GAAA
* * * *
743586 TAAA-TCTAACTATTTATTTTTCTTACGAAGCTAGAATCA
63 TAAATTC-AACAATTTATTTTCCTTACAAAGATAGAATCA
743625 ACACAAGATT
Statistics
Matches: 186, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
112 7 0.04
113 43 0.23
115 12 0.06
116 32 0.17
117 92 0.49
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (114 bp):
AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAAAATCATTAAGATTTCCAAGAAATAA
ATTCAACAATTTATTTTCCTTACAAAGATAGAATCATTTAAGATTCTCA
Found at i:743633 original size:117 final size:117
Alignment explanation
Indices: 743395--743651 Score: 295
Period size: 117 Copynumber: 2.2 Consensus size: 117
743385 AGAATCATTT
* ** *
743395 AAGATTCTCAAGAAAATAAATTGGACAATTTATTTTCCTTACAAAGTTAAAATAATTCAAGATTT
1 AAGATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAAAATAATTCAAGATTT
* ****
743460 CCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTT
66 CCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGCTAGAATCAACAC
* * *
743512 AAGATTCTCAAGGAAATAAATTCAACAATCTATTTTTCTTACAAAGTTAGAATCATT-AA-ATAT
1 AAGATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAAAATAATTCAAGAT-T
* * * *
743575 TCTCAATGAAATAAA-TCTAACTATTTATTTTTCTTACGAAGCTAGAATCAACAC
65 TC-CAAGGAAATAAATTC-AACAATTTATTTTCCTTACAAAGCTAGAATCAACAC
*
743629 AAGATTCTAACAATGAAATAAAT
1 AAGATTCT--CAAGGAAATAAAT
743652 CCAATGATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
115 2 0.02
116 7 0.06
117 97 0.82
119 12 0.10
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (117 bp):
AAGATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAAAATAATTCAAGATTT
CCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGCTAGAATCAACAC
Found at i:743845 original size:45 final size:45
Alignment explanation
Indices: 743789--743890 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 45
743779 TTACCAACCA
* * * *
743789 AATAGTCAAAAGGAACTAATCCTTTGATTTTACTTTTGGCAACAC
1 AATAATCAAAAGGAAATAATCATTTGATTTTACTTTTGACAACAC
743834 AATAATCAAAAGGAAATAATCATTTGATTTTACTTTTGACAACAC
1 AATAATCAAAAGGAAATAATCATTTGATTTTACTTTTGACAACAC
*
743879 AATAATAAAAAG
1 AATAATCAAAAG
743891 TCTTGGATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (45 bp):
AATAATCAAAAGGAAATAATCATTTGATTTTACTTTTGACAACAC
Found at i:746184 original size:37 final size:37
Alignment explanation
Indices: 746142--746221 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
746132 ACCCAAATTG
746142 GAACATTTAAATTGATTACAATATTTGAACCATCTGT
1 GAACATTTAAATTGATTACAATATTTGAACCATCTGT
*
746179 GAACATTTAAATTGATTGCAATATTTGAACCATCTGT
1 GAACATTTAAATTGATTACAATATTTGAACCATCTGT
746216 GAACAT
1 GAACAT
746222 ATTGATGGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (37 bp):
GAACATTTAAATTGATTACAATATTTGAACCATCTGT
Found at i:746866 original size:39 final size:40
Alignment explanation
Indices: 746813--746990 Score: 215
Period size: 41 Copynumber: 4.5 Consensus size: 40
746803 TTTTATAAAT
* ** *
746813 TTTTGAAAACATATATATAATATATAG-TTTTCGAAAATA
1 TTTTGAAAATATATATATAATATATAGATTTTTAAAAACA
*
746852 TTTTG-AAA-ATATATATAACATATAGATTTTTAAAAACA
1 TTTTGAAAATATATATATAATATATAGATTTTTAAAAACA
*
746890 TTTTGAAAATATATATATATATAATATAG-TTTTTGAAAACA
1 TTTTGAAAATATATATATA-AT-ATATAGATTTTTAAAAACA
746931 TTTT-AAATATATATATATAATATATAG-TTTTTAAAAAACA
1 TTTTGAAA-ATATATATATAATATATAGATTTTT-AAAAACA
746971 TTTTGAAAATATATCATATA
1 TTTTGAAAATATAT-ATATA
746991 GTTTTTAAAA
Statistics
Matches: 123, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
37 16 0.13
38 17 0.14
39 19 0.15
40 30 0.24
41 35 0.28
42 6 0.05
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (40 bp):
TTTTGAAAATATATATATAATATATAGATTTTTAAAAACA
Found at i:746950 original size:81 final size:77
Alignment explanation
Indices: 746813--746990 Score: 250
Period size: 81 Copynumber: 2.2 Consensus size: 77
746803 TTTTATAAAT
* * *
746813 TTTTGAAAACATATATATAATATATAGTTTTCGAAAATATTTTGAAAATATATATAACATATAGA
1 TTTTGAAAATATATATATAATATATAGTTTTCGAAAACATTTTAAAAATATATATAACATATAG-
746878 TTTTT-AAAAACA
65 TTTTTAAAAAACA
* *
746890 TTTTGAAAATATATATATATATAATATAGTTTTTGAAAACATTTTAAATATATATATATAATATA
1 TTTTGAAAATATATATATA-AT-ATATAGTTTTCGAAAACATTTTAAA-A-ATATATATAACATA
746955 TAGTTTTTAAAAAACA
62 TAGTTTTTAAAAAACA
746971 TTTTGAAAATATATCATATA
1 TTTTGAAAATATAT-ATATA
746991 GTTTTTAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
77 18 0.20
78 2 0.02
79 22 0.24
80 6 0.07
81 37 0.41
82 5 0.06
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (77 bp):
TTTTGAAAATATATATATAATATATAGTTTTCGAAAACATTTTAAAAATATATATAACATATAGT
TTTTAAAAAACA
Found at i:747023 original size:40 final size:37
Alignment explanation
Indices: 746823--747028 Score: 137
Period size: 39 Copynumber: 5.5 Consensus size: 37
746813 TTTTGAAAAC
* *
746823 ATATATATA-AT-ATATAGTTTTCGAAAATATTTTGAA-
1 ATATATATATATCATATAGTTTT-TAAAAAATTTT-AAT
*
746859 A-ATATATATAACATATAGATTTTTAAAAACATTTTGAAAAT
1 ATATATATATATCATATAG-TTTTTAAAAA-ATTTT---AAT
* *
746900 ATATATATATATAATATAGTTTTTGAAAACATTTTAAAT
1 ATATATATATATCATATAGTTTTT-AAAAAATTTT-AAT
*
746939 ATATATATATAAT-ATATAGTTTTTAAAAAACATTTT--G
1 ATATATATAT-ATCATATAGTTTTT-AAAAA-ATTTTAAT
746976 A-A-A-ATATATCATATAGTTTTTAAAAAATATTTACAT
1 ATATATATATATCATATAGTTTTTAAAAAAT-TTTA-AT
* *
747012 GTATAT-TATATAATATA
1 ATATATATATATCATATA
747029 ATATTATATT
Statistics
Matches: 138, Mismatches: 13, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
32 2 0.01
33 10 0.07
34 15 0.11
35 8 0.06
36 3 0.02
37 12 0.09
38 20 0.14
39 29 0.21
40 9 0.07
41 11 0.08
42 19 0.14
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (37 bp):
ATATATATATATCATATAGTTTTTAAAAAATTTTAAT
Found at i:747027 original size:5 final size:5
Alignment explanation
Indices: 747013--747059 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
747003 TATTTACATG
* *
747013 TATAT TATAT AATAT AATAT TATAT TATAT TATAT TATAT T-TAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
747060 TTCTTTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:747113 original size:30 final size:30
Alignment explanation
Indices: 747050--747114 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
747040 TATTATATTA
* *
747050 TATTTATTATTTCTTTTTCTTTTTCTTTTT
1 TATTTATTATTTCTCTTTCTTTTTCTTTGT
747080 TATTTACTTATTT-TCTTTCTTTTGT-TTTGT
1 TATTTA-TTATTTCTCTTTCTTTT-TCTTTGT
747110 TATTT
1 TATTT
747115 GGTACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (30 bp):
TATTTATTATTTCTCTTTCTTTTTCTTTGT
Found at i:754035 original size:17 final size:16
Alignment explanation
Indices: 754004--754037 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
753994 CACGTGAGGA
754004 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
754020 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
754037 T
1 T
754038 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:760430 original size:19 final size:21
Alignment explanation
Indices: 760393--760435 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
760383 TAACTTTTTC
760393 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
760413 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
760433 TTT
1 TTT
760436 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:760441 original size:19 final size:20
Alignment explanation
Indices: 760392--760441 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
760382 TTAACTTTTT
*
760392 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
760412 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
760431 CTTTTACCTTT
1 CTTTTACCTTT
760442 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:764543 original size:76 final size:74
Alignment explanation
Indices: 764353--764559 Score: 241
Period size: 76 Copynumber: 2.9 Consensus size: 74
764343 TAAAACATAT
* * * * *
764353 TAAATCCTAATGAAAACACTCAAAACTATTTAAACTTAAATACCT--AA-AAA-ATAATAT-TTA
1 TAAAACCTAATTAAAA-ACT-AAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
*
764413 AAATAATATTC
64 AAATAATATCC
* *
764424 TAAATCCTAATT-AAAA-T-AACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAA
1 TAAAACCTAATTAAAAACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAA
764486 ATAATATCC
66 ATAATATCC
*
764495 TAAAACTTAATTAAAAGACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAA-ACT-AAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
764560 TGTTTAAAAT
Statistics
Matches: 117, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
66 21 0.18
68 3 0.03
69 4 0.03
70 9 0.08
71 33 0.28
72 3 0.03
73 1 0.01
74 1 0.01
76 42 0.36
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (74 bp):
TAAAACCTAATTAAAAACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAA
ATAATATCC
Found at i:768471 original size:2 final size:2
Alignment explanation
Indices: 768464--768506 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
768454 GTTTTATTTA
768464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
768506 A
1 A
768507 ATTTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:768543 original size:39 final size:39
Alignment explanation
Indices: 768490--768772 Score: 197
Period size: 40 Copynumber: 6.9 Consensus size: 39
768480 ATATATATAT
*
768490 ATATATATATATATATAATTTTTTATAAAATTTTGAAAAAC
1 ATATATATA-ATATATAGTTTTTTA-AAAATTTTGAAAAAC
* * *
768531 CT-TATTTAATATATAGTTTTCTAAAAAATGTTTTG-AAAAC
1 ATATATATAATATATAGTTTT-TTAAAAA--TTTTGAAAAAC
* *
768571 ATATATATAATATATAGCTTTTTAAAATATTTT--TAAA-
1 ATATATATAATATATAGTTTTTTAAAA-ATTTTGAAAAAC
* * * *
768608 ATATATATAATATCTAGTTTTTGAAAACATTTTAAAATATATAT
1 ATATATATAATATATAGTTTTTTAAAA-ATTTT-GAA-A-A-AC
*
768652 ATATATATATATATATAATATAGTTTTCTAAAATATTTTG--AAA-
1 ATATATATA-ATATAT-A-GT--TTTT-TAAAA-ATTTTGAAAAAC
*
768695 ATATATATAACATATAGTTTTTTAAAAACATTTT-AAAAAC
1 ATATATATAATATATAGTTTTTT-AAAA-ATTTTGAAAAAC
*
768735 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAA
1 ATATATATAATATATAGTTTTTTAAAA-ATTTTGAAAA
768773 TATATCCTAT
Statistics
Matches: 195, Mismatches: 24, Indels: 47
0.73 0.09 0.18
Matches are distributed among these distances:
37 30 0.15
38 16 0.08
39 32 0.16
40 44 0.23
41 25 0.13
42 6 0.03
43 10 0.05
44 10 0.05
45 6 0.03
46 2 0.01
47 1 0.01
49 4 0.02
50 9 0.05
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (39 bp):
ATATATATAATATATAGTTTTTTAAAAATTTTGAAAAAC
Found at i:768640 original size:37 final size:38
Alignment explanation
Indices: 768488--768813 Score: 181
Period size: 39 Copynumber: 8.3 Consensus size: 38
768478 ATATATATAT
* * *
768488 ATATATATATATATATATAATTTTTTATAAA-ATTTTGAA
1 ATATATATATA-ATATATAGTTTTTGA-AAACATTTTTAA
* * *
768527 AAACCT-TATTTAATATATAGTTTTCT-AAAAAATGTTTTGAAA
1 ATA--TATATATAATATATAGTTTT-TGAAAACAT-TTTT--AA
* *
768569 ACATATATATAATATATAGCTTTTT-AAAATATTTTTAA
1 ATATATATATAATATATAG-TTTTTGAAAACATTTTTAA
*
768607 A-ATATATATAATATCTAGTTTTTGAAAACATTTTAAAATATA
1 ATATATATATAATATATAGTTTTTGAAAACATTTT----TA-A
* * * *
768649 TATATATATATATATATATAATATAGTTTTCTAAAATATTTTGAA
1 -ATATATATATA-ATATAT-A-GT--TTTT-GAAAACATTTTTAA
* * *
768694 A-ATATATATAACATATAGTTTTTTAAAAACATTTTAAAA
1 ATATATATATAATATATAG-TTTTTGAAAACATTTT-TAA
* *
768733 ACATATATATAATATATAGTTTTTGAAAACA-TTTTGA
1 ATATATATATAATATATAGTTTTTGAAAACATTTTTAA
**
768770 A-A-ATATAT--CCTATAGTTTTTGAAAACA-TTTTAA
1 ATATATATATAATATATAGTTTTTGAAAACATTTTTAA
768803 ATATATATATA
1 ATATATATATA
768814 GTTTTAAAAA
Statistics
Matches: 232, Mismatches: 26, Indels: 61
0.73 0.08 0.19
Matches are distributed among these distances:
33 23 0.10
34 1 0.00
35 12 0.05
36 6 0.03
37 27 0.12
38 18 0.08
39 34 0.15
40 30 0.13
41 25 0.11
42 14 0.06
43 10 0.04
44 10 0.04
45 6 0.03
46 2 0.01
47 1 0.00
49 4 0.02
50 9 0.04
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (38 bp):
ATATATATATAATATATAGTTTTTGAAAACATTTTTAA
Found at i:768650 original size:164 final size:159
Alignment explanation
Indices: 768476--768813 Score: 441
Period size: 164 Copynumber: 2.1 Consensus size: 159
768466 ATATATATAT
* * *
768476 ATATATATATATATATATATATATATATATAATTTTTTATAAA-ATTTTGAAAA-ACCTTATTTA
1 ATATATATATATATATATATATATA-ATATAGTTTTCTA-AAATATTTTGAAAATA---TATATA
* * *
768539 ATATATAGTTTTCTAAAAA-ATGTTTTGAAAACATATATATAATATATAGCTTTTT-AAAATATT
61 ACATATAGTTTTCTAAAAACA--TTTTAAAAACATATATATAATATATAG-TTTTTGAAAACA-T
768602 TTTAAAATATATATAATATCTAGTTTTTGAAAACATTTTAAA
122 TTTAAAA-ATATATAATA--TAGTTTTTGAAAACATTTT-AA
768644 ATATATATATATATATATATATATAATATAGTTTTCTAAAATATTTTGAAAATATATATAACATA
1 ATATATATATATATATATATATATAATATAGTTTTCTAAAATATTTTGAAAATATATATAACATA
* *
768709 TAGTTTTTTAAAAACATTTTAAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
66 TAGTTTTCTAAAAACATTTTAAAAACATATATATAATATATAGTTTTTGAAAACATTTTAAAAAT
**
768774 ATATCCTATAGTTTTTGAAAACATTTTAA
131 ATATAATATAGTTTTTGAAAACATTTTAA
768803 ATATATATATA
1 ATATATATATA
768814 GTTTTAAAAA
Statistics
Matches: 156, Mismatches: 10, Indels: 17
0.85 0.05 0.09
Matches are distributed among these distances:
159 13 0.08
160 19 0.12
162 8 0.05
163 12 0.08
164 31 0.20
165 22 0.14
166 4 0.03
167 21 0.13
168 26 0.17
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (159 bp):
ATATATATATATATATATATATATAATATAGTTTTCTAAAATATTTTGAAAATATATATAACATA
TAGTTTTCTAAAAACATTTTAAAAACATATATATAATATATAGTTTTTGAAAACATTTTAAAAAT
ATATAATATAGTTTTTGAAAACATTTTAA
Found at i:768651 original size:2 final size:2
Alignment explanation
Indices: 768644--768673 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
768634 ACATTTTAAA
768644 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
768674 GTTTTCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:768664 original size:87 final size:86
Alignment explanation
Indices: 768571--768750 Score: 258
Period size: 87 Copynumber: 2.1 Consensus size: 86
768561 TTTTGAAAAC
* * * *
768571 ATATATATA-ATATATAGCTTTT-TAAAATATTTTTAAAATATATATAATATCTAG-TTTTTGAA
1 ATATATATATA-ATATAG-TTTTCTAAAATATTTTGAAAATATATATAACATATAGTTTTTTAAA
*
768633 AACATTTTAAAATATATATATATA
64 AACATTTTAAAA-ACATATATATA
768657 TATATATATATAATATAGTTTTCTAAAATATTTTGAAAATATATATAACATATAGTTTTTTAAAA
1 -ATATATATATAATATAGTTTTCTAAAATATTTTGAAAATATATATAACATATAGTTTTTTAAAA
768722 ACATTTTAAAAACATATATATA
65 ACATTTTAAAAACATATATATA
768744 ATATATA
1 ATATATA
768751 GTTTTTGAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
86 11 0.13
87 54 0.64
88 20 0.24
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (86 bp):
ATATATATATAATATAGTTTTCTAAAATATTTTGAAAATATATATAACATATAGTTTTTTAAAAA
CATTTTAAAAACATATATATA
Found at i:768710 original size:50 final size:51
Alignment explanation
Indices: 768608--768710 Score: 140
Period size: 50 Copynumber: 2.0 Consensus size: 51
768598 TATTTTTAAA
*
768608 ATATATATAATATCTAGTTTTTGAAAACATTTTAAAATATATATATATATAT
1 ATATATATAATA-CTAGTTTTTGAAAACATTTTAAAATATATATATACATAT
*
768660 ATATATATAATA-TAGTTTTCT-AAAATATTTTGAAAATATATATA-ACATAT
1 ATATATATAATACTAGTTTT-TGAAAACATTTT-AAAATATATATATACATAT
768710 A
1 A
768711 GTTTTTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
50 22 0.47
51 13 0.28
52 12 0.26
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (51 bp):
ATATATATAATACTAGTTTTTGAAAACATTTTAAAATATATATATACATAT
Found at i:768710 original size:52 final size:51
Alignment explanation
Indices: 768608--768710 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
768598 TATTTTTAAA
*
768608 ATATATATAATATCTAGTTTTTGAAAACATTTTAAAATATATATATATATAT
1 ATATATATAATA-CTAGTTTTTGAAAACATTTTAAAATATATATACATATAT
*
768660 ATATATATAATA-TAGTTTTCT-AAAATATTTTGAAAATATATATAACATATA
1 ATATATATAATACTAGTTTT-TGAAAACATTTT-AAAATATATAT-ACATATA
768711 GTTTTTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
50 16 0.35
51 12 0.26
52 18 0.39
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (51 bp):
ATATATATAATACTAGTTTTTGAAAACATTTTAAAATATATATACATATAT
Found at i:768776 original size:33 final size:33
Alignment explanation
Indices: 768746--768858 Score: 151
Period size: 33 Copynumber: 3.5 Consensus size: 33
768736 TATATATAAT
768746 ATATAGTTTTTGAAAACATTTTGAAAATATATC
1 ATATAGTTTTTGAAAACATTTTGAAAATATATC
*
768779 CTATAGTTTTTGAAAACATTTT--AAATATAT-
1 ATATAGTTTTTGAAAACATTTTGAAAATATATC
**
768809 ATATAGTTTTAAAAAAACATTTTGAAAATATATC
1 ATATAGTTTT-TGAAAACATTTTGAAAATATATC
* *
768843 CTATAGTTTTTTAAAA
1 ATATAGTTTTTGAAAA
768859 AACAATTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
30 9 0.13
31 18 0.26
33 33 0.48
34 9 0.13
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (33 bp):
ATATAGTTTTTGAAAACATTTTGAAAATATATC
Found at i:768830 original size:64 final size:64
Alignment explanation
Indices: 768739--768858 Score: 197
Period size: 64 Copynumber: 1.9 Consensus size: 64
768729 AAAAACATAT
**
768739 ATATAATATATAGTTTTTGAAAACATTTTGAAAATATATCCTATAGTTTTTGAAAACATTTTAA
1 ATATAATATATAGTTTTAAAAAACATTTTGAAAATATATCCTATAGTTTTTGAAAACATTTTAA
*
768803 ATAT-ATATATAGTTTTAAAAAAACATTTTGAAAATATATCCTATAGTTTTTTAAAA
1 ATATAATATATAGTTTT-AAAAAACATTTTGAAAATATATCCTATAGTTTTTGAAAA
768859 AACAATTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
63 12 0.23
64 40 0.77
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (64 bp):
ATATAATATATAGTTTTAAAAAACATTTTGAAAATATATCCTATAGTTTTTGAAAACATTTTAA
Found at i:768876 original size:64 final size:62
Alignment explanation
Indices: 768744--768876 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 62
768734 CATATATATA
** * * *
768744 ATATATAGTTTTTGAAAACATTTTGAAAATATATCCTATAGTTTTTGAAAACATTTTAAATAT
1 ATATATAGTTTTAAAAAACATTTTGAAAATATATCCTATAGTTTTTAAAAACAATTT-AACAT
768807 ATATATAGTTTTAAAAAAACATTTTGAAAATATATCCTATAGTTTTTTAAAAAACAATTT-ACAT
1 ATATATAGTTTT-AAAAAACATTTTGAAAATATATCCTATAG-TTTTT-AAAAACAATTTAACAT
*
768871 GTATAT
1 ATATAT
768877 TATATATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 12 0.20
64 35 0.57
65 5 0.08
66 9 0.15
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (62 bp):
ATATATAGTTTTAAAAAACATTTTGAAAATATATCCTATAGTTTTTAAAAACAATTTAACAT
Found at i:768887 original size:5 final size:5
Alignment explanation
Indices: 768872--768918 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
768862 AATTTACATG
*
768872 TATAT TATA- TATTAT AATAT TATAT TATAT TATAT TATAT T-TAT TAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
768919 TTCATTCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 6 0.16
5 30 0.81
6 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:771696 original size:17 final size:17
Alignment explanation
Indices: 771657--771706 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
771647 ATATTTTTAA
*
771657 TATTATGTA-TTTAATT
1 TATTAAGTATTTTAATT
*
771673 TATTTAAGTATTTTACTT
1 TA-TTAAGTATTTTAATT
771691 TATTAA-TATTTCTAAT
1 TATTAAGTATTT-TAAT
771707 ATAATTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.25
17 13 0.46
18 8 0.29
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (17 bp):
TATTAAGTATTTTAATT
Found at i:773970 original size:26 final size:24
Alignment explanation
Indices: 773899--773970 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
773889 TTATATTTGT
773899 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
773924 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
773946 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
773971 GTTGTACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:778964 original size:21 final size:23
Alignment explanation
Indices: 778921--778967 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
778911 GTTAGAAATG
778921 GGTGGCAAAGGTGGAAGTGACGGA
1 GGTGGCAAAGGT-GAAGTGACGGA
778945 GGTGGCAAAGGT-AA-TGACGGA
1 GGTGGCAAAGGTGAAGTGACGGA
778966 GG
1 GG
778968 CGGCGGCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.39
22 2 0.09
24 12 0.52
ACGTcount: A:0.30, C:0.09, G:0.49, T:0.13
Consensus pattern (23 bp):
GGTGGCAAAGGTGAAGTGACGGA
Found at i:781125 original size:24 final size:23
Alignment explanation
Indices: 781098--781151 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
781088 AAGGATCGTA
781098 CCATAAGAACAGAGAAAACGCGTG
1 CCATAAGAACAGAGAAAA-GCGTG
* * *
781122 CCATAAGAGCATATAAAAGCGTG
1 CCATAAGAACAGAGAAAAGCGTG
*
781145 TCATAAG
1 CCATAAG
781152 GACATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (23 bp):
CCATAAGAACAGAGAAAAGCGTG
Found at i:781149 original size:23 final size:24
Alignment explanation
Indices: 781098--781159 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
781088 AAGGATCGTA
* * *
781098 CCATAAGAACAGAGAAAACGCGTG
1 CCATAAGGACATATAAAACGCGTG
781122 CCATAA-GAGCATATAAAA-GCGTG
1 CCATAAGGA-CATATAAAACGCGTG
*
781145 TCATAAGGACATATA
1 CCATAAGGACATATA
781160 TTCATACTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (24 bp):
CCATAAGGACATATAAAACGCGTG
Found at i:785739 original size:36 final size:36
Alignment explanation
Indices: 785691--785775 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
785681 TATCTTGCGT
785691 TTCTTCCGAATACTTACAAGTATTTTTAGTCTAGGA
1 TTCTTCCGAATACTTACAAGTATTTTTAGTCTAGGA
*
785727 TTCTTCCAAATACTTACAAGTATTTTTAGTCTAGGA
1 TTCTTCCGAATACTTACAAGTATTTTTAGTCTAGGA
785763 TTCTTCCGAATAC
1 TTCTTCCGAATAC
785776 CTAACCTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (36 bp):
TTCTTCCGAATACTTACAAGTATTTTTAGTCTAGGA
Found at i:785893 original size:24 final size:24
Alignment explanation
Indices: 785861--785911 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
785851 AATAAAGAAC
*
785861 AAAAATAAACTT-AAATATACCATT
1 AAAAATAAACTTCAAACA-ACCATT
*
785885 AAAAATAAAGTTCAAACAACCATT
1 AAAAATAAACTTCAAACAACCATT
785909 AAA
1 AAA
785912 TCAACCACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAACTTCAAACAACCATT
Found at i:795953 original size:24 final size:24
Alignment explanation
Indices: 795925--795972 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
795915 AAAGAACAAC
*
795925 AATAAACTT-AAATATACCATTAAA
1 AATAAACTTCAAACA-ACCATTAAA
*
795949 AATAAAGTTCAAACAACCATTAAA
1 AATAAACTTCAAACAACCATTAAA
795973 TCAACCACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (24 bp):
AATAAACTTCAAACAACCATTAAA
Found at i:803565 original size:14 final size:14
Alignment explanation
Indices: 803546--803587 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
803536 AGTTCATGGT
803546 TGATGTAAGGATAA
1 TGATGTAAGGATAA
803560 TGATGTAAGG--AA
1 TGATGTAAGGATAA
* *
803572 TGATGTCATGATAA
1 TGATGTAAGGATAA
803586 TG
1 TG
803588 GCATGATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.31
Consensus pattern (14 bp):
TGATGTAAGGATAA
Found at i:804506 original size:19 final size:19
Alignment explanation
Indices: 804484--804543 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
804474 AAAATGACAC
804484 AATTAGGTTTTAGTATTTT
1 AATTAGGTTTTAGTATTTT
* * *
804503 AATTAGGATTTAGAATATT
1 AATTAGGTTTTAGTATTTT
**
804522 ATATTATTTTTTAGGTATTTT
1 A-ATTAGGTTTTA-GTATTTT
804543 A
1 A
804544 GTTTAAATAG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 17 0.55
20 8 0.26
21 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
AATTAGGTTTTAGTATTTT
Found at i:805193 original size:17 final size:18
Alignment explanation
Indices: 805166--805212 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 18
805156 AATCTCTTTA
805166 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
*
805185 A-TTTTTATTTAATTCTT
1 ATTTTTTATTTAATTATT
805202 ATTTTTTATTT
1 ATTTTTTATTT
805213 TAACCACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 14 0.54
18 11 0.42
19 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:805299 original size:17 final size:18
Alignment explanation
Indices: 805272--805305 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
805262 ATATTTATTA
*
805272 TTATATTATTTTCTTTTT
1 TTATATTATTTTATTTTT
805290 TTAT-TTATTTTATTTT
1 TTATATTATTTTATTTT
805306 AATATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATATTATTTTATTTTT
Found at i:810445 original size:10 final size:9
Alignment explanation
Indices: 810436--810479 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 9
810426 TATATTTTTG
810436 TTTTTATTT
1 TTTTTATTT
810445 GTTTTTATTTT
1 -TTTTTA-TTT
810456 TGTTTTATTT
1 T-TTTTATTT
810466 TGTTTTATTT
1 T-TTTTATTT
810476 TTTT
1 TTTT
810480 AGCAAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 3 0.09
10 21 0.66
11 8 0.25
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (9 bp):
TTTTTATTT
Found at i:810453 original size:22 final size:21
Alignment explanation
Indices: 810419--810477 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
810409 GAGGCAACCC
*
810419 ATTTTGTTATATTTTTGTTTT
1 ATTTTGTTTTATTTTTGTTTT
810440 -TATTTGTTTTTATTTTTGTTTT
1 AT-TTTG-TTTTATTTTTGTTTT
810462 ATTTTGTTTTATTTTT
1 ATTTTGTTTTATTTTT
810478 TTAGCAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.41
22 18 0.53
23 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (21 bp):
ATTTTGTTTTATTTTTGTTTT
Found at i:812159 original size:12 final size:12
Alignment explanation
Indices: 812144--812169 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
812134 TTATCTCACT
812144 CGAAATCTTACC
1 CGAAATCTTACC
812156 CGAAATCTTACC
1 CGAAATCTTACC
812168 CG
1 CG
812170 GGGACTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.23
Consensus pattern (12 bp):
CGAAATCTTACC
Found at i:821234 original size:6 final size:7
Alignment explanation
Indices: 821218--821244 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
821208 AATGTCCTCA
821218 TTTTTCT
1 TTTTTCT
821225 TTTTTCT
1 TTTTTCT
821232 TTTTTCT
1 TTTTTCT
821239 TTTTTC
1 TTTTTC
821245 GTTTCGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:822096 original size:26 final size:27
Alignment explanation
Indices: 822064--822157 Score: 113
Period size: 26 Copynumber: 3.5 Consensus size: 27
822054 TTTTCCCCTT
822064 TTTAATTTT-TTTTATTTAATTTTTTA
1 TTTAATTTTATTTTATTTAATTTTTTA
*
822090 TTTAATTTTGTTTTATTTAA-TTTTTA
1 TTTAATTTTATTTTATTTAATTTTTTA
*
822116 TTTATTTTACTATTTTATTTAATTTTTT-
1 TTTAATTT--TATTTTATTTAATTTTTTA
* *
822144 TCTATTTTTATTTT
1 TTTAATTTTATTTT
822158 TCTATTTATT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 28 0.46
27 10 0.16
28 18 0.30
29 5 0.08
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTAATTTTATTTTATTTAATTTTTTA
Found at i:822157 original size:5 final size:5
Alignment explanation
Indices: 822063--822228 Score: 94
Period size: 5 Copynumber: 32.6 Consensus size: 5
822053 TTTTTCCCCT
* * * *
822063 TTTTAA TTTT- TTTTA TTTAATT TTTTA TTTAA TTTTG TTTTA TTTAA
1 TTTT-A TTTTA TTTTA TTT--TA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
822110 TTTT- TATTTA TTTTA --CTA TTTTA TTTAA TTTT- TTTCTA TTTTTA
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA -TTTTA
* ** * *
822154 TTTTTC TATTTA TTTTA TTACTT- TTTCC TTTT- TATCA TTTTA TTTTA
1 -TTTTA T-TTTA TTTTA TT--TTA TTTTA TTTTA TTTTA TTTTA TTTTA
822201 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
822229 AGCCATTTTC
Statistics
Matches: 125, Mismatches: 20, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
3 2 0.02
4 11 0.09
5 85 0.68
6 18 0.14
7 9 0.07
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:822163 original size:34 final size:34
Alignment explanation
Indices: 822116--822224 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 34
822106 TTAATTTTTA
* *
822116 TTTATTTTACTATTTTATTTAATTTTTTTCTATT
1 TTTATTTTTCTATTTTATTTTATTTTTTTCTATT
*
822150 TTTATTTTTCTA-TTTATTTTATTACTTTTTC-CTT
1 TTTATTTTTCTATTTTATTTTATT--TTTTTCTATT
*
822184 TTTATCATTT-TATTTTATTTTATTTTATTT-TA-T
1 TTTAT-TTTTCTATTTTATTTTATTTT-TTTCTATT
822217 TTTATTTT
1 TTTATTTT
822225 ATTTAGCCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
32 2 0.03
33 18 0.29
34 23 0.37
35 20 0.32
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.75
Consensus pattern (34 bp):
TTTATTTTTCTATTTTATTTTATTTTTTTCTATT
Found at i:823500 original size:2 final size:2
Alignment explanation
Indices: 823493--823525 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
823483 TTCTTACCTA
823493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
823526 CGAGGAAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:824734 original size:2 final size:2
Alignment explanation
Indices: 824727--824751 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
824717 ACGAGTTGTA
824727 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
824752 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:825876 original size:24 final size:21
Alignment explanation
Indices: 825844--825890 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 21
825834 TTTGGAAATG
825844 GGTGGCAAAGGTGGAAGTGGCGGA
1 GGTGGCAAAGGT--AA-TGGCGGA
825868 GGTGGCAAAGGTAATGGCGGA
1 GGTGGCAAAGGTAATGGCGGA
825889 GG
1 GG
825891 CAGCGGCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.39
22 2 0.09
24 12 0.52
ACGTcount: A:0.26, C:0.09, G:0.53, T:0.13
Consensus pattern (21 bp):
GGTGGCAAAGGTAATGGCGGA
Done.