Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 12 of 218
Found at i:4474370 original size:21 final size:22
Alignment explanation
Indices: 4474333--4474382 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
4474323 TTATTTTTAA
*
4474333 AATTTTAAAATATTTTTAAAAT
1 AATTTTTAAATATTTTTAAAAT
*
4474355 ACTTTTTAAA-ATTTTTAAAAT
1 AATTTTTAAATATTTTTAAAAT
4474376 AATTTTT
1 AATTTTT
4474383 TGGTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTTTTAAATATTTTTAAAAT
Found at i:4474712 original size:29 final size:29
Alignment explanation
Indices: 4474670--4474727 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4474660 TTAACTTCAT
4474670 GATTTATTTATTTATTCTATTATTTTCCG
1 GATTTATTTATTTATTCTATTATTTTCCG
4474699 GATTTATTTATTTATTCTATTATTTTCCG
1 GATTTATTTATTTATTCTATTATTTTCCG
4474728 CATGTAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (29 bp):
GATTTATTTATTTATTCTATTATTTTCCG
Found at i:4474739 original size:29 final size:29
Alignment explanation
Indices: 4474678--4474740 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
4474668 ATGATTTATT
* * **
4474678 TATTTATTCTATTATTTTCCGGATTTATT
1 TATTTATTCTATTATTTTCCGCATGTAAA
4474707 TATTTATTCTATTATTTTCCGCATGTAAA
1 TATTTATTCTATTATTTTCCGCATGTAAA
4474736 TATTT
1 TATTT
4474741 TATTGGGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (29 bp):
TATTTATTCTATTATTTTCCGCATGTAAA
Found at i:4475910 original size:61 final size:60
Alignment explanation
Indices: 4475835--4475948 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 60
4475825 AAAAATGATT
* * * *
4475835 ATTTTTAAAATTTTTAGAGTTAGGAGTAAATTGACAAATTTTGTAAACATTGAGAGATAA
1 ATTTTTAAAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGATAA
* *
4475895 ATTTATTAAATTTTTTAGAATTAGAACTAAAATGACAAATTTTGTGAACATTGA
1 ATTT-TTAAAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGA
4475949 AGGCTAAACT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 4 0.09
61 43 0.91
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.39
Consensus pattern (60 bp):
ATTTTTAAAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGATAA
Found at i:4481169 original size:98 final size:98
Alignment explanation
Indices: 4481000--4481194 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
4480990 ATAATAAAAT
*
4481000 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
4481065 TTTAAAATCCCAAACTCGGAATATTTCATTTAC
66 TTTAAAATCCCAAACTCGGAATATTTCATTTAC
*
4481098 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGTCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
4481163 TTTAAAATCCCAAATTCGGAATATTTCCTTTA
66 TTTAAAATCCCAAACTCGGAATATTTCATTTA
4481195 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCATTTAC
Found at i:4481911 original size:27 final size:27
Alignment explanation
Indices: 4481851--4481912 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
4481841 AAATATATAC
* *
4481851 ATATAAATATGAAAATATTCATTAAAA
1 ATATATATAGGAAAATATTCATTAAAA
* * *
4481878 AGA-ATATAGGAAAATATTCGTTTAAA
1 ATATATATAGGAAAATATTCATTAAAA
4481904 ATATATATA
1 ATATATATA
4481913 TGTGTACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (27 bp):
ATATATATAGGAAAATATTCATTAAAA
Found at i:4482556 original size:19 final size:19
Alignment explanation
Indices: 4482532--4482625 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
4482522 AATCATATAT
4482532 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4482551 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
4482572 TATAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
4482591 TCTAGGATTGCATATTATA
1 TCTAAGATTGCATATCATA
4482610 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4482626 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 49 0.73
21 18 0.27
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4482582 original size:40 final size:38
Alignment explanation
Indices: 4482534--4482625 Score: 148
Period size: 40 Copynumber: 2.4 Consensus size: 38
4482524 TCATATATTC
4482534 TAAGATTGCATATCATATCTAAGATTGCATATATCATATA
1 TAAGATTGCATATCATATCTAAGATTGCATAT-T-ATATA
* *
4482574 TAAGATTGCATATCATATCTAGGATTGCATATTATATC
1 TAAGATTGCATATCATATCTAAGATTGCATATTATATA
4482612 TAAGATTGCATATC
1 TAAGATTGCATATC
4482626 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 18 0.36
39 1 0.02
40 31 0.62
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTGCATATTATATA
Found at i:4483008 original size:44 final size:44
Alignment explanation
Indices: 4482960--4483422 Score: 159
Period size: 44 Copynumber: 10.5 Consensus size: 44
4482950 AAAATCCATC
* *
4482960 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGGA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * * *
4483004 ATCTTCAATCTATTCCACTATTGCCTAGAGA-AGT-AGAAT-TACT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGCA
* * * ** * * *
4483047 AGCTTCAATGTAATCCACTGTAAC--CACAGGGAGGTAAAATCCGCA
1 ATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGCA
*
4483092 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA
* **
4483136 ATCTTCAATCTATTCCACGT--TGCCCAGGGA-AGT-AGAAT-T--A
1 ATCTTCAATCTACTCCAC-TACTGCTTAGGGAGA-TAAG-ATCTGCA
* * * * * * * * *
4483176 TTGGCTTCAATGTACTCCACTA-TAACCATAGGAAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGCA
* * **
4483223 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA
* ** * ** * *
4483267 ATCTTCAATCTATTCCACTGTTACCCAGGGA-AGT-AGAAT-TACT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGCA
** * * ** * * * *
4483310 GGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGCA
* * *
4483355 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA
* *
4483399 ATCTTCAATCTATTCCACTGCTGC
1 ATCTTCAATCTACTCCACTACTGC
4483423 CCAGGGAAGT
Statistics
Matches: 292, Mismatches: 95, Indels: 64
0.65 0.21 0.14
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
42 22 0.08
43 51 0.17
44 160 0.55
45 52 0.18
46 3 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA
Found at i:4483096 original size:132 final size:132
Alignment explanation
Indices: 4482854--4483926 Score: 1496
Period size: 132 Copynumber: 8.1 Consensus size: 132
4482844 CTGCAACTGC
* * * * * *
4482854 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGG
* ** *
4482917 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCATCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
4482982 GCTT
129 GCTT
* * * * *
4482986 AGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTATTGCCTAGAGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * * *
4483051 TCAATGTAATCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4483116 TT
131 TT
*
4483118 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCAC-GTTGCCCAGGGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
4483182 TCAATGTACTCCACTATAACCATAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4483247 TT
131 TT
* *
4483249 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
4483314 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4483379 TT
131 TT
*
4483381 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
** *
4483446 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTTAA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC-TC-C-ACTAC
4483511 TGC--
128 TGCTT
* * ** * * * *
4483514 AGGAAGACAAGATCTGCTATCTTTAATCTATTCCACTGCTGCTCAGGGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * **
4483579 TCAATGTACTCCACTATAACCAC-GGAGAGGTAAAATCCGCCATTTTCGATTTGCTTCGCTGTTA
66 TCAATGTACTCCACTATAACCACAGG-GAGGTAAAATCCGCCATCTTCGATCTGC-TC-C-ACTA
*
4483643 ATGC--
127 CTGCTT
* ** ** * **
4483647 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGTTATCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * * *
4483712 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCCTCAATTTGCTCCACTATTAC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4483777 TT
131 TT
* *
4483779 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
4483844 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
4483909 TT
131 TT
4483911 AGGGAGATAAGATCTG
1 AGGGAGATAAGATCTG
4483927 TAGCTCTGGG
Statistics
Matches: 856, Mismatches: 75, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
130 4 0.00
131 119 0.14
132 491 0.57
133 234 0.27
134 3 0.00
135 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:4483739 original size:44 final size:42
Alignment explanation
Indices: 4483690--4483877 Score: 96
Period size: 44 Copynumber: 4.3 Consensus size: 42
4483680 CACTGTTATC
4483690 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCA
1 CAGGGAAGTA-AATT-CTGGCTTCAATGTACTCCACTATAACCA
* * * * * * * *
4483734 CAGGGAGGTAAAATCCGCCATCCTCAATTTGCTCCACTATTA-CT
1 CAGGGAAGTAAATTCTGGC-T--TCAATGTACTCCACTATAACCA
* * * * ***
4483778 TAGGG-AGATAAGA-TCTGAAATCTTCAATCTATTCCACTATTGTC-
1 CAGGGAAG-TAA-ATTCTG---GCTTCAATGTACTCCACTATAACCA
4483822 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCA
1 CAGGGAAGTA-AATT-CTGGCTTCAATGTACTCCACTATAACCA
*
4483866 CAGGGAGGTAAA
1 CAGGGAAGTAAA
4483878 ATCCGCCATC
Statistics
Matches: 106, Mismatches: 24, Indels: 29
0.67 0.15 0.18
Matches are distributed among these distances:
42 3 0.03
43 25 0.24
44 51 0.48
45 22 0.21
46 4 0.04
47 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
CAGGGAAGTAAATTCTGGCTTCAATGTACTCCACTATAACCA
Found at i:4483770 original size:398 final size:393
Alignment explanation
Indices: 4482871--4483926 Score: 1485
Period size: 398 Copynumber: 2.7 Consensus size: 393
4482861 TAAGACTTAC
* * * * *
4482871 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTACTGACTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTG-TTACCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTA
** *
4482935 TAACCACAGGGAGGTAAAATCCATCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
64 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
* * * * *
4483000 TGGAATCTTCAATCTATTCCACTATTGCCTAGAGAAGTAGAATTACTAGCTTCAATGTAATCCAC
129 TGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
* * * * * * *
4483065 TGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTAC-TCCACTACTGCTTAGGGAGATAAG
194 TATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCCACTAATGC-TAGGAAGACAAG
*
4483129 ATCTGAAATCTTCAATCTATTCCACGTTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCC
258 ATCTGAAATCTTCAATCTATTCCACGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCC
* * *
4483194 ACTATAACCATAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
323 ACTATAACCATAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAATGC-TAGGAAGACAA
4483259 GATCTAA
387 GATCTAA
4483266 AATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTA-CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
4483331 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
**
4483396 GAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
130 GAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
**
4483461 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTTAATGC-AGGAAGACAAG
195 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTC-C-ACTAATGCTAGGAAGACAAG
** * *
4483525 ATCTGCTATCTTTAATCTATTCCACTGCTGCTCAGGGAAGTAGAATTATTGGCTTCAATGTACTC
258 ATCTGAAATCTTCAATCTATTCCAC-GCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTC
* * * **
4483590 CACTATAACCA-CGGAGAGGTAAAATCCGCCATTTTCGATTTGCTTCGCTGTTAATGC-AGGAAG
322 CACTATAACCATAGGA-AGGTAAAATCCGCCATCTTCGATCTGC-TC-C-ACTAATGCTAGGAAG
* **
4483653 GCAAGATCTGC
383 ACAAGATCTAA
* *
4483664 TATCTTTAATCTATTCCACTGTTATCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTA-CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* * * * *
4483729 AACCACAGGGAGGTAAAATCCGCCATCCTCAATTTGCTCCACTATTACTTAGGGAGATAAGATCT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
4483794 GAAATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
130 GAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
* * *
4483859 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC-TCCACTACTGCTTAGGGAGATAAGA
195 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCCACTAATGC-TAGGAAGACAAGA
4483923 TCTG
259 TCTG
4483927 TAGCTCTGGG
Statistics
Matches: 593, Mismatches: 56, Indels: 22
0.88 0.08 0.03
Matches are distributed among these distances:
394 2 0.00
395 214 0.36
396 39 0.07
397 90 0.15
398 242 0.41
399 1 0.00
400 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (393 bp):
AATCTTCAATCTATTCCACTGTTACCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATA
ACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
AAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCCACTAATGCTAGGAAGACAAGATC
TGAAATCTTCAATCTATTCCACGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACT
ATAACCATAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAATGCTAGGAAGACAAGATC
TAA
Found at i:4483852 original size:530 final size:526
Alignment explanation
Indices: 4482854--4483926 Score: 1521
Period size: 530 Copynumber: 2.0 Consensus size: 526
4482844 CTGCAACTGC
* *
4482854 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTACTGAC
1 AGGGAGATAAGATCTGACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGAC
* * *
4482918 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCATCATCTTCGATCTACTCCACTACTG
66 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTAATG
* * * *
4482983 CTTAGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTATTGCCTAGAGAAGTAGAATTACTA
131 C-TAGGAAGACAAGATCTGCAATCTTCAATCTATTCCACTACTGCCTAGAGAAGTAGAATTACTA
* *
4483048 GCTTCAATGTAATCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTAC
195 GCTTCAATGTAATCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTAA
* * * *
4483113 TGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACGTTGCCCAGGGAAGTAGAATTATT
260 TGC-TAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACGTTACCCAGGGAAGTAGAATTACT
* * *
4483178 GGCTTCAATGTACTCCACTATAACCATAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
324 GGCTTCAATGTACTCCACTATAACCACAGGAAGGTAAAATCCGCCATCCTCAATCTGCTCCACTA
* *
4483243 CTGCTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGAATTA
389 CTACTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTATTACCCAGGGAAGTAGAATTA
4483308 CTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
454 CTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
4483373 TACTGCTT
519 TACTGCTT
* * *
4483381 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACTGG
1 AGGGAGATAAGATCTGACAATCTTCAACCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGA
* * **
4483444 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTT
65 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTAC-TC-C-ACT
* * * *
4483509 AATGC-AGGAAGACAAGATCTGCTATCTTTAATCTATTCCACTGCTG-CTCAGGGAAGTAGAATT
127 AATGCTAGGAAGACAAGATCTGCAATCTTCAATCTATTCCACTACTGCCT-AGAGAAGTAGAATT
* * * * * * * *
4483572 ATTGGCTTCAATGTACTCCACTATAACCAC-GGAGAGGTAAAATCCGCCATTTTCGATTTGCTTC
191 ACTAGCTTCAATGTAATCCACTATAACCACAGG-GAGGTAAAATCCGCAATCTTCAATCTAC-TC
** * ** * *
4483636 GCTGTTAATGC-AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGTTATCCAGGGAAGTA
254 -C-ACTAATGCTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCAC-GTTACCCAGGGAAGTA
* *
4483700 GAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCCTCAATTTG
316 GAATTACTGGCTTCAATGTACTCCACTATAACCACAGGAAGGTAAAATCCGCCATCCTCAATCTG
* * **
4483765 CTCCACTATTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCCAGGGAAG
381 CTCCACTACTACTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTATTACCCAGGGAAG
4483830 TAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
446 TAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
4483895 TGCTCCACTACTGCTT
511 TGCTCCACTACTGCTT
4483911 AGGGAGATAAGATCTG
1 AGGGAGATAAGATCTG
4483927 TAGCTCTGGG
Statistics
Matches: 483, Mismatches: 52, Indels: 19
0.87 0.09 0.03
Matches are distributed among these distances:
526 1 0.00
527 108 0.22
528 101 0.21
529 33 0.07
530 235 0.49
531 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (526 bp):
AGGGAGATAAGATCTGACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGAC
TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTAATG
CTAGGAAGACAAGATCTGCAATCTTCAATCTATTCCACTACTGCCTAGAGAAGTAGAATTACTAG
CTTCAATGTAATCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTAAT
GCTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACGTTACCCAGGGAAGTAGAATTACTGG
CTTCAATGTACTCCACTATAACCACAGGAAGGTAAAATCCGCCATCCTCAATCTGCTCCACTACT
ACTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTATTACCCAGGGAAGTAGAATTACT
GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
CTGCTT
Found at i:4489177 original size:19 final size:19
Alignment explanation
Indices: 4489153--4489284 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
4489143 AATCATATAT
4489153 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
4489172 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
4489191 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4489210 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
4489231 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
4489250 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4489269 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4489285 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 87 0.83
21 18 0.17
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4489246 original size:59 final size:59
Alignment explanation
Indices: 4489146--4489283 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
4489136 ATTACAAAAT
*
4489146 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* * *
4489201 CATATCATATCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
4489260 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
4489284 CCTCAAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 57 0.76
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:4490336 original size:5 final size:5
Alignment explanation
Indices: 4490313--4490356 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
4490303 TAACATTATT
* *
4490313 TAAAA -AAAA TTACA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
4490357 GGAAATTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4490362 original size:15 final size:15
Alignment explanation
Indices: 4490328--4490362 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4490318 AAAATTACAT
*
4490328 AAAATAAAATAAAAT
1 AAAATAAAATAAAAG
4490343 AAAATAAAATAAAAG
1 AAAATAAAATAAAAG
*
4490358 GAAAT
1 AAAAT
4490363 TGAGTCTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAG
Found at i:4505281 original size:11 final size:11
Alignment explanation
Indices: 4505265--4505290 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4505255 ATGATAGTTT
4505265 TTTTATAAATA
1 TTTTATAAATA
4505276 TTTTATAAATA
1 TTTTATAAATA
4505287 TTTT
1 TTTT
4505291 TTATGTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTATAAATA
Found at i:4505292 original size:13 final size:13
Alignment explanation
Indices: 4505263--4505294 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
4505253 TTATGATAGT
4505263 TTTTTTATAAATA
1 TTTTTTATAAATA
4505276 --TTTTATAAATA
1 TTTTTTATAAATA
4505287 TTTTTTAT
1 TTTTTTAT
4505295 GTTAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTATAAATA
Found at i:4513775 original size:15 final size:16
Alignment explanation
Indices: 4513749--4513778 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4513739 TTTAATTGAT
4513749 TTTTTAATATATATTA
1 TTTTTAATATATATTA
4513765 TTTTTAA-ATATATT
1 TTTTTAATATATATT
4513779 TAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTAATATATATTA
Found at i:4528503 original size:17 final size:17
Alignment explanation
Indices: 4528450--4528505 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
4528440 AACCCAAGTC
**
4528450 TTTAGTTTTTTATTTCCT
1 TTTA-TTTTTTATTTATT
* *
4528468 TTTATTATTTACTTATT
1 TTTATTTTTTATTTATT
*
4528485 TTTATTTTTTATTTTTT
1 TTTATTTTTTATTTATT
4528502 TTTA
1 TTTA
4528506 GATTGGCGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTATTTATT
Found at i:4540205 original size:2 final size:2
Alignment explanation
Indices: 4540198--4540226 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4540188 GATGAACAGA
4540198 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4540227 TTGGAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4541226 original size:16 final size:17
Alignment explanation
Indices: 4541200--4541237 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4541190 TATATTTTCA
*
4541200 ATATAAATTTTATATTT
1 ATATTAATTTTATATTT
4541217 -TATTAATTTTATATTT
1 ATATTAATTTTATATTT
4541233 ATATT
1 ATATT
4541238 TTCTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTAATTTTATATTT
Found at i:4541236 original size:22 final size:24
Alignment explanation
Indices: 4541208--4541264 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
4541198 CAATATAAAT
4541208 TTTATATTTTATTAA-TTTTAT-A
1 TTTATATTTTATTAATTTTTATAA
* *
4541230 TTTATATTTT-CTAATTTTTCTAA
1 TTTATATTTTATTAATTTTTATAA
4541253 TTT-TATTTTATT
1 TTTATATTTTATT
4541265 TAATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.10
22 21 0.72
23 5 0.17
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATATTTTATTAATTTTTATAA
Found at i:4541543 original size:14 final size:15
Alignment explanation
Indices: 4541518--4541561 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
4541508 CATTTTATTA
4541518 AATAAA-ATAAAATT
1 AATAAATATAAAATT
4541532 -ATAAATATAAAATT
1 AATAAATATAAAATT
4541546 AATAAAATATAAAATT
1 AAT-AAATATAAAATT
4541562 TATTTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
15 2 0.07
16 12 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATATAAAATT
Found at i:4541667 original size:3 final size:3
Alignment explanation
Indices: 4541659--4541692 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4541649 TTAAAATTCA
4541659 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4541693 AAATATCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4542004 original size:15 final size:15
Alignment explanation
Indices: 4541974--4542015 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4541964 GGAATCTATT
*
4541974 ATATTAATATTATTTA
1 ATATTAA-AATATTTA
4541990 AT-TTATAAATATTTA
1 ATATTA-AAATATTTA
4542005 ATATTAAAATA
1 ATATTAAAATA
4542016 ATACAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:4542129 original size:21 final size:22
Alignment explanation
Indices: 4542088--4542132 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
4542078 TACATATCAT
*
4542088 TTAATTTATATATATTGTTAAA
1 TTAATTTATATATAATGTTAAA
*
4542110 TTAATTTAT-TTTAATGTTAAA
1 TTAATTTATATATAATGTTAAA
4542131 TT
1 TT
4542133 GTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATGTTAAA
Found at i:4542879 original size:15 final size:15
Alignment explanation
Indices: 4542854--4542892 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4542844 TTGATCAACT
* *
4542854 TTAACTTTTTTTCTCA
1 TTAA-TTTTTTTATAA
4542870 TTAATTTTTTTATAA
1 TTAATTTTTTTATAA
4542885 TTAATTTT
1 TTAATTTT
4542893 AGTATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTTTATAA
Found at i:4550112 original size:20 final size:21
Alignment explanation
Indices: 4550080--4550129 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
4550070 ATGTTTTTCT
4550080 AATAT-ATCTGAAAATATTAA
1 AATATCATCTGAAAATATTAA
4550100 AATATCATC-GAAAATATTAA
1 AATATCATCTGAAAATATTAA
4550120 AATATCATCT
1 AATATCATCT
4550130 ATATATACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (21 bp):
AATATCATCTGAAAATATTAA
Found at i:4553281 original size:16 final size:16
Alignment explanation
Indices: 4553243--4553285 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4553233 TCTTTATCGT
*
4553243 TTTAATAATTTTATGTA
1 TTTAAT-ATTTTATATA
**
4553260 AATAATATTTTATATA
1 TTTAATATTTTATATA
4553276 TTTAATATTT
1 TTTAATATTT
4553286 GTTTGTATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTAATATTTTATATA
Found at i:4555195 original size:23 final size:24
Alignment explanation
Indices: 4555169--4555215 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4555159 AGAAAAAAAT
*
4555169 AGAAAAT-AAAGAAAAAAGTTAAA
1 AGAAAATAAAAGAAAAAAATTAAA
*
4555192 AGAACATAAAAGAAAAAAATTAAA
1 AGAAAATAAAAGAAAAAAATTAAA
4555216 TTATTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAAAAAATTAAA
Found at i:4560396 original size:24 final size:22
Alignment explanation
Indices: 4560357--4560401 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
4560347 TCAAACTTAA
*
4560357 AAAATTTTGAATTATTTATTTT
1 AAAATTTTAAATTATTTATTTT
4560379 AAAATTTTAAAATCTATTTATTT
1 AAAATTTT-AAAT-TATTTATTT
4560402 ATTTCTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AAAATTTTAAATTATTTATTTT
Found at i:4560709 original size:129 final size:132
Alignment explanation
Indices: 4560462--4560722 Score: 397
Period size: 129 Copynumber: 2.0 Consensus size: 132
4560452 TGATGTGTAG
* *
4560462 AGTACAATTGTTCGAGGGTGATGTTTTGGATGTTGTCAACCTGTGAACTCTTTTGAGATGGGATA
1 AGTACAATTGTTCGAGGGTGATGTTTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
*
4560527 ATTCATATATACGGCAGTCAGAAAAAGTGAGCATAGTCAAGAACCATTCTGAGAATTGTTTTACT
66 ATTCATATATACGGCAGTCAGAAAAAGTGAGCATAGTCAAGAACCATTCTGAGAATGGTTTTACT
4560592 TT
131 TT
* * *
4560594 AGTACAATTGTTCGAGGTTGATGTTTTGGATGTCGTCAATATGTG-ACTCTTTTGAGATGGGATG
1 AGTACAATTGTTCGAGGGTGATGTTTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
* *
4560658 A-T-ATATATACGGCAAG-CAGAACAAA-TGAGCATTGTCAAGGACCATTCTGAGAATGGTTTTA
66 ATTCATATATACGGC-AGTCAGAA-AAAGTGAGCATAGTCAAGAACCATTCTGAGAATGGTTTTA
4560719 CTTT
129 CTTT
4560723 CACTTTCACC
Statistics
Matches: 119, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
129 53 0.45
130 6 0.05
131 19 0.16
132 41 0.34
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (132 bp):
AGTACAATTGTTCGAGGGTGATGTTTTGGATGTCGTCAACATGTGAACTCTTTTGAGATGGGATA
ATTCATATATACGGCAGTCAGAAAAAGTGAGCATAGTCAAGAACCATTCTGAGAATGGTTTTACT
TT
Found at i:4564254 original size:42 final size:42
Alignment explanation
Indices: 4564195--4564278 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
4564185 CGCCCAATAG
* *
4564195 TTTGGGCTTTGACTTTGTTGGATA-TCATTCCCTTACCATTTA
1 TTTGGGCTTTGACTTTGTTAGATACCCATTCCCTTA-CATTTA
4564237 TTTGGGCTTTGACTTTGTTAGATAGCCCATTCCCTTACATTT
1 TTTGGGCTTTGACTTTGTTAGATA-CCCATTCCCTTACATTT
4564279 CTTTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 23 0.61
43 5 0.13
44 10 0.26
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTGGGCTTTGACTTTGTTAGATACCCATTCCCTTACATTTA
Found at i:4565145 original size:14 final size:15
Alignment explanation
Indices: 4565112--4565164 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
4565102 GATGGAATAT
* *
4565112 AAATAAATTATTTGAT
1 AAATAAAATATTT-AA
*
4565128 AAATATAAT-TTTAA
1 AAATAAAATATTTAA
4565142 AAATAAAATATTTAA
1 AAATAAAATATTTAA
4565157 AAGATAAA
1 AA-ATAAA
4565165 GTTAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 9 0.29
15 10 0.32
16 12 0.39
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (15 bp):
AAATAAAATATTTAA
Found at i:4565196 original size:27 final size:26
Alignment explanation
Indices: 4565126--4565198 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
4565116 AAATTATTTG
* *
4565126 ATAAATATAATTTTAAAAATAAAATAT
1 ATAAAAATAATTTT-AAAATAAAATAA
* **
4565153 TTAAAAGATAAAGTTAAAATAAAATAAA
1 ATAAAA-ATAATTTTAAAATAAAAT-AA
4565181 ATAAAAATAATTTTAAAA
1 ATAAAAATAATTTTAAAA
4565199 AATTCACACT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 24 0.67
28 12 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAAAAATAATTTTAAAATAAAATAA
Found at i:4566812 original size:27 final size:27
Alignment explanation
Indices: 4566782--4566860 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
4566772 GGCCAATCAC
*
4566782 ATTGGTGGCACCAAAGGTGCCAAAGAG
1 ATTGGTGGCACCAATGGTGCCAAAGAG
*
4566809 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGTGGCACCAATGGTGCCAAAGAG
*
4566836 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGTGGCACCAATGGTGCCAAAG
4566861 GACTAAAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.20, G:0.33, T:0.18
Consensus pattern (27 bp):
ATTGGTGGCACCAATGGTGCCAAAGAG
Found at i:4566947 original size:19 final size:19
Alignment explanation
Indices: 4566932--4567001 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
4566922 TTCAACTCAT
*
4566932 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
4566951 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
4566969 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
4566988 TTTTAATTTAATAA
1 TTTTAATTTAATAA
4567002 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:4566980 original size:37 final size:37
Alignment explanation
Indices: 4566937--4567007 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
4566927 CTCATTTTTT
4566937 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
4566974 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
4567008 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:4567226 original size:19 final size:19
Alignment explanation
Indices: 4567202--4567260 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
4567192 TCTAATTAAG
4567202 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
4567221 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
4567239 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
4567258 TAA
1 TAA
4567261 ATGAGAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:4567280 original size:18 final size:19
Alignment explanation
Indices: 4567257--4567303 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
4567247 CTATTTTAAT
* *
4567257 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
4567275 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
4567294 TTAAAT-AAAA
1 TTAAATGAAAA
4567304 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:4567311 original size:20 final size:19
Alignment explanation
Indices: 4567272--4567312 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4567262 TGAGAATAGT
* *
4567272 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
4567291 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
4567311 TT
1 TT
4567313 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:4567556 original size:37 final size:37
Alignment explanation
Indices: 4567514--4567584 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
4567504 AGTATTACTT
4567514 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
4567551 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
4567585 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:4567589 original size:19 final size:19
Alignment explanation
Indices: 4567520--4567588 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
4567510 ACTTAATAGT
4567520 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
4567539 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
4567557 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
4567576 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
4567589 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:4567750 original size:27 final size:27
Alignment explanation
Indices: 4567664--4567741 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
4567654 ATTTTAGTCT
* *
4567664 TTTGGTACCATTGGTGCCGCCAATCAC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
4567691 TTTGGCACCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
4567718 TTTGGCACCTTTGGTGCCGCCAAT
1 TTTGGCACCATTGGTGCCGCCAAT
4567742 GTGATTGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.31
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCTC
Found at i:4567850 original size:25 final size:26
Alignment explanation
Indices: 4567816--4567867 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
4567806 TTTCGTAAAT
4567816 AATAAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAAGTTAATATTTTGGTA
4567841 AATAAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAAG-T-TAATATTTTGGT
4567868 TAATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
28 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (26 bp):
AATAAAAAAAAGTTAATATTTTGGTA
Found at i:4576032 original size:27 final size:26
Alignment explanation
Indices: 4575985--4576036 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
4575975 TTTTGAAATT
* *
4575985 GAGTAAATTAATTTTTTTTAAATTTTA
1 GAGTAAATTAATTTATATT-AATTTTA
*
4576012 GAGTAATTTAATTTATATTAATTTT
1 GAGTAAATTAATTTATATTAATTTT
4576037 GAAAGTGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (26 bp):
GAGTAAATTAATTTATATTAATTTTA
Found at i:4577351 original size:17 final size:20
Alignment explanation
Indices: 4577308--4577356 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 20
4577298 AGTTTCAATT
4577308 AATTAATTAATTAATTAAAAC
1 AATTAATT-ATTAATTAAAAC
4577329 AA-TAATT-TTAA-TAAAA-
1 AATTAATTATTAATTAAAAC
4577345 AATTAATTATTA
1 AATTAATTATTA
4577357 TAAATATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.08
17 10 0.38
18 7 0.27
20 5 0.19
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTAATTATTAATTAAAAC
Found at i:4578349 original size:18 final size:18
Alignment explanation
Indices: 4578328--4578368 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4578318 AAAAAGAGTT
4578328 ATTAATTTAAAATT-TTTA
1 ATTAA-TTAAAATTATTTA
*
4578346 ATTAATTAAATTTATTTA
1 ATTAATTAAAATTATTTA
4578364 ATTAA
1 ATTAA
4578369 AAATCTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAATTAAAATTATTTA
Found at i:4580727 original size:269 final size:269
Alignment explanation
Indices: 4580248--4580785 Score: 1076
Period size: 269 Copynumber: 2.0 Consensus size: 269
4580238 ATCTTCTTCA
4580248 AGATAGATGGCTTCAAATCGTTAATGACGGAGGATTAAGCAGTGCTAATGAAGGTGTTATCACTG
1 AGATAGATGGCTTCAAATCGTTAATGACGGAGGATTAAGCAGTGCTAATGAAGGTGTTATCACTG
4580313 TGAAAGATGATTCCCAAGTGTAATGATTTTAGCAATGGAAGCCTGGTTCTTACCAGATTTCATGG
66 TGAAAGATGATTCCCAAGTGTAATGATTTTAGCAATGGAAGCCTGGTTCTTACCAGATTTCATGG
4580378 AATGATTGTTACAGACTGTAAAAAGAACTCTTGTAAGAAAAAAAAAAGTCTCTTGTAATCAATCA
131 AATGATTGTTACAGACTGTAAAAAGAACTCTTGTAAGAAAAAAAAAAGTCTCTTGTAATCAATCA
4580443 CTTTGTTTTTACATAATGTAATCAAAGGCTAGTTTTTCAATCAATTATTGTATACCAAGATTCAC
196 CTTTGTTTTTACATAATGTAATCAAAGGCTAGTTTTTCAATCAATTATTGTATACCAAGATTCAC
4580508 AAAAGAGTC
261 AAAAGAGTC
4580517 AGATAGATGGCTTCAAATCGTTAATGACGGAGGATTAAGCAGTGCTAATGAAGGTGTTATCACTG
1 AGATAGATGGCTTCAAATCGTTAATGACGGAGGATTAAGCAGTGCTAATGAAGGTGTTATCACTG
4580582 TGAAAGATGATTCCCAAGTGTAATGATTTTAGCAATGGAAGCCTGGTTCTTACCAGATTTCATGG
66 TGAAAGATGATTCCCAAGTGTAATGATTTTAGCAATGGAAGCCTGGTTCTTACCAGATTTCATGG
4580647 AATGATTGTTACAGACTGTAAAAAGAACTCTTGTAAGAAAAAAAAAAGTCTCTTGTAATCAATCA
131 AATGATTGTTACAGACTGTAAAAAGAACTCTTGTAAGAAAAAAAAAAGTCTCTTGTAATCAATCA
4580712 CTTTGTTTTTACATAATGTAATCAAAGGCTAGTTTTTCAATCAATTATTGTATACCAAGATTCAC
196 CTTTGTTTTTACATAATGTAATCAAAGGCTAGTTTTTCAATCAATTATTGTATACCAAGATTCAC
4580777 AAAAGAGTC
261 AAAAGAGTC
4580786 TAATATATTA
Statistics
Matches: 269, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
269 269 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (269 bp):
AGATAGATGGCTTCAAATCGTTAATGACGGAGGATTAAGCAGTGCTAATGAAGGTGTTATCACTG
TGAAAGATGATTCCCAAGTGTAATGATTTTAGCAATGGAAGCCTGGTTCTTACCAGATTTCATGG
AATGATTGTTACAGACTGTAAAAAGAACTCTTGTAAGAAAAAAAAAAGTCTCTTGTAATCAATCA
CTTTGTTTTTACATAATGTAATCAAAGGCTAGTTTTTCAATCAATTATTGTATACCAAGATTCAC
AAAAGAGTC
Found at i:4594781 original size:30 final size:28
Alignment explanation
Indices: 4594737--4594802 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
4594727 TTTTTGATGC
* *
4594737 ATTTTATAATTTTTT-TTCTAATTTTAATA
1 ATTTT-TAATTTTTTATT-AAAATTTAATA
4594766 TATTTTTAATATTTTTATTAAAATTTAATA
1 -ATTTTTAAT-TTTTTATTAAAATTTAATA
4594796 ATTTTTA
1 ATTTTTA
4594803 TAGCTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 11 0.34
30 19 0.59
31 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTTAATTTTTTATTAAAATTTAATA
Found at i:4595032 original size:88 final size:91
Alignment explanation
Indices: 4594929--4595135 Score: 262
Period size: 88 Copynumber: 2.3 Consensus size: 91
4594919 CAAAGAGCTT
* * * *
4594929 TTTTTTATGCATTTTGACAGTTCAAGTA-TTCCATTGAGTGCAGAAAAAAAA-AACAACGGCTTA
1 TTTTTAATACATTTTGACAGTTCAAGTACTT-AATTAAGTGCA-AAAAAAAAGAACAACGGCTTA
*
4594992 A-T-TTTTTTTAAAAA-GTTTGAAGGTC
64 ATTCTTTTTTTAAAAACGTTTGAAGGCC
* *
4595017 TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAGAGCAAGGGCTTAAT
1 TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAGAACAACGGCTTAAT
*
4595082 TGCTTTTTTTAAAAACGTTTGAGGGCC
66 T-CTTTTTTTAAAAACGTTTGAAGGCC
* *
4595109 TTTTTGATACATTTTGAAAGTTCAAGT
1 TTTTTAATACATTTTGACAGTTCAAGT
4595136 GCCCAATTGA
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
87 8 0.08
88 46 0.45
89 3 0.03
91 12 0.12
92 34 0.33
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (91 bp):
TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAGAACAACGGCTTAAT
TCTTTTTTTAAAAACGTTTGAAGGCC
Found at i:4595149 original size:92 final size:87
Alignment explanation
Indices: 4594929--4595152 Score: 261
Period size: 92 Copynumber: 2.5 Consensus size: 87
4594919 CAAAGAGCTT
* * *
4594929 TTTTTTATGCATTTTGACAGTTCAAGTATTCC-ATTGAGTGCAGAAAAAAAAAACAACGGCTTAA
1 TTTTTAATACATTTTGACAGTTCAAGTA-CCCAATTGAGTGCA-AAAAAAAAAACAACGGCTTAA
*
4594993 TTTTTTTTAAAAAGTTTGAAGGTC
64 TTTTTTTTAAAAAGTTTGAAGGCC
** * * *
4595017 TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAGAGCAAGGGCTTAAT
1 TTTTTAATACATTTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAAAA-AACAACGGCTTAA-
*
4595082 TGCTTTTTTTAAAAACGTTTGAGGGCC
64 T--TTTTTTTAAAAA-GTTTGAAGGCC
* * *
4595109 TTTTTGATACATTTTGAAAGTTCAAGTGCCCAATTGAGTGCAAA
1 TTTTTAATACATTTTGACAGTTCAAGTACCCAATTGAGTGCAAA
4595153 GAGAGAGAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
87 8 0.07
88 46 0.40
89 1 0.01
91 12 0.11
92 47 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (87 bp):
TTTTTAATACATTTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAACAACGGCTTAATT
TTTTTTAAAAAGTTTGAAGGCC
Found at i:4595159 original size:2 final size:2
Alignment explanation
Indices: 4595152--4595182 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
4595142 TTGAGTGCAA
4595152 AG AG AG AG AG AG AG AG AG AG AG AG AG TAG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG
4595183 GCTTAATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:4597350 original size:23 final size:23
Alignment explanation
Indices: 4597305--4597351 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4597295 TTTCATTATT
* *
4597305 TTAGTTTAATTGAAATTTCATAG
1 TTAGCTTAATTGAAATTTAATAG
* *
4597328 TTAGCTTAATTTAATTTTAATAG
1 TTAGCTTAATTGAAATTTAATAG
4597351 T
1 T
4597352 AATTAGAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
TTAGCTTAATTGAAATTTAATAG
Found at i:4604966 original size:43 final size:43
Alignment explanation
Indices: 4604918--4605007 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
4604908 GGACTTAGGC
4604918 TTTTCTTGGTAGACTGGAAAGAAAACTGAAAGGATGGAAAACA
1 TTTTCTTGGTAGACTGGAAAGAAAACTGAAAGGATGGAAAACA
4604961 TTTTCTTGGTAGACTGGAAAGAAAACTGAAAGGATGGAAAACA
1 TTTTCTTGGTAGACTGGAAAGAAAACTGAAAGGATGGAAAACA
4605004 TTTT
1 TTTT
4605008 TTTTTTCTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (43 bp):
TTTTCTTGGTAGACTGGAAAGAAAACTGAAAGGATGGAAAACA
Found at i:4608413 original size:15 final size:14
Alignment explanation
Indices: 4608384--4608433 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
4608374 TATTTTTATT
4608384 TTTTAAATT--ATA
1 TTTTAAATTAAATA
4608396 TTTTGAAATTAAATA
1 TTTT-AAATTAAATA
*
4608411 TTTTATATTAAATTA
1 TTTTAAATTAAA-TA
*
4608426 TTTCAAAT
1 TTTTAAAT
4608434 ATTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 5 0.16
14 7 0.23
15 15 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTTAAATTAAATA
Found at i:4613243 original size:3 final size:3
Alignment explanation
Indices: 4613235--4613267 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
4613225 GTAAGCAGAC
4613235 AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
4613268 CCCAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4619329 original size:2 final size:2
Alignment explanation
Indices: 4619322--4619347 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4619312 CACAAGCTTC
4619322 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
4619348 GAAAAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4633232 original size:18 final size:18
Alignment explanation
Indices: 4633209--4633243 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4633199 TAATATTCTG
4633209 TTAAAAA-AAACAATAAAT
1 TTAAAAAGAAA-AATAAAT
4633227 TTAAAAAGAAAAATAAA
1 TTAAAAAGAAAAATAAA
4633244 AAATGGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
TTAAAAAGAAAAATAAAT
Found at i:4649851 original size:24 final size:25
Alignment explanation
Indices: 4649799--4649845 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4649789 TATCCCTCTT
* *
4649799 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
4649824 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
4649846 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:4649949 original size:26 final size:26
Alignment explanation
Indices: 4649920--4649988 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
4649910 CCCAATATAT
*
4649920 GGCTCTTCGTGAGCTTTCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* **
4649946 GGCTCTTTGTGAGCTTCCCGATTAGT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
4649972 GGCTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
4649989 TGATATGGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 8 0.22
26 29 0.78
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.33
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:4650105 original size:24 final size:25
Alignment explanation
Indices: 4650078--4650140 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
4650068 GGCTCGCATG
*
4650078 AGCTTCCCGATTAT-GGCTCTA-ATA
1 AGCTTTCCGATTATAGGC-CTAGATA
4650102 AGCTTTCCG-TTATACGGCCTAGATA
1 AGCTTTCCGATTATA-GGCCTAGATA
4650127 AGCTTTCC-ATTATA
1 AGCTTTCCGATTATA
4650141 TGGCTCACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.12
24 11 0.32
25 19 0.56
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (25 bp):
AGCTTTCCGATTATAGGCCTAGATA
Found at i:4650155 original size:25 final size:26
Alignment explanation
Indices: 4650089--4650156 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
4650079 GCTTCCCGAT
*
4650089 TATGGCTCTA-ATAAGCTTTCCGTTA
1 TATGGCTCTACATAAGCTTTCCATTA
* *
4650114 TACGGC-CTAGATAAGCTTTCCATTA
1 TATGGCTCTACATAAGCTTTCCATTA
*
4650139 TATGGCTC-ACATGAGCTT
1 TATGGCTCTACATAAGCTT
4650157 CCTGTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.08
25 32 0.89
26 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (26 bp):
TATGGCTCTACATAAGCTTTCCATTA
Found at i:4653925 original size:51 final size:51
Alignment explanation
Indices: 4653848--4654221 Score: 583
Period size: 51 Copynumber: 7.4 Consensus size: 51
4653838 CGGATCACAT
*
4653848 TTATCACTTGTCACTTATTACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
4653899 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4653949 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4654000 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4654051 TTATCACTTGTAACTTATCACTAATTAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4654101 TTATCACTTGTCACTTCTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
4654152 TTATCATTTGTCACTTATCATTGATAACATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4654202 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
4654222 GAAGTACTCA
Statistics
Matches: 298, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
50 118 0.40
51 180 0.60
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:4653957 original size:101 final size:101
Alignment explanation
Indices: 4653848--4654221 Score: 579
Period size: 101 Copynumber: 3.7 Consensus size: 101
4653838 CGGATCACAT
*
4653848 TTATCACTTGTCACTTATTACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
* *
4653913 TTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
65 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4653949 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
*
4654014 TTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
65 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4654051 TTATCACTTGTAACTTATCACTAATTAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
*
4654116 TCTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
4654152 TTATCATTTGTCACTTATCATTGATAACATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
*
4654217 GATCA
66 TATCA
4654222 GAAGTACTCA
Statistics
Matches: 249, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 202 0.81
102 47 0.19
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (101 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
TATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:4654023 original size:152 final size:152
Alignment explanation
Indices: 4653848--4654221 Score: 597
Period size: 152 Copynumber: 2.5 Consensus size: 152
4653838 CGGATCACAT
*
4653848 TTATCACTTGTCACTTATTACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* * * *
4653913 TTGTCACCGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGA
66 TTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACTTCTCACTGATCAGA
4653978 TAAGTGCAACTAAAGCTACCAC
131 TAAGTGCAACTAAAGCTACCAC
* *
4654000 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGTAAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
* *
4654065 TTATCACTAATTAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACTTCTCACTGATCAGA
66 TTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACTTCTCACTGATCAGA
* *
4654130 TAAGTGTAGCTAAAGCTACCAC
131 TAAGTGCAACTAAAGCTACCAC
* * * *
4654152 TTATCATTTGTCACTTATCATTGATAACATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
*
4654216 TGATCA
66 TTATCA
4654222 GAAGTACTCA
Statistics
Matches: 204, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
151 25 0.12
152 179 0.88
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (152 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
TTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACTTCTCACTGATCAGA
TAAGTGCAACTAAAGCTACCAC
Found at i:4654317 original size:17 final size:17
Alignment explanation
Indices: 4654295--4654327 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4654285 TATTCTCAAT
4654295 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
4654312 TCATCATACAATATAT
1 TCATCATACAATATAT
4654328 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:4666939 original size:20 final size:20
Alignment explanation
Indices: 4666914--4666956 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4666904 AAATTTACAA
*
4666914 AAAAAAAAACAAGCAAATAG
1 AAAAAAAAACAAGAAAATAG
* *
4666934 AAAAAAGAAGAAGAAAATAG
1 AAAAAAAAACAAGAAAATAG
4666954 AAA
1 AAA
4666957 GTGGAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAAAAAACAAGAAAATAG
Found at i:4668529 original size:83 final size:84
Alignment explanation
Indices: 4668433--4668648 Score: 326
Period size: 83 Copynumber: 2.6 Consensus size: 84
4668423 CATATGAAAT
* * *
4668433 ATTTAGTGTCAATTTACAATATAATATTAAAGATATTGAAGTTAATTACGTAGTTCAGAAAAGCA
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCAGAAAAGCA
*
4668498 TTCTA-GTTTGAAAAAACA
66 TTCTACGTTTCAAAAAACA
* * *
4668516 ATTTAGTGTCAATTTATAATATCATATTAAAAACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCAGAAAAGCA
**
4668581 TTCTACGTTTCAAAAATTA
66 TTCTACGTTTCAAAAAACA
* *
4668600 ATTTAATGTCAATTTATAATATAATATTAAAGACATCGAAGTTAGTTAC
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTAC
4668649 TTAGGGTGGG
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 64 0.54
84 55 0.46
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (84 bp):
ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCAGAAAAGCA
TTCTACGTTTCAAAAAACA
Found at i:4669534 original size:17 final size:17
Alignment explanation
Indices: 4669512--4669544 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4669502 CGCAATTTAT
4669512 ATTTTTTATT-TTTAGAA
1 ATTTTTT-TTATTTAGAA
4669529 ATTTTTTTTATTTAGA
1 ATTTTTTTTATTTAGA
4669545 GTTGCACGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
ATTTTTTTTATTTAGAA
Found at i:4676385 original size:80 final size:79
Alignment explanation
Indices: 4676252--4676401 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 79
4676242 CCAAAAATTG
* *
4676252 ATTTGATCACAGCCTTCTACTACTTGCGTCCCAGTTAGCATTGATATTGGTACAACTTTTTGAGA
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAAC-TTTTGAGA
4676317 TTAAAAGTTGTGTTA
65 TTAAAAGTTGTGTTA
* *
4676332 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGTATTGATTTTGGTACAACTTTTGAGAT
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAACTTTTGAGAT
4676397 TAAAA
66 TAAAA
4676402 CAATGCTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 14 0.21
80 52 0.79
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (79 bp):
ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAACTTTTGAGAT
TAAAAGTTGTGTTA
Found at i:4681701 original size:20 final size:21
Alignment explanation
Indices: 4681664--4681705 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4681654 CGATTATGCA
4681664 AAAAAATTTACTGTTTTTTTT
1 AAAAAATTTACTGTTTTTTTT
4681685 AAAAAATTT-CTTGTTTTTTTT
1 AAAAAATTTAC-TGTTTTTTTT
4681706 CACTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
AAAAAATTTACTGTTTTTTTT
Found at i:4693778 original size:14 final size:15
Alignment explanation
Indices: 4693759--4693787 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4693749 AGGTAGTTCT
4693759 TATATAAA-TAAAAA
1 TATATAAACTAAAAA
4693773 TATATAAACTAAAAA
1 TATATAAACTAAAAA
4693788 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TATATAAACTAAAAA
Found at i:4695559 original size:6 final size:6
Alignment explanation
Indices: 4695548--4695572 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4695538 TCTCACACAG
4695548 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
4695573 CACAAAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:4709643 original size:57 final size:56
Alignment explanation
Indices: 4709508--4709658 Score: 178
Period size: 57 Copynumber: 2.7 Consensus size: 56
4709498 ATTACGTAGG
* * * *
4709508 AATCAAATTGCTAAAAGATAATATCTCATAATAATATCGTATAATATCATATTAGG
1 AATCAAATTGCTAAAAGATAATATCACATAATAATATCGTATAACATCATAATAGA
* * * * * *
4709564 AATTAAATTGTTAAAAAAATAATATCCCATTATAATATCTTATAACATCCCATAAT-GA
1 AATCAAATTGCT-AAAAGATAATATCACATAATAATATCGTATAACAT--CATAATAGA
4709622 AATCAAATTGCTAAAAGATAATATCACATAATAATAT
1 AATCAAATTGCTAAAAGATAATATCACATAATAATAT
4709659 ATTTTATCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
56 10 0.13
57 52 0.67
58 11 0.14
59 5 0.06
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (56 bp):
AATCAAATTGCTAAAAGATAATATCACATAATAATATCGTATAACATCATAATAGA
Found at i:4710238 original size:23 final size:21
Alignment explanation
Indices: 4710159--4710238 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
4710149 TTCATTATTT
* *
4710159 TATTTTCATTCACTTTTAAAA
1 TATTTTAATTCAATTTTAAAA
* * ** * *
4710180 AATATTGCTTAAATTTTAAAG
1 TATTTTAATTCAATTTTAAAA
*
4710201 TATTTTAATTTAATTCTTAAAA
1 TATTTTAATTCAATT-TTAAAA
*
4710223 TATTTTTATATCAATT
1 TATTTTAAT-TCAATT
4710239 AAGTCCTTCC
Statistics
Matches: 42, Mismatches: 15, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
21 24 0.57
22 13 0.31
23 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTTTAATTCAATTTTAAAA
Found at i:4710834 original size:2 final size:2
Alignment explanation
Indices: 4710829--4710855 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4710819 TTTCCTTCCC
4710829 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
4710856 GTTCCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4711315 original size:17 final size:18
Alignment explanation
Indices: 4711281--4711318 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4711271 CTGGTTAGAG
* *
4711281 TTTTAGCCATCTTTTCTT
1 TTTTAACCATCTTCTCTT
4711299 TTTTAACCATC-TCTCTT
1 TTTTAACCATCTTCTCTT
4711316 TTT
1 TTT
4711319 GATTCTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.24, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAACCATCTTCTCTT
Found at i:4714801 original size:166 final size:165
Alignment explanation
Indices: 4714477--4714785 Score: 417
Period size: 166 Copynumber: 1.9 Consensus size: 165
4714467 AAGAAAATTC
*
4714477 TTTTATAAACGATTTTTACTATTAGTTTATAAGTGTCATTATGAAAACAAAGTTGTTTTAGTACT
1 TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
* * * *
4714542 AATAGCCAGGGTAATGACAATGTTATAAATATTTTGGTATGTTTTACTGTGATTTATTTTATTAT
66 AATAGCCAGGGTAATAACAATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTATTAT
***
4714607 AGCATGTTTATTATAGTGGGAAAAAATATTTGATTG
131 A-CATGGAGATTATAGTGGGAAAAAATATTTGATTG
* * * *
4714643 TTTTATAAATGGTTTTTACTATTAGTTTATAAATGTTATTATGAAAGCAAAGTTGTTTTAGTACT
1 TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
* * *
4714708 AATAG-CAGGGTGATAACGATGATGTTA-AAATCTTTAGGTATATTTTATTATGATTTATTTTAT
66 AATAGCCAGGGTAATAAC-A--ATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTAT
4714771 TATA-ATTGGAGATTA
128 TATACA-TGGAGATTA
4714786 ATCATGGCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
165 11 0.09
166 72 0.58
167 35 0.28
168 6 0.05
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (165 bp):
TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
AATAGCCAGGGTAATAACAATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTATTAT
ACATGGAGATTATAGTGGGAAAAAATATTTGATTG
Found at i:4731756 original size:14 final size:15
Alignment explanation
Indices: 4731728--4731757 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4731718 CACATATGAA
4731728 ACTTCTATGTATTTC
1 ACTTCTATGTATTTC
4731743 ACTTCTAT-TATTTC
1 ACTTCTATGTATTTC
4731757 A
1 A
4731758 TCCACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.53
Consensus pattern (15 bp):
ACTTCTATGTATTTC
Found at i:4732516 original size:22 final size:21
Alignment explanation
Indices: 4732491--4732531 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4732481 TGTTTACGAA
4732491 TATATAAATATTAATATAAAAT
1 TATATAAATATTAAT-TAAAAT
**
4732513 TATATATTTATTAATTAAA
1 TATATAAATATTAATTAAA
4732532 GGCTTAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAAATATTAATTAAAAT
Found at i:4732552 original size:23 final size:23
Alignment explanation
Indices: 4732520--4732572 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4732510 AATTATATAT
* **
4732520 TTATTAATTAAAGGCTTAATTGA
1 TTATTTATTAAAAACTTAATTGA
*
4732543 TTATTTATTAAAAATTTAATTGA
1 TTATTTATTAAAAACTTAATTGA
*
4732566 TTTTTTA
1 TTATTTA
4732573 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (23 bp):
TTATTTATTAAAAACTTAATTGA
Found at i:4735977 original size:8 final size:8
Alignment explanation
Indices: 4735961--4736023 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 8
4735951 TTAAGCTATT
4735961 ATATAATA
1 ATATAATA
*
4735969 ATATGATA
1 ATATAATA
*
4735977 AGTAGCAATA
1 A-TA-TAATA
4735987 ATATAAGTA
1 ATATAA-TA
4735996 ATAATAATA
1 AT-ATAATA
4736005 ATAGTAATA
1 ATA-TAATA
4736014 ATA-AATA
1 ATATAATA
4736021 ATA
1 ATA
4736024 AAAGATGATA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.15
8 11 0.24
9 20 0.43
10 8 0.17
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (8 bp):
ATATAATA
Found at i:4735989 original size:3 final size:3
Alignment explanation
Indices: 4735983--4736024 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
4735973 GATAAGTAGC
*
4735983 AAT AAT -AT AAGT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
4736025 AAGATGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4736001 original size:15 final size:15
Alignment explanation
Indices: 4735964--4736021 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
4735954 AGCTATTATA
4735964 TAATAAT-ATGATAAG
1 TAATAATAAT-ATAAG
**
4735979 TAGCAATAATATAAG
1 TAATAATAATATAAG
4735994 TAATAATAATA-ATAG
1 TAATAATAATATA-AG
4736009 TAATAATAA-ATAA
1 TAATAATAATATAA
4736022 TAAAAGATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 3 0.08
15 31 0.86
16 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (15 bp):
TAATAATAATATAAG
Found at i:4737937 original size:87 final size:88
Alignment explanation
Indices: 4737834--4738219 Score: 283
Period size: 87 Copynumber: 4.4 Consensus size: 88
4737824 AGACCTGATG
* * * * * *
4737834 CGATCTACTCTACTGTAACTTCAGAGAGATGAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCACTGTAACTTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
* *
4737898 TCAGGGAGATAGGA-T-AGTGTCTT
65 TCAGGGAGATAAGACTAAAT-TCTT
* * * * *
4737921 GGATCTACTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACC
1 CGATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACC
4737985 TCAGGGAGATAAGATCTAAAATTCTT
65 TCAGGGAGATAAGA-CT-AAATTCTT
* * * ** ** *
4738011 CGATCTACTCCACTGTAACCTCAGAGAGATAAGA-C-CTGA-TGCGATCTACTCTGCTGTAACTT
1 CGATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
** **
4738073 CAAAGAGATAAGATCCTTTATT-TT
66 CAGGGAGATAAGA--CTAAATTCTT
* * * * *
4738097 -AATCTGCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACT-AGCTTCAATCTGCTCCACTGTAA
1 CGATCTACTCCACTGTAACT-TCAGAGAGATAAGATCT-CTGA-CTTCAATCCGCTCCACTGTAA
4738158 CCTCAGGGAGATAAGATCTGAAATTCTT
63 CCTCAGGGAGATAAGA-CT-AAATTCTT
* * *
4738186 CGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
1 CGATCTACTCCACTGTAACTTCAGAGAGATAAGA
4738220 CCTGATGCGA
Statistics
Matches: 231, Mismatches: 50, Indels: 33
0.74 0.16 0.11
Matches are distributed among these distances:
85 27 0.12
86 4 0.02
87 97 0.42
88 37 0.16
89 4 0.02
90 60 0.26
91 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (88 bp):
CGATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAAGACTAAATTCTT
Found at i:4738058 original size:131 final size:131
Alignment explanation
Indices: 4737759--4738404 Score: 446
Period size: 131 Copynumber: 5.0 Consensus size: 131
4737749 TTTTAATCCG
* * * * ** *
4737759 CTCCGCTGTAATCTCAGGGAGATAAGACCTG-ATACGATCTACTCTACTGTAA-CTTCAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGAACTGAATGCGATCTACTCCGCTGTAATC-TCAAAGAGA
* * * * * * * * **
4737822 TAAGA-CCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCT-TTATT-TT-AAT
65 TAAGATCCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTAAAATTCTTCAAT
**
4737882 CCG
129 CTA
* * * ** **
4737885 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTG-GATCTACTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGA-ACTG-AATGCGATCTACTCCGCTGTAATCTCAAAGAG
*
4737949 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGA
64 ATAAGATC-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCAA
4738014 TCTA
128 TCTA
* * *
4738018 CTCCACTGTAACCTCAGAGAGATAAGACCTG-ATGCGATCTACTCTGCTGTAA-CTTCAAAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGAACTGAATGCGATCTACTCCGCTGTAATC-TCAAAGAGA
*** * * * ** *
4738081 TAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-GCTTCAAT
65 TAAGATCC-TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCAAT
*
4738144 CTG
129 CTA
* * * * * **
4738147 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGAACTG-AA---TGCGATCTACTCCGCTGTAATCTCAAAG
* * * * * * * * **
4738212 AGATAAGA-CCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCT-TTATT-TT-
62 AGATAAGATCCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTAAAATTCTTC
**
4738272 AATCCG
126 AATCTA
* * * **
4738278 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTG-GATCTACTCCGCTGTAATCTCAAAGAG
1 CTCCACTGTAACCTCAGGGAGATAAGA-ACTG-AATGCGATCTACTCCGCTGTAATCTCAAAGAG
*
4738342 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTC
64 ATAAGATC-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTC
4738405 GGTCTATTCC
Statistics
Matches: 401, Mismatches: 90, Indels: 51
0.74 0.17 0.09
Matches are distributed among these distances:
126 23 0.06
127 2 0.00
128 56 0.14
129 42 0.10
130 15 0.04
131 191 0.48
132 13 0.03
133 30 0.07
134 28 0.07
135 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (131 bp):
CTCCACTGTAACCTCAGGGAGATAAGAACTGAATGCGATCTACTCCGCTGTAATCTCAAAGAGAT
AAGATCCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCAATCT
A
Found at i:4738089 original size:218 final size:219
Alignment explanation
Indices: 4737793--4738219 Score: 628
Period size: 218 Copynumber: 1.9 Consensus size: 219
4737783 AGACCTGATA
* * *
4737793 CGATCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAG
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAA
* *
4737858 AGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGT-GTCT
66 AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATTACTAG-CT
** * * * *
4737920 TGGATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAAC
129 TCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTAAT-GCTTCAATCTACTCCACTGTAAC
4737984 CTCAGGGAGATAAGATCTAAAATTCTT
193 CTCAGGGAGATAAGATCTAAAATTCTT
*
4738011 CGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAA
1 CGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAA
*
4738076 AGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
66 AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * **
4738141 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
131 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCT--AATGCTTCAATCTACTCCACTGTAACC
4738206 TCAGGGAGATAAGA
194 TCAGGGAGATAAGA
4738220 CCTGATGCGA
Statistics
Matches: 186, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
218 111 0.60
219 39 0.21
220 1 0.01
221 34 0.18
222 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (219 bp):
CGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAA
AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTAATGCTTCAATCTACTCCACTGTAACCTC
AGGGAGATAAGATCTAAAATTCTT
Found at i:4738144 original size:175 final size:172
Alignment explanation
Indices: 4737644--4738396 Score: 777
Period size: 175 Copynumber: 4.4 Consensus size: 172
4737634 TCTCTACCTT
* * *
4737644 GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGATGC
1 GGGAGATAAGATCT-AAATTCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC
* * *
4737709 GATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCGCTGTAATCTC
65 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * * * * *
4737774 AGGGAGATAAGA-CCTGATACGATCTACTCTACTGTAACTTCA
130 AGGGAGATAAGATACTGCTTCAATCTACTCCACTGTAACCTCA
* * * * * * * *
4737816 GAGAGATAAGACCT-GA---TGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATT
1 GGGAGATAAGATCTAAATTCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGA-CC-TGA-T
*** ** * * * ** * * ** ** *
4737877 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTGGATCTACTCCGCTGTAATC
63 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
* *
4737941 TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
128 TCAGGGAGATAAGAT-ACT-GCTTCAATCTACTCCACTGTAACCTCA
4737988 GGGAGATAAGATCTAAAATTCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC
1 GGGAGATAAGATCT-AAATTCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC
* * *
4738053 GATCTACTCTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTC
65 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* *
4738118 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAACCTCA
130 AGGGAGATAAGA-TACT-GCTTCAATCTACTCCACTGTAACCTCA
* *
4738163 GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGC
1 GGGAGATAAGATCT-AAATTCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC
*
4738228 GATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTT
65 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-T
* * ** * *
4738292 CAGGGAGATAGGATAGTGTCTTGGATCTACTCCGCTGTAATCTCA
129 CAGGGAGATAAGATACTG-CTTCAATCTACTCCACTGTAACCTCA
** * * * * * *
4738337 AAGAGATAAGATCT--CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 GGGAGATAAGATCTAAAT-TCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGA
4738397 AATTCTTCGG
Statistics
Matches: 479, Mismatches: 86, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
167 29 0.06
168 2 0.00
169 34 0.07
170 30 0.06
171 3 0.01
172 83 0.17
173 1 0.00
174 67 0.14
175 195 0.41
176 3 0.01
177 32 0.07
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (172 bp):
GGGAGATAAGATCTAAATTCTTCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
GGGAGATAAGATACTGCTTCAATCTACTCCACTGTAACCTCA
Found at i:4738322 original size:87 final size:86
Alignment explanation
Indices: 4737923--4738388 Score: 316
Period size: 87 Copynumber: 5.3 Consensus size: 86
4737913 AGTGTCTTGG
* * * * * ** * *
4737923 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAGGAT-ACT-GCTTGGATCTACTCCACTGTAACTTCA
** *** *
4737988 GGGAGATAAGATCTAAAATTCTTCG
64 AAGAGATAAGATCTCTTATT-TT-A
* * * * * **
4738013 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACTTCAA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAGGATACTGCTTG-GATCTACTCCACTGTAACTTCAA
4738076 AGAGATAAGATC-CTTTATTTTA
65 AGAGATAAGATCTC-TTATTTTA
* ** * *
4738098 ATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAGGA-TACT-GCTTGGATCTACTCCACTGTAACTTCA
** *** *
4738163 GGGAGATAAGATCTGAAATTCTTCG
64 AAGAGATAAGATCTCTTATT-TT-A
* * * * * * *
4738188 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTACTGTAACTTCAG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAGGATACTGCTTG-GATCTACTCCACTGTAACTTCAA
*
4738251 AGAGATGAGATC-CTTTATTTTA
65 AGAGATAAGATCTC-TTATTTTA
* * * *
4738273 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTACTCCGCTGTAA-TCTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAGGATACTG-CTTGGATCTACTCCACTGTAACT-TCA
*** *
4738337 AAGAGATAAGATCTCTGGCTTCA
64 AAGAGATAAGATCTCTTATTTTA
4738360 ATCTGCTCCACTGTAACCTCAGGGAGATA
1 ATCTGCTCCACTGTAACCTCAGGGAGATA
4738389 AGATCTGAAA
Statistics
Matches: 290, Mismatches: 70, Indels: 35
0.73 0.18 0.09
Matches are distributed among these distances:
85 55 0.19
86 9 0.03
87 127 0.44
88 39 0.13
89 3 0.01
90 57 0.20
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (86 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAGGATACTGCTTGGATCTACTCCACTGTAACTTCAAA
GAGATAAGATCTCTTATTTTA
Found at i:4738394 original size:44 final size:43
Alignment explanation
Indices: 4737670--4738394 Score: 360
Period size: 44 Copynumber: 16.8 Consensus size: 43
4737660 AATTCTTCGG
* * * * * *
4737670 TCTATTCCACTGTAATCTCAGAGAGATAAGA-C-CTGATGCGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCAA
** * * * * ** *
4737711 TCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTCTGCTTCAA
** * * * * *
4737755 TCCGCTCCGCTGTAATCTCAGGGAGATAAGA-C-CTGATACGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCAA
* * * * * *
4737796 TCTACTCTACTGTAACTTCAGAGAGATAAGA-C-CTGATGCGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCAA
* * * * * ** *
4737837 TCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTCTGCTTCAA
** * * ** **
4737881 TCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTGGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTG-CTTCAA
* *
4737924 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCT-GCTTCAA
* * * *
4737968 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCT---CTGCTTCAA
* * * *
4738014 TCTACTCCACTGTAACCTCAGAGAGATAAGA-C-CTGATGCGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCAA
** * ** * ** *
4738055 TCTACTCTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTCTGCTTCAA
* * *
4738099 TCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCT-CT-GCTTCAA
* * * **
4738143 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCT---CTGCTTCAA
* * *
4738189 TCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGATGCGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCAA
* * * * * ** *
4738230 TCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTCTGCTTCAA
** * * ** **
4738274 TCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTGGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTG-CTTCAA
* * **
4738317 TCTACTCCGCTGTAATCTCAAAGAGATAAGATCTCTGGCTTCAA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCT-GCTTCAA
*
4738361 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATCT
4738395 GAAATTCTTC
Statistics
Matches: 511, Mismatches: 147, Indels: 49
0.72 0.21 0.07
Matches are distributed among these distances:
41 154 0.30
42 4 0.01
43 61 0.12
44 216 0.42
45 5 0.01
46 68 0.13
47 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
TCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCAA
Found at i:4739155 original size:22 final size:22
Alignment explanation
Indices: 4739127--4739171 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4739117 ATTTTTATTA
4739127 GTCCATTAATCATTATTCCAAT
1 GTCCATTAATCATTATTCCAAT
4739149 GTCCATTAATCATTATTCCAAT
1 GTCCATTAATCATTATTCCAAT
4739171 G
1 G
4739172 CAACATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (22 bp):
GTCCATTAATCATTATTCCAAT
Found at i:4739679 original size:7 final size:7
Alignment explanation
Indices: 4739661--4739705 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
4739651 TAGCCTCTCA
4739661 ATTTTTC
1 ATTTTTC
4739668 A-TTTTC
1 ATTTTTC
4739674 ATTTTTC
1 ATTTTTC
4739681 ATTTTTC
1 ATTTTTC
*
4739688 A-TTCTC
1 ATTTTTC
4739694 ATTTTTC
1 ATTTTTC
4739701 ATTTT
1 ATTTT
4739706 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.32
7 23 0.68
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTC
Found at i:4739684 original size:20 final size:20
Alignment explanation
Indices: 4739661--4739705 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4739651 TAGCCTCTCA
*
4739661 ATTTTTCATTTTCATTTTTC
1 ATTTTTCATTCTCATTTTTC
4739681 ATTTTTCATTCTCATTTTTC
1 ATTTTTCATTCTCATTTTTC
4739701 ATTTT
1 ATTTT
4739706 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTCATTCTCATTTTTC
Found at i:4739712 original size:13 final size:13
Alignment explanation
Indices: 4739663--4739711 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
4739653 GCCTCTCAAT
4739663 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
4739675 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
4739689 TTCTCATTTTTCA
1 TTTTCATTTTTCA
4739702 TTTTC-TTTTT
1 TTTTCATTTTT
4739712 TTTTTTGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 5 0.15
13 22 0.67
14 6 0.18
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:4740142 original size:29 final size:29
Alignment explanation
Indices: 4740109--4740167 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4740099 ACTTGGAGAG
4740109 AAAGGATTTCAATAGGTAAAACTACCTAA
1 AAAGGATTTCAATAGGTAAAACTACCTAA
4740138 AAAGGATTTCAATAGGTAAAACTACCTAA
1 AAAGGATTTCAATAGGTAAAACTACCTAA
4740167 A
1 A
4740168 CCCCGCAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AAAGGATTTCAATAGGTAAAACTACCTAA
Found at i:4740743 original size:23 final size:23
Alignment explanation
Indices: 4740696--4740766 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
4740686 TTGATCTTGA
* *
4740696 TTTTGATTTTTTCTTCTTTCTTTTT
1 TTTTGATTTTTT-TTCATT-TTTAT
4740721 TTTTG--TTTTTTT-ATTTTTAT
1 TTTTGATTTTTTTTCATTTTTAT
4740741 TTTTGATTTTTTTTCATTTTTAT
1 TTTTGATTTTTTTTCATTTTTAT
4740764 TTT
1 TTT
4740767 CATTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 9 0.22
21 2 0.05
22 9 0.22
23 16 0.39
25 5 0.12
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTGATTTTTTTTCATTTTTAT
Found at i:4740760 original size:7 final size:6
Alignment explanation
Indices: 4740728--4740797 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
4740718 TTTTTTTGTT
* *
4740728 TTTTTA TTTTTA TTTTTGA -TTTT- TTTTCA TTTTTA TTTTCA TTTTTA
1 TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * *
4740775 TTTTGA CTTTGA TTTTGA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTT
4740798 CTGTTATTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
5 3 0.06
6 49 0.92
7 1 0.02
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:4740773 original size:23 final size:22
Alignment explanation
Indices: 4740695--4740797 Score: 84
Period size: 22 Copynumber: 4.5 Consensus size: 22
4740685 TTTGATCTTG
* *
4740695 ATTTTGATTTTTTCTTCTTTCTT
1 ATTTTGATTTTTTTTTATTT-TT
*
4740718 -TTTT-TTTGTTTTTTTATTTTT
1 ATTTTGATT-TTTTTTTATTTTT
*
4740739 ATTTTTGATTTTTTTTCATTTTT
1 A-TTTTGATTTTTTTTTATTTTT
* * *
4740762 ATTTTCATTTTTATTTTGACTTTG
1 ATTTTGATTTTT-TTTT-ATTTTT
4740786 ATTTTGATTTTT
1 ATTTTGATTTTT
4740798 CTGTTATTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
21 4 0.06
22 23 0.36
23 20 0.31
24 17 0.27
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.77
Consensus pattern (22 bp):
ATTTTGATTTTTTTTTATTTTT
Found at i:4742626 original size:21 final size:20
Alignment explanation
Indices: 4742602--4742644 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4742592 TGAATCTGCA
4742602 TTCGCTCTAATTTTTCCAACC
1 TTCGCTC-AATTTTTCCAACC
* * *
4742623 TTCGTTCCATTTTTCTAACC
1 TTCGCTCAATTTTTCCAACC
4742643 TT
1 TT
4742645 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.16, C:0.30, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCGCTCAATTTTTCCAACC
Found at i:4745256 original size:17 final size:17
Alignment explanation
Indices: 4745216--4745256 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
4745206 GAGAAAAAAC
4745216 AAAAAAA-AAACAACCG
1 AAAAAAAGAAACAACCG
*
4745232 AAAAAAAGAAACAATCG
1 AAAAAAAGAAACAACCG
*
4745249 TAAAAAAG
1 AAAAAAAG
4745257 GAGTCACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.73, C:0.12, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAAGAAACAACCG
Found at i:4751716 original size:25 final size:27
Alignment explanation
Indices: 4751665--4751717 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
4751655 CAATTAAAAT
*
4751665 TATTATATTATATTATATTATATATATG
1 TATTATATTATA-TATATTATACATATG
*
4751693 TATTAT-TTATA-ATATTTTACATATG
1 TATTATATTATATATATTATACATATG
4751718 GAATATAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
27 5 0.22
28 6 0.26
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
TATTATATTATATATATTATACATATG
Found at i:4751999 original size:20 final size:20
Alignment explanation
Indices: 4751937--4752000 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
4751927 TATAAACGTG
*
4751937 ATAAATTTATAATCTTATTT
1 ATAAACTTATAATCTTATTT
* * **
4751957 ATAAACCTA-ATATTTTAAAT
1 ATAAACTTATA-ATCTTATTT
*
4751977 ATAAAGTTATAATCTTATTT
1 ATAAACTTATAATCTTATTT
4751997 ATAA
1 ATAA
4752001 CTATTTAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAAACTTATAATCTTATTT
Found at i:4756043 original size:21 final size:21
Alignment explanation
Indices: 4756013--4756058 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4756003 GGTGGATCAG
4756013 CTCTCACAAGCTTTTGTTCAA
1 CTCTCACAAGCTTTTGTTCAA
* *
4756034 CTCTCGCAAGCTTTTGTTCAG
1 CTCTCACAAGCTTTTGTTCAA
4756055 CTCT
1 CTCT
4756059 TATGAACTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (21 bp):
CTCTCACAAGCTTTTGTTCAA
Found at i:4759953 original size:17 final size:18
Alignment explanation
Indices: 4759920--4759955 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4759910 TGCTTCCAAG
4759920 AAGCACTTTAGGGACAAA
1 AAGCACTTTAGGGACAAA
*
4759938 AAGCACTTT-TGGACAAA
1 AAGCACTTTAGGGACAAA
4759955 A
1 A
4759956 TCATTCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (18 bp):
AAGCACTTTAGGGACAAA
Found at i:4788824 original size:45 final size:44
Alignment explanation
Indices: 4788708--4788837 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 44
4788698 GCTATATGCC
*
4788708 TAAAATGAGTAAGACCATAATTGAAAGATGTTATGGCATCATGA
1 TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
* **
4788752 TAAGGATGAGTAAGACCATAGCAGAAAGATGTTATGGCATCATGA
1 TAA-AATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
* * * * *
4788797 TATAAATGAGTAGGATCATGGTTGAAAGACGTTATGACATC
1 TA-AAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATC
4788838 CTTTGACAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.94
46 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
Found at i:4788946 original size:81 final size:80
Alignment explanation
Indices: 4788848--4789110 Score: 231
Period size: 81 Copynumber: 3.2 Consensus size: 80
4788838 CTTTGACAGC
* * * * **
4788848 TCGACGGGACGTTAAACACAAGATAATCCAATGAGACATTAAACATGGGATAGCCCGACGAGACA
1 TCGACGAGACATTAAACACGAGATAATCCAATGGGACATTAAACATGGGATAGTTC-ACGAGACA
4788913 TTAAACACGAGATAGT
65 TTAAACACGAGATAGT
* * ** * * * * *
4788929 TCGACGAGACATTAAACATGGGATAGCCCGATGGGACGTTAAACACGGGATAGTTCAACGGGATA
1 TCGACGAGACATTAAACACGAGATAATCCAATGGGACATTAAACATGGGATAGTTC-ACGAGACA
*
4788994 TTAAACACAAGATAGT
65 TTAAACACGAGATAGT
* * * * * * ** **
4789010 TTGATGGGACATTAAACATGAGATATTTCAATGGGACATTAAACATAAGATAGTTCAATAGGACA
1 TCGACGAGACATTAAACACGAGATAATCCAATGGGACATTAAACATGGGATAGTTCACGA-GACA
*
4789075 TTAAACACGAGATATT
65 TTAAACACGAGATAGT
*
4789091 TCAAC-AGGACATTAAACACG
1 TCGACGA-GACATTAAACACG
4789111 GGTTAGTCCG
Statistics
Matches: 140, Mismatches: 40, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
80 1 0.01
81 139 0.99
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (80 bp):
TCGACGAGACATTAAACACGAGATAATCCAATGGGACATTAAACATGGGATAGTTCACGAGACAT
TAAACACGAGATAGT
Found at i:4788991 original size:27 final size:27
Alignment explanation
Indices: 4788851--4789110 Score: 196
Period size: 27 Copynumber: 9.6 Consensus size: 27
4788841 TGACAGCTCG
* * * *
4788851 ACGGGACGTTAAACACAAGATAATCCA
1 ACGGGACATTAAACACGAGATAGTTCA
* * * * ** *
4788878 ATGAGACATTAAACATGGGATAGCCCG
1 ACGGGACATTAAACACGAGATAGTTCA
* *
4788905 ACGAGACATTAAACACGAGATAGTTCG
1 ACGGGACATTAAACACGAGATAGTTCA
* * * ** *
4788932 ACGAGACATTAAACATGGGATAGCCCG
1 ACGGGACATTAAACACGAGATAGTTCA
* * *
4788959 ATGGGACGTTAAACACGGGATAGTTCA
1 ACGGGACATTAAACACGAGATAGTTCA
* * **
4788986 ACGGGATATTAAACACAAGATAGTTTG
1 ACGGGACATTAAACACGAGATAGTTCA
* * *
4789013 ATGGGACATTAAACATGAGATATTTCA
1 ACGGGACATTAAACACGAGATAGTTCA
* **
4789040 ATGGGACATTAAACATAAGATAGTTCA
1 ACGGGACATTAAACACGAGATAGTTCA
** *
4789067 ATAGGACATTAAACACGAGATATTTCA
1 ACGGGACATTAAACACGAGATAGTTCA
*
4789094 ACAGGACATTAAACACG
1 ACGGGACATTAAACACG
4789111 GGTTAGTCCG
Statistics
Matches: 187, Mismatches: 46, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (27 bp):
ACGGGACATTAAACACGAGATAGTTCA
Found at i:4789128 original size:54 final size:54
Alignment explanation
Indices: 4788853--4789120 Score: 248
Period size: 54 Copynumber: 5.0 Consensus size: 54
4788843 ACAGCTCGAC
* * * * * * * *
4788853 GGGACGTTAAACACAAGATAATCCAATGAGACATTAAACATGGGATAGCCCGAC
1 GGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATGGGATAGTCCGAT
* * * *
4788907 GAGACATTAAACACGAGATAGTTCGACGAGACATTAAACATGGGATAGCCCGAT
1 GGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATGGGATAGTCCGAT
* * * *** **
4788961 GGGACGTTAAACACGGGATAGTTCAACGGGATATTAAACACAAGATAGTTTGAT
1 GGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATGGGATAGTCCGAT
* * * ** * *
4789015 GGGACATTAAACATGAGATATTTCAATGGGACATTAAACATAAGATAGTTCAAT
1 GGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATGGGATAGTCCGAT
* * * * *
4789069 AGGACATTAAACACGAGATATTTCAACAGGACATTAAACACGGGTTAGTCCG
1 GGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATGGGATAGTCCG
4789121 CCGGGACACT
Statistics
Matches: 175, Mismatches: 39, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 175 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (54 bp):
GGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATGGGATAGTCCGAT
Found at i:4805973 original size:31 final size:31
Alignment explanation
Indices: 4805935--4805996 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4805925 TGTAAAAAGT
4805935 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
4805966 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
4805997 GGTTGGGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (31 bp):
TCGTGCATGGTGAGTACTAGAGGTGTTCATA
Found at i:4806237 original size:30 final size:30
Alignment explanation
Indices: 4806201--4806261 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
4806191 TTAACAAGCC
4806201 AATGCCTCTAAAATAATAACAAAATTAATA
1 AATGCCTCTAAAATAATAACAAAATTAATA
*
4806231 AATGCCTCTGAAATAATAACAAAATTAATA
1 AATGCCTCTAAAATAATAACAAAATTAATA
4806261 A
1 A
4806262 TAAAACAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAACAAAATTAATA
Found at i:4809655 original size:30 final size:29
Alignment explanation
Indices: 4809587--4809657 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
4809577 ATATGAGCAA
* * *
4809587 TGATGCAATGTTATATATGAATTTTAATT
1 TGATGTAATTTTATACATGAATTTTAATT
* *
4809616 TTATGTAATTTTATACATGAGATTTTGATT
1 TGATGTAATTTTATACATGA-ATTTTAATT
*
4809646 TGATTTAATTTT
1 TGATGTAATTTT
4809658 TGTAAATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (29 bp):
TGATGTAATTTTATACATGAATTTTAATT
Found at i:4809807 original size:31 final size:31
Alignment explanation
Indices: 4809767--4809825 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4809757 AGACATTTTT
4809767 TTTATATGTGTAG-AATTGAATCAAAATCACGG
1 TTTATATGTGT-GTAATTGAAT-AAAATCACGG
*
4809799 TTTA-ATGTGTGTAATTGCATAAAATCA
1 TTTATATGTGTGTAATTGAATAAAATCA
4809826 AAATTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 8 0.32
31 13 0.52
32 4 0.16
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTATATGTGTGTAATTGAATAAAATCACGG
Found at i:4812037 original size:56 final size:52
Alignment explanation
Indices: 4811945--4812098 Score: 172
Period size: 50 Copynumber: 3.0 Consensus size: 52
4811935 TGACATTTGG
* * *
4811945 GTTATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GTTATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCA---A
* *
4811998 GATTATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
1 G-TTATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
** *
4812051 G--ATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACC
1 GTTATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACC
4812099 GATATGAGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
50 42 0.47
53 3 0.03
54 8 0.09
56 36 0.40
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (52 bp):
GTTATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
Found at i:4812056 original size:50 final size:50
Alignment explanation
Indices: 4811954--4812133 Score: 162
Period size: 50 Copynumber: 3.5 Consensus size: 50
4811944 GGTTATGAGA
* * * *
4811954 TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGG
4812010 TCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
*** * * * * **
4812060 TCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * *
4812110 TCTCATATAAAACCATATCTGGGA
1 TCCCATATAAGACCATGTCTGGGA
4812134 TATGAAATTG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 66 0.63
53 2 0.02
56 36 0.35
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
Found at i:4814246 original size:40 final size:39
Alignment explanation
Indices: 4814202--4814287 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
4814192 ACATGTGTCA
* * *
4814202 TATATTACCCCAAGGATCCACGACAAGGGCTGGACCTCAT
1 TATATTACCCCAAGAATCCACAACAA-GGCTAGACCTCAT
*
4814242 TATATTA-CCCAAGAATCCACAACAAGGCTAGATCTCAT
1 TATATTACCCCAAGAATCCACAACAAGGCTAGACCTCAT
4814280 TATATTAC
1 TATATTAC
4814288 TCGAGAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 18 0.44
39 16 0.39
40 7 0.17
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (39 bp):
TATATTACCCCAAGAATCCACAACAAGGCTAGACCTCAT
Found at i:4814295 original size:38 final size:38
Alignment explanation
Indices: 4814202--4814328 Score: 128
Period size: 39 Copynumber: 3.3 Consensus size: 38
4814192 ACATGTGTCA
* * * *
4814202 TATATTACCCCAAGGATCCACGACAAGGGCTGGACCTCAT
1 TATATTA-CCCAAGAATCCACAACAA-GGCTAGATCTCAT
4814242 TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
1 TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
* * *** * *
4814280 TATATTACTCGAGAATCTGTAACAAATGCTAGATCTCGT
1 TATATTACCCAAGAATCCACAAC-AAGGCTAGATCTCAT
4814319 TATATTACCC
1 TATATTACCC
4814329 GATAATTTGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
38 29 0.39
39 38 0.51
40 7 0.09
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (38 bp):
TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
Found at i:4814340 original size:39 final size:39
Alignment explanation
Indices: 4814241--4814361 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 39
4814231 CTGGACCTCA
* *** * *
4814241 TTATATTACCCAAGAATCCACAAC-AAGGCTAGATCTCA
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
*
4814279 TTATATTACTCGAGAATCTGTAACAAATGCTAGATCTCG
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
* * *
4814318 TTATATTACCCGATAATTTGTAACAAATGCTAGATCTTG
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
4814357 TTATA
1 TTATA
4814362 ACATGTGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 19 0.27
39 52 0.73
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (39 bp):
TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
Done.