Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D08
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: 69935236
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1740000 characters in sequence are not A, C, G, or T
File 15 of 223
Found at i:5034420 original size:25 final size:26
Alignment explanation
Indices: 5034392--5034497 Score: 103
Period size: 25 Copynumber: 4.2 Consensus size: 26
5034382 TTGCTTTTAT
*
5034392 GAGCTTCCTGATTA-ATGGCTCGTAG
1 GAGCTTCCTGATTATATGGCTCGTAA
* *
5034417 GAGCTTCCCGA-TATTTGGCTCGTAA
1 GAGCTTCCTGATTATATGGCTCGTAA
* ** *
5034442 GAGCTTCCT-ATTACATGGCTCACAT
1 GAGCTTCCTGATTATATGGCTCGTAA
* *
5034467 GAGCTTCC-CATTATATGGCTCGAAA
1 GAGCTTCCTGATTATATGGCTCGTAA
5034492 GAGCTT
1 GAGCTT
5034498 TTCGATTACA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
24 3 0.05
25 62 0.95
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (26 bp):
GAGCTTCCTGATTATATGGCTCGTAA
Found at i:5034423 original size:50 final size:50
Alignment explanation
Indices: 5034367--5034497 Score: 142
Period size: 50 Copynumber: 2.6 Consensus size: 50
5034357 TATCTCTTAT
** *
5034367 GAGCTTCCCGATACTTT-GCTTTTATGAGCTTCCTGATTA-ATGGCTCGTAG
1 GAGCTTCCCGATA-TTTGGCTCGTAAGAGCTTCCT-ATTACATGGCTCGTAG
** *
5034417 GAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCACAT
1 GAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCGTAG
* *
5034467 GAGCTTCCC-ATTATATGGCTCGAAAGAGCTT
1 GAGCTTCCCGA-TATTTGGCTCGTAAGAGCTT
5034498 TTCGATTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 8 0.11
50 62 0.89
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (50 bp):
GAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCGTAG
Found at i:5034514 original size:50 final size:50
Alignment explanation
Indices: 5034417--5034517 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 50
5034407 TGGCTCGTAG
* * * *
5034417 GAGCTTCCCGATATTTGGCTCGTAAGAGCTTCCTATTACATGGCTCACAT
1 GAGCTTCCCGATATATGGCTCGAAAGAGCTTCCGATTACATGACTCACAT
*
5034467 GAGCTTCCC-ATTATATGGCTCGAAAGAGCTTTTCGATTACAT-ACTCACAT
1 GAGCTTCCCGA-TATATGGCTCGAAAGAGC-TTCCGATTACATGACTCACAT
5034517 G
1 G
5034518 GGCATACCTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
49 1 0.02
50 33 0.75
51 10 0.23
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (50 bp):
GAGCTTCCCGATATATGGCTCGAAAGAGCTTCCGATTACATGACTCACAT
Found at i:5038105 original size:50 final size:50
Alignment explanation
Indices: 5038045--5038144 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
5038035 TTTGATTTGC
5038045 AGGAAATTGTATTGAATTCATATCTTACTAGGGTAGCTTTTGACTTCACT
1 AGGAAATTGTATTGAATTCATATCTTACTAGGGTAGCTTTTGACTTCACT
5038095 AGGAAATTGTATTGAATTCATATCTTACTAGGGTAGCTTTTGACTTCACT
1 AGGAAATTGTATTGAATTCATATCTTACTAGGGTAGCTTTTGACTTCACT
5038145 GTGTTCTAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (50 bp):
AGGAAATTGTATTGAATTCATATCTTACTAGGGTAGCTTTTGACTTCACT
Found at i:5056368 original size:18 final size:18
Alignment explanation
Indices: 5056341--5056391 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
5056331 CATTGCTTAA
5056341 AAAAAGCACTTTTGACTCC
1 AAAAA-CACTTTTGACTCC
5056360 AAAAACACTTTTGACTCC
1 AAAAACACTTTTGACTCC
*
5056378 AAAAGCACTTTTGA
1 AAAAACACTTTTGA
5056392 AAGAAAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (18 bp):
AAAAACACTTTTGACTCC
Found at i:5056987 original size:13 final size:13
Alignment explanation
Indices: 5056951--5057003 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
5056941 TTTAAACCAA
5056951 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
**
5056964 ACTCCTCAAAAGC
1 ACTTTTCAAAAGC
* *
5056977 ACTTTTTAAAAAC
1 ACTTTTCAAAAGC
5056990 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
5057003 A
1 A
5057004 ATAAAGAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:5071839 original size:21 final size:21
Alignment explanation
Indices: 5071812--5071869 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
5071802 TTGCTCTGCT
*
5071812 CTGCTTCTCTCGCTGCAGCCTC
1 CTGCTTCCCTCGCTGCAGCC-C
*
5071834 CT-CTTCCCTCGCTGCAGCCG
1 CTGCTTCCCTCGCTGCAGCCC
5071854 CTGCTTCCCTCGCTGC
1 CTGCTTCCCTCGCTGC
5071870 CGCTTCTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.03, C:0.48, G:0.19, T:0.29
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCC
Found at i:5071878 original size:21 final size:21
Alignment explanation
Indices: 5071811--5071880 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
5071801 TTTGCTCTGC
*
5071811 TCTGCTTCTCTCGCTGCAGCCT
1 TCTGCTTCCCTCGCTGCAG-CT
* *
5071833 CCT-CTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCT
* *
5071853 GCTGCTTCCCTCGCTGCCGCT
1 TCTGCTTCCCTCGCTGCAGCT
5071874 TCTGCTT
1 TCTGCTT
5071881 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 3 0.08
21 35 0.88
22 2 0.05
ACGTcount: A:0.03, C:0.46, G:0.19, T:0.33
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCT
Found at i:5076325 original size:9 final size:9
Alignment explanation
Indices: 5076311--5076492 Score: 153
Period size: 9 Copynumber: 20.9 Consensus size: 9
5076301 TTTTTATGTA
5076311 TTATGTAAG
1 TTATGTAAG
5076320 TTATGTAAG
1 TTATGTAAG
*
5076329 TTGTGT-A-
1 TTATGTAAG
*
5076336 TTATGTGAG
1 TTATGTAAG
5076345 TTATGTAAG
1 TTATGTAAG
*
5076354 TTATGGAAG
1 TTATGTAAG
* *
5076363 TTATTTAAT
1 TTATGTAAG
5076372 TTATGTAAG
1 TTATGTAAG
5076381 TTATGTAAG
1 TTATGTAAG
*
5076390 TTATGTAGG
1 TTATGTAAG
*
5076399 CTATGT-A-
1 TTATGTAAG
* *
5076406 TTATCTAAA
1 TTATGTAAG
*
5076415 TAATGTAAG
1 TTATGTAAG
* *
5076424 TTA-GGAATC
1 TTATGTAA-G
5076433 TTATGT-A-
1 TTATGTAAG
5076440 TTATGTAAG
1 TTATGTAAG
*
5076449 TTATGCAAG
1 TTATGTAAG
* *
5076458 TGATGCAAG
1 TTATGTAAG
* *
5076467 TTATTTAAT
1 TTATGTAAG
5076476 TTATGTAAG
1 TTATGTAAG
5076485 TTATGTAA
1 TTATGTAA
5076493 TTAGAAATTT
Statistics
Matches: 136, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
7 15 0.11
8 7 0.05
9 113 0.83
10 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:5076531 original size:37 final size:37
Alignment explanation
Indices: 5076472--5076559 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
5076462 GCAAGTTATT
* *
5076472 TAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCA
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCA
* *
5076508 TAATATTATATAAGTTATGTAATTCGAAATTTGATCT
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCA
*
5076545 TAATATTATAAAAGT
1 TAATATTATATAAGT
5076560 AATCTTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 4 0.09
37 42 0.91
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.45
Consensus pattern (37 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTGATCA
Found at i:5076566 original size:20 final size:20
Alignment explanation
Indices: 5076541--5076579 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5076531 TCGAAATTTG
5076541 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATAAAAGTA
*
5076561 ATCTTAATATTATATAAGT
1 ATCTTAATATTATAAAAGT
5076580 TATGTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATAAAAGTA
Found at i:5076614 original size:37 final size:37
Alignment explanation
Indices: 5076561--5076698 Score: 231
Period size: 37 Copynumber: 3.7 Consensus size: 37
5076551 TATAAAAGTA
*
5076561 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
* *
5076598 ATCTTAGTATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
5076635 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
*
5076672 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
5076699 ATTATATAAG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGATATTTT
Found at i:5076725 original size:56 final size:56
Alignment explanation
Indices: 5076639--5076754 Score: 205
Period size: 56 Copynumber: 2.1 Consensus size: 56
5076629 TATTTTATCT
*
5076639 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
* *
5076695 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATG
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
5076751 TAAT
1 TAAT
5076755 TCGATATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.49
Consensus pattern (56 bp):
TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
Found at i:5076745 original size:37 final size:37
Alignment explanation
Indices: 5076695--5076936 Score: 255
Period size: 37 Copynumber: 6.6 Consensus size: 37
5076685 ATAAGTTATG
5076695 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
*
5076732 TAATATTGTATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
* * * **
5076769 TAACATTATATAAGTTATGTAATAC--TA-TATAAGT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
* * * ** ** *
5076803 TAAT-TCGATAT--TTTATCTTAACATTATATAAGTTAT-G
1 TAATAT-TATATAAGTTAT-GT-A-ATTCGATATTTTATCT
5076840 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
*
5076877 TAATATTGTATAAGTTATGTAATTCGATATTTTATCT
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCT
*
5076914 TAACATTATATAAGTTATGTAAT
1 TAATATTATATAAGTTATGTAAT
5076937 ATTTTATAAG
Statistics
Matches: 166, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
32 4 0.02
33 2 0.01
34 12 0.07
35 4 0.02
36 10 0.06
37 126 0.76
38 4 0.02
39 4 0.02
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (37 bp):
TAATATTATATAAGTTATGTAATTCGATATTTTATCT
Found at i:5076792 original size:56 final size:56
Alignment explanation
Indices: 5076732--5076899 Score: 272
Period size: 56 Copynumber: 3.1 Consensus size: 56
5076722 TATTTTATCT
*
5076732 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
*
5076788 TAATACTATATAAG---T-TAATTCGATATTTTATCTTAACATTATATAAGTTATG
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
* *
5076840 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATG
1 TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
5076896 TAAT
1 TAAT
5076900 TCGATATTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
52 50 0.49
53 1 0.01
55 1 0.01
56 51 0.50
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (56 bp):
TAATATTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
Found at i:5076816 original size:52 final size:54
Alignment explanation
Indices: 5076740--5076899 Score: 243
Period size: 52 Copynumber: 2.9 Consensus size: 54
5076730 CTTAATATTG
5076740 TATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATACTA
1 TATAAG-T-TGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATACTA
*
5076796 TATAAG-T-TAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTA
1 TATAAGTTGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATACTA
* *
5076848 TATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAAT
1 TATAAG-T-TGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAAT
5076900 TCGATATTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
52 50 0.52
53 1 0.01
55 1 0.01
56 45 0.46
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (54 bp):
TATAAGTTGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATACTA
Found at i:5076921 original size:145 final size:147
Alignment explanation
Indices: 5076647--5076986 Score: 585
Period size: 145 Copynumber: 2.3 Consensus size: 147
5076637 CTTAATATTG
5076647 TATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTA
1 TATAAG-T-TGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTA
5076712 TGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTA
64 TGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTA
5076777 TATAAGTTATGTAATACTA
129 TATAAGTTATGTAATACTA
5076796 TATAAG-T-TAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATG
1 TATAAGTTGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATG
5076859 TAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATA
66 TAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATA
* *
5076924 TAAGTTATGTAATATTT
131 TAAGTTATGTAATACTA
* * *
5076941 TATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTA
1 TATAAG-T-TGTAATTCGATATTTTATCTTAACATTATATAAGTTA
5076987 AGAAATTTTA
Statistics
Matches: 182, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
145 142 0.78
146 1 0.01
148 1 0.01
149 38 0.21
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (147 bp):
TATAAGTTGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATATTATATAAGTTATG
TAATTCGATATTTTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATA
TAAGTTATGTAATACTA
Found at i:5076937 original size:56 final size:56
Alignment explanation
Indices: 5076877--5076986 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
5076867 TATTTTATCT
* *
5076877 TAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATG
1 TAATATTGTATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAGTTATG
* *
5076933 TAATATTTTATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTA
1 TAATATTGTATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAGTTA
5076987 AGAAATTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (56 bp):
TAATATTGTATAAGTTATGTAATTAGAAATTTTATCTTAACATTATATAAGTTATG
Found at i:5076945 original size:93 final size:93
Alignment explanation
Indices: 5076464--5076986 Score: 554
Period size: 93 Copynumber: 5.7 Consensus size: 93
5076454 CAAGTGATGC
* * *
5076464 AAGTTATTTAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCATAATATTATATAAGTTATGT
1 AAGTTATGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGT
* * *
5076528 AATTCGAAATTTGATCTTAATATTATAA
66 AATTCGATATTTTATCTTAATATTATAT
* * * * *
5076556 AAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAGTATTGTATAAGTTATG
1 AAGTTAT-GTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATG
*
5076621 TAATTCGATATTTTATCTTAATATTGTAT
65 TAATTCGATATTTTATCTTAATATTATAT
* * * * * *
5076650 AAGTTATGTAAT-TCGATAT--TTTATCTTAACATTATATAA-GTTAT-GTAATATTATATAAGT
1 AAGTTATGTAATAT-TATATAAGTTAT-GT-A-ATTAGA-AATTTTATCTTAATATTATATAAGT
*
5076710 TATGTAATTCGATATTTTATCTTAATATTGTAT
61 TATGTAATTCGATATTTTATCTTAATATTATAT
* * * * * * *
5076743 AAGTTATGTAAT-TCGATAT--TTTATCTTAACATTATATAA-GTTAT-GTAATACTATATAAG-
1 AAGTTATGTAATAT-TATATAAGTTAT-GT-A-ATTAGA-AATTTTATCTTAATATTATATAAGT
*
5076802 --T-TAATTCGATATTTTATCTTAACATTATAT
61 TATGTAATTCGATATTTTATCTTAATATTATAT
* * *
5076832 AAGTTATGTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGTTATGT
1 AAGTTATGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGT
*
5076897 AATTCGATATTTTATCTTAACATTATAT
66 AATTCGATATTTTATCTTAATATTATAT
*
5076925 AAGTTATGTAATATTTTATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTA
1 AAGTTATGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTA
5076987 AGAAATTTTA
Statistics
Matches: 377, Mismatches: 38, Indels: 31
0.85 0.09 0.07
Matches are distributed among these distances:
87 1 0.00
88 8 0.02
89 56 0.15
90 3 0.01
91 8 0.02
92 9 0.02
93 205 0.54
94 85 0.23
95 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (93 bp):
AAGTTATGTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGT
AATTCGATATTTTATCTTAATATTATAT
Found at i:5078421 original size:23 final size:23
Alignment explanation
Indices: 5078393--5078437 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5078383 GGAGAATGAA
*
5078393 TTTTGGGGGATAACTGATGGAGG
1 TTTTGGGGGACAACTGATGGAGG
5078416 TTTTGGGGGACAACTGATGGAG
1 TTTTGGGGGACAACTGATGGAG
5078438 AAAAATGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.07, G:0.42, T:0.29
Consensus pattern (23 bp):
TTTTGGGGGACAACTGATGGAGG
Found at i:5078790 original size:147 final size:147
Alignment explanation
Indices: 5078591--5078859 Score: 369
Period size: 147 Copynumber: 1.8 Consensus size: 147
5078581 CCTCGTATCG
* * * * *
5078591 ATAAATGTTAAAACATTTTTGTGGCGTTTTAATTAAAGCGCCACTAACTATAA-ATCAAAACGCA
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAACGAA
* * * * * *
5078655 GTCGCTTCATCAACACTTACCTCAAACCCGTGGCGTTTTCGAAAAATCGCCACTAATAACATTTA
65 GTCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACATTTA
5078720 AAAAATGGCAGCGTTTCT
130 AAAAATGGCAGCGTTTCT
*
5078738 ATAAATGTTAGAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
* * * **
5078803 TCGTTTCCCCAACAATTAACTCAATCTTGTGGCGTTTCCAAAAAAACGCCACTAATA
66 TCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATA
5078860 CCATAGACAA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
147 101 0.97
148 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (147 bp):
ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
TCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACATTTAA
AAAATGGCAGCGTTTCT
Found at i:5078889 original size:147 final size:147
Alignment explanation
Indices: 5078588--5078931 Score: 368
Period size: 147 Copynumber: 2.3 Consensus size: 147
5078578 CGGCCTCGTA
* * *
5078588 TCGATAAATGTTAAAACATTTTTGTGGCGTTTTAATTAAAGCGCCACTAACTATAAATCAAAACG
1 TCGATAAATGTTAAAACAATTTTGTGGCGTTTTAAGTAAAGCGCCACTAAATATAAATCAAAACG
* * * * * * * *
5078653 CAGTCGCTTCATCAACACTTACCTCAAACCCGTGGCGTTTTCGAAAAATCGCCACTAATAACATT
66 AAGTCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACATA
* * * * *
5078718 TAAAAAATGGCAGCGTT
131 GAAAAAACGACAACATT
* * *
5078735 TCTATAAATGTTAGAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAAC
1 TCGATAAATGTTAAAACAATTTTGTGGCGTTTTAAGTAAAGCGCCACTAAATATAA-ATCAAAAC
* * * ** *
5078799 GAAGTCGTTTCCCCAACAATTAACTCAATCTTGTGGCGTTTCCAAAAAAACGCCACTAATACCAT
65 GAAGTCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACAT
*
5078864 AGACAAAACGACAACATT
130 AGAAAAAACGACAACATT
** * * * *
5078882 TCGATAAA-CATAACTACAATTTTGTGGCGTTTCATGTAAAGCACCACTAA
1 TCGATAAATGTTAA-AACAATTTTGTGGCGTTTTAAGTAAAGCGCCACTAA
5078932 TAGCAACGTA
Statistics
Matches: 160, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
146 2 0.01
147 155 0.97
148 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (147 bp):
TCGATAAATGTTAAAACAATTTTGTGGCGTTTTAAGTAAAGCGCCACTAAATATAAATCAAAACG
AAGTCGCTTCACCAACAATTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACATA
GAAAAAACGACAACATT
Found at i:5080446 original size:114 final size:112
Alignment explanation
Indices: 5080248--5080635 Score: 388
Period size: 114 Copynumber: 3.4 Consensus size: 112
5080238 GCTTGTTAAT
* * * * * *
5080248 AAACGCCGCTAAATCCCCCAATGCTAAGTAAAACGACCTCGTTGGGCTTAGGTTT-TTGGCGGCG
1 AAACGCCGCTAAATCCCCGAATACTCAG-AAAACGACGTCGTTCGGCTTAGGTTTCTTTGCGGCG
* * *
5080312 CTTTCCAAAAAACACCGCTAAAGCCCTGAGCATTAGCAGTGCTTCTCCAT
65 C-TTCC-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTCTCCAA
* * *
5080362 AAACGCCGCTAAATCCCCGAATACTCAGAGAACGGCGTCGTTCGGCTTATGTTTCTTTGCGGCGC
1 AAACGCCGCTAAATCCCCGAATACTCAGAAAACGACGTCGTTCGGCTTAGGTTTCTTTGCGGCGC
** * * *
5080427 TTCCACAGAAACGCCGCTAAAGTACTGAACATTGGCGGTGCTAC-CTCAA
66 TTCCA-A-AAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTCTC-CAA
* * *
5080476 AAACGCCGCTAAGTCACCGAATGCTCAGAAAACGACGTCGTT-GGTCTTAGGTTTCTTTGCGGCG
1 AAACGCCGCTAAATCCCCGAATACTCAGAAAACGACGTCGTTCGG-CTTAGGTTTCTTTGCGGCG
* * * * * * *
5080540 AATTCTCAAAAATGCCGTTAAATCCCTGAGCTTTAGCGGCGCTTCAT-AAA
65 -CTTC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTC-TCCAA
* * *
5080590 AAACGCCACTAAATCCCCGAATACACGGAAAACGACGTCGTTCGGC
1 AAACGCCGCTAAATCCCCGAATACTCAGAAAACGACGTCGTTCGGC
5080636 CGAGATTTTT
Statistics
Matches: 223, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
112 1 0.00
113 29 0.13
114 185 0.83
115 6 0.03
116 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (112 bp):
AAACGCCGCTAAATCCCCGAATACTCAGAAAACGACGTCGTTCGGCTTAGGTTTCTTTGCGGCGC
TTCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTCTCCAA
Found at i:5081164 original size:60 final size:61
Alignment explanation
Indices: 5081039--5081172 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 61
5081029 TTATTAAGAC
* *
5081039 ATCTTTTTTGGTCA-TCCAACTATAAAAAATTACAAAATGTTACTCAACTATTACTAAATT
1 ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAATGTCACCCAACTATTACTAAATT
* * * *
5081099 -TCTTTTTTGGTCACT-CAATTATGAAAAGTTACAAAATAGTCACCCAACTATT-C-AATTTT
1 ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAAT-GTCACCCAACTATTACTAA-ATT
*
5081158 ATCTTTTTTAGTCAC
1 ATCTTTTTTGGTCAC
5081173 CATTGGGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.03
59 35 0.56
60 26 0.41
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (61 bp):
ATCTTTTTTGGTCACTCCAACTATAAAAAATTACAAAATGTCACCCAACTATTACTAAATT
Found at i:5086783 original size:25 final size:25
Alignment explanation
Indices: 5086739--5086788 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5086729 TTCCGTATGC
*
5086739 GAAAAAATAATATTAATTATGATTT
1 GAAAAAATAATATTAATTATAATTT
*
5086764 GAAAGAAATAATATT-TTTATAATTT
1 GAAA-AAATAATATTAATTATAATTT
5086789 TATAACTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (25 bp):
GAAAAAATAATATTAATTATAATTT
Found at i:5088669 original size:17 final size:19
Alignment explanation
Indices: 5088647--5088681 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5088637 CTAAAATAGT
5088647 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
5088664 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
5088682 TCGAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:5094828 original size:21 final size:21
Alignment explanation
Indices: 5094804--5094847 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5094794 TCATTGTTAT
* *
5094804 ATACTTATAATAACATTTGAG
1 ATACGTATAACAACATTTGAG
*
5094825 ATACGTGTAACAACATTTGAG
1 ATACGTATAACAACATTTGAG
5094846 AT
1 AT
5094848 TCAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (21 bp):
ATACGTATAACAACATTTGAG
Found at i:5095876 original size:21 final size:21
Alignment explanation
Indices: 5095845--5095894 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
5095835 GGTGTCTCTC
* *
5095845 TTAACAAAAATTTAA-AAATT
1 TTAAAAAAAATTAAATAAATT
5095865 TTCAAAAAAAATTAAATTAAATT
1 TT-AAAAAAAATTAAA-TAAATT
5095888 TTAAAAA
1 TTAAAAA
5095895 TCCAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 5 0.20
23 7 0.28
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAAAAAATTAAATAAATT
Found at i:5101576 original size:14 final size:14
Alignment explanation
Indices: 5101557--5101586 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5101547 TGCATGTGAT
5101557 TATGGATTATTTGG
1 TATGGATTATTTGG
5101571 TATGGATTATTTGG
1 TATGGATTATTTGG
5101585 TA
1 TA
5101587 ACAAGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
TATGGATTATTTGG
Found at i:5126107 original size:2 final size:2
Alignment explanation
Indices: 5126100--5126132 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5126090 CTTATCAAAG
5126100 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
5126133 TATATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5126862 original size:41 final size:41
Alignment explanation
Indices: 5126802--5127029 Score: 404
Period size: 41 Copynumber: 5.6 Consensus size: 41
5126792 TTTAAACAGA
*
5126802 TTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
*
5126843 TTCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
5126884 TTCACCGGCACTTAGCCTGCTAGGCTAATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
5126925 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
5126966 TTCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
5127007 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
5127030 ACGTAAAGTC
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 1 0.01
41 178 0.99
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:5127052 original size:123 final size:123
Alignment explanation
Indices: 5126795--5127057 Score: 397
Period size: 123 Copynumber: 2.1 Consensus size: 123
5126785 CACTTAATTT
*
5126795 AAACAGATTCACTGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
1 AAACAG-TTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
* * *
5126860 TGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTAATAGCCTG
65 TACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACTAATAGCCTA
** *
5126919 ATTCAGTTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
1 AAACAGTTCACCGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
5126983 TACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACGTAA-AGTCC-A
65 TACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGAC-TAATAG-CCTA
*
5127042 AAACATTTCACCGGCA
1 AAACAGTTCACCGGCA
5127058 ATTAATCTGA
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
122 1 0.01
123 116 0.92
124 9 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (123 bp):
AAACAGTTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCCT
ACTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACTAATAGCCTA
Found at i:5128763 original size:28 final size:31
Alignment explanation
Indices: 5128731--5128789 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
5128721 TGTTTTGTTT
5128731 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
5128759 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
5128790 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:5130875 original size:6 final size:6
Alignment explanation
Indices: 5130864--5130894 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
5130854 ATGTTAAATA
5130864 ATATTT ATATTT ATATTT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT ATATTT A
5130895 ATCACTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:5131074 original size:39 final size:39
Alignment explanation
Indices: 5130994--5131084 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 39
5130984 AAAAATTATA
* * *
5130994 TTTAATACAATAAAATATTTATTATATTTATTTATA-TTT
1 TTTAATATAA-AAAACATTTATTATATTTATTGATATTTT
5131033 TTTAATATAAAAAACATTTATTATATTTA-TGATAGTGTTTT
1 TTTAATATAAAAAACATTTATTATATTTATTGATA---TTTT
5131074 TTTAATATAAA
1 TTTAATATAAA
5131085 TATTTTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 4 0.09
38 18 0.40
39 9 0.20
41 14 0.31
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (39 bp):
TTTAATATAAAAAACATTTATTATATTTATTGATATTTT
Found at i:5132951 original size:2 final size:2
Alignment explanation
Indices: 5132944--5133009 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
5132934 ATTTAAAGCT
5132944 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
5132986 CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA
5133010 TCCTTCACGC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5145531 original size:21 final size:21
Alignment explanation
Indices: 5145477--5145537 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
5145467 ATTATAAATT
*
5145477 TTTATTTAATAATAAA-AATC
1 TTTAGTTAATAATAAAGAATC
5145497 TTTAGTTTAATAATAAAGAA-C
1 TTTAG-TTAATAATAAAGAATC
*
5145518 TTTAGTTAATTAATCAAGAA
1 TTTAGTTAA-TAATAAAGAA
5145538 ATAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 8 0.22
21 26 0.72
22 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
TTTAGTTAATAATAAAGAATC
Found at i:5145531 original size:24 final size:21
Alignment explanation
Indices: 5145472--5145524 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
5145462 AATATATTAT
*
5145472 AAATTTTTA-TTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
5145492 AAATCTTTAGTTTAATAATAA
1 AAATCTTTAGTTTAATAATAA
5145513 AGAA-CTTTAGTT
1 A-AATCTTTAGTT
5145525 AATTAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
AAATCTTTAGTTTAATAATAA
Found at i:5146497 original size:344 final size:344
Alignment explanation
Indices: 5145870--5146559 Score: 1353
Period size: 344 Copynumber: 2.0 Consensus size: 344
5145860 TAACATATTA
5145870 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
1 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
5145935 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
66 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
5146000 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTGTATTGGTTAACATGTCAATCGATTCAACCTCTA
131 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTGTATTGGTTAACATGTCAATCGATTCAACCTCTA
*
5146065 TCTCAGGACTAGTACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
196 TCTCAGGACTAATACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
5146130 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
261 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
5146195 GCAAGCAAAACTAATCATC
326 GCAAGCAAAACTAATCATC
5146214 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
1 AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
5146279 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
66 TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
*
5146344 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTGTTTTGGTTAACATGTCAATCGATTCAACCTCTA
131 CAACCGTTTTTTAGCTCAGTTAAACTAGTTTGTATTGGTTAACATGTCAATCGATTCAACCTCTA
*
5146409 TCTCAGGACTAATACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAGTTCGATTCTAAAAACA
196 TCTCAGGACTAATACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
5146474 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
261 TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
5146539 GCAAGCAAAACTAATCATC
326 GCAAGCAAAACTAATCATC
5146558 AA
1 AA
5146560 CGTCTTGACA
Statistics
Matches: 343, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 343 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (344 bp):
AAAGTTATAGGGTTTATGATTTTAATTAAGGTTTTGACAGATGATTGAACCACTCTGGCACCAGT
TTTCAGTTATCAAATAAATTATTAAAAAATAAAATAAAAATATGTAAAAAATAGAAAAATCAATT
CAACCGTTTTTTAGCTCAGTTAAACTAGTTTGTATTGGTTAACATGTCAATCGATTCAACCTCTA
TCTCAGGACTAATACCCTGGTAGGCCTCCGGTTCAACTAACTGATCCAATTCGATTCTAAAAACA
TCGATTTTGCTCTATGAAAGAACTTTTTTGATCTTGTCAGGTCAAGCAAGTAGGCAATGAAGTTC
GCAAGCAAAACTAATCATC
Found at i:5148434 original size:4 final size:4
Alignment explanation
Indices: 5148421--5148455 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
5148411 TGATTTTTTG
5148421 AATT -ATT AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
5148456 GAAGTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:5154702 original size:14 final size:14
Alignment explanation
Indices: 5154683--5154733 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
5154673 ATTTTATAAT
5154683 TATATTTAAAACTA
1 TATATTTAAAACTA
* *
5154697 TATATTTGAAGCTA
1 TATATTTAAAACTA
5154711 TA-ACTTTAAAA-TA
1 TATA-TTTAAAACTA
*
5154724 AATATTTAAA
1 TATATTTAAA
5154734 TTGAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (14 bp):
TATATTTAAAACTA
Found at i:5154733 original size:13 final size:14
Alignment explanation
Indices: 5154715--5154747 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5154705 AAGCTATAAC
5154715 TTTAAAAT-AAATA
1 TTTAAAATGAAATA
*
5154728 TTTAAATTGAAATA
1 TTTAAAATGAAATA
5154742 TTTAAA
1 TTTAAA
5154748 GTCTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAAATGAAATA
Found at i:5161921 original size:20 final size:19
Alignment explanation
Indices: 5161882--5161947 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
5161872 ACATTAGAAA
**
5161882 ATATAAAAATGGAAATAAAT
1 ATATAAAAATCTAAA-AAAT
5161902 ATATAAAAAT-TCAGAAAAAT
1 ATATAAAAATCT-A-AAAAAT
*
5161922 ATAT-ATAATCTAAAAAAT
1 ATATAAAAATCTAAAAAAT
5161940 ATATAAAA
1 ATATAAAA
5161948 TATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.26
19 7 0.18
20 20 0.51
21 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (19 bp):
ATATAAAAATCTAAAAAAT
Found at i:5161937 original size:18 final size:18
Alignment explanation
Indices: 5161879--5161955 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 18
5161869 TCCACATTAG
**
5161879 AAAATATA-AAAATGGAA
1 AAAATATATAAAATATAA
5161896 ATAAATATATAAAA-ATTCAGA
1 A-AAATATATAAAATA-T-A-A
* *
5161917 AAAATATATATAATCTAA
1 AAAATATATAAAATATAA
5161935 AAAATATATAAAATATAA
1 AAAATATATAAAATATAA
5161953 AAA
1 AAA
5161956 TAAAATTGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.02
18 27 0.56
19 5 0.10
20 13 0.27
21 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAATATATAAAATATAA
Found at i:5162183 original size:23 final size:23
Alignment explanation
Indices: 5162157--5162211 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
5162147 TTATTTTAAC
* *
5162157 TTTTTAAATTTTA-AAATTACATA
1 TTTTTAAATTTTATAAA-AAAATA
5162180 -TTTTAGAATTTTATAAAAAAATA
1 TTTTTA-AATTTTATAAAAAAATA
5162203 TTTTTAAAT
1 TTTTTAAAT
5162212 ATTTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 5 0.19
23 14 0.52
24 8 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTTAAATTTTATAAAAAAATA
Found at i:5163115 original size:17 final size:17
Alignment explanation
Indices: 5163079--5163160 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
5163069 CGATAGTAAT
* *
5163079 TTTTTGAGAACACGGAAA
1 TTTTTGA-AATACGAAAA
5163097 TTTTTGAAATAC-AAGAA
1 TTTTTGAAATACGAA-AA
**
5163114 TTTAAGAAATACGAAAA
1 TTTTTGAAATACGAAAA
* * *
5163131 TTTCTAAAACACGAAAA
1 TTTTTGAAATACGAAAA
5163148 TTTTTGAAA-ACGA
1 TTTTTGAAATACGA
5163161 GAAAAGTCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
16 5 0.10
17 38 0.73
18 9 0.17
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (17 bp):
TTTTTGAAATACGAAAA
Found at i:5163164 original size:18 final size:17
Alignment explanation
Indices: 5163124--5163214 Score: 63
Period size: 17 Copynumber: 5.6 Consensus size: 17
5163114 TTTAAGAAAT
5163124 ACGAAAATTTCTAAAAC
1 ACGAAAATTTCTAAAAC
*
5163141 ACGAAAATTTTTGAAAAC
1 ACGAAAATTTCT-AAAAC
*
5163159 GA-GAAAA-GTC--AAA-
1 -ACGAAAATTTCTAAAAC
5163172 A--AAAATTT-TAAAAC
1 ACGAAAATTTCTAAAAC
*
5163186 ACGAGAAATTTTTGAAAAC
1 ACGA-AAATTTCT-AAAAC
5163205 ACGAAAATTT
1 ACGAAAATTT
5163215 GAAATACGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
11 4 0.07
12 2 0.03
13 3 0.05
14 4 0.07
16 1 0.02
17 18 0.31
18 17 0.29
19 10 0.17
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (17 bp):
ACGAAAATTTCTAAAAC
Found at i:5163196 original size:17 final size:17
Alignment explanation
Indices: 5163173--5163300 Score: 68
Period size: 17 Copynumber: 7.1 Consensus size: 17
5163163 AAAGTCAAAA
5163173 AAAATTTT-AAAACACG
1 AAAATTTTGAAAACACG
5163189 AGAAATTTTTGAAAACACG
1 A-AAA-TTTTGAAAACACG
*
5163208 AAAA-TTTG-AAATACG
1 AAAATTTTGAAAACACG
*
5163223 AAAATTATTTTTAAAAAACACG
1 -AAA--A-TTTT-GAAAACACG
5163245 AATATATTTTTTG-AAACACGG
1 AA-A-A--TTTTGAAAACAC-G
* *
5163266 GAAATTTTGAAAACATG
1 AAAATTTTGAAAACACG
5163283 AAAACTTTTG-AAACACG
1 AAAA-TTTTGAAAACACG
5163300 A
1 A
5163301 GTTTTTTTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
15 6 0.07
16 8 0.09
17 19 0.21
18 18 0.20
19 10 0.11
20 10 0.11
21 6 0.07
22 12 0.13
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:5163212 original size:35 final size:36
Alignment explanation
Indices: 5163172--5163301 Score: 113
Period size: 35 Copynumber: 3.5 Consensus size: 36
5163162 AAAAGTCAAA
* *
5163172 AAAAATTTTAAAACACGAGAAATTTTTGAAAACACG
1 AAAATTTTTGAAACACGAGAAATTTTTGAAAACACG
* * *
5163208 AAAA--TTTGAAATACGAAAATTATTTTTAAAAAACACG
1 AAAATTTTTGAAACACGAGAA--ATTTTT-GAAAACACG
* *
5163245 AATATATTTTTTGAAACACGGGAAA-TTTTGAAAACATG
1 AA-A-A-TTTTTGAAACACGAGAAATTTTTGAAAACACG
*
5163283 AAAACTTTTGAAACACGAG
1 AAAATTTTTGAAACACGAG
5163302 TTTTTTTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
34 12 0.16
35 13 0.17
36 11 0.15
37 11 0.15
38 10 0.13
39 5 0.07
40 1 0.01
42 12 0.16
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.28
Consensus pattern (36 bp):
AAAATTTTTGAAACACGAGAAATTTTTGAAAACACG
Found at i:5164673 original size:29 final size:30
Alignment explanation
Indices: 5164625--5164696 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
5164615 TTTCTAGGGT
5164625 AAAAGTGTAATTTTAGGAAAATAT-GAGGCC
1 AAAA-TGTAATTTTAGGAAAATATAGAGGCC
* * *
5164655 AAAATGTAATTTCTA-GAAATTTTAGGGGCC
1 AAAATGTAATTT-TAGGAAAATATAGAGGCC
*
5164685 CAAATGTAATTT
1 AAAATGTAATTT
5164697 ACAAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.39
30 22 0.61
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTAGGAAAATATAGAGGCC
Found at i:5164738 original size:30 final size:29
Alignment explanation
Indices: 5164649--5164785 Score: 87
Period size: 30 Copynumber: 4.6 Consensus size: 29
5164639 AGGAAAATAT
* * **
5164649 GAGGCCAAAATGTAATTTCTAGAAATTTTA
1 GAGGTCAAAATGTAATTTATA-AAAAATTA
* * * * **
5164679 GGGGCCCAAATGTAATTTACAAATTATTA
1 GAGGTCAAAATGTAATTTATAAAAAATTA
* *
5164708 GAGGTTAAGATGTAAATTTATAAAAAATTA
1 GAGGTCAAAATGT-AATTTATAAAAAATTA
* * *
5164738 GGGGTCAAAATGTAATTTTTAAAAAGTTTA
1 GAGGTCAAAATGTAATTTATAAAAA-ATTA
*
5164768 G-GGGCTAAAATGTAATTT
1 GAGGTC-AAAATGTAATTT
5164786 GTATTTTTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
29 28 0.33
30 56 0.67
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (29 bp):
GAGGTCAAAATGTAATTTATAAAAAATTA
Found at i:5164785 original size:59 final size:59
Alignment explanation
Indices: 5164649--5164785 Score: 134
Period size: 59 Copynumber: 2.3 Consensus size: 59
5164639 AGGAAAATAT
* * ** * * *
5164649 GAGGCCAAAATGTAATTTCTAGAAATTTTAGGGGCCCAAATGTAATTTACAAATTATTA
1 GAGGCTAAAATGTAATTTATAGAAAAATTAGGGGCCAAAATGTAATTTAAAAAGTATTA
* * *
5164708 GAGGTTAAGATGTAAATTTATA-AAAAATTAGGGGTCAAAATGTAATTTTTAAAAAGT-TTA
1 GAGGCTAAAATGT-AATTTATAGAAAAATTAGGGGCCAAAATGTAA--TTTAAAAAGTATTA
*
5164768 GGGGCTAAAATGTAATTT
1 GAGGCTAAAATGTAATTT
5164786 GTATTTTTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
59 34 0.55
60 20 0.32
61 8 0.13
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (59 bp):
GAGGCTAAAATGTAATTTATAGAAAAATTAGGGGCCAAAATGTAATTTAAAAAGTATTA
Found at i:5165477 original size:78 final size:78
Alignment explanation
Indices: 5165127--5166383 Score: 1729
Period size: 78 Copynumber: 16.3 Consensus size: 78
5165117 TGAGTTGAGC
* * * * * *
5165127 TTTGAAAAATAGAAATTGAAAAATACCTCGGCATATGACCCCAGGCTCAACTCACCTCTTGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
5165192 ATAAGTTGA--TT
66 ATGAGTTGATTTT
* * * * *
5165203 TTTGAAAAACAAAAATT-AAAAATACCTCAGTGTAT-AGCCCAAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA-CCCGAGGCTCAACTCACCTCTCGCAA
5165266 TATGAGTTGA---T
65 TATGAGTTGATTTT
*
5165277 TTT-AAAAAAAGAAATT-AAAAATACCTC-G-GTGTGCAGCCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTG-A-CCCGAGGCTCAACTCACCTCTCGCA
5165338 ATATGAGTT--TTTT
64 ATATGAGTTGATTTT
* * * **
5165351 TTTAAAAAACAGAAATTTAAAAAATACATCAGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAA-TTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
5165416 TATAAGTTGATTTT
65 TATGAGTTGATTTT
* *
5165430 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165495 ATGAGTTGATTTT
66 ATGAGTTGATTTT
5165508 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165573 ATGAGTTGATTTT
66 ATGAGTTGATTTT
* *
5165586 TTTGAAAAACAGAAATTGAAAAATACCTGAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165651 ATGAGTTGATTTT
66 ATGAGTTGATTTT
* *
5165664 TTTG-AAAATAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165728 ATGAGTTGATTTT
66 ATGAGTTGATTTT
* * * * * * *
5165741 TTTGAAAACCAAAAATTTAAAAGAAATACCGCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGC
5165805 AATATGAGTTGATTTT
63 AATATGAGTTGATTTT
* * * *
5165821 TTTGAAAAACAGAAATTGAAAAGTACCTCAGCGTGTGATCCGAGGCTCAACTCACCTATCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165886 ATGAGTTGATTTTT
66 ATGAGTTGA-TTTT
5165900 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165965 ATGAGTTGATTTT
66 ATGAGTTGATTTT
* * *
5165978 TTTGAAAAACAGAAATTGAAAAATATCTCAGCGTGTGATCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5166043 ATGAGTTGATTTTTT
66 ATGAGTTGA--TTTT
*
5166058 TTTGAAAAACAGAAATTGAAAAATACCTGAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5166123 ATGAGTTGA-TTT
66 ATGAGTTGATTTT
* *
5166135 TTTGAAAAACAAAAATTGAAAAATACCTCAGC--GTGACCCTAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
5166198 ATGAGTTGATATT
66 ATGAGTTGATTTT
* * * *
5166211 TTTGGAAAGCAGAAATTG-AAAATACCTCAGCGTG-G-CCCGAGGCTCAACTCACTTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5166273 ATGAGTTGA--TT
66 ATGAGTTGATTTT
* ** * * * *
5166284 TTTGAAAAACAGAAATTGAGAAATACCTTGGCATGTG-CCCAAGGCTCAACTCACCTCTTGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5166348 ATGAGTTGA--TT
66 ATGAGTTGATTTT
***
5166359 TAAAAAAAACAGAAATTGAAAAATA
1 TTTGAAAAACAGAAATTGAAAAATA
5166384 TTTCTTGAAA
Statistics
Matches: 1069, Mismatches: 86, Indels: 53
0.88 0.07 0.04
Matches are distributed among these distances:
71 3 0.00
72 1 0.00
73 74 0.07
74 21 0.02
75 199 0.19
76 35 0.03
77 163 0.15
78 332 0.31
79 100 0.09
80 127 0.12
81 14 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (78 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTT
Found at i:5165870 original size:235 final size:232
Alignment explanation
Indices: 5165127--5166383 Score: 1708
Period size: 235 Copynumber: 5.4 Consensus size: 232
5165117 TGAGTTGAGC
* * * * *
5165127 TTTGAAAAATAGAAATTGAAAAATACCTCGGCATATGACCCCAGGCTCAACTCACCTCTTGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* * * * *
5165192 ATAAGTTGA--TTTTTGAAAAACAAAAATT-AAAAATACCTCAGTGTAT-AGCCCAAGGCTCAAC
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA-CCCGAGGCTCAAC
* * * * *
5165253 TCACCTCTCGCATTATGAGTTGA---TTTT-AAAAAAAGAAATTAAAAATACCTCGGTGTGCAGC
130 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTG-TGC
5165314 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT--TTTT
194 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
5165351 TTTAAAAAACAGAAATTTAAAAAATACATCAGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAA-TTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* *
5165416 TATAAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAAC
65 TATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
*
5165481 TCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA
130 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCAGCGTGTG-
5165546 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
193 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* **
5165586 TTTGAAAAACAGAAATTGAAAAATACCTGAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
5165651 ATGAGTTGATTTTTTTG-AAAATAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
* * * * * *
5165715 CACCTCTCGTAATATGAGTTGATTTTTTTGAAAACCAAAAATTTAAAAGAAATACCGCGGCATGT
131 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT--AA-AAATACCTCAGCGTGT
*
5165780 GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
192 GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * *
5165821 TTTGAAAAACAGAAATTGAAAAGTACCTCAGCGTGTGATCCGAGGCTCAACTCACCTATCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165886 ATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
66 ATGAGTTGA-TTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
*
5165951 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATATCTCAGCGTGTGA
130 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCAGCGTGTG-
* *
5166016 TCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTT
193 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* *
5166058 TTTGAAAAACAGAAATTGAAAAATACCTGAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* *
5166123 ATGAGTTGA-TTTTTTGAAAAACAAAAATTGAAAAATACCTCAGC--GTGACCCTAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
* * * *
5166185 CACCTCTCGCAATATGAGTTGATATTTTTGGAAAGCAGAAATTGAAAATACCTCAGCGTG-GCCC
131 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTGCCC
* *
5166249 GAGGCTCAACTCACTTCTCGCATTATGAGTTGA--TT
196 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* ** * * *
5166284 TTTGAAAAACAGAAATTGAGAAATACCTTGGCATGTG-CCCAAGGCTCAACTCACCTCTTGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
***
5166348 ATGAGTTGA--TTTAAAAAAAACAGAAATTGAAAAATA
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATA
5166384 TTTCTTGAAA
Statistics
Matches: 936, Mismatches: 76, Indels: 42
0.89 0.07 0.04
Matches are distributed among these distances:
224 36 0.04
225 85 0.09
226 35 0.04
227 18 0.02
228 50 0.05
229 1 0.00
230 34 0.04
231 5 0.01
232 28 0.03
233 188 0.20
234 77 0.08
235 198 0.21
236 24 0.03
237 157 0.17
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (232 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTGCCC
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:5165953 original size:157 final size:156
Alignment explanation
Indices: 5165127--5166383 Score: 1729
Period size: 157 Copynumber: 8.2 Consensus size: 156
5165117 TGAGTTGAGC
* * * * * *
5165127 TTTGAAAAATAGAAATTGAAAAATACCTCGGCATATGACCCCAGGCTCAACTCACCTCTTGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* * * * *
5165192 ATAAGTTGA--TTTTTGAAAAACAAAAATT-AAAAATACCTCAGTGTAT-AGCCCAAGGCTCAAC
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGA-CCCGAGGCTCAAC
*
5165253 TCACCTCTCGCATTATGAGTTGA---T
130 TCACCTCTCGCAATATGAGTTGATTTT
*
5165277 TTT-AAAAAAAGAAATT-AAAAATACCTC-G-GTGTGCAGCCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTG-A-CCCGAGGCTCAACTCACCTCTCGCA
* * * **
5165338 ATATGAGTT--TTTTTTTAAAAAACAGAAATTTAAAAAATACATCAGTATGTGACCCGAGGCTCA
64 ATATGAGTTGATTTTTTTGAAAAACAGAAA-TTGAAAAATACCTCAGCGTGTGACCCGAGGCTCA
*
5165401 ACTCACCTCTCGCAATATAAGTTGATTTT
128 ACTCACCTCTCGCAATATGAGTTGATTTT
* *
5165430 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGATCCGAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
5165495 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
5165560 CACCTCTCGCAATATGAGTTGATTTT
131 CACCTCTCGCAATATGAGTTGATTTT
* *
5165586 TTTGAAAAACAGAAATTGAAAAATACCTGAGTGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
5165651 ATGAGTTGATTTTTTTG-AAAATAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
*
5165715 CACCTCTCGTAATATGAGTTGATTTT
131 CACCTCTCGCAATATGAGTTGATTTT
* * * * * * *
5165741 TTTGAAAACCAAAAATTTAAAAGAAATACCGCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGC
* *
5165805 AATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAGTACCTCAGCGTGTGATCCGAGGCTCA
63 AATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCA
* *
5165870 ACTCACCTATCGCATTATGAGTTGATTTTT
128 ACTCACCTCTCGCAATATGAGTTGA-TTTT
5165900 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* *
5165965 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATATCTCAGCGTGTGATCCGAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
*
5166030 CACCTCTCGCATTATGAGTTGATTTTTT
131 CACCTCTCGCAATATGAGTTGA--TTTT
*
5166058 TTTGAAAAACAGAAATTGAAAAATACCTGAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* *
5166123 ATGAGTTGA-TTTTTTGAAAAACAAAAATTGAAAAATACCTCAGC--GTGACCCTAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
*
5166185 CACCTCTCGCAATATGAGTTGATATT
131 CACCTCTCGCAATATGAGTTGATTTT
* * * *
5166211 TTTGGAAAGCAGAAATTG-AAAATACCTCAGCGTG-G-CCCGAGGCTCAACTCACTTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* ** * *
5166273 ATGAGTTGA--TTTTTGAAAAACAGAAATTGAGAAATACCTTGGCATGTG-CCCAAGGCTCAACT
66 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
* *
5166335 CACCTCTTGCATTATGAGTTGA--TT
131 CACCTCTCGCAATATGAGTTGATTTT
***
5166359 TAAAAAAAACAGAAATTGAAAAATA
1 TTTGAAAAACAGAAATTGAAAAATA
5166384 TTTCTTGAAA
Statistics
Matches: 1003, Mismatches: 78, Indels: 53
0.88 0.07 0.05
Matches are distributed among these distances:
146 3 0.00
147 2 0.00
148 72 0.07
149 50 0.05
150 118 0.12
151 5 0.00
152 15 0.01
153 23 0.02
154 12 0.01
155 164 0.16
156 154 0.15
157 213 0.21
158 155 0.15
159 17 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (156 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTT
Found at i:5167919 original size:42 final size:42
Alignment explanation
Indices: 5167781--5167927 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 42
5167771 TTTAAACAGA
* * * *
5167781 TTCACTGGCACTTAGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGATAT-TGT
* * *
5167822 TACACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGATATTGT
*
5167863 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCACTT-AGCCTGCTAGACATAAAGTCTGATATTGT
5167905 TTCACCGGCA-TTAAGCCTGCTAG
1 TTCACCGGCACTT-AGCCTGCTAG
5167928 GCGCTAAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
40 3 0.03
41 61 0.67
42 27 0.30
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGATATTGT
Found at i:5168900 original size:4 final size:4
Alignment explanation
Indices: 5168891--5168938 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
5168881 TACAATAGAT
5168891 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
5168939 TGATTTGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:5169946 original size:11 final size:11
Alignment explanation
Indices: 5169930--5169962 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
5169920 GCAAATATCA
5169930 AAAATATTTTT
1 AAAATATTTTT
5169941 AAAATATTTTT
1 AAAATATTTTT
5169952 AAAATATTTTT
1 AAAATATTTTT
5169963 TTGACTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:5174741 original size:9 final size:9
Alignment explanation
Indices: 5174727--5174751 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5174717 TCTTTTTGGG
5174727 TCCTTTCCA
1 TCCTTTCCA
5174736 TCCTTTCCA
1 TCCTTTCCA
5174745 TCCTTTC
1 TCCTTTC
5174752 ATTGAGTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (9 bp):
TCCTTTCCA
Found at i:5178470 original size:17 final size:17
Alignment explanation
Indices: 5178450--5178503 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
5178440 TTTTTGAATT
*
5178450 ACGAGAATTTTAGAAAC
1 ACGAAAATTTTAGAAAC
5178467 ACGAAAATTTCTA-AAAC
1 ACGAAAATTT-TAGAAAC
*
5178484 ACGAAAATTTTTGAAA-
1 ACGAAAATTTTAGAAAC
5178500 ACGA
1 ACGA
5178504 GAAAAGTCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 5 0.15
17 26 0.79
18 2 0.06
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (17 bp):
ACGAAAATTTTAGAAAC
Found at i:5178617 original size:17 final size:19
Alignment explanation
Indices: 5178595--5178640 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
5178585 CGAATATATT
*
5178595 TTTTGAAACACA-GGAAA-
1 TTTTGAAACACATGAAAAC
5178612 TTTTGAAA-ACATGAAAAC
1 TTTTGAAACACATGAAAAC
5178630 TTTTGAAACAC
1 TTTTGAAACAC
5178641 GATTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 8 0.32
19 2 0.08
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (19 bp):
TTTTGAAACACATGAAAAC
Found at i:5179157 original size:26 final size:27
Alignment explanation
Indices: 5179100--5179157 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
5179090 TGAAAGATGG
* *
5179100 CTGCTGCCGGATTCGGGCCTGGAGGGC
1 CTGCTGCCGAATTCGGGCCTGGAGGAC
* *
5179127 CTGCTGTCGAATTTGGGCCT-GAGGAC
1 CTGCTGCCGAATTCGGGCCTGGAGGAC
5179153 CTGCT
1 CTGCT
5179158 TGGTCTACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.24
Consensus pattern (27 bp):
CTGCTGCCGAATTCGGGCCTGGAGGAC
Found at i:5179476 original size:41 final size:42
Alignment explanation
Indices: 5179431--5179522 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
5179421 AACAAAAATT
5179431 TATTTTAAAAATTAAAACAAAA-ATTAAAAAAATT-AAAAAAG
1 TATTTTAAAAA-TAAAACAAAATATTAAAAAAATTAAAAAAAG
*** * *
5179472 TATTTT-AAAATAATTTAAAATTTTAAAAAATTTAAAAAAAG
1 TATTTTAAAAATAAAACAAAATATTAAAAAAATTAAAAAAAG
5179513 TATTTTAAAA
1 TATTTTAAAA
5179523 GTATTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 7 0.16
40 14 0.33
41 19 0.44
42 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (42 bp):
TATTTTAAAAATAAAACAAAATATTAAAAAAATTAAAAAAAG
Found at i:5179481 original size:11 final size:10
Alignment explanation
Indices: 5179467--5179534 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 10
5179457 AAAAAATTAA
5179467 AAAAGTATTTT
1 AAAA-TATTTT
*
5179478 AAAATAATTT
1 AAAATATTTT
5179488 -AAA-ATTTT
1 AAAATATTTT
* *
5179496 AAAAAATTTAAA
1 AAAATATTT--T
5179508 AAAAGTATTTT
1 AAAA-TATTTT
5179519 AAAAGTATTTT
1 AAAA-TATTTT
5179530 AAAAT
1 AAAAT
5179535 TAAAAAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 4 0.09
9 6 0.13
10 10 0.21
11 19 0.40
12 4 0.09
13 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (10 bp):
AAAATATTTT
Found at i:5179505 original size:17 final size:18
Alignment explanation
Indices: 5179473--5179508 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
5179463 TTAAAAAAGT
5179473 ATTTTAAAATAATTTAAA
1 ATTTTAAAATAATTTAAA
5179491 ATTTTAAAA-AATTTAAA
1 ATTTTAAAATAATTTAAA
5179508 A
1 A
5179509 AAAGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTTAAAATAATTTAAA
Found at i:5179509 original size:10 final size:10
Alignment explanation
Indices: 5179437--5179511 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
5179427 AATTTATTTT
*
5179437 AAAAATTAAA
1 AAAAATTTAA
*
5179447 ACAAAAATTAA
1 A-AAAATTTAA
5179458 AAAAA-TTAA
1 AAAAATTTAA
5179467 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
5179480 AATAATTT--
1 AAAAATTTAA
*
5179488 -AAAATTTTA
1 AAAAATTTAA
5179497 AAAAATTTAA
1 AAAAATTTAA
5179507 AAAAA
1 AAAAA
5179512 GTATTTTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
7 6 0.12
9 8 0.15
10 21 0.40
11 10 0.19
13 7 0.13
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:5179538 original size:40 final size:38
Alignment explanation
Indices: 5179450--5179542 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 38
5179440 AATTAAAACA
*
5179450 AAAATTAAAAAAATTAAAAAAGTATTTTAAAATAATTT
1 AAAATTAAAAAATTTAAAAAAGTATTTTAAAATAATTT
*
5179488 AAAATTTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTT
1 AAAA--TTAAAAAATTT-AAAAAAGTATTTTAAAA-TAATTT
5179530 AAAATTAAAAAAT
1 AAAATTAAAAAAT
5179543 AAAAATATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
38 4 0.08
40 19 0.39
41 17 0.35
42 9 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (38 bp):
AAAATTAAAAAATTTAAAAAAGTATTTTAAAATAATTT
Found at i:5179955 original size:6 final size:6
Alignment explanation
Indices: 5179946--5180025 Score: 56
Period size: 6 Copynumber: 12.3 Consensus size: 6
5179936 TTTCTCTTCT
*
5179946 TTTTTC TTTTCTT TTTTTC TTTTTC TTTCTTTC ATATTTTC --TTTC TTTTTC
1 TTTTTC TTTT-TC TTTTTC TTTTTC -TT-TTTC -T-TTTTC TTTTTC TTTTTC
*
5179997 TTTCTTCTC TTTTTC TTTTTC TTTCTC TT
1 -TT-TT-TC TTTTTC TTTTTC TTTTTC TT
5180026 CTATTTCGGT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 4 0.07
6 30 0.49
7 11 0.18
8 13 0.21
9 3 0.05
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:5179990 original size:26 final size:25
Alignment explanation
Indices: 5179933--5180027 Score: 90
Period size: 26 Copynumber: 3.7 Consensus size: 25
5179923 CACTCCCCTC
* *
5179933 TTCTTTCTCTTCTTTTTTCTTTTC-TT
1 TTCTTTCT-TT-TTCTTTCTTCTCTTT
5179959 TT-TTTCTTTTTCTTTCTT-TCATATT
1 TTCTTTCTTTTTCTTTCTTCTC-T-TT
5179984 TTCTTTCTTTTTCTTTCTTCTCTTT
1 TTCTTTCTTTTTCTTTCTTCTCTTT
5180009 TTCTTT-TTCTTTCTCTTCT
1 TTCTTTCTT-TTTCT-TTCT
5180028 ATTTCGGTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
22 2 0.03
23 8 0.13
24 4 0.07
25 22 0.36
26 23 0.38
27 2 0.03
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (25 bp):
TTCTTTCTTTTTCTTTCTTCTCTTT
Found at i:5180013 original size:47 final size:47
Alignment explanation
Indices: 5179936--5180031 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 47
5179926 TCCCCTCTTC
*
5179936 TTTCTCTTCTTTTTTCTTTTCTTTTTTTCTTTTTCTTTCT-TTCATAT
1 TTTCTCTTCTTTTTTCTTTTCTCTTTTTCTTTTTCTTTCTCTTC-TAT
5179983 TTTCT-TTC-TTTTTCTTTCTTCTCTTTTTCTTTTTCTTTCTCTTCTAT
1 TTTCTCTTCTTTTTTC-TT-TTCTCTTTTTCTTTTTCTTTCTCTTCTAT
5180030 TT
1 TT
5180032 CGGTAATCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
45 6 0.13
46 5 0.11
47 31 0.69
48 3 0.07
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (47 bp):
TTTCTCTTCTTTTTTCTTTTCTCTTTTTCTTTTTCTTTCTCTTCTAT
Found at i:5180266 original size:19 final size:19
Alignment explanation
Indices: 5180232--5180276 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
5180222 TTTGATGGTT
*
5180232 ACGGTGGTGGTAGTTGTGCG
1 ACGGT-GTGGTAGTTGCGCG
*
5180252 ACGGTGTGGTGGTTGCGCG
1 ACGGTGTGGTAGTTGCGCG
5180271 ACGGTG
1 ACGGTG
5180277 GTGATGGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.09, C:0.13, G:0.51, T:0.27
Consensus pattern (19 bp):
ACGGTGTGGTAGTTGCGCG
Found at i:5180602 original size:28 final size:28
Alignment explanation
Indices: 5180567--5180628 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
5180557 GTAAAAGTGC
5180567 AATTTTAGGAAAATATA-GGCCAAAATGT
1 AATTTTA-GAAAATATAGGGCCAAAATGT
* * *
5180595 AATTTTAGAAAGTTTAGGGGCCCAAATGT
1 AATTTTAGAAAATATA-GGGCCAAAATGT
5180624 AATTT
1 AATTT
5180629 ACAAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (28 bp):
AATTTTAGAAAATATAGGGCCAAAATGT
Found at i:5180616 original size:29 final size:30
Alignment explanation
Indices: 5180584--5180721 Score: 93
Period size: 29 Copynumber: 4.5 Consensus size: 30
5180574 GGAAAATATA
5180584 GGCCAAAATGTAATTTTAG-AAAGTTTAGG
1 GGCCAAAATGTAATTTTAGAAAAGTTTAGG
* * *
5180613 GGCCCAAATGTAA-TTTA-CAAATTATTAGG
1 GGCCAAAATGTAATTTTAGAAAAGT-TTAGG
** * * **
5180642 GGTTAAGATGTAAATTTAGAGAAAAAAAATTAGG
1 GGCCAAAATGT-AATTT-TAG--AAAAGTTTAGG
* * *
5180676 GGTCAAAATATAATTTTTGAAAAGTTTAGG
1 GGCCAAAATGTAATTTTAGAAAAGTTTAGG
*
5180706 GGCTAAAATGTAATTT
1 GGCCAAAATGTAATTT
5180722 GTATTTGTTG
Statistics
Matches: 81, Mismatches: 20, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
28 8 0.10
29 24 0.30
30 24 0.30
31 2 0.02
32 2 0.02
33 5 0.06
34 13 0.16
35 3 0.04
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (30 bp):
GGCCAAAATGTAATTTTAGAAAAGTTTAGG
Found at i:5181896 original size:75 final size:75
Alignment explanation
Indices: 5181764--5181908 Score: 177
Period size: 75 Copynumber: 1.9 Consensus size: 75
5181754 GAAGTGAATC
* * * * * *
5181764 AAGAAAAGTTAAAGGAAGACATGGAGGAATCAGCTCTTGTAGAAACCACATATTCAAAGATAGAC
1 AAGAAAAGTTAAAGGAAAACATGAAGGAACCAGCTCTTGCAGAAACCACATAGTCAAAGATAGAA
5181829 TACAAGGAAA
66 TACAAGGAAA
** *
5181839 AAGAAAAGTTGGAGGAAAACATGAAGGAACCAGCTCTTGCAGCAA-CA-ATGGAGTCAAAGATAG
1 AAGAAAAGTTAAAGGAAAACATGAAGGAACCAGCTCTTGCAGAAACCACAT--AGTCAAAGATAG
5181902 AATACAA
64 AATACAA
5181909 TGAGGATTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 2 0.03
74 2 0.03
75 55 0.93
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.16
Consensus pattern (75 bp):
AAGAAAAGTTAAAGGAAAACATGAAGGAACCAGCTCTTGCAGAAACCACATAGTCAAAGATAGAA
TACAAGGAAA
Found at i:5185805 original size:9 final size:9
Alignment explanation
Indices: 5185791--5185816 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5185781 CATTTGAATA
5185791 AATAATTAG
1 AATAATTAG
5185800 AATAATTAG
1 AATAATTAG
5185809 AATAATTA
1 AATAATTA
5185817 TATACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
AATAATTAG
Found at i:5195000 original size:23 final size:23
Alignment explanation
Indices: 5194965--5195025 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
5194955 GATATTTCCC
5194965 CCATCCGCTACACACTATCTCTAT
1 CCATCC-CTACACACTATCTCTAT
*
5194989 CCATCCCTACACACTATCTCTGT
1 CCATCCCTACACACTATCTCTAT
*
5195012 CCATCTCTACACAC
1 CCATCCCTACACAC
5195026 CAAATAGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 29 0.83
24 6 0.17
ACGTcount: A:0.25, C:0.44, G:0.03, T:0.28
Consensus pattern (23 bp):
CCATCCCTACACACTATCTCTAT
Found at i:5207987 original size:6 final size:6
Alignment explanation
Indices: 5207976--5208013 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
5207966 TCACAAAATT
*
5207976 GAATAG GAATAG GAATAG GGATAG GAATAG GAATAG GA
1 GAATAG GAATAG GAATAG GAATAG GAATAG GAATAG GA
5208014 TAACAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.16
Consensus pattern (6 bp):
GAATAG
Found at i:5208427 original size:30 final size:30
Alignment explanation
Indices: 5208352--5208427 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
5208342 CTCTCTCAAC
* *
5208352 AAAAATTATTTTAAAAAAAATTAAAAAATTT
1 AAAAATT-TTATAAAAAAAAGTAAAAAATTT
* *
5208383 ATAAAA-TATATAAAAAAAAGTAAAAATTTT
1 A-AAAATTTTATAAAAAAAAGTAAAAAATTT
*
5208413 AAAAATTTTCTAAAA
1 AAAAATTTTATAAAA
5208428 TAATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 4 0.11
30 27 0.73
31 2 0.05
32 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (30 bp):
AAAAATTTTATAAAAAAAAGTAAAAAATTT
Found at i:5220814 original size:28 final size:28
Alignment explanation
Indices: 5220783--5220849 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 28
5220773 CGGTTTCTAT
5220783 TAAAAAGAGAGAATTTTCGTTTTCACAC
1 TAAAAAGAGAGAATTTTCGTTTTCACAC
* *
5220811 T-AAAA-AGAGAATTTTTGTTTTCACCC
1 TAAAAAGAGAGAATTTTCGTTTTCACAC
5220837 TAAAAAGAGAGAA
1 TAAAAAGAGAGAA
5220850 AACTTTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 20 0.57
27 8 0.23
28 7 0.20
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (28 bp):
TAAAAAGAGAGAATTTTCGTTTTCACAC
Found at i:5237668 original size:41 final size:41
Alignment explanation
Indices: 5237600--5237841 Score: 191
Period size: 44 Copynumber: 5.7 Consensus size: 41
5237590 GTGGTTTTAG
** * *
5237600 TCTGCTCTACTGCAAAGTCAGTA-AGATAAGACCGGATATGA
1 TCTGCTCTACTGCAACTTCAG-AGAGATAAGACTGGATTTGA
*
5237641 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTG-GA-TTTGA
* * * * *
5237685 TCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTTTCG-
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTGG---ATTT-GA
* * **
5237729 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTGGATTTGA
* *
5237770 TCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTG-GA-TTTGA
* * * *
5237814 TCCGCTCCATTGCAACTTCAGGGAGATA
1 TCTGCTCTACTGCAACTTCAGAGAGATA
5237842 GGATTGATTT
Statistics
Matches: 164, Mismatches: 25, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.01
41 56 0.34
42 6 0.04
43 6 0.04
44 94 0.57
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (41 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGACTGGATTTGA
Found at i:5237700 original size:44 final size:44
Alignment explanation
Indices: 5237644--5237841 Score: 224
Period size: 44 Copynumber: 4.6 Consensus size: 44
5237634 GATATGATCT
* *
5237644 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCC
** ** *
5237688 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTTTTTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATCC
*** *
5237732 GCTCCACTGCAACTTCAGGGAGATAAGA-CTG-GA-TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCC
* * *
5237773 GCTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCC
*
5237817 GCTCCATTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
5237842 GGATTGATTT
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 29 0.23
42 3 0.02
43 4 0.03
44 91 0.72
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCC
Found at i:5237712 original size:85 final size:85
Alignment explanation
Indices: 5237560--5237715 Score: 186
Period size: 85 Copynumber: 1.8 Consensus size: 85
5237550 CTTCAATATT
* * * * * * * * * *
5237560 CTCTTCTGCAACTTCAGGGGGACGAGATTTGTGGTTTTAGTCTGCTCTACTGCAAAGTCAGTAAG
1 CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAAAGTCAGGAAG
5237625 ATAAGACCGGATATGATCTG
66 ATAAGACCGGATATGATCTG
* ** *
5237645 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAAAGTCAGGAAG
5237710 ATAAGA
66 ATAAGA
5237716 TTGGTTTTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
85 57 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (85 bp):
CTCTACTGCAACTTCAGAGAGACAAGATCTGTGATTTTAATCCGCTCCACTGCAAAGTCAGGAAG
ATAAGACCGGATATGATCTG
Found at i:5237772 original size:129 final size:129
Alignment explanation
Indices: 5237565--5237847 Score: 404
Period size: 129 Copynumber: 2.2 Consensus size: 129
5237555 ATATTCTCTT
* ** * * *
5237565 CTGCAACTTCAGGGGGACGAGATTTGTGGTTTTAGTCTGCTCTACTGCAAAGTCAGTAAGATAAG
1 CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAAAGTCAGGAAGATAAG
*
5237630 ACCGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
66 ACCGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
** * ** *
5237694 CTGCAACTTCAGGGAGATAAGATTGGTTTTTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAAAGTCAGGAAGATAAG
* * *
5237759 ACTGGATGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
66 ACCGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
* *
5237823 TTGCAACTTCAGGGAGATAGGATTG
1 CTGCAACTTCAGGGAGATAAGATTG
5237848 ATTTCTGTCG
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
129 136 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (129 bp):
CTGCAACTTCAGGGAGATAAGATTGGTGGTTTTAGTCTGCTCCACTGCAAAGTCAGGAAGATAAG
ACCGGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
Found at i:5253606 original size:41 final size:41
Alignment explanation
Indices: 5253561--5253640 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
5253551 CGATTCAATC
* * * *
5253561 ACAATTCATTTCAAATTCACTTTCCACTTTCTAATCAATAT
1 ACAATTCAATACAAATACACTTTCCACTTTCCAATCAATAT
* *
5253602 ACAATTCAATACCAATACATTTTCCACTTTCCAATCAAT
1 ACAATTCAATACAAATACACTTTCCACTTTCCAATCAAT
5253641 GTACCATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (41 bp):
ACAATTCAATACAAATACACTTTCCACTTTCCAATCAATAT
Found at i:5254876 original size:5 final size:5
Alignment explanation
Indices: 5254875--5254915 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
5254865 ACCTAATATA
*
5254875 ATAAT ATAAT ATAAT ATAAT ATATTT ATAAT -TAA- ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT AT
5254916 TTTAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 6 0.19
5 21 0.68
6 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:5254924 original size:21 final size:21
Alignment explanation
Indices: 5254868--5254930 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
5254858 TTATTTTACC
*
5254868 TAATATAATAATATAATATAATA
1 TAATATATTAATATAAT-TAA-A
5254891 TAATATATT--TATAATTAAA
1 TAATATATTAATATAATTAAA
* *
5254910 TAATATTTTAATATATTTAAA
1 TAATATATTAATATAATTAAA
5254931 ACATAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 9 0.26
20 3 0.09
21 15 0.43
23 8 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATATTAATATAATTAAA
Found at i:5255788 original size:33 final size:33
Alignment explanation
Indices: 5255733--5255813 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 33
5255723 TAGTCCAACT
* * *
5255733 ATGGTCTTACACATGCATTGCCATGACCCTGCC
1 ATGGTCTTACACATGCAGTGCCATAACCCAGCC
** * **
5255766 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACACATGCAGTGCCATAACCCAGCC
*
5255799 ATGGTCTTACGCATG
1 ATGGTCTTACACATG
5255814 TATCTATACT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACATGCAGTGCCATAACCCAGCC
Found at i:5255920 original size:33 final size:33
Alignment explanation
Indices: 5255838--5255947 Score: 87
Period size: 33 Copynumber: 3.3 Consensus size: 33
5255828 TGGTCCAACC
* ** * *
5255838 ATGGTCTTACATTCAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
* *
5255871 ATGTTCTTTTCA-TTAAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAGCCCAGCT
* * * *
5255904 ATGGTCTTACATTTAAACATTGCCATGGTCCAACC
1 ATGGTCTTACATTTAAA-A-TGCCATAGCCCAGCT
5255939 ATGGTCTTA
1 ATGGTCTTA
5255948 TCCATCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
32 4 0.07
33 31 0.52
34 5 0.08
35 20 0.33
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
Found at i:5257662 original size:49 final size:49
Alignment explanation
Indices: 5257563--5257662 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 49
5257553 TTATTTTATT
* * * * *
5257563 TTAGAATAAGGTTTTTCAACCTTATTGCACATCATCTATTTGATATTGA
1 TTAGAATAAAGTGTTTCAACCTTACTACACATCATCTATTAGATATTGA
*
5257612 TTAGAATAAAGTGTTTCAACCTTACTATAC-TCATTCTATTAGA-ATATGA
1 TTAGAATAAAGTGTTTCAACCTTACTACACATCA-TCTATTAGATAT-TGA
5257661 TT
1 TT
5257663 TTTCAAGCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 5 0.12
49 38 0.88
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (49 bp):
TTAGAATAAAGTGTTTCAACCTTACTACACATCATCTATTAGATATTGA
Found at i:5261901 original size:23 final size:21
Alignment explanation
Indices: 5261875--5261926 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
5261865 CAACCAAACT
*
5261875 CAAAAAATTCAAGCCCAATAATA
1 CAAAAAA-ACAAGCCCAA-AATA
5261898 CAAAAACAACAAGCCCAAAATA
1 CAAAAA-AACAAGCCCAAAATA
*
5261920 TAAAAAA
1 CAAAAAA
5261927 GAAAAGAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 9 0.35
23 15 0.58
24 1 0.04
ACGTcount: A:0.63, C:0.21, G:0.04, T:0.12
Consensus pattern (21 bp):
CAAAAAAACAAGCCCAAAATA
Found at i:5263119 original size:15 final size:15
Alignment explanation
Indices: 5263067--5263121 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
5263057 CTGTTATCAC
5263067 TATTATT-TTTTTAT
1 TATTATTATTTTTAT
*
5263081 T-TTATATATTTTTAC
1 TATTAT-TATTTTTAT
*
5263096 TACTATTATTTTTAT
1 TATTATTATTTTTAT
*
5263111 TATTCTTATTT
1 TATTATTATTT
5263122 ATCTATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 2 0.06
15 24 0.73
16 3 0.09
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTATTTTTAT
Found at i:5263583 original size:20 final size:20
Alignment explanation
Indices: 5263558--5263602 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
5263548 GTAACTTATT
* * *
5263558 TATATTTGTATGTGTATTTA
1 TATATTTATATATATATTTA
5263578 TATATTTATATATATATTTA
1 TATATTTATATATATATTTA
5263598 TATAT
1 TATAT
5263603 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TATATTTATATATATATTTA
Found at i:5263591 original size:12 final size:12
Alignment explanation
Indices: 5263576--5263604 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5263566 TATGTGTATT
5263576 TATATATTTATA
1 TATATATTTATA
5263588 TATATATTTATA
1 TATATATTTATA
5263600 TATAT
1 TATAT
5263605 TTTTTAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATATTTATA
Found at i:5263710 original size:12 final size:13
Alignment explanation
Indices: 5263695--5263733 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
5263685 TTTTTATATT
5263695 TTCATATT-TTTA
1 TTCATATTATTTA
*
5263707 TTCATATTCTTTA
1 TTCATATTATTTA
5263720 TTCAT-TTATTTA
1 TTCATATTATTTA
5263732 TT
1 TT
5263734 TATTTACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCATATTATTTA
Found at i:5282457 original size:41 final size:41
Alignment explanation
Indices: 5282355--5282460 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
5282345 ACTGGCAATT
* * *
5282355 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
5282396 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
5282437 AGCCTGCTAGACATAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
5282461 TTATCTTATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:5282936 original size:12 final size:12
Alignment explanation
Indices: 5282919--5282945 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5282909 GATTCAAAAG
5282919 TGTATATTTACA
1 TGTATATTTACA
5282931 TGTATATTTACA
1 TGTATATTTACA
5282943 TGT
1 TGT
5282946 TTAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (12 bp):
TGTATATTTACA
Found at i:5289675 original size:9 final size:9
Alignment explanation
Indices: 5289649--5289680 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
5289639 ATTTGATATT
5289649 AATATTTTA
1 AATATTTTA
5289658 AAT-TTTTA
1 AATATTTTA
5289666 AATATTTTA
1 AATATTTTA
5289675 AA-ATTT
1 AATATTT
5289681 ATGATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.55
9 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATATTTTA
Found at i:5294164 original size:6 final size:6
Alignment explanation
Indices: 5294147--5294224 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
5294137 CCGTTGGTTC
* *
5294147 TTTCTT TCTCTT TTTCTT TTTCTT TTTCTT TTTCTTT CTTTCTA TTTCGTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT -TTTCTT TTTC-TT
* *
5294198 TTGCTT TTGTCTT TCTT-TA TTTCTT TT
1 TTTCTT TT-TCTT T-TTCTT TTTCTT TT
5294225 ATTGCTATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
5 2 0.03
6 39 0.67
7 12 0.21
8 5 0.09
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:5294211 original size:34 final size:34
Alignment explanation
Indices: 5294144--5294211 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
5294134 AACCCGTTGG
* *
5294144 TTCTTTCTTTCTCTTTTTCTTTTTCTTTTTCTTT
1 TTCTTTCTTTCTCTATTTCTTTTGCTTTTTCTTT
5294178 TTCTTTC-TT-TCTATTTCGTTTTGCTTTTGTCTTT
1 TTCTTTCTTTCTCTATTTC-TTTTGCTTTT-TCTTT
5294212 CTTTATTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.23
33 11 0.37
34 12 0.40
ACGTcount: A:0.01, C:0.19, G:0.04, T:0.75
Consensus pattern (34 bp):
TTCTTTCTTTCTCTATTTCTTTTGCTTTTTCTTT
Found at i:5294230 original size:28 final size:27
Alignment explanation
Indices: 5294151--5294215 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
5294141 TGGTTCTTTC
* *
5294151 TTTCTCTT-TTTCTTTTTC-TTTTTCTT
1 TTTCT-TTCTTTCTATTTCGTTTTGCTT
5294177 TTTCTTTCTTTCTATTTCGTTTTGCTT
1 TTTCTTTCTTTCTATTTCGTTTTGCTT
5294204 TTGTCTTTCTTT
1 TT-TCTTTCTTT
5294216 ATTTCTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 14 0.41
27 9 0.26
28 9 0.26
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTCTTTCTTTCTATTTCGTTTTGCTT
Found at i:5298334 original size:16 final size:16
Alignment explanation
Indices: 5298313--5298346 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5298303 CCAATATCCA
* *
5298313 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
5298329 ATTATCACATTTACAC
1 ATTATCACATTTACAC
5298345 AT
1 AT
5298347 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:5309319 original size:17 final size:18
Alignment explanation
Indices: 5309293--5309327 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5309283 TAAAAACGCA
*
5309293 TAAGTTAGCCTAA-CTCG
1 TAAGTCAGCCTAATCTCG
5309310 TAAGTCAGCCTAATCTCG
1 TAAGTCAGCCTAATCTCG
5309328 CAACAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TAAGTCAGCCTAATCTCG
Found at i:5311487 original size:9 final size:9
Alignment explanation
Indices: 5311473--5311531 Score: 100
Period size: 9 Copynumber: 6.6 Consensus size: 9
5311463 TGGTTAAAAG
5311473 TTACCCGAA
1 TTACCCGAA
5311482 TTACCCGAA
1 TTACCCGAA
5311491 TTACCCGAA
1 TTACCCGAA
5311500 TTACCCGAA
1 TTACCCGAA
*
5311509 TTAACCGAA
1 TTACCCGAA
*
5311518 TTAACCGAA
1 TTACCCGAA
5311527 TTACC
1 TTACC
5311532 GAAAAATACC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.24
Consensus pattern (9 bp):
TTACCCGAA
Found at i:5324224 original size:7 final size:7
Alignment explanation
Indices: 5324212--5324236 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5324202 GTCAATACTG
5324212 AAAATTC
1 AAAATTC
5324219 AAAATTC
1 AAAATTC
5324226 AAAATTC
1 AAAATTC
5324233 AAAA
1 AAAA
5324237 AGTGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:5326453 original size:15 final size:15
Alignment explanation
Indices: 5326433--5326472 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
5326423 CAGTACAATC
5326433 ATCAGCAAGAGCAAG
1 ATCAGCAAGAGCAAG
5326448 ATCAGCAAGAGCAAG
1 ATCAGCAAGAGCAAG
5326463 ATCAGCAAGA
1 ATCAGCAAGA
5326473 AGAAACGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.25, T:0.07
Consensus pattern (15 bp):
ATCAGCAAGAGCAAG
Found at i:5334657 original size:33 final size:34
Alignment explanation
Indices: 5334606--5334680 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
5334596 ATATTTAAAC
5334606 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
* *
5334640 AAATTAATT-CTAACACTTATTTGAGCTGAATTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
5334673 AATTTAAT
1 AAATTAAT
5334681 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:5336476 original size:18 final size:18
Alignment explanation
Indices: 5336453--5336491 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
5336443 CTCTTTTTGC
5336453 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
5336471 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
5336489 TCT
1 TCT
5336492 GTCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:5361468 original size:148 final size:148
Alignment explanation
Indices: 5361269--5361568 Score: 528
Period size: 148 Copynumber: 2.0 Consensus size: 148
5361259 AAATAAATTG
* *
5361269 GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCTCTGAACTCGTCCAATCCTATGGCATGT
1 GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCCCTGAACTCGTCCAATCCTATGGCATGC
*
5361334 TATCTATATCCGACTCAGCCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
66 CATCTATATCCGACTCAGCCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
5361399 TATTCAATTATCATATTT
131 TATTCAATTATCATATTT
* * *
5361417 GCACCTAGTGCCTCATTGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAATCCTATGGCATGC
1 GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCCCTGAACTCGTCCAATCCTATGGCATGC
* *
5361482 CATCTATATCCGACTCAGCCTAATACAGTTAATAGGGTTTAATTTCACTTTCCAAATACAACCAA
66 CATCTATATCCGACTCAGCCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
5361547 TATTCAATTATCATATTT
131 TATTCAATTATCATATTT
5361565 GCAC
1 GCAC
5361569 ATATATATAT
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 144 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (148 bp):
GCACCCAGTGCCTCATCGACTCGAAGTCGAAGAAATCCCTGAACTCGTCCAATCCTATGGCATGC
CATCTATATCCGACTCAGCCCAATACAGTTAATAGAGTTTAATTTCACTTTCCAAATACAACCAA
TATTCAATTATCATATTT
Found at i:5361905 original size:19 final size:20
Alignment explanation
Indices: 5361868--5361908 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
5361858 TACAACACAA
*
5361868 TTCAATTTCATATTTAATAT
1 TTCAATTTCATATTCAATAT
*
5361888 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
5361907 TT
1 TT
5361909 TTCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:5362332 original size:9 final size:10
Alignment explanation
Indices: 5362314--5362356 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
5362304 GCCTTGTGTC
5362314 TTTCTTTCTT
1 TTTCTTTCTT
5362324 TTT-TTTCTT
1 TTTCTTTCTT
5362333 TTTCTTTC-T
1 TTTCTTTCTT
*
5362342 TTCCTTTCTGT
1 TTTCTTTCT-T
5362353 TTTC
1 TTTC
5362357 GTTTGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 17 0.61
10 7 0.25
11 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:5362349 original size:19 final size:20
Alignment explanation
Indices: 5362314--5362356 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
5362304 GCCTTGTGTC
**
5362314 TTTCTTTCTTTTTTTTCT-T
1 TTTCTTTCTTTCCTTTCTGT
5362333 TTTCTTTCTTTCCTTTCTGT
1 TTTCTTTCTTTCCTTTCTGT
5362353 TTTC
1 TTTC
5362357 GTTTGGCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTTTCTTTCCTTTCTGT
Found at i:5362366 original size:27 final size:23
Alignment explanation
Indices: 5362313--5362366 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 23
5362303 AGCCTTGTGT
**
5362313 CTTTCTTTCTTTTTTTTCTTTTT
1 CTTTCTTTCTTTTTTTTCTTTGG
5362336 CTTTCTTTCCTTTCTGTTTTCGTTTGG
1 CTTTCTTT-CTTT-T-TTTTC-TTTGG
5362363 CTTT
1 CTTT
5362367 GGCTTTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
25 1 0.04
26 5 0.20
27 7 0.28
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.72
Consensus pattern (23 bp):
CTTTCTTTCTTTTTTTTCTTTGG
Found at i:5373442 original size:9 final size:9
Alignment explanation
Indices: 5373428--5373455 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5373418 TGAGTTTTCG
5373428 AATTCGAAT
1 AATTCGAAT
5373437 AATTCGAAT
1 AATTCGAAT
5373446 AATTCGAAT
1 AATTCGAAT
5373455 A
1 A
5373456 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:5374008 original size:17 final size:17
Alignment explanation
Indices: 5373954--5374034 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 17
5373944 TTATATCTAC
*
5373954 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
5373971 TAAATTTCATATT-TT-ATAT
1 T--ATTT-ATATTATTGA-AT
5373990 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
5374007 TATTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTGAAT
5374024 TATTTATATTA
1 TATTTATATTA
5374035 AAATTGAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
15 1 0.02
16 8 0.15
17 21 0.38
18 10 0.18
19 10 0.18
20 5 0.09
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:5376446 original size:31 final size:33
Alignment explanation
Indices: 5376392--5376452 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
5376382 ATGTGAACTT
*
5376392 TTATTTAATATTAAATTTTTTATTTTGATTCAA
1 TTATTTAATATGAAATTTTTTATTTTGATTCAA
5376425 TTATTT-ATATGAAA-TTTTTATTTTGATT
1 TTATTTAATATGAAATTTTTTATTTTGATT
5376453 TTGAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 14 0.52
32 7 0.26
33 6 0.22
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (33 bp):
TTATTTAATATGAAATTTTTTATTTTGATTCAA
Found at i:5379391 original size:75 final size:75
Alignment explanation
Indices: 5379254--5379512 Score: 315
Period size: 75 Copynumber: 3.5 Consensus size: 75
5379244 CTGACAGAAG
* * * * * * * *
5379254 TTGCGCCCAGCGCTAATCGAATATACCGACGA-ACAATTAGTGAGCCTAGCTCTAATTGGATAAA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
5379318 CCAATGATAT
66 CCAATGATAT
* * * *
5379328 TTGTGCCTAGCGCTAGTCGTATAAACCGACGATATAAATATTGAGCCTAGCTCTAGTTGGATAAA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
*
5379393 CCAATAATAT
66 CCAATGATAT
* * * * *
5379403 TTGCGCCCAGCGCTAGTCGGATAAACCAACAATATAAATAGTGAGCCCAACTCTAGTTGGATGAA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
*
5379468 CCAACGATGA-
66 CCAATGAT-AT
*
5379478 TTGCGCCTAGCGCTAGTCGGATGAACCGACAATAT
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACAATAT
5379513 CAATTACTCA
Statistics
Matches: 159, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
74 27 0.17
75 131 0.82
76 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (75 bp):
TTGCGCCTAGCGCTAGTCGGATAAACCGACAATATAAATAGTGAGCCTAGCTCTAGTTGGATAAA
CCAATGATAT
Found at i:5379437 original size:35 final size:35
Alignment explanation
Indices: 5379184--5379512 Score: 151
Period size: 35 Copynumber: 9.0 Consensus size: 35
5379174 AGCAAAAGAG
*
5379184 TTTGCGCCCAGTGCTAGTCGGATAAACCGACAA-A
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
* * * * *
5379218 TGTGTGCCCAGCACTAGTCAGATAAACTGACAGA-A
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACA-ATA
* * * * *
5379253 GTTGCGCCCAGCGCTAATCGAATATACCGACGAACAA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGAC-AA-TA
* * * * * * **
5379290 TTAGTGAGCCTAGCTCTAATTGGATAAACCAATGATA
1 TT--TGCGCCCAGCGCTAGTCGGATAAACCGACAATA
* * *
5379327 TTTGTGCCTAGCGCTAGTCGTATAAACCGACGATATAAA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGAC-A-AT--A
* * * * * *
5379366 TATTGAGCCTAGCTCTAGTTGGATAAACCAATAATA
1 T-TTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
*
5379402 TTTGCGCCCAGCGCTAGTCGGATAAACCAACAATA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
* * * * * * *
5379437 TAAATAGTGAGCCCAACTCTAGTTGGATGAACCAACGATGA
1 T---T--TGCGCCCAGCGCTAGTCGGATAAACCGACAAT-A
* *
5379478 -TTGCGCCTAGCGCTAGTCGGATGAACCGACAATA
1 TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
5379512 T
1 T
5379513 CAATTACTCA
Statistics
Matches: 219, Mismatches: 58, Indels: 35
0.70 0.19 0.11
Matches are distributed among these distances:
34 27 0.12
35 102 0.47
36 3 0.01
37 8 0.04
38 4 0.02
39 24 0.11
40 50 0.23
41 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (35 bp):
TTTGCGCCCAGCGCTAGTCGGATAAACCGACAATA
Found at i:5379471 original size:40 final size:39
Alignment explanation
Indices: 5379348--5379472 Score: 123
Period size: 40 Copynumber: 3.3 Consensus size: 39
5379338 CGCTAGTCGT
* * *
5379348 ATAAACCGACGATATAAATATTGAGCCTAGCTCTAGTTGG
1 ATAAACCAACAATATAAATA-TGAGCCCAGCTCTAGTTGG
* * * *
5379388 ATAAACCAATAATAT---T-TGCGCCCAGCGCTAGTCGG
1 ATAAACCAACAATATAAATATGAGCCCAGCTCTAGTTGG
*
5379423 ATAAACCAACAATATAAATAGTGAGCCCAACTCTAGTTGG
1 ATAAACCAACAATATAAATA-TGAGCCCAGCTCTAGTTGG
*
5379463 ATGAACCAAC
1 ATAAACCAAC
5379473 GATGATTGCG
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
35 29 0.43
37 1 0.01
38 1 0.01
40 36 0.54
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (39 bp):
ATAAACCAACAATATAAATATGAGCCCAGCTCTAGTTGG
Found at i:5380990 original size:25 final size:26
Alignment explanation
Indices: 5380956--5381015 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
5380946 TTTAAAATAC
* *
5380956 TTTTAAAAT-ATTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
5380981 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
*
5381007 TTTAAAAAT
1 TTTTAAAAT
5381016 GGGCCGGTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTAATGTTTAT
Found at i:5385195 original size:5 final size:5
Alignment explanation
Indices: 5385187--5385212 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5385177 AAATTTTCAC
5385187 ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA A
5385213 AATATATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTA
Done.