Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 31
Found at i:2265383 original size:39 final size:39
Alignment explanation
Indices: 2265299--2265852 Score: 745
Period size: 39 Copynumber: 14.3 Consensus size: 39
2265289 TGACAAAATT
* * *
2265299 TGTTTCAAGGGAAACTGTCTCAAGAGAGAGAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * * * *
2265335 TGTTTCGAGGGAAATTATTTCAACCGAGACAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2265374 TGTTTCGAGGGAAACTTGTCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAAC-TATCTCAAGCGAGATAAAATCTTC
* *
2265414 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2265453 TTTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2265492 TGTTTCGAGGGAAACTATCTCAAGCGGGAAAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * *
2265531 TGTTTCAAGGAAAACTATCTCCAGAGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*** *
2265570 TGTTTCAAATAAAACTGTCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2265609 TGTTTCAAGGGAAACTATCTCAAGCAAGACAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2265648 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2265687 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2265726 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2265765 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2265804 TATTTCAAGTGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2265843 TGTTTCAAGG
1 TGTTTCAAGG
2265853 AAAAACAATC
Statistics
Matches: 461, Mismatches: 53, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
36 27 0.06
38 2 0.00
39 397 0.86
40 35 0.08
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:2271765 original size:39 final size:39
Alignment explanation
Indices: 2271180--2271735 Score: 769
Period size: 39 Copynumber: 14.3 Consensus size: 39
2271170 TGAAAAAATT
* * *
2271180 TGTTTCAAGGGAAACTGTCTCAAGAGAGAGAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2271216 TGTTTCGAGGGAAACTTGTCTCAAGTGAGATAAAATCTTC
1 TGTTTCAAGGGAAAC-TATCTCAAGCGAGATAAAATCTTC
* *
2271256 TGTTTCGAGGGAAACATGTCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAAC-TATCTCAAGCGAGATAAAATCTTC
* * * * *
2271296 AGTTTCGAGGGAAACATGTCTCAAGTGAGATAAAATCTTT
1 TGTTTCAAGGGAAAC-TATCTCAAGCGAGATAAAATCTTC
* *
2271336 TGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2271375 TGTTTCGAGGGAAACTATCTCAAGCGAGAAAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
2271414 TGTTTCGAGGGAAACTATCTCAAGAGAGA-AAATATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAA-ATCTTC
* * * *
2271453 TGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
2271492 TTTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
2271531 TGTTTCAAGGGAAACTATCTCAAGCAAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2271570 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2271609 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2271648 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
2271687 TATTTCAAGTGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2271726 TGTTTCAAGG
1 TGTTTCAAGG
2271736 AAAAACAATC
Statistics
Matches: 480, Mismatches: 34, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
36 14 0.03
37 17 0.04
38 3 0.01
39 354 0.74
40 92 0.19
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:2278163 original size:2 final size:2
Alignment explanation
Indices: 2278158--2278183 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2278148 GCAAAAATGA
2278158 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2278184 GCTAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2279495 original size:39 final size:39
Alignment explanation
Indices: 2279409--2279923 Score: 757
Period size: 39 Copynumber: 13.3 Consensus size: 39
2279399 TGACAAAATT
* * *
2279409 TGTTTCAAGGGAAACTGTCTCAAGAGAGAGAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2279445 TGTTTCGAGGGAAATTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2279484 TGTTTCGAGGGAAACTTGTCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAAC-TATCTCAAGCGAGATAAAATCTTC
* *
2279524 TGTTTCGAGGGAAACTATCTCAAGCGAGAAAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2279563 TTTTTCGAGGGAAACTATCTCAAGCGAGAAAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * *
2279602 TGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2279641 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2279680 TGTTTCAATGGAAACTATCTCAAGCAAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2279719 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2279758 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
2279797 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2279836 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
2279875 TATTTCAAGTGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
2279914 TGTTTCAAGG
1 TGTTTCAAGG
2279924 AAAAACAATC
Statistics
Matches: 437, Mismatches: 38, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
36 29 0.07
38 2 0.00
39 370 0.85
40 36 0.08
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:2279666 original size:117 final size:116
Alignment explanation
Indices: 2279407--2279998 Score: 755
Period size: 117 Copynumber: 5.1 Consensus size: 116
2279397 TCTGACAAAA
* * * * *
2279407 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAGAAAA--TTTGTTTCGAGGGAAATTATCTCAAGC
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTTGTTTCAAGGGAAACTATCTCAAGC
* * * *
2279470 GAGACAAAATCTTCTGTTTCGAGGGAAACTTGTCTCAAGCGAGATAAAATCT
66 GAGAAAAAATCTTCTGTTTCAAGGGAAAC-TATCTCAAGCGAGACAAAATCT
* * * *
2279522 TTTGTTTCGAGGGAAACTATCTCAAGCGAGAAAAAATCTTCTTTTTCGAGGGAAACTATCTCAAG
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTT-TGTTTCAAGGGAAACTATCTCAAG
* *
2279587 CGAGAAAAAATCTTCTGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATCT
65 CGAGAAAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCT
*
2279639 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAATGGAAACTATCTCAAG
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTT-TGTTTCAAGGGAAACTATCTCAAG
* *
2279704 CAAGACAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCT
65 CGAGAAAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCT
*
2279756 TCTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTATGTTTCAAGGGAAACTATCTCAAG
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTT-TGTTTCAAGGGAAACTATCTCAAG
* * *
2279821 CGAGATAAAATATTCTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
65 CGAGAAAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCT
* * * * * **
2279873 TCTATTTCAAGTGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGA
1 TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATC-TTTGTTTCAAGG-GAAACTATCTCAA
* * * ** *
2279938 GTGA-AATAAATCTTCTTATTTCAAGTAAAAAATATCTCAAGCGAGAC-AAATC-
64 GCGAGAAAAAATCTTC-TGTTTCAAG-GGAAACTATCTCAAGCGAGACAAAATCT
2279990 -TTGTTTCAA
1 TTTGTTTCAA
2279999 CATGTAGTGA
Statistics
Matches: 425, Mismatches: 45, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
115 32 0.08
116 7 0.02
117 293 0.69
118 76 0.18
119 17 0.04
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (116 bp):
TTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTTGTTTCAAGGGAAACTATCTCAAGC
GAGAAAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCT
Found at i:2279949 original size:78 final size:77
Alignment explanation
Indices: 2279409--2279998 Score: 676
Period size: 78 Copynumber: 7.6 Consensus size: 77
2279399 TGACAAAATT
* * * * *
2279409 TGTTTCAAGGGAAACTGTCTCAAGAGAGAGAAAA--TT-TGTTTCGAGGGAAATTATCTCAAGCG
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
2279471 AGACA-AAATCTTC
66 A-A-ATAAATCTTC
* * * *
2279484 TGTTTCGAGGGAAACTTGTCTCAAGCGAGATAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGC
1 TGTTTCAAGGGAAAC-TATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGC
*
2279549 GAGAAAAAATCTTC
65 GA-AATAAATCTTC
* * * * *
2279563 TTTTTCGAGGGAAACTATCTCAAGCGAGAAAAAATCTTCTGTTTCAAGGAAAACTATCTCAAGAG
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
*
2279628 AGACA-AAATCTTT
66 A-A-ATAAATCTTC
*
2279641 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAATGGAAACTATCTCAAGC-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
*
2279705 AAGACAAAATCTTC
66 AA-A-TAAATCTTC
*
2279719 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
* *
2279784 AGATAAAATCTTA
66 AAAT-AAATCTTC
*
2279797 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATATTCTGTTTCAAGGGAAACTATCTCAAGCG
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
*
2279862 AGATAAAATCTTC
66 AAAT-AAATCTTC
* * * * * ** *
2279875 TATTTCAAGTGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAGT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGG-GAAACTATCTCAAGC
2279940 GAAATAAATCTTC
65 GAAATAAATCTTC
* ** * *
2279953 TTATTTCAAGTAAAAAATATCTCAAGCGAGA-CAAATC-T-TGTTTCAA
1 -TGTTTCAAG-GGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAA
2279999 CATGTAGTGA
Statistics
Matches: 460, Mismatches: 42, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
75 14 0.03
76 19 0.04
77 9 0.02
78 321 0.70
79 80 0.17
80 17 0.04
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (77 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCG
AAATAAATCTTC
Found at i:2291541 original size:25 final size:23
Alignment explanation
Indices: 2291504--2291591 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
2291494 TTACTTCTTT
**
2291504 TAAAAAAAAATTAAAATATGAAGTA
1 TAAAAAATTATTAAAATATGAA--A
* *
2291529 TAAAAAATTATTAAGATATTAAA
1 TAAAAAATTATTAAAATATGAAA
* *
2291552 TAAATTAATTATTAAAATATTAAA
1 TAAA-AAATTATTAAAATATGAAA
*
2291576 -AAATCAATTATTAAAA
1 TAAA-AAATTATTAAAA
2291592 AAAATCAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.36
24 17 0.31
25 18 0.33
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (23 bp):
TAAAAAATTATTAAAATATGAAA
Found at i:2291554 original size:23 final size:24
Alignment explanation
Indices: 2291513--2291591 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 24
2291503 TTAAAAAAAA
*
2291513 ATTAAAATATGAAGTATAAA-AAATT
1 ATTAAAATATTAA--ATAAATAAATT
* *
2291538 ATTAAGATATTAAATAAATTAATT
1 ATTAAAATATTAAATAAATAAATT
*
2291562 ATTAAAATATTAAA-AAATCAATT
1 ATTAAAATATTAAATAAATAAATT
2291585 ATTAAAA
1 ATTAAAA
2291592 AAAATCAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 20 0.42
24 17 0.35
25 11 0.23
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTAAAATATTAAATAAATAAATT
Found at i:2291592 original size:24 final size:24
Alignment explanation
Indices: 2291534--2291591 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
2291524 AAGTATAAAA
* *
2291534 AATTATTAAGATATTAAATAAATT
1 AATTATTAAAATATTAAATAAATC
2291558 AATTATTAAAATATTAAA-AAATC
1 AATTATTAAAATATTAAATAAATC
2291581 AATTATTAAAA
1 AATTATTAAAA
2291592 AAAATCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AATTATTAAAATATTAAATAAATC
Found at i:2291834 original size:24 final size:24
Alignment explanation
Indices: 2291801--2291862 Score: 115
Period size: 24 Copynumber: 2.5 Consensus size: 24
2291791 AAAACATCTT
2291801 TTTTCTGTTTTCATATTTTCAATTA
1 TTTT-TGTTTTCATATTTTCAATTA
2291826 TTTTTGTTTTCATATTTTCAATTA
1 TTTTTGTTTTCATATTTTCAATTA
2291850 TTTTTGTTTTCAT
1 TTTTTGTTTTCAT
2291863 TTTCCAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 33 0.89
25 4 0.11
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTTTGTTTTCATATTTTCAATTA
Found at i:2292784 original size:2 final size:2
Alignment explanation
Indices: 2292777--2292802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2292767 AAAGCTTACG
2292777 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2292803 GAAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2295030 original size:35 final size:35
Alignment explanation
Indices: 2294983--2295094 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
2294973 AAGACATTCC
*
2294983 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
2295018 TCAATTTTATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* * * *
2295053 TCAATTACATTCTAAAACCCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
2295088 TCAATTT
1 TCAATTT
2295095 AAGGAGGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:2295864 original size:57 final size:57
Alignment explanation
Indices: 2295776--2295961 Score: 318
Period size: 57 Copynumber: 3.3 Consensus size: 57
2295766 CACAGTTTCC
* **
2295776 AAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
1 AAAATCTCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
*
2295833 AAAATCTCGTTGCGATAACATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
1 AAAATCTCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
* *
2295890 AAAATCACGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTA
1 AAAATCTCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
2295947 AAAATCTCGTTGCGA
1 AAAATCTCGTTGCGA
2295962 ATTTGAAAAT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 121 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (57 bp):
AAAATCTCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
Found at i:2295959 original size:20 final size:20
Alignment explanation
Indices: 2295933--2295981 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
2295923 TCGGTAATTA
2295933 GCGTTGCGAATTTAAAAATC
1 GCGTTGCGAATTTAAAAATC
* *
2295953 TCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTAAAAATC
2295973 GCGTTGCGA
1 GCGTTGCGA
2295982 TAGTACTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (20 bp):
GCGTTGCGAATTTAAAAATC
Found at i:2296034 original size:20 final size:20
Alignment explanation
Indices: 2296006--2296078 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2295996 TATATCGGTA
2296006 ATTAGCGTTGCGATTTACAT
1 ATTAGCGTTGCGATTTACAT
* *
2296026 ATTATCGTTGCAATTTACAT
1 ATTAGCGTTGCGATTTACAT
*
2296046 ATTCGCGTTGCGATTTATC-T
1 ATTAGCGTTGCGATTTA-CAT
*
2296066 ATTCGCGTTGCGA
1 ATTAGCGTTGCGA
2296079 ATTTGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 46 0.98
21 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTAGCGTTGCGATTTACAT
Found at i:2296034 original size:77 final size:77
Alignment explanation
Indices: 2295871--2296059 Score: 258
Period size: 77 Copynumber: 2.5 Consensus size: 77
2295861 CTATATCGGT
* *
2295871 AATTAGCGTTGCGAATTTGAAAATCACGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
1 AATTATCGTTGCGAATTTGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
2295936 TTGCGAATTTAA
66 TTGCGAATTTAA
* * **
2295948 AAATCTCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
1 AATTATCGTTGCGAATTTGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
2296013 TTGCG-ATTTACA
66 TTGCGAATTTA-A
* *
2296025 TATTATCGTTGC-AATTT-ACATATTCGCGTTGCGAT
1 AATTATCGTTGCGAATTTGA-A-AATCGCGTTGCGAT
2296060 TTATCTATTC
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
75 1 0.01
76 11 0.11
77 87 0.88
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (77 bp):
AATTATCGTTGCGAATTTGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
TTGCGAATTTAA
Found at i:2296173 original size:56 final size:58
Alignment explanation
Indices: 2296070--2296192 Score: 187
Period size: 56 Copynumber: 2.2 Consensus size: 58
2296060 TTATCTATTC
* *
2296070 GCGTTGCGAATTTGGAAAATCGCGTTGTGATAACACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGGAAAATCGAGTTGCGATAACACTGTTTACCTATATCGGTAATTA
* **
2296128 GCGTTGCGAATTT-GTAAATCGAGTT-CGATAGTACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGGAAAATCGAGTTGCGATAACACTGTTTACCTATATCGGTAATTA
2296184 GCGTTGCGA
1 GCGTTGCGA
2296193 TTTACATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 37 0.62
57 10 0.17
58 13 0.22
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (58 bp):
GCGTTGCGAATTTGGAAAATCGAGTTGCGATAACACTGTTTACCTATATCGGTAATTA
Found at i:2296217 original size:134 final size:135
Alignment explanation
Indices: 2296050--2296327 Score: 427
Period size: 134 Copynumber: 2.1 Consensus size: 135
2296040 TTACATATTC
* * *
2296050 GCGTTGCGATTTATCTATTCGCGTTGCGAATTTGGAAAATCGCGTTGTGATAACACTGTTTACCT
1 GCGTTGCGATTTATCTATTCGCGTTGCGAATTTGGAAAATCGCATTGCGATAACACTGTTTACAT
* * *
2296115 ATATCGGTAATTAGCGTTGCGAATTTGTAAATCG-AGTT-CGATAGTACTGTTTACCTATATCGG
66 ATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCA-TTGCGATAGTACTGGTTACATATATCGG
2296178 TAATTA
130 TAATTA
* **
2296184 GCGTTGCGATTTA-CATATTCGCGTTGCGAATTTGGAAAATCGCATTGCGGTAACACTGTTTGTA
1 GCGTTGCGATTTATC-TATTCGCGTTGCGAATTTGGAAAATCGCATTGCGATAACACTGTTTACA
*
2296248 TATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGGTTACATATATTGG
65 TATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGGTTACATATATCGG
2296313 TAATTA
130 TAATTA
2296319 GCGTTGCGA
1 GCGTTGCGA
2296328 ATTTGAAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
133 1 0.01
134 92 0.70
135 38 0.29
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (135 bp):
GCGTTGCGATTTATCTATTCGCGTTGCGAATTTGGAAAATCGCATTGCGATAACACTGTTTACAT
ATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGGTTACATATATCGGT
AATTA
Found at i:2296288 original size:57 final size:57
Alignment explanation
Indices: 2296204--2296384 Score: 272
Period size: 57 Copynumber: 3.2 Consensus size: 57
2296194 TTACATATTC
* * **
2296204 GCGTTGCGAATTTGGAAAATCGCATTGCGGTAACACTGTTTGTATATATCGGTAATTA
1 GCGTTGCGAATTT-GAAAATCGCATTGCGATAATACTGTTTACATATATCGGTAATTA
* * *
2296262 GCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGGTTACATATATTGGTAATTA
1 GCGTTGCGAATTTGAAAATCGCATTGCGATAATACTGTTTACATATATCGGTAATTA
* *
2296319 GCGTTGCGAATTTGAAAATCGCGTTGCGATAATACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGAAAATCGCATTGCGATAATACTGTTTACATATATCGGTAATTA
2296376 GCGTTGCGA
1 GCGTTGCGA
2296385 TTTACATATT
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
57 98 0.88
58 13 0.12
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (57 bp):
GCGTTGCGAATTTGAAAATCGCATTGCGATAATACTGTTTACATATATCGGTAATTA
Found at i:2296397 original size:192 final size:192
Alignment explanation
Indices: 2296070--2296417 Score: 581
Period size: 192 Copynumber: 1.8 Consensus size: 192
2296060 TTATCTATTC
* * * *
2296070 GCGTTGCGAATTTGGAAAATCGCGTTGTGATAACACTGTTTACCTATATCGGTAATTAGCGTTGC
1 GCGTTGCGAATTTGGAAAATCGCATTGCGATAACACTGGTTACATATATCGGTAATTAGCGTTGC
* *
2296135 GAATTTGTAAATCGAGTTCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACAT
66 GAATTTGAAAATCGAGTTCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACAT
*
2296200 ATTCGCGTTGCGAATTTGGAAAATCGCATTGCGGTAACACTGTTTGTATATATCGGTAATTA
131 ATTCGCGTTGCGAATTTAGAAAATCGCATTGCGGTAACACTGTTTGTATATATCGGTAATTA
** *
2296262 GCGTTGCGAATTT-GAAAATCGCATTGCGATAGTACTGGTTACATATATTGGTAATTAGCGTTGC
1 GCGTTGCGAATTTGGAAAATCGCATTGCGATAACACTGGTTACATATATCGGTAATTAGCGTTGC
*
2296326 GAATTTGAAAATCGCGTTGCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACA
66 GAATTTGAAAATCGAGTT-CGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACA
2296391 TATTCGCGTTGCGAATTTAGAAAATCG
130 TATTCGCGTTGCGAATTTAGAAAATCG
2296418 TGTTGCAATT
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
191 60 0.42
192 84 0.58
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (192 bp):
GCGTTGCGAATTTGGAAAATCGCATTGCGATAACACTGGTTACATATATCGGTAATTAGCGTTGC
GAATTTGAAAATCGAGTTCGATAATACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACAT
ATTCGCGTTGCGAATTTAGAAAATCGCATTGCGGTAACACTGTTTGTATATATCGGTAATTA
Found at i:2297090 original size:35 final size:35
Alignment explanation
Indices: 2297041--2297153 Score: 156
Period size: 35 Copynumber: 3.2 Consensus size: 35
2297031 TAAAAAAACA
* * *
2297041 GAAATTGAAGTATTTTAGAATTTGAGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGAGGTTTAGAAT
*
2297076 GTAATTGAATTATTTTGGAATTT-AGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGA-GGTTTAGAAT
* *
2297111 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGAGGTTTAGAAT
2297146 GAAATTGA
1 GAAATTGA
2297154 GGATTGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.01
35 68 0.99
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (35 bp):
GAAATTGAATTATTTTGGAATTTGAGGTTTAGAAT
Found at i:2298486 original size:14 final size:14
Alignment explanation
Indices: 2298467--2298521 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
2298457 CGTTCGTGAA
2298467 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
2298481 CGTTCG-GTATG-T
1 CGTTCGATTATGTT
*
2298493 --TT-GTTTATGTT
1 CGTTCGATTATGTT
2298504 CGTTCGATTATGTT
1 CGTTCGATTATGTT
2298518 CGTT
1 CGTT
2298522 TATGTTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
9 1 0.03
10 6 0.18
11 1 0.03
12 1 0.03
13 6 0.18
14 18 0.55
ACGTcount: A:0.11, C:0.13, G:0.24, T:0.53
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:2298502 original size:23 final size:24
Alignment explanation
Indices: 2298468--2298528 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
2298458 GTTCGTGAAC
*
2298468 GTTCGATTATGTTCGTTCG-GTAT
1 GTTCGTTTATGTTCGTTCGAGTAT
* *
2298491 GTTTGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGAGTAT
2298515 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
2298529 ATTCATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.54
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGAGTAT
Found at i:2298522 original size:24 final size:24
Alignment explanation
Indices: 2298468--2298541 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
2298458 GTTCGTGAAC
* *
2298468 GTTCGATTATGTTCGTTCG-GTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
2298491 GTTTGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
2298515 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
2298539 GTT
1 GTT
2298542 TAACTCAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:2299305 original size:29 final size:29
Alignment explanation
Indices: 2299264--2299324 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
2299254 CCAACGTTTA
2299264 GTTCGTTATGTTCGTGTTC-ATTATGTTC
1 GTTCGTTATGTTCGTGTTCGATTATGTTC
*
2299292 GTTCGTTTATGTTCGTGTTCGTTTATGTTC
1 GTTCG-TTATGTTCGTGTTCGATTATGTTC
2299322 GTT
1 GTT
2299325 TATTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 5 0.17
29 14 0.47
30 11 0.37
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (29 bp):
GTTCGTTATGTTCGTGTTCGATTATGTTC
Found at i:2299313 original size:16 final size:16
Alignment explanation
Indices: 2299264--2299323 Score: 83
Period size: 16 Copynumber: 4.0 Consensus size: 16
2299254 CCAACGTTTA
2299264 GTTCG-TTATGTTCGT
1 GTTCGTTTATGTTCGT
*
2299279 GTTC-ATTATGTTC--
1 GTTCGTTTATGTTCGT
2299292 GTTCGTTTATGTTCGT
1 GTTCGTTTATGTTCGT
2299308 GTTCGTTTATGTTCGT
1 GTTCGTTTATGTTCGT
2299324 TTATTTATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
13 4 0.10
14 8 0.20
15 12 0.30
16 16 0.40
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.55
Consensus pattern (16 bp):
GTTCGTTTATGTTCGT
Found at i:2299331 original size:30 final size:29
Alignment explanation
Indices: 2299269--2299331 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
2299259 GTTTAGTTCG
*
2299269 TTATGTTCGTGTTCATTATGTTCGTTCGT
1 TTATGTTCGTGTTCATTATGTTCGTTCAT
* *
2299298 TTATGTTCGTGTTCGTTTATGTTCGTTTAT
1 TTATGTTCGTGTTC-ATTATGTTCGTTCAT
2299328 TTAT
1 TTAT
2299332 TAAATGAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (29 bp):
TTATGTTCGTGTTCATTATGTTCGTTCAT
Found at i:2299413 original size:16 final size:16
Alignment explanation
Indices: 2299392--2299424 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2299382 AAAAAAATTT
2299392 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2299408 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2299424 T
1 T
2299425 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2301427 original size:39 final size:36
Alignment explanation
Indices: 2301367--2301554 Score: 172
Period size: 35 Copynumber: 5.2 Consensus size: 36
2301357 TAATAATTTC
* *
2301367 AAAATATATAATATATCGTTTTTGAAAACTTA-TTTAAAA
1 AAAACATATAATATATAGTTTTT-AAAAC-TAGTTT--AA
**
2301406 AAAACATATAATATATAGTTTTTAAAA-TAGTTTTG
1 AAAACATATAATATATAGTTTTTAAAACTAGTTTAA
* **
2301441 AAAGCATATAATATATAGTTTTTAAAAC-AGTTTTG
1 AAAACATATAATATATAGTTTTTAAAACTAGTTTAA
* **
2301476 AAAACATATATTATATAGTCGTTTTAAAA-TAGTTTTG
1 AAAACATATAATATATAGT--TTTTAAAACTAGTTTAA
* *
2301513 AAAACGTATAATATATAGTTTTTAAAA-TAGTTT-G
1 AAAACATATAATATATAGTTTTTAAAACTAGTTTAA
2301547 AAAACATA
1 AAAACATA
2301555 GAAAACATAT
Statistics
Matches: 134, Mismatches: 10, Indels: 15
0.84 0.06 0.09
Matches are distributed among these distances:
34 8 0.06
35 64 0.48
36 2 0.01
37 35 0.26
38 4 0.03
39 21 0.16
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (36 bp):
AAAACATATAATATATAGTTTTTAAAACTAGTTTAA
Found at i:2301492 original size:37 final size:35
Alignment explanation
Indices: 2301406--2301554 Score: 237
Period size: 35 Copynumber: 4.2 Consensus size: 35
2301396 TTATTTAAAA
2301406 AAAACATATAATATATAGTTTTTAAAATAGTTTTG
1 AAAACATATAATATATAGTTTTTAAAATAGTTTTG
* *
2301441 AAAGCATATAATATATAGTTTTTAAAACAGTTTTG
1 AAAACATATAATATATAGTTTTTAAAATAGTTTTG
*
2301476 AAAACATATATTATATAGTCGTTTTAAAATAGTTTTG
1 AAAACATATAATATATAGT--TTTTAAAATAGTTTTG
*
2301513 AAAACGTATAATATATAGTTTTTAAAATAG-TTTG
1 AAAACATATAATATATAGTTTTTAAAATAGTTTTG
2301547 AAAACATA
1 AAAACATA
2301555 GAAAACATAT
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
34 11 0.11
35 61 0.59
37 32 0.31
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (35 bp):
AAAACATATAATATATAGTTTTTAAAATAGTTTTG
Found at i:2301509 original size:72 final size:69
Alignment explanation
Indices: 2301406--2301554 Score: 235
Period size: 72 Copynumber: 2.1 Consensus size: 69
2301396 TTATTTAAAA
*
2301406 AAAACATATAATATATAGTTTTTAAAATAGTTTTGAAAGCATATAATATATAGTTTTTAAAACAG
1 AAAACATATAATATATAGTTTTTAAAATAGTTTTGAAAACATATAATATATAGTTTTTAAAACAG
2301471 TTTTG
66 -TTTG
* * *
2301476 AAAACATATATTATATAGTCGTTTTAAAATAGTTTTGAAAACGTATAATATATAGTTTTTAAAAT
1 AAAACATATAATATATAGT--TTTTAAAATAGTTTTGAAAACATATAATATATAGTTTTTAAAAC
2301541 AGTTTG
64 AGTTTG
2301547 AAAACATA
1 AAAACATA
2301555 GAAAACATAT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 18 0.25
71 12 0.16
72 43 0.59
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (69 bp):
AAAACATATAATATATAGTTTTTAAAATAGTTTTGAAAACATATAATATATAGTTTTTAAAACAG
TTTG
Found at i:2301650 original size:36 final size:36
Alignment explanation
Indices: 2301605--2301677 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
2301595 AAACTTATGG
*
2301605 TTTTGAAAACTTATATAATATAG-TTTTGAAAACATA
1 TTTTGAAAACGTATAT-ATATAGTTTTTGAAAACATA
*
2301641 TTTTGAAAACGTATATATATGGTTTTTGAAAACATA
1 TTTTGAAAACGTATATATATAGTTTTTGAAAACATA
2301677 T
1 T
2301678 ATCTATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTGAAAACGTATATATATAGTTTTTGAAAACATA
Found at i:2301670 original size:23 final size:23
Alignment explanation
Indices: 2301641--2301694 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
2301631 TGAAAACATA
*
2301641 TTTTGAAAACGTATATATATGGT
1 TTTTGAAAACATATATATATGGT
*
2301664 TTTTGAAAACATATATCTATGGT
1 TTTTGAAAACATATATATATGGT
2301687 TTTT-AAAA
1 TTTTGAAAA
2301695 TAATAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (23 bp):
TTTTGAAAACATATATATATGGT
Found at i:2301770 original size:9 final size:9
Alignment explanation
Indices: 2301745--2301798 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
2301735 TCGTTATTAT
2301745 TATTA-TTA
1 TATTATTTA
2301753 TTATTATTTA
1 -TATTATTTA
2301763 TATTATTTA
1 TATTATTTA
*
2301772 T-TTA-TAA
1 TATTATTTA
2301779 TATATATTTA
1 TAT-TATTTA
*
2301789 TTTTATTTA
1 TATTATTTA
2301798 T
1 T
2301799 TTAAACTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
9 24 0.63
10 7 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTATTTA
Found at i:2301772 original size:13 final size:13
Alignment explanation
Indices: 2301739--2301801 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
2301729 AGTTTTTCGT
2301739 TATTA-TTA-TTA
1 TATTATTTATTTA
2301750 TTATTA-TTATTTA
1 -TATTATTTATTTA
2301763 TATTATTTATTTA
1 TATTATTTATTTA
* *
2301776 TAATATATATTTA
1 TATTATTTATTTA
*
2301789 TTTTATTTATTTA
1 TATTATTTATTTA
2301802 AACTATTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
12 13 0.30
13 31 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTTATTTA
Found at i:2313167 original size:42 final size:41
Alignment explanation
Indices: 2313075--2313175 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 41
2313065 AGGCCTTATG
* *
2313075 GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
** * *
2313116 GATAACCCGAAGGATTTAAGCATCATGCTCGAAAGACTT-CTT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTAC-A
2313158 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
2313176 TAAATTTTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:2313771 original size:233 final size:232
Alignment explanation
Indices: 2313045--2314875 Score: 2487
Period size: 233 Copynumber: 8.0 Consensus size: 232
2313035 AAGAGGGACT
* *
2313045 TGTGAAAACATCCTGCCCAAAGGCCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
1 TGTGAAAACATCATG-CCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
* *
2313110 CTTACAGATAACCCGAAGGATTTAAGCATCATGCTCGAAAGACTT-CTTGATGGCCCGAAGGACT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTAC-TGATGGCCCGAAGGACT
* * *
2313174 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACATTTAAAAAATTTCAATTTTC
129 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTC
* *
2313239 AAATTTGAATGAGAAACATTTCTCATATTTCGATG-GACA
194 AAATTTGAATGAGAAACCTTTCTCATTTTTCGA-GAGACA
* * * * *
2313278 TGTGAAAACATCCTGCCTGAAGGACTTATGGAAGGCCCGAAGTACTTATCATCTTGCTCGAAAGA
1 TGTGAAAACATCATGCC-AAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
*
2313343 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACAGATGGCCCGAAGGACTT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTT
2313408 ATAAATTTTGGAAATAG-TTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCA
130 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCA
* *
2313472 AATTTGAATGAGAAACCTTTCTCATTTTTTGAGAGAAA
195 AATTTGAATGAGAAACCTTTCTCATTTTTCGAGAGACA
* * * *
2313510 TGTGAAAAAATCATGCCCAAAGGTCTTATGAATGGCCCAAATGACTTATCATCTTGCTCGAAAGA
1 TGTGAAAACATCATG-CCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
* * * * *
2313575 CATAAAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAATTACTGATGGCCCGAAGGACTT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTT
*
2313640 ATAAATTTTGAAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCA
130 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCA
* * *
2313705 AATTTGAATGAGAAACCTCTCTTATTTTTCGAGGGACA
195 AATTTGAATGAGAAACCTTTCTCATTTTTCGAGAGACA
2313743 TGTGAAAACATCATGTCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
1 TGTGAAAACATCATG-CCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
* * * *
2313808 CTTACAGATGATCCGAAGGATTTAAACATCGTGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTT
* * *
2313873 ATAAATTTTGGAAATAGTTTACTATGTAAGAAACCTTTCTTACTTTTAAAAATATTTTAATTTTC
130 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAA-ATTTCAATTTTC
* * *
2313938 AAATTTGAATGAAAAACCTTTCTCGTTTTTCAAGAGACA
194 AAATTTGAATGAGAAACCTTTCTCATTTTTCGAGAGACA
* *
2313977 TGTG-AAACATCATGCCCAAAGGTCTTATGGATGGTCCGAAGAACTTATCATCTTGCTCGAAAGA
1 TGTGAAAACATCATG-CCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
* * *
2314041 CTTACAGATGACCCGAAGGATTTAGGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTT
*
2314106 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCACAAATTTCAATTTTCA
130 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCA
* * *
2314171 GATTTGAATAAGAAACCTTTCTCATTTTTCGATAGACA
195 AATTTGAATGAGAAACCTTTCTCATTTTTCGAGAGACA
** * *
2314209 TGTGAAAACATC-TCGCCAAAATTTCTTATGGATGACCCGAAGGACTTATCATCTTGCTTGAAAG
1 TGTGAAAACATCAT-GCC-AAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAG
* * *
2314273 ACTTACAGATGTCCCGAAAGAATTAAGCAT-ATGCTCAAAAGACTTACTGATGGCCCGAAGGACT
64 ACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACT
* * * *
2314337 TTTAAA-ATTGGAAATAGTTTATTAGGTAAGCAACCTTTCTTACTTTTCAAAAATTTCAATTTTC
129 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTC
* **
2314401 AAATTTGAATGAGAATA-TTTTCTC-TTTTTTTA-AGACA
194 AAATTTGAATGAGAA-ACCTTTCTCATTTTTCGAGAGACA
* * * * * ** *
2314438 TGTGAAAGCATCCTGTCCAAAGGTTTTATGGATGGCCAGAAGGACTTATCGTCTTTATCGAAAAA
1 TGTGAAAACATCATG-CCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGA
* * **
2314503 CTTACAGATGACCCGAATGATTTAATCATCATGCTCAAAAGACTTACTGATGGAGCGAAGGACTT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTT
* *
2314568 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTGCTTTTGAAAAATTTCAATTTCTC
130 ATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTT-TC
* * * *
2314633 AGATTTGAATGAGAAACCCTTCTCATTTTTTGATAGACA
194 AAATTTGAATGAGAAACCTTTCTCATTTTTCGAGAGACA
* *
2314672 TGTG--AA-A--A---C--A--TC------AT-GCCCGAAGGACTTATCATTTTGCTCAAAAGAC
1 TGTGAAAACATCATGCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGAC
* * ** * * * *
2314718 TCACAAATGTTCCAAAGGATTTAAGCATCATTCTCAAAAGACTTACTAATGGCCCGAAAGACTTA
66 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTA
* * * *
2314783 TAAATTTTGGAAATAGTTTACTAGGTTAGAAACCTTTCTTACATTTAAAAAATTTCAATTTTCAG
131 TAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAA
2314848 ATTTGAATGAGAAACCTTTCTCATTTTT
196 ATTTGAATGAGAAACCTTTCTCATTTTT
2314876 TGATTTTTTT
Statistics
Matches: 1429, Mismatches: 151, Indels: 56
0.87 0.09 0.03
Matches are distributed among these distances:
213 31 0.02
214 135 0.09
215 2 0.00
221 1 0.00
223 1 0.00
225 1 0.00
229 79 0.06
230 46 0.03
231 127 0.09
232 317 0.22
233 631 0.44
234 58 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (232 bp):
TGTGAAAACATCATGCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGAC
TTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTA
TAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCAA
ATTTGAATGAGAAACCTTTCTCATTTTTCGAGAGACA
Found at i:2313846 original size:42 final size:41
Alignment explanation
Indices: 2313773--2313873 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
2313763 AGGTCTTATG
* * *
2313773 GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA
1 GATGACCCGAAGGACTTAACATCGTGCTCGAAAGACTTACA
* * *
2313814 GATGATCCGAAGGATTTAAACATCGTGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AACATCGTGCTCGAAAGACTTACA
*
2313856 GATGGCCCGAAGGACTTA
1 GATGACCCGAAGGACTTA
2313874 TAAATTTTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 15 0.30
42 35 0.70
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAACATCGTGCTCGAAAGACTTACA
Found at i:2314289 original size:41 final size:41
Alignment explanation
Indices: 2314239--2314337 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 41
2314229 ATTTCTTATG
* * **
2314239 GATGACCCGAAGGACTT-ATCATCTTGCTTGAAAGACTTACA
1 GATGACCCGAAGGACTTAAGCAT-ATGCTCAAAAGACTTACA
* * * *
2314280 GATGTCCCGAAAGAATTAAGCATATGCTCAAAAGACTTACT
1 GATGACCCGAAGGACTTAAGCATATGCTCAAAAGACTTACA
*
2314321 GATGGCCCGAAGGACTT
1 GATGACCCGAAGGACTT
2314338 TTAAAATTGG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 42 0.91
42 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAAGCATATGCTCAAAAGACTTACA
Found at i:2318873 original size:11 final size:11
Alignment explanation
Indices: 2318850--2318883 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2318840 ATGCGAAACA
*
2318850 GTAAATACAAT
1 GTAAATGCAAT
*
2318861 GTAGATGCAAT
1 GTAAATGCAAT
2318872 GTAAATGCAAT
1 GTAAATGCAAT
2318883 G
1 G
2318884 CAAGGTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (11 bp):
GTAAATGCAAT
Found at i:2321525 original size:6 final size:5
Alignment explanation
Indices: 2321499--2321528 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
2321489 AAACAACATG
2321499 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
2321529 GTAGGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2322117 original size:20 final size:21
Alignment explanation
Indices: 2322092--2322143 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2322082 TTTTCCCAAT
*
2322092 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2322112 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2322133 TCGCAATGCGA
1 TCGCAATGCGA
2322144 TACTGATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2322157 original size:20 final size:20
Alignment explanation
Indices: 2322132--2322239 Score: 101
Period size: 20 Copynumber: 5.3 Consensus size: 20
2322122 AATTGGGAAA
*
2322132 ATCGCAATGCGATACTGATT
1 ATCGCAATGCGATACTGACT
*
2322152 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
2322172 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
2322193 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
2322213 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
*
2322233 TTCGCAA
1 ATCGCAA
2322240 CGCGTTTTAC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 57 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:2322176 original size:61 final size:61
Alignment explanation
Indices: 2322129--2322243 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
2322119 GCGAATTGGG
* * * * *
2322129 AAAATCGCAATGCGATACTGA-TTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTT-TCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
2322190 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCG
1 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATACTGACTATCGCAACGCG
2322244 TTTTACATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
61 44 0.96
62 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTTTCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:2322795 original size:19 final size:19
Alignment explanation
Indices: 2322757--2322823 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2322747 TTCGAGAATG
2322757 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
2322777 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
2322796 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
2322815 AAAATCGCA
1 AAAATCGCA
2322824 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2322841 original size:19 final size:19
Alignment explanation
Indices: 2322819--2322860 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
2322809 GAAACCAAAA
2322819 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2322838 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2322857 TCGC
1 TCGC
2322861 GATTTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2322862 original size:14 final size:14
Alignment explanation
Indices: 2322845--2322878 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2322835 ATTTCGCGTT
2322845 GCGATTTTCATTTC
1 GCGATTTTCATTTC
2322859 GCGATTTTCATTTC
1 GCGATTTTCATTTC
2322873 GCGATT
1 GCGATT
2322879 CTCTCGTCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (14 bp):
GCGATTTTCATTTC
Found at i:2322915 original size:33 final size:34
Alignment explanation
Indices: 2322873--2322948 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
2322863 TTTTCATTTC
2322873 GCGATTCTCTCGTCGCGATAGTCATTT-CGCGTT
1 GCGATTCTCTCGTCGCGATAGTCATTTCCGCGTT
*
2322906 GCGATTCTCTCGTTGCGATAGTCATTTCCGCGTT
1 GCGATTCTCTCGTCGCGATAGTCATTTCCGCGTT
2322940 GCGATTCTC
1 GCGATTCTC
2322949 ATTATCTCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 26 0.63
34 15 0.37
ACGTcount: A:0.12, C:0.28, G:0.24, T:0.37
Consensus pattern (34 bp):
GCGATTCTCTCGTCGCGATAGTCATTTCCGCGTT
Found at i:2322950 original size:20 final size:20
Alignment explanation
Indices: 2322916--2322965 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2322906 GCGATTCTCT
**
2322916 CGTTGCGATAGTCATT-TCCG
1 CGTTGCGATTCTCATTAT-CG
*
2322936 CGTTGCGATTCTCATTATCT
1 CGTTGCGATTCTCATTATCG
2322956 CGTTGCGATT
1 CGTTGCGATT
2322966 TTTATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTCTCATTATCG
Found at i:2325133 original size:21 final size:21
Alignment explanation
Indices: 2325109--2325175 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2325099 ATCATTCCTC
2325109 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
2325130 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCATTCA
2325151 AGAGAT-CCCTCCCACCATTCA
1 AGAG-TCCCCTCCCACCATTCA
2325172 AGAG
1 AGAG
2325176 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:2326534 original size:14 final size:14
Alignment explanation
Indices: 2326515--2326550 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2326505 ATTGTTTAAT
2326515 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2326529 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
2326543 TGATTTGT
1 TGATTTGT
2326551 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2326732 original size:19 final size:19
Alignment explanation
Indices: 2326665--2326723 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
2326655 CTATCACAAT
2326665 GCGAAATGAAAATCGCAA-
1 GCGAAATGAAAATCGCAAC
*
2326683 -CG--A-GAGAATCGCAAC
1 GCGAAATGAAAATCGCAAC
2326698 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
2326717 GCGAAAT
1 GCGAAAT
2326724 TAAATTCGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.53
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAC
Found at i:2326750 original size:19 final size:19
Alignment explanation
Indices: 2326728--2326850 Score: 69
Period size: 19 Copynumber: 7.3 Consensus size: 19
2326718 CGAAATTAAA
2326728 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2326747 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
2326762 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
2326780 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
2326794 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
2326813 TTTGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
2326828 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
2326846 TTCGC
1 TTCGC
2326851 ATTAATATAG
Statistics
Matches: 73, Mismatches: 16, Indels: 30
0.61 0.13 0.25
Matches are distributed among these distances:
14 28 0.38
16 6 0.08
17 6 0.08
19 33 0.45
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:2326774 original size:33 final size:32
Alignment explanation
Indices: 2326732--2326853 Score: 183
Period size: 33 Copynumber: 3.7 Consensus size: 32
2326722 ATTAAATTCG
2326732 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
2326765 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
2326798 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
2326831 CGTTGCGATTTTCATTTCGCATT
1 CGTTGCGATTTTCATTTCGCATT
2326854 AATATAGTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
31 3 0.04
33 75 0.93
35 3 0.04
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:2326810 original size:66 final size:66
Alignment explanation
Indices: 2326725--2326853 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 66
2326715 ACGCGAAATT
2326725 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
2326790 G
66 G
* *
2326791 AAATTCGCGTTGCGATTTTCATTTTGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATT
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATT
2326854 AATATAGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:2329947 original size:12 final size:12
Alignment explanation
Indices: 2329926--2329957 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2329916 TGCCGGATGG
2329926 GGAA-GGATATA
1 GGAACGGATATA
2329937 GGAACGGATATA
1 GGAACGGATATA
2329949 GGAACGGAT
1 GGAACGGAT
2329958 GTCGCCAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.41, C:0.06, G:0.38, T:0.16
Consensus pattern (12 bp):
GGAACGGATATA
Found at i:2330143 original size:20 final size:20
Alignment explanation
Indices: 2330118--2330165 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2330108 TGTATTATCT
2330118 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
2330138 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
*
2330158 CATTGCGA
1 CGTTGCGA
2330166 TTTTCCCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:2330277 original size:21 final size:21
Alignment explanation
Indices: 2330237--2330277 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2330227 ACTGTAGACC
**
2330237 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
2330258 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
2330278 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:2331642 original size:3 final size:3
Alignment explanation
Indices: 2331634--2331682 Score: 80
Period size: 3 Copynumber: 15.7 Consensus size: 3
2331624 TGAAGCTTGC
2331634 AAT AAT AAT AAT AAT AAT AAT AAT AAGTT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT
2331681 AA
1 AA
2331683 CAACAACAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 41 0.93
5 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2331666 original size:23 final size:23
Alignment explanation
Indices: 2331639--2331682 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2331629 CTTGCAATAA
2331639 TAATAATAATAATAATAATAAGT
1 TAATAATAATAATAATAATAAGT
2331662 TAATAATAATAATAATAATAA
1 TAATAATAATAATAATAATAA
2331683 CAACAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
TAATAATAATAATAATAATAAGT
Found at i:2331833 original size:14 final size:14
Alignment explanation
Indices: 2331782--2331838 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
2331772 TAGTGTTTTA
*
2331782 AGTTAGGATTT-GG
1 AGTTAGGGTTTAGG
*
2331795 AGTTTAGGGGTTAGG
1 AG-TTAGGGTTTAGG
*
2331810 AGTTATGGTTTAGG
1 AGTTAGGGTTTAGG
2331824 -GCTTAGGGTTTAGG
1 AG-TTAGGGTTTAGG
2331838 A
1 A
2331839 TTCATGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 28 0.80
15 4 0.11
ACGTcount: A:0.21, C:0.02, G:0.40, T:0.37
Consensus pattern (14 bp):
AGTTAGGGTTTAGG
Found at i:2332945 original size:18 final size:17
Alignment explanation
Indices: 2332922--2332985 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 17
2332912 TGCTACTTCC
2332922 TTTAAAGCATGTAGTGCA
1 TTTAAAGCATGTAGT-CA
*
2332940 TTTAAAACATGTAGTCA
1 TTTAAAGCATGTAGTCA
*
2332957 TTTAAAGCTTGT--TCA
1 TTTAAAGCATGTAGTCA
*
2332972 -TTAAAGCATATAGT
1 TTTAAAGCATGTAGT
2332986 TAAATTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.23
15 3 0.08
16 1 0.03
17 12 0.31
18 14 0.36
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (17 bp):
TTTAAAGCATGTAGTCA
Found at i:2333066 original size:18 final size:17
Alignment explanation
Indices: 2333021--2333093 Score: 85
Period size: 18 Copynumber: 4.2 Consensus size: 17
2333011 AGTATGTTGA
2333021 TTCATTCAA-TAAAGCTAG
1 TTCATT-AATTAAA-CTAG
*
2333039 TTCATTAATTAAATTAG
1 TTCATTAATTAAACTAG
**
2333056 TTCATTCAATTAAACTCT
1 TTCATT-AATTAAACTAG
2333074 TTCATTAATTAAACTAG
1 TTCATTAATTAAACTAG
2333091 TTC
1 TTC
2333094 CTTTAGAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
17 23 0.49
18 24 0.51
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.42
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:2333078 original size:35 final size:35
Alignment explanation
Indices: 2333021--2333093 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
2333011 AGTATGTTGA
*
2333021 TTCATTCAATAAAGCTAGTTCATTAATTAAATTAG
1 TTCATTCAATAAAGCTAGTTCATTAATTAAACTAG
**
2333056 TTCATTCAATTAAA-CTCTTTCATTAATTAAACTAG
1 TTCATTCAA-TAAAGCTAGTTCATTAATTAAACTAG
2333091 TTC
1 TTC
2333094 CTTTAGAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 30 0.88
36 4 0.12
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.42
Consensus pattern (35 bp):
TTCATTCAATAAAGCTAGTTCATTAATTAAACTAG
Found at i:2333567 original size:29 final size:29
Alignment explanation
Indices: 2333525--2333583 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2333515 TCCGCATTCA
2333525 TCCTAGGCTTCATGGGACTATTCGACTAC
1 TCCTAGGCTTCATGGGACTATTCGACTAC
2333554 TCCTAGGCTTCATGGGACTATTCGACTAC
1 TCCTAGGCTTCATGGGACTATTCGACTAC
2333583 T
1 T
2333584 AAGGAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (29 bp):
TCCTAGGCTTCATGGGACTATTCGACTAC
Found at i:2334616 original size:74 final size:71
Alignment explanation
Indices: 2334456--2334708 Score: 292
Period size: 71 Copynumber: 3.6 Consensus size: 71
2334446 ACTTTTAAAA
* *
2334456 AAAACATATAATGTAGTTTTTAAAACGAATTTTGAAAACATATAATATATAGTTTTTAAAAAAA-
1 AAAACGTATAATATAGTTTTTAAAACG-ATTTTGAAAACATATAATATATAGTTTTTAAAAAAAT
2334520 AGTTTTG
65 AGTTTTG
* * *
2334527 AAAATGTATAATATATGTTTTTAAAATGATTGTGAAAACATATAATATATAGTTATTTTAAAAAA
1 AAAACGTATAATATA-GTTTTTAAAACGATTTTGAAAACATATAATATATAG-T-TTTTAAAAAA
2334592 ATAGTTTTG
63 ATAGTTTTG
*
2334601 AAAACGTATAATATATGTTTTTTAAAACGGTTTTGAAAAC-----ATATATAGCTTTTT---AAA
1 AAAACGTATAATATA-G-TTTTTAAAACGATTTTGAAAACATATAATATATAG-TTTTTAAAAAA
*
2334658 ATA-ATTTG
63 ATAGTTTTG
**
2334666 AAAACGTATAATATAGTTTTTAAAATAATTTTGAAAACATATA
1 AAAACGTATAATATAGTTTTTAAAACGATTTTGAAAACATATA
2334709 TAGTCTTAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
63 19 0.12
64 1 0.01
65 19 0.12
66 6 0.04
69 4 0.03
70 9 0.06
71 35 0.22
72 12 0.08
73 11 0.07
74 23 0.15
75 19 0.12
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (71 bp):
AAAACGTATAATATAGTTTTTAAAACGATTTTGAAAACATATAATATATAGTTTTTAAAAAAATA
GTTTTG
Found at i:2334654 original size:32 final size:30
Alignment explanation
Indices: 2334589--2334753 Score: 136
Period size: 32 Copynumber: 5.1 Consensus size: 30
2334579 TTATTTTAAA
*
2334589 AAAATAGTTTTGAAAACGTATAATATATGTTTTTT
1 AAAACAGTTTTGAAAAC--AT-ATATA-G-TTTTT
*
2334624 AAAACGGTTTTGAAAACATATATAGCTTTTT
1 AAAACAGTTTTGAAAACATATATAG-TTTTT
* *
2334655 AAAATA-ATTTGAAAACGTATAATATAGTTTTT
1 AAAACAGTTTTGAAAAC--AT-ATATAGTTTTT
* * *
2334687 AAAATAATTTTGAAAACATATATAG-TCTT
1 AAAACAGTTTTGAAAACATATATAGTTTTT
2334716 AAAACAGTTTTGAAAACGTATAATATTAGTTTTT
1 AAAACAGTTTTGAAAAC--AT-ATA-TAGTTTTT
2334750 AAAA
1 AAAA
2334754 AGGTTTTTAA
Statistics
Matches: 110, Mismatches: 11, Indels: 19
0.79 0.08 0.14
Matches are distributed among these distances:
29 18 0.16
30 15 0.14
31 14 0.13
32 21 0.19
33 20 0.18
34 7 0.06
35 15 0.14
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (30 bp):
AAAACAGTTTTGAAAACATATATAGTTTTT
Found at i:2334772 original size:63 final size:63
Alignment explanation
Indices: 2334589--2334774 Score: 234
Period size: 63 Copynumber: 2.9 Consensus size: 63
2334579 TTATTTTAAA
* *
2334589 AAAATAGTTTTGAAAACGTATAATATATGTTTTTTAAAACGGTTTTGAAAACATATATAGCTTTT
1 AAAATAGTTTTGAAAACGTATAATATA-G-TTTTTAAAAAGGTTTTGAAAACATATATAGC-TCT
2334654 T
63 T
* *
2334655 AAAATA-ATTTGAAAACGTATAATATAGTTTTTAAAATA-ATTTTGAAAACATATATAG-TCTT
1 AAAATAGTTTTGAAAACGTATAATATAGTTTTTAAAA-AGGTTTTGAAAACATATATAGCTCTT
* *
2334716 AAAACAGTTTTGAAAACGTATAATATTAGTTTTTAAAAAGGTTTTTAAAAACTATATAT
1 AAAATAGTTTTGAAAACGTATAATA-TAGTTTTTAAAAAGG-TTTTGAAAAC-ATATAT
2334775 TATATAGTTT
Statistics
Matches: 106, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
61 8 0.08
62 18 0.17
63 39 0.37
64 10 0.09
65 25 0.24
66 6 0.06
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (63 bp):
AAAATAGTTTTGAAAACGTATAATATAGTTTTTAAAAAGGTTTTGAAAACATATATAGCTCTT
Found at i:2334864 original size:4 final size:4
Alignment explanation
Indices: 2334844--2334904 Score: 51
Period size: 4 Copynumber: 15.5 Consensus size: 4
2334834 TTATACGGTT
2334844 TTTA -TTA TTTA TGTTA TTTA -TTA -TTA TTTTA TGTTA TATTA -TTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA -TTTA T-TTA T-TTA TTTA
2334888 -TTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TT
2334905 AAATTTCGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
3 15 0.30
4 21 0.42
5 14 0.28
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:2334875 original size:15 final size:15
Alignment explanation
Indices: 2334844--2334896 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
2334834 TTATACGGTT
*
2334844 TTTATTATTTATGTTA
1 TTTATTA-TTATTTTA
2334860 TTTATTATTATTTTA
1 TTTATTATTATTTTA
2334875 TGTTA-TATTATTATTA
1 T-TTATTATTATT-TTA
2334891 TTTATT
1 TTTATT
2334897 TATTTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 18 0.55
16 15 0.45
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:2334887 original size:21 final size:19
Alignment explanation
Indices: 2334845--2334905 Score: 97
Period size: 20 Copynumber: 3.2 Consensus size: 19
2334835 TATACGGTTT
2334845 TTATTATTTATGTTATTTA
1 TTATTATTTATGTTATTTA
2334864 TTATTATTTTATGTTATATTA
1 TTATTA-TTTATGTTAT-TTA
2334885 TTATTATTTAT-TTATTTA
1 TTATTATTTATGTTATTTA
2334903 TTA
1 TTA
2334906 AATTTCGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.15
19 10 0.25
20 15 0.38
21 9 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTATTATTTATGTTATTTA
Found at i:2334903 original size:15 final size:14
Alignment explanation
Indices: 2334844--2334905 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 14
2334834 TTATACGGTT
2334844 TTTATTATTTATGTTA
1 TTTATTA-TTAT-TTA
2334860 TTTATTATTATTTTA
1 TTTATTATTA-TTTA
2334875 TGTTA-TATTA-TTA
1 T-TTATTATTATTTA
2334888 -TTA-T-TTATTTA
1 TTTATTATTATTTA
2334899 TTTATTA
1 TTTATTA
2334906 AATTTCGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
10 3 0.08
11 7 0.17
12 3 0.08
13 4 0.10
15 12 0.30
16 11 0.28
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:2337178 original size:60 final size:60
Alignment explanation
Indices: 2337105--2337238 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 60
2337095 TGAATATTCT
* * *
2337105 ATTTCATCCTCAAACTATGA-TACTCATTCTAAATTAGTCCTTAAACTTTTAAA-CATTCCC
1 ATTTCATCCTCAAACTATGACT-CTCATTATAAATTAGTCCCTAAACTTTTAAATC-TTCCA
*
2337165 ATTTCATCCTCAAACTATGACTCTTATTATAAATTAGTCCCTAAACTTTTAAATCTTCCA
1 ATTTCATCCTCAAACTATGACTCTCATTATAAATTAGTCCCTAAACTTTTAAATCTTCCA
*
2337225 ATTTAATCCTCAAA
1 ATTTCATCCTCAAA
2337239 TCCTTCCAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
60 65 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (60 bp):
ATTTCATCCTCAAACTATGACTCTCATTATAAATTAGTCCCTAAACTTTTAAATCTTCCA
Found at i:2339003 original size:23 final size:23
Alignment explanation
Indices: 2338975--2339028 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
2338965 AGAAATTAGA
*
2338975 AAAGAAAGTGAAGCACTCAAAAG
1 AAAGAAAATGAAGCACTCAAAAG
**
2338998 AAAGAAAAATTCAGCACTCAAAAG
1 AAAG-AAAATGAAGCACTCAAAAG
2339022 -AAGAAAA
1 AAAGAAAA
2339029 AGCAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 7 0.26
24 16 0.59
ACGTcount: A:0.61, C:0.13, G:0.17, T:0.09
Consensus pattern (23 bp):
AAAGAAAATGAAGCACTCAAAAG
Found at i:2340376 original size:24 final size:25
Alignment explanation
Indices: 2340330--2340384 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
2340320 ACAATTATGG
*
2340330 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
2340354 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
2340379 CA-TTGA
1 CACTTGA
2340385 GGCTCCAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:2349216 original size:13 final size:13
Alignment explanation
Indices: 2349198--2349249 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
2349188 GTCATAAATC
2349198 TATGACGCGCATT
1 TATGACGCGCATT
*
2349211 TATGACACGCATT
1 TATGACGCGCATT
2349224 TATGACGCGCATT
1 TATGACGCGCATT
*
2349237 TATGACGCTCATT
1 TATGACGCGCATT
2349250 GCGCGTCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:2349326 original size:85 final size:85
Alignment explanation
Indices: 2349221--2349383 Score: 256
Period size: 85 Copynumber: 1.9 Consensus size: 85
2349211 TATGACACGC
* *
2349221 ATTTATGACGCGCATTTATGACGCT-CATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATG
1 ATTTATGACACGCATTTATGAC-CTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAGATG
* *
2349285 CCACACATTTGTGTGTCATAA
65 ACACACATTCGTGTGTCATAA
* *
2349306 ATTTATGACACGCATTTATGACTTACATTGCATGTCATTGAAGCCCCCGTCATAAATGAAGATGA
1 ATTTATGACACGCATTTATGACCTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAGATGA
2349371 CACACATTCGTGT
66 CACACATTCGTGT
2349384 TTCGTGATTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACCTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAGATGA
CACACATTCGTGTGTCATAA
Found at i:2349474 original size:2 final size:2
Alignment explanation
Indices: 2349467--2349499 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
2349457 ATAATACTAA
2349467 AT AT AT AT AT AT AT AT AT AT CAT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
2349500 AGCAATCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2349916 original size:23 final size:23
Alignment explanation
Indices: 2349886--2349931 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2349876 TAAAGACCTT
2349886 GCGAATGAATTCACAAGTTACAG
1 GCGAATGAATTCACAAGTTACAG
2349909 GCGAATGAATTCACAAGTTACAG
1 GCGAATGAATTCACAAGTTACAG
2349932 ACATGGATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
GCGAATGAATTCACAAGTTACAG
Found at i:2357723 original size:14 final size:15
Alignment explanation
Indices: 2357704--2357743 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
2357694 TTTTTGTCTA
*
2357704 TATGCAGAGATTT-T
1 TATGCAGGGATTTAT
2357718 TATGCAGGGATTTAT
1 TATGCAGGGATTTAT
2357733 T-TGCAGGGATT
1 TATGCAGGGATT
2357744 ACTTCCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (15 bp):
TATGCAGGGATTTAT
Found at i:2360789 original size:13 final size:13
Alignment explanation
Indices: 2360771--2360795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2360761 ATAGTTGAAA
2360771 AATCTTCATATGT
1 AATCTTCATATGT
2360784 AATCTTCATATG
1 AATCTTCATATG
2360796 CACGACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
AATCTTCATATGT
Found at i:2362534 original size:23 final size:23
Alignment explanation
Indices: 2362480--2362560 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
2362470 TATTATTATT
* *
2362480 TTAATTAGGATTCTAGCTTGTTA
1 TTAATTAGGATTCTAGATTGCTA
* *
2362503 TCAACTAGGATTCTA-ATATGCTA
1 TTAATTAGGATTCTAGAT-TGCTA
*
2362526 TTATTTAGGATTCTAGATTGCTA
1 TTAATTAGGATTCTAGATTGCTA
2362549 TTAATTAGGATT
1 TTAATTAGGATT
2362561 TAAAGTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.94
24 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (23 bp):
TTAATTAGGATTCTAGATTGCTA
Found at i:2362756 original size:23 final size:23
Alignment explanation
Indices: 2362705--2362756 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
2362695 TATAAAGTTA
*
2362705 TTTTTTCTTCTTCAGCTTTATTC
1 TTTTTTCTTCATCAGCTTTATTC
*
2362728 TATTTTTCTTCAT-AGCTTTCTTTC
1 T-TTTTTCTTCATCAGCTTT-ATTC
2362752 TTTTT
1 TTTTT
2362757 AATGCTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.10, C:0.19, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTTTCTTCATCAGCTTTATTC
Found at i:2366346 original size:5 final size:5
Alignment explanation
Indices: 2366336--2366406 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
2366326 AGGTAACTCG
* *
2366336 TTTTA TTTTA TTTTA -TTTA TTTTA TTTATT TTTTA TTTTTA TATTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA -TTTTA T-TTTA
2366383 TGTTTA -TTTA -TTTA TTTTTA TTTT
1 T-TTTA TTTTA TTTTA -TTTTA TTTT
2366407 TAGGTACCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 12 0.22
5 23 0.42
6 20 0.36
ACGTcount: A:0.18, C:0.00, G:0.01, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:2366356 original size:4 final size:4
Alignment explanation
Indices: 2366337--2366399 Score: 53
Period size: 4 Copynumber: 15.8 Consensus size: 4
2366327 GGTAACTCGT
2366337 TTTA TTTTA TTTTA TTTA TTTTA TTTA TTT- TTTA -TT- TTTA TATT-
1 TTTA -TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
*
2366381 TTTG TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
2366400 TTATTTTTAG
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
3 9 0.18
4 27 0.53
5 15 0.29
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:2366356 original size:14 final size:14
Alignment explanation
Indices: 2366337--2366405 Score: 69
Period size: 14 Copynumber: 5.2 Consensus size: 14
2366327 GGTAACTCGT
2366337 TTTATTTTATTTTA
1 TTTATTTTATTTTA
2366351 TTTATTTTA-TTTA
1 TTTATTTTATTTTA
2366364 -TT-TTTTATTTT-
1 TTTATTTTATTTTA
*
2366375 TATATTTT-TGTTTA
1 TTTATTTTAT-TTTA
2366389 TTTA-TTTATTTTTA
1 TTTATTTTA-TTTTA
2366403 TTT
1 TTT
2366406 TTAGGTACCC
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
11 5 0.11
12 7 0.15
13 14 0.30
14 19 0.41
15 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.80
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:2366393 original size:33 final size:33
Alignment explanation
Indices: 2366346--2366408 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
2366336 TTTTATTTTA
2366346 TTTTATTTATTTTATTTATTTTTTATTTTTATAT
1 TTTTATTTATTTTATTTA-TTTTTATTTTTATAT
*
2366380 TTTTGTTTA-TTTATTTATTTTTATTTTTA
1 TTTTATTTATTTTATTTATTTTTATTTTTA
2366409 GGTACCCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 12 0.43
33 8 0.29
34 8 0.29
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (33 bp):
TTTTATTTATTTTATTTATTTTTATTTTTATAT
Found at i:2367778 original size:23 final size:23
Alignment explanation
Indices: 2367725--2367800 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
2367715 ATTATTTTAA
** *
2367725 TTAGGATTCTAGCGTGTTATTA-
1 TTAGGATTCTAGATTGATATTAT
* *
2367747 ATAGGATTCTA-ATATGCTATTAT
1 TTAGGATTCTAGAT-TGATATTAT
2367770 TTAGGATTCTAGATTGATATTAT
1 TTAGGATTCTAGATTGATATTAT
*
2367793 TTAAGATT
1 TTAGGATT
2367801 TAAAGTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 17 0.39
23 25 0.57
24 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (23 bp):
TTAGGATTCTAGATTGATATTAT
Found at i:2369964 original size:107 final size:107
Alignment explanation
Indices: 2369778--2369991 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
2369768 CTGAGCAGAT
* * *
2369778 AAGCATCGTCAATTCCGATTCAAGTCGAACGGATGGAAGCATCGACACTTCCGATTCAAGTTGAA
1 AAGCATCGGCAATTCCGATTCAAGTCGAACGGAAGGAAGCATCGACACTTCCGATTCAAGTCGAA
* *
2369843 TGGAGAGAAGCATCGGCACTTCCGATTCAAGTCGAACGGAAG
66 CGGAGAGAAGCATCGACACTTCCGATTCAAGTCGAACGGAAG
* *
2369885 AAGCATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGACACTTTCGATTCAAGTCGAA
1 AAGCATCGGCAATTCCGATTCAAGTCGAACGGAAGGAAGCATCGACACTTCCGATTCAAGTCGAA
*
2369950 CGGA-AGGAAGCATCGACACTTCCGATTCAAGTTGAACGGAAG
66 CGGAGA-GAAGCATCGACACTTCCGATTCAAGTCGAACGGAAG
2369992 GATGTATGTC
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
106 1 0.01
107 97 0.99
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (107 bp):
AAGCATCGGCAATTCCGATTCAAGTCGAACGGAAGGAAGCATCGACACTTCCGATTCAAGTCGAA
CGGAGAGAAGCATCGACACTTCCGATTCAAGTCGAACGGAAG
Found at i:2369990 original size:36 final size:36
Alignment explanation
Indices: 2369778--2369993 Score: 328
Period size: 36 Copynumber: 6.0 Consensus size: 36
2369768 CTGAGCAGAT
* * *
2369778 AAGCATCGTCAATTCCGATTCAAGTCGAACGGATGG
1 AAGCATCGACACTTCCGATTCAAGTCGAACGGAAGG
* *
2369814 AAGCATCGACACTTCCGATTCAAGTTGAATGG-AGAG
1 AAGCATCGACACTTCCGATTCAAGTCGAACGGAAG-G
*
2369850 AAGCATCGGCACTTCCGATTCAAGTCGAACGGAA-G
1 AAGCATCGACACTTCCGATTCAAGTCGAACGGAAGG
*
2369885 AAGCATCGGCACTTCCGATTCAAGTCGAACGGAAGG
1 AAGCATCGACACTTCCGATTCAAGTCGAACGGAAGG
*
2369921 AAGCATCGACACTTTCGATTCAAGTCGAACGGAAGG
1 AAGCATCGACACTTCCGATTCAAGTCGAACGGAAGG
*
2369957 AAGCATCGACACTTCCGATTCAAGTTGAACGGAAGG
1 AAGCATCGACACTTCCGATTCAAGTCGAACGGAAGG
2369993 A
1 A
2369994 TGTATGTCTT
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
35 36 0.22
36 128 0.78
37 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (36 bp):
AAGCATCGACACTTCCGATTCAAGTCGAACGGAAGG
Found at i:2372621 original size:111 final size:109
Alignment explanation
Indices: 2372320--2372646 Score: 402
Period size: 105 Copynumber: 3.0 Consensus size: 109
2372310 GTAGTGAATG
*
2372320 TATTTGAACTTGCTTCAGCTTCCTCATGCTTTAAACTC-AAAT-TCATTTCAGTTTCCTTGTCCT
1 TATTTGAACTTGCTTCA-CTTCCTCATGCTCTAAACTCGAAATCTC--TTCAGTTTCCTTGTCCT
* * *
2372383 CAGTGACACCTTTGGCAATTTTATCAACTTCCTGTAGATGCTTTACTT
63 CAGTGA-TCCTTTGGCAATTTTATCAAATTCCTGTAGCTGCTTTACTT
* * * *
2372431 TATTTGAACTTG-----CTTCCTCATGCTCTACACTCG-AATCCTTTTTAGTTTCGTTGTCCTCA
1 TATTTGAACTTGCTTCACTTCCTCATGCTCTAAACTCGAAAT-CTCTTCAGTTTCCTTGTCCTCA
* *
2372490 GTG-TCAACTTTGGCAATTTTATCAAGTTCTTGTAGCTGCTTTACTT
65 GTGATC--CTTTGGCAATTTTATCAAATTCCTGTAGCTGCTTTACTT
2372536 TATTTGAACTTGCTTCTACTTCCTCATGCTCTAAACTCGAAATCTCTTCAGTTTCCTTGTCCTCA
1 TATTTGAACTTGCTTC-ACTTCCTCATGCTCTAAACTCGAAATCTCTTCAGTTTCCTTGTCCTCA
* *
2372601 GTGATGCCTTTAGCAGTTTTATCAAATTCCTGTAGCTGCTTTACTT
65 GTGAT-CCTTTGGCAATTTTATCAAATTCCTGTAGCTGCTTTACTT
2372647 GAATTCTGAC
Statistics
Matches: 185, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
103 1 0.01
105 89 0.48
107 1 0.01
111 89 0.48
112 4 0.02
113 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (109 bp):
TATTTGAACTTGCTTCACTTCCTCATGCTCTAAACTCGAAATCTCTTCAGTTTCCTTGTCCTCAG
TGATCCTTTGGCAATTTTATCAAATTCCTGTAGCTGCTTTACTT
Found at i:2373042 original size:15 final size:16
Alignment explanation
Indices: 2373003--2373042 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2372993 ACTGACAACC
2373003 AAATAAAAATATCATA
1 AAATAAAAATATCATA
2373019 AAATAAAAATATCATA
1 AAATAAAAATATCATA
*
2373035 AAGTAAAA
1 AAATAAAA
2373043 GCACCAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAAAAATATCATA
Found at i:2376174 original size:2 final size:2
Alignment explanation
Indices: 2376167--2376209 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2376157 TTTATTAAAT
2376167 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2376209 T
1 T
2376210 CCTCTCACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2377973 original size:3 final size:3
Alignment explanation
Indices: 2377967--2377995 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2377957 TGAAGATGAT
2377967 GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
2377996 TGATGAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:2383766 original size:184 final size:184
Alignment explanation
Indices: 2383453--2383801 Score: 583
Period size: 184 Copynumber: 1.9 Consensus size: 184
2383443 ATATCAGCAT
* * * *
2383453 AAAGTGTCGATACATTTTCAAAAAGTGTCGATTGAAAAAACGTCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACATTTTCAAAAAATGTCGATTGAAAAAACATCAGAACCCACAATTATAATGTA
* *
2383518 ATAGGTAATTTTATAATATAACCGGTATAGATATACTGGTTCTATGAGAGAATAGGTATACAACC
66 ATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTCTATGAGAGAATAGGTATACAACC
2383583 TATATCGACACTTTTTAATATTGTGTCGC-TACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTC-CATACTTTATGTCCAGAATGGATGAAA
*
2383637 AAAGTGTCGATACCTTTTCAAAAAATGTCGATTGAAAAAACATCAGAACCCACAATTATAATGTA
1 AAAGTGTCGATACATTTTCAAAAAATGTCGATTGAAAAAACATCAGAACCCACAATTATAATGTA
* * * *
2383702 ATAGGTAATTTTTTAATATAACTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTCTATGAGAGAATAGGTATACAACC
2383767 TATATCGACACTTTTTAATATTGTGTCCATACTTT
131 TATATCGACACTTTTTAATATTGTGTCCATACTTT
2383802 TAAGTAACGC
Statistics
Matches: 153, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
183 1 0.01
184 152 0.99
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (184 bp):
AAAGTGTCGATACATTTTCAAAAAATGTCGATTGAAAAAACATCAGAACCCACAATTATAATGTA
ATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTCTATGAGAGAATAGGTATACAACC
TATATCGACACTTTTTAATATTGTGTCCATACTTTATGTCCAGAATGGATGAAA
Found at i:2386975 original size:182 final size:182
Alignment explanation
Indices: 2386502--2388249 Score: 2917
Period size: 182 Copynumber: 9.6 Consensus size: 182
2386492 TTTTACCTTT
* * *
2386502 TTTAAAAGAGAAGAAATTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
2386567 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTTGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
2386632 TGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 AGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
2386684 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2386748 AACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
2386813 AGGTTATGTTAAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 AGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
2386865 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
2386930 AACAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
2386995 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 AGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
2387047 TTTAAAAGAGAATAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAATTGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
2387112 AACAATATAACATGTAAAAATATGACAAAACTGGTCTCAAAATGACAAAACAAGTAAAGCGCTAT
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA-
2387177 C-GGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
130 CAGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
2387227 -TTAATAAGAAAAGAAGTTATAGCGCCAATAACA-TGTTGATACTTTATAAAAATGTATCGATCC
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAA-AGTGTCGATACTTTATAAAAATGTATCGATCC
* *
2387290 ATAACAATATAACATGAAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCT
64 ATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
*
2387355 ACCA-GTTATGTTGAAAGTGTCGATAATTTATTAAAAGTATC-A-ACTTTTGGAA
129 A-CAGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2387407 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
2387471 TAACAATATAACATTTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
2387536 CAAGTTATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CAGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
2387589 TTTAAAAGAGAAGAAATTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
2387654 AACAATATAACAGGTAATAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
2387719 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 AGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
2387771 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
2387836 AACAATATAACAGGTAATAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* * *
2387901 CGGTTATATTGAAAGTTTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 AGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
2387953 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
2388018 AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACAGGTAAAACGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA-
*
2388083 CA-GATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CAGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
2388135 -TTAATAAGAGAAGAAGTTATAGCGCTAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * **
2388199 TAATAATATAACATGTAAAAATATGATAAAACCGGTCTATAAATGACAAAA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
2388250 GGTGAATGCA
Statistics
Matches: 1480, Mismatches: 73, Indels: 26
0.94 0.05 0.02
Matches are distributed among these distances:
179 6 0.00
180 327 0.22
181 178 0.12
182 963 0.65
183 6 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
AGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:2387926 original size:724 final size:727
Alignment explanation
Indices: 2386502--2388249 Score: 3035
Period size: 724 Copynumber: 2.4 Consensus size: 727
2386492 TTTTACCTTT
* * *
2386502 TTTAAAAGAGAAGAAATTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
2386567 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTTGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
** *
2386632 TGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAA-AAGAGAA
131 CAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAA
2386696 G-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
195 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
* *
2386760 TGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACAGGTTATGTTAA
260 TGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACAAGTTATGTTAA
* * *
2386825 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGC
325 AAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAATTATAGAGC
2386890 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAATAATATGA
390 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAATAATATGA
*
2386955 CAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAAT
455 CAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAAT
*
2387020 TTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCAATAAAGTGTCG
520 TTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCG
* *
2387085 ATACTTTATAAAATTGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACTGGTCTC
585 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACTGGTCTC
* *
2387150 AAAATGACAAAACAAGTAAAGCGCTATCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTAT
650 AAAATGACAAAACAAGTAAAGCGCTACCGGTTATATTGAAAGTGTCGATAATTTATTATAAGTAT
2387215 CG-ACTTTTGGAA
715 CGAACTTTTGGAA
* *
2387227 -TTAATAAGAAAAGAAGTTATAGCGCCAATAACA-TGTTGATACTTTATAAAAATGTATCGATCC
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAA-AGTGTCGATACTTTATAAAAATGTATCGATCC
* *
2387290 ATAACAATATAACATGAAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCT
64 ATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCT
*
2387355 ACCAGTTATGTTGAAAGTGTCGATAATTTATTAAAAGTATC-A-ACTTTTGGAATTAATAAGAGA
129 ACCAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGA
*
2387418 AGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC
194 AGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC
* *
2387483 ATTTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACAAGTTATGTTG
259 ATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACAAGTTATGTTA
2387548 AAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAATTATAGAG
324 AAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAATTATAGAG
2387613 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAATAATATG
389 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAATAATATG
2387678 ACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAA
454 ACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAA
2387743 TTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTC
519 TTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTC
*
2387808 GATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAATAATATGACAAAA-TCGGTC
584 GATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACT-GGTC
* * *
2387872 TCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATATTGAAAGTTTCGATAATTTATTATAAGT
648 TCAAAATGACAAAACAAGTAAAGCGCTACCGGTTATATTGAAAGTGTCGATAATTTATTATAAGT
2387937 ATCGACACTTTTGGAA
713 ATCGA-ACTTTTGGAA
2387953 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2388018 AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACAGGTAAAACGCTAC
66 AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
*
2388083 CAGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAG
131 CAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAG
* * *
2388148 AAGTTATAGCGCTAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCATAATAATATAACAT
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
* **
2388213 GTAAAAATATGATAAAACCGGTCTATAAATGACAAAA
261 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
2388250 GGTGAATGCA
Statistics
Matches: 966, Mismatches: 46, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
722 4 0.00
723 19 0.02
724 505 0.52
725 150 0.16
726 166 0.17
727 5 0.01
728 117 0.12
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (727 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
CAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAG
AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACAAGTTATGTTAAA
AGTATCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAATTATAGAGCC
AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAATAATATGAC
AAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
TATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGA
TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACTGGTCTCA
AAATGACAAAACAAGTAAAGCGCTACCGGTTATATTGAAAGTGTCGATAATTTATTATAAGTATC
GAACTTTTGGAA
Found at i:2388489 original size:87 final size:87
Alignment explanation
Indices: 2388385--2388547 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
2388375 AAATAGGTCA
2388385 ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTAATAATATTT
2388450 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* *
2388472 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTAATAATATTT
*
2388537 TCGGTTAAATA
66 CCGGTTAAATA
2388548 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTAATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:2388519 original size:23 final size:23
Alignment explanation
Indices: 2388469--2388513 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2388459 TACCTATTTT
* *
2388469 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
2388492 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2388514 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2389304 original size:39 final size:39
Alignment explanation
Indices: 2389260--2389380 Score: 163
Period size: 39 Copynumber: 3.1 Consensus size: 39
2389250 ATTTGAAGTG
* *
2389260 TGTTGGTCAAATTTGCAGGTACATCATTTGTTGAAATTT
1 TGTTGGTCAAACTTGCAGGTGCATCATTTGTTGAAATTT
** *
2389299 TGTTGGTCAAACTTATAGGTGCATCATTTATTGAAATTT
1 TGTTGGTCAAACTTGCAGGTGCATCATTTGTTGAAATTT
* * *
2389338 TATTGGTCAAACTTGCCGGTGCATCTTTTGTTGAAA-TT
1 TGTTGGTCAAACTTGCAGGTGCATCATTTGTTGAAATTT
2389376 TGTTG
1 TGTTG
2389381 CAAAATTGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
38 6 0.09
39 64 0.91
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (39 bp):
TGTTGGTCAAACTTGCAGGTGCATCATTTGTTGAAATTT
Found at i:2389888 original size:17 final size:17
Alignment explanation
Indices: 2389851--2389884 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2389841 CGAGGTTACT
2389851 ATTTACGTGAATAGTAA
1 ATTTACGTGAATAGTAA
2389868 ATTT-CGTGAATAGTAA
1 ATTTACGTGAATAGTAA
2389884 A
1 A
2389885 ATTTGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTAA
Found at i:2394596 original size:64 final size:64
Alignment explanation
Indices: 2394502--2394635 Score: 196
Period size: 64 Copynumber: 2.1 Consensus size: 64
2394492 AGTTAGGAGT
* **
2394502 GTATCGATGCATGGTTTGTACATTGGTACATAAAATGAATTCGATGTTTAATAAAATAAAGAGC
1 GTATCGATGCATGGTCTGTACATCAGTACATAAAATGAATTCGATGTTTAATAAAATAAAGAGC
* * * * *
2394566 GTATTGATGCATGGTCTGTGCATCAGTACATAAAATGCATTCGATGTTTAATAAAATAAGGAGT
1 GTATCGATGCATGGTCTGTACATCAGTACATAAAATGAATTCGATGTTTAATAAAATAAAGAGC
2394630 GTATCG
1 GTATCG
2394636 GTATATTCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (64 bp):
GTATCGATGCATGGTCTGTACATCAGTACATAAAATGAATTCGATGTTTAATAAAATAAAGAGC
Found at i:2394956 original size:13 final size:13
Alignment explanation
Indices: 2394938--2394971 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
2394928 TAAGATTTTC
*
2394938 TTTGAAAATCATT
1 TTTGAAAATCAGT
2394951 TTTG-AAATCAGT
1 TTTGAAAATCAGT
2394963 TTTGAAAAT
1 TTTGAAAAT
2394972 TACTCCACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAGT
Found at i:2397290 original size:44 final size:44
Alignment explanation
Indices: 2397195--2397297 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 44
2397185 TAAACTATAG
* * * * **
2397195 AGTGTATAGATACACATTCAAGGAATGCATCGGTGCACTTTCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCAGTACACTAACAT
*
2397239 AGTGTATCGATGCACATTCAATGAATGCATCAGTACACTAACAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCAGTACACTAACAT
2397283 AGTGTATCGATGCAC
1 AGTGTATCGATGCAC
2397298 TATGCACAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
AGTGTATCGATGCACATTCAAGGAATGCATCAGTACACTAACAT
Found at i:2403106 original size:65 final size:64
Alignment explanation
Indices: 2403037--2403206 Score: 216
Period size: 64 Copynumber: 2.6 Consensus size: 64
2403027 GTACACTAAT
* * *
2403037 TACATTCGATGTTTCAA-AAGAGCCAGGAGTGTAACGATGTATGGTATGTGCATCGGTACATAAA
1 TACATTCGATGTTT-AATAA-AACAAGGAGTGTAACGATGCATGGTATGTGCATCGGTACATAAA
2403101 A
64 A
* ** *
2403102 TACATTCGATGTTTAATAAAATAAGGAGTGTATTGATGCATGGTCTGTGCATCGGTACATAAAA
1 TACATTCGATGTTTAATAAAACAAGGAGTGTAACGATGCATGGTATGTGCATCGGTACATAAAA
* * * *
2403166 TGCATTCGATGTTTAATAAAATAAGGAGTATATCGATGCAT
1 TACATTCGATGTTTAATAAAACAAGGAGTGTAACGATGCAT
2403207 CCAAGAGTGT
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 78 0.83
65 16 0.17
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (64 bp):
TACATTCGATGTTTAATAAAACAAGGAGTGTAACGATGCATGGTATGTGCATCGGTACATAAAA
Found at i:2403152 original size:64 final size:64
Alignment explanation
Indices: 2403061--2403206 Score: 238
Period size: 64 Copynumber: 2.3 Consensus size: 64
2403051 CAAAAGAGCC
* *
2403061 AGGAGTGTAACGATGTATGGTATGTGCATCGGTACATAAAATACATTCGATGTTTAATAAAATA
1 AGGAGTGTATCGATGCATGGTATGTGCATCGGTACATAAAATACATTCGATGTTTAATAAAATA
* * *
2403125 AGGAGTGTATTGATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTTAATAAAATA
1 AGGAGTGTATCGATGCATGGTATGTGCATCGGTACATAAAATACATTCGATGTTTAATAAAATA
*
2403189 AGGAGTATATCGATGCAT
1 AGGAGTGTATCGATGCAT
2403207 CCAAGAGTGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (64 bp):
AGGAGTGTATCGATGCATGGTATGTGCATCGGTACATAAAATACATTCGATGTTTAATAAAATA
Found at i:2403543 original size:13 final size:13
Alignment explanation
Indices: 2403525--2403558 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
2403515 TAAGATTTTC
2403525 TTTGAAAATCATT
1 TTTGAAAATCATT
2403538 TTTG-AAATCATT
1 TTTGAAAATCATT
2403550 TTTGAAAAT
1 TTTGAAAAT
2403559 TTATTCCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (13 bp):
TTTGAAAATCATT
Found at i:2405842 original size:44 final size:44
Alignment explanation
Indices: 2405764--2405881 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
2405754 CGACGAGTGT
* * * *
2405764 ATCGGTACACT-GCAGAGTGTATAGATACACATTCAAGGAATGC
1 ATCGGTACACTAACATAGTGTATCGATGCACATTCAAGGAATGC
* ** ** *
2405807 ATCTGTGTACTTTCATAGTGTATCGATGCACATTCAATGAATGC
1 ATCGGTACACTAACATAGTGTATCGATGCACATTCAAGGAATGC
2405851 ATCGGTACACTAACATAGTGTATCGATGCAC
1 ATCGGTACACTAACATAGTGTATCGATGCAC
2405882 TGTGTACAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
43 8 0.13
44 53 0.87
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
ATCGGTACACTAACATAGTGTATCGATGCACATTCAAGGAATGC
Found at i:2411714 original size:65 final size:64
Alignment explanation
Indices: 2411645--2411825 Score: 222
Period size: 64 Copynumber: 2.8 Consensus size: 64
2411635 GTACACTTGG
* * * **
2411645 GTGCATCGGTACACT-AATTACATTCAATGTTTCAA-AAGAGTCAGGAGTGTATCGTTGCATGGT
1 GTGCATCGGTACA-TAAAATACATTCAATGTTT-AATAA-AATAAGGAGTGTATCAATGCATGGT
2411708 CT
63 CT
* *
2411710 GTGCATCGGTACATAAAATGCATTCGATGTTTAATAAAATAAGGAGTGTATCAATGCATGGTCT
1 GTGCATCGGTACATAAAATACATTCAATGTTTAATAAAATAAGGAGTGTATCAATGCATGGTCT
* * * *
2411774 GTTCATCGGTACATAAAATGCATTCGATGTTTAATATAATAAGGAGTGTATC
1 GTGCATCGGTACATAAAATACATTCAATGTTTAATAAAATAAGGAGTGTATC
2411826 GACGCATCCA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
64 76 0.72
65 29 0.28
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATACATTCAATGTTTAATAAAATAAGGAGTGTATCAATGCATGGTCT
Found at i:2411781 original size:64 final size:64
Alignment explanation
Indices: 2411687--2411825 Score: 242
Period size: 64 Copynumber: 2.2 Consensus size: 64
2411677 CAAAAGAGTC
**
2411687 AGGAGTGTATCGTTGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTTAATAAAATA
1 AGGAGTGTATCAATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTTAATAAAATA
* *
2411751 AGGAGTGTATCAATGCATGGTCTGTTCATCGGTACATAAAATGCATTCGATGTTTAATATAATA
1 AGGAGTGTATCAATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTTAATAAAATA
2411815 AGGAGTGTATC
1 AGGAGTGTATC
2411826 GACGCATCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 71 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (64 bp):
AGGAGTGTATCAATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTTAATAAAATA
Found at i:2412289 original size:39 final size:39
Alignment explanation
Indices: 2412227--2412343 Score: 166
Period size: 39 Copynumber: 3.0 Consensus size: 39
2412217 AAGTGGGAGA
* *
2412227 TTGTTGGTCAAACTTGCAGGTGCATCCTTTGTTGAAATAT
1 TTGTTGGTCAAACTTGTAAGTGCATCCTTTGTTGAAAT-T
*
2412267 TT-TTGGTCAAACTTATAAGTGCATCCTTTGTTGAAATT
1 TTGTTGGTCAAACTTGTAAGTGCATCCTTTGTTGAAATT
*
2412305 TTGTTGGTCAAACTTGT-CGATGCATCCTTTGTTGAAATT
1 TTGTTGGTCAAACTTGTAAG-TGCATCCTTTGTTGAAATT
2412344 GGTTGCAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
38 4 0.06
39 64 0.91
40 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (39 bp):
TTGTTGGTCAAACTTGTAAGTGCATCCTTTGTTGAAATT
Found at i:2413110 original size:19 final size:19
Alignment explanation
Indices: 2413079--2413118 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2413069 TTTTATTTTT
*
2413079 TTTGGATTGAGAT-TAATA
1 TTTGGATTAAGATATAATA
2413097 TTTGAGATTAAGATATAATA
1 TTTG-GATTAAGATATAATA
2413117 TT
1 TT
2413119 AAAGTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (19 bp):
TTTGGATTAAGATATAATA
Found at i:2414292 original size:39 final size:39
Alignment explanation
Indices: 2414180--2414299 Score: 154
Period size: 39 Copynumber: 3.1 Consensus size: 39
2414170 CTAATGGTGT
* * *
2414180 TAGTTTATATAGGCATAGTAGAGAATTTAGATTATATTTGC
1 TAGTTTATATAGGAATAGTAGTG--TTTAGACTATATTTGC
*
2414221 TTAGTTTATATAGGAATA-T-GTGTTTAGGCTATATTTGC
1 -TAGTTTATATAGGAATAGTAGTGTTTAGACTATATTTGC
*
2414259 TAGTTTATATAGGTATAGTAGTGTTTAGACTATATTTGC
1 TAGTTTATATAGGAATAGTAGTGTTTAGACTATATTTGC
2414298 TA
1 TA
2414300 ACAATGTGAG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
37 16 0.23
38 15 0.21
39 20 0.29
40 2 0.03
41 1 0.01
42 16 0.23
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (39 bp):
TAGTTTATATAGGAATAGTAGTGTTTAGACTATATTTGC
Found at i:2416138 original size:12 final size:13
Alignment explanation
Indices: 2416121--2416159 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
2416111 TATGATATTG
2416121 TTTTGAAAATAT-
1 TTTTGAAAATATA
2416133 TTTTGAAAATATA
1 TTTTGAAAATATA
* *
2416146 TATTGAAAACATA
1 TTTTGAAAATATA
2416159 T
1 T
2416160 AATATATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAATATA
Found at i:2416153 original size:13 final size:13
Alignment explanation
Indices: 2416123--2416160 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2416113 TGATATTGTT
*
2416123 TTGAAAATAT-TT
1 TTGAAAATATATA
2416135 TTGAAAATATATA
1 TTGAAAATATATA
*
2416148 TTGAAAACATATA
1 TTGAAAATATATA
2416161 ATATATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (13 bp):
TTGAAAATATATA
Found at i:2416289 original size:37 final size:35
Alignment explanation
Indices: 2416148--2416293 Score: 90
Period size: 37 Copynumber: 4.2 Consensus size: 35
2416138 AAAATATATA
* ** *
2416148 TTGAAAACATATAATATATAGTTAAAAAAAACGGTTT
1 TTGAAAACGTAT-A-ATATAGTTTGAAAAAACGATTT
* *
2416185 TTGAAAACATAT-ATAT-GATATTG--AAAA-TA-TT
1 TTGAAAACGTATAATATAG-T-TTGAAAAAACGATTT
* *
2416216 TTGAAAACGTATAATATAGTTTTAAAAAACGGTTT
1 TTGAAAACGTATAATATAGTTTGAAAAAACGATTT
* *
2416251 TTGAAAACGTGTATAATATAGTGTTGAAAACA-TATTT
1 TTGAAAAC--GTATAATATAGT-TTGAAAAAACGATTT
2416288 TTGAAA
1 TTGAAA
2416294 TATATATATA
Statistics
Matches: 86, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
31 15 0.17
32 5 0.06
33 10 0.12
34 5 0.06
35 11 0.13
37 33 0.38
38 7 0.08
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (35 bp):
TTGAAAACGTATAATATAGTTTGAAAAAACGATTT
Found at i:2416300 original size:2 final size:2
Alignment explanation
Indices: 2416293--2416335 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2416283 TATTTTTGAA
2416293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2416335 A
1 A
2416336 GTTTTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2416431 original size:24 final size:26
Alignment explanation
Indices: 2416385--2416432 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2416375 TCGAAACATA
2416385 TATATAGTTTTTGAAATATAATATGT
1 TATATAGTTTTTGAAATATAATATGT
2416411 TATATAGTTTTT-AAATA-AATAT
1 TATATAGTTTTTGAAATATAATAT
2416433 AGTGTACGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.23
25 5 0.23
26 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (26 bp):
TATATAGTTTTTGAAATATAATATGT
Found at i:2416468 original size:20 final size:18
Alignment explanation
Indices: 2416443--2416493 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 18
2416433 AGTGTACGTA
2416443 TTATATTATATATATATATT
1 TTATATT-TAT-TATATATT
2416463 TTATA-TTATTAT-TATT
1 TTATATTTATTATATATT
2416479 TTATATTTATTATAT
1 TTATATTTATTATAT
2416494 TAGATTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.31
17 10 0.34
18 4 0.14
19 1 0.03
20 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATTTATTATATATT
Found at i:2416480 original size:16 final size:15
Alignment explanation
Indices: 2416441--2416491 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
2416431 ATAGTGTACG
*
2416441 TATTATATTATATA-
1 TATTATTTTATATAT
2416455 TATATATTTTATATTAT
1 TAT-TATTTTATA-TAT
2416472 TATTATTTTATAT-T
1 TATTATTTTATATAT
2416486 TATTAT
1 TATTAT
2416492 ATTAGATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.30
15 9 0.27
16 11 0.33
17 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTTTATATAT
Done.