Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_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: 4817204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 18
Found at i:4131472 original size:18 final size:18
Alignment explanation
Indices: 4131437--4131487 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
4131427 AAAAAGAATA
* *
4131437 AAAAATATTAATAT-AAT
1 AAAAATAATAAAATAAAT
4131454 AAAAATAATAAAATAAAT
1 AAAAATAATAAAATAAAT
4131472 -AAAATAGAT-AAATAAA
1 AAAAATA-ATAAAATAAA
4131488 CTTGAGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 25 0.83
18 5 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATAATAAAATAAAT
Found at i:4131476 original size:9 final size:9
Alignment explanation
Indices: 4131446--4131543 Score: 50
Period size: 9 Copynumber: 11.2 Consensus size: 9
4131436 AAAAAATATT
4131446 AATATAATAA
1 AATA-AATAA
4131456 AA-ATAATAA
1 AATA-AATAA
4131465 AATAAATAA
1 AATAAATAA
*
4131474 AATAGAT-A
1 AATAAATAA
**
4131482 AATAAACTTG
1 AATAAA-TAA
*
4131492 AGTAAA-AA
1 AATAAATAA
4131500 AACTAAA-AA
1 AA-TAAATAA
*
4131509 ACTAAA-AA
1 AATAAATAA
4131517 AATGAAATAA
1 AAT-AAATAA
4131527 AAT-AA-AA
1 AATAAATAA
4131534 AATAAA-AA
1 AATAAATAA
4131542 AA
1 AA
4131544 GTGTTAAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
7 5 0.07
8 23 0.32
9 31 0.43
10 13 0.18
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (9 bp):
AATAAATAA
Found at i:4131509 original size:8 final size:8
Alignment explanation
Indices: 4131494--4131543 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
4131484 TAAACTTGAG
4131494 TAAAAAAA
1 TAAAAAAA
*
4131502 CTAAAAAAC
1 -TAAAAAAA
4131511 TAAAAAAA
1 TAAAAAAA
4131519 TGAAATAAAA
1 T-AAA-AAAA
4131529 T-AAAAAA
1 TAAAAAAA
4131536 TAAAAAAA
1 TAAAAAAA
4131544 GTGTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 5 0.14
8 16 0.44
9 10 0.28
10 5 0.14
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:4131551 original size:24 final size:24
Alignment explanation
Indices: 4131411--4131563 Score: 80
Period size: 26 Copynumber: 6.1 Consensus size: 24
4131401 ATTGTAAAAT
*
4131411 AAAAATGAATATGAAAAAAAAGAATAA
1 AAAAATGAATA--AAATAAAA-AATAA
* *
4131438 AAAATATTAATATAAT-AAAAATAA
1 AAAA-ATGAATAAAATAAAAAATAA
* * *
4131462 TAAAATAAATAAAATAGATAAATAA
1 AAAAATGAATAAAATA-AAAAATAA
*** *
4131487 ACTTGA-GTAAAAAAACTAAAAAACTAA
1 A-AAAATG-AATAAAA-TAAAAAA-TAA
4131514 AAAAATGAAATAAAATAAAAAATAA
1 AAAAATG-AATAAAATAAAAAATAA
*
4131539 AAAAAGTG-TTAAAAT-AAAAATAA
1 AAAAA-TGAATAAAATAAAAAATAA
4131562 AA
1 AA
4131564 CAAAACCAAC
Statistics
Matches: 97, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
23 19 0.20
24 14 0.14
25 18 0.19
26 23 0.24
27 17 0.18
28 6 0.06
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAAATGAATAAAATAAAAAATAA
Found at i:4131595 original size:4 final size:4
Alignment explanation
Indices: 4131586--4131612 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4131576 AAGAACAAGG
4131586 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
4131613 AAAGGACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:4132959 original size:47 final size:44
Alignment explanation
Indices: 4132868--4133040 Score: 156
Period size: 47 Copynumber: 3.9 Consensus size: 44
4132858 ATTTCAGGTA
* ***
4132868 ATCTAAGGATGATAACACGGTTCCTATGTGATGAGGATGGCTGG
1 ATCTAAGGATGATAACACGGTTCCTACGTGATGAGGACAACTGG
*
4132912 TTATCTAAAGGATGATGACACGGTTCCTACGTGATGAGGACAACTGG
1 --ATCT-AAGGATGATAACACGGTTCCTACGTGATGAGGACAACTGG
* * * *
4132959 -TC-GAGG--GATGACACGGTTCCTATGTGATGAGGACAACATGCC
1 ATCTAAGGATGATAACACGGTTCCTACGTGATGAGGACAAC-TG-G
* *
4133001 ATCTTTAAGTATGATAACACAGTTCCTACGTGATGAGGAC
1 ATC--TAAGGATGATAACACGGTTCCTACGTGATGAGGAC
4133041 GACAGATTAT
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
40 30 0.29
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
46 6 0.06
47 35 0.33
48 25 0.24
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (44 bp):
ATCTAAGGATGATAACACGGTTCCTACGTGATGAGGACAACTGG
Found at i:4133841 original size:83 final size:83
Alignment explanation
Indices: 4133721--4133910 Score: 229
Period size: 83 Copynumber: 2.3 Consensus size: 83
4133711 TCGATAGTTT
* * *
4133721 TTTATTGACAGATAGCCCTTCTCGCCTTAAGTCATGCTATAAATTT-GATATGCCCTTGAGCTGA
1 TTTATTGACAGATAACCCTTCTCACCTTAAGTCATGCTATAAATTTAG-TATACCCTTGAGCTGA
4133785 ATGTAATCAAACTCGAGGG
65 ATGTAATCAAACTCGAGGG
* * * * *
4133804 TTTATTGACTGATAACCCTTCTCACCTTGAGTTATGCTGTAAATTTAGTATACCTTTGAGCTGAA
1 TTTATTGACAGATAACCCTTCTCACCTTAAGTCATGCTATAAATTTAGTATACCCTTGAGCTGAA
* * *
4133869 TGTAATCGAACTCAAAGGTC
66 TGTAATCAAACTC-GAGG-G
* *
4133889 TTTGTTGACAGATAGCCCTTCT
1 TTTATTGACAGATAACCCTTCT
4133911 TGCCTTGAGC
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 67 0.74
84 4 0.04
85 19 0.21
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (83 bp):
TTTATTGACAGATAACCCTTCTCACCTTAAGTCATGCTATAAATTTAGTATACCCTTGAGCTGAA
TGTAATCAAACTCGAGGG
Found at i:4139092 original size:9 final size:8
Alignment explanation
Indices: 4139076--4139119 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
4139066 AAAATTGAGT
4139076 ATAAAAAA
1 ATAAAAAA
*
4139084 CTAAAAAA
1 ATAAAAAA
4139092 ATAAAATAAA
1 AT-AAA-AAA
4139102 ATAAAAATA
1 ATAAAAA-A
4139111 ATAAAAAA
1 ATAAAAAA
4139119 A
1 A
4139120 GTGTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 12 0.39
9 14 0.45
10 5 0.16
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (8 bp):
ATAAAAAA
Found at i:4140218 original size:7 final size:7
Alignment explanation
Indices: 4140206--4140256 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
4140196 AGTGGGTAGC
4140206 TAATAAT
1 TAATAAT
4140213 TAATAAT
1 TAATAAT
*
4140220 TAATATT
1 TAATAAT
*
4140227 TTATAA-
1 TAATAAT
4140233 TAATAA-
1 TAATAAT
4140239 TAATAAT
1 TAATAAT
*
4140246 TAATATT
1 TAATAAT
4140253 TAAT
1 TAAT
4140257 GATATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
6 11 0.29
7 27 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAATAAT
Found at i:4141637 original size:2 final size:2
Alignment explanation
Indices: 4141630--4141672 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4141620 TAAATAGATG
4141630 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
4141672 A
1 A
4141673 ACATTAAACT
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:4152607 original size:21 final size:21
Alignment explanation
Indices: 4152564--4152607 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4152554 AGATGAACTA
*
4152564 TGGCTTTGCAAAAATATTGCT
1 TGGCTTTGCAAAAATATTCCT
*
4152585 TGGCTTTGTAACAAAT-TTCCT
1 TGGCTTTGCAA-AAATATTCCT
4152606 TG
1 TG
4152608 ATTTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (21 bp):
TGGCTTTGCAAAAATATTCCT
Found at i:4163665 original size:20 final size:20
Alignment explanation
Indices: 4163640--4163683 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4163630 TCAAAATCAT
* *
4163640 TTTTCAAAATTTCATTTTGC
1 TTTTCAAAATCTAATTTTGC
4163660 TTTTCAAAATCTAATTTTGC
1 TTTTCAAAATCTAATTTTGC
4163680 TTTT
1 TTTT
4163684 AAGAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTCAAAATCTAATTTTGC
Found at i:4165695 original size:22 final size:22
Alignment explanation
Indices: 4165668--4165710 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4165658 TTCAGTATTC
*
4165668 ATAATATTACATGTATTTTACT
1 ATAATACTACATGTATTTTACT
*
4165690 ATAATACTATATGTATTTTAC
1 ATAATACTACATGTATTTTAC
4165711 CTTTTCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
ATAATACTACATGTATTTTACT
Found at i:4170027 original size:33 final size:32
Alignment explanation
Indices: 4169946--4170047 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 32
4169936 TTTTTTCCTA
* * **
4169946 CTGTTTGAACCAAAATTGTATTGTTGTGTTTTAA
1 CTGTTCGAACCAAAATTGTA-TGTTAT-TTTTTT
* *
4169980 CTGCTCGAATCAAAATTGTACTGTTATTTTTTT
1 CTGTTCGAACCAAAATTGTA-TGTTATTTTTTT
* * *
4170013 TTGTTCGAACCAAAACTGTGATGCTATTTTTTT
1 CTGTTCGAACCAAAATTGT-ATGTTATTTTTTT
4170046 CT
1 CT
4170048 CGAATATGCA
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
33 31 0.57
34 23 0.43
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.47
Consensus pattern (32 bp):
CTGTTCGAACCAAAATTGTATGTTATTTTTTT
Found at i:4170293 original size:22 final size:21
Alignment explanation
Indices: 4170268--4170309 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4170258 GAACAGTGTA
*
4170268 TTTCGAAATTATGCTTCCTTTT
1 TTTCG-AATGATGCTTCCTTTT
*
4170290 TTTCGAATGATTCTTCCTTT
1 TTTCGAATGATGCTTCCTTT
4170310 GTTTGCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.19, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTCGAATGATGCTTCCTTTT
Found at i:4175782 original size:13 final size:13
Alignment explanation
Indices: 4175764--4175789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4175754 ATAGTTGAAA
4175764 AGTCTTCATATGT
1 AGTCTTCATATGT
4175777 AGTCTTCATATGT
1 AGTCTTCATATGT
4175790 GCGTCTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
AGTCTTCATATGT
Found at i:4177622 original size:15 final size:15
Alignment explanation
Indices: 4177599--4177641 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
4177589 CGACTTCAAG
4177599 TGATGGTGATGATAC
1 TGATGGTGATGATAC
* *
4177614 TGATTGTGATGATAG
1 TGATGGTGATGATAC
*
4177629 TGATGGTAATGAT
1 TGATGGTGATGAT
4177642 CATTGTGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.33, T:0.37
Consensus pattern (15 bp):
TGATGGTGATGATAC
Found at i:4178648 original size:13 final size:13
Alignment explanation
Indices: 4178632--4178679 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
4178622 CTTTTTAATT
*
4178632 TTAAAACAAAATA
1 TTAAAACAGAATA
* *
4178645 TTAAAAGAGTATA
1 TTAAAACAGAATA
*
4178658 TTAATAATAGAATA
1 TTAA-AACAGAATA
4178672 TTAAAACA
1 TTAAAACA
4178680 TAATTGTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (13 bp):
TTAAAACAGAATA
Found at i:4180129 original size:17 final size:17
Alignment explanation
Indices: 4180109--4180142 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4180099 AATAAGATAA
*
4180109 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
4180126 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
4180143 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:4180478 original size:20 final size:20
Alignment explanation
Indices: 4180453--4180493 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4180443 AAATGGGTAC
* *
4180453 CGATACTACTACAGTAGTAT
1 CGATACCACTACAGTAATAT
*
4180473 CGATACCGCTACAGTAATAT
1 CGATACCACTACAGTAATAT
4180493 C
1 C
4180494 AAGCCCAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (20 bp):
CGATACCACTACAGTAATAT
Found at i:4183541 original size:54 final size:54
Alignment explanation
Indices: 4183478--4183580 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
4183468 CTGCTGTGTA
* *
4183478 TTTTCTGCACTGTTCGAACCAAATCAGTTTTTTTCTGTACTGTTC-TGTTCAAAC
1 TTTTCTGCACAGTTCGAACCAAATCAG-TTTTTTCTATACTGTTCGTGTTCAAAC
* *
4183532 TTTTCTGCACAGTTCGAACCAAGTCTGTTTTTTCTATACTGTTCGTGTT
1 TTTTCTGCACAGTTCGAACCAAATCAGTTTTTTCTATACTGTTCGTGTT
4183581 GAGTTAATCG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 16 0.36
54 28 0.64
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (54 bp):
TTTTCTGCACAGTTCGAACCAAATCAGTTTTTTCTATACTGTTCGTGTTCAAAC
Found at i:4187008 original size:22 final size:21
Alignment explanation
Indices: 4186985--4187065 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
4186975 AGAACCCCAG
*
4186985 GGGGGTATCGATTCCCCTGTA
1 GGGGGAATCGATTCCCCTGTA
*
4187006 GGGGGAATCGGTTCCCCT-TCAAA
1 GGGGGAATCGATTCCCCTGT---A
*
4187029 GGGGGAATCGGTTCCCTCATG--
1 GGGGGAATCGATTCCC-C-TGTA
*
4187050 GGGGGGATCGATTCCC
1 GGGGGAATCGATTCCC
4187066 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.02
21 30 0.60
23 17 0.34
24 1 0.02
25 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCTGTA
Found at i:4187059 original size:21 final size:21
Alignment explanation
Indices: 4187005--4187067 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
4186995 ATTCCCCTGT
4187005 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTT-CCC-TCAA
*
4187028 AGGGGGAATCGGTTCCCTCAT
1 AGGGGGAATCGGTTCCCTCAA
* * *
4187049 GGGGGGGATCGATTCCCTC
1 AGGGGGAATCGGTTCCCTC
4187068 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 3 0.08
23 14 0.39
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:4193036 original size:15 final size:15
Alignment explanation
Indices: 4193013--4193050 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
4193003 AATAAAAAAT
4193013 AAATCTGAAAAATAAA
1 AAAT-TGAAAAATAAA
4193029 AAATTG-AAAATAAA
1 AAATTGAAAAATAAA
4193043 AAATTGAA
1 AAATTGAA
4193051 CAAACGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.67
15 3 0.14
16 4 0.19
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (15 bp):
AAATTGAAAAATAAA
Found at i:4196036 original size:5 final size:5
Alignment explanation
Indices: 4195995--4196019 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4195985 GAAAAGATAG
4195995 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
4196020 GGGAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:4196655 original size:12 final size:12
Alignment explanation
Indices: 4196634--4196663 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4196624 AGAAGTATGC
4196634 GAAAAATAGAGA
1 GAAAAATAGAGA
*
4196646 GAAAACTAGAGA
1 GAAAAATAGAGA
4196658 GAAAAA
1 GAAAAA
4196664 GAAGATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:4209949 original size:3 final size:3
Alignment explanation
Indices: 4209941--4209972 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4209931 GGATACTATC
4209941 ATT ATT ATT ATT ATT A-T ATT ATT -TT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4209973 ATAATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4210665 original size:20 final size:20
Alignment explanation
Indices: 4210642--4210696 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
4210632 GCACTAACTC
4210642 TATTATACT-ACCACCACTAA
1 TATT-TACTGACCACCACTAA
* *
4210662 TATTTTCTGGCCACCACTAA
1 TATTTACTGACCACCACTAA
* *
4210682 TATTTGCTGGCCACC
1 TATTTACTGACCACC
4210697 CATGTTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (20 bp):
TATTTACTGACCACCACTAA
Found at i:4211315 original size:146 final size:146
Alignment explanation
Indices: 4211045--4211319 Score: 347
Period size: 146 Copynumber: 1.9 Consensus size: 146
4211035 TCTCGCCGGA
* *
4211045 GATCGGGATCTCTGATCAACATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATA
1 GATCGGAATCTCTGATCAACATTCCGAACGGTCAAAAGTTGCGGAAGGCCAACACGAACAACATA
* ** * ** *
4211110 TTGAAAATTCAAGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAACATATCCGGACGGTTT
66 TTGAAAAATCAAGACGATCGGACGGTGGACGACGACAGATCAAAGAAAACACATCCGGACGGTTT
4211175 TTAGCCTCTTGCTGGT
131 TTAGCCTCTTGCTGGT
* * * * *
4211191 GATCGGAATCT-TCGATCAATATTCCGAACGGTGAAAAGTTGTGTG-ATGCCAACACGAACAACC
1 GATCGGAATCTCT-GATCAACATTCCGAACGGTCAAAAGTTGCG-GAAGGCCAACACGAACAACA
* * * * *
4211254 TATTGAAAAATCAGGACGATCGGACGGTGGATGACGGCAGATCAAAGAAAATACATTCGGACGGT
64 TATTGAAAAATCAAGACGATCGGACGGTGGACGACGACAGATCAAAGAAAACACATCCGGACGGT
4211319 T
129 T
4211320 ATCTTTGTAT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
145 1 0.01
146 106 0.98
147 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (146 bp):
GATCGGAATCTCTGATCAACATTCCGAACGGTCAAAAGTTGCGGAAGGCCAACACGAACAACATA
TTGAAAAATCAAGACGATCGGACGGTGGACGACGACAGATCAAAGAAAACACATCCGGACGGTTT
TTAGCCTCTTGCTGGT
Found at i:4218769 original size:8 final size:8
Alignment explanation
Indices: 4218750--4218826 Score: 74
Period size: 9 Copynumber: 9.8 Consensus size: 8
4218740 TAAAGATAAA
4218750 AAAAAATG
1 AAAAAATG
4218758 -AAAAATG
1 AAAAAATG
4218765 AAAAAAATGG
1 -AAAAAAT-G
4218775 AAAAAATG
1 AAAAAATG
4218783 AAAAAATG
1 AAAAAATG
*
4218791 -AAATA-G
1 AAAAAATG
4218797 -AAAAATAG
1 AAAAAAT-G
4218805 AAAAAATGG
1 AAAAAAT-G
4218814 AAAAAAT-
1 AAAAAATG
4218821 AAAAAA
1 AAAAAA
4218827 AAAGAAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
6 5 0.08
7 17 0.28
8 10 0.17
9 27 0.45
10 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:4218770 original size:9 final size:9
Alignment explanation
Indices: 4218749--4218837 Score: 69
Period size: 9 Copynumber: 9.8 Consensus size: 9
4218739 TTAAAGATAA
4218749 AAAAAAATG
1 AAAAAAATG
4218758 --AAAAATG
1 AAAAAAATG
4218765 AAAAAAATG
1 AAAAAAATG
*
4218774 GAAAAAATG
1 AAAAAAATG
4218783 -AAAAAATG
1 AAAAAAATG
4218791 AAATAGAAAAAT-
1 --A-A-AAAAATG
4218803 AGAAAAAATG
1 A-AAAAAATG
* *
4218813 GAAAAAATA
1 AAAAAAATG
*
4218822 AAAAAAAAG
1 AAAAAAATG
4218831 AAAAAAA
1 AAAAAAA
4218838 GAAGAAGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
7 7 0.11
8 8 0.12
9 41 0.63
10 2 0.03
12 1 0.02
13 6 0.09
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:4218801 original size:39 final size:38
Alignment explanation
Indices: 4218753--4218827 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 38
4218743 AGATAAAAAA
*
4218753 AAATGAAAAAT-GAAAAAAATGGAAAAAATGAAAAAATG
1 AAATGAAAAATAG-AAAAAATGGAAAAAATAAAAAAATG
4218791 AAATAGAAAAATAGAAAAAATGGAAAAAATAAAAAAA
1 AAAT-GAAAAATAGAAAAAATGGAAAAAATAAAAAAA
4218828 AAGAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 4 0.12
39 29 0.85
40 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (38 bp):
AAATGAAAAATAGAAAAAATGGAAAAAATAAAAAAATG
Found at i:4218801 original size:48 final size:48
Alignment explanation
Indices: 4218749--4218851 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
4218739 TTAAAGATAA
** * *
4218749 AAAAAAATG-AAAAATGAAAAAAATGGAAAAAATGAAAAAATGAA-ATAG
1 AAAAAAA-GAAAAAATGAAAAAAATAAAAAAAAAGAAAAAAAGAAGA-AG
* *
4218797 AAAAATAGAAAAAATGGAAAAAATAAAAAAAAAGAAAAAAAGAAGAAG
1 AAAAAAAGAAAAAATGAAAAAAATAAAAAAAAAGAAAAAAAGAAGAAG
4218845 AAAAAAA
1 AAAAAAA
4218852 ACAAAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.02
48 44 0.96
49 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (48 bp):
AAAAAAAGAAAAAATGAAAAAAATAAAAAAAAAGAAAAAAAGAAGAAG
Found at i:4220230 original size:55 final size:55
Alignment explanation
Indices: 4220146--4220425 Score: 465
Period size: 55 Copynumber: 5.1 Consensus size: 55
4220136 TGAAGCAAAA
4220146 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * * * *
4220201 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGAAGACACGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
4220256 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
4220309 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
4220364 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
4220419 GGAGATT
1 GAAGATT
4220426 ATTGTTCGAG
Statistics
Matches: 206, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 45 0.22
54 6 0.03
55 155 0.75
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:4220349 original size:108 final size:110
Alignment explanation
Indices: 4220146--4220428 Score: 489
Period size: 108 Copynumber: 2.6 Consensus size: 110
4220136 TGAAGCAAAA
4220146 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
4220211 CGAGTCTTATACTCTCTGAAGAAATAGGGGGAAGACACGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGAAGACACGATTGAT
* *
4220256 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
* * * *
4220319 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGAAGACACGATTGAT
*
4220364 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
4220429 GTTCGAGTTC
Statistics
Matches: 162, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
108 99 0.61
109 6 0.04
110 57 0.35
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGAAGACACGATTGAT
Found at i:4220481 original size:52 final size:52
Alignment explanation
Indices: 4220421--4220817 Score: 695
Period size: 52 Copynumber: 7.6 Consensus size: 52
4220411 CGATCGTTGG
* *
4220421 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
4220473 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
* *
4220525 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
* *
4220577 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
4220629 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
* * *
4220681 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
4220733 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
* *
4220785 AGATTATCGTTCGAGTTCTACTCCCTGAAGAAA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
4220818 TAGAGAGCGA
Statistics
Matches: 327, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 327 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
Found at i:4220900 original size:55 final size:53
Alignment explanation
Indices: 4220686--4220888 Score: 166
Period size: 52 Copynumber: 3.8 Consensus size: 53
4220676 TAGGAAGATT
* * ** **
4220686 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-GA-C-AGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * * * ** **
4220738 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GC-AGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* *
4220790 ATCGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGAACCCGTAAAAAGAAG
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGAACCCGTAAAAAGAAG
4220843 ATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGAGAGCGAACCCGT
1 ATTGTTCGAGTTC--TACTCCCTGAAGAAAAAGAGAGCGAACCCGT
4220889 TTGCAGAAGA
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
51 1 0.01
52 76 0.58
53 23 0.18
54 1 0.01
55 30 0.23
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (53 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGAACCCGTAAAAAGAAG
Found at i:4221083 original size:3 final size:3
Alignment explanation
Indices: 4221075--4221106 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4221065 GGATACTATC
4221075 ATT ATT ATT ATT ATT A-T ATT ATT -TT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4221107 ATAATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4221799 original size:20 final size:20
Alignment explanation
Indices: 4221776--4221830 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
4221766 GCACTAACTC
4221776 TATTATACT-ACCACCACTAA
1 TATT-TACTGACCACCACTAA
* *
4221796 TATTTGCTGGCCACCACTAA
1 TATTTACTGACCACCACTAA
* *
4221816 TATTTGCTGGCCACC
1 TATTTACTGACCACC
4221831 CATGTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (20 bp):
TATTTACTGACCACCACTAA
Found at i:4225458 original size:15 final size:15
Alignment explanation
Indices: 4225438--4225470 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4225428 GGTGACGTGA
*
4225438 CACATGTCACATCAT
1 CACATGCCACATCAT
4225453 CACATGCCACATCAT
1 CACATGCCACATCAT
4225468 CAC
1 CAC
4225471 TTTGGATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.39, G:0.06, T:0.21
Consensus pattern (15 bp):
CACATGCCACATCAT
Found at i:4227031 original size:20 final size:20
Alignment explanation
Indices: 4227002--4227051 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4226992 GTTGACACCA
*
4227002 AACTCAAAAAGATCACGAGT
1 AACTCGAAAAGATCACGAGT
* * *
4227022 AACTTGAAAAGGTCGCGAGT
1 AACTCGAAAAGATCACGAGT
4227042 AACTCGAAAA
1 AACTCGAAAA
4227052 AAATAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (20 bp):
AACTCGAAAAGATCACGAGT
Found at i:4227086 original size:14 final size:14
Alignment explanation
Indices: 4227067--4227096 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4227057 ATATATATGA
*
4227067 AAAATTTAATTTTT
1 AAAATTAAATTTTT
4227081 AAAATTAAATTTTT
1 AAAATTAAATTTTT
4227095 AA
1 AA
4227097 TAATATTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAAATTAAATTTTT
Found at i:4229578 original size:19 final size:21
Alignment explanation
Indices: 4229554--4229603 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
4229544 TGAAAAAATG
*
4229554 GTATCGATACCGTA-ATAG-A
1 GTATCGATACCATAGATAGTA
*
4229573 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
4229595 GTATCGATA
1 GTATCGATA
4229604 TCATGGTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 12 0.48
21 4 0.16
22 9 0.36
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:4230007 original size:54 final size:54
Alignment explanation
Indices: 4229946--4230282 Score: 516
Period size: 54 Copynumber: 6.3 Consensus size: 54
4229936 TACCAAATAT
*
4229946 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCA
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * * * *
4230000 ACACTAAGTGTGCATTTCACGGAATTCATCGTATATAGATGAATAACTGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * *
4230054 GCACTAAGTGTGCA-TTCGCGGAATTCATCCTATATGGATGAATAACTGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * * *
4230107 GCACTAATTGTGCATTTCACGAAATTCATCCTATGTGGAGGAATAACCGTTTTG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
*
4230161 GCACTAAGTGTGCATTTCATC-GAATTCATCCTATGTGGATGAATAACCATTTCG
1 GCACTAAGTGTGCATTTCA-CGGAATTCATCCTATGTGGATGAATAACCGTTTCG
*
4230215 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
4230269 GCACTAAGTGTGCA
1 GCACTAAGTGTGCA
4230283 AAAACTTAAG
Statistics
Matches: 256, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 50 0.20
54 205 0.80
55 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (54 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
Found at i:4230925 original size:204 final size:205
Alignment explanation
Indices: 4230552--4230932 Score: 554
Period size: 204 Copynumber: 1.9 Consensus size: 205
4230542 TTAACTATGT
* * * * *
4230552 ATTTTACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCATTTTGAAGCCTAACT
1 ATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAACTGCACTTTGAAGCCTAACT
* *
4230617 GTACATTTTACAGAAAGGTGTCATTTATGCTAGTTAGATAAAAGCCTAAGTGTCTTTGAAGTCTA
66 GTACATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATAAAAGCCTAAGTGTCTTTGAAGCCTA
* *
4230682 ACTATGCATTTGAAAGAAAGATGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCATTTGAGGC
131 ACTATGCATTTGAAAGAAAGATGTCAATCATGCCAGTTAGATGAAAGACTAAGTGCATTTGAGGC
4230747 CTAACTGTAC
196 CTAACTGTAC
*
4230757 ATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAACTGC-CTTTGAGGCCTAACT
1 ATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAACTGCACTTTGAAGCCTAACT
* * * *
4230821 TTGCATTTGACAGAAAGGTGTCATTTATGTCT-GTTAGATGAAAGGCTAAGTGTCTTTGAAGCCT
66 GTACATTTGACAGAAAGGTGTCATTTATG-CTAGTTAGATAAAAGCCTAAGTGTCTTTGAAGCCT
* * *
4230885 ATCTGTGCATTTGACAGAAATG-TGTCAATCATAG-CAGTTAGATGAAAG
130 AACTATGCATTTGAAAGAAA-GATGTCAATCAT-GCCAGTTAGATGAAAG
4230933 GTAAAATGCC
Statistics
Matches: 156, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
204 107 0.69
205 49 0.31
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (205 bp):
ATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAACTGCACTTTGAAGCCTAACT
GTACATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATAAAAGCCTAAGTGTCTTTGAAGCCTA
ACTATGCATTTGAAAGAAAGATGTCAATCATGCCAGTTAGATGAAAGACTAAGTGCATTTGAGGC
CTAACTGTAC
Found at i:4230946 original size:68 final size:68
Alignment explanation
Indices: 4230543--4230947 Score: 490
Period size: 68 Copynumber: 5.9 Consensus size: 68
4230533 TTAATAGGCT
* * * * *
4230543 TAACTATGTATTTTACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCATTTTGA
1 TAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC-CTTTGA
4230608 AGCC
65 AGCC
* * * * * *
4230612 TAACTGTACATTTTACAGAAAGGTGTCATTTATGCTAGTTAGATAAAAGCCTAAGTGTCTTTGAA
1 TAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAA
*
4230677 GTC
66 GCC
* * * * * *
4230680 TAACTATGCATTTGAAAGAAAGATGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCATTTGAG
1 TAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAA
4230745 GCC
66 GCC
* * * *
4230748 TAACTGTACATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAACTGCCTTTGAG
1 TAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAA
4230813 GCC
66 GCC
* * * *
4230816 TAACTTTGCATTTGACAGAAAGGTGTCATTTATGTCTGTTAGATGAAAGGCTAAGTGTCTTTGAA
1 TAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAA
4230881 GCC
66 GCC
* * * * *
4230884 TATCTGTGCATTTGACAGAAATGTGTCAATCATAG-CAGTTAGATGAAAGG-TAAAATGCCTTTG
1 TAACTGTGCATTTGACAGAAAGGTGTCATTTAT-GCCAGTTAGATGAAAGGCT-AAGTGCCTTTG
4230947 A
64 A
4230948 GTAAAAGATT
Statistics
Matches: 290, Mismatches: 44, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
67 1 0.00
68 238 0.82
69 51 0.18
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (68 bp):
TAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAA
GCC
Found at i:4231043 original size:46 final size:46
Alignment explanation
Indices: 4230993--4231203 Score: 264
Period size: 46 Copynumber: 4.6 Consensus size: 46
4230983 TATAAAAAAA
* *
4230993 GGCATGAAAGGATACCATAAATGAAATGTATAATAGCATAAAAAGG
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
** *
4231039 GGCATGAAAGGATGTTATAAATGAAATGTATAATAGTGTAAAAAGG
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
* * *
4231085 GGCATGAAATGAT-CAATAAATGAAATGTATAATAGGGTAAAAAGG
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
* ** *
4231130 GACATGGTAGGATGCCATAAATGAAAAGTATAATAGCGTAGAAAA-G
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTA-AAAAGG
* * *
4231176 GGCATGTAAGCATGTCATAAATGAAATG
1 GGCATGAAAGGATGCCATAAATGAAATG
4231204 CATAGGGGTG
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
45 38 0.27
46 99 0.70
47 4 0.03
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.22
Consensus pattern (46 bp):
GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
Found at i:4231109 original size:91 final size:90
Alignment explanation
Indices: 4230988--4231203 Score: 256
Period size: 91 Copynumber: 2.3 Consensus size: 90
4230978 TGTCATATAA
* * *
4230988 AAAAAGGCATGAAAGGATACCATAAATGAAATGTATAATAGCATAAAAAGGGGCATGAAAGGATG
1 AAAAGGGCATGAAATGAT--CATAAATGAAATGTATAATAGCATAAAAAGGGACATGAAAGGATG
** * *
4231053 TTATAAATGAAATGTATAATAGTGTA-
64 CCATAAATGAAAAGTATAATAGCGTAG
** **
4231079 AAAAGGGGCATGAAATGATCAATAAATGAAATGTATAATAGGGTAAAAAGGGACATGGTAGGATG
1 AAAA-GGGCATGAAATGATC-ATAAATGAAATGTATAATAGCATAAAAAGGGACATGAAAGGATG
4231144 CCATAAATGAAAAGTATAATAGCGTAG
64 CCATAAATGAAAAGTATAATAGCGTAG
4231171 AAAAGGGCATGTAAGCATG-TCATAAATGAAATG
1 AAAAGGGCATG-AA--ATGATCATAAATGAAATG
4231204 CATAGGGGTG
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
90 1 0.01
91 72 0.67
92 30 0.28
93 2 0.02
94 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.22
Consensus pattern (90 bp):
AAAAGGGCATGAAATGATCATAAATGAAATGTATAATAGCATAAAAAGGGACATGAAAGGATGCC
ATAAATGAAAAGTATAATAGCGTAG
Found at i:4232624 original size:15 final size:16
Alignment explanation
Indices: 4232604--4232634 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4232594 CTGGAGAAAG
4232604 AAATAAAAG-ATTTTA
1 AAATAAAAGTATTTTA
4232619 AAATAAAAGTATTTTA
1 AAATAAAAGTATTTTA
4232635 TTTATCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATAAAAGTATTTTA
Found at i:4234914 original size:21 final size:21
Alignment explanation
Indices: 4234890--4234941 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4234880 GTTACAATCA
*
4234890 GTATCGATACCGAGGAGGGAG
1 GTATCGATACCGAGGAGGAAG
* *
4234911 GTATCGATA-CTATGAGGAAG
1 GTATCGATACCGAGGAGGAAG
4234931 GTATCGATACC
1 GTATCGATACC
4234942 ATTAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (21 bp):
GTATCGATACCGAGGAGGAAG
Found at i:4235418 original size:54 final size:54
Alignment explanation
Indices: 4235359--4235678 Score: 415
Period size: 54 Copynumber: 5.9 Consensus size: 54
4235349 TCAAATAGGT
* * * *
4235359 ACTAAGTGTGCATTTCATGGAATTCATCATATGTTGATGAATAACCTTTTCGGC
1 ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGC
* ** * * *
4235413 ACTAAGTGTGCATTTCGTGGAAGTCATCATATGTGGATGAACAACCATTTCGGC
1 ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGC
* * *
4235467 ACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTCGAC
1 ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGC
* * * *
4235521 ACTAAATGTGCATTTCACGGAATTCATCCTATGTGGAGGAATAATCGTTTCGAC
1 ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGC
* * * * *
4235575 ACTAAATGTGCATTTCAAGAAATTAATCCTATGTGGAGGAATAACCGTTTCGGC
1 ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGC
* * *
4235629 ACTAAATGTGTATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTT
1 ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTT
4235679 TCCTACATGG
Statistics
Matches: 238, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 238 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (54 bp):
ACTAAATGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGC
Found at i:4236214 original size:90 final size:91
Alignment explanation
Indices: 4236051--4236230 Score: 326
Period size: 90 Copynumber: 2.0 Consensus size: 91
4236041 TGCTAGACCA
*
4236051 AACACATCCTTTTATATCCGAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTA
1 AACACATCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTA
4236116 AATATATATTTAATTAATTAGAATTT
66 AATATATATTTAATTAATTAGAATTT
*
4236142 AACA-ATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTA
1 AACACATCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTA
*
4236206 AATCTATATTTAATTAATTAGAATT
66 AATATATATTTAATTAATTAGAATT
4236231 AAATATTCGG
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 82 0.95
91 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (91 bp):
AACACATCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTA
AATATATATTTAATTAATTAGAATTT
Found at i:4238298 original size:2 final size:2
Alignment explanation
Indices: 4238291--4238317 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4238281 TATTTCGAAT
4238291 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4238318 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4245257 original size:90 final size:90
Alignment explanation
Indices: 4245099--4245273 Score: 305
Period size: 90 Copynumber: 1.9 Consensus size: 90
4245089 GACCTAACAC
* *
4245099 ATCCTTTTATATCCTAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTAAATAT
1 ATCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATCATTTCAAATTAATTAAATAT
*
4245164 ATATTTAATTAATTGGAATTTAATA
66 ATATTTAATTAATTAGAATTTAATA
* *
4245189 ATCCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATCATTTCAAATTAATTAAATCT
1 ATCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATCATTTCAAATTAATTAAATAT
4245254 ATATTTAATTAATTAGAATT
66 ATATTTAATTAATTAGAATT
4245274 AAATGTTCGA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (90 bp):
ATCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATCATTTCAAATTAATTAAATAT
ATATTTAATTAATTAGAATTTAATA
Found at i:4246860 original size:68 final size:68
Alignment explanation
Indices: 4246519--4246836 Score: 447
Period size: 68 Copynumber: 4.7 Consensus size: 68
4246509 AAAGATTAAT
* *
4246519 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATAAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4246584 TTG
66 TTG
* * *
4246587 AGGCCTAATTGTACATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4246652 TTG
66 TTG
* * ** * * * *
4246655 ATGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATATCAGTTATATGAAAGACTAAGTTCTT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4246720 TTG
66 TTG
* * *
4246723 AGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATACCAGTTAAATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4246788 TTG
66 TTG
* * * * *
4246791 AGGCATAGCTGTGCATTTGAAAGAAAGGTGTCAGTCATGCCAGTTA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTA
4246837 TATAATAGCG
Statistics
Matches: 219, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 219 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:4246973 original size:46 final size:45
Alignment explanation
Indices: 4246901--4247073 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 45
4246891 GTCGTATAAA
*
4246901 AAAAAGGTGCATGAAAGGATGC-CATAAATAAAAAGTATAATAGCGT
1 AAAAAGG-GCATGAAAGGAT-CTCATAAATAAAATGTATAATAGCGT
* *
4246947 AAAAAGGGACATGAAAGGATCTCATAAATGAAATGTATAATAGGGT
1 AAAAAGGG-CATGAAAGGATCTCATAAATAAAATGTATAATAGCGT
* * * *
4246993 AAAAAGAGGCATGAAAGGATGTCATAAATGAAATGTCTAATAGCAT
1 AAAAAG-GGCATGAAAGGATCTCATAAATAAAATGTATAATAGCGT
* * * * *
4247039 AAAAAATGACATGTAATGATGTCATAAATAAAATG
1 -AAAAAGGGCATGAAAGGATCTCATAAATAAAATG
4247074 AATAGGGGTG
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 2 0.02
46 102 0.92
47 7 0.06
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.22
Consensus pattern (45 bp):
AAAAAGGGCATGAAAGGATCTCATAAATAAAATGTATAATAGCGT
Found at i:4247005 original size:92 final size:92
Alignment explanation
Indices: 4246901--4247073 Score: 231
Period size: 92 Copynumber: 1.9 Consensus size: 92
4246891 GTCGTATAAA
* *
4246901 AAAAAGGTGCATGAAAGGATGCCATAAATAAAAAGTATAATAGCGTAAAAAGGGACATGAAAGGA
1 AAAAAGGTGCATGAAAGGATGCCATAAATAAAAAGTATAATAGCATAAAAAAGGACATGAAAGGA
*
4246966 TCTCATAAATGAAATGTATAATAGGGT
66 TCTCATAAATAAAATGTATAATAGGGT
* * * * * * *
4246993 AAAAAGAG-GCATGAAAGGATGTCATAAATGAAATGTCTAATAGCATAAAAAATGACATGTAATG
1 AAAAAG-GTGCATGAAAGGATGCCATAAATAAAAAGTATAATAGCATAAAAAAGGACATGAAAGG
*
4247057 ATGTCATAAATAAAATG
65 ATCTCATAAATAAAATG
4247074 AATAGGGGTG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
92 68 0.99
93 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.22
Consensus pattern (92 bp):
AAAAAGGTGCATGAAAGGATGCCATAAATAAAAAGTATAATAGCATAAAAAAGGACATGAAAGGA
TCTCATAAATAAAATGTATAATAGGGT
Found at i:4248014 original size:20 final size:20
Alignment explanation
Indices: 4247989--4248029 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4247979 TATCTCACTC
4247989 GTGTTAAGGAGGTGTGTGAT
1 GTGTTAAGGAGGTGTGTGAT
4248009 GTGTTAAGGAGGTGTGTGAT
1 GTGTTAAGGAGGTGTGTGAT
4248029 G
1 G
4248030 CGCTTGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (20 bp):
GTGTTAAGGAGGTGTGTGAT
Found at i:4254676 original size:22 final size:22
Alignment explanation
Indices: 4254651--4254698 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4254641 CATTATTTCC
*
4254651 AAAACACAATTTAA-AACTATTT
1 AAAACACAATTAAATAAC-ATTT
* *
4254673 AAAATAGAATTAAATAACATTT
1 AAAACACAATTAAATAACATTT
4254695 AAAA
1 AAAA
4254699 TTATGTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAACACAATTAAATAACATTT
Found at i:4256843 original size:37 final size:36
Alignment explanation
Indices: 4256768--4256844 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
4256758 TTTTAATATT
*
4256768 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
4256804 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
4256841 TTTA
1 TTTA
4256845 TAATATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:4256864 original size:18 final size:18
Alignment explanation
Indices: 4256820--4256867 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4256810 TTTTTAAAGA
*
4256820 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
*
4256839 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
4256856 AAATATATAATA
1 AAATATATAATA
4256868 AGGATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:4267511 original size:42 final size:41
Alignment explanation
Indices: 4267451--4267544 Score: 125
Period size: 42 Copynumber: 2.3 Consensus size: 41
4267441 TAGTAAGTCT
* * * *
4267451 TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCC
1 TTCGGGTCATCAGCAAGTCTCTCGAGCAAGATGA-TAAATCA
* *
4267493 TTCGGGTCATCTGCAAGTCTCTCGAGCAAGATGATAAGTCA
1 TTCGGGTCATCAGCAAGTCTCTCGAGCAAGATGATAAATCA
4267534 TTCGGGTCATC
1 TTCGGGTCATC
4267545 CATAAGACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 16 0.35
42 30 0.65
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (41 bp):
TTCGGGTCATCAGCAAGTCTCTCGAGCAAGATGATAAATCA
Found at i:4267784 original size:237 final size:238
Alignment explanation
Indices: 4267345--4267814 Score: 710
Period size: 237 Copynumber: 2.0 Consensus size: 238
4267335 TTTTTGAAAA
*
4267345 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAGATTTTCAAAA
1 AAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAGATTTTCAAAA
* * *
4267410 CGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCTTTCGGGTCATCAGTAAGTCTTTCG
66 AGTAAGAAAACGATTTCCAAAATTTCTTACTTAGTAAGTCCTTCGGGTCATCAGTAAGTCTTTCG
* * * *
4267475 AGCATGATGATTAAATCCTTCGGGTCATCTGCAAGTCTCTCGAGCAAGATGATAAGTCATTCGGG
131 AGCATGATGATTAAATCATTCGGGTCATCTGCAAGCCTCTCGAGCAAAATGAAAAGTCATTCGGG
* * *
4267540 TCATCCATAAGACCTTCGGGTAGGATGTTGTCACATGAATTTG
196 CCATCCATAAGACCTTCGGGCAGGATATTGTCACATGAATTTG
* *
4267583 AAAAATGAGGAAA-AGATTTTCAAAGTTTCTCATTT-AATGTTTTCTGAAAATGAGATTTTCAAA
1 AAAAATGA-GAAAGAGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAGATTTTCAAA
* *
4267646 AAGTAAGAAAATGATTTCCAAAATTTCTTACTTAGTAAGTCCTTCGGGTTATCAGTAAGTCTTTC
65 AAGTAAGAAAACGATTTCCAAAATTTCTTACTTAGTAAGTCCTTCGGGTCATCAGTAAGTCTTTC
* * * * * *
4267711 GAGCATGATGATTAAATTATTCGGGTCATCTGTAAGCCTTTCGAGTAAAATGAAAAGTCTTTTGG
130 GAGCATGATGATTAAATCATTCGGGTCATCTGCAAGCCTCTCGAGCAAAATGAAAAGTCATTCGG
* *
4267776 GCCATCCATAAGACCTTCGGGCATGATATTTTCACATGA
195 GCCATCCATAAGACCTTCGGGCAGGATATTGTCACATGA
4267815 TTTTTTTTAC
Statistics
Matches: 208, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
237 176 0.85
238 28 0.13
239 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (238 bp):
AAAAATGAGAAAGAGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAGATTTTCAAAA
AGTAAGAAAACGATTTCCAAAATTTCTTACTTAGTAAGTCCTTCGGGTCATCAGTAAGTCTTTCG
AGCATGATGATTAAATCATTCGGGTCATCTGCAAGCCTCTCGAGCAAAATGAAAAGTCATTCGGG
CCATCCATAAGACCTTCGGGCAGGATATTGTCACATGAATTTG
Found at i:4267986 original size:41 final size:42
Alignment explanation
Indices: 4267903--4268005 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 42
4267893 GGGCCTTCAG
* * * *
4267903 TAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTA
1 TAAGACTTTCGAGCAAGATGATTAAATCCTTCGAGCCATCTA
* * *
4267945 TAAGTCTTTCGAGCAAGATGA-TAAGTCCTTTGAGCCATCTA
1 TAAGACTTTCGAGCAAGATGATTAAATCCTTCGAGCCATCTA
* *
4267986 TAAGACCTTCGTGCAAGATG
1 TAAGACTTTCGAGCAAGATG
4268006 TTTTCATATG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 33 0.63
42 19 0.37
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGACTTTCGAGCAAGATGATTAAATCCTTCGAGCCATCTA
Found at i:4268502 original size:260 final size:257
Alignment explanation
Indices: 4267833--4268582 Score: 855
Period size: 260 Copynumber: 2.9 Consensus size: 257
4267823 ACAAAAAATG
* * *
4267833 AGAAAGC-TCTTTTCAAAGTTTCTTACCTAATAAACTATTTCCAAAAT-TGGTAAGTCCTTCGGG
1 AGAAAGCGT-TTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATCT-ATAAGTCCTTCGGG
* * * * *
4267896 CCTTCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
64 CCATCAGTAATCCTTTCGAGCATGATGATTAAAT-TTTCGAGTCATCTATAAGTCTTTCGAGAAA
* * * * **
4267961 GATGATAAGTCC-TTTGAGCCATCTATAAGACCTTCGTGCAAGATGTTTTCATATGATTTTTAAA
128 GATGATAAATCCTTTTG-GCCATCTATAAGACCTTCGGGCAAGATGTTTCCACATGATTTCAAAA
* * * *
4268025 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAATTTTCGAAAAGT
192 AATGAGAAAACGATTTCCAAAGTTTCTCATTTAAATATTTTCAAAAAATGAAATTTTCGAAAAGA
4268090 A
257 A
* * * ** *
4268091 AGAAAGTGATTTCCAAAGTTTCTTACTCTGTAAACTATTTCCAAAATCGATAAGTCCTTCGGGCC
1 AGAAAGCGTTTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATCTATAAGTCCTTCGGGCC
* * *
4268156 ATCAGTAAGT-CTTCTTGAGCCTGATGATTAAATCTTTCGAGTCATCTATAAGTCTTTCGAGGAA
66 ATCAGTAA-TCCTT-TCGAGCATGATGATTAAAT-TTTCGAGTCATCTATAAGTCTTTCGAGAAA
** * * *
4268220 GATGATAAATCCTTCGGGCCATCCATAAGACCATCGGGCATA-ATGTTTCCACGTGAATTTCAAA
128 GATGATAAATCCTTTTGGCCATCTATAAGACCTTCGGGCA-AGATGTTTCCACATG-ATTTCAAA
* *
4268284 AAATGAGAAAACGATTTCCAAAGTTTCTCATTTTAGTATTTTCATAAAAATGAAATATTT-GAAA
191 AAATGAGAAAACGATTTCCAAAGTTTCTCATTTAAATATTTTCA-AAAAATGAAAT-TTTCGAAA
4268348 AGAA
254 AGAA
* * *
4268352 AGAAAGCGTTTTCCAAAGTTTCTTACCCAATAGACTATTTCCAAAATCTATAAGTCCTTTGAGCC
1 AGAAAGCGTTTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATCTATAAGTCCTTCGGGCC
*** * *
4268417 ATCAGTAATCCTTTCGAGCATGATGATTAAATTATTCGAGTCATCTGCCAGGCTTTCAAGAAAGA
66 ATCAGTAATCCTTTCGAGCATGATGATTAAATT-TTCGAGTCATCTATAAGTCTTTCGAGAAAGA
* * * * * *
4268482 TTATAAATCCTTTTGGCCATCTATAAGACCTTCGGACAAGATTTTTTCATATAGTATTTGTAAGA
130 TGATAAATCCTTTTGGCCATCTATAAGACCTTCGGGCAAGATGTTTCCACAT-G-ATTT-CAA-A
* **
4268547 AAATGAGAAAATGATTTTTAAAGTTTCTCATTTAAA
191 AAATGAGAAAACGATTTCCAAAGTTTCTCATTTAAA
4268583 ATAAAAATAA
Statistics
Matches: 410, Mismatches: 67, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
258 64 0.16
259 88 0.21
260 132 0.32
261 89 0.22
262 5 0.01
263 32 0.08
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (257 bp):
AGAAAGCGTTTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATCTATAAGTCCTTCGGGCC
ATCAGTAATCCTTTCGAGCATGATGATTAAATTTTCGAGTCATCTATAAGTCTTTCGAGAAAGAT
GATAAATCCTTTTGGCCATCTATAAGACCTTCGGGCAAGATGTTTCCACATGATTTCAAAAAATG
AGAAAACGATTTCCAAAGTTTCTCATTTAAATATTTTCAAAAAATGAAATTTTCGAAAAGAA
Found at i:4271297 original size:18 final size:20
Alignment explanation
Indices: 4271276--4271312 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
4271266 GTGTAAAACC
4271276 ATAAAAAA-T-AAATTTATA
1 ATAAAAAAGTAAAATTTATA
4271294 ATAAAAAAGTAAAATTTAT
1 ATAAAAAAGTAAAATTTAT
4271313 CAGTATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAAAAAAGTAAAATTTATA
Found at i:4292125 original size:47 final size:45
Alignment explanation
Indices: 4292055--4292179 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
4292045 TATAAAATCT
*
4292055 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
4292100 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
4292147 CTTGCCA-TTATT-CGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
4292180 GCATACTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 19 0.26
44 3 0.04
45 10 0.14
46 2 0.03
47 38 0.53
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:4294784 original size:21 final size:20
Alignment explanation
Indices: 4294759--4294797 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4294749 CAGTAGGGCC
4294759 TTTGTTGAAGCCATGAAATCT
1 TTTGTTGAAGCCAT-AAATCT
*
4294780 TTTGTTGAGGCCATAAAT
1 TTTGTTGAAGCCATAAAT
4294798 TCATTAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGTTGAAGCCATAAATCT
Found at i:4299537 original size:24 final size:24
Alignment explanation
Indices: 4299508--4299553 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
4299498 ACATGACATG
4299508 GTACATAGATGTTTTATACATCGT
1 GTACATAGATGTTTTATACATCGT
4299532 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTTTATACATC
4299554 ATATGGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCGT
Found at i:4304535 original size:13 final size:13
Alignment explanation
Indices: 4304514--4304548 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
4304504 AAAACAAAAA
4304514 AAAACAAAAAAGGC
1 AAAA-AAAAAAGGC
4304528 AAAAAAAAAAGGC
1 AAAAAAAAAAGGC
4304541 AAAAAAAA
1 AAAAAAAA
4304549 CAAAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGGC
Found at i:4304536 original size:14 final size:14
Alignment explanation
Indices: 4304513--4304548 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4304503 AAAAACAAAA
4304513 AAAAACAAAAAAGGC
1 AAAAA-AAAAAAGGC
4304528 -AAAAAAAAAAGGC
1 AAAAAAAAAAAGGC
4304541 AAAAAAAA
1 AAAAAAAA
4304549 CAAAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGGC
Found at i:4304537 original size:22 final size:22
Alignment explanation
Indices: 4304501--4304556 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
4304491 ATTTTTTTTC
*
4304501 AAAAA-AACAAAAAAAAACAAA
1 AAAAACAAAAAAAAAAAACAAA
** **
4304522 AAAGGCAAAAAAAAAAGGCAAA
1 AAAAACAAAAAAAAAAAACAAA
4304544 AAAAACAAAAAAA
1 AAAAACAAAAAAA
4304557 GAGCCAAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAACAAAAAAAAAAAACAAA
Found at i:4304565 original size:11 final size:11
Alignment explanation
Indices: 4304530--4304576 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
4304520 AAAAAGGCAA
*
4304530 AAAAAAAAGGC
1 AAAAAAAAGCC
4304541 AAAAAAAA--C
1 AAAAAAAAGCC
4304550 AAAAAAAGAGCC
1 AAAAAAA-AGCC
4304562 AAAAAAAAGCC
1 AAAAAAAAGCC
4304573 AAAA
1 AAAA
4304577 TTTCAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 16 0.48
12 8 0.24
ACGTcount: A:0.77, C:0.13, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGCC
Found at i:4304570 original size:32 final size:31
Alignment explanation
Indices: 4304501--4304576 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
4304491 ATTTTTTTTC
*
4304501 AAAAAAA-CAAAAAAAAACAAAAAAGGCAAA
1 AAAAAAAGCCAAAAAAAACAAAAAAGGCAAA
* *
4304531 AAAAAAAGGCAAAAAAAACAAAAAAAGAGC-CA
1 AAAAAAAGCCAAAAAAAAC-AAAAAAG-GCAAA
4304563 AAAAAAAGCCAAAA
1 AAAAAAAGCCAAAA
4304577 TTTCAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 7 0.18
31 9 0.23
32 21 0.54
33 2 0.05
ACGTcount: A:0.79, C:0.12, G:0.09, T:0.00
Consensus pattern (31 bp):
AAAAAAAGCCAAAAAAAACAAAAAAGGCAAA
Found at i:4320576 original size:46 final size:46
Alignment explanation
Indices: 4320526--4320743 Score: 285
Period size: 46 Copynumber: 4.7 Consensus size: 46
4320516 TTTAGTACAT
** * * *
4320526 CGTTATGTGTTTTTATTTGTGGCATCATTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
4320572 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
* ** *
4320618 AGTTATGCATTTTCATTTATGGCATCCTTTCATGTTGAGAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
* * * *
4320664 CATTATGCATTTTCATTTATGACATCCTTTCATGTCGATAATGCAA
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
* *
4320710 GGTTATACATGTTT-ATTTATGGCATCCTTTCATG
1 CGTTATGCAT-TTTCATTTATGGCATCCTTTCATG
4320744 AAAAAGTAGC
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 149 0.98
47 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (46 bp):
CGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
Found at i:4321074 original size:46 final size:45
Alignment explanation
Indices: 4321022--4321414 Score: 482
Period size: 46 Copynumber: 8.6 Consensus size: 45
4321012 TTTAGTACAT
** * * *
4321022 CGTTATGTGTTTTTATTTGTGGCATCATTTCATGCTGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATG-TGATAATGCAC
*
4321068 CGTTATGCATTTTCATTTATGGCATCCTTTCATGTTGAGAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATG-TGATAATGCAC
* * * *
4321114 CATTATACATTTTCATTTATGACATCCTTTCATGTCGATAATGCAA
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGT-GATAATGCAC
* * *
4321160 GGTTATACATGTTT-ATTTATGGCATCCTTTCATGCCGATAATGCAC
1 CGTTATGCAT-TTTCATTTATGGCATCCTTTCATG-TGATAATGCAC
* ** * * *
4321206 TGTTACACATTTTGATTTATGACATTCTTTCATGTCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGT-GATAATGCAC
* *
4321252 TGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATG-TGATAATGCAC
*
4321298 CGTTATGCATTTTCATTTATGGTATCCTTTCATGTTGATAATGCAC
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATG-TGATAATGCAC
* *
4321344 TGTTATGCATTTTCATTTATGGCATCCTTTCATGTCGATAATGCAT
1 CGTTATGCATTTTCATTTATGGCATCCTTTCATGT-GATAATGCAC
4321390 CGTTATGCATTTTCATTTATGGCAT
1 CGTTATGCATTTTCATTTATGGCAT
4321415 TGATTTTAGA
Statistics
Matches: 304, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
45 5 0.02
46 296 0.97
47 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (45 bp):
CGTTATGCATTTTCATTTATGGCATCCTTTCATGTGATAATGCAC
Found at i:4321190 original size:496 final size:496
Alignment explanation
Indices: 4320257--4321239 Score: 1711
Period size: 496 Copynumber: 2.0 Consensus size: 496
4320247 ATAAGTATAT
4320257 CATGGCTATTTAATTACGAACTAAATCGTATAGTCCATAAGGATAAGATAAATCCTTCTCAGTTA
1 CATGGCTATTTAATTACGAACTAAATCGTATAGTCCATAAGGATAAGATAAATCCTTCTCAGTTA
* *
4320322 AACCAAATTTATTTCATACAATCATCCAAATTATTCTTAGTATTCCCGGCATGCCTATCTTTCTG
66 AACCAAATTTATTTCATACAATCATCCAAATTATTCTTAGTATTCCCGGAATACCTATCTTTCTG
4320387 TAAATTTTTCCCAATTATTCTTTATTTGCCCTATGTATGTTAAATGAGAAAGTAATGTACATGTA
131 TAAATTTTTCCCAATTATTCTTTATTTGCCCTATGTATGTTAAATGAGAAAGTAATGTACATGTA
4320452 TTGCACCAAAGTTACAAATGGTCATTTATCTTTTATAAATACCATGAGTGGCACCTTTTATGCCT
196 TTGCACCAAAGTTACAAATGGTCATTTATCTTTTATAAATACCATGAGTGGCACCTTTTATGCCT
4320517 TTAGTACATCGTTATGTGTTTTTATTTGTGGCATCATTTCATGCCGATAATGCACCGTTATGCAT
261 TTAGTACATCGTTATGTGTTTTTATTTGTGGCATCATTTCATGCCGATAATGCACCGTTATGCAT
* * *
4320582 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACAGTTATGCATTTTCATTTATGGCATCCTT
326 TTTCATTTATGGCATCCTTTCATGCCGAGAATGCACAGTTATACATTTTCATTTATGACATCCTT
* * * *
4320647 TCATGTTGAGAATGCACCATTATGCATTTTCATTTATGACATCCTTTCATGTCGATAATGCAAGG
391 TCATGTCGAGAATGCAACATTATACATTTTCATTTATGACATCCTTTCATGCCGATAATGCAAGG
* *
4320712 TTATACATGTTT-ATTTATGGCATCCTTTCATGAAAAAGTAG
456 TTACACAT-TTTGATTTATGACATCCTTTCATGAAAAAGTAG
4320753 CATGGCTATTTAATTACGAACTAAATCGTATAGTCCATAAGGATAAGATAAATCCTTCTCAGTTA
1 CATGGCTATTTAATTACGAACTAAATCGTATAGTCCATAAGGATAAGATAAATCCTTCTCAGTTA
*
4320818 AACCAAATTTCTTTCATACAATCATCCAAATTATTCTTAGTATTCCCGGAATACCTATCTTTCTG
66 AACCAAATTTATTTCATACAATCATCCAAATTATTCTTAGTATTCCCGGAATACCTATCTTTCTG
*
4320883 TATATTTTTCCCAATTATTCTTTATTTGCCCTATGTATGTTAAATGAGAAAGTAATGTACATGTA
131 TAAATTTTTCCCAATTATTCTTTATTTGCCCTATGTATGTTAAATGAGAAAGTAATGTACATGTA
4320948 TTGCACCAAAGTTACAAATGGTCATTTATCTTTTATAAATACCATGAGTGGCACCTTTTATGCCT
196 TTGCACCAAAGTTACAAATGGTCATTTATCTTTTATAAATACCATGAGTGGCACCTTTTATGCCT
*
4321013 TTAGTACATCGTTATGTGTTTTTATTTGTGGCATCATTTCATGCTGATAATGCACCGTTATGCAT
261 TTAGTACATCGTTATGTGTTTTTATTTGTGGCATCATTTCATGCCGATAATGCACCGTTATGCAT
**
4321078 TTTCATTTATGGCATCCTTTCATGTTGAGAATGCACCA-TTATACATTTTCATTTATGACATCCT
326 TTTCATTTATGGCATCCTTTCATGCCGAGAATGCA-CAGTTATACATTTTCATTTATGACATCCT
* ** * *
4321142 TTCATGTCGATAATGCAAGGTTATACATGTTT-ATTTATGGCATCCTTTCATGCCGATAATGCAC
390 TTCATGTCGAGAATGCAACATTATACAT-TTTCATTTATGACATCCTTTCATGCCGATAATGCAA
* *
4321206 TGTTACACATTTTGATTTATGACATTCTTTCATG
454 GGTTACACATTTTGATTTATGACATCCTTTCATG
4321240 TCGATAATGC
Statistics
Matches: 461, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
495 3 0.01
496 453 0.98
497 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (496 bp):
CATGGCTATTTAATTACGAACTAAATCGTATAGTCCATAAGGATAAGATAAATCCTTCTCAGTTA
AACCAAATTTATTTCATACAATCATCCAAATTATTCTTAGTATTCCCGGAATACCTATCTTTCTG
TAAATTTTTCCCAATTATTCTTTATTTGCCCTATGTATGTTAAATGAGAAAGTAATGTACATGTA
TTGCACCAAAGTTACAAATGGTCATTTATCTTTTATAAATACCATGAGTGGCACCTTTTATGCCT
TTAGTACATCGTTATGTGTTTTTATTTGTGGCATCATTTCATGCCGATAATGCACCGTTATGCAT
TTTCATTTATGGCATCCTTTCATGCCGAGAATGCACAGTTATACATTTTCATTTATGACATCCTT
TCATGTCGAGAATGCAACATTATACATTTTCATTTATGACATCCTTTCATGCCGATAATGCAAGG
TTACACATTTTGATTTATGACATCCTTTCATGAAAAAGTAG
Found at i:4321249 original size:138 final size:137
Alignment explanation
Indices: 4321032--4321410 Score: 542
Period size: 138 Copynumber: 2.8 Consensus size: 137
4321022 CGTTATGTGT
* * *
4321032 TTTTATTTGTGGCATCATTTCATGCTGATAATGCACCGTTATGCATTTTCATTTATGGCATCCTT
1 TTTTATTTATGGCATCCTTTCATGCTGATAATGCACTGTTATGCATTTTCATTTATGGCATCCTT
* * * * * *
4321097 TCATGTTGAGAATGCACCATTATACATTTTCATTTATGACATCCTTTCATGTCGATAATGCAAGG
66 TCATGTCGATAATGCACCGTTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCAACG
4321162 TTATACA
131 TTATACA
* ** * * *
4321169 TGTTTATTTATGGCATCCTTTCATGCCGATAATGCACTGTTACACATTTTGATTTATGACATTCT
1 T-TTTATTTATGGCATCCTTTCATGCTGATAATGCACTGTTATGCATTTTCATTTATGGCATCCT
* * *
4321234 TTCATGTCGATAATGCACTGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACC
65 TTCATGTCGATAATGCACCGTTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCAAC
*
4321299 GTTATGCA
130 GTTATACA
* *
4321307 TTTTCATTTATGGTATCCTTTCATGTTGATAATGCACTGTTATGCATTTTCATTTATGGCATCCT
1 TTTT-ATTTATGGCATCCTTTCATGCTGATAATGCACTGTTATGCATTTTCATTTATGGCATCCT
*
4321372 TTCATGTCGATAATGCATCGTTATGCATTTTCATTTATG
65 TTCATGTCGATAATGCACCGTTATGCATTTTCATTTATG
4321411 GCATTGATTT
Statistics
Matches: 211, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
137 4 0.02
138 207 0.98
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (137 bp):
TTTTATTTATGGCATCCTTTCATGCTGATAATGCACTGTTATGCATTTTCATTTATGGCATCCTT
TCATGTCGATAATGCACCGTTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCAACG
TTATACA
Found at i:4345134 original size:24 final size:24
Alignment explanation
Indices: 4345107--4345152 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
4345097 AGATATAGAA
* *
4345107 TTTTTATATTTGT-AGTTATGTAT
1 TTTTTTTATTTCTAAGTTATGTAT
*
4345130 TTTTTTTCTTTCTAAGTTATGTA
1 TTTTTTTATTTCTAAGTTATGTA
4345153 GAATGAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (24 bp):
TTTTTTTATTTCTAAGTTATGTAT
Found at i:4345336 original size:20 final size:20
Alignment explanation
Indices: 4345293--4345336 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4345283 TGTTTTTAAT
*
4345293 AAATTTTTATCTATAAAATT
1 AAATTTTTATCTATAAAATA
*
4345313 AAATTTTTAT-TTTCAAAATA
1 AAATTTTTATCTAT-AAAATA
4345333 AAAT
1 AAAT
4345337 ATTAAAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATTTTTATCTATAAAATA
Found at i:4345364 original size:14 final size:14
Alignment explanation
Indices: 4345345--4345395 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
4345335 ATATTAAAAG
4345345 AGTATATTAATATT
1 AGTATATTAATATT
**
4345359 AGTATATTAA-AAG
1 AGTATATTAATATT
4345372 AGTATATTAATATT
1 AGTATATTAATATT
4345386 AGTATATTAA
1 AGTATATTAA
4345396 AAGATAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (14 bp):
AGTATATTAATATT
Found at i:4345365 original size:27 final size:27
Alignment explanation
Indices: 4345335--4345399 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
4345325 TCAAAATAAA
4345335 ATATTAAAAGAGTATATTAATATTAGT
1 ATATTAAAAGAGTATATTAATATTAGT
4345362 ATATTAAAAGAGTATATTAATATTAGT
1 ATATTAAAAGAGTATATTAATATTAGT
4345389 ATATTAAAAGA
1 ATATTAAAAGA
4345400 TAACTGTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (27 bp):
ATATTAAAAGAGTATATTAATATTAGT
Found at i:4346205 original size:60 final size:60
Alignment explanation
Indices: 4346136--4346328 Score: 359
Period size: 60 Copynumber: 3.2 Consensus size: 60
4346126 TTAAGTTAAC
*
4346136 TTTAGGTGTCTAAATAATTTCTCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
1 TTTAAGTGTCTAAATAATTTCTCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
4346196 TTTAAGTGTCTAAATAATTTCTCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
1 TTTAAGTGTCTAAATAATTTCTCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
*
4346256 TTTAAGTGTCTAAATAATTTCCCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
1 TTTAAGTGTCTAAATAATTTCTCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
*
4346316 TTTAAGTGCCTAA
1 TTTAAGTGTCTAA
4346329 TCTTAAAAAC
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 130 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (60 bp):
TTTAAGTGTCTAAATAATTTCTCGTTAAAAATAGTTGCATAATGTTTGCTCCGTTACACT
Found at i:4349853 original size:43 final size:43
Alignment explanation
Indices: 4349767--4349943 Score: 162
Period size: 43 Copynumber: 4.2 Consensus size: 43
4349757 TTATAATTTA
* * * * * *
4349767 TAGTGGCATTTTTATCCACAAATGCAGCTAATTATCCTATCTT
1 TAGTGGCATTTTTGTCCACAAACGCCGCTAATTCTCTTGTCTT
* *
4349810 TAGTGGCATTTTTGTCTATAAACGCCGCTAATTCTCTTGTCTT
1 TAGTGGCATTTTTGTCCACAAACGCCGCTAATTCTCTTGTCTT
* ** *
4349853 TTGTGGTGTTTATTG-CCACAAACGTCGCTAATTCTCTTGTCTT
1 TAGTGGCATTT-TTGTCCACAAACGCCGCTAATTCTCTTGTCTT
* * * * * *
4349896 TAGTGACA-TTTTGGCCACAAACACTGCTAATTCTATT-TTTT
1 TAGTGGCATTTTTGTCCACAAACGCCGCTAATTCTCTTGTCTT
4349937 TAGTGGC
1 TAGTGGC
4349944 GTTTATAATA
Statistics
Matches: 108, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
41 12 0.11
42 21 0.19
43 72 0.67
44 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (43 bp):
TAGTGGCATTTTTGTCCACAAACGCCGCTAATTCTCTTGTCTT
Found at i:4353886 original size:23 final size:23
Alignment explanation
Indices: 4353856--4353909 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
4353846 TAAGGACGGA
4353856 GCCAAAATTAAATATTGACAAGG
1 GCCAAAATTAAATATTGACAAGG
*
4353879 GCCAAAATTAATTATTGACAAGG
1 GCCAAAATTAAATATTGACAAGG
4353902 GCCAAAAT
1 GCCAAAAT
4353910 ATTTAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (23 bp):
GCCAAAATTAAATATTGACAAGG
Found at i:4357414 original size:12 final size:12
Alignment explanation
Indices: 4357397--4357436 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
4357387 TGAGGACTTC
4357397 TTTCTTCTCTTA
1 TTTCTTCTCTTA
4357409 TTTCTT-T-TGT-
1 TTTCTTCTCT-TA
4357419 TTTCTTCTCTTA
1 TTTCTTCTCTTA
4357431 TTTCTT
1 TTTCTT
4357437 GTGTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 7 0.29
11 4 0.17
12 13 0.54
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTCTTCTCTTA
Found at i:4357458 original size:25 final size:23
Alignment explanation
Indices: 4357397--4357458 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
4357387 TGAGGACTTC
*
4357397 TTTCTTCTCT-TATTTCTTTTGT
1 TTTCTTCTCTCTATTTCTTGTGT
4357419 TTTCTTCTCT-TATTTCTTGTGT
1 TTTCTTCTCTCTATTTCTTGTGT
4357441 TTTCTTCTCCTCTCATTT
1 TTTCTTCT-CTCT-ATTT
4357459 GTCTTTACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 29 0.81
23 2 0.06
24 1 0.03
25 4 0.11
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTCTTCTCTCTATTTCTTGTGT
Found at i:4357463 original size:27 final size:22
Alignment explanation
Indices: 4357397--4357449 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
4357387 TGAGGACTTC
*
4357397 TTTCTTCTCTTATTTCTTTTGT
1 TTTCTTCTCTTATTTCTTGTGT
4357419 TTTCTTCTCTTATTTCTTGTGT
1 TTTCTTCTCTTATTTCTTGTGT
4357441 TTTCTTCTC
1 TTTCTTCTC
4357450 CTCTCATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.04, C:0.21, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTCTTCTCTTATTTCTTGTGT
Found at i:4357560 original size:473 final size:471
Alignment explanation
Indices: 4356660--4358457 Score: 1463
Period size: 473 Copynumber: 3.9 Consensus size: 471
4356650 GCTCACCAAC
* * *
4356660 GAGCTGGATTGACTGAATCGGAGATGCATGAAAAATCATGTGACTCCCACTCCAACGTCGAGGAC
1 GAGCTGGATGGACTGAATTGGAGATGCATGGAAAATCATGTGACTCCCACTCCAACGTCGAGGAC
* * * ** *
4356725 GTAGTGCCTTCATGGCGTCAAATAAAGGTCGCCCAAAGTA-CATTGTGTCTCCCAAGGTCATTGT
66 ATACTGCCTTCATGGCGTCAAAGAAAGGTCGCCCGGAGTATCA-TGTGTCTCCCATGGTCATTGT
* * * *
4356789 AGCAATCGTCCTATTGAAGCAAATAATTTCACAACCATATTATCTTAAAAAAATTCAATCACATT
130 AACAATTGCCCTATTGAAGCAAATAATTTCACAACCACATTATCTTAAAAAAA-TCAATCACATT
* *
4356854 ATCTTAAAAATTTTGTCAAACTAACTAACTAATTTAAACAACAACAAAAATTAAAAATTACCTGA
194 ATCCT-AAAATTTTGCCAAACTAACTAACTAATTTAAACAACAACAAAAATTAAAAATTACCTGA
* * *
4356919 TGATTTCTTTCTTCTTCTTCCTTTTTTTTCTTCCATTATTTCTTATGTTTTCTTCTCCTCTTCTT
258 GGACTTCTTTCTTCTTATTCCTTTTTTTTCTTCCATTATTTCTTATGTTTTCTTCTCCTCTTCTT
* * ** *
4356984 TCTCTTTACTTTCTCAGTTATCTACCCTCACATATTCCATATATATTACAAACTCCAGCTGAATT
323 TCTCTTTACTTTCCCAGTTATCCACCCTCACATAAGCCATATATATTACAAACTCCAACTGAATT
* ** * * * * * *
4357049 ATCGCTACATATTATTGTTGCATTATAACAGTTATTATTGCTGCTATACAGGGGGTAGACTACTA
388 ATCGCTACATATTATTGTTGCATCATAACAACTATTATTGCTACCACACAGGGGCTAGACCACCA
*
4357114 TGCAGGGAG-TGTCACTAG-G
453 TGCAGAGAGCT-TCAC-AGAG
* *
4357133 GAGCTGGATGGACTGAATTGGAGACGCATGGAAAA-CTATGTAACTCCCACTCCAACGTCGAGGA
1 GAGCTGGATGGACTGAATTGGAGATGCATGGAAAATC-ATGTGACTCCCACTCCAACGTCGAGGA
* * * *
4357197 CATACTACCTTCATGGCGTCAAAGCAAGGTCGCCCGGAGTATCATGCGTCTCCCATGATCACTT-
65 CATACTGCCTTCATGGCGTCAAAGAAAGGTCGCCCGGAGTATCATGTGTCTCCCATGGTCA-TTG
* *
4357261 TATCAATTGGCCTATTGAAGCAAATAATTTCACAACCACATTATCTTTAAAAAAATCAATCACAT
129 TAACAATTGCCCTATTGAAGCAAATAATTTCACAACCACATTATC-TTAAAAAAATCAATCACAT
*
4357326 TATCCTAAAATTTTTGCCAAACTAACTAACTAATTTAAACAACAA-AAAAA-TAAAATTTACCTG
193 TATCCTAAAA-TTTTGCCAAACTAACTAACTAATTTAAACAACAACAAAAATTAAAAATTACCTG
* *
4357389 AGGACTTCTTTCTTCTCTTATTTCTTTTGTTTTCTTCTC-TTATTTCTTGTGTTTTCTTCTCCTC
257 AGGACTTCTTTC-T-TCTTATTCCTTTT-TTTTCTTC-CATTATTTCTTATGTTTTCTTCTCCTC
* * * * *
4357453 -TCATTTGTCTTTAC-TTCCC-GATTGTCCACCTTCCCATAAGCCTTATATATTACAAACTCCAA
318 TTC-TTTCTCTTTACTTTCCCAG-TTATCCACCCTCACATAAGCCATATATATTACAAACTCCAA
** * ** *
4357515 CTGAATTATTTCTCCATATTATTGTTGCATCATTGCAACTATTATTGCTACCACACATGGGCTAG
381 CTGAATTATCGCTACATATTATTGTTGCATCATAACAACTATTATTGCTACCACACAGGGGCTAG
* *
4357580 ACCGCCATGCAGAGAGCTTCACCGAG
446 ACCACCATGCAGAGAGCTTCACAGAG
* * * *
4357606 GAGCTGGATGGACTGAATTAGAGATACATGGAAAATCATGTGACTCCCACTCTAACGTCGACGAC
1 GAGCTGGATGGACTGAATTGGAGATGCATGGAAAATCATGTGACTCCCACTCCAACGTCGAGGAC
* * * ** * *
4357671 ACACTGCCTTCATGGAGTCAAAGTAAGGTTACCCGGAATATCATGTGTCTCCCGTGGTCATTGTA
66 ATACTGCCTTCATGGCGTCAAAGAAAGGTCGCCCGGAGTATCATGTGTCTCCCATGGTCATTGTA
* * * * ** * *
4357736 ACAATTTCCCTGTTAAAGCAAATAATAT--C-ATGACGTTATCTTAAAAAACTTCAATCACATTA
131 ACAATTGCCCTATTGAAGCAAATAATTTCACAACCACATTATCTTAAAAAA-ATCAATCACATTA
* ** * *
4357798 TCCTACAAATTTT-----ACCAACTAACTAATTTAAACAGTAACAATAACTTAAAAATTACATGA
195 TCCTA-AAATTTTGCCAAACTAACTAACTAATTTAAACAACAACAA-AAATTAAAAATTACCTGA
* * * *
4357858 TGA------T-TTC-T-TT-C------TTC--CC-TTATTTCTTATGTTTTATTATCCTCTCCTT
258 GGACTTCTTTCTTCTTATTCCTTTTTTTTCTTCCATTATTTCTTATGTTTTCTTCTCCTCTTCTT
* * * * * * * **
4357904 TATCTTTACTTTCCCAGTTATCCATCGTCCCATAACCCATATATAATACAAACTCTAGTTGAATT
323 TCTCTTTACTTTCCCAGTTATCCACCCTCACATAAGCCATATATATTACAAACTCCAACTGAATT
* * * * * * * ** * *
4357969 ATTGCTCCACATTA---TTGCAGC-T----A-TTTTGTTG-T--TATGCAGGGAGCAAGCTTCGC
388 ATCGCTACATATTATTGTTGCATCATAACAACTATTATTGCTACCACACAGGG-GCTAG--AC-C
* * * *
4358022 GAGTCATGTAGGGAGCTTCACCG-G
449 -A-CCATGCAGAGAGCTTCACAGAG
* * * * ** ** * *
4358046 AGAGATGGATGGACCGAATTAGAGATGCATGCAAAA-CAATACGACTCCCACTTGAATGTCAAGG
1 -GAGCTGGATGGACTGAATTGGAGATGCATGGAAAATC-ATGTGACTCCCACTCCAACGTCGAGG
* ** * * * ** * ** * * *
4358110 GCGCATTGCCTTCATGGCGTAAAAGCAAGGTCGCTTGGAGTATCATGCGTCTTACATAGTCACTC
64 ACATACTGCCTTCATGGCGTCAAAGAAAGGTCGCCCGGAGTATCATGTGTCTCCCATGGTCATTG
* * ** * * * * * *
4358175 TACCAATCGCGGTATTGAAACAAATAATTACATAACTACATTATCTTGAAAAAATCAATCAAATT
129 TAACAATTGCCCTATTGAAGCAAATAATTTCACAACCACATTATCTTAAAAAAATCAATCACATT
** * * * *
4358240 ATCCTAAAAAAATTACCAAAATAACTAACTAATTTAATCAACAACAAAAAATTAAAAATTACATG
194 ATCCT-AAAATTTTGCCAAACTAACTAACTAATTTAAACAACAAC-AAAAATTAAAAATTACCTG
* * * * * * * *
4358305 AGGATTTATTTCGTCTTCTTCC-TTTCTTTATTCCCTTATTTCTTATGTTTTCTTC-CTATCTTC
257 AGGACTTCTTTCTTCTTATTCCTTTTTTTTCTTCCATTATTTCTTATGTTTTCTTCTC-CTCTTC
** * * * * *
4358368 TTTCTCTTTACTTTCCTGGTTGTCCATCCTCCCATAACCCATATATATTATAAACTCCAACTGAA
321 TTTCTCTTTACTTTCCCAGTTATCCACCCTCACATAAGCCATATATATTACAAACTCCAACTGAA
* *
4358433 TTATTGCTCCATATTATTGTTGCAT
386 TTATCGCTACATATTATTGTTGCAT
4358458 TGTTGCAACT
Statistics
Matches: 1072, Mismatches: 190, Indels: 130
0.77 0.14 0.09
Matches are distributed among these distances:
435 5 0.00
436 4 0.00
437 1 0.00
438 7 0.01
439 2 0.00
440 2 0.00
441 134 0.12
443 21 0.02
444 22 0.02
446 33 0.03
447 58 0.05
448 41 0.04
449 5 0.00
454 1 0.00
455 2 0.00
456 2 0.00
457 4 0.00
458 2 0.00
459 2 0.00
460 1 0.00
462 1 0.00
463 2 0.00
465 25 0.02
466 94 0.09
467 2 0.00
468 14 0.01
469 13 0.01
470 29 0.03
471 26 0.02
472 15 0.01
473 444 0.41
474 57 0.05
475 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (471 bp):
GAGCTGGATGGACTGAATTGGAGATGCATGGAAAATCATGTGACTCCCACTCCAACGTCGAGGAC
ATACTGCCTTCATGGCGTCAAAGAAAGGTCGCCCGGAGTATCATGTGTCTCCCATGGTCATTGTA
ACAATTGCCCTATTGAAGCAAATAATTTCACAACCACATTATCTTAAAAAAATCAATCACATTAT
CCTAAAATTTTGCCAAACTAACTAACTAATTTAAACAACAACAAAAATTAAAAATTACCTGAGGA
CTTCTTTCTTCTTATTCCTTTTTTTTCTTCCATTATTTCTTATGTTTTCTTCTCCTCTTCTTTCT
CTTTACTTTCCCAGTTATCCACCCTCACATAAGCCATATATATTACAAACTCCAACTGAATTATC
GCTACATATTATTGTTGCATCATAACAACTATTATTGCTACCACACAGGGGCTAGACCACCATGC
AGAGAGCTTCACAGAG
Found at i:4359377 original size:12 final size:12
Alignment explanation
Indices: 4359350--4359386 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
4359340 ATCACTCCAT
4359350 ATTATTGTTG-C
1 ATTATTGTTGCC
*
4359361 ATTATTGTAGCC
1 ATTATTGTTGCC
4359373 ATTATTGTTGCC
1 ATTATTGTTGCC
4359385 AT
1 AT
4359387 GCAGGGAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.49
Consensus pattern (12 bp):
ATTATTGTTGCC
Found at i:4360280 original size:484 final size:474
Alignment explanation
Indices: 4359088--4360860 Score: 1750
Period size: 475 Copynumber: 3.7 Consensus size: 474
4359078 GTAATTGCCC
** * * *
4359088 TATTGAAGTAAATAATTTCACAACGACGTTATATTAAAAAAAATCAATCACATTATCCTAAAAAT
1 TATTGAAACAAATAATTTCACAACCACATTATCTTAAAAAAAATCAATCACATTATCCTAAAAAT
* * * * *
4359153 TTTACCTAACTAACTAACTAATTT-A-AACAACAAAAACTTAAAAATTATCTGATGATTTGTTTC
66 TTTACCAAACTAACTAACTAATTTAACAACAACAAAAAATTAAAAATTACCTGA--AATT-TCT-
* *
4359216 TTCTTCTTCTTCTTCCTTTCTTTCTTCCCTTATTTCTTATATTTTATTCTCCTCTCCTTTCTCTT
127 TTCTTCTTCTTCTT--TTT-TTTCTTCCCTTATTTCTTATGTTTTCTTCTCCTCTCCTTTCTCTT
* * * * * * *
4359281 TACTTTACCGGTTATGCACCCTCTCATATCCCATATATATTACAAACTCTAGCTGAATTATCACT
189 TACTTTCCCAGTTATCCACCCTCCCATAACCCATATATATTACAAACTCCAGCTGAATTATTACT
* * * * *
4359346 CCATATTATTGTTGCATTATTGTAGCCATTATTGTTGCCATGCAGGGAGCAGGCTTTGTGAGTCA
254 CCATATTATTGTTGCATTATTGCAGCTATTATTGCTGCCATGCAGGGAGCAGAC--TGTCA-TCA
* * ** * * *
4359411 TGTAG-GGAGCTTCACGGGGGAGTTGGATGTACTGAATTTGAGATGCATGGAAAACCATGTGACT
316 TGGAGCAGAGCTTCACGGGTCAG-TGGA-G-ACTGAATTAGAGACGCATGGAAAACCATGCGACT
* * * *
4359475 CTCACTCAAAAGTCAAGGATGCACTGCCTTCATGGTGTCAAAGCAAGATCGCCTAGAGTACCATG
378 CCCACTCCAAAGTCGAGGATGCACTACCTTCATGGTGTCAAAGCAAGATCGCCTAGAGTACCATG
* ** *
4359540 TGTCTCTCGT-A--GTCACAGTAGCAATCTCCA
443 CGTCTCT-GTCATGGTCATTGTAGCAATCGCCA
* * *
4359570 TATTGAAATAAATAATTTCACAATCACATTATCTTAAAAAAATTCAATCACATTATCCTAAAAAT
1 TATTGAAACAAATAATTTCACAACCACATTATCTTAAAAAAAATCAATCACATTATCCTAAAAAT
* * *
4359635 TTTACCAAACTAACTAACTAATTTAACAACAACAACAAATTAAAAATTACATGAAA---ATTT-T
66 TTTACCAAACTAACTAACTAATTTAACAACAACAAAAAATTAAAAATTACCTGAAATTTCTTTCT
* * *
4359696 TCTTCTTC-ATTTTTTCTTCCCTTATTTCTTACGTTTTCTTCTCCTCTCATTTCTCTTTACTTTC
131 TCTTCTTCTTTTTTTTCTTCCCTTATTTCTTATGTTTTCTTCTCCTCTCCTTTCTCTTTACTTTC
* * * * * * *
4359760 TCAGTTATCCATCCTCCCATATCCCATATGTATTACAAACTCTAGTTGAATTATTGCTCCATATT
196 CCAGTTATCCACCCTCCCATAACCCATATATATTACAAACTCCAGCTGAATTATTACTCCATATT
*
4359825 ATTGTTGCATTATTGCAGCTATTATTGCTGCCATGCATGGG-GCAGACTGTCATCAAGGAGCAG-
261 ATTGTTGCATTATTGCAGCTATTATTGCTGCCATGCA-GGGAGCAGACTGTCATCATGGAGCAGA
* *
4359888 GCTTCACGGGTCATGTAGGCAGACTGAATTAGATAGGCATGGAAAACCATG-GAACTCCCACTCC
325 GCTTCACGGGTCA-GT-GG-AGACTGAATTAGAGACGCATGGAAAACCATGCG-ACTCCCACTCC
* * * * * * *
4359952 AATGTCGGGGATGCACTACCTTCATGTTATCAAAGCTAGATCGCC-CGAAATACCATGCGTCTCA
386 AAAGTCGAGGATGCACTACCTTCATGGTGTCAAAGCAAGATCGCCTAG-AGTACCATGCGTCT--
* *
4360016 CTTGGTCAATGTGTCATTGTAGCTATCGCCC
448 C-T-GTC-ATG-GTCATTGTAGCAATCGCCA
* * * *
4360047 TATTGAAACGAATAATTTTACAACCACGTTATCTTAAAAAAAATC-A-CACATTATCCTAGAAAT
1 TATTGAAACAAATAATTTCACAACCACATTATCTTAAAAAAAATCAATCACATTATCCTAAAAAT
** *
4360110 TTTGTCAAACTAACTAACTAATTTAAACAACAACAAAAAATTAAAAATTACCTGAGGATTTCTTT
66 TTTACCAAACTAACTAACTAATTT-AACAACAACAAAAAATTAAAAATTACCTGA-AATTTCTTT
* *
4360175 CTTCTTATTCTTTTTTTTTTCTTCCCTTATTTCTTATGTTTTCTTATCCTCTCCTTTCTCTTTAC
129 CTTCTTCTTC--TTTTTTTTCTTCCCTTATTTCTTATGTTTTCTTCTCCTCTCCTTTCTCTTTAC
* * * * * *
4360240 TTTCCCGGTTATCCACCCTCCCATAACTCATATATATTACAAACTCCAGCTAAATTAATGCTCTA
192 TTTCCCAGTTATCCACCCTCCCATAACCCATATATATTACAAACTCCAGCTGAATTATTACTCCA
* * * *
4360305 TATTATTGTTACATTATTGCAGCTATTATTGTTGCCATGCAGGGAGCAGGCT-TCA-C-GGGTTA
257 TATTATTGTTGCATTATTGCAGCTATTATTGCTGCCATGCAGGGAGCAGACTGTCATCATGG--A
* * * * * *
4360367 TGCAGGGAGCTTCACCGGG-GAGCTGGATAGACTGAATTGGAGACACCTAGAAAGCCATGCGACT
320 -GCA--GAGCTTCA-CGGGTCAG-TGG--AGACTGAATTAGAGACGCATGGAAAACCATGCGACT
* ** * * * ** * *
4360431 CCCACTCCAACGTCGAGGACACACTACCTTCACGGCGTCAAAGCAAGGTCGGTTAGAGTATCATA
378 CCCACTCCAAAGTCGAGGATGCACTACCTTCATGGTGTCAAAGCAAGATCGCCTAGAGTACCATG
* * * *
4360496 CGTCTC--TCGTGGTTATTATAACAATCGCCA
443 CGTCTCTGTCATGGTCATTGTAGCAATCGCCA
* *
4360526 TATTGAAGCAAATAATTTCACAACCACATTATCTTAAAAAAAATCAATCAAATTATCCTAAAAAT
1 TATTGAAACAAATAATTTCACAACCACATTATCTTAAAAAAAATCAATCACATTATCCTAAAAAT
** * * *
4360591 TTTGTCAAACTAATTAAC---TTAAACAACAACAAAAAGA-TAAAAATTACCTTTAAATTTCTTT
66 TTTACCAAACTAACTAACTAATTTAACAACAACAAAAA-ATTAAAAATTACC-TGAAATTTCTTT
* * * * *
4360652 CTTCTTCTTCATTTATTTCTTCCCTTATTTTTTATGTTTTCTTCTTCTCTTCTTTCTCTTTACTT
129 CTTCTTCTTCTTTTTTTTCTTCCCTTATTTCTTATGTTTTCTTCTCCTCTCCTTTCTCTTTACTT
* * * ** * *
4360717 TCCCAATTATCCACTCTCTCATAATTCATATATAATACAAACTCCATCTGAATTATTACTCCATA
194 TCCCAGTTATCCACCCTCCCATAACCCATATATATTACAAACTCCAGCTGAATTATTACTCCATA
* ** * * * * *
4360782 TTATTGTTGCATTATTGCAGCTTTTATCCCTTCCATGCAATGG-GCAGATTGCCATGCATGGAGT
259 TTATTGTTGCATTATTGCAGCTATTATTGCTGCCATGC-AGGGAGCAGACTGTCAT-CATGGAGC
*
4360846 AG-GCTTCACGAGTCA
322 AGAGCTTCACGGGTCA
4360861 TGCAGGGAGC
Statistics
Matches: 1078, Mismatches: 165, Indels: 105
0.80 0.12 0.08
Matches are distributed among these distances:
468 2 0.00
469 103 0.10
470 9 0.01
471 2 0.00
472 148 0.14
473 13 0.01
474 2 0.00
475 178 0.17
476 45 0.04
477 99 0.09
478 7 0.01
479 57 0.05
480 6 0.01
481 44 0.04
482 84 0.08
483 8 0.01
484 173 0.16
485 1 0.00
486 4 0.00
487 87 0.08
488 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (474 bp):
TATTGAAACAAATAATTTCACAACCACATTATCTTAAAAAAAATCAATCACATTATCCTAAAAAT
TTTACCAAACTAACTAACTAATTTAACAACAACAAAAAATTAAAAATTACCTGAAATTTCTTTCT
TCTTCTTCTTTTTTTTCTTCCCTTATTTCTTATGTTTTCTTCTCCTCTCCTTTCTCTTTACTTTC
CCAGTTATCCACCCTCCCATAACCCATATATATTACAAACTCCAGCTGAATTATTACTCCATATT
ATTGTTGCATTATTGCAGCTATTATTGCTGCCATGCAGGGAGCAGACTGTCATCATGGAGCAGAG
CTTCACGGGTCAGTGGAGACTGAATTAGAGACGCATGGAAAACCATGCGACTCCCACTCCAAAGT
CGAGGATGCACTACCTTCATGGTGTCAAAGCAAGATCGCCTAGAGTACCATGCGTCTCTGTCATG
GTCATTGTAGCAATCGCCA
Found at i:4368462 original size:23 final size:23
Alignment explanation
Indices: 4368419--4368464 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4368409 ATCTATTTTA
*
4368419 AGAATTTAATTTTAATTTTAATT
1 AGAATTTAATTTAAATTTTAATT
4368442 AGAATTTAA-TTAAATTATTAATT
1 AGAATTTAATTTAAATT-TTAATT
4368465 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
AGAATTTAATTTAAATTTTAATT
Found at i:4369114 original size:21 final size:21
Alignment explanation
Indices: 4369089--4369132 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4369079 ACGGAAAACT
*
4369089 AACTA-AAAAATTATAATATTA
1 AACTACAAAAATTA-AACATTA
*
4369110 AACTACAACAATTAAACATTA
1 AACTACAAAAATTAAACATTA
4369131 AA
1 AA
4369133 ATAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (21 bp):
AACTACAAAAATTAAACATTA
Found at i:4369310 original size:28 final size:27
Alignment explanation
Indices: 4369279--4369337 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
4369269 CTTATTTCAC
4369279 AAATTT-TGTTTAGAAATATAAAAATAAT
1 AAATTTAT-TTTA-AAATATAAAAATAAT
*
4369307 AAATTTAATTTTAAAATATAAAAATATT
1 AAATTT-ATTTTAAAATATAAAAATAAT
4369335 AAA
1 AAA
4369338 CTTGTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 23 0.82
29 4 0.14
30 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (27 bp):
AAATTTATTTTAAAATATAAAAATAAT
Found at i:4370777 original size:26 final size:26
Alignment explanation
Indices: 4370732--4370783 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4370722 AATATTCTTT
*
4370732 AATTATTAAAAGATAGGTAAA-AATA
1 AATTATTAAAAGATAAGTAAATAATA
4370757 AATTGATTAAAA-ATAAAGTAAATAATA
1 AATT-ATTAAAAGAT-AAGTAAATAATA
4370784 TTACACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 13 0.57
27 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (26 bp):
AATTATTAAAAGATAAGTAAATAATA
Found at i:4371363 original size:2 final size:2
Alignment explanation
Indices: 4371316--4371355 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
4371306 TATAATGTAT
4371316 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4371355 T
1 T
4371356 CAATATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4372507 original size:24 final size:23
Alignment explanation
Indices: 4372475--4372538 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
4372465 TATTAGTTAT
* * *
4372475 TTTATTTATTTGTTTTTTTGTTTC
1 TTTATTTATTTATTTTTCT-TTTA
4372499 TTTATTTATTTATTTTTCTTTTA
1 TTTATTTATTTATTTTTCTTTTA
4372522 TTTATTT-TATTATTTTT
1 TTTATTTAT-TTATTTTT
4372539 TTCTGACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.03
23 18 0.50
24 17 0.47
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (23 bp):
TTTATTTATTTATTTTTCTTTTA
Found at i:4372510 original size:8 final size:8
Alignment explanation
Indices: 4372441--4372528 Score: 54
Period size: 8 Copynumber: 10.9 Consensus size: 8
4372431 ATTTAACATT
4372441 TTTATTTA
1 TTTATTTA
* *
4372449 TATATATA
1 TTTATTTA
* *
4372457 TATATATA
1 TTTATTTA
*
4372465 TATTAGTTA
1 T-TTATTTA
4372474 TTTTATTTA
1 -TTTATTTA
* *
4372483 TTTGTTTT
1 TTTATTTA
* *
4372491 TTTGTTTC
1 TTTATTTA
4372499 TTTATTTA
1 TTTATTTA
4372507 TTTATTT-
1 TTTATTTA
4372514 TTCT-TTTA
1 TT-TATTTA
4372522 TTTATTT
1 TTTATTT
4372529 TATTATTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
7 6 0.09
8 47 0.73
9 10 0.16
10 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (8 bp):
TTTATTTA
Found at i:4372538 original size:9 final size:9
Alignment explanation
Indices: 4372471--4372537 Score: 52
Period size: 8 Copynumber: 7.8 Consensus size: 9
4372461 TATATATTAG
4372471 TTATTTTAT
1 TTATTTTAT
*
4372480 TTA-TTTGT
1 TTATTTTAT
*
4372488 TT-TTTTGT
1 TTATTTTAT
*
4372496 TT-CTTTAT
1 TTATTTTAT
*
4372504 TTATTTATTT
1 TTATTT-TAT
*
4372514 TTCTTTTAT
1 TTATTTTAT
4372523 TTATTTTA-
1 TTATTTTAT
4372531 TTATTTT
1 TTATTTT
4372538 TTTCTGACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 26 0.55
9 14 0.30
10 7 0.15
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:4372635 original size:2 final size:2
Alignment explanation
Indices: 4372628--4372654 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4372618 TTTCTCTTTT
4372628 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4372655 TAGGTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4379334 original size:47 final size:45
Alignment explanation
Indices: 4379238--4379371 Score: 164
Period size: 47 Copynumber: 3.0 Consensus size: 45
4379228 GGTAAGTATG
* * * *
4379238 AAAATAAGCTTATGAGCTTAT-GAAT-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATTTTGAT
*
4379281 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAATATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATATTTTGAT
* *
4379328 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGAGATTTTG
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAA-ATATTTTG
4379372 TATTATTTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
43 20 0.25
44 3 0.04
45 10 0.13
46 8 0.10
47 38 0.48
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATTTTGAT
Found at i:4384529 original size:3 final size:3
Alignment explanation
Indices: 4384521--4384559 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4384511 AATTGTTTTA
4384521 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4384560 TTTTGTGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4386696 original size:71 final size:71
Alignment explanation
Indices: 4386551--4386696 Score: 206
Period size: 72 Copynumber: 2.1 Consensus size: 71
4386541 AAACGAGGTC
* *
4386551 TTTTAAATCGCATTGTTTTTAAATTAAAAAGAGATAATTAAGAATTAATGTGGTTTTTTAAAATC
1 TTTTAAATCGCATTGTTTTTAAATTAAAAAGAGATAATTAAAAATTAATGTGATTTTTTAAAATC
* *
4386616 TCACTT
66 ACACCT
* *
4386622 TTTTAAATCGCATTTGTTTTTAAATTAAAAGGAGGTAACTTAAAAATTAATGTGATTTTTT-AAA
1 TTTTAAATCGCA-TTGTTTTTAAATTAAAAAGAGATAA-TTAAAAATTAATGTGATTTTTTAAAA
4386686 TCAC-CCT
64 TCACACCT
4386693 TTTT
1 TTTT
4386697 CACCTTTTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
71 18 0.27
72 29 0.43
73 20 0.30
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (71 bp):
TTTTAAATCGCATTGTTTTTAAATTAAAAAGAGATAATTAAAAATTAATGTGATTTTTTAAAATC
ACACCT
Found at i:4387517 original size:46 final size:49
Alignment explanation
Indices: 4387418--4387517 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 49
4387408 TTATTTTCAT
*
4387418 TTTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTTA-
1 TTTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGATTTAC
* *
4387466 TTTTTTTGAAT-AA-GCATGCGAATTAGATATCATGCGGTTATGATTT-C
1 TTTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTA-GATTTAC
4387513 TTTTT
1 TTTTT
4387518 GTGGATAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
46 26 0.55
47 11 0.23
48 10 0.21
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (49 bp):
TTTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGATTTAC
Found at i:4397171 original size:18 final size:19
Alignment explanation
Indices: 4397134--4397172 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4397124 ATTTTGCTTG
4397134 AAGAAGAAATAAAAGAGAA
1 AAGAAGAAATAAAAGAGAA
* *
4397153 AAGAATAAA-AAATGAGAA
1 AAGAAGAAATAAAAGAGAA
4397171 AA
1 AA
4397173 AAAATGATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAGAAGAAATAAAAGAGAA
Found at i:4397242 original size:25 final size:24
Alignment explanation
Indices: 4397184--4397243 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
4397174 AAATGATGGA
4397184 AAAAACGAAAAGGAAAAAAAGAAG
1 AAAAACGAAAAGGAAAAAAAGAAG
** *
4397208 AAAATGGAAAAGGGAAGAAAAA-ATG
1 AAAAACGAAAA-GGAA-AAAAAGAAG
*
4397233 AAAAATGAAAA
1 AAAAACGAAAA
4397244 AAGTGAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 9 0.31
25 15 0.52
26 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.05
Consensus pattern (24 bp):
AAAAACGAAAAGGAAAAAAAGAAG
Found at i:4397243 original size:6 final size:7
Alignment explanation
Indices: 4397226--4397260 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
4397216 AAAGGGAAGA
4397226 AAAAATG
1 AAAAATG
4397233 AAAAATG
1 AAAAATG
4397240 AAAAAAGTG
1 -AAAAA-TG
4397249 AAAAATG
1 AAAAATG
4397256 AAAAA
1 AAAAA
4397261 AAAAGAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.54
8 10 0.38
9 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:4397250 original size:16 final size:15
Alignment explanation
Indices: 4397224--4397261 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
4397214 GAAAAGGGAA
4397224 GAAAAAATGAAAAAT
1 GAAAAAATGAAAAAT
4397239 GAAAAAAGTGAAAAAT
1 GAAAAAA-TGAAAAAT
4397255 GAAAAAA
1 GAAAAAA
4397262 AAAGAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (15 bp):
GAAAAAATGAAAAAT
Found at i:4397260 original size:8 final size:8
Alignment explanation
Indices: 4397224--4397261 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
4397214 GAAAAGGGAA
4397224 GAAAAAAT
1 GAAAAAAT
4397232 G-AAAAAT
1 GAAAAAAT
4397239 GAAAAAAGT
1 GAAAAAA-T
4397248 G-AAAAAT
1 GAAAAAAT
4397255 GAAAAAA
1 GAAAAAA
4397262 AAAGAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 9 0.33
8 16 0.59
9 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (8 bp):
GAAAAAAT
Found at i:4398767 original size:51 final size:51
Alignment explanation
Indices: 4398512--4398837 Score: 427
Period size: 51 Copynumber: 6.3 Consensus size: 51
4398502 GAAGCAAACT
*
4398512 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* **
4398563 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
4398614 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGATA
1 CGTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* ** *
4398665 AGTTCGTTGAAGATTGAGTCATATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
4398716 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACA
1 CGTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * * *
4398767 CGTTTACTGAATATTATTCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 CGTTTATTG-A-A-GATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
*
4398822 CGTTTACTGAAGATTG
1 CGTTTATTGAAGATTG
4398838 TTCGAGTCTT
Statistics
Matches: 252, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
51 200 0.79
52 4 0.02
53 2 0.01
54 3 0.01
55 43 0.17
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
CGTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
Found at i:4398812 original size:55 final size:54
Alignment explanation
Indices: 4398527--4398874 Score: 281
Period size: 51 Copynumber: 6.6 Consensus size: 54
4398517 GTTGAAGATT
* * * * *** *
4398527 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG-AA-GATT-
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAAATTATTC
* * * * * * *
4398578 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCATTG-AA-GATT-
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAAATTATTC
* * * * * *** *
4398629 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGATAAGTTCGTTG-AA-GATT-
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAAATTATTC
* * * * *
4398680 GAGTCATATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTG-AA-GA-TC
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAAATTATTC
*
4398731 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTACTGAATATTATTC
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAA-ATTATTC
* *
4398786 GAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTACTGAAGATTGTTC
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAA-ATTATTC
* *
4398841 GAGTCTTATACTCCATGAAAGAATA-GGAGCAGAC
1 GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGAC
4398875 CTGCCATTTG
Statistics
Matches: 274, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.00
51 185 0.68
52 1 0.00
53 1 0.00
54 10 0.04
55 76 0.28
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (54 bp):
GAGTCTTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTACTGAAATTATTC
Found at i:4398901 original size:55 final size:54
Alignment explanation
Indices: 4398681--4398874 Score: 168
Period size: 55 Copynumber: 3.6 Consensus size: 54
4398671 TTGAAGATTG
* * * * *
4398681 AGTCATATACTCTC-TGAAGGAATAGGGAGCGGACACGTTTATTGAAGA----TCG
1 AGTCTTATACTC-CATGAAAGAATAGGGAGCAGACACGATTA-TGAAGATTGTTCA
* * * * *
4398732 AGTCTTATACTCTC-TGAAGGAATAGGGAGCAGACACGTTTACTGAATATTATTCG
1 AGTCTTATACTC-CATGAAAGAATAGGGAGCAGACACGATTA-TGAAGATTGTTCA
* * * *
4398787 AGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTACTGAAGATTGTTCG
1 AGTCTTATACTCCATGAAAGAATAGGGAGCAGACACGATTA-TGAAGATTGTTCA
4398842 AGTCTTATACTCCATGAAAGAATA-GGAGCAGAC
1 AGTCTTATACTCCATGAAAGAATAGGGAGCAGAC
4398875 CTGCCATTTG
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
51 44 0.34
54 10 0.08
55 75 0.58
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (54 bp):
AGTCTTATACTCCATGAAAGAATAGGGAGCAGACACGATTATGAAGATTGTTCA
Found at i:4399524 original size:3 final size:3
Alignment explanation
Indices: 4399516--4399556 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
4399506 CAATTGTTTA
4399516 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4399557 TTTGTGCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4401669 original size:72 final size:72
Alignment explanation
Indices: 4401538--4401684 Score: 206
Period size: 72 Copynumber: 2.0 Consensus size: 72
4401528 ACGAGAGGTC
* *
4401538 TTTTAAATCACATTTGTTTTTAAATTAAAAAGAGATAATTAAGAATTAATGTGGTTTTTTAAAAT
1 TTTTAAATCACATTTGTTTTTAAATTAAAAAGAGATAATTAAAAATTAATGTGGATTTTTAAAAT
*
4401603 CTCACTT
66 CACACTT
* * * *
4401610 TTTTAAATCGCATTTGTTTTTAAATTAAAATGAGGTAACTTAAAAATTAATGT-GATTTTTTAAA
1 TTTTAAATCACATTTGTTTTTAAATTAAAAAGAGATAA-TTAAAAATTAATGTGGATTTTTAAAA
*
4401674 TCACCCTT
65 TCACACTT
4401682 TTT
1 TTT
4401685 CACCTTTTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
72 53 0.80
73 13 0.20
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (72 bp):
TTTTAAATCACATTTGTTTTTAAATTAAAAAGAGATAATTAAAAATTAATGTGGATTTTTAAAAT
CACACTT
Found at i:4403454 original size:6 final size:6
Alignment explanation
Indices: 4403435--4403472 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
4403425 CCTAAATTAA
4403435 AAAATG AAAA-G AAAATG AAAATG AAAATG AAAA-G AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
4403473 AAGACAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (6 bp):
AAAATG
Found at i:4403473 original size:12 final size:11
Alignment explanation
Indices: 4403435--4403472 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
4403425 CCTAAATTAA
4403435 AAAATGAAAAG
1 AAAATGAAAAG
4403446 AAAATGAAAATG
1 AAAATGAAAA-G
4403458 AAAATGAAAAG
1 AAAATGAAAAG
4403469 AAAA
1 AAAA
4403473 AAGACAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (11 bp):
AAAATGAAAAG
Found at i:4405231 original size:17 final size:17
Alignment explanation
Indices: 4405209--4405255 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
4405199 ATAATTAATG
*
4405209 TATAATGTATTATATTA
1 TATAATATATTATATTA
*
4405226 TATAATATA-TCTATTA
1 TATAATATATTATATTA
*
4405242 TATCAATTTATTAT
1 TAT-AATATATTAT
4405256 TACATATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.38
17 13 0.54
18 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (17 bp):
TATAATATATTATATTA
Found at i:4406388 original size:16 final size:16
Alignment explanation
Indices: 4406358--4406387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4406348 TATATATATT
4406358 TTTATTAGTTATTTTA
1 TTTATTAGTTATTTTA
4406374 TTTATTAGTT-TTTT
1 TTTATTAGTTATTTT
4406388 TTGTTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTATTAGTTATTTTA
Found at i:4406535 original size:2 final size:2
Alignment explanation
Indices: 4406523--4406553 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4406513 TATTTTCTCT
*
4406523 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4406554 TTTTGTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4411606 original size:20 final size:20
Alignment explanation
Indices: 4411577--4411620 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4411567 GAGTATTGCC
*
4411577 TATTACAGACGCGCATATG-A
1 TATTAAAGAC-CGCATATGAA
*
4411597 TATTAAAGACTGCATATGAA
1 TATTAAAGACCGCATATGAA
4411617 TATT
1 TATT
4411621 GTTCTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TATTAAAGACCGCATATGAA
Done.