Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 166 of 253
Found at i:53899001 original size:68 final size:64
Alignment explanation
Indices: 53898891--53899041 Score: 151
Period size: 68 Copynumber: 2.3 Consensus size: 64
53898881 ATACAAATAG
* * * * * *
53898891 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTATAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAG-ACAAGAGAGCTAC--GACA
53898955 TTA
63 -TA
* * * **
53898958 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAGACAAGAGAGCTACGACATA
53899023 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
53899042 TGTAGTACTA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 2 0.03
67 1 0.01
68 46 0.65
69 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTAGACAAGAGAGCTACGACATA
Found at i:53899156 original size:50 final size:49
Alignment explanation
Indices: 53899040--53899224 Score: 194
Period size: 50 Copynumber: 3.7 Consensus size: 49
53899030 CTAGGTCGCA
* * * *
53899040 TGTGTAGTACTAAGTACAGACTACTATGCGTG-CCCA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCAGATAA-TT-GGTCACG
* * *
53899091 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
53899141 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
53899190 TGTATAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
53899225 AATAGTTTGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 40 0.35
50 48 0.42
51 26 0.23
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:53908049 original size:48 final size:48
Alignment explanation
Indices: 53907978--53908117 Score: 156
Period size: 48 Copynumber: 2.9 Consensus size: 48
53907968 AAGACATTTG
* ** *
53907978 GTTGATATGTTTGCTAGTGTAAGACCATTTTTGGGACATGGCATTGAC
1 GTTGATATGTATGCTAGTGTAAGACCAAGTCTGGGACATGGCATTGAC
* *
53908026 GTTGATATGTATGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGC
1 GTTGATATGTATGCTAGTGTAAGACCAAGTCTGGGACATGGCATTGAC
* * * * * *
53908074 ATTGTTATG-AGAGCTAGTGTACGACCATGTCCGGGACATGGCAT
1 GTTGATATGTA-TGCTAGTGTAAGACCAAGTCTGGGACATGGCAT
53908118 CGGCTTTGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 78 0.99
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (48 bp):
GTTGATATGTATGCTAGTGTAAGACCAAGTCTGGGACATGGCATTGAC
Found at i:53908148 original size:48 final size:48
Alignment explanation
Indices: 53908043--53908170 Score: 123
Period size: 48 Copynumber: 2.7 Consensus size: 48
53908033 TGTATGCTAG
* * ** * *
53908043 TGTAAGACCAAGTCTGGGACATGGCATCGGCATTGTTATGAGAGCTAG
1 TGTAAGACCATGTCCGGGACATGGCATCGGCATTGACATGAGAGCCAA
* * *
53908091 TGTACGACCATGTCCGGGACATGGCATCGGCTTTGACAT-ATGATCCAA
1 TGTAAGACCATGTCCGGGACATGGCATCGGCATTGACATGA-GAGCCAA
** * *
53908139 TGTAAGACCATGTCTAGGATATGGCATTGGCA
1 TGTAAGACCATGTCCGGGACATGGCATCGGCA
53908171 ACTTAACCTT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
47 1 0.02
48 63 0.98
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCCGGGACATGGCATCGGCATTGACATGAGAGCCAA
Found at i:53921727 original size:27 final size:27
Alignment explanation
Indices: 53921560--53921737 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
53921550 TAAATTGTAC
*
53921560 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
53921587 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
53921613 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
53921641 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
53921669 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
53921696 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
53921723 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53921738 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:53921728 original size:82 final size:81
Alignment explanation
Indices: 53921557--53921737 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
53921547 GATTAAATTG
* * * *
53921557 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53921622 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
53921638 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53921702 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
53921720 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53921738 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:53923570 original size:23 final size:23
Alignment explanation
Indices: 53923544--53923650 Score: 58
Period size: 23 Copynumber: 5.2 Consensus size: 23
53923534 GATATTCCGG
53923544 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* * * *
53923567 GCT-AGT---GA-TA-TATCCGG
1 GCTAAGTCCCGAGGAGCATTCGT
53923584 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* * * *
53923607 GCT-AGT---GA-TA-TATCCGG
1 GCTAAGTCCCGAGGAGCATTCGT
53923624 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
53923647 GCTA
1 GCTA
53923651 GTGATGTATC
Statistics
Matches: 56, Mismatches: 16, Indels: 24
0.58 0.17 0.25
Matches are distributed among these distances:
17 14 0.25
18 8 0.14
19 4 0.07
21 4 0.07
22 8 0.14
23 18 0.32
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (23 bp):
GCTAAGTCCCGAGGAGCATTCGT
Found at i:53923586 original size:40 final size:40
Alignment explanation
Indices: 53923531--53923788 Score: 379
Period size: 40 Copynumber: 6.7 Consensus size: 40
53923521 GAGAATTGAG
53923531 AGTGATAT-TCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
53923570 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
53923610 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
53923650 AGTGATGTATCCGGGCTAAGT-CCGA-GAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
53923688 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
53923727 AGT-ATATATCCGTGCTAAAT--C-AAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
53923763 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
53923789 AGAGTAATCA
Statistics
Matches: 204, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
36 17 0.08
37 14 0.07
38 52 0.25
39 29 0.14
40 92 0.45
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:53927343 original size:49 final size:47
Alignment explanation
Indices: 53927195--53927620 Score: 663
Period size: 47 Copynumber: 8.9 Consensus size: 47
53927185 TAGTATGGCG
*
53927195 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
53927242 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
53927289 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
53927338 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
53927387 TAATGGCAGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
53927436 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
53927483 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
53927530 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
53927577 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTTATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53927621 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 218 0.61
49 140 0.39
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:53927795 original size:37 final size:37
Alignment explanation
Indices: 53927739--53927817 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53927729 CCGAGCTCTA
* * *
53927739 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53927776 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53927813 AAGAC
1 AAGAC
53927818 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53936610 original size:13 final size:13
Alignment explanation
Indices: 53936594--53936618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53936584 TTAAATCAGT
53936594 TAATTAGTTTAAA
1 TAATTAGTTTAAA
53936607 TAATTAGTTTAA
1 TAATTAGTTTAA
53936619 TAAATAAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:53941900 original size:7 final size:6
Alignment explanation
Indices: 53941843--53941941 Score: 75
Period size: 6 Copynumber: 17.0 Consensus size: 6
53941833 TGACTCCTCC
* *
53941843 TATTTT T-TTATT TATTCT TAGTTT TA-TTT TA--TT TATTTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * *
53941888 TCTTTT GATTTT TATTTT TATTTT CA-TTT TAATTT TATTATT T-TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TAT-TTT
53941936 TATTTT
1 TATTTT
53941942 GAAAGACATA
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.05
5 11 0.15
6 53 0.71
7 7 0.09
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:53954555 original size:48 final size:48
Alignment explanation
Indices: 53954446--53954636 Score: 179
Period size: 48 Copynumber: 4.0 Consensus size: 48
53954436 ACATTTGGTT
*
53954446 AATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-AAA
1 AATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCAAA
* * * * * ***
53954493 CATCATGAGAGCTAGTGTACGACCATATCTGGGACATGGCATCGGCGTT
1 AAT-ATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCAAA
* * * * * * *
53954542 GATATGTGTGCTAGTGTTAGACCA-AGTCTGGGATATGGCGTTAGCCAC
1 AATATGTGTGCTAGTGTAAGACCATA-TCTGGGACATGGCATCAGCAAA
* * *
53954590 AATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 AATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCAA
53954637 CTTAACCTTT
Statistics
Matches: 110, Mismatches: 30, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
47 3 0.03
48 105 0.95
49 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
AATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCAAA
Found at i:53954613 original size:96 final size:96
Alignment explanation
Indices: 53954447--53954634 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
53954437 CATTTGGTTA
*
53954447 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGAAACATCATGAGAGCTAGTGTA
1 ATATGTGTGCTAGTGTAAGACCAAGTCTGGGACATGGCATCAGAAACATCATGAGAGCTAGTGTA
*
53954512 CGACCATATCTGGGACATGGCATCGGCGTTG
66 AGACCATATCTGGGACATGGCATCGGCGTTG
* * * * ** *
53954543 ATATGTGTGCTAGTGTTAGACCAAGTCTGGGATATGGCGTTAGCCACAAT-ATGTA-TGCTAGTG
1 ATATGTGTGCTAGTGTAAGACCAAGTCTGGGACATGGCATCAGAAAC-ATCATG-AGAGCTAGTG
*
53954606 TAAGACCATGTCTGGGACATGGCATCGGC
64 TAAGACCATATCTGGGACATGGCATCGGC
53954635 AACTTAACCT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 77 0.96
97 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (96 bp):
ATATGTGTGCTAGTGTAAGACCAAGTCTGGGACATGGCATCAGAAACATCATGAGAGCTAGTGTA
AGACCATATCTGGGACATGGCATCGGCGTTG
Found at i:53956712 original size:23 final size:23
Alignment explanation
Indices: 53956652--53956744 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 23
53956642 AGACTCACCA
** *
53956652 CAGCTCGTAAGAGCTTACTATTT
1 CAGCTCGTATTAGCTTACTGTTT
*
53956675 CAGCTC--ATTGGAGCTTACCGTTT
1 CAGCTCGTATT--AGCTTACTGTTT
53956698 CAGCTCGTATTAGCTTACTG-TT
1 CAGCTCGTATTAGCTTACTGTTT
* ** *
53956720 CAGCTCGAAAGAGCTTATTGTTT
1 CAGCTCGTATTAGCTTACTGTTT
53956743 CA
1 CA
53956745 ACTCAACAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
21 1 0.02
22 18 0.32
23 34 0.61
25 3 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATTAGCTTACTGTTT
Found at i:53956957 original size:20 final size:20
Alignment explanation
Indices: 53956932--53956977 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
53956922 GAATAAGCTA
* * *
53956932 TGTTGAAATGGATGAGTTAT
1 TGTTGAAATGAATGAATTAC
53956952 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGAATGAATTAC
53956972 TGTTGA
1 TGTTGA
53956978 TACAGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (20 bp):
TGTTGAAATGAATGAATTAC
Found at i:53957024 original size:20 final size:19
Alignment explanation
Indices: 53956963--53957050 Score: 77
Period size: 20 Copynumber: 4.5 Consensus size: 19
53956953 GTTGAAATGA
*
53956963 ATGAATTACTGTTGATACAG
1 ATGAATTACTGTT-ATACGG
* * *
53956983 ATAAATTACTGATATACCG
1 ATGAATTACTGTTATACGG
53957002 ATGAATTACTGGTTATACGG
1 ATGAATTACT-GTTATACGG
* * * *
53957022 ATGAACTACTAATTATATGA
1 ATGAATTACT-GTTATACGG
53957042 ATGAATTAC
1 ATGAATTAC
53957051 AGTTTACACG
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.25
20 41 0.75
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
ATGAATTACTGTTATACGG
Found at i:53958501 original size:55 final size:53
Alignment explanation
Indices: 53958413--53958669 Score: 188
Period size: 55 Copynumber: 4.8 Consensus size: 53
53958403 CATTAGGGTT
*
53958413 TAAGGATAA-CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 TAAGGA-AATCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGG
* * * * *
53958468 TAAGGAAATCATGTCAGACCATGTCAAGACATGGCATTGATAACTTACT-A--
1 TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGG
* *
53958518 TAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 TAAGG-AAA--T--CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGG
* * * * *
53958576 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-TAA--
1 TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGG
* * * * * * * *
53958626 AAAGGATACCACGTAGGACCATGACAAGTCATGGCAATGGTAAG
1 TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
53958670 GTACCCGCGT
Statistics
Matches: 166, Mismatches: 25, Indels: 27
0.76 0.11 0.12
Matches are distributed among these distances:
50 44 0.27
51 3 0.02
52 4 0.02
53 36 0.22
54 13 0.08
55 59 0.36
56 1 0.01
57 2 0.01
58 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
TAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGG
Found at i:53969247 original size:46 final size:46
Alignment explanation
Indices: 53969191--53969327 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
53969181 TATATATACA
* * * *
53969191 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
53969237 CATCTTATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
53969283 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
53969328 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:53969362 original size:47 final size:47
Alignment explanation
Indices: 53969301--53969730 Score: 599
Period size: 47 Copynumber: 9.1 Consensus size: 47
53969291 ACACATTTCG
* * *
53969301 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
53969348 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCCTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
53969395 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
53969442 CATTGGCCATTCGGCCTTATCACACATACGCATGTTTACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
53969489 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
53969536 CATTGGCCATTTGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
53969583 CATTGGCTATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * *
53969634 CATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
53969681 CATTGGCCTTTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
53969728 CAT
1 CAT
53969731 AAAATCCTAA
Statistics
Matches: 341, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
47 297 0.87
49 2 0.01
51 42 0.12
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:53973831 original size:39 final size:39
Alignment explanation
Indices: 53973798--53973941 Score: 189
Period size: 39 Copynumber: 3.7 Consensus size: 39
53973788 CCAACATAAT
53973798 TGCCTTCGGGACTTAGCCTGGATATAACACCAACACGAA
1 TGCCTTCGGGACTTAGCCTGGATATAACACCAACACGAA
* ** *
53973837 TGCCTTCGGGATTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCTGGATATAACACCAACACGAA
* * *
53973876 TGCCATCGGGACTTAGCCTGGATATAACAACAGCACGAA
1 TGCCTTCGGGACTTAGCCTGGATATAACACCAACACGAA
* * **
53973915 TGACTTCGGGACTGAGCCCAGATATAA
1 TGCCTTCGGGACTTAGCCTGGATATAA
53973942 ATCTCACACA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCTGGATATAACACCAACACGAA
Found at i:53973933 original size:78 final size:78
Alignment explanation
Indices: 53973798--53973941 Score: 234
Period size: 78 Copynumber: 1.8 Consensus size: 78
53973788 CCAACATAAT
* * * * *
53973798 TGCCTTCGGGACTTAGCCTGGATATAACACCAACACGAATGCCTTCGGGATTTAGCCCAGATATA
1 TGCCATCGGGACTTAGCCTGGATATAACAACAACACGAATGACTTCGGGACTGAGCCCAGATATA
53973863 ACACCAGCACGAA
66 ACACCAGCACGAA
*
53973876 TGCCATCGGGACTTAGCCTGGATATAACAACAGCACGAATGACTTCGGGACTGAGCCCAGATATA
1 TGCCATCGGGACTTAGCCTGGATATAACAACAACACGAATGACTTCGGGACTGAGCCCAGATATA
53973941 A
66 A
53973942 ATCTCACACA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (78 bp):
TGCCATCGGGACTTAGCCTGGATATAACAACAACACGAATGACTTCGGGACTGAGCCCAGATATA
ACACCAGCACGAA
Found at i:53976001 original size:45 final size:44
Alignment explanation
Indices: 53975912--53976001 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
53975902 GAATTATTTA
* * *
53975912 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACCCATTGAGTTGTGTCTGAGTTCATGATAGATATGAC
** *
53975956 ATCTGAACCCATTGAGTTGTGGTCTGAGTTTGTGATAGGTATGAC
1 ATCTGAACCCATTGAGTTGT-GTCTGAGTTCATGATAGATATGAC
53976001 A
1 A
53976002 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (44 bp):
ATCTGAACCCATTGAGTTGTGTCTGAGTTCATGATAGATATGAC
Found at i:53987192 original size:24 final size:24
Alignment explanation
Indices: 53987160--53987208 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53987150 AAACAAATAG
53987160 CCAAGGTACTTACTTACCTTACAT
1 CCAAGGTACTTACTTACCTTACAT
53987184 CCAAGGTACTTACTTACCTTACAT
1 CCAAGGTACTTACTTACCTTACAT
53987208 C
1 C
53987209 AAATAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (24 bp):
CCAAGGTACTTACTTACCTTACAT
Found at i:53993819 original size:29 final size:29
Alignment explanation
Indices: 53993750--53993865 Score: 121
Period size: 29 Copynumber: 4.1 Consensus size: 29
53993740 ACCCCTACAT
*
53993750 ACATGCATATGGCCCACTT-GGCCC--ATC
1 ACATTCATATGGCCCA-TTAGGCCCAAATC
* * *
53993777 TCATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
53993806 ACATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * * *
53993835 ACCTTTATGTGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
53993864 AC
1 AC
53993866 CTTGTATTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 19 0.26
29 53 0.73
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:53998963 original size:806 final size:806
Alignment explanation
Indices: 53997411--53999025 Score: 3212
Period size: 806 Copynumber: 2.0 Consensus size: 806
53997401 ATTGAGCTGT
*
53997411 ATATAATCAATGCACATTCTCATAATTCCATCTTTTTTTTTCACAAACAGTACTGGTGCACCCCA
1 ATATAATCAATGCACATTCTCATAATTCCATCTTTCTTTTTCACAAACAGTACTGGTGCACCCCA
53997476 AGGAGAAAAACTCGATTGCGCGAAACCTCTATCCATCCACTCTTGCAACTGAGCTTTCAATTCTT
66 AGGAGAAAAACTCGATTGCGCGAAACCTCTATCCATCCACTCTTGCAACTGAGCTTTCAATTCTT
53997541 TTAATTCCGTAGGTGCCATTCTATATGGAGCTATGGATATCAGAGTCGTCCCAAGTGTCAACTCA
131 TTAATTCCGTAGGTGCCATTCTATATGGAGCTATGGATATCAGAGTCGTCCCAAGTGTCAACTCA
*
53997606 ATACCAAACTCTACCTCCTAAATAGGTGGCAAACCCGGTAATTCATCAGGAAATACATCTGGATA
196 ATACCAAACTCTACCTCCTAAATAGGTGGCAAACCAGGTAATTCATCAGGAAATACATCTGGATA
53997671 ATCACATACAACTGGTACTGATTCAGTGTTTCTTTCAGCCACTTTATTGTCAAGCACGTAGGCAA
261 ATCACATACAACTGGTACTGATTCAGTGTTTCTTTCAGCCACTTTATTGTCAAGCACGTAGGCAA
53997736 AATAAGCTTCAAACCCTTTTCTTACATATTTCTAAGCTAGCCTTGAAGAAATCACTGTTGATAAC
326 AATAAGCTTCAAACCCTTTTCTTACATATTTCTAAGCTAGCCTTGAAGAAATCACTGTTGATAAC
53997801 CCATTCAGATCACTAGATTCAATCCAAATAATCTCATCATTCTAGCATCGTAAATCAATAGTATT
391 CCATTCAGATCACTAGATTCAATCCAAATAATCTCATCATTCTAGCATCGTAAATCAATAGTATT
53997866 TCTTTTACAGTTTACAACAGCATCATGCAAAGTCAACCAGTCCATACCCAAAATTATGTCGAACT
456 TCTTTTACAGTTTACAACAGCATCATGCAAAGTCAACCAGTCCATACCCAAAATTATGTCGAACT
53997931 CATCAAATGGGAACAGCATCAAATCAGCCAAAAAGTACGAATCTCGAACCATCAATGGGTAATTC
521 CATCAAATGGGAACAGCATCAAATCAGCCAAAAAGTACGAATCTCGAACCATCAATGGGTAATTC
53997996 TTACACACTTTGTCAACCATAACACACCGGCCCAAGGGGTTTGACACTCTAATCACAAACTCAGT
586 TTACACACTTTGTCAACCATAACACACCGGCCCAAGGGGTTTGACACTCTAATCACAAACTCAGT
53998061 AGACTCAACAGGTAAAGTCTTACTGAATACTAATGTCTCACACACATAAGCATGAGTAGAACCAG
651 AGACTCAACAGGTAAAGTCTTACTGAATACTAATGTCTCACACACATAAGCATGAGTAGAACCAG
53998126 GATCAATCAATGTAATTACATTAGTGTCATAAAGAGTGAATGTACCAGTAATGACATCTGGGGAT
716 GATCAATCAATGTAATTACATTAGTGTCATAAAGAGTGAATGTACCAGTAATGACATCTGGGGAT
53998191 GAATCCTCCTCTCGTGCACGAATAGC
781 GAATCCTCCTCTCGTGCACGAATAGC
53998217 ATATAATCAATGCACATTCTCATAATTCCATCTTTCTTTTTCACAAACAGTACTGGTGCACCCCA
1 ATATAATCAATGCACATTCTCATAATTCCATCTTTCTTTTTCACAAACAGTACTGGTGCACCCCA
53998282 AGGAGAAAAACTCGATTGCGCGAAACCTCTATCCATCCACTCTTGCAACTGAGCTTTCAATTCTT
66 AGGAGAAAAACTCGATTGCGCGAAACCTCTATCCATCCACTCTTGCAACTGAGCTTTCAATTCTT
53998347 TTAATTCCGTAGGTGCCATTCTATATGGAGCTATGGATATCAGAGTCGTCCCAAGTGTCAACTCA
131 TTAATTCCGTAGGTGCCATTCTATATGGAGCTATGGATATCAGAGTCGTCCCAAGTGTCAACTCA
53998412 ATACCAAACTCTACCTCCTAAATAGGTGGCAAACCAGGTAATTCATCAGGAAATACATCTGGATA
196 ATACCAAACTCTACCTCCTAAATAGGTGGCAAACCAGGTAATTCATCAGGAAATACATCTGGATA
53998477 ATCACATACAACTGGTACTGATTCAGTGTTTCTTTCAGCCACTTTATTGTCAAGCACGTAGGCAA
261 ATCACATACAACTGGTACTGATTCAGTGTTTCTTTCAGCCACTTTATTGTCAAGCACGTAGGCAA
53998542 AATAAGCTTCAAACCCTTTTCTTACATATTTCTAAGCTAGCCTTGAAGAAATCACTGTTGATAAC
326 AATAAGCTTCAAACCCTTTTCTTACATATTTCTAAGCTAGCCTTGAAGAAATCACTGTTGATAAC
53998607 CCATTCAGATCACTAGATTCAATCCAAATAATCTCATCATTCTAGCATCGTAAATCAATAGTATT
391 CCATTCAGATCACTAGATTCAATCCAAATAATCTCATCATTCTAGCATCGTAAATCAATAGTATT
53998672 TCTTTTACAGTTTACAACAGCATCATGCAAAGTCAACCAGTCCATACCCAAAATTATGTCGAACT
456 TCTTTTACAGTTTACAACAGCATCATGCAAAGTCAACCAGTCCATACCCAAAATTATGTCGAACT
53998737 CATCAAATGGGAACAGCATCAAATCAGCCAAAAAGTACGAATCTCGAACCATCAATGGGTAATTC
521 CATCAAATGGGAACAGCATCAAATCAGCCAAAAAGTACGAATCTCGAACCATCAATGGGTAATTC
53998802 TTACACACTTTGTCAACCATAACACACCGGCCCAAGGGGTTTGACACTCTAATCACAAACTCAGT
586 TTACACACTTTGTCAACCATAACACACCGGCCCAAGGGGTTTGACACTCTAATCACAAACTCAGT
53998867 AGACTCAACAGGTAAAGTCTTACTGAATACTAATGTCTCACACACATAAGCATGAGTAGAACCAG
651 AGACTCAACAGGTAAAGTCTTACTGAATACTAATGTCTCACACACATAAGCATGAGTAGAACCAG
53998932 GATCAATCAATGTAATTACATTAGTGTCATAAAGAGTGAATGTACCAGTAATGACATCTGGGGAT
716 GATCAATCAATGTAATTACATTAGTGTCATAAAGAGTGAATGTACCAGTAATGACATCTGGGGAT
53998997 GAATCCTCCTCTCGTGCACGAATAGC
781 GAATCCTCCTCTCGTGCACGAATAGC
53999023 ATA
1 ATA
53999026 GGCTCTGGCA
Statistics
Matches: 807, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
806 807 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (806 bp):
ATATAATCAATGCACATTCTCATAATTCCATCTTTCTTTTTCACAAACAGTACTGGTGCACCCCA
AGGAGAAAAACTCGATTGCGCGAAACCTCTATCCATCCACTCTTGCAACTGAGCTTTCAATTCTT
TTAATTCCGTAGGTGCCATTCTATATGGAGCTATGGATATCAGAGTCGTCCCAAGTGTCAACTCA
ATACCAAACTCTACCTCCTAAATAGGTGGCAAACCAGGTAATTCATCAGGAAATACATCTGGATA
ATCACATACAACTGGTACTGATTCAGTGTTTCTTTCAGCCACTTTATTGTCAAGCACGTAGGCAA
AATAAGCTTCAAACCCTTTTCTTACATATTTCTAAGCTAGCCTTGAAGAAATCACTGTTGATAAC
CCATTCAGATCACTAGATTCAATCCAAATAATCTCATCATTCTAGCATCGTAAATCAATAGTATT
TCTTTTACAGTTTACAACAGCATCATGCAAAGTCAACCAGTCCATACCCAAAATTATGTCGAACT
CATCAAATGGGAACAGCATCAAATCAGCCAAAAAGTACGAATCTCGAACCATCAATGGGTAATTC
TTACACACTTTGTCAACCATAACACACCGGCCCAAGGGGTTTGACACTCTAATCACAAACTCAGT
AGACTCAACAGGTAAAGTCTTACTGAATACTAATGTCTCACACACATAAGCATGAGTAGAACCAG
GATCAATCAATGTAATTACATTAGTGTCATAAAGAGTGAATGTACCAGTAATGACATCTGGGGAT
GAATCCTCCTCTCGTGCACGAATAGC
Found at i:54001428 original size:15 final size:16
Alignment explanation
Indices: 54001391--54001441 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
54001381 CGTAACTATA
* *
54001391 AAACCAAAGTGAACAT
1 AAACCAAACTTAACAT
54001407 AAACCAAACTTAACAT
1 AAACCAAACTTAACAT
*
54001423 -AACCAAATTTAACACT
1 AAACCAAACTTAACA-T
54001439 AAA
1 AAA
54001442 AGTTTAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.43
16 15 0.50
17 2 0.07
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.18
Consensus pattern (16 bp):
AAACCAAACTTAACAT
Found at i:54004370 original size:30 final size:30
Alignment explanation
Indices: 54004336--54004394 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54004326 CACGGCCATG
* *
54004336 ACACACGGGCGTGTGG-TCTACCCGTGTGGC
1 ACACACGGGCATGTGGATC-ACCCATGTGGC
54004366 ACACACGGGCATGTGGATCACCCATGTGG
1 ACACACGGGCATGTGGATCACCCATGTGG
54004395 GAGTGCCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.34, T:0.19
Consensus pattern (30 bp):
ACACACGGGCATGTGGATCACCCATGTGGC
Found at i:54007845 original size:43 final size:44
Alignment explanation
Indices: 54007765--54007850 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
54007755 AAACAACTTA
54007765 AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGATTAATAAC
1 AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGA-TAATAAC
*
54007810 AAAT-AAGAA-TAAGAAAG-ATGATAAAATAAA-CATGATAATAA
1 AAATAAAGAAGTAAGAAAGAAT-ATAAAA-AAATAATGATAATAA
54007851 TAATAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
42 8 0.21
43 18 0.47
44 8 0.21
45 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (44 bp):
AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGATAATAAC
Found at i:54016564 original size:55 final size:55
Alignment explanation
Indices: 54016469--54016574 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
54016459 TAGGCCCATG
**
54016469 CCCGTGTTAATTTAACAGGTTCACCCACGGTTGCTTGGCACGGGCGTGTCGTACA
1 CCCGTGTTAATTTAACAGGTTCACCCACGGTTGCAAGGCACGGGCGTGTCGTACA
* * *
54016524 CCCGTGTTAATTTGACATGTTCAGCCACAGGTT-CAAGGCACGGGCGTGTCG
1 CCCGTGTTAATTTAACAGGTTCACCCAC-GGTTGCAAGGCACGGGCGTGTCG
54016575 CACGCTCGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 41 0.91
56 4 0.09
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (55 bp):
CCCGTGTTAATTTAACAGGTTCACCCACGGTTGCAAGGCACGGGCGTGTCGTACA
Found at i:54018689 original size:25 final size:25
Alignment explanation
Indices: 54018636--54018689 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
54018626 AATTGTATTT
* *
54018636 AATTATTTAATTTTTCATATTATTG
1 AATTATTTAATTTTTCATATAATTA
54018661 AATTA-TTAATATTTT-ATACTAATTA
1 AATTATTTAAT-TTTTCATA-TAATTA
54018686 AATT
1 AATT
54018690 TTTCTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATTTAATTTTTCATATAATTA
Found at i:54023447 original size:24 final size:23
Alignment explanation
Indices: 54023420--54023465 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
54023410 ATCCACACTG
*
54023420 GAGTGTAGGTTTGGATGAGATACA
1 GAGTGTAGGGTTGGATG-GATACA
*
54023444 GAGTGTAGGGTTGGTTGGATAC
1 GAGTGTAGGGTTGGATGGATAC
54023466 TTGTGCATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.24, C:0.04, G:0.41, T:0.30
Consensus pattern (23 bp):
GAGTGTAGGGTTGGATGGATACA
Found at i:54025934 original size:28 final size:28
Alignment explanation
Indices: 54025894--54025949 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
54025884 GTTTGAGCCT
54025894 TTCAAGTCAACCTTGATGAATTTTTATC
1 TTCAAGTCAACCTTGATGAATTTTTATC
54025922 TTCAAGTCAACCTTGATGAATTTTTATC
1 TTCAAGTCAACCTTGATGAATTTTTATC
54025950 CCTTGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (28 bp):
TTCAAGTCAACCTTGATGAATTTTTATC
Found at i:54026170 original size:3 final size:3
Alignment explanation
Indices: 54026162--54026210 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
54026152 GCTCATGAAA
* *
54026162 AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
54026210 A
1 A
54026211 GCATATGTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:54031331 original size:43 final size:43
Alignment explanation
Indices: 54031268--54031349 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
54031258 ACATATCATT
* *
54031268 TCACCGGCACTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
54031311 TCACCGGCACGAAGCTTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
54031350 TAATACCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.13
Consensus pattern (43 bp):
TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:54031398 original size:38 final size:38
Alignment explanation
Indices: 54031342--54031770 Score: 662
Period size: 38 Copynumber: 11.3 Consensus size: 38
54031332 GGCATGAAGG
* * * * *
54031342 CCCGAATATAATACCAGCACTAGGGCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
54031380 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
54031418 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
54031457 GCCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
54031496 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
54031534 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
54031572 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
54031610 CCCGGATATATTACCAGCACGAAGCCTGC-GGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
54031647 CTCGGATATAATACCAGCACGAAGCCTGCCGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
54031685 CCCGGATATATTACCAGCACGAAGCCTGCAGGATTTCA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
54031723 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
54031761 CCCGGATATA
1 CCCGGATATA
54031771 CATCGAATAT
Statistics
Matches: 357, Mismatches: 31, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
37 35 0.10
38 283 0.79
39 10 0.03
40 29 0.08
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:54031702 original size:151 final size:152
Alignment explanation
Indices: 54031342--54031770 Score: 682
Period size: 151 Copynumber: 2.8 Consensus size: 152
54031332 GGCATGAAGG
* * * * *
54031342 CCCGAATATAATACCAGCACTAGGGCTGCGGGATTTATCCCGGATATAATACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
* ** *
54031407 GCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATAC
66 GCGAGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATAC
54031472 CAGCACGAAGCCTGCGAGATTTAA
129 CAGCACGAAGCCTGCGAGATTTAA
*
54031496 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
*
54031561 GCGAGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
66 GCGAGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCA
54031626 GCACGAAGCCTGCG-GATTTAA
131 GCACGAAGCCTGCGAGATTTAA
* * *
54031647 CTCGGATATAATACCAGCACGAAGCCTGCCGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
*
54031712 GC-AGGATTTCACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
66 GCGA-GATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
54031771 CATCGAATAT
Statistics
Matches: 258, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
150 1 0.00
151 124 0.48
152 29 0.11
153 5 0.02
154 99 0.38
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (152 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
GCGAGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCA
GCACGAAGCCTGCGAGATTTAA
Found at i:54033973 original size:40 final size:40
Alignment explanation
Indices: 54033893--54034076 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
54033883 TATTCGAATG
* *
54033893 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
54033933 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
54033973 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
54034013 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
54034053 ATATCCGGGCTAAGACCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54034077 CTTGTGCAAG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 120 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:54037420 original size:38 final size:39
Alignment explanation
Indices: 54037304--54037483 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
54037294 GCTACTCGTT
* *
54037304 CAAATGCCTTCGGGCCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCGGATT-TAGTAACTCGCA
*
54037344 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCGGATTTAGTAACTCGCA
* * *
54037384 CCAATGCCTTCGGG-CTTAGCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCGGATTTAGTAACTCGCA
* * * *
54037422 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCGGATTTAGTAAC-TCGCA
54037463 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
54037484 CGGACATCAT
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
37 2 0.02
38 28 0.24
39 10 0.08
40 65 0.55
41 14 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCGGATTTAGTAACTCGCA
Found at i:54037447 original size:78 final size:79
Alignment explanation
Indices: 54037306--54037483 Score: 193
Period size: 78 Copynumber: 2.3 Consensus size: 79
54037296 TACTCGTTCA
* * *
54037306 AATGCCTTCGGGCCATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
54037371 TTAGTAAC-TCGCACC
65 ATAGTAACTTAGCA-C
* **
54037386 AATGCCTTCGGG-CTTAGCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* *
54037448 TATGGTCACTTAGCAC
64 TATAGTAACTTAGCAC
*
54037464 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
54037484 CGGACATCAT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
77 4 0.05
78 53 0.63
79 15 0.18
80 12 0.14
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:54044651 original size:39 final size:40
Alignment explanation
Indices: 54044534--54044718 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
54044524 GCTACTCGTT
*
54044534 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
54044574 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
54044614 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
54044653 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54044694 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54044719 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54044702 original size:79 final size:81
Alignment explanation
Indices: 54044534--54044718 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
54044524 GCTACTCGTT
* *
54044534 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
54044598 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
54044615 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
54044677 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
54044694 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
54044719 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:54056239 original size:40 final size:40
Alignment explanation
Indices: 54056135--54056319 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
54056125 TATTCGAATG
* *
54056135 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* ** * * *
54056176 ATAACCGAACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
54056216 ATTTCCGGGCTCAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
54056256 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
54056296 ATATCCGGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54056320 CTTGTGCAAG
Statistics
Matches: 116, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 87 0.75
41 28 0.24
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:54068821 original size:40 final size:40
Alignment explanation
Indices: 54068727--54068911 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
54068717 TATTCGAATG
* ** *
54068727 ATATCCAGGCTAATTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
54068768 ATAACCGGACTAAGATCCGAAGGCATTCGTACGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
54068808 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
54068848 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
54068888 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54068912 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.78
41 26 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:54078552 original size:93 final size:93
Alignment explanation
Indices: 54078439--54078610 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
54078429 CGCCCATAAG
*
54078439 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
54078503 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
54078532 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54078597 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54078611 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54078605 original size:46 final size:46
Alignment explanation
Indices: 54078432--54078607 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
54078422 TGTAACCCGC
* *
54078432 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
54078478 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
54078528 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
54078571 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54078608 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54080711 original size:9 final size:10
Alignment explanation
Indices: 54080686--54080710 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54080676 GTGTATTGGA
54080686 ATTTTTATTT
1 ATTTTTATTT
54080696 ATTTTTATTT
1 ATTTTTATTT
54080706 ATTTT
1 ATTTT
54080711 ACTTAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:54087626 original size:26 final size:26
Alignment explanation
Indices: 54087590--54087665 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
54087580 ACCAACACAC
54087590 CAATAATGCAACAAAGCTGCCAGTAA
1 CAATAATGCAACAAAGCTGCCAGTAA
* * *
54087616 TAAT-ATCGCAACAAAGCTGTCAATAA
1 CAATAAT-GCAACAAAGCTGCCAGTAA
* *
54087642 CAGTAATGCAGCAAAGCTGCCAGT
1 CAATAATGCAACAAAGCTGCCAGT
54087666 CTCAGTATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.05
26 36 0.90
27 2 0.05
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.18
Consensus pattern (26 bp):
CAATAATGCAACAAAGCTGCCAGTAA
Found at i:54089131 original size:16 final size:17
Alignment explanation
Indices: 54089112--54089154 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
54089102 GTATTCGGCC
54089112 AAAGAGAAAAAT-ACCA
1 AAAGAGAAAAATGACCA
54089128 AAAGAGGAAAAATGACCA
1 AAAGA-GAAAAATGACCA
54089146 AAAGA-AAAA
1 AAAGAGAAAA
54089155 TCGAAACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAGAGAAAAATGACCA
Found at i:54089154 original size:15 final size:15
Alignment explanation
Indices: 54089110--54089155 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
54089100 GTGTATTCGG
54089110 CCAAAGAGAAAAATA
1 CCAAAGAGAAAAATA
54089125 CCAAAAGAGGAAAAATGA
1 CC-AAAGA-GAAAAAT-A
54089143 CCAAA-AGAAAAAT
1 CCAAAGAGAAAAAT
54089156 CGAAACAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 10 0.36
18 3 0.11
ACGTcount: A:0.65, C:0.13, G:0.15, T:0.07
Consensus pattern (15 bp):
CCAAAGAGAAAAATA
Found at i:54095213 original size:26 final size:26
Alignment explanation
Indices: 54095152--54095231 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
54095142 AACACATCAA
* *
54095152 TAATGCAGCAAAGCTGCCAGTAATAA
1 TAATGCAGCAAAGCTGCCAGTAACAG
*
54095178 T-ATCGCAGCAAAACTGCCAGTAACAG
1 TAAT-GCAGCAAAGCTGCCAGTAACAG
* * *
54095204 TAATGTAGCAAAGCTACCAGTATCAG
1 TAATGCAGCAAAGCTGCCAGTAACAG
54095230 TA
1 TA
54095232 TATGTGGCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 2 0.04
26 41 0.91
27 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (26 bp):
TAATGCAGCAAAGCTGCCAGTAACAG
Found at i:54095249 original size:27 final size:26
Alignment explanation
Indices: 54095194--54095255 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
54095184 AGCAAAACTG
*
54095194 CCAGTAACAGTAATGTAGCAAAGCTA
1 CCAGTAACAGTAATGTAGCAAAGCCA
* * *
54095220 CCAGTATCAGTATATGTGGCAGAGCCA
1 CCAGTAACAGTA-ATGTAGCAAAGCCA
54095247 CCAGTAACA
1 CCAGTAACA
54095256 ATACACTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGTAACAGTAATGTAGCAAAGCCA
Found at i:54095902 original size:155 final size:155
Alignment explanation
Indices: 54095618--54095926 Score: 483
Period size: 155 Copynumber: 2.0 Consensus size: 155
54095608 CTACAGAGCC
* * *
54095618 TAGTCCAGCAAATTATCATTTATTGCTGAATTTATCCGCGTGGAGTCCACAAGCCCATTGGGCCC
1 TAGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCC
* * *
54095683 ACACGACCCAATTTGGCCCATCGTGGCCCAAAACGACCCAAACCTATGAGAATGCTCGTAGGGCC
66 ACACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCC
54095748 TCTACCGTCTAACATCCATGTGTCA
131 TCTACCGTCTAACATCCATGTGTCA
* * * *
54095773 TAGTCCAGCCAATTACCATTTATTATTGAATTTATCCGTGTGGAGCCCACAAGCCCATTTGGCCC
1 TAGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCC
* * * * *
54095838 ACACGACCTATTTTGGCCCATCATGGCCCAGAACGACCCAAACCCGTGAGAATGCTCATGGGGCC
66 ACACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCC
54095903 TCTACCGTCTAACATCCATGTGTC
131 TCTACCGTCTAACATCCATGTGTC
54095927 GTGGCTCGAA
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
155 139 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (155 bp):
TAGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCC
ACACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCC
TCTACCGTCTAACATCCATGTGTCA
Found at i:54097010 original size:24 final size:24
Alignment explanation
Indices: 54096960--54097010 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
54096950 ACCCTAAAAT
** *
54096960 TCCTTGATTTTCTCCCAATATCTC
1 TCCTTGATTCCCTCCCAATATCAC
54096984 TCCTTGATTCCCTCCACAA-ATCAC
1 TCCTTGATTCCCTCC-CAATATCAC
54097008 TCC
1 TCC
54097011 AACATCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (24 bp):
TCCTTGATTCCCTCCCAATATCAC
Found at i:54101420 original size:14 final size:14
Alignment explanation
Indices: 54101384--54101412 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
54101374 AGAACCAAAG
54101384 AATATAATTTAACC
1 AATATAATTTAACC
54101398 AATATAATTTAACC
1 AATATAATTTAACC
54101412 A
1 A
54101413 TTTTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AATATAATTTAACC
Found at i:54103262 original size:14 final size:14
Alignment explanation
Indices: 54103243--54103272 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
54103233 ATTTAGTCAT
54103243 TTTGCCACCCAAAA
1 TTTGCCACCCAAAA
54103257 TTTGCCACCCAAAA
1 TTTGCCACCCAAAA
54103271 TT
1 TT
54103273 GGCATGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (14 bp):
TTTGCCACCCAAAA
Found at i:54109623 original size:79 final size:81
Alignment explanation
Indices: 54109487--54109671 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
54109477 TTGAATGATG
*
54109487 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54109551 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
54109566 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54109628 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
54109646 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54109672 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:54109685 original size:40 final size:40
Alignment explanation
Indices: 54109488--54109671 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
54109478 TGAATGATGT
* * * *
54109488 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
54109528 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
54109568 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54109606 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54109647 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54109672 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:54109693 original size:79 final size:79
Alignment explanation
Indices: 54109540--54109704 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
54109530 GGACTAAGAT
* **
54109540 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54109605 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54109619 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54109682 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54109698 CCGAAGG
1 CCGAAGG
54109705 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54117528 original size:79 final size:81
Alignment explanation
Indices: 54117392--54117576 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
54117382 TTGAATGATG
*
54117392 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54117456 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
54117471 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54117533 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
54117551 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54117577 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:54117590 original size:40 final size:40
Alignment explanation
Indices: 54117393--54117576 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
54117383 TGAATGATGT
* * * *
54117393 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
54117433 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
54117473 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54117511 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54117552 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54117577 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:54117598 original size:79 final size:79
Alignment explanation
Indices: 54117445--54117609 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
54117435 GGACTAAGAT
* **
54117445 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54117510 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54117524 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54117587 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54117603 CCGAAGG
1 CCGAAGG
54117610 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54129354 original size:46 final size:46
Alignment explanation
Indices: 54129304--54129477 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
54129294 ATGTTGAGCA
54129304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54129350 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
54129395 CATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54129442 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54129478 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 33 0.30
46 53 0.49
47 7 0.06
49 4 0.04
50 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54132432 original size:15 final size:15
Alignment explanation
Indices: 54132393--54132471 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
54132383 GTATCTTGGG
*
54132393 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54132408 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54132423 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
54132437 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
54132452 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
54132466 TTTCTT
1 TTTCTT
54132472 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54132456 original size:29 final size:29
Alignment explanation
Indices: 54132384--54132470 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
54132374 CATAGTATCG
* * * *
54132384 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
54132414 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
54132443 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
54132471 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:54134901 original size:46 final size:46
Alignment explanation
Indices: 54134851--54135026 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
54134841 TGATTGAGCA
54134851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54134897 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
** * *
54134942 CATTAGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
54134989 ACCTGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54135027 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.57
47 26 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54141753 original size:50 final size:50
Alignment explanation
Indices: 54141634--54142068 Score: 381
Period size: 50 Copynumber: 8.6 Consensus size: 50
54141624 ATTGTGAAAA
* *** *
54141634 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* *
54141686 CACGTGTGTAGTACTAAGTGCAGGCAACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * ** * * * *
54141736 CGCATGTGTAGTACTAAGTGTAGGCTACAATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * * * *
54141787 CACGTGTGTAGTACTAAATACAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** *
54141837 CACATGTGTAGTACTAAGTGCAAGCTACTACCTATACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * * *
54141887 CACATGTGTAGTACGAAGTGCAAGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * *
54141938 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** * * * *
54141988 CACGTGTGTAGTACTAAGTGCACACTACTACGTGTACCAGATTGCTA-TT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
54142037 CGCATGTGTAGTACTAAGTACAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
54142069 CTTACAAGAT
Statistics
Matches: 304, Mismatches: 73, Indels: 15
0.78 0.19 0.04
Matches are distributed among these distances:
49 29 0.10
50 164 0.54
51 72 0.24
52 39 0.13
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:54141914 original size:151 final size:151
Alignment explanation
Indices: 54141638--54142069 Score: 625
Period size: 151 Copynumber: 2.9 Consensus size: 151
54141628 TGAAAACACA
* * * *
54141638 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
* * * * *
54141703 GTGCAGGCAACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACAATG
64 GTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
54141768 CATACCCGACAACTTCAATCACG
129 CATACCCGACAACTTCAATCACG
* * *
54141791 TGTGTAGTACTAAATACAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * *
54141856 GCAAGCTACTACCTATACCAGATAGTTAGGTCACATGTGTAGTACGAAGTGCAAGCTACTATGCG
66 GCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
54141921 TACCCGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
54141942 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * *
54142007 GCACA-CTACTACGTGTACCAGATTGCTA-TTCGCATGTGTAGTACTAAGTACAGGCTACTATGC
66 GCA-AGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
54142070 TTACAAGATA
Statistics
Matches: 248, Mismatches: 30, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
150 30 0.12
151 183 0.74
152 1 0.00
153 34 0.14
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
TACCCGACAACTTCAATCACG
Found at i:54141946 original size:101 final size:101
Alignment explanation
Indices: 54141836--54142017 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
54141826 GATGGTTAGG
54141836 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTATACCAGATAGTTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTATACCAGATAGTTAGGTCACATGTGTAGTAC
54141901 GAAGTGCA-AGCTACTATGCGTACCCGACAACTTCAA
66 GAAGTGCACA-CTACTATGCGTACCCGACAACTTCAA
* * * * * * *
54141937 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTATACCAGATAGTTAGGTCACATGTGTAGTAC
*
54142002 TAAGTGCACACTACTA
66 GAAGTGCACACTACTA
54142018 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 71 0.99
102 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAAGCTACTACCTATACCAGATAGTTAGGTCACATGTGTAGTAC
GAAGTGCACACTACTATGCGTACCCGACAACTTCAA
Found at i:54142299 original size:16 final size:15
Alignment explanation
Indices: 54142278--54142307 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
54142268 GAATGGAGTA
54142278 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
54142294 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
54142308 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:54143203 original size:16 final size:16
Alignment explanation
Indices: 54143182--54143218 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
54143172 CCATGAGATG
54143182 TGGCTCATATTGATTA
1 TGGCTCATATTGATTA
54143198 TGGCTCATATTGATTA
1 TGGCTCATATTGATTA
54143214 TGGCT
1 TGGCT
54143219 TGTAAGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (16 bp):
TGGCTCATATTGATTA
Found at i:54148773 original size:50 final size:50
Alignment explanation
Indices: 54148654--54149086 Score: 376
Period size: 50 Copynumber: 8.6 Consensus size: 50
54148644 ATTGTGAAAA
* * * *
54148654 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG--TTAGGT
*
54148706 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
* * * ** ** * * *
54148756 CGCATGTGTAGTACTAAGTGCAGGATACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAGTT-AGGT
* * * *
54148807 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTA-TCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGT
* * *
54148857 CACGTGTGTAGTACTAAGTGCAAGCTACTAAC-TGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACT-ACGTGTACTAGATAGTTAGGT
* * ** * *
54148907 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAT-AGTT-AGGT
* * * *
54148958 CACATGTGTAGTACAAAGTGCAGTCTACTACGTGTA-TCAGATGGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGT
** * * * *
54149008 CATGTGTGTAGTACTAAGTGCATGCTACTACGTGTACTGGATTGTT-GTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
*
54149057 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
54149087 TGCTTACCAG
Statistics
Matches: 304, Mismatches: 64, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
49 30 0.10
50 158 0.52
51 76 0.25
52 39 0.13
53 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
Found at i:54148834 original size:101 final size:98
Alignment explanation
Indices: 54148654--54149100 Score: 391
Period size: 101 Copynumber: 4.4 Consensus size: 98
54148644 ATTGTGAAAA
* * *** *
54148654 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG-CTACCAGATAG--TTA-GTCACGTGTGTAGTA
54148719 CTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
62 CTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
* * * * * *
54148756 CGCATGTGTAGTACTAAGTGCAGGATACTATGCATACCCGACAACTTCAATCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGC-TACCAGA-TAGTT-AGTCACGTGTGTAGTAC
* * *
54148821 TAAGTACAGGCTACTACGTGTA-TCAAATGGTTAGGT
63 TAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGT
* * *
54148857 CACGTGTGTAGTACTAAGTGCAAGCTACTAACTG-TACCAGATAGTTAGGTCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACT-A-TGCTACCAGATAGTTA-GTCACGTGTGTAGTAC
* * ** * *
54148921 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
63 TAAGTGCAGGCTACTACGTGTACTAGAT-AGTT-AGGT
* * * * * *
54148958 CACATGTGTAGTACAAAGTGCAGTCTACTACGTG-TATCAGATGGTTTGGTCATGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTA--TGCTACCAGATAG-TTAGTCACGTGTGTAGTAC
* * * *
54149022 TAAGTGCATGCTACTACGTGTACTGGATTGTT-GTT
63 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
*
54149057 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCTTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGC-TACCAGATAG
54149101 CTTCGATTAC
Statistics
Matches: 274, Mismatches: 56, Indels: 33
0.75 0.15 0.09
Matches are distributed among these distances:
97 2 0.01
99 37 0.14
100 42 0.15
101 154 0.56
102 37 0.14
103 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (98 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCTACCAGATAGTTAGTCACGTGTGTAGTACTAA
GTGCAGGCTACTACGTGTACTAGATAGTTAGGT
Found at i:54148936 original size:151 final size:151
Alignment explanation
Indices: 54148654--54149094 Score: 636
Period size: 151 Copynumber: 2.9 Consensus size: 151
54148644 ATTGTGAAAA
* * *
54148654 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCACGTGTGTAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAA-ATGG--TTAGGTCACGTGTGTAGT
* *
54148718 ACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGATA
63 ACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
54148783 CTATGCATACCCGACAACTTCAAT
128 CTATGCATACCCGACAACTTCAAT
* *
54148807 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACT
* *
54148872 AAGTGCAAGCTACTAAC-TGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
66 AAGTGCAAGCTACT-ACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
* *
54148936 ATGCGTACCCGATAACTTCAAT
130 ATGCATACCCGACAACTTCAAT
* * * * *
54148958 CACATGTGTAGTACAAAGTGCAGTCTACTACGTGTATCAGATGGTTTGGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACT
* * * *
54149023 AAGTGCATGCTACTACGTGTACTGGATTGTT-GTTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
*
54149087 TGCTTACC
131 TGCATACC
54149095 AGATAGCTTC
Statistics
Matches: 260, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
150 40 0.15
151 180 0.69
152 2 0.01
153 35 0.13
154 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCATACCCGACAACTTCAAT
Found at i:54153509 original size:28 final size:28
Alignment explanation
Indices: 54153476--54153594 Score: 159
Period size: 28 Copynumber: 4.2 Consensus size: 28
54153466 ATTGCATGAC
* **
54153476 TATGAATGTGATTAGGCCTAACAGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
54153504 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
54153532 TATGAATGTGATTGGGCC-GATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
54153559 TATGAATGTGATTGGGCCTAAAGGGGCCA
1 TATGAATGTGATTGGGCCT-AATGGGCCA
*
54153588 AATGAAT
1 TATGAAT
54153595 AAGTATGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
27 27 0.33
28 42 0.51
29 13 0.16
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:54153561 original size:27 final size:28
Alignment explanation
Indices: 54153476--54153577 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
54153466 ATTGCATGAC
* * **
54153476 TATGAATGTGATTAGGCCTAACAGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
54153504 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
54153532 TATGAATGTGATTGGGCC-GATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
54153559 TATGAATGTGATTGGGCCT
1 TATGAATGTGATTGGGCCT
54153578 AAAGGGGCCA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 27 0.39
28 42 0.61
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:54154836 original size:17 final size:18
Alignment explanation
Indices: 54154805--54154838 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54154795 TTTGAAGAAG
54154805 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
54154823 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
54154839 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:54155746 original size:54 final size:54
Alignment explanation
Indices: 54155673--54155776 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
54155663 TCCTTACCCT
* * *
54155673 TGTAGCTCACTGATTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
1 TGTAACTCACTGAGTTGCCACACACACCCGTGTGTCAGGCCATGTGCTAGGTAG
* * ** **
54155727 TGTAACTCTCTGAGTTGCCACACACGCTTGTGTGTCAGGCTGTGTGCTAG
1 TGTAACTCACTGAGTTGCCACACACACCCGTGTGTCAGGCCATGTGCTAG
54155777 TGTAATATCC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (54 bp):
TGTAACTCACTGAGTTGCCACACACACCCGTGTGTCAGGCCATGTGCTAGGTAG
Found at i:54157219 original size:91 final size:92
Alignment explanation
Indices: 54157064--54157231 Score: 295
Period size: 91 Copynumber: 1.8 Consensus size: 92
54157054 GGATGGTTGA
*
54157064 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
54157129 GAGT-CGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
54157155 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGTCCGAACTCGTTGAGT
54157219 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
54157232 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 53 0.73
92 20 0.27
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54157235 original size:45 final size:46
Alignment explanation
Indices: 54157067--54157236 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
54157057 TGGTTGAGCA
*
54157067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
54157112 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
54157156 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
54157204 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54157237 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 9 0.08
45 53 0.50
46 21 0.20
47 7 0.07
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:54164693 original size:46 final size:46
Alignment explanation
Indices: 54164633--54164801 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
54164623 TGGTTGAGCA
54164633 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
54164679 TCCGAACTCATTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* *
54164724 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
54164771 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
54164802 TTAGGGGCGG
Statistics
Matches: 101, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 20 0.20
46 42 0.42
47 21 0.21
49 4 0.04
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:54164788 original size:92 final size:93
Alignment explanation
Indices: 54164630--54164799 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
54164620 GGATGGTTGA
* *
54164630 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
54164695 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
54164723 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
54164787 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54164800 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 48 0.67
93 24 0.33
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54171053 original size:81 final size:81
Alignment explanation
Indices: 54170915--54171106 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 81
54170905 AATTCTCGAT
* * * ***
54170915 ATCTCGCACACTAAGTGTCGTACATAACCGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
*
54170980 AGCAGAAGTTATCTCG
66 AGCAGAAGCTATCTCG
* ** * *
54170996 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATGTTGAATCGCACATTGAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
* *
54171061 AGCCGAAGCTATGTCG
66 AGCAGAAGCTATCTCG
* *
54171077 A-ATCGCACACTAAGTGCCACATATAGTTGA
1 ATCTCGCACACTAAGTGCCATATATAGTTGA
54171107 TTTTTCGTCG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 27 0.28
81 68 0.72
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (81 bp):
ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
AGCAGAAGCTATCTCG
Found at i:54171118 original size:40 final size:40
Alignment explanation
Indices: 54170918--54171102 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
54170908 TCTCGATATC
* * * * * * *
54170918 TCGCACACTAAGTGTCGTACATAACCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * * *
54170958 TCGCACACTAAGTGCCATATATAGCAGAAGTTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGA-A
* *
54170999 TCGCACACTAAGTGCCATATATAGTTGAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * *
54171039 TCGCACATTGAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
*
54171079 TCGCACACTAAGTGCCACATATAG
1 TCGCACACTAAGTGCCATATATAG
54171103 TTGATTTTTC
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 88 0.72
41 34 0.28
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
Found at i:54174701 original size:99 final size:99
Alignment explanation
Indices: 54174528--54174725 Score: 324
Period size: 99 Copynumber: 2.0 Consensus size: 99
54174518 ATGCATTGAG
* *
54174528 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATTGGGCAATGTTTGAATGA
1 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
*
54174593 AGAAGATGGTAACTTGTTTTCTTTTGTTTTTGTT
66 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
* ** * *
54174627 AACAAAGCTTGGTTGAGTCTTCCTTGTACAAAAATGGTGTTTTTGATAGGGAAATGTTTGAATGA
1 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
54174692 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
66 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
54174726 TTTAATTACC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (99 bp):
AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
Found at i:54175624 original size:21 final size:20
Alignment explanation
Indices: 54175591--54175634 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
54175581 TTTTCCACCT
54175591 ATATATAAAAAAATATACAAA
1 ATATATAAAAAAATATA-AAA
54175612 ATAT-TAAATAAAATATAAAA
1 ATATATAAA-AAAATATAAAA
54175632 ATA
1 ATA
54175635 AAATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATATAAAAAAATATAAAA
Found at i:54175646 original size:13 final size:13
Alignment explanation
Indices: 54175609--54175646 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
54175599 AAAAATATAC
54175609 AAAATA-TTAAAT
1 AAAATATTTAAAT
**
54175621 AAAATATAAAAAT
1 AAAATATTTAAAT
54175634 AAAATATTTAAAT
1 AAAATATTTAAAT
54175647 TAAACTACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATTTAAAT
Found at i:54175887 original size:19 final size:19
Alignment explanation
Indices: 54175865--54175901 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54175855 ATGAGGGAAT
* *
54175865 TGAGAGATATTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
54175884 TGAGAGAGAGTTGAGATT
1 TGAGAGAGAGTTGAGATT
54175902 AAATTAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (19 bp):
TGAGAGAGAGTTGAGATTG
Found at i:54182535 original size:40 final size:40
Alignment explanation
Indices: 54182488--54182691 Score: 311
Period size: 40 Copynumber: 5.1 Consensus size: 40
54182478 CGGGCTTTAA
** *
54182488 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
54182528 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
54182568 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
54182608 CCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54182648 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
54182688 CCGG
1 CCGG
54182692 TTATCATCCG
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 149 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54188609 original size:37 final size:37
Alignment explanation
Indices: 54188557--54188700 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
54188547 GCTCAGACGA
* *
54188557 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
54188594 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
*
54188631 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
*
54188668 AATCTCCACACGTAGTCATC-GGTCTTACCCGGA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGA
54188701 ATATATTTCC
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 13 0.12
37 91 0.88
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
Found at i:54188898 original size:46 final size:46
Alignment explanation
Indices: 54188845--54188935 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
54188835 TATATATACA
* ** *
54188845 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATC
* *
54188891 CATCTCATACACATTTCGCATTAGCCATTCAGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATAT
54188936 ATTCATGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATC
Found at i:54188973 original size:47 final size:47
Alignment explanation
Indices: 54188909--54189746 Score: 848
Period size: 47 Copynumber: 17.1 Consensus size: 47
54188899 ACACATTTCG
* * * *
54188909 CATTAGCCATTCAGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * *
54188956 CATTGGCCATTCGGCCTTATCTCATATATGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * * *
54189003 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * * *
54189050 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* *
54189097 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCAGGTTCACATTCATCA
* *
54189150 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* *
54189201 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* * * * *
54189252 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCAAATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* *
54189299 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* *
54189350 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCAGGTTCACATTCATCA
* * * *
54189403 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * *
54189450 CATTGGCCATTCGACCTTATCACACTTATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* * * *
54189501 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* *
54189548 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* * * * *
54189599 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * *
54189646 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCACCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* * * * *
54189697 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
54189744 CAT
1 CAT
54189747 AAAATCCTAA
Statistics
Matches: 676, Mismatches: 85, Indels: 60
0.82 0.10 0.07
Matches are distributed among these distances:
47 318 0.47
48 1 0.00
49 27 0.04
50 3 0.00
51 243 0.36
52 3 0.00
53 79 0.12
54 1 0.00
55 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
Found at i:54189073 original size:22 final size:22
Alignment explanation
Indices: 54188952--54189026 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
54188942 GTTCACATTC
54188952 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * * *
54188974 ATCTCATATATGCACGTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
54188998 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54189021 ATCACA
1 ATCACA
54189027 CATACGCATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54189318 original size:98 final size:94
Alignment explanation
Indices: 54188909--54189746 Score: 1010
Period size: 98 Copynumber: 8.5 Consensus size: 94
54188899 ACACATTTCG
* * * * **
54188909 CATTAGCCATTCAGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
54188974 ATCTCATATATGCACGTTCACATTCATCA
66 ATCACACATATACATGTTCACATTCATCA
*
54189003 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
**
54189068 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATATACATGTTCACATTCATCA
* * *
54189097 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--C----ACATACACATGTTCACATTCATCACATTGGCCATTC
*
54189162 GGCCTTATCACACATATATATACGGGTTCACATTCATCA
60 GGCCTTATCACACATATACAT----GTTCACATTCATCA
* *
54189201 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACACAT----GTTCACATTCATCACATTGGCCATTCGG
** *
54189266 CCTTATCACACATACGCATGTTCAAATTCATCA
62 CCTTATCACACATATACATGTTCACATTCATCA
* *
54189299 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACACAT----GTTCACATTCATCACATTGGCCATTCGG
* *
54189364 CCTTATCACGCATATATATATACAGGTTCACATTCATCA
62 CCTTATCA--C----ACATATACATGTTCACATTCATCA
* *
54189403 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
**
54189468 ATCACACTTATATATACGGGTTCACATTCATCA
66 ATCACAC----ATATACATGTTCACATTCATCA
*
54189501 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
54189566 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATACAT----GTTCACATTCATCA
* *
54189599 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
54189664 ATCACACATATATATACGGGTTCACATTCACCA
66 ATCACACATATACAT----GTTCACATTCATCA
* *
54189697 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACAT
54189747 AAAATCCTAA
Statistics
Matches: 673, Mismatches: 43, Indels: 52
0.88 0.06 0.07
Matches are distributed among these distances:
94 112 0.17
96 1 0.00
98 344 0.51
100 86 0.13
102 45 0.07
104 85 0.13
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATACATGTTCACATTCATCA
Found at i:54189381 original size:249 final size:249
Alignment explanation
Indices: 54188909--54189724 Score: 1243
Period size: 249 Copynumber: 3.3 Consensus size: 249
54188899 ACACATTTCG
* * **
54188909 CATTAGCCATTCAGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
* **
54188971 CTTAT--CTCATATATGCAC--GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
66 CTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
***
54189032 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTC
131 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTC
54189093 ATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
196 ATCACATTGGCCATTCGGCCTTATCACGC--A-ATATATACAGGTTCACATTCATCA
54189150 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CGGGTTCACATTCATCACATTGGCCATTCGG
54189215 CCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
65 CCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
*
54189280 CGCATGTTCAAATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATT
130 CGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATT
54189345 CATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
195 CATCACATTGGCCATTCGGCCTTATCACGC--A-ATATATACAGGTTCACATTCATCA
*** *
54189403 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCACATTGGCCATTCGAC
1 CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
*
54189465 CTTATCACACTTATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
66 CTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
54189530 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTC
131 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTC
* * ** *
54189595 ATCACATTGGCCATTCGACCTTATCA--C-ACATACGCATGTTCACATTCATCA
196 ATCACATTGGCCATTCGGCCTTATCACGCAATATATACAGGTTCACATTCATCA
*
54189646 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCACCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CGGGTTCACATTCATCACATTGGCCATTCGG
54189711 CCTTATCACACATA
65 CCTTATCACACATA
54189725 CGCATGTTCA
Statistics
Matches: 531, Mismatches: 28, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
241 17 0.03
242 1 0.00
243 59 0.11
244 1 0.00
245 35 0.07
247 50 0.09
249 271 0.51
253 97 0.18
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (249 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACGCAATATATACAGGTTCACATTCATCA
Found at i:54193396 original size:40 final size:40
Alignment explanation
Indices: 54193364--54193750 Score: 658
Period size: 40 Copynumber: 9.8 Consensus size: 40
54193354 CCAGCATGAT
* * *
54193364 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
54193404 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
54193444 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
54193484 TGCTCTT-GGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54193523 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54193562 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
54193602 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54193642 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54193682 TGCTC-TC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54193720 TGCTCTTC-GGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
54193751 CTCAATTCTC
Statistics
Matches: 331, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
38 37 0.11
39 97 0.29
40 197 0.60
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:54193693 original size:158 final size:158
Alignment explanation
Indices: 54193364--54193750 Score: 661
Period size: 158 Copynumber: 2.4 Consensus size: 158
54193354 CCAGCATGAT
* * * * *
54193364 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
1 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
54193429 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAATGCTCTTGGG
65 TATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTGGG
*
54193494 ATTTAGCCCGGATATATCACTAGCACGAA
130 ACTTAGCCCGGATATATCACTAGCACGAA
54193523 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
54193588 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
66 ATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTT-GGG
54193653 ACTTAGCCCGGATATATCACTAGCACGAA
130 ACTTAGCCCGGATATATCACTAGCACGAA
54193682 TGCTCTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATAT
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
54193745 ATCACT
66 ATCACT
54193751 CTCAATTCTC
Statistics
Matches: 218, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
157 23 0.11
158 152 0.70
159 43 0.20
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (158 bp):
TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
ATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTGGGA
CTTAGCCCGGATATATCACTAGCACGAA
Found at i:54195077 original size:37 final size:37
Alignment explanation
Indices: 54195019--54195163 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
54195009 GCTCAGACGA
* * *
54195019 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
54195056 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
54195093 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
54195130 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
54195164 ATATATTTCC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:54195360 original size:46 final size:46
Alignment explanation
Indices: 54195308--54195398 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
54195298 TATATATACA
* * ** *
54195308 CATCTCATACATATCTCACATTAGCGATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATC
* *
54195354 CATCTCATACACATTTCGCATTAGCCATTCAGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATAT
54195399 ATTCATGTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATC
Found at i:54195436 original size:47 final size:47
Alignment explanation
Indices: 54195372--54196011 Score: 659
Period size: 47 Copynumber: 13.1 Consensus size: 47
54195362 ACACATTTCG
* * * *
54195372 CATTAGCCATTCAGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * *
54195419 CATTGGCCATTCGGCCTTATCTCATATATGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * * *
54195466 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* * * *
54195513 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* *
54195560 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCAGGTTCACATTCATCA
* * * *
54195613 CATTGGTCATTCAGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* *
54195664 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* * * * *
54195715 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCAAATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* *
54195762 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* *
54195813 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATGCAGGTTCACATTCATCA
* * * *
54195864 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
* *
54195911 CATTGGCCATTCGGCCTTATCACACTTATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCAGGTTCACATTCATCA
* * * * *
54195962 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
54196009 CAT
1 CAT
54196012 AAAATCCTAA
Statistics
Matches: 514, Mismatches: 59, Indels: 40
0.84 0.10 0.07
Matches are distributed among these distances:
47 247 0.48
48 2 0.00
49 15 0.03
50 3 0.01
51 205 0.40
52 2 0.00
53 39 0.08
54 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATGCAGGTTCACATTCATCA
Found at i:54195536 original size:22 final size:22
Alignment explanation
Indices: 54195415--54195489 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
54195405 GTTCACATTC
54195415 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * * *
54195437 ATCTCATATATGCACGTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
54195461 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54195484 ATCACA
1 ATCACA
54195490 CATACGCATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54195663 original size:51 final size:50
Alignment explanation
Indices: 54195372--54195989 Score: 797
Period size: 51 Copynumber: 12.6 Consensus size: 50
54195362 ACACATTTCG
* * *
54195372 CATTAGCCATTCAGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
* **
54195419 CATTGGCCATTCGGCCTTAT--CTCATATATGCAC-GTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
***
54195466 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
***
54195513 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
*
54195560 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--CACATATATATAC-GGTTCACATTCATCA
* *
54195613 CATTGGTCATTCAGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
54195664 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
*** *
54195715 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCAAATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
54195762 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
*
54195813 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
***
54195864 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
*
54195911 CATTGGCCATTCGGCCTTATCACACTTATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
*
54195962 CATTGGCCATTTGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
54195990 CGCATGTTCA
Statistics
Matches: 512, Mismatches: 40, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
47 228 0.45
49 13 0.03
51 237 0.46
53 34 0.07
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (50 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
Found at i:54195792 original size:149 final size:148
Alignment explanation
Indices: 54195372--54195989 Score: 878
Period size: 149 Copynumber: 4.2 Consensus size: 148
54195362 ACACATTTCG
* * *
54195372 CATTAGCCATTCAGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCAGGTTCACATTCATCACATTGGCCATTCGGC
* * * * ***
54195434 CTTATCTCATATATGCACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
66 CTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
54195499 ----GTTCACATTCATCA
131 ACGGGTTCACATTCATCA
** *
54195513 CATTGGCCATTCGGCCTTATCACAC--ATA-CGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCAGGTTCACATTCATCACATTGGCCATTCGGC
* ** * * *
54195575 CTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGTCATTCAGCCTTATCACACAT
66 CTTATCA--C----ACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
54195640 ATATATACGGGTTCACATTCATCA
125 ATATATACGGGTTCACATTCATCA
*
54195664 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CAGGTTCACATTCATCACATTGGCCATTCGG
*
54195729 CCTTATCACACATACGCATGTTCAAATTCATCACATTGGCCATTCGGCCTTATCACACATATATA
65 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATA
54195794 TACGGGTTCACATTCATCA
130 TACGGGTTCACATTCATCA
*
54195813 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CAGGTTCACATTCATCACATTGGCCATTCGG
*
54195878 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACTTATATA
65 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATA
54195943 TACGGGTTCACATTCATCA
130 TACGGGTTCACATTCATCA
*
54195962 CATTGGCCATTTGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
54195990 CGCATGTTCA
Statistics
Matches: 432, Mismatches: 28, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
141 58 0.13
142 1 0.00
143 4 0.01
147 50 0.12
149 239 0.55
151 39 0.09
153 4 0.01
155 37 0.09
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (148 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCAGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATAT
ACGGGTTCACATTCATCA
Found at i:54200830 original size:25 final size:25
Alignment explanation
Indices: 54200779--54200830 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
54200769 ACTGTTCCAA
*
54200779 CTGGAAACACTTTTCTACATATCAC
1 CTGGAAACACTTTTCTACAAATCAC
54200804 CTGGAAACA-TTTTCGTA-AAATCGAC
1 CTGGAAACACTTTTC-TACAAATC-AC
54200829 CT
1 CT
54200831 ATTCCCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.31
Consensus pattern (25 bp):
CTGGAAACACTTTTCTACAAATCAC
Found at i:54203194 original size:34 final size:35
Alignment explanation
Indices: 54203150--54203216 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
54203140 CAGTAAAATA
* *
54203150 TTTTCCGTAAAATGA-TTTCTGGAAAATATTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
54203184 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
54203217 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:54203249 original size:33 final size:32
Alignment explanation
Indices: 54203206--54203285 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
54203196 TGACTTACAG
**
54203206 GAAAATATTTTCTGGTGTTTGATTGA-ATCTGT
1 GAAAATATTTTCTGGTGTTTGACAGATATCT-T
* *
54203238 GTAAAATATTTTCTGCTGTTTGACAGATTTCTT
1 G-AAAATATTTTCTGGTGTTTGACAGATATCTT
54203271 GAAAATATTTTCTGG
1 GAAAATATTTTCTGG
54203286 AAAAGTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 14 0.34
33 24 0.59
34 3 0.07
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (32 bp):
GAAAATATTTTCTGGTGTTTGACAGATATCTT
Found at i:54204590 original size:27 final size:27
Alignment explanation
Indices: 54204560--54204629 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
54204550 AATAATCAAT
*
54204560 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
54204587 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
54204615 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
54204630 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:54207644 original size:14 final size:14
Alignment explanation
Indices: 54207599--54207635 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
54207589 ATCTTAAATT
54207599 AACCATATACCTTA
1 AACCATATACCTTA
*
54207613 AACCATATACCCTA
1 AACCATATACCTTA
54207627 AACCATATA
1 AACCATATA
54207636 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCTTA
Found at i:54207955 original size:41 final size:40
Alignment explanation
Indices: 54207892--54208043 Score: 182
Period size: 41 Copynumber: 3.7 Consensus size: 40
54207882 AAATATTTTT
*
54207892 GCGGCGCTTTTCTAAAAACGCCGCTAAA-AGCTCGAGCATTA
1 GCGGCGCTTTT-TAAAAACGCCGCTAAAGATCT-GAGCATTA
*
54207933 GCGGCG-TTTTTGAAAAAGCGCCGCTAAAGATCTGAGAATTA
1 GCGGCGCTTTTT-AAAAA-CGCCGCTAAAGATCTGAGCATTA
* *
54207974 GCAGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAGATCTGAGCATTA
* *
54208015 GTGACGCTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAG
54208044 CCTCGAAAGG
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 9 0.09
41 74 0.76
42 13 0.13
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:54208130 original size:40 final size:41
Alignment explanation
Indices: 54208083--54208218 Score: 170
Period size: 40 Copynumber: 3.4 Consensus size: 41
54208073 GGCTTAGATA
**
54208083 TTTAGCGGCGTTTTTTCAAAAAATGCCGCTAATGCTC-ATT
1 TTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTCGATT
* ** *
54208123 TTTAGCGGCG-CTTTTCTGAAAGCGCCGCTAATGCTCGATC
1 TTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTCGATT
* **
54208163 TTTAGCGGCGTTTTAT-GTAAAGCGCCGCTAATGCTCGATT
1 TTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTCGATT
54208203 TTTAGCGGCGTTTTTT
1 TTTAGCGGCGTTTTTT
54208219 GTCCAAACGC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 21 0.26
40 58 0.71
41 3 0.04
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTCAAAAAGCGCCGCTAATGCTCGATT
Found at i:54208150 original size:39 final size:40
Alignment explanation
Indices: 54208107--54208216 Score: 179
Period size: 40 Copynumber: 2.8 Consensus size: 40
54208097 TTCAAAAAAT
*
54208107 GCCGCTAATGCTC-ATTTTTAGCGGCGCTTTTCTG-AAAGC
1 GCCGCTAATGCTCGATTTTTAGCGGCG-TTTTATGTAAAGC
*
54208146 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTATGTAAAGC
1 GCCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGC
54208186 GCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 GCCGCTAATGCTCGATTTTTAGCGGCGTTTT
54208217 TTGTCCAAAC
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 19 0.29
40 47 0.71
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (40 bp):
GCCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGC
Found at i:54208311 original size:8 final size:8
Alignment explanation
Indices: 54208298--54208322 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54208288 CCATTACCAG
54208298 GAACAACA
1 GAACAACA
54208306 GAACAACA
1 GAACAACA
54208314 GAACAACA
1 GAACAACA
54208322 G
1 G
54208323 GAACGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.24, G:0.16, T:0.00
Consensus pattern (8 bp):
GAACAACA
Found at i:54209150 original size:24 final size:24
Alignment explanation
Indices: 54209123--54209195 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
54209113 TGCAATCGAT
*
54209123 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
54209147 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
54209171 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
54209195 A
1 A
54209196 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:54214541 original size:35 final size:35
Alignment explanation
Indices: 54214501--54214677 Score: 160
Period size: 35 Copynumber: 5.0 Consensus size: 35
54214491 GTATGTACAT
54214501 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
54214536 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
54214571 ATGTGATGTTTTATTGAGCTTGTATATTCT-GTCAT
1 ATGTGATGATATATTGAACTTGTATATT-TGGCCAC
* * * *
54214606 ATATGATGATATATTGTACTTGTATAGTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
54214641 ATCTGATGATATAATGAACCTTG-AGTATTCGGCCAC
1 ATGTGATGATATATTGAA-CTTGTA-TATTTGGCCAC
54214677 A
1 A
54214678 CAAGTAAGTA
Statistics
Matches: 112, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
34 1 0.01
35 97 0.87
36 14 0.12
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:54217697 original size:25 final size:25
Alignment explanation
Indices: 54217663--54217716 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
54217653 TAATTGTAAA
54217663 AGAAAGACCATTGATTTGAGATGTC
1 AGAAAGACCATTGATTTGAGATGTC
54217688 AGAAAGACCATTGATTTGAGATGTC
1 AGAAAGACCATTGATTTGAGATGTC
54217713 AGAA
1 AGAA
54217717 CAGCGAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (25 bp):
AGAAAGACCATTGATTTGAGATGTC
Found at i:54219657 original size:46 final size:46
Alignment explanation
Indices: 54219598--54219731 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 46
54219588 AGGGTATTTG
*
54219598 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGA
* * *** * *
54219645 -GCGTTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGA
*
54219691 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54219732 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
46 36 0.51
47 34 0.49
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACGA
Found at i:54222688 original size:15 final size:15
Alignment explanation
Indices: 54222649--54222727 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
54222639 GTATCTTGGG
*
54222649 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54222664 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54222679 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
54222693 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
54222708 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
54222722 TTTCTT
1 TTTCTT
54222728 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54222712 original size:29 final size:29
Alignment explanation
Indices: 54222640--54222726 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
54222630 CATAGTATCG
* * * *
54222640 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
54222670 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
54222699 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
54222727 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:54226452 original size:46 final size:44
Alignment explanation
Indices: 54226309--54226452 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
54226299 CCCGCCCATA
* *
54226309 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
54226358 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
54226401 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
54226448 AGTGA
1 AGTGA
54226453 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 28 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:54228673 original size:40 final size:40
Alignment explanation
Indices: 54228650--54228728 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
54228640 TACTCGCTTG
54228650 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACC
* * * *
54228690 AATGCCTTCGGGACTTAGCCCGGACATAATAACTCGCAC
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCAC
54228729 AAGTCACGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACC
Done.