Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 57 of 100
Found at i:10464059 original size:39 final size:39
Alignment explanation
Indices: 10464016--10464145 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 39
10464006 TAAACTCTTC
10464016 AATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCT
1 AATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCT
* * * * * * *
10464055 AATAGATTAGTAGGA-TTAGTTTCAAAAATTGTTAAACTCTCT
1 AATAGTTTGGTAAGATTTAATTT--GAGA-T-TTAAATTCTCT
*
10464097 AATAGTTTGGTAA-AGTTTGATTTGAGATTTAAATTCTCT
1 AATAGTTTGGTAAGA-TTTAATTTGAGATTTAAATTCTCT
*
10464136 AATAATTTGG
1 AATAGTTTGG
10464146 AGGGATTAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
38 6 0.09
39 31 0.45
40 3 0.04
41 4 0.06
42 20 0.29
43 5 0.07
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (39 bp):
AATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCT
Found at i:10464065 original size:81 final size:79
Alignment explanation
Indices: 10463931--10464140 Score: 262
Period size: 81 Copynumber: 2.6 Consensus size: 79
10463921 CATCAAATTT
* * * * *
10463931 TCTAATAGTTTAGTAAAATCTTATTTGAAAATTTAAATCCTCTAAAAAATTAGTATGATT-GATT
1 TCTAATAGTTTGGT-AAAT-TTATTTG-AGATTTAAATTCTCTAATAAATTAGTAGGATTAG-TT
10463995 TCAAAAATTATTAAACTC
62 TCAAAAATTATTAAACTC
*
10464013 T-TCAATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCTAATAGATTAGTAGGATTAGTTT
1 TCT-AATAGTTTGGTAA-ATTT-ATTTGAGATTTAAATTCTCTAATAAATTAGTAGGATTAGTTT
*
10464077 CAAAAATTGTTAAACTC
63 CAAAAATTATTAAACTC
10464094 TCTAATAGTTTGGTAAAGTTTGATTTGAGATTTAAATTCTCTAATAA
1 TCTAATAGTTTGGTAAA-TTT-ATTTGAGATTTAAATTCTCTAATAA
10464141 TTTGGAGGGA
Statistics
Matches: 113, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
80 1 0.01
81 92 0.81
82 20 0.18
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (79 bp):
TCTAATAGTTTGGTAAATTTATTTGAGATTTAAATTCTCTAATAAATTAGTAGGATTAGTTTCAA
AAATTATTAAACTC
Found at i:10468132 original size:21 final size:21
Alignment explanation
Indices: 10468103--10468148 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10468093 TAACTATTTG
* *
10468103 TGTTGTTTTCTATATAGATTA
1 TGTTATTTTCTATATAGATCA
* *
10468124 TGTTATTTTTTATATATATCA
1 TGTTATTTTCTATATAGATCA
10468145 TGTT
1 TGTT
10468149 TACTAACCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (21 bp):
TGTTATTTTCTATATAGATCA
Found at i:10468250 original size:20 final size:20
Alignment explanation
Indices: 10468199--10468250 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
10468189 CATCTTATTG
*
10468199 CATTCATGCATACATGCATT
1 CATTCATGCATTCATGCATT
* *
10468219 AATTCATGCATTCATGCCTT
1 CATTCATGCATTCATGCATT
*
10468239 CATTTATGCATT
1 CATTCATGCATT
10468251 ACACCAATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (20 bp):
CATTCATGCATTCATGCATT
Found at i:10468749 original size:13 final size:14
Alignment explanation
Indices: 10468731--10468759 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10468721 TTCTTATTGT
10468731 TACATGTA-TTGCA
1 TACATGTATTTGCA
10468744 TACATGTATTTGCA
1 TACATGTATTTGCA
10468758 TA
1 TA
10468760 TATATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (14 bp):
TACATGTATTTGCA
Found at i:10469114 original size:14 final size:15
Alignment explanation
Indices: 10469095--10469123 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10469085 GAGTAATGAA
10469095 GTTTG-AAAATTCTT
1 GTTTGAAAAATTCTT
10469109 GTTTGAAAAATTCTT
1 GTTTGAAAAATTCTT
10469124 TGTAAGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
GTTTGAAAAATTCTT
Found at i:10471132 original size:24 final size:24
Alignment explanation
Indices: 10471105--10471175 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
10471095 AAATCATTAT
*
10471105 TTGA-ACATTGCATTTGCCTCATGG
1 TTGAGACA-TGCATTTGCATCATGG
* *
10471129 TTGAGGCATGCATTTGCATTATGG
1 TTGAGACATGCATTTGCATCATGG
* *
10471153 TTGAGGCATACATTTGCATCATG
1 TTGAGACATGCATTTGCATCATG
10471176 TAGTGAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 39 0.95
25 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (24 bp):
TTGAGACATGCATTTGCATCATGG
Found at i:10471607 original size:24 final size:22
Alignment explanation
Indices: 10471549--10471610 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
10471539 TTTCAAATGA
* *
10471549 GAATCTTTGAAATTTTGGATGG
1 GAATTTTTGAAATTTTGGAAGG
* * *
10471571 GAATTCTTAAAATTTTGTGAAAGT
1 GAATTTTTGAAATTTTG-G-AAGG
10471595 GAATTTTTGAAATTTT
1 GAATTTTTGAAATTTT
10471611 TGATGTGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 14 0.45
23 1 0.03
24 16 0.52
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (22 bp):
GAATTTTTGAAATTTTGGAAGG
Found at i:10471650 original size:46 final size:46
Alignment explanation
Indices: 10471533--10471651 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 46
10471523 GTGAATCTCT
* **
10471533 AAATATTTTCAAATGAGAATCTTTGAAATTTTGGATGGGAATTCTTA
1 AAAT-TTTTCAAATGAGAATATTTGAAATTTTGGATGGGAAACCTTA
* * * * * *
10471580 AAATTTTGTGAAA-GTGAATTTTTGAAATTTTTGATGTGAAACCTTG
1 AAATTTT-TCAAATGAGAATATTTGAAATTTTGGATGGGAAACCTTA
*
10471626 AAATTTTTTAAATGAGAATATTTGAA
1 AAATTTTTCAAATGAGAATATTTGAA
10471652 TTATGGAGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
45 4 0.07
46 47 0.80
47 8 0.14
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (46 bp):
AAATTTTTCAAATGAGAATATTTGAAATTTTGGATGGGAAACCTTA
Found at i:10471858 original size:17 final size:17
Alignment explanation
Indices: 10471838--10471933 Score: 88
Period size: 17 Copynumber: 5.6 Consensus size: 17
10471828 TTTTTATAAT
*
10471838 CTTAAATTCTTACGAAC
1 CTTAAATTCTTACAAAC
* * *
10471855 CTTAAATTCCTGCAAAT
1 CTTAAATTCTTACAAAC
*
10471872 CTTAAATTGTTACAAAC
1 CTTAAATTCTTACAAAC
* *
10471889 CTTAAATTTTTAAAAAC
1 CTTAAATTCTTACAAAC
*
10471906 C-TAAAGCTCTTACAAAC
1 CTTAAA-TTCTTACAAAC
10471923 C-TAAAGTTCTT
1 CTTAAA-TTCTT
10471934 GTGAATCTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
16 4 0.06
17 60 0.94
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (17 bp):
CTTAAATTCTTACAAAC
Found at i:10471862 original size:34 final size:33
Alignment explanation
Indices: 10471824--10471924 Score: 94
Period size: 34 Copynumber: 3.0 Consensus size: 33
10471814 GTGAATCTAA
* *
10471824 AAATTTTTTATAATCTTAAATTCTTACGAACCTT
1 AAATTTTTCA-AATCTTAAATTCTTACAAACCTT
* * *
10471858 AAATTCCTGCAAATCTTAAATTGTTACAAACCTT
1 AAATT-TTTCAAATCTTAAATTCTTACAAACCTT
* * * *
10471892 AAATTTTTAAAAACCTAAAGCTCTTACAAACCT
1 AAATTTTTCAAATCTTAAA-TTCTTACAAACCT
10471925 AAAGTTCTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
33 9 0.17
34 42 0.79
35 2 0.04
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (33 bp):
AAATTTTTCAAATCTTAAATTCTTACAAACCTT
Found at i:10471943 original size:17 final size:17
Alignment explanation
Indices: 10471923--10471956 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10471913 TCTTACAAAC
* *
10471923 CTAAAGTTCTTGTGAAT
1 CTAAAGATCTTGCGAAT
10471940 CTAAAGATCTTGCGAAT
1 CTAAAGATCTTGCGAAT
10471957 ATTTGAAGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (17 bp):
CTAAAGATCTTGCGAAT
Found at i:10472001 original size:18 final size:17
Alignment explanation
Indices: 10471978--10472037 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
10471968 TGCGAATTCG
10471978 AATTCTTATGAATCTGAA
1 AATTCTTATGAATCTG-A
10471996 AATTCTTATGAATCTTTG-
1 AATTCTTATGAATC--TGA
* *
10472014 AATTCTTGTGAAACTGA
1 AATTCTTATGAATCTGA
10472031 AATTCTT
1 AATTCTT
10472038 GCGAATCTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 2 0.05
17 7 0.19
18 26 0.70
20 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (17 bp):
AATTCTTATGAATCTGA
Found at i:10472044 original size:35 final size:35
Alignment explanation
Indices: 10471977--10472080 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 35
10471967 GTGCGAATTC
* * ** *
10471977 GAATTCTTATGAATCTGAAAATTCTTATGAATCTTT
1 GAATTCTTGTGAAACTG-AAATTCTTGCGAATCTTG
10472013 GAATTCTTGTGAAACTGAAATTCTTGCGAATC-TG
1 GAATTCTTGTGAAACTGAAATTCTTGCGAATCTTG
* * *
10472047 GAACTTC-TGTAAAACTTGAAATTTTTGCAAATCT
1 GAA-TTCTTGTGAAAC-TGAAATTCTTGCGAATCT
10472081 GAAACCTCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
34 11 0.19
35 31 0.54
36 15 0.26
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (35 bp):
GAATTCTTGTGAAACTGAAATTCTTGCGAATCTTG
Found at i:10472081 original size:35 final size:35
Alignment explanation
Indices: 10472024--10472119 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
10472014 AATTCTTGTG
* * *
10472024 AAAC-TGAAATTCTTGCGAATCTGGAACTTCTGTA
1 AAACTTGAAATTTTTGCGAATCTGGAACCTCTGCA
* * *
10472058 AAACTTGAAATTTTTGCAAATCTGAAACCTCTGCG
1 AAACTTGAAATTTTTGCGAATCTGGAACCTCTGCA
* * *
10472093 AAACTTGGAATCTTTGTGAATCTGGAA
1 AAACTTGAAATTTTTGCGAATCTGGAA
10472120 TCTTTAAGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
34 4 0.08
35 46 0.92
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (35 bp):
AAACTTGAAATTTTTGCGAATCTGGAACCTCTGCA
Found at i:10472120 original size:17 final size:17
Alignment explanation
Indices: 10472098--10472143 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10472088 CTGCGAAACT
**
10472098 TGGAATCTTTGTGAATC
1 TGGAATCTTTAAGAATC
10472115 TGGAATCTTTAAGAATC
1 TGGAATCTTTAAGAATC
*
10472132 TTGAATCATTTA
1 TGGAATC-TTTA
10472144 CAAACTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (17 bp):
TGGAATCTTTAAGAATC
Found at i:10475710 original size:3 final size:3
Alignment explanation
Indices: 10475704--10475762 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
10475694 AATGATGATG
*
10475704 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
10475751 ATA ATA AAA ATA
1 ATA ATA ATA ATA
10475763 CTATAACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10475811 original size:10 final size:10
Alignment explanation
Indices: 10475798--10475846 Score: 89
Period size: 10 Copynumber: 4.9 Consensus size: 10
10475788 ACTATACTCG
10475798 AATATAATAT
1 AATATAATAT
10475808 AATATAATAT
1 AATATAATAT
*
10475818 AATATAATGT
1 AATATAATAT
10475828 AATATAATAT
1 AATATAATAT
10475838 AATATAATA
1 AATATAATA
10475847 GTAGTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
AATATAATAT
Found at i:10475816 original size:15 final size:15
Alignment explanation
Indices: 10475704--10475846 Score: 92
Period size: 15 Copynumber: 9.1 Consensus size: 15
10475694 AATGATGATG
10475704 ATAATAATAATAATAAT
1 ATAAT-ATAAT-ATAAT
10475721 ATAATAATAATAATAAT
1 ATAAT-ATAAT-ATAAT
*
10475738 AACAATAATAATAATAAT
1 -ATAAT-ATAAT-ATAAT
* * *
10475756 A-AAAATACTATAAC
1 ATAATATAATATAAT
* *
10475770 ATATTACT-ATGTTAAT
1 ATAATA-TAAT-ATAAT
* * **
10475786 ATACTATACTCGAAT
1 ATAATATAATATAAT
10475801 ATAATATAATATAAT
1 ATAATATAATATAAT
*
10475816 ATAATATAATGTAAT
1 ATAATATAATATAAT
10475831 ATAATATAATATAAT
1 ATAATATAATATAAT
10475846 A
1 A
10475847 GTAGTATAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
14 5 0.05
15 51 0.50
16 12 0.12
17 18 0.18
18 16 0.16
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:10475821 original size:20 final size:20
Alignment explanation
Indices: 10475704--10475846 Score: 92
Period size: 20 Copynumber: 6.8 Consensus size: 20
10475694 AATGATGATG
10475704 ATAATAATAATAATAATATAAT
1 ATAAT-ATAAT-ATAATATAAT
*
10475726 AATAATAATAATAACAATAATAAT
1 -ATAAT-ATAAT-ATAAT-ATAAT
* * *
10475750 AATAATA-AAAATACTATAAC
1 -ATAATATAATATAATATAAT
* * *
10475770 ATATTACT-ATGTTAATATACT
1 ATAATA-TAAT-ATAATATAAT
* **
10475791 ATACTCGAATATAATATAAT
1 ATAATATAATATAATATAAT
*
10475811 ATAATATAATATAATGTAAT
1 ATAATATAATATAATATAAT
10475831 ATAATATAATATAATA
1 ATAATATAATATAATA
10475847 GTAGTATAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
19 5 0.05
20 44 0.47
21 15 0.16
22 2 0.02
23 17 0.18
24 11 0.12
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAATATAATATAATATAAT
Found at i:10476473 original size:34 final size:34
Alignment explanation
Indices: 10476425--10476490 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
10476415 ATTCGTTAAG
* * *
10476425 ATTTCAAGTTTGTAAAAGTTTTATATTCACAAAA
1 ATTTCAAGTTTGTAAAACTTTCAGATTCACAAAA
*
10476459 ATTTTAAGTTTGTAAAACTTTCAGATTCACAA
1 ATTTCAAGTTTGTAAAACTTTCAGATTCACAA
10476491 GAAGGAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (34 bp):
ATTTCAAGTTTGTAAAACTTTCAGATTCACAAAA
Found at i:10476864 original size:77 final size:77
Alignment explanation
Indices: 10476714--10476940 Score: 219
Period size: 77 Copynumber: 2.9 Consensus size: 77
10476704 GGTTCATAAA
* * * * **
10476714 GACTTTCAAATTTGTAAGAAAGAAAGATTCGATTAAGATTTTTAAATTTCACAAAGGTTCTAGAT
1 GACTTTCAGATTTGAAAGAAAGAAAGATTC-A-TAAGA-TTTCAAGTTTTGCAAAGGTTCTAGAT
*
10476779 TCGTAAAGATACAAG
63 TCATAAAGATACAAG
*
10476794 GAC-TTCAGATTTTGCAAGAAAGAAAGATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATTC
1 GACTTTCAGA-TTTGAAAGAAAGAAAGATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATTC
* * *
10476858 ACAAAGATGCAAT
65 ATAAAGATACAAG
* * *** * *
10476871 GACTTTTTAGATTCGAAAGAAA-AAA-ATTTGCAAGATTTCAAG-TTTGCAAAGATTCTAAATTC
1 GAC-TTTCAGATTTGAAAGAAAGAAAGATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATTC
10476933 ATAAAGAT
65 ATAAAGAT
10476941 TTCAATTTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
75 25 0.20
76 14 0.11
77 39 0.31
78 14 0.11
79 11 0.09
80 22 0.18
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (77 bp):
GACTTTCAGATTTGAAAGAAAGAAAGATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATTCA
TAAAGATACAAG
Found at i:10477023 original size:109 final size:110
Alignment explanation
Indices: 10476820--10477030 Score: 295
Period size: 110 Copynumber: 1.9 Consensus size: 110
10476810 AGAAAGAAAG
* * *
10476820 ATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATTCACAAAGATGCAATGACTTTTTAGATTC
1 ATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATGCACAAAGATGCAAGGACTTTTCAGATTC
10476885 GAAAGAAAAAAATTTGCAAGATTTCAAG-TTTGCAAAGATTCTAA
66 GAAAGAAAAAAATTTGCAAGATTTCAAGTTTTGCAAAGATTCTAA
* *
10476929 ATTCATAAAGATTTCAATTTTTGCAAAGGTTCTAGATGCAC-AATATGCAAGGAC-TTTCAGATT
1 ATTCAT-AAGATTTCAAGTTTTGCAAAGGTTCTAGATGCACAAAGATGCAAGGACTTTTCAGATT
* * *
10476992 TGCAAGAAAGAAAGATTTG-TAGATTTCAAGTTTTGCAAA
65 CGAAAGAAA-AAA-ATTTGCAAGATTTCAAGTTTTGCAAA
10477031 AGTTAGAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
108 15 0.17
109 30 0.33
110 45 0.50
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (110 bp):
ATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGATGCACAAAGATGCAAGGACTTTTCAGATTC
GAAAGAAAAAAATTTGCAAGATTTCAAGTTTTGCAAAGATTCTAA
Found at i:10477986 original size:16 final size:18
Alignment explanation
Indices: 10477948--10477989 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
10477938 CAGTTTGAGT
10477948 CTTTTTTTTTCTTCTTG-
1 CTTTTTTTTTCTTCTTGC
* *
10477965 -TTTTTTTTTTTTTTTGC
1 CTTTTTTTTTCTTCTTGC
10477982 CTTTTTTT
1 CTTTTTTT
10477990 GTTTACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 14 0.67
18 7 0.33
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (18 bp):
CTTTTTTTTTCTTCTTGC
Found at i:10478036 original size:17 final size:17
Alignment explanation
Indices: 10478014--10478051 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10478004 TGCACACTTT
10478014 TTTCTCATTTCT-TTTCA
1 TTTCTC-TTTCTCTTTCA
*
10478031 TTTCTCTTTCTCTTTTA
1 TTTCTCTTTCTCTTTCA
10478048 TTTC
1 TTTC
10478052 ATTTATGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCTCTTTCTCTTTCA
Found at i:10481326 original size:42 final size:42
Alignment explanation
Indices: 10481267--10481346 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
10481257 TATATATAAT
* **
10481267 AAATAAATAAACAATTAAGTAAGTATAAGTAATGAAAATAGA
1 AAATAAATAAACAATTAAGCAAGTATAAACAATGAAAATAGA
*
10481309 AAATAAATAAATAATTAAGCAAGTATAAACAATGAAAA
1 AAATAAATAAACAATTAAGCAAGTATAAACAATGAAAA
10481347 GAAAATTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.64, C:0.04, G:0.10, T:0.23
Consensus pattern (42 bp):
AAATAAATAAACAATTAAGCAAGTATAAACAATGAAAATAGA
Found at i:10482266 original size:18 final size:19
Alignment explanation
Indices: 10482245--10482287 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10482235 TAAATGAGCT
10482245 AAAAAAT-AAAATAAAATC
1 AAAAAATAAAAATAAAATC
*
10482263 AAAAAATAAAAATAAAATT
1 AAAAAATAAAAATAAAATC
10482282 AAAAAA
1 AAAAAA
10482288 GGAAATCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATC
Found at i:10483085 original size:27 final size:27
Alignment explanation
Indices: 10483048--10483102 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
10483038 AAAAAGAAAG
* * *
10483048 AAAATAAAAATAATGATAATGATAATA
1 AAAATAAAAATAATAACAATAATAATA
10483075 AAAATAAAAATAATAACAATAATAATA
1 AAAATAAAAATAATAACAATAATAATA
10483102 A
1 A
10483103 TGATGATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (27 bp):
AAAATAAAAATAATAACAATAATAATA
Found at i:10483103 original size:6 final size:6
Alignment explanation
Indices: 10483050--10483103 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
10483040 AAAGAAAGAA
* * * * * *
10483050 AATAAA AATAAT GATAAT GATAAT AAAAAT AAAAAT AATAAC AATAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
10483098 AATAAT
1 AATAAT
10483104 GATGATGATG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (6 bp):
AATAAT
Found at i:10483108 original size:3 final size:3
Alignment explanation
Indices: 10483102--10483133 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10483092 AATAATAATA
10483102 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
10483134 ATATAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:10483185 original size:5 final size:5
Alignment explanation
Indices: 10483172--10483211 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
10483162 ATTACTATGT
* * *
10483172 TAATA TACTA TACTC TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
10483212 GTACTAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:10485099 original size:10 final size:10
Alignment explanation
Indices: 10485084--10485109 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10485074 GTTAGGACAT
10485084 TGCTTGCATG
1 TGCTTGCATG
10485094 TGCTTGCATG
1 TGCTTGCATG
10485104 TGCTTG
1 TGCTTG
10485110 GATGCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.19, G:0.31, T:0.42
Consensus pattern (10 bp):
TGCTTGCATG
Found at i:10486369 original size:12 final size:12
Alignment explanation
Indices: 10486352--10486376 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10486342 TCAGGTTAGC
10486352 TTTTTTGTTTTT
1 TTTTTTGTTTTT
10486364 TTTTTTGTTTTT
1 TTTTTTGTTTTT
10486376 T
1 T
10486377 CCCATACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:10487508 original size:2 final size:2
Alignment explanation
Indices: 10487503--10487540 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10487493 TCCTTAGAAA
10487503 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10487541 TTGTTTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10487555 original size:6 final size:6
Alignment explanation
Indices: 10487546--10487597 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
10487536 TCTCTTTGTT
* * * * * *
10487546 TGTGTG TGTGTG TATGTG AGTGTG AGTGTG AGTGTG TGAGTG TGTGAG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
10487594 TGTG
1 TGTG
10487598 ACGGTTAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (6 bp):
TGTGTG
Found at i:10487557 original size:8 final size:8
Alignment explanation
Indices: 10487549--10487597 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
10487539 CTTTGTTTGT
*
10487549 GTGTGTGT
1 GTGTGTGA
*
10487557 GTATGTGA
1 GTGTGTGA
10487565 G--TGTGA
1 GTGTGTGA
10487571 GT--GTGA
1 GTGTGTGA
10487577 GTGTGTGA
1 GTGTGTGA
10487585 GTGTGTGA
1 GTGTGTGA
10487593 GTGTG
1 GTGTG
10487598 ACGGTTAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 12 0.33
8 24 0.67
ACGTcount: A:0.12, C:0.00, G:0.49, T:0.39
Consensus pattern (8 bp):
GTGTGTGA
Found at i:10487598 original size:14 final size:14
Alignment explanation
Indices: 10487546--10487598 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
10487536 TCTCTTTGTT
* * *
10487546 TGTGTGTGTGTGTA
1 TGTGAGTGTGAGTG
10487560 TGTGAGTGTGAGTG
1 TGTGAGTGTGAGTG
* *
10487574 TGAGTGTGTGAGTG
1 TGTGAGTGTGAGTG
10487588 TGTGAGTGTGA
1 TGTGAGTGTGA
10487599 CGGTTAACTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.40
Consensus pattern (14 bp):
TGTGAGTGTGAGTG
Found at i:10488361 original size:18 final size:18
Alignment explanation
Indices: 10488338--10488381 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
10488328 GAAAATATAC
*
10488338 CAAAAATAATACAAAATA
1 CAAAAATAATACAAAACA
* *
10488356 CAAAAAAAATGCAAAACA
1 CAAAAATAATACAAAACA
10488374 -AAAAATAA
1 CAAAAATAA
10488382 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.11
Consensus pattern (18 bp):
CAAAAATAATACAAAACA
Found at i:10488396 original size:23 final size:24
Alignment explanation
Indices: 10488350--10488408 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
10488340 AAAATAATAC
*
10488350 AAAATACAAAAAAAATGCAAAACAA
1 AAAATAAAAAAAAAAT-CAAAACAA
* *
10488375 AAAATAAAAAAAAAAT-AGAACAG
1 AAAATAAAAAAAAAATCAAAACAA
*
10488398 AAAACAAAAAA
1 AAAATAAAAAA
10488409 TATCTAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 15 0.50
25 15 0.50
ACGTcount: A:0.80, C:0.08, G:0.05, T:0.07
Consensus pattern (24 bp):
AAAATAAAAAAAAAATCAAAACAA
Found at i:10488714 original size:12 final size:13
Alignment explanation
Indices: 10488692--10488719 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10488682 AGATTCTGCC
10488692 AAAAACAAAAAAA
1 AAAAACAAAAAAA
10488705 AAAAACAAAAAAA
1 AAAAACAAAAAAA
10488718 AA
1 AA
10488720 TCAAATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:10492346 original size:4 final size:4
Alignment explanation
Indices: 10492337--10492370 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
10492327 AATATCCATG
*
10492337 TAAA TAAA TAAA TAAG TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
10492371 TGCATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:10496975 original size:12 final size:12
Alignment explanation
Indices: 10496958--10496989 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
10496948 CGTTGCATGA
10496958 TTAATTATATAT
1 TTAATTATATAT
10496970 TTAATTATATAT
1 TTAATTATATAT
10496982 TTAATTAT
1 TTAATTAT
10496990 TACATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAATTATATAT
Found at i:10498397 original size:44 final size:44
Alignment explanation
Indices: 10498348--10498431 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
10498338 TGCATCCATT
10498348 CATGCAATCATTTATCAATCCATGCATCACTAAATTGTTATTTG
1 CATGCAATCATTTATCAATCCATGCATCACTAAATTGTTATTTG
* * * * * *
10498392 CATGCATTTATTTATCCATTCATGCATCATTAACTTGTTA
1 CATGCAATCATTTATCAATCCATGCATCACTAAATTGTTA
10498432 CTATCACATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (44 bp):
CATGCAATCATTTATCAATCCATGCATCACTAAATTGTTATTTG
Found at i:10499868 original size:2 final size:2
Alignment explanation
Indices: 10499861--10499890 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10499851 AGCCTCCCGC
10499861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10499891 GGCCCTGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10501758 original size:286 final size:289
Alignment explanation
Indices: 10500871--10502026 Score: 2264
Period size: 289 Copynumber: 4.0 Consensus size: 289
10500861 AAATTTCTAG
10500871 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
1 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
10500936 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTTAATTT
66 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGA-TTTAATTT
10501001 GCTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTAT
130 GCTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTAT
10501066 GAATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTT
195 GAATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTT
10501131 CATAAAATACTTAATAAATCTGATGACGGA
260 CATAAAATACTTAATAAATCTGATGACGGA
*
10501161 GTGAAAGAACTTTTTCTGAATTCGATTAAGATGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
1 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
10501226 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTAATTTG
66 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTAATTTG
10501291 CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
131 CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
10501356 AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
196 AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
10501421 ATAAAATACTTAATAAATCTGATGACGGA
261 ATAAAATACTTAATAAATCTGATGACGGA
10501450 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGA-TTAGAAATTGGTCTCAATATAAG
1 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
10501514 AATTTTTATTATTTTTAATTTG-AAAAAAATTAAAA-TGAGAATAAATTATGGTGATTTAATTTG
66 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTAATTTG
10501577 CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
131 CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
10501642 AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
196 AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
10501707 ATAAAATACTTAATAAATCTGATGACGGA
261 ATAAAATACTTAATAAATCTGATGACGGA
*
10501736 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATCGGTCTCAATATAAG
1 GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
10501801 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTAATTTG
66 AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTAATTTG
10501866 CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
131 CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
10501931 AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
196 AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
10501996 ATAAAATACTTAATAAATCTGATGACGGA
261 ATAAAATACTTAATAAATCTGATGACGGA
10502025 GT
1 GT
10502027 ATTTTCAAGA
Statistics
Matches: 860, Mismatches: 3, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
286 228 0.27
287 57 0.07
288 58 0.07
289 397 0.46
290 120 0.14
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (289 bp):
GTGAAAGAACTTTTTCTGAATTCGATTAAGAGGTTGGAAGATTTAGAAATTGGTCTCAATATAAG
AATTTTTATTATTTTTAATTTGAAAAAAAATTAAAATTGAGAATAAATTATGGTGATTTAATTTG
CTTGCATGATTAATTAGATATTAAATTTTGTTTTTAATTATGTATTTGATTATTACATTATTATG
AATTTGACCATATATTTAATATTGTATTTGCTTATGTATTTTGTATATAATTAACTTTTTTTTTC
ATAAAATACTTAATAAATCTGATGACGGA
Found at i:10504131 original size:39 final size:39
Alignment explanation
Indices: 10504088--10504211 Score: 117
Period size: 39 Copynumber: 3.1 Consensus size: 39
10504078 TAAACTCTTC
10504088 AATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCT
1 AATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCT
* * * * * * *
10504127 AATAGATTAGTAGGA-TTAGTTTCAAAAATTGTTAAACTCTCT
1 AATAGTTTGGTAAGATTTAATTT--GAGA-T-TTAAATTCTCT
*
10504169 AATAGTTTGGTAA-AGTTTGATTTGAGATTTAAATTCTCT
1 AATAGTTTGGTAAGA-TTTAATTTGAGATTTAAATTCTCT
10504208 AATA
1 AATA
10504212 ATTTAGAGGG
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
38 6 0.09
39 26 0.41
40 3 0.05
41 4 0.06
42 20 0.31
43 5 0.08
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.43
Consensus pattern (39 bp):
AATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCT
Found at i:10504137 original size:81 final size:79
Alignment explanation
Indices: 10504003--10504225 Score: 263
Period size: 81 Copynumber: 2.7 Consensus size: 79
10503993 CATCAAATTT
* * * * *
10504003 TCTAATAGTTTAGTAAAATCTTATTTGAAAATTTAAATCCTCTAAAAAATTAGTATGATT-GATT
1 TCTAATAGTTTGGT-AAAT-TTATTTG-AGATTTAAATTCTCTAATAAATTAGTAGGATTAG-TT
10504067 TCAAAAATTATTAAACTC
62 TCAAAAATTATTAAACTC
*
10504085 T-TCAATAGTTTGGTAAGATTTAATTTGAGATTTAAATTCTCTAATAGATTAGTAGGATTAGTTT
1 TCT-AATAGTTTGGTAA-ATTT-ATTTGAGATTTAAATTCTCTAATAAATTAGTAGGATTAGTTT
*
10504149 CAAAAATTGTTAAACTC
63 CAAAAATTATTAAACTC
*
10504166 TCTAATAGTTTGGTAAAGTTTGATTTGAGATTTAAATTCTCTAATAATTTAG-AGGGATTA
1 TCTAATAGTTTGGTAAA-TTT-ATTTGAGATTTAAATTCTCTAATAAATTAGTA-GGATTA
10504226 AAAAATATTT
Statistics
Matches: 124, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
80 2 0.02
81 102 0.82
82 20 0.16
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (79 bp):
TCTAATAGTTTGGTAAATTTATTTGAGATTTAAATTCTCTAATAAATTAGTAGGATTAGTTTCAA
AAATTATTAAACTC
Found at i:10506100 original size:22 final size:22
Alignment explanation
Indices: 10505966--10506100 Score: 68
Period size: 21 Copynumber: 6.2 Consensus size: 22
10505956 TTTGTTAGTT
*
10505966 ATTCACATTC-AAAA-TTCAAAG
1 ATTCACA-TCAAAAATTTCAAGG
* * *
10505987 ATTCAAATTTAAAAATTT-AGGG
1 ATTCACA-TCAAAAATTTCAAGG
10506009 ATTCACATCAAAAATTTCAAGG
1 ATTCACATCAAAAATTTCAAGG
* * *
10506031 -TTCACCTCCAAAA-TTCAAAG
1 ATTCACATCAAAAATTTCAAGG
** *
10506051 ATTTTCATTCAAAAAAATTT--AGAA
1 ATTCACA-TC--AAAAATTTCAAG-G
*
10506075 ATTCACATCCAAAATTTCAAGG
1 ATTCACATCAAAAATTTCAAGG
10506097 ATTC
1 ATTC
10506101 TCAGTTTAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
20 6 0.07
21 38 0.46
22 21 0.25
23 7 0.08
24 9 0.11
25 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.31
Consensus pattern (22 bp):
ATTCACATCAAAAATTTCAAGG
Found at i:10508191 original size:21 final size:21
Alignment explanation
Indices: 10508162--10508207 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10508152 TAACTATTTG
* *
10508162 TGTTGTTTTCTATATAGATTA
1 TGTTATTTTCTATATAGATCA
* *
10508183 TGTTATTTTTTATATATATCA
1 TGTTATTTTCTATATAGATCA
10508204 TGTT
1 TGTT
10508208 TACTAACCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (21 bp):
TGTTATTTTCTATATAGATCA
Found at i:10508284 original size:20 final size:20
Alignment explanation
Indices: 10508259--10508306 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
10508249 ATCTTATTGT
10508259 ATTCATGCATACATGCATTA
1 ATTCATGCATACATGCATTA
10508279 ATTCATGCATACATGCATTA
1 ATTCATGCATACATGCATTA
10508299 ATTCATGC
1 ATTCATGC
10508307 CTTCATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ATTCATGCATACATGCATTA
Found at i:10508287 original size:12 final size:12
Alignment explanation
Indices: 10508270--10508322 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
10508260 TTCATGCATA
10508270 CATGCATTAATT
1 CATGCATTAATT
10508282 CATGCA-T-A--
1 CATGCATTAATT
10508290 CATGCATTAATT
1 CATGCATTAATT
* *
10508302 CATGCCTTCATT
1 CATGCATTAATT
*
10508314 TATGCATTA
1 CATGCATTA
10508323 CACCAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
8 6 0.19
9 1 0.03
10 2 0.06
11 1 0.03
12 22 0.69
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (12 bp):
CATGCATTAATT
Found at i:10508810 original size:13 final size:14
Alignment explanation
Indices: 10508792--10508820 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10508782 TTCTTATTGT
10508792 TACATGTA-TTGCA
1 TACATGTATTTGCA
10508805 TACATGTATTTGCA
1 TACATGTATTTGCA
10508819 TA
1 TA
10508821 TATATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (14 bp):
TACATGTATTTGCA
Found at i:10509169 original size:14 final size:15
Alignment explanation
Indices: 10509150--10509178 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10509140 GAGTAATGAA
10509150 GTTTG-AAAATTCTT
1 GTTTGAAAAATTCTT
10509164 GTTTGAAAAATTCTT
1 GTTTGAAAAATTCTT
10509179 TGTAAGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
GTTTGAAAAATTCTT
Found at i:10511655 original size:24 final size:22
Alignment explanation
Indices: 10511597--10511658 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
10511587 TTTCAAATGA
* *
10511597 GAATCTTTGAAATTTTGGATGG
1 GAATTTTTGAAATTTTGGAAGG
* * *
10511619 GAATTCTTAAAATTTTGTGAAAGT
1 GAATTTTTGAAATTTTG-G-AAGG
10511643 GAATTTTTGAAATTTT
1 GAATTTTTGAAATTTT
10511659 TGATGTGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 14 0.45
23 1 0.03
24 16 0.52
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (22 bp):
GAATTTTTGAAATTTTGGAAGG
Found at i:10511698 original size:46 final size:46
Alignment explanation
Indices: 10511581--10511699 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 46
10511571 GTGAATCTCT
* **
10511581 AAATATTTTCAAATGAGAATCTTTGAAATTTTGGATGGGAATTCTTA
1 AAAT-TTTTCAAATGAGAATATTTGAAATTTTGGATGGGAAACCTTA
* * * * * *
10511628 AAATTTTGTGAAA-GTGAATTTTTGAAATTTTTGATGTGAAACCTTG
1 AAATTTT-TCAAATGAGAATATTTGAAATTTTGGATGGGAAACCTTA
*
10511674 AAATTTTTTAAATGAGAATATTTGAA
1 AAATTTTTCAAATGAGAATATTTGAA
10511700 TTATGGAGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
45 4 0.07
46 47 0.80
47 8 0.14
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (46 bp):
AAATTTTTCAAATGAGAATATTTGAAATTTTGGATGGGAAACCTTA
Found at i:10511906 original size:17 final size:17
Alignment explanation
Indices: 10511886--10511981 Score: 97
Period size: 17 Copynumber: 5.6 Consensus size: 17
10511876 TTTTTATAAT
*
10511886 CTTAAATTCTTACGAAC
1 CTTAAATTCTTACAAAC
* *
10511903 CTTAAATTCTTGCAAAT
1 CTTAAATTCTTACAAAC
*
10511920 CTTAAATTGTTACAAAC
1 CTTAAATTCTTACAAAC
* *
10511937 CTTAAATTTTTAAAAAC
1 CTTAAATTCTTACAAAC
*
10511954 C-TAAAGCTCTTACAAAC
1 CTTAAA-TTCTTACAAAC
10511971 C-TAAAGTTCTT
1 CTTAAA-TTCTT
10511982 GTGAATCTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
16 4 0.06
17 62 0.94
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (17 bp):
CTTAAATTCTTACAAAC
Found at i:10511910 original size:34 final size:33
Alignment explanation
Indices: 10511872--10511972 Score: 103
Period size: 34 Copynumber: 3.0 Consensus size: 33
10511862 GTGAATCTGA
* *
10511872 AAATTTTTTATAATCTTAAATTCTTACGAACCTT
1 AAATTTTTCA-AATCTTAAATTCTTACAAACCTT
* *
10511906 AAATTCTTGCAAATCTTAAATTGTTACAAACCTT
1 AAATT-TTTCAAATCTTAAATTCTTACAAACCTT
* * * *
10511940 AAATTTTTAAAAACCTAAAGCTCTTACAAACCT
1 AAATTTTTCAAATCTTAAA-TTCTTACAAACCT
10511973 AAAGTTCTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
33 10 0.18
34 42 0.76
35 3 0.05
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (33 bp):
AAATTTTTCAAATCTTAAATTCTTACAAACCTT
Found at i:10511991 original size:17 final size:17
Alignment explanation
Indices: 10511971--10512004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10511961 TCTTACAAAC
* *
10511971 CTAAAGTTCTTGTGAAT
1 CTAAAGATCTTGCGAAT
10511988 CTAAAGATCTTGCGAAT
1 CTAAAGATCTTGCGAAT
10512005 ATTTGAAGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (17 bp):
CTAAAGATCTTGCGAAT
Found at i:10512049 original size:18 final size:17
Alignment explanation
Indices: 10512026--10512085 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
10512016 TGCGAATTCG
10512026 AATTCTTATGAATCTGAA
1 AATTCTTATGAATCTG-A
10512044 AATTCTTATGAATCTTTG-
1 AATTCTTATGAATC--TGA
*
10512062 AATTCTTATGAAACTGA
1 AATTCTTATGAATCTGA
10512079 AATTCTT
1 AATTCTT
10512086 GCGAATCTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.05
17 7 0.18
18 27 0.71
20 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (17 bp):
AATTCTTATGAATCTGA
Found at i:10512068 original size:9 final size:10
Alignment explanation
Indices: 10512025--10512073 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
10512015 GTGCGAATTC
10512025 GAATTCTTAT
1 GAATTCTTAT
*
10512035 GAA-TCTGA-
1 GAATTCTTAT
*
10512043 AAATTCTTAT
1 GAATTCTTAT
10512053 GAA-TCTT-T
1 GAATTCTTAT
10512061 GAATTCTTAT
1 GAATTCTTAT
10512071 GAA
1 GAA
10512074 ACTGAAATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
8 6 0.19
9 16 0.52
10 9 0.29
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (10 bp):
GAATTCTTAT
Found at i:10512115 original size:35 final size:34
Alignment explanation
Indices: 10512072--10512138 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
10512062 AATTCTTATG
* * *
10512072 AAACTGAAATTCTTGCGAATCTGGAACTTCTGTA
1 AAACTGAAATTCTTGCAAATCTGAAACCTCTGTA
*
10512106 AAACATGAAATTTTTGCAAATCTGAAACCTCTG
1 AAAC-TGAAATTCTTGCAAATCTGAAACCTCTG
10512139 CGAAACTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (34 bp):
AAACTGAAATTCTTGCAAATCTGAAACCTCTGTA
Found at i:10512168 original size:17 final size:17
Alignment explanation
Indices: 10512146--10512191 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10512136 CTGCGAAACT
**
10512146 TGGAATCTTTGTGAATC
1 TGGAATCTTTAAGAATC
10512163 TGGAATCTTTAAGAATC
1 TGGAATCTTTAAGAATC
*
10512180 TTGAATCATTTA
1 TGGAATC-TTTA
10512192 CAAACTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (17 bp):
TGGAATCTTTAAGAATC
Found at i:10519907 original size:81 final size:81
Alignment explanation
Indices: 10519670--10519898 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 81
10519660 TTTGTCTTAG
* * *
10519670 AAAAAATTAATAAA-TCTTTCAATAGTTTGGTAAGATTTAATTTTAAGATTTAAATCCTCCAGTA
1 AAAAAATTAATAAACTCTCT-AATAGTTTGGTAAGATTTAA-TTTGAGATTTAAATCCTCCAATA
* *
10519734 ATTTAGTAGGATTGATTT
64 GTTTAGTAAGATTGATTT
* * * * *
10519752 AAAAAA-TAATTAAACCCTCCAATAGTTTAGTAAGTTTTAATTTGATATTTAAATCCTCCAATAG
1 AAAAAATTAA-TAAACTCTCTAATAGTTTGGTAAGATTTAATTTGAGATTTAAATCCTCCAATAG
10519816 TTTAGTAAGATT-AGTTT
65 TTTAGTAAGATTGA-TTT
* **
10519833 AAAAAATTAATAAACTCTCTAATAGTTTGGTAAGGTTTAATTTGAGATTTAAATCCTTTAATAGT
1 AAAAAATTAATAAACTCTCTAATAGTTTGGTAAGATTTAATTTGAGATTTAAATCCTCCAATAGT
10519898 T
66 T
10519899 CGATAAGATA
Statistics
Matches: 126, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 92 0.73
82 31 0.25
83 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (81 bp):
AAAAAATTAATAAACTCTCTAATAGTTTGGTAAGATTTAATTTGAGATTTAAATCCTCCAATAGT
TTAGTAAGATTGATTT
Found at i:10520050 original size:3 final size:3
Alignment explanation
Indices: 10520042--10520093 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
10520032 TTTCAACAAG
10520042 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10520090 -TT AT
1 ATT AT
10520094 ATTTTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10521477 original size:26 final size:26
Alignment explanation
Indices: 10521441--10521510 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
10521431 GTGAACAAAG
*
10521441 ATAAAAGATAAATAAAATAATAAAAAA
1 ATAAAA-ATAAATAAAATAAGAAAAAA
**
10521468 ATAAAAATAAA-AAAGATAAGGTAAAA
1 ATAAAAATAAATAAA-ATAAGAAAAAA
10521494 ATAAAAATCAAATAAAA
1 ATAAAAAT-AAATAAAA
10521511 AAATCCCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 3 0.08
26 21 0.57
27 10 0.27
28 3 0.08
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (26 bp):
ATAAAAATAAATAAAATAAGAAAAAA
Found at i:10522744 original size:89 final size:87
Alignment explanation
Indices: 10522550--10522839 Score: 224
Period size: 88 Copynumber: 3.3 Consensus size: 87
10522540 ATATAATTTC
* * * *
10522550 AACAAAGATTACATTTTAAAGATTAAAAACATAGTTTTTGTTAAAAATATATTATAAAAAATTAT
1 AACAATGATTACATTTTTAAGATTAAAAACACAG--TTTATTAAAAATATATTATAAAAAATTAT
* *
10522615 TTTTTCTATTAGCTCTTAGTTTTC
64 TTTTTCTATTAGCTCTTAGGTTTA
* * *
10522639 AATAATGACTATATTTTTAAGATTAAAAACACAG-TTATTAAAAATATATTA-ACCAAAAATTTA
1 AACAATGATTACATTTTTAAGATTAAAAACACAGTTTATTAAAAATATATTATA--AAAAA-TTA
* *
10522702 TTTTTTCTTTTAGTTCTTAGGTTTA
63 TTTTTTCTATTAGCTCTTAGGTTTA
* * * * *
10522727 AACAACT-ATTACGA-TTTTATGATT-AAACCGTA-ATTTCTATTGAAAATATATTATAAAAATT
1 AACAA-TGATTAC-ATTTTTAAGATTAAAAAC--ACAGTT-TATTAAAAATATATTATAAAAAAT
* *
10522788 TATTTTTAT-TATT---TCTTAGATTTC
61 TATTTTT-TCTATTAGCTCTTAGGTTTA
* *
10522812 AACAAAGATTACATTTTTAA-AATAAAAA
1 AACAATGATTACATTTTTAAGATTAAAAA
10522840 GGTAATCTTT
Statistics
Matches: 161, Mismatches: 26, Indels: 32
0.74 0.12 0.15
Matches are distributed among these distances:
84 3 0.02
85 28 0.17
86 16 0.10
87 9 0.06
88 52 0.32
89 37 0.23
90 15 0.09
91 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (87 bp):
AACAATGATTACATTTTTAAGATTAAAAACACAGTTTATTAAAAATATATTATAAAAAATTATTT
TTTCTATTAGCTCTTAGGTTTA
Found at i:10523054 original size:37 final size:38
Alignment explanation
Indices: 10523005--10523085 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
10522995 TAGAATAAAA
* *
10523005 ATAAAA-CATAAAATATCA-TTATTTAATATTATTACAT
1 ATAAAATCATAAAATA-CATTTACTTAACATTATTACAT
10523042 ATAAAATC-TAAAATACATTTACTTAACATTATTACAT
1 ATAAAATCATAAAATACATTTACTTAACATTATTACAT
*
10523079 ATCAAAT
1 ATAAAAT
10523086 TTGTTGCCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 2 0.05
37 36 0.92
38 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (38 bp):
ATAAAATCATAAAATACATTTACTTAACATTATTACAT
Found at i:10523583 original size:18 final size:18
Alignment explanation
Indices: 10523542--10523601 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
10523532 GTGTTTTTTT
*
10523542 ATATGTCACATGTTA-TG
1 ATATGTCACATGTTATTC
10523559 A-ATGTCACATGTTATTC
1 ATATGTCACATGTTATTC
*
10523576 ATATGTCACATGCTATTC
1 ATATGTCACATGTTATTC
*
10523594 ATGTGTCA
1 ATATGTCA
10523602 TCAAGGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.34
17 3 0.08
18 22 0.58
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (18 bp):
ATATGTCACATGTTATTC
Found at i:10529078 original size:25 final size:25
Alignment explanation
Indices: 10529025--10529078 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10529015 TATAGTTTTT
* *
10529025 AACAAAAATTAAGTTTTATAGTTTC
1 AACAAAAATTAAGTTTTATAGATTA
*
10529050 AACAAAAATTACATTTTTA-AGATTA
1 AACAAAAATTA-AGTTTTATAGATTA
10529075 AACA
1 AACA
10529079 CGTAGTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (25 bp):
AACAAAAATTAAGTTTTATAGATTA
Found at i:10529110 original size:15 final size:15
Alignment explanation
Indices: 10529086--10529118 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10529076 ACACGTAGTC
*
10529086 TTTATTAAAAATATA
1 TTTATAAAAAATATA
10529101 TTTATAAAAAATATA
1 TTTATAAAAAATATA
10529116 TTT
1 TTT
10529119 TTTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTATAAAAAATATA
Found at i:10529247 original size:90 final size:89
Alignment explanation
Indices: 10529045--10529346 Score: 272
Period size: 90 Copynumber: 3.4 Consensus size: 89
10529035 AAGTTTTATA
* * * * * *
10529045 GTTTCAACAAAAATTACATTTTTAAGATTAAACACGTAGTCTTTATTAAAAATATATTTATAAAA
1 GTTTCAACAAAAATTACATTTTTAAGATTAAAAATGTAGTTTTTATTGAAAATATATTAAAAAAA
* *
10529110 AATATATTTTTTCTTTTAGCTCTTAG
66 AAT-TA-TTTTTCTTTTAGCTTTTGG
* ** * * **
10529136 GTTTCAAC-AAAACTATGTTTTTAAGATTAAAAATGTAGTTTTTGTTGAAAATATCTTAACGGAA
1 GTTTCAACAAAAATTACATTTTTAAGATTAAAAATGTAGTTTTTATTGAAAATATATTAA-AAAA
*
10529200 AACTTATTTTTCTTTTAGCTTTTGG
65 AAATTATTTTTCTTTTAGCTTTTGG
* * ** * * * *
10529225 GTTTTAACAAAAATTACATTTTTTATCTTAAAAATATAATTTTTTTTGAAAATATATTATAAAAA
1 GTTTCAACAAAAATTACATTTTTAAGATTAAAAATGTAGTTTTTATTGAAAATATATTAAAAAAA
*
10529290 AATT-TATTTT-TATTA-CTTATTGG
66 AATTAT-TTTTCTTTTAGCTT-TTGG
* * *
10529313 GTCTCAACAAAGATTATATTTTTAAGA-TAAAAAT
1 GTTTCAACAAAAATTACATTTTTAAGATTAAAAAT
10529347 ATAATATTTG
Statistics
Matches: 169, Mismatches: 38, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
87 10 0.06
88 29 0.17
89 34 0.20
90 83 0.49
91 13 0.08
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (89 bp):
GTTTCAACAAAAATTACATTTTTAAGATTAAAAATGTAGTTTTTATTGAAAATATATTAAAAAAA
AATTATTTTTCTTTTAGCTTTTGG
Found at i:10531039 original size:17 final size:17
Alignment explanation
Indices: 10531017--10531049 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10531007 ACAAAAGTTT
*
10531017 TTTTTTTTTTGTCTTTG
1 TTTTTTTTTTCTCTTTG
10531034 TTTTTTTTTTCTCTTT
1 TTTTTTTTTTCTCTTT
10531050 CTTCTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTTCTCTTTG
Found at i:10531159 original size:217 final size:220
Alignment explanation
Indices: 10530767--10531191 Score: 535
Period size: 217 Copynumber: 1.9 Consensus size: 220
10530757 TAAAAGACTT
* *
10530767 AAGTTCAAGTTGCTTGCTTTACAAAAGTTTTTTTTTTTTTGTCACTGTTTCTCTTTCTTTCTCTT
1 AAGTTCAAGTTGCTTACTCTACAAAAGTTTTTTTTTTTTTGTCACTGTTTCTCTTTCTTTCTCTT
* * * *** *
10530832 TCTTCTCACTTTCCTCTCTGATCTTCCCTTTTCTTTTATCTTATTTCCCTTTATTGTTAATGCTT
66 TCTTCTCACTTTCCTATATGATCTTCCATTTTCCCATATCTTATTTCCCTTGATTGTTAATGCTT
* * ** *
10530897 GCTAGCTTCCTTCTTCTATTATACTACATGGGACTTAAGTTTTTTTTTTGTCT-CCATTTCTCTT
131 GCTAGCTTCCTTCTTCTATTACACCACATGCAACTTAAGTTTTTTTTTTAT-TGCCATTTCTCTT
*
10530961 TCTTTCTCTTTCTTTTCACTTTCTTC
195 TCCTTCTCTTTCTTTTCACTTTCTTC
**
10530987 AAGTTCAAGTTGCTTACTCTACAAAAGTTTTTTTTTTTTTGTCTTTGTTT-T-TTT-TTTCTCTT
1 AAGTTCAAGTTGCTTACTCTACAAAAGTTTTTTTTTTTTTGTCACTGTTTCTCTTTCTTTCTCTT
* * *
10531049 TCTTCTCACTTTCCTATATGATCTT-CATTTCTCCCATCTCTTATTT-TCTCTGCTTGTTAATGC
66 TCTTCTCACTTTCCTATATGATCTTCCATTT-TCCCATATCTTATTTCCCT-TGATTGTTAATGC
* *
10531112 TTGCTAGC-TCATT-TCTCATATTGCACCACATGCAACTTTAA-TTTTTTTTTTATTGCCATTTC
129 TTGCTAGCTTCCTTCT-TC-TATTACACCACATGCAAC-TTAAGTTTTTTTTTTATTGCCATTTC
10531174 TCTTTCCTTCTCTTTCTT
191 TCTTTCCTTCTCTTTCTT
10531192 CTTGCTTTCC
Statistics
Matches: 177, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
215 1 0.01
216 13 0.07
217 109 0.62
218 7 0.04
219 1 0.01
220 46 0.26
ACGTcount: A:0.14, C:0.23, G:0.08, T:0.56
Consensus pattern (220 bp):
AAGTTCAAGTTGCTTACTCTACAAAAGTTTTTTTTTTTTTGTCACTGTTTCTCTTTCTTTCTCTT
TCTTCTCACTTTCCTATATGATCTTCCATTTTCCCATATCTTATTTCCCTTGATTGTTAATGCTT
GCTAGCTTCCTTCTTCTATTACACCACATGCAACTTAAGTTTTTTTTTTATTGCCATTTCTCTTT
CCTTCTCTTTCTTTTCACTTTCTTC
Found at i:10532331 original size:23 final size:21
Alignment explanation
Indices: 10532293--10532339 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
10532283 TCATATTTAT
10532293 TTATTTAAATTAT-AAATATTA
1 TTATTTAAATTATAAAATA-TA
*
10532314 TTATATTAACATTTTAAAATATA
1 TTAT-TTAA-ATTATAAAATATA
10532337 TTA
1 TTA
10532340 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
23 9 0.41
24 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTTAAATTATAAAATATA
Found at i:10542775 original size:35 final size:35
Alignment explanation
Indices: 10542729--10542851 Score: 180
Period size: 35 Copynumber: 3.6 Consensus size: 35
10542719 GTGTATTTGT
10542729 ATTTTAAGAAAAGACATTTGTATTTCATGTGCATC
1 ATTTTAAGAAAAGACATTTGTATTTCATGTGCATC
* *
10542764 ATTTTAGGAAAAGATATTTGTATTTCATGTGCATC
1 ATTTTAAGAAAAGACATTTGTATTTCATGTGCATC
* *
10542799 ATTTTAAGAAAAGACATTTATATTTGCA--T-CCTC
1 ATTTTAAGAAAAGACATTTGTATTT-CATGTGCATC
10542832 ATTTTAAGAAAAGACATTTG
1 ATTTTAAGAAAAGACATTTG
10542852 CATCATAATG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
33 22 0.28
34 1 0.01
35 55 0.69
36 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (35 bp):
ATTTTAAGAAAAGACATTTGTATTTCATGTGCATC
Found at i:10543350 original size:48 final size:47
Alignment explanation
Indices: 10543290--10543456 Score: 206
Period size: 48 Copynumber: 3.6 Consensus size: 47
10543280 AAGGTTTGAA
10543290 TTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGAATTTGCAT
1 TTGCATC-TCTCGATGGTGATATCCGAGTTTAAAATTTGAATTTGCAT
*
10543338 TTGCATTCTCTCGATGGT-ATATCTGAGTATTAAAATTTGAA-TTGCA-
1 TTGCA-TCTCTCGATGGTGATATCCGAGT-TTAAAATTTGAATTTGCAT
*
10543384 -T-C-T-TCTCGAT-GTGATATCCGAGTTTAAAGTTTGAATTTGCAT
1 TTGCATCTCTCGATGGTGATATCCGAGTTTAAAATTTGAATTTGCAT
* *
10543426 TTGCATTCTCTCAATGGTGATATTCGAGTTT
1 TTGCA-TCTCTCGATGGTGATATCCGAGTTT
10543457 TCTTCGGTGG
Statistics
Matches: 103, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
40 13 0.13
41 21 0.20
42 1 0.01
43 1 0.01
44 2 0.02
45 1 0.01
46 1 0.01
47 20 0.19
48 41 0.40
49 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (47 bp):
TTGCATCTCTCGATGGTGATATCCGAGTTTAAAATTTGAATTTGCAT
Found at i:10543391 original size:41 final size:42
Alignment explanation
Indices: 10543246--10543425 Score: 179
Period size: 41 Copynumber: 4.2 Consensus size: 42
10543236 AAAAAGGGTT
* * * * * **
10543246 ATTTGCATCTTTTTGGTGGTTATATCTGAGTGTTAAGGTTTGA
1 ATTTGCATCTTCTCGATGGTGATATCCGAGT-TTAAAATTTGA
10543289 A-TTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGA
1 ATTTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGA
*
10543330 ATTTGCATTTGCATTCTCTCGATGGT-ATATCTGAGTATTAAAATTTGA
1 ATTTGCA--T-C--T-TCTCGATGGTGATATCCGAGT-TTAAAATTTGA
*
10543378 A-TTGCATCTTCTCGAT-GTGATATCCGAGTTTAAAGTTTGA
1 ATTTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGA
10543418 ATTTGCAT
1 ATTTGCAT
10543426 TTGCATTCTC
Statistics
Matches: 117, Mismatches: 10, Indels: 22
0.79 0.07 0.15
Matches are distributed among these distances:
40 13 0.11
41 32 0.27
42 30 0.26
43 1 0.01
44 2 0.02
45 2 0.02
47 15 0.13
48 22 0.19
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (42 bp):
ATTTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGA
Found at i:10543427 original size:88 final size:89
Alignment explanation
Indices: 10543266--10543448 Score: 305
Period size: 88 Copynumber: 2.1 Consensus size: 89
10543256 TTTTGGTGGT
* **
10543266 TATATCTGAGTGTTAAGGTTTGAATTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGAA
1 TATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGAA
*
10543331 TTTGCATTTGCATTCTCTCGATGG
66 TTTGCATTTGCATTCTCTCAATGG
*
10543355 TATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGAT-GTGATATCCGAGTTTAAAGTTTGAA
1 TATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGAA
10543419 TTTGCATTTGCATTCTCTCAATGG
66 TTTGCATTTGCATTCTCTCAATGG
10543443 TGATAT
1 T-ATAT
10543449 TCGAGTTTTC
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 48 0.55
89 40 0.45
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (89 bp):
TATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGATATCCGAGTTTAAAATTTGAA
TTTGCATTTGCATTCTCTCAATGG
Found at i:10543663 original size:42 final size:43
Alignment explanation
Indices: 10543575--10543674 Score: 148
Period size: 42 Copynumber: 2.3 Consensus size: 43
10543565 TCAAAATCAC
*
10543575 TCAGTGGTGATATTCGAGTATTAAAAAAAAATCATTTGCATCTTT
1 TCAGTGGTGATATTCGAGTATT--AAAAAAATCATTTGAATCTTT
*
10543620 TCAGTGGTGATATTCGAGTATT-AAAAAATCATTTGAATTTTT
1 TCAGTGGTGATATTCGAGTATTAAAAAAATCATTTGAATCTTT
*
10543662 TCGGTGGTGATAT
1 TCAGTGGTGATAT
10543675 CCGAAGTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
42 30 0.58
45 22 0.42
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (43 bp):
TCAGTGGTGATATTCGAGTATTAAAAAAATCATTTGAATCTTT
Found at i:10543834 original size:49 final size:49
Alignment explanation
Indices: 10543761--10544183 Score: 516
Period size: 49 Copynumber: 8.7 Consensus size: 49
10543751 TCAATAGTTT
* * *
10543761 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCATTTCCAAGATGAG
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* * * *
10543810 AAATTTAAAGTTGTTGAACTTCTGCTTAAAGAAGCTTTTTCAAGATGA-
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* *
10543858 ATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAG
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* * * *
10543907 AAATTTAAAGTTGTTGAACTTCTGCTTAAAGGAACTTTTTCAAGATGA-
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* * *
10543955 ATTTTTAAAGTTGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATGAG
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* * *
10544004 AATTTTAAAGTTGTT-AAGCCTCTACTTAAATGAGCTTTTTCAAGATGAG
1 AATTTTAAAGTTGTTGAA-CCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* * **
10544053 AATTTTAAAGTTGTTAAACCTCTACTTAGAAAAGCTTTTTCAAGATGA-
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
* * ** * *
10544101 ATTTTTAAAGTTATTGAGTCTCTGCTTAGATGAGCCTTTTTTAAGATGA-
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAG-CTTTTTCAAGATGAG
*
10544150 AATTTT-AAGTTGTTGAATCTCTGCTTAGAGGAGC
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGC
10544184 CATTTATATT
Statistics
Matches: 323, Mismatches: 46, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.00
48 135 0.42
49 185 0.57
50 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (49 bp):
AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCAAGATGAG
Found at i:10543880 original size:97 final size:97
Alignment explanation
Indices: 10543761--10544183 Score: 566
Period size: 97 Copynumber: 4.4 Consensus size: 97
10543751 TCAATAGTTT
* *
10543761 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCATTTCCAAGATGAGAAATTTAAAGTTGTTG
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAGAAATTTAAAGTTGTTG
*
10543826 AACTTCTGCTTAAAGAAGCTTTTTCAAGATGA
66 AACTTCTGCTTAAAGGAGCTTTTTCAAGATGA
*
10543858 ATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAGAAATTTAAAGTTGTTG
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAGAAATTTAAAGTTGTTG
*
10543923 AACTTCTGCTTAAAGGAACTTTTTCAAGATGA
66 AACTTCTGCTTAAAGGAGCTTTTTCAAGATGA
* * *
10543955 ATTTTTAAAGTTGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTT-
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAGAAATTTAAAGTTGTTG
* * *
10544019 AAGCCTCTACTTAAATGAGCTTTTTCAAGATGA
66 AA-CTTCTGCTTAAAGGAGCTTTTTCAAGATGA
* * ** * ** *
10544052 GAATTTTAAAGTTGTTAAACCTCTACTTAGAAAAGCTTTTTCAAGATGA-ATTTTTAAAGTTATT
1 -AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAGAAATTTAAAGTTGTT
* * * *
10544116 G-AGTCTCTGCTTAGATGAGCCTTTTTTAAGATGA
65 GAACT-TCTGCTTAAAGGAG-CTTTTTCAAGATGA
*
10544150 AATTTT-AAGTTGTTGAATCTCTGCTTAGAGGAGC
1 AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGC
10544184 CATTTATATT
Statistics
Matches: 293, Mismatches: 28, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
96 25 0.09
97 212 0.72
98 56 0.19
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (97 bp):
AATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTCCAAGATGAGAAATTTAAAGTTGTTG
AACTTCTGCTTAAAGGAGCTTTTTCAAGATGA
Found at i:10544011 original size:146 final size:145
Alignment explanation
Indices: 10543764--10544183 Score: 515
Period size: 146 Copynumber: 2.9 Consensus size: 145
10543754 ATAGTTTAAT
* * * * * **
10543764 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCATTTCCAAGATGAGAAATTTAAAGTTGTTGAAC
1 TTTAAAGTTGTTGAACCTCTGCTTAAAGGAACTTTTTCAAGATGA-ATTTTTAAAGTTGTTGAAC
* * * *
10543829 TTCTGCTTAAAGAAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCT
65 CTCTGCTTAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCT
10543894 TTTCCAAGATGAGAAA
130 TTTCCAAGATGAGAAA
*
10543910 TTTAAAGTTGTTGAACTTCTGCTTAAAGGAACTTTTTCAAGATGAATTTTTAAAGTTGTTGAACC
1 TTTAAAGTTGTTGAACCTCTGCTTAAAGGAACTTTTTCAAGATGAATTTTTAAAGTTGTTGAACC
* * * * *
10543975 TCTACTTAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTT-AAGCCTCTACTTAAATGAGC
66 TCTGCTTAGAGGAGCTTTTTCAAGATGA-AATTTTAAAGTTGTTGAA-CCTCTGCTTAGAGGAGC
* *
10544039 TTTTTCAAGATGAGAAT
129 TTTTCCAAGATGAGAAA
* * * *
10544056 TTTAAAGTTGTTAAACCTCTACTTAGAA--AAGCTTTTTCAAGATGAATTTTTAAAGTTATTGAG
1 TTTAAAGTTGTTGAACCTCTGCTTA-AAGGAA-CTTTTTCAAGATGAATTTTTAAAGTTGTTGAA
* * * *
10544119 TCTCTGCTTAGATGAGCCTTTTTTAAGATGAAATTTT-AAGTTGTTGAATCTCTGCTTAGAGGAG
64 CCTCTGCTTAGAGGAG-CTTTTTCAAGATGAAATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAG
10544183 C
128 C
10544184 CATTTATATT
Statistics
Matches: 235, Mismatches: 33, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
145 66 0.28
146 155 0.66
147 14 0.06
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (145 bp):
TTTAAAGTTGTTGAACCTCTGCTTAAAGGAACTTTTTCAAGATGAATTTTTAAAGTTGTTGAACC
TCTGCTTAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTT
TTCCAAGATGAGAAA
Found at i:10544264 original size:44 final size:44
Alignment explanation
Indices: 10544102--10544383 Score: 173
Period size: 44 Copynumber: 6.4 Consensus size: 44
10544092 TCAAGATGAA
* *
10544102 TTTTTAAAGTTATTGAG-TCTCTGCTTAGATGAGCCTTTTTTAAGAT
1 TTTTTAAAGTTGTTGAGCT-TCTGCTTAGAGGAGCC-TTTTTAA-AT
* * * *
10544148 GAAATTTT-AAGTTGTTGA-ATCTCTGCTTAGAGGAGCC-ATTTATAT
1 ---TTTTTAAAGTTGTTGAGCT-TCTGCTTAGAGGAGCCTTTTTAAAT
** * * *
10544193 TTTCAAAAGTCGTTAAGCCTT-TACTTAGAGGAGCCTTTTTAAAT
1 TTTTTAAAGTTGTTGAG-CTTCTGCTTAGAGGAGCCTTTTTAAAT
* * *
10544237 TTTTTAAAGTTGTTGAGCTTCTGCTTAGATGAGCC-ATTTATAT
1 TTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTTTTTAAAT
* * * ** * *
10544280 TTTTAAAAGTCGTTGAGCCTAAGCTTAGATGAGCCTCTTTAAAT
1 TTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTTTTTAAAT
* * * * **
10544324 TTTTTAAAATTATTGAACCTCTGCTTAGAGGA-ATTCTTTTAAAT
1 TTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCT-TTTTAAAT
* *
10544368 TTTTAAAAGTCGTTGA
1 TTTTTAAAGTTGTTGA
10544384 ACCTTTACTG
Statistics
Matches: 181, Mismatches: 44, Indels: 21
0.74 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 61 0.34
44 81 0.45
45 3 0.02
46 4 0.02
48 26 0.14
49 4 0.02
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (44 bp):
TTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTTTTTAAAT
Found at i:10544271 original size:87 final size:86
Alignment explanation
Indices: 10544152--10544413 Score: 296
Period size: 87 Copynumber: 3.0 Consensus size: 86
10544142 TAAGATGAAA
* *
10544152 TTTT-AAGTTGTTGAATCTCTGCTTAGAGGAGCCATTTATATTTTCAAAAGTCGTTAAGCCTTTA
1 TTTTAAAGTTGTTGACT-TCTGCTTAGAGGAGCCATTTATATTTTTAAAAGTCGTTAAGCCTTTA
*
10544216 CTTAGAGGAGCCTTTTTAAATT
65 CTTAGAAGAGCCTTTTTAAATT
* * *
10544238 TTTTAAAGTTGTTGAGCTTCTGCTTAGATGAGCCATTTATATTTTTAAAAGTCGTTGAGCC-TAA
1 TTTTAAAGTTGTTGA-CTTCTGCTTAGAGGAGCCATTTATATTTTTAAAAGTCGTTAAGCCTTTA
* *
10544302 GCTTAGATGAGCCTCTTTAAATT
65 -CTTAGAAGAGCCTTTTTAAATT
* * * ** * *
10544325 TTTTAAAATTATTGAACCTCTGCTTAGAGGAATTCTTTTAAATTTTTAAAAGTCGTTGAA-CCTT
1 TTTTAAAGTTGTTG-ACTTCTGCTTAGAGG-AGCCATTTATATTTTTAAAAGTCGTT-AAGCCTT
* *
10544389 TACTGAGAAGAGCCCTTTTAAATT
63 TACTTAGAAGAGCCTTTTTAAATT
10544413 T
1 T
10544414 GAAAAAAAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
86 6 0.04
87 94 0.64
88 45 0.30
89 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (86 bp):
TTTTAAAGTTGTTGACTTCTGCTTAGAGGAGCCATTTATATTTTTAAAAGTCGTTAAGCCTTTAC
TTAGAAGAGCCTTTTTAAATT
Found at i:10544384 original size:44 final size:43
Alignment explanation
Indices: 10544156--10544413 Score: 214
Period size: 44 Copynumber: 5.9 Consensus size: 43
10544146 ATGAAATTTT
* * * * *
10544156 AAGTTGTTGAATCTCTGCTTAGAGGAGCCATTTATATTTTCAA
1 AAGTCGTTGAACCTCTGCTTAGAGGAGCCTTTTAAATTTTTAA
* * *
10544199 AAGTCGTT-AAGCCTTTACTTAGAGGAGCCTTTTTAAATTTTTTA
1 AAGTCGTTGAA-CCTCTGCTTAGAGGAGCC-TTTTAAATTTTTAA
* * * * * *
10544243 AAGTTGTTGAGCTTCTGCTTAGATGAGCCATTTATATTTTTAA
1 AAGTCGTTGAACCTCTGCTTAGAGGAGCCTTTTAAATTTTTAA
* ** *
10544286 AAGTCGTTGAGCCTAAGCTTAGATGAGCCTCTTTAAATTTTTTAA
1 AAGTCGTTGAACCTCTGCTTAGAGGAGCCT-TTTAAA-TTTTTAA
** **
10544331 AA-TTATTGAACCTCTGCTTAGAGGAATTCTTTTAAATTTTTAA
1 AAGTCGTTGAACCTCTGCTTAGAGG-AGCCTTTTAAATTTTTAA
* * * *
10544374 AAGTCGTTGAACCTTTACTGAGAAGAGCCCTTTTAAATTT
1 AAGTCGTTGAACCTCTGCTTAGAGGAG-CCTTTTAAATTT
10544414 GAAAAAAAAA
Statistics
Matches: 168, Mismatches: 39, Indels: 15
0.76 0.18 0.07
Matches are distributed among these distances:
42 2 0.01
43 68 0.40
44 85 0.51
45 13 0.08
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (43 bp):
AAGTCGTTGAACCTCTGCTTAGAGGAGCCTTTTAAATTTTTAA
Found at i:10544609 original size:16 final size:17
Alignment explanation
Indices: 10544590--10544625 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10544580 TCATTTTGTT
10544590 TTTTTTTTATTTTTT-A
1 TTTTTTTTATTTTTTCA
*
10544606 TTTTTTTTCTTTTTTCA
1 TTTTTTTTATTTTTTCA
10544623 TTT
1 TTT
10544626 CTGGCAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTTATTTTTTCA
Found at i:10544619 original size:17 final size:18
Alignment explanation
Indices: 10544583--10544625 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10544573 AAGACACTCA
* *
10544583 TTTTGTTTTTTTTTTATT
1 TTTTATTTTTTTTCTATT
10544601 TTTTATTTTTTTTCT-TT
1 TTTTATTTTTTTTCTATT
*
10544618 TTTCATTT
1 TTTTATTT
10544626 CTGGCAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.07, C:0.05, G:0.02, T:0.86
Consensus pattern (18 bp):
TTTTATTTTTTTTCTATT
Found at i:10545568 original size:13 final size:13
Alignment explanation
Indices: 10545547--10545610 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
10545537 TTATTATTTT
*
10545547 ATAATAATAATTA
1 ATAAAAATAATTA
*
10545560 ATAAAAATAAATA
1 ATAAAAATAATTA
** *
10545573 ATAAAAATTTTTT
1 ATAAAAATAATTA
**
10545586 ATAAGTATAATTAA
1 ATAAAAATAATT-A
10545600 ATAAAAATAAT
1 ATAAAAATAAT
10545611 ACAAAATTAA
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
13 28 0.76
14 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAAAAATAATTA
Found at i:10545637 original size:21 final size:21
Alignment explanation
Indices: 10545594--10545637 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10545584 TTATAAGTAT
* *
10545594 AATTAAATAAAAATAATACAA
1 AATTAAATAAAAATAAGAAAA
10545615 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
10545636 AA
1 AA
10545638 ATTTTTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:10554768 original size:3 final size:3
Alignment explanation
Indices: 10554760--10554836 Score: 68
Period size: 3 Copynumber: 25.7 Consensus size: 3
10554750 CATTATCAAA
* * * *
10554760 GAT GAT GAT AAT GAT GAT AAT GAT GAT GAT GTT GAT GAT GA- CAT GATT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA-T
* *
10554808 GAT GAT GAC GA- CAT GATT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GA-T GAT GAT GAT GA
10554837 GAAAGACGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
2 2 0.03
3 51 0.86
4 6 0.10
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:10554813 original size:18 final size:16
Alignment explanation
Indices: 10554760--10554836 Score: 77
Period size: 18 Copynumber: 4.7 Consensus size: 16
10554750 CATTATCAAA
10554760 GATGATGAT-AATGAT
1 GATGATGATGAATGAT
*
10554775 GATAATGATG-ATGAT
1 GATGATGATGAATGAT
*
10554790 GTTGATGATGACATGATT
1 GATGATGATGA-ATGA-T
*
10554808 GATGATGACGACATGATT
1 GATGATGATGA-ATGA-T
10554826 GATGATGATGA
1 GATGATGATGA
10554837 GAAAGACGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
15 21 0.40
17 4 0.08
18 27 0.52
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (16 bp):
GATGATGATGAATGAT
Found at i:10556818 original size:2 final size:2
Alignment explanation
Indices: 10556811--10556843 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10556801 TCAAATCAAG
10556811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10556844 AGGTAGGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10558526 original size:24 final size:24
Alignment explanation
Indices: 10558499--10558545 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
10558489 CAAGACCTAT
*
10558499 AAAGCTTGAAAATTCAAGCCCATC
1 AAAGCTTGAAAATCCAAGCCCATC
10558523 AAAGCTTGAAAATCCAAGCCCAT
1 AAAGCTTGAAAATCCAAGCCCAT
10558546 GGTCCATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.19
Consensus pattern (24 bp):
AAAGCTTGAAAATCCAAGCCCATC
Found at i:10563604 original size:24 final size:24
Alignment explanation
Indices: 10563575--10563638 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
10563565 CTACAACCAT
* *
10563575 AATTATTTATTTTGAATAGACATA
1 AATTATTTATTTTGAACAGACAAA
* * **
10563599 AATTATTCATTTTTAACAGTTAAA
1 AATTATTTATTTTGAACAGACAAA
*
10563623 AATTATCTATTTTGAA
1 AATTATTTATTTTGAA
10563639 AAGATTTATC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
AATTATTTATTTTGAACAGACAAA
Found at i:10569983 original size:21 final size:20
Alignment explanation
Indices: 10569955--10570002 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10569945 TATTTTTCGA
10569955 TTATATTTAATAT-ATTTTAT
1 TTATATTT-ATATCATTTTAT
*
10569975 TTATAATTTTTATCATTTTAT
1 TTAT-ATTTATATCATTTTAT
10569996 TT-TATTT
1 TTATATTT
10570003 TTAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATATTTATATCATTTTAT
Found at i:10570013 original size:21 final size:21
Alignment explanation
Indices: 10569967--10570014 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
10569957 ATATTTAATA
10569967 TATTTTATTTATAATTTTTAT
1 TATTTTATTTATAATTTTTAT
*
10569988 CATTTTATTT-T-ATTTTTAAAT
1 TATTTTATTTATAATTTTT--AT
10570009 TATTTT
1 TATTTT
10570015 TAAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 1 0.04
21 16 0.70
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTTATTTATAATTTTTAT
Found at i:10572221 original size:1 final size:1
Alignment explanation
Indices: 10572215--10572245 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
10572205 AAACAAACTG
10572215 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10572246 GAAATAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10573734 original size:7 final size:7
Alignment explanation
Indices: 10573718--10573775 Score: 98
Period size: 7 Copynumber: 8.3 Consensus size: 7
10573708 CTTTTGAACA
10573718 CAGAAGG
1 CAGAAGG
*
10573725 CAGAAAG
1 CAGAAGG
10573732 CAGAAGG
1 CAGAAGG
*
10573739 CAGAAAG
1 CAGAAGG
10573746 CAGAAGG
1 CAGAAGG
10573753 CAGAAGG
1 CAGAAGG
10573760 CAGAAGG
1 CAGAAGG
10573767 CAGAAGG
1 CAGAAGG
10573774 CA
1 CA
10573776 CATATAATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.47, C:0.16, G:0.38, T:0.00
Consensus pattern (7 bp):
CAGAAGG
Found at i:10575519 original size:20 final size:19
Alignment explanation
Indices: 10575494--10575531 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10575484 TTACCTTCCA
10575494 CTTTTACTAATTTTCTTAAC
1 CTTTTACTAATTTT-TTAAC
*
10575514 CTTTTATTAATTTTTTAA
1 CTTTTACTAATTTTTTAA
10575532 AATAATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (19 bp):
CTTTTACTAATTTTTTAAC
Found at i:10581785 original size:21 final size:20
Alignment explanation
Indices: 10581761--10581807 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
10581751 TGCATTAGGG
10581761 ATTTAGTTTGTCTGTTTTTTT
1 ATTTAGTTT-TCTGTTTTTTT
*
10581782 ATTTTAGTTTTCTTTTTTTTT
1 A-TTTAGTTTTCTGTTTTTTT
*
10581803 TTTTA
1 ATTTA
10581808 ATTCTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 11 0.48
22 8 0.35
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.77
Consensus pattern (20 bp):
ATTTAGTTTTCTGTTTTTTT
Found at i:10581790 original size:22 final size:20
Alignment explanation
Indices: 10581762--10581807 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10581752 GCATTAGGGA
10581762 TTTAGTTTGTCTGTTTTTTTAT
1 TTTAGTTT-TCT-TTTTTTTAT
*
10581784 TTTAGTTTTCTTTTTTTTTT
1 TTTAGTTTTCTTTTTTTTAT
10581804 TTTA
1 TTTA
10581808 ATTCTGACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 3 0.13
22 8 0.35
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.78
Consensus pattern (20 bp):
TTTAGTTTTCTTTTTTTTAT
Found at i:10584248 original size:20 final size:19
Alignment explanation
Indices: 10584212--10584256 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
10584202 CTGTTAAGTT
*
10584212 ATTTACAATTTACTACTAA
1 ATTTACAATTAACTACTAA
*
10584231 ATTTATCAATTAATTACTAA
1 ATTTA-CAATTAACTACTAA
10584251 AGTTTA
1 A-TTTA
10584257 ACAACTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTTACAATTAACTACTAA
Found at i:10584363 original size:53 final size:53
Alignment explanation
Indices: 10584282--10584385 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
10584272 TTTCTTAAAA
* *
10584282 AAAAAAGCTCATCTCAGCAGAAGTTCAACAACTTT-AAAGAAATTCTCATCTTG
1 AAAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAAAAATT-TCATCTTG
* * *
10584335 AAAAAGGCTCTTCTTAGCAGAAGCTCAACAACTTTAAAAAAAATTTCATCT
1 AAAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAAAAATTTCATCT
10584386 ATTTTCCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
53 37 0.82
54 8 0.18
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (53 bp):
AAAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAAAAATTTCATCTTG
Found at i:10591138 original size:20 final size:22
Alignment explanation
Indices: 10591108--10591148 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
10591098 GTCTCTATTC
*
10591108 TGGTCTGTAGGTATA-GTAGGA
1 TGGTCTGTAGGAATAGGTAGGA
10591129 TGGT-TGTAGGAATAGGTAGG
1 TGGTCTGTAGGAATAGGTAGG
10591149 TGTTCGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.32
Consensus pattern (22 bp):
TGGTCTGTAGGAATAGGTAGGA
Found at i:10614090 original size:49 final size:48
Alignment explanation
Indices: 10613980--10614132 Score: 191
Period size: 48 Copynumber: 3.2 Consensus size: 48
10613970 NNNNNNNNNN
* * *
10613980 AGATGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTTAAGCCTCTACTT
1 AGATGAGCTTTTTCAAGATGA-AATTTTAAAGTTGTTGAGTCTCTACTT
* * *
10614029 AAATGAGCTTTTTCAAGATGAATTTTTAAAGTTATTGAGTCTCTACTT
1 AGATGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGTCTCTACTT
* * *
10614077 AGATGAGCCTTTTTTAAGATGAAATTTT-AAGTTGTTGAATCTCTGCTT
1 AGATGAG-CTTTTTCAAGATGAAATTTTAAAGTTGTTGAGTCTCTACTT
*
10614125 AGAGGAGC
1 AGATGAGC
10614133 CATTTATATT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 52 0.58
49 37 0.41
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (48 bp):
AGATGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGTCTCTACTT
Found at i:10614213 original size:44 final size:44
Alignment explanation
Indices: 10614051--10614332 Score: 173
Period size: 44 Copynumber: 6.4 Consensus size: 44
10614041 TCAAGATGAA
* *
10614051 TTTTTAAAGTTATTGAG-TCTCTACTTAGATGAGCCTTTTTTAAGAT
1 TTTTTAAAGTTATTGAGCT-TCTGCTTAGAGGAGCC-TTTTTAA-AT
* * * * *
10614097 GAAATTTT-AAGTTGTTGA-ATCTCTGCTTAGAGGAGCC-ATTTATAT
1 ---TTTTTAAAGTTATTGAGCT-TCTGCTTAGAGGAGCCTTTTTAAAT
** * * *
10614142 TTTCAAAAGTCATTAAGCCTT-TACTTAGAGGAGCCTTTTTAAAT
1 TTTTTAAAGTTATTGAG-CTTCTGCTTAGAGGAGCCTTTTTAAAT
* * * *
10614186 TTTTTAAAGTTGTTGAGCTTCTGCTTAGATGAGCC-ATTTATAT
1 TTTTTAAAGTTATTGAGCTTCTGCTTAGAGGAGCCTTTTTAAAT
* * * ** * *
10614229 TTTTAAAAGTCATTGAGCCTAAGCTTAGATGAGCCTCTTTAAAT
1 TTTTTAAAGTTATTGAGCTTCTGCTTAGAGGAGCCTTTTTAAAT
* * * *
10614273 TTTTTAAAATTATTGAACCTCTGCTTAGAGGA-ACTCTTTTAAAT
1 TTTTTAAAGTTATTGAGCTTCTGCTTAGAGGAGCCT-TTTTAAAT
* *
10614317 TTTTAAAAGTCATTGA
1 TTTTTAAAGTTATTGA
10614333 ACCTTTACTG
Statistics
Matches: 180, Mismatches: 45, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 60 0.33
44 82 0.46
45 3 0.02
46 4 0.02
48 25 0.14
49 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (44 bp):
TTTTTAAAGTTATTGAGCTTCTGCTTAGAGGAGCCTTTTTAAAT
Found at i:10614220 original size:87 final size:86
Alignment explanation
Indices: 10614101--10614362 Score: 305
Period size: 87 Copynumber: 3.0 Consensus size: 86
10614091 TAAGATGAAA
* *
10614101 TTTT-AAGTTGTTGAATCTCTGCTTAGAGGAGCCATTTATATTTTCAAAAGTCATTAAGCCTTTA
1 TTTTAAAGTTGTTGACT-TCTGCTTAGAGGAGCCATTTATATTTTTAAAAGTCATTAAGCCTTTA
*
10614165 CTTAGAGGAGCCTTTTTAAATT
65 CTTAGAAGAGCCTTTTTAAATT
* * *
10614187 TTTTAAAGTTGTTGAGCTTCTGCTTAGATGAGCCATTTATATTTTTAAAAGTCATTGAGCC-TAA
1 TTTTAAAGTTGTTGA-CTTCTGCTTAGAGGAGCCATTTATATTTTTAAAAGTCATTAAGCCTTTA
* *
10614251 GCTTAGATGAGCCTCTTTAAATT
65 -CTTAGAAGAGCCTTTTTAAATT
* * * * * *
10614274 TTTTAAAATTATTGAACCTCTGCTTAGAGGAACTCTTTTAAATTTTTAAAAGTCATTGAA-CCTT
1 TTTTAAAGTTGTTG-ACTTCTGCTTAGAGGAGC-CATTTATATTTTTAAAAGTCATT-AAGCCTT
* *
10614338 TACTGAGAAGAGCCCTTTTAAATT
63 TACTTAGAAGAGCCTTTTTAAATT
10614362 T
1 T
10614363 GGAAAAAAAT
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
86 6 0.04
87 96 0.64
88 44 0.30
89 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (86 bp):
TTTTAAAGTTGTTGACTTCTGCTTAGAGGAGCCATTTATATTTTTAAAAGTCATTAAGCCTTTAC
TTAGAAGAGCCTTTTTAAATT
Found at i:10614333 original size:44 final size:43
Alignment explanation
Indices: 10614111--10614362 Score: 220
Period size: 44 Copynumber: 5.8 Consensus size: 43
10614101 TTTTAAGTTG
* * * *
10614111 TTGAATCTCTGCTTAGAGGAGCCATTTATATTTTCAAAAGTCA
1 TTGAACCTCTGCTTAGAGGAGCCTTTTAAATTTTTAAAAGTCA
* * * **
10614154 TT-AAGCCTTTACTTAGAGGAGCCTTTTTAAATTTTTTAAAGTTG
1 TTGAA-CCTCTGCTTAGAGGAGCC-TTTTAAATTTTTAAAAGTCA
* * * * *
10614198 TTGAGCTTCTGCTTAGATGAGCCATTTATATTTTTAAAAGTCA
1 TTGAACCTCTGCTTAGAGGAGCCTTTTAAATTTTTAAAAGTCA
* ** * *
10614241 TTGAGCCTAAGCTTAGATGAGCCTCTTTAAATTTTTTAAAA-TTA
1 TTGAACCTCTGCTTAGAGGAGCCT-TTTAAA-TTTTTAAAAGTCA
*
10614285 TTGAACCTCTGCTTAGAGGAACTCTTTTAAATTTTTAAAAGTCA
1 TTGAACCTCTGCTTAGAGGAGC-CTTTTAAATTTTTAAAAGTCA
* * * *
10614329 TTGAACCTTTACTGAGAAGAGCCCTTTTAAATTT
1 TTGAACCTCTGCTTAGAGGAG-CCTTTTAAATTT
10614363 GGAAAAAAAT
Statistics
Matches: 165, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.01
43 61 0.37
44 89 0.54
45 13 0.08
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (43 bp):
TTGAACCTCTGCTTAGAGGAGCCTTTTAAATTTTTAAAAGTCA
Found at i:10614557 original size:11 final size:10
Alignment explanation
Indices: 10614527--10614556 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10614517 AAAGACACTC
*
10614527 ATTTTGTTTT
1 ATTTTTTTTT
10614537 ATTTTTTTTT
1 ATTTTTTTTT
10614547 ATTTTTTTTT
1 ATTTTTTTTT
10614557 TTCATTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:10614747 original size:20 final size:21
Alignment explanation
Indices: 10614724--10614763 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10614714 AAAAGCCCGA
10614724 AACC-ATGCAAAAAAAAAATC
1 AACCAATGCAAAAAAAAAATC
*
10614744 AACCAAATTCAAAAAAAAAA
1 AACC-AATGCAAAAAAAAAA
10614764 AAAACTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
22 13 0.76
ACGTcount: A:0.70, C:0.17, G:0.03, T:0.10
Consensus pattern (21 bp):
AACCAATGCAAAAAAAAAATC
Found at i:10615601 original size:21 final size:21
Alignment explanation
Indices: 10615577--10615623 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
10615567 AATTTTTTCT
* *
10615577 ATAAGTA-TAATTAAATTAAAA
1 ATAAGTACAAATT-AATAAAAA
*
10615598 ATAAATACAAATTAATAAAAA
1 ATAAGTACAAATTAATAAAAA
10615619 ATAAG
1 ATAAG
10615624 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAAGTACAAATTAATAAAAA
Found at i:10615611 original size:17 final size:17
Alignment explanation
Indices: 10615589--10615621 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10615579 AAGTATAATT
10615589 AAATTAA-AAATAAATAC
1 AAATTAATAAA-AAATAC
10615606 AAATTAATAAAAAATA
1 AAATTAATAAAAAATA
10615622 AGAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATTAATAAAAAATAC
Found at i:10625405 original size:3 final size:3
Alignment explanation
Indices: 10625397--10625452 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
10625387 CATTATCAAA
* * * *
10625397 GAT GAT GAT AAT GAT GAT AAT GAT GAT GAT GTT GAT GAT GA- CAT GATT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA-T
10625445 GAT GAT GA
1 GAT GAT GA
10625453 CGACATGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 39 0.91
4 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.34
Consensus pattern (3 bp):
GAT
Found at i:10625450 original size:18 final size:16
Alignment explanation
Indices: 10625397--10625473 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 16
10625387 CATTATCAAA
10625397 GATGATGAT-AATGAT
1 GATGATGATGAATGAT
*
10625412 GATAATGATG-ATGAT
1 GATGATGATGAATGAT
*
10625427 GTTGATGATGACATGATT
1 GATGATGATGA-ATGA-T
*
10625445 GATGATGACGACATGATT
1 GATGATGATGA-ATGA-T
*
10625463 GATGACGATGA
1 GATGATGATGA
10625474 GAAAGACGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
15 21 0.41
17 4 0.08
18 26 0.51
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (16 bp):
GATGATGATGAATGAT
Found at i:10627453 original size:2 final size:2
Alignment explanation
Indices: 10627448--10627476 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10627438 CAAAAAAAAA
10627448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10627477 AGGTAGGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10629139 original size:24 final size:24
Alignment explanation
Indices: 10629112--10629158 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
10629102 CAAGACCTAT
10629112 AAAGCTTGAAAATCCAAGCCCATC
1 AAAGCTTGAAAATCCAAGCCCATC
10629136 AAAGCTTGAAAATCCAAGCCCAT
1 AAAGCTTGAAAATCCAAGCCCAT
10629159 GGTCCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17
Consensus pattern (24 bp):
AAAGCTTGAAAATCCAAGCCCATC
Found at i:10634312 original size:19 final size:19
Alignment explanation
Indices: 10634286--10634335 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
10634276 ATACAGATTG
*
10634286 TCTA-TTTTTATTAATCTA
1 TCTATTTTTTATTAAACTA
*
10634304 TCTATTTTTGA-TAAACTA
1 TCTATTTTTTATTAAACTA
*
10634322 ACTATTTATTTATT
1 TCTATTT-TTTATT
10634336 TTAGACAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.64
19 8 0.32
20 1 0.04
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.58
Consensus pattern (19 bp):
TCTATTTTTTATTAAACTA
Found at i:10636717 original size:33 final size:36
Alignment explanation
Indices: 10636680--10636748 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 36
10636670 CTGGTTTTTC
10636680 ACCATAATCAGGCTTT-TTCT-CTTCTGGC-TTTGA
1 ACCATAATCAGGCTTTATTCTCCTTCTGGCATTTGA
*
10636713 ACCATACTCAGGCTTTGATTCTCCTTCTGGCATTTG
1 ACCATAATCAGGCTTT-ATTCTCCTTCTGGCATTTG
10636749 CTGAGGGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 15 0.48
35 4 0.13
36 8 0.26
37 4 0.13
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (36 bp):
ACCATAATCAGGCTTTATTCTCCTTCTGGCATTTGA
Found at i:10638395 original size:40 final size:40
Alignment explanation
Indices: 10638351--10638430 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
10638341 CTTGATTTCA
*
10638351 TAATTATCCTCACTTAAATCCTAAACAAAATAACATATTT
1 TAATTACCCTCACTTAAATCCTAAACAAAATAACATATTT
***
10638391 TAATTACCCTTTGTTAAATCCTAAACAAAATAACATATTT
1 TAATTACCCTCACTTAAATCCTAAACAAAATAACATATTT
10638431 ATATATCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (40 bp):
TAATTACCCTCACTTAAATCCTAAACAAAATAACATATTT
Found at i:10640135 original size:51 final size:49
Alignment explanation
Indices: 10640046--10640145 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 49
10640036 ATAAGCATAT
* * *
10640046 AAACTTTCTTATTAAAATTTTTTTTTTTAGAATTCTTCTTCTACAAGTC
1 AAACTTGCCTATTAAAATTTTTTTTCTTAGAATTCTTCTTCTACAAGTC
*
10640095 AAACTTGCCTATTAAGAATTTTTTTCTCTTAGAATTCTTCTTTTACAAGTC
1 AAACTTGCCTATTAA-AATTTTTTT-TCTTAGAATTCTTCTTCTACAAGTC
10640146 TTTTTGTCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 13 0.29
50 9 0.20
51 23 0.51
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (49 bp):
AAACTTGCCTATTAAAATTTTTTTTCTTAGAATTCTTCTTCTACAAGTC
Done.