Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 18 of 109
Found at i:2904292 original size:21 final size:21
Alignment explanation
Indices: 2904263--2904303 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2904253 TATCTAAATC
*
2904263 TATTTAAAT-ATATTAAAATTA
1 TATTAAAATAATA-TAAAATTA
2904284 TATTAAAATAATATAAAATT
1 TATTAAAATAATATAAAATT
2904304 TTAAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTAAAATAATATAAAATTA
Found at i:2906772 original size:3 final size:3
Alignment explanation
Indices: 2906764--2906793 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2906754 CACCATTTTG
2906764 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2906794 ATTTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2907813 original size:11 final size:11
Alignment explanation
Indices: 2907794--2907826 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2907784 AATTTTTTTG
2907794 TAATAAATAAA
1 TAATAAATAAA
*
2907805 TAATTAATAAA
1 TAATAAATAAA
2907816 TAA-AAATAAA
1 TAATAAATAAA
2907826 T
1 T
2907827 GATGAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:2908767 original size:10 final size:10
Alignment explanation
Indices: 2908752--2908777 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2908742 AAAATTATAT
2908752 TTTTAATAAA
1 TTTTAATAAA
2908762 TTTTAATAAA
1 TTTTAATAAA
2908772 TTTTAA
1 TTTTAA
2908778 GATTTTATTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:2911091 original size:215 final size:215
Alignment explanation
Indices: 2910720--2911152 Score: 814
Period size: 215 Copynumber: 2.0 Consensus size: 215
2910710 TTGAAAATGA
2910720 AAAAGTTAGGCTAGTTCAATAGATGTTATTAAATGAACATATTTATTTAAAGGGATAACTGAAAC
1 AAAAGTTAGGCTAGTTCAATAGATGTTATTAAATGAACATATTTATTTAAAGGGATAACTGAAAC
*
2910785 AATTGGTTTATTTCAATGAATTTATTTGAATCGTTTCAAAACATTGGTCTACTTAGGTTTTAATA
66 AATTGGTTTAGTTCAATGAATTTATTTGAATCGTTTCAAAACATTGGTCTACTTAGGTTTTAATA
2910850 GAACCATTTCAATTGAAATAGTTGGCTTGGTATAAATAGAGGAAAGAAAGAGATTGTG-ACTTAT
131 GAACCATTTCAATTGAAATAGTTGGCTTGGTATAAATAGAGGAAAGAAAGAGATTG-GAACTTAT
2910914 TTTACTATTTTCAAGCAAGAG
195 TTTACTATTTTCAAGCAAGAG
*
2910935 AAAAGTTAGGCTAGTTCAATAGATGTTATTAAGTGAACATATTTATTTAAAGGGATAACTGAAAC
1 AAAAGTTAGGCTAGTTCAATAGATGTTATTAAATGAACATATTTATTTAAAGGGATAACTGAAAC
*
2911000 AATTGGTTTAGTTCAATGAATTTATTTGAATTGTTTCAAAACATTGGTCTACTTAGGTTTTAATA
66 AATTGGTTTAGTTCAATGAATTTATTTGAATCGTTTCAAAACATTGGTCTACTTAGGTTTTAATA
*
2911065 TAACCATTTCAATTGAAATAGTTGGCTTGGTATAAATAGAGGAAAGAAAGAGATTGGAACTTATT
131 GAACCATTTCAATTGAAATAGTTGGCTTGGTATAAATAGAGGAAAGAAAGAGATTGGAACTTATT
2911130 TTACTATTTTCAAGCAAGAG
196 TTACTATTTTCAAGCAAGAG
2911150 AAA
1 AAA
2911153 TTTTTTTTTT
Statistics
Matches: 213, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
214 1 0.00
215 212 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (215 bp):
AAAAGTTAGGCTAGTTCAATAGATGTTATTAAATGAACATATTTATTTAAAGGGATAACTGAAAC
AATTGGTTTAGTTCAATGAATTTATTTGAATCGTTTCAAAACATTGGTCTACTTAGGTTTTAATA
GAACCATTTCAATTGAAATAGTTGGCTTGGTATAAATAGAGGAAAGAAAGAGATTGGAACTTATT
TTACTATTTTCAAGCAAGAG
Found at i:2913921 original size:12 final size:12
Alignment explanation
Indices: 2913904--2913938 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2913894 TAAGACTGCA
2913904 AAAAACAAAAGC
1 AAAAACAAAAGC
2913916 AAAAACAAAAGC
1 AAAAACAAAAGC
* *
2913928 TAAAAGAAAAG
1 AAAAACAAAAG
2913939 ATAACTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.03
Consensus pattern (12 bp):
AAAAACAAAAGC
Found at i:2914806 original size:84 final size:83
Alignment explanation
Indices: 2914629--2914867 Score: 256
Period size: 84 Copynumber: 2.9 Consensus size: 83
2914619 TTATAATTAT
** * * *
2914629 AATTAGAGATTACGCCCAGAGGTCTTATAAATC-TAGACTCTAAAATAGATT---TTGAAAGACT
1 AATTAGAGATTATACCCAGAAGTCTTATAAATCTTA-ACTTTAAAATAGATTAGCTCGAAAGACT
*
2914690 TATGAATCTTGCTTGAAGG
65 TATGAATCTTACTTGAAGG
* * *
2914709 ACTTAGAGATTATACCCAGAAGTTTTATAAATCTTAACTTTAAAATAGATTCAGCTCGTAAGACT
1 AATTAGAGATTATACCCAGAAGTCTTATAAATCTTAACTTTAAAATAGATT-AGCTCGAAAGACT
*
2914774 TACGAATCTTACTTAGAA-G
65 TATGAATCTTACTT-GAAGG
* * * * *
2914793 AATTAGAGATTATACCTA-AAGGTCTTATTAATCTTGACTTTAAAACAGATTTAGCTCAAAAGAC
1 AATTAGAGATTATACCCAGAA-GTCTTATAAATCTTAACTTTAAAATAGA-TTAGCTCGAAAGAC
2914857 TTATGAATCTT
64 TTATGAATCTT
2914868 GCCTGAAAGA
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
80 42 0.32
81 2 0.02
83 2 0.02
84 81 0.61
85 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (83 bp):
AATTAGAGATTATACCCAGAAGTCTTATAAATCTTAACTTTAAAATAGATTAGCTCGAAAGACTT
ATGAATCTTACTTGAAGG
Found at i:2914888 original size:84 final size:84
Alignment explanation
Indices: 2914683--2914972 Score: 248
Period size: 84 Copynumber: 3.5 Consensus size: 84
2914673 ATAGATTTTG
* * *
2914683 AAAGACTTATGAATCTTGCTTGAAGGACTTAGAGATTATACCCAGAAGTTTTATAAATCTTAACT
1 AAAGACTTATGAATCTTGCCTGAAAGACTTAGAGATTATACCCAGAAGTCTTATAAATCTTAACT
* *
2914748 TTAAAATAGATTCAGCTCG
66 TTAAAACAGATTCAGCTCA
* * * * * * * *
2914767 TAAGACTTACGAATCTT-ACTTAGAAGAATTAGAGATTATACCTA-AAGGTCTTATTAATCTTGA
1 AAAGACTTATGAATCTTGCCTGA-AAGACTTAGAGATTATACCCAGAA-GTCTTATAAATCTTAA
*
2914830 CTTTAAAACAGATTTAGCTCA
64 CTTTAAAACAGATTCAGCTCA
* * * ** * *
2914851 AAAGACTTATGAATCTTGCCTGAAAGACTTAGTGATTATGCCCGGAAACCTTACAAATC-AAACT
1 AAAGACTTATGAATCTTGCCTGAAAGACTTAGAGATTATACCCAGAAGTCTTATAAATCTTAACT
* *
2914915 TTGAAAA-AGATTTAACTCA
66 TT-AAAACAGATTCAGCTCA
* * * * * *
2914934 AAAAAATTACGAATCTT-ACTCGAAAGACTTGGTGATTAT
1 AAAGACTTATGAATCTTGCCT-GAAAGACTTAGAGATTAT
2914973 GCTCAGAGGC
Statistics
Matches: 165, Mismatches: 35, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
82 2 0.01
83 51 0.31
84 107 0.65
85 5 0.03
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (84 bp):
AAAGACTTATGAATCTTGCCTGAAAGACTTAGAGATTATACCCAGAAGTCTTATAAATCTTAACT
TTAAAACAGATTCAGCTCA
Found at i:2914948 original size:83 final size:83
Alignment explanation
Indices: 2914829--2915089 Score: 296
Period size: 83 Copynumber: 3.1 Consensus size: 83
2914819 ATTAATCTTG
* * * *
2914829 ACTTT-AAAACAGATTTAGCTCAAAAGACTTATGAATCTTGCCTGAAAGACTTAGTGATTATGCC
1 ACTTTGAAAA-AGATTTAACTCAAAAGAATTACGAATCTTGCCTGAAAGACTTGGTGATTATGCC
* *
2914893 CGGAAACCTTACAAATCAA
65 CAGAAGCCTTACAAATCAA
* * *
2914912 ACTTTGAAAAAGATTTAACTCAAAAAAATTACGAATCTT-ACTCGAAAGACTTGGTGATTATGCT
1 ACTTTGAAAAAGATTTAACTCAAAAGAATTACGAATCTTGCCT-GAAAGACTTGGTGATTATGCC
*
2914976 CAGAGGCCTTA-AAATTCAA
65 CAGAAGCCTTACAAA-TCAA
* * * * * *
2914995 ACTTTGAAAAAAATTCAACTCGAAAGATTTACCAATCTTGCCT-AAAGGACTTGGTAATTATGCC
1 ACTTTGAAAAAGATTTAACTCAAAAGAATTACGAATCTTGCCTGAAA-GACTTGGTGATTATGCC
* *
2915059 CAGAAGCATTTCAAATCAA
65 CAGAAGCCTTACAAATCAA
2915078 ACTTTGAAAAAG
1 ACTTTGAAAAAG
2915090 CTTTTTTTTA
Statistics
Matches: 149, Mismatches: 23, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
82 8 0.05
83 132 0.89
84 9 0.06
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (83 bp):
ACTTTGAAAAAGATTTAACTCAAAAGAATTACGAATCTTGCCTGAAAGACTTGGTGATTATGCCC
AGAAGCCTTACAAATCAA
Found at i:2921516 original size:103 final size:102
Alignment explanation
Indices: 2921409--2921702 Score: 285
Period size: 103 Copynumber: 2.8 Consensus size: 102
2921399 TTATTTTAAG
*
2921409 AAATTTCATTAAACCTTTCAATATTTTGGTAAGA-TCTAATTCAATATTTAAATCCTCCAATAGT
1 AAATTTCATTAAA-CTTTCAATATTTTGGTAAGACT-TAATTCAA-ATTTAAATCCTCTAATAGT
2921473 TTAGTAAGATTGAAAATTTTATTATTA-T-TTTTTTACAAA
63 TTAGTAAGATTGAAAATTTTATTATTATTATTTTTTA-AAA
* ** * *
2921512 AAATTT-ATT-AAGTTCTCTAATATTTTTTATAAGACTTAATTCCAAATTTAAATCATTTAATAG
1 AAATTTCATTAAACTT-TC-AATA-TTTTGGTAAGACTTAATT-CAAATTTAAATCCTCTAATAG
* *
2921575 TTTAGTAGGATTAAAAATTTTATTATTATTATTATTTTTTAAAA
62 TTTAGTAAGATTGAAAA--TT-TTATTATTATTATTTTTTAAAA
* * * * *
2921619 AAAATTCATTAAGTCTTTTAATAGTTTGGTATGACTTAATTCAAGATTTAAATCCTCTAATAGTT
1 AAATTTCATTAA-ACTTTCAATATTTTGGTAAGACTTAATTCAA-ATTTAAATCCTCTAATAGTT
* *
2921684 TGGT-AGTATTGAAATTTTT
64 TAGTAAG-ATTGAAAATTTT
2921703 TTTCAAAAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
100 2 0.01
101 4 0.03
102 7 0.05
103 50 0.32
104 6 0.04
105 4 0.03
106 13 0.08
107 50 0.32
108 14 0.09
109 2 0.01
110 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (102 bp):
AAATTTCATTAAACTTTCAATATTTTGGTAAGACTTAATTCAAATTTAAATCCTCTAATAGTTTA
GTAAGATTGAAAATTTTATTATTATTATTTTTTAAAA
Found at i:2923492 original size:17 final size:17
Alignment explanation
Indices: 2923470--2923507 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2923460 AAAAGAATGT
*
2923470 AAAATGTAAGAAA-CTAA
1 AAAATG-AAAAAATCTAA
2923487 AAAATGAAAAAATCTAA
1 AAAATGAAAAAATCTAA
2923504 AAAA
1 AAAA
2923508 GTCTTTTTAA
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:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAATGAAAAAATCTAA
Found at i:2924847 original size:35 final size:36
Alignment explanation
Indices: 2924807--2924877 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
2924797 ACCAATTATA
**
2924807 GTATTAAGGGT-ATTTTCAT-AATTATTGTAGAAGGG
1 GTATT-AGGGTAATTTTCATCAATTATAATAGAAGGG
*
2924842 GTATTATGGTAATTTTCATCAATTATAATAGAAGGG
1 GTATTAGGGTAATTTTCATCAATTATAATAGAAGGG
2924878 ATGTTTTCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.13
35 13 0.42
36 14 0.45
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (36 bp):
GTATTAGGGTAATTTTCATCAATTATAATAGAAGGG
Found at i:2924890 original size:36 final size:35
Alignment explanation
Indices: 2924818--2924891 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 35
2924808 TATTAAGGGT
** * *
2924818 ATTTTCATAATTATTGTAGAAGGGGTATTATGGTA
1 ATTTTCATAATTATAATAGAAGGGATATTATCGTA
* *
2924853 ATTTTCATCAATTATAATAGAAGGGATGTTTTCGTA
1 ATTTTCAT-AATTATAATAGAAGGGATATTATCGTA
2924889 ATT
1 ATT
2924892 ATAAAAGAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 8 0.25
36 24 0.75
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (35 bp):
ATTTTCATAATTATAATAGAAGGGATATTATCGTA
Found at i:2926149 original size:206 final size:206
Alignment explanation
Indices: 2925781--2926167 Score: 501
Period size: 206 Copynumber: 1.9 Consensus size: 206
2925771 ATTTTAATCT
* ** * *
2925781 ATTATAGGATGAGGGGTATTTTTGTAATTATAACATAAAGGTATCATAGTAATATGTCATTTATA
1 ATTATAAGATGAGGAATATTTTCGAAATTATAACATAAAGGTATCATAGTAATATGTCATTTATA
* * ** * *
2925846 GGAAAATATTTTCATTATTTAAGGCATAGAGGGCATTATAGTGATTTGATATTTATAATAGGAGT
66 GGAAAATATTTTCATTATTTAAGACATAAAAAGCATTATAGTAATTTGATATTTATAAGAGGAGT
* * * *
2925911 ATTTTTATCATTTAAGAAATGAAGGGCATTATAGTAGTTTATCATATAAAAGAGGGACATTATAG
131 ATTTTTATCATTTAAGAAAAGAAGGACATTATAGCAATTTATCATATAAAAGAGGGACATTATAG
2925976 TAATTTTGCAA
196 TAATTTTGCAA
* *
2925987 ATTATAAGATGAGGAATATTTTCGAAATTATTACATAAAGGTATCATAGTAATTTGTCATTTATA
1 ATTATAAGATGAGGAATATTTTCGAAATTATAACATAAAGGTATCATAGTAATATGTCATTTATA
** ** *
2926052 GGAAGAATATTTTTGTTATTTAAGATGTAAAAAGTATTATAGTAATTTGATATTTATAAGA-GAG
66 GGAA-AATATTTTCATTATTTAAGACATAAAAAGCATTATAGTAATTTGATATTTATAAGAGGA-
* * *
2926116 GTA-TTTTGTCATTTAA-AAAAGGAGGAACATTATAGCAATTTATCATTTAAAA
129 GTATTTTTATCATTTAAGAAAAGAAGG-ACATTATAGCAATTTATCATATAAAA
2926168 TAAGGGTAAT
Statistics
Matches: 153, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
205 7 0.05
206 98 0.64
207 48 0.31
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (206 bp):
ATTATAAGATGAGGAATATTTTCGAAATTATAACATAAAGGTATCATAGTAATATGTCATTTATA
GGAAAATATTTTCATTATTTAAGACATAAAAAGCATTATAGTAATTTGATATTTATAAGAGGAGT
ATTTTTATCATTTAAGAAAAGAAGGACATTATAGCAATTTATCATATAAAAGAGGGACATTATAG
TAATTTTGCAA
Found at i:2926285 original size:2 final size:2
Alignment explanation
Indices: 2926278--2926303 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2926268 AGAAAAATTA
2926278 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
2926304 TTGTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2928822 original size:21 final size:21
Alignment explanation
Indices: 2928784--2928827 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2928774 CTCGCTCATC
*
2928784 TTAAATATGATACCATTTAAT
1 TTAAAGATGATACCATTTAAT
* *
2928805 TTAAAGATGGTACTATTTAAT
1 TTAAAGATGATACCATTTAAT
2928826 TT
1 TT
2928828 TAAATTATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (21 bp):
TTAAAGATGATACCATTTAAT
Found at i:2930899 original size:12 final size:12
Alignment explanation
Indices: 2930863--2930906 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
2930853 AATAATTATG
*
2930863 ATTTATTTTCAAA
1 ATTTATTTT-AAC
*
2930876 ATTT-TATTAAC
1 ATTTATTTTAAC
2930887 ATTTATTTTAAC
1 ATTTATTTTAAC
2930899 ATTTATTT
1 ATTTATTT
2930907 ATATATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 6 0.22
12 17 0.63
13 4 0.15
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTATTTTAAC
Found at i:2930988 original size:4 final size:4
Alignment explanation
Indices: 2930979--2931044 Score: 53
Period size: 4 Copynumber: 15.2 Consensus size: 4
2930969 ATTATTTCAA
* *
2930979 AAAT AAAT AAAT AAAAT AAAAC AAAT AAAT AAAT AACGT AAA- AAAGCT
1 AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AA-AT AAAT AAA--T
2931027 AAAAT AAAT AAAT AAAT A
1 -AAAT AAAT AAAT AAAT A
2931045 CAAATGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 34 0.65
5 12 0.23
7 3 0.06
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:2931005 original size:22 final size:22
Alignment explanation
Indices: 2930979--2931049 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
2930969 ATTATTTCAA
2930979 AAATAAATAAATAAAATAAAAC
1 AAATAAATAAATAAAATAAAAC
**
2931001 AAATAAATAAATAACGTAAAA-
1 AAATAAATAAATAAAATAAAAC
*
2931022 AAGCTAAAATAAAT-AAATAAATAC
1 AA-AT-AAATAAATAAAATAAA-AC
2931046 AAAT
1 AAAT
2931050 GAAAAGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
21 2 0.05
22 25 0.64
23 10 0.26
24 2 0.05
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.20
Consensus pattern (22 bp):
AAATAAATAAATAAAATAAAAC
Found at i:2931830 original size:16 final size:17
Alignment explanation
Indices: 2931796--2931839 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
2931786 TTTAAAAGCC
2931796 AAAAA-AAA-AAAAGAT
1 AAAAATAAATAAAAGAT
2931811 -AAAATAAACTAAAA-AT
1 AAAAATAAA-TAAAAGAT
2931827 AAAAATAAATAAA
1 AAAAATAAATAAA
2931840 TAAGCAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 4 0.16
15 3 0.12
16 6 0.24
17 12 0.48
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAATAAATAAAAGAT
Found at i:2934150 original size:23 final size:24
Alignment explanation
Indices: 2934117--2934163 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
2934107 CAAAACTATT
*
2934117 GTAAGGGTTTTCGAACTTAAAAGA
1 GTAAGGGTTTTCAAACTTAAAAGA
2934141 GTAA-GGTTTTCAAACTTAAAAGA
1 GTAAGGGTTTTCAAACTTAAAAGA
2934164 AAGAAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (24 bp):
GTAAGGGTTTTCAAACTTAAAAGA
Found at i:2936146 original size:13 final size:13
Alignment explanation
Indices: 2936124--2936153 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2936114 ATTTTAAAAT
2936124 TAAA-ATTTTTAA
1 TAAATATTTTTAA
2936136 TAAATATTTTTAA
1 TAAATATTTTTAA
2936149 TAAAT
1 TAAAT
2936154 CTGTTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATATTTTTAA
Found at i:2936609 original size:2 final size:2
Alignment explanation
Indices: 2936602--2936628 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2936592 TCCCTCATGG
2936602 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 A
2936629 AGTTGGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2937911 original size:12 final size:13
Alignment explanation
Indices: 2937878--2937912 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
2937868 GTATTCAAGG
2937878 AAAATTTTTCTTT
1 AAAATTTTTCTTT
*
2937891 AAAATTTTTTTTT
1 AAAATTTTTCTTT
2937904 AAAATTTTT
1 AAAATTTTT
2937913 ACGAGTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
AAAATTTTTCTTT
Found at i:2938895 original size:2 final size:2
Alignment explanation
Indices: 2938890--2938926 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
2938880 TGGAAGATGC
2938890 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2938927 GTAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:2942586 original size:23 final size:25
Alignment explanation
Indices: 2942560--2942605 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2942550 ATAAAAGAAA
*
2942560 TCTAATT-TA-GAAAAAGAAGATTT
1 TCTAATTATAGGAAAAAAAAGATTT
2942583 TCTAATTATAGGAAAAAAAAGAT
1 TCTAATTATAGGAAAAAAAAGAT
2942606 AAGGCAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.30
Consensus pattern (25 bp):
TCTAATTATAGGAAAAAAAAGATTT
Found at i:2943396 original size:12 final size:11
Alignment explanation
Indices: 2943368--2943405 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
2943358 AAAAATAAAT
*
2943368 TATAAACCAAA
1 TATAAACAAAA
2943379 -ATAAACAAAA
1 TATAAACAAAA
2943389 TTATAAACAAAA
1 -TATAAACAAAA
2943401 TATAA
1 TATAA
2943406 TTAAATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
11 5 0.21
12 10 0.42
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (11 bp):
TATAAACAAAA
Found at i:2943411 original size:22 final size:22
Alignment explanation
Indices: 2943363--2943411 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2943353 ATTTTAAAAA
2943363 TAAATTATAAACCAAAATAAAC
1 TAAATTATAAACCAAAATAAAC
* *
2943385 AAAATTATAAA-CAAAATATAAT
1 TAAATTATAAACCAAAATA-AAC
2943407 TAAAT
1 TAAAT
2943412 ATGACTGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAATTATAAACCAAAATAAAC
Found at i:2943531 original size:23 final size:22
Alignment explanation
Indices: 2943486--2943531 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2943476 CGATGAAATT
* *
2943486 TTTTAAAAAAATTATCAATTAA
1 TTTTAAAAAAATTATAAAATAA
*
2943508 TTTTAAAAAATTTATTAAAATAA
1 TTTTAAAAAAATTA-TAAAATAA
2943531 T
1 T
2943532 ATAACGAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAAAAATTATAAAATAA
Found at i:2945868 original size:15 final size:15
Alignment explanation
Indices: 2945838--2945866 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2945828 ATAATTTTAT
2945838 TAATTTAAATTTAAA
1 TAATTTAAATTTAAA
2945853 TAATTT-AATTTAAA
1 TAATTTAAATTTAAA
2945867 ATTAATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTAAATTTAAA
Found at i:2949413 original size:21 final size:21
Alignment explanation
Indices: 2949388--2949430 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2949378 AAGATAAGGT
*
2949388 TTGAATAATTTCCAACCTGGA
1 TTGAACAATTTCCAACCTGGA
2949409 TTGAACAATTTCCAACCTGGA
1 TTGAACAATTTCCAACCTGGA
2949430 T
1 T
2949431 CAGATTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (21 bp):
TTGAACAATTTCCAACCTGGA
Found at i:2951180 original size:29 final size:29
Alignment explanation
Indices: 2951138--2951195 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2951128 ATTAGGCGTA
2951138 ACAATTATTGCCCCTAACTCTGAGGGAGG
1 ACAATTATTGCCCCTAACTCTGAGGGAGG
2951167 ACAATTATTGCCCCTAACTCTGAGGGAGG
1 ACAATTATTGCCCCTAACTCTGAGGGAGG
2951196 TTATAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (29 bp):
ACAATTATTGCCCCTAACTCTGAGGGAGG
Found at i:2956882 original size:26 final size:26
Alignment explanation
Indices: 2956853--2956903 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2956843 ATCCAACCGA
*
2956853 ATTC-AATTTGATTAAAAAAAGTTAAG
1 ATTCAAATTTGA-AAAAAAAAGTTAAG
2956879 ATTCAAATTTGAAAAAAAAAGTTAA
1 ATTCAAATTTGAAAAAAAAAGTTAA
2956904 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (26 bp):
ATTCAAATTTGAAAAAAAAAGTTAAG
Found at i:2956913 original size:27 final size:27
Alignment explanation
Indices: 2956857--2956913 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
2956847 AACCGAATTC
* *
2956857 AATTTGATTAAAAAAAGTTAAGATTCA
1 AATTTGATAAAAAAAAGTTAAGATTAA
*
2956884 AATTTGA-AAAAAAAAGTTAATATTTAA
1 AATTTGATAAAAAAAAGTTAAGA-TTAA
2956911 AAT
1 AAT
2956914 ATTTTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTTGATAAAAAAAAGTTAAGATTAA
Found at i:2958014 original size:31 final size:30
Alignment explanation
Indices: 2957967--2958049 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
2957957 AGGATTAATG
*
2957967 TTAT-ATATAATTTTTAAATTATAATAAAAT
1 TTATAATATAATATTTAAATTATAAT-AAAT
*
2957997 ATT-TAATATAATATTTAAATT-TTATAAAT
1 -TTATAATATAATATTTAAATTATAATAAAT
*
2958026 TTATAATATTATA-TTAAATTATAA
1 TTATAATATAATATTTAAATTATAA
2958050 ATTTATTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 9 0.20
29 15 0.33
30 4 0.09
31 17 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TTATAATATAATATTTAAATTATAATAAAT
Found at i:2958040 original size:41 final size:39
Alignment explanation
Indices: 2957975--2958054 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 39
2957965 TGTTATATAT
*
2957975 AATTTTTAAATTATAATAAAATATTTAA-TATAATATTTA
1 AATTTTTAAATTATAATAAAATATTAAATTATAA-ATTTA
**
2958014 AATTTTATAAATTTATAATATTATATTAAATTATAAATTTA
1 AATTTT-TAAA-TTATAATAAAATATTAAATTATAAATTTA
2958055 TTAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.17
40 4 0.11
41 20 0.57
42 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (39 bp):
AATTTTTAAATTATAATAAAATATTAAATTATAAATTTA
Found at i:2958049 original size:18 final size:17
Alignment explanation
Indices: 2958012--2958058 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
2958002 ATATAATATT
2958012 TAAATTT-TATAAATTTA
1 TAAATTTAT-TAAATTTA
2958029 TAATATTATATTAAA-TTA
1 TAA-ATT-TATTAAATTTA
2958047 TAAATTTATTAA
1 TAAATTTATTAA
2958059 TTAATACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.22
17 6 0.22
18 9 0.33
19 5 0.19
20 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATTTATTAAATTTA
Found at i:2958169 original size:29 final size:29
Alignment explanation
Indices: 2958135--2958209 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
2958125 ATTAGTTAAT
2958135 AAATTTATAATTTAAATATTACATTAAAA
1 AAATTTATAATTTAAATATTACATTAAAA
* * *
2958164 AAATTT-TAAATTCAAATATTATATTAAAT
1 AAATTTAT-AATTTAAATATTACATTAAAA
*
2958193 AATTTATCATAATTTAA
1 AAATT-T-ATAATTTAA
2958210 GACCATTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 28 0.76
30 1 0.03
31 6 0.16
32 1 0.03
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATTTATAATTTAAATATTACATTAAAA
Found at i:2960446 original size:139 final size:139
Alignment explanation
Indices: 2960178--2960482 Score: 450
Period size: 139 Copynumber: 2.2 Consensus size: 139
2960168 TTAAAAAAAA
* *
2960178 AAGGAAAAAAGATTATATGATTTTTTAATTCAAATTATGTCAAATAAATAGATTATTAAAATATT
1 AAGGAAAAAAGATTATATGATTTTTTAATCCAAATCATGTCAAATAAATAGATTATTAAAATATT
* * *
2960243 AAACATTAAACAAAAAAATTTTTTAAATAAAGGAACAATAAAGAATTTAACCAACACTATTTGGG
66 AAACATTAAACAAAAAAA-TATTAAAATAAAGGAACAATAAAGAATTTAACCAACACTACTTGGG
2960308 GTTTTTATTT
130 GTTTTTATTT
* * * * *
2960318 ATGGAAAAAAGATTATGTGATTTTTTTATCCAAATCATGTGAAATAAATATATTATTAAAACTAT
1 AAGGAAAAAAGATTATATGATTTTTTAATCCAAATCATGTCAAATAAATAGATTATTAAAA-TAT
* * *
2960383 TAACCGTTAAACAAAAAAA-ATTAAAATAAAGGACCAATAAAGAATTTAACCAACACTACTTGGG
65 TAAACATTAAACAAAAAAATATTAAAATAAAGGAACAATAAAGAATTTAACCAACACTACTTGGG
*
2960447 TTTTTTATTT
130 GTTTTTATTT
*
2960457 AAGGAAAAGAGATTATATGATTTTTT
1 AAGGAAAAAAGATTATATGATTTTTT
2960483 GTCAAATAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
139 73 0.50
140 54 0.37
141 20 0.14
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (139 bp):
AAGGAAAAAAGATTATATGATTTTTTAATCCAAATCATGTCAAATAAATAGATTATTAAAATATT
AAACATTAAACAAAAAAATATTAAAATAAAGGAACAATAAAGAATTTAACCAACACTACTTGGGG
TTTTTATTT
Found at i:2965989 original size:15 final size:17
Alignment explanation
Indices: 2965969--2966000 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2965959 ATAACTTGGG
2965969 AAATTTT-TT-TTTGTA
1 AAATTTTCTTGTTTGTA
2965984 AAATTTTCTTGTTTGTA
1 AAATTTTCTTGTTTGTA
2966001 TATGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.62
Consensus pattern (17 bp):
AAATTTTCTTGTTTGTA
Found at i:2968845 original size:25 final size:25
Alignment explanation
Indices: 2968808--2968856 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2968798 TGTGTGTTGG
2968808 CTTAGAGCTTTAACACAATAAATGC
1 CTTAGAGCTTTAACACAATAAATGC
**
2968833 CTTAGAGGC-TTAACGTAATAAATG
1 CTTAGA-GCTTTAACACAATAAATG
2968857 TGGTGCACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (25 bp):
CTTAGAGCTTTAACACAATAAATGC
Found at i:2983057 original size:2 final size:2
Alignment explanation
Indices: 2983050--2983087 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
2983040 ATTGAAAATC
2983050 AT AT AT AT AT AT AT AT AT AT GAT AT -T AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT A
2983088 GTTACTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 29 0.88
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2983237 original size:12 final size:13
Alignment explanation
Indices: 2983204--2983237 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2983194 TATTAATTTT
2983204 AAATTATTTATAA
1 AAATTATTTATAA
2983217 AAATATATTT-TAA
1 AAAT-TATTTATAA
2983230 AAATTATT
1 AAATTATT
2983238 AAATTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:2995388 original size:23 final size:23
Alignment explanation
Indices: 2995343--2995388 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2995333 TCTCACTTTC
* *
2995343 ATTTTATTAAGGTTTGTTGAAAT
1 ATTTTATTAAAGTTTATTGAAAT
2995366 ATTTTATTTAAAGTTTATT-AAAT
1 ATTTTA-TTAAAGTTTATTGAAAT
2995389 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (23 bp):
ATTTTATTAAAGTTTATTGAAAT
Found at i:2998606 original size:28 final size:28
Alignment explanation
Indices: 2998575--2998641 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 28
2998565 TTACTGTTTT
*
2998575 TTGTTTTATGTTATTTTTGTTTATCTGA
1 TTGTTTTATGTTATTTATGTTTATCTGA
* * ** * *
2998603 TTGTATCAAATTGTTTATGTTTATCTTA
1 TTGTTTTATGTTATTTATGTTTATCTGA
2998631 TTGTTTT-TGTT
1 TTGTTTTATGTT
2998642 TATTCGATTG
Statistics
Matches: 28, Mismatches: 11, Indels: 1
0.70 0.28 0.03
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.66
Consensus pattern (28 bp):
TTGTTTTATGTTATTTATGTTTATCTGA
Found at i:3004666 original size:21 final size:21
Alignment explanation
Indices: 3004624--3004666 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3004614 TTTTTAATTT
*
3004624 ATTTTTAATGAAGTAATTTATA
1 ATTTTTAATGAAG-AATGTATA
3004646 ATTTTTAAGTGAA-AATGTATA
1 ATTTTTAA-TGAAGAATGTATA
3004667 TACATATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (21 bp):
ATTTTTAATGAAGAATGTATA
Found at i:3005560 original size:17 final size:18
Alignment explanation
Indices: 3005527--3005560 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3005517 AATAAGTTAC
3005527 AATTCAATTTGTCATTAA
1 AATTCAATTTGTCATTAA
*
3005545 AATTTAATTT-TCATTA
1 AATTCAATTTGTCATTA
3005561 TTGTTAACCT
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:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTCAATTTGTCATTAA
Found at i:3006076 original size:12 final size:12
Alignment explanation
Indices: 3006049--3006083 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3006039 ATCTACCCTC
*
3006049 AAATATAATCTTA
1 AAATAT-ATGTTA
3006062 AAATATATGTTA
1 AAATATATGTTA
3006074 AAATATATGT
1 AAATATATGT
3006084 ACATATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (12 bp):
AAATATATGTTA
Found at i:3006602 original size:34 final size:34
Alignment explanation
Indices: 3006546--3006630 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
3006536 TTTTAGATTG
* * * *
3006546 AAATAAATACAATAATAGCATAT-AAATGTAGTT
1 AAATAAATATAATATTATCATATAAAATGTAATT
*
3006579 AAAATAAATATAATATTATCATATAAAATTTAATT
1 -AAATAAATATAATATTATCATATAAAATGTAATT
*
3006614 AAATAAA-ATAATTTTAT
1 AAATAAATATAATATTAT
3006631 AAAAAAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 9 0.20
34 27 0.61
35 8 0.18
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (34 bp):
AAATAAATATAATATTATCATATAAAATGTAATT
Found at i:3007755 original size:3 final size:3
Alignment explanation
Indices: 3007747--3007777 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3007737 ATTTATATAT
3007747 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3007778 GTAAACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3010308 original size:20 final size:20
Alignment explanation
Indices: 3010279--3010327 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
3010269 GATATTTTTA
*
3010279 AATA-TTTATATTTAAAAAT
1 AATATTTTATATTAAAAAAT
3010298 AATATTTTATATTAAAAAAT
1 AATATTTTATATTAAAAAAT
3010318 AATATTTTAT
1 AATATTTTAT
3010328 TAATTTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTTTATATTAAAAAAT
Found at i:3014307 original size:20 final size:20
Alignment explanation
Indices: 3014281--3014335 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
3014271 TTATTTTATT
* *
3014281 TTATTTTTAAATATTTAATA
1 TTATTTTTTAATATTTAAAA
*
3014301 -TATTTTTTTATATTTAAAA
1 TTATTTTTTAATATTTAAAA
3014320 TTATTTTTTTAATATT
1 TTA-TTTTTTAATATT
3014336 ACCGACAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTTTTAATATTTAAAA
Found at i:3014310 original size:21 final size:21
Alignment explanation
Indices: 3014284--3014335 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3014274 TTTTATTTTA
* *
3014284 TTTTTAAATATTTAATA-TAT
1 TTTTTTAATATTTAAAATTAT
3014304 TTTTTT-ATATTTAAAATTAT
1 TTTTTTAATATTTAAAATTAT
3014324 TTTTTTAATATT
1 TTTTTTAATATT
3014336 ACCGACAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.32
20 14 0.50
21 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTAATATTTAAAATTAT
Found at i:3015899 original size:26 final size:25
Alignment explanation
Indices: 3015870--3015918 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
3015860 AGAGCATATC
* *
3015870 AATTATAATTATTACATTAAATAATT
1 AATTATAATT-TAAAATTAAATAATT
3015896 AATTATAATTTAAAATTAAATAA
1 AATTATAATTTAAAATTAAATAA
3015919 AATTTATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTATAATTTAAAATTAAATAATT
Found at i:3017156 original size:16 final size:16
Alignment explanation
Indices: 3017137--3017181 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
3017127 AATCAAAAAT
3017137 AAAAAAATAAAATTGA
1 AAAAAAATAAAATTGA
**
3017153 AAAAGGATAAAATTGA
1 AAAAAAATAAAATTGA
3017169 AAAAAAATTAAAA
1 AAAAAAA-TAAAA
3017182 ATTAAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAAATAAAATTGA
Found at i:3017189 original size:16 final size:15
Alignment explanation
Indices: 3017124--3017174 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
3017114 TAATAAAAAT
*
3017124 AAAAATCAAAAAT-AA
1 AAAAAT-AAAATTGAA
3017139 AAAAATAAAATTGAA
1 AAAAATAAAATTGAA
*
3017154 AAAGGATAAAATTGAA
1 AAA-AATAAAATTGAA
3017170 AAAAA
1 AAAAA
3017175 ATTAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 5 0.16
15 12 0.39
16 14 0.45
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAAATAAAATTGAA
Found at i:3017198 original size:16 final size:14
Alignment explanation
Indices: 3017124--3017189 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 14
3017114 TAATAAAAAT
*
3017124 AAAAATCAAAAATAA
1 AAAAAT-AAAATTAA
3017139 AAAAATAAAATTGAA
1 AAAAATAAAATT-AA
*
3017154 AAAGGATAAAATTGAAA
1 AAA-AATAAAATT--AA
3017171 AAAAATTAAAAATTAA
1 AAAAA-T-AAAATTAA
3017187 AAA
1 AAA
3017190 TGAATAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 5 0.12
15 11 0.26
16 14 0.33
17 6 0.14
18 6 0.14
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAATAAAATTAA
Found at i:3018176 original size:27 final size:25
Alignment explanation
Indices: 3018145--3018198 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
3018135 TTTTCTAAAT
*
3018145 AAAAACCAAAAAATGAAAAAAATAAGA
1 AAAAACAAAAAAAT-AAAAAAA-AAGA
*
3018172 AAAAACAAAAAAATAAATAAAAAGA
1 AAAAACAAAAAAATAAAAAAAAAGA
3018197 AA
1 AA
3018199 TATAATGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 13 0.52
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.07
Consensus pattern (25 bp):
AAAAACAAAAAAATAAAAAAAAAGA
Found at i:3023306 original size:8 final size:8
Alignment explanation
Indices: 3023293--3023343 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
3023283 GATTTTTGCT
3023293 AATAAAAA
1 AATAAAAA
3023301 AAT-AAAA
1 AATAAAAA
*
3023308 CATAAAAA
1 AATAAAAA
*
3023316 ATTAAAAA
1 AATAAAAA
*
3023324 ATTAAAAA
1 AATAAAAA
*
3023332 ACTAAAAA
1 AATAAAAA
3023340 AATA
1 AATA
3023344 GATAGTTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 6 0.16
8 31 0.84
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:3023323 original size:16 final size:15
Alignment explanation
Indices: 3023293--3023340 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
3023283 GATTTTTGCT
3023293 AATAAAAAAATAAAA
1 AATAAAAAAATAAAA
* *
3023308 CATAAAAAATTAAAA
1 AATAAAAAAATAAAA
*
3023323 AATTAAAAAACTAAAA
1 AA-TAAAAAAATAAAA
3023339 AA
1 AA
3023341 ATAGATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAAAAATAAAA
Found at i:3024487 original size:55 final size:54
Alignment explanation
Indices: 3024386--3024526 Score: 200
Period size: 55 Copynumber: 2.6 Consensus size: 54
3024376 AAATTGACTT
3024386 AAATGGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAATTTCTAAATAAGG-CC
1 AAATGGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAATTTCTAAAT-AGGCCC
*
3024440 AAATGGTGAAAAATTTAGAAATCTAACAACAAAAAAA-AGAA-TTCTAAATAGGCCC
1 AAATGGTAAAAAATTTAGAAATC---CAACAAAAAAAGAGAATTTCTAAATAGGCCC
*
3024495 AAATGGTAAAAAATTTAGAAATTCAA-AAAAAA
1 AAATGGTAAAAAATTTAGAAATCCAACAAAAAA
3024527 TATTTTTAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
51 6 0.08
52 3 0.04
54 25 0.31
55 31 0.39
56 4 0.05
57 11 0.14
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (54 bp):
AAATGGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAATTTCTAAATAGGCCC
Found at i:3024562 original size:49 final size:49
Alignment explanation
Indices: 3024386--3024551 Score: 136
Period size: 55 Copynumber: 3.2 Consensus size: 49
3024376 AAATTGACTT
* *
3024386 AAATGGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAATTTCTAAATAAGG-CC
1 AAATGATAAAAAATTTAGAAAT---TCAAAAAAA-AGAA-TTCTAAAT-AGGCCC
* *
3024440 AAATGGTGAAAAATTTAGAAATCTAACAACAAAAAAAAGAATTCTAAATAGGCCC
1 AAATGATAAAAAATTTAGAAAT-T-----CAAAAAAAAGAATTCTAAATAGGCCC
* * * * *
3024495 AAATGGTAAAAAATTTAGAAATTCAAAAAAAATATTTTTAATTAGGCCC
1 AAATGATAAAAAATTTAGAAATTCAAAAAAAAGAATTCTAAATAGGCCC
3024544 AAATGATA
1 AAATGATA
3024552 GAATAATTAG
Statistics
Matches: 97, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
49 29 0.30
54 25 0.26
55 31 0.32
56 4 0.04
57 8 0.08
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.23
Consensus pattern (49 bp):
AAATGATAAAAAATTTAGAAATTCAAAAAAAAGAATTCTAAATAGGCCC
Found at i:3027109 original size:32 final size:31
Alignment explanation
Indices: 3027043--3027112 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
3027033 ATTTGGGTTG
* *
3027043 TTTTCTTATTGATTATACATCTATTTTAAAA
1 TTTTCTTATTGATTAGAAATCTATTTTAAAA
* *
3027074 TTTT-TTATTGATTAGAAATCTTTATTTTTATA
1 TTTTCTTATTGATTAGAAATC--TATTTTAAAA
3027106 TTTTCTT
1 TTTTCTT
3027113 TTAATATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 14 0.44
31 4 0.12
32 12 0.38
33 2 0.06
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (31 bp):
TTTTCTTATTGATTAGAAATCTATTTTAAAA
Found at i:3028482 original size:23 final size:21
Alignment explanation
Indices: 3028452--3028495 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
3028442 TTACCTAAGG
3028452 ATTTCTTAAGAATTGCTACTCAT
1 ATTTCTTAAGAA-TGCTA-TCAT
3028475 ATTTCTTAAGAATGCTATCAT
1 ATTTCTTAAGAATGCTATCAT
3028496 CGGTAGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 5 0.24
23 12 0.57
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
ATTTCTTAAGAATGCTATCAT
Found at i:3029320 original size:3 final size:3
Alignment explanation
Indices: 3029312--3029363 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
3029302 TTTCCTCCAT
3029312 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3029360 TTA T
1 TTA T
3029364 CTCATTCTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3035611 original size:333 final size:332
Alignment explanation
Indices: 3034443--3035704 Score: 1598
Period size: 331 Copynumber: 3.8 Consensus size: 332
3034433 TGAAAGCGGC
** * * * * * *
3034443 TTATAATAAAAGAAGCCTTTAATAATC-CAAAAATTTTTTTTTGAGAAAATATTGAAGGTGTTGT
1 TTATAATAAAAGAA-CCTTTAATAATCTTGAAAACTTTTATTAGAGAAATTATTGAAGGCGTTAT
* * * * * **
3034507 GATT-TGAAACCGCATTCAGTAATTATATACAAACTGTTATAAGAATTATTAAATGTGTCTATCT
65 -TTTCTGAAACCACATTCAGTAATTATATACAAACTGTGAGAAGAATTATTAAAGGCATCTATCT
* * * *
3034571 TAAATATACGTCTTCAATAACAGTGTTACAATTTGTGTGGTGGTATATATAAGGTATTTTACATT
129 TAAATATACGCCTTCAATAACAATGTTACAATTTGTGTGGTGGTATATAGAAGGTATTTTACAGT
* * * *
3034636 AAAAGACGCTTTTACTAATTTTTAAAA-ATTTAGTGAAAAAATTTTGAATGCGTCTGTTATTAAC
194 AAAAGACGCCTTTACTAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAAC
* * ** *
3034700 AAACGCCTTCAGTAATTGAATGCACATTTTCTAATAAACACCTTT-CATTACCATTGTGGTATAT
259 AAACGCCTTCAGTAATTGAAAGCCCATTTTCTAATAAA-TGCTTTCCATTACCATCGTGGTATAT
*
3034764 CGAAGGCATT
323 CGAAGGCGTT
* * * *
3034774 TTATAAT-AAAG-ACGTCTTTAATAATCTTGGAAACTTTTATTAGAAAAATTATTGAAGGCATTG
1 TTATAATAAAAGAAC--CTTTAATAATCTTGAAAACTTTTATTAGAGAAATTATTGAAGGCGTTA
* * *
3034837 TTTTCTAAAACCACCTTCAGTAATTATATACAAACTGTGAGAAAAATTATTAAAGGCATCTATCT
64 TTTTCTGAAACCACATTCAGTAATTATATACAAACTGTGAGAAGAATTATTAAAGGCATCTATCT
3034902 TAAATATACGCCTTCAATAACAATGTTA-AATTTGTGTGGTGGTATATAGAAGGTATTTTACAGT
129 TAAATATACGCCTTCAATAACAATGTTACAATTTGTGTGGTGGTATATAGAAGGTATTTTACAGT
* * * *
3034966 AGAAGATGCCTTTAATAATTCTCAAAATATTTAGT-AAAAAATTTTTGAAGGCTTCTGTTATTAA
194 AAAAGACGCCTTTACTAATTCTCAAAATATTTAGTGAAAAAA-TTTTGAAGGCGTCTGTTATTAA
*
3035030 CAAACGACTTCAGTAATTGAAAGCGCC-TTTTCTAATAAATG-TCTTCCATTACCATCGTGGTAT
258 CAAACGCCTTCAGTAATTGAAAGC-CCATTTTCTAATAAATGCT-TTCCATTACCATCGTGGTAT
3035093 ATCGAAGGCGTT
321 ATCGAAGGCGTT
** * * *
3035105 TTATAATAAAAGATGCTTTAATAATCCTGAAAACTTTTATTA-AGAAAATTATTAAATGCGTTAT
1 TTATAATAAAAGAACCTTTAATAATCTTGAAAACTTTTATTAGAG-AAATTATTGAAGGCGTTAT
* *
3035169 TTTCTGAAACCACATTTAGTAATTATATACAAACTGTGAGAGGAATTATTAAAGGCATCTATCTT
65 TTTCTGAAACCACATTCAGTAATTATATACAAACTGTGAGAAGAATTATTAAAGGCATCTATCTT
* *
3035234 AAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGGTGGTATATAGAAGATATTTTACAGTA
130 AAATATACGCCTTCAATAACAATGTTACAATTTGTGTGGTGGTATATAGAAGGTATTTTACAGTA
* * * * *
3035299 GAAGATGCCTTTACTAATTCTCAAAATATTTAGTGGAAAAATTTTGATGGCGTCTGTTATTAATA
195 AAAGACGCCTTTACTAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACA
* * *
3035364 AATGCCTTCAATAATTGAAGGCCCATTTTCTAATAAATGCTTTCCATTACCATCGTGGTATATCG
260 AACGCCTTCAGTAATTGAAAGCCCATTTTCTAATAAATGCTTTCCATTACCATCGTGGTATATCG
**
3035429 AAAACGTT
325 AAGGCGTT
* *
3035437 TTATAATGAAAGACACCTTTAATAAT-TTGAAAAAATTTTATTAGAGAAATTATTGAAGGCGTTA
1 TTATAATAAAAGA-ACCTTTAATAATCTTG-AAAACTTTTATTAGAGAAATTATTGAAGGCGTTA
* * * * * * ** *
3035501 TTTTTTGAAATCGCCTTCAGTAATTATATACAAACAGTGAGAGGAATTATTAAATACGTCTATCT
64 TTTTCTGAAACCACATTCAGTAATTATATACAAACTGTGAGAAGAATTATTAAAGGCATCTATCT
* * * * *
3035566 TAACTATACGCCTTCAATAACAATGTTACAATATGTGTAGTGGTATATAAAAGGTATTTTATAGT
129 TAAATATACGCCTTCAATAACAATGTTACAATTTGTGTGGTGGTATATAGAAGGTATTTTACAGT
* *
3035631 AAAAGACACCTTT-CATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCTTCTGTT-TCTA
194 AAAAGACGCCTTTAC-TAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTAT-TA
*
3035694 ACAAATGCCTT
257 ACAAACGCCTT
3035705 TTGTGATGGA
Statistics
Matches: 814, Mismatches: 96, Indels: 40
0.86 0.10 0.04
Matches are distributed among these distances:
328 1 0.00
329 2 0.00
330 81 0.10
331 334 0.41
332 173 0.21
333 221 0.27
334 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (332 bp):
TTATAATAAAAGAACCTTTAATAATCTTGAAAACTTTTATTAGAGAAATTATTGAAGGCGTTATT
TTCTGAAACCACATTCAGTAATTATATACAAACTGTGAGAAGAATTATTAAAGGCATCTATCTTA
AATATACGCCTTCAATAACAATGTTACAATTTGTGTGGTGGTATATAGAAGGTATTTTACAGTAA
AAGACGCCTTTACTAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAA
ACGCCTTCAGTAATTGAAAGCCCATTTTCTAATAAATGCTTTCCATTACCATCGTGGTATATCGA
AGGCGTT
Found at i:3046584 original size:22 final size:20
Alignment explanation
Indices: 3046559--3046598 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
3046549 TTTTTCTTCT
3046559 TTTTAAAATATTTTTCATAAAA
1 TTTTAAAAT-TTTTT-ATAAAA
*
3046581 TTTTATAATTTTTTATAA
1 TTTTAAAATTTTTTATAA
3046599 TTTTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAAATTTTTTATAAAA
Found at i:3047659 original size:24 final size:24
Alignment explanation
Indices: 3047602--3047659 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
3047592 TTGCAAATAA
*
3047602 ATTATT-TTAATTATCAATTTTTT
1 ATTATTATTAAATATCAATTTTTT
* *
3047625 -TTTTTAATAAATAT-AATATTTTT
1 ATTATTATTAAATATCAAT-TTTTT
3047648 ATTATTATTAAA
1 ATTATTATTAAA
3047660 AAAAACTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 9 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTATTAAATATCAATTTTTT
Found at i:3047735 original size:30 final size:29
Alignment explanation
Indices: 3047661--3047736 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
3047651 ATTATTAAAA
* * *
3047661 AAAACTATTCTTTATAATATTTTTTTATTC
1 AAAA-TATTATTTATAATATTATTTAATTC
*
3047691 ACTAATATTATTTATAATATTATTTAATTC
1 A-AAATATTATTTATAATATTATTTAATTC
*
3047721 AAAATTATTTTTTATA
1 AAAA-TATTATTTATA
3047737 CATAAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 34 0.89
31 2 0.05
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (29 bp):
AAAATATTATTTATAATATTATTTAATTC
Found at i:3054911 original size:63 final size:60
Alignment explanation
Indices: 3054790--3054911 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 60
3054780 AAGAGTATCA
* * * *
3054790 AATTATATAATATTATAAATAATTTTAAATTTTACTTCAATACTTTTATATGATAAATAT
1 AATTATATAATAATATAAACAATTTTAAAATTTACTTCAATACTTTCATATGATAAATAT
* * *
3054850 AATTATATAATTTAATATAAACAATTTTAAAATTTATTTTCAGTAAC-TTCATTTGATAAATA
1 AATTATATAA--TAATATAAACAATTTTAAAATTTA-CTTCAAT-ACTTTCATATGATAAATA
3054912 CAACCTAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
60 10 0.20
62 21 0.41
63 18 0.35
64 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (60 bp):
AATTATATAATAATATAAACAATTTTAAAATTTACTTCAATACTTTCATATGATAAATAT
Found at i:3067089 original size:21 final size:23
Alignment explanation
Indices: 3067040--3067100 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
3067030 TTATTAATGA
* *
3067040 ATAAGTAATATTTAATTAAATTT
1 ATAATTAAAATTTAATTAAATTT
*
3067063 ATAATTAAAATTTAA-TAATTTT
1 ATAATTAAAATTTAATTAAATTT
3067085 A-AATT-AAATATTAATT
1 ATAATTAAAAT-TTAATT
3067101 TAATAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 4 0.12
21 8 0.24
22 8 0.24
23 13 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAATTAAAATTTAATTAAATTT
Found at i:3067135 original size:31 final size:26
Alignment explanation
Indices: 3067070--3067119 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
3067060 TTTATAATTA
3067070 AAATTTAATAATTTTAAATTAAATAT
1 AAATTTAATAATTTTAAATTAAATAT
*
3067096 TAATTTAATAA-TTTAAA-TAAATAT
1 AAATTTAATAATTTTAAATTAAATAT
3067120 CAATCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 6 0.26
26 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AAATTTAATAATTTTAAATTAAATAT
Found at i:3067923 original size:22 final size:22
Alignment explanation
Indices: 3067884--3067933 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
3067874 ATACATCACT
*
3067884 TATAATT-TTTTATTATAATAA
1 TATAATTATTTAATTATAATAA
3067905 TATAATTATTTAATTATAATAA
1 TATAATTATTTAATTATAATAA
3067927 -A-AATTAT
1 TATAATTAT
3067934 ATAAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.22
21 8 0.30
22 13 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATAATTATTTAATTATAATAA
Found at i:3068021 original size:17 final size:17
Alignment explanation
Indices: 3067969--3068021 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
3067959 AAATTTTTTA
*
3067969 TAAATTTTATATAATT-T
1 TAAATTATA-ATAATTAT
3067986 TAAATTATAATTAATTTAT
1 TAAATTATAA-TAA-TTAT
*
3068005 TATATTATAATAATTAT
1 TAAATTATAATAATTAT
3068022 ACGTGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 5 0.16
19 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATTATAATAATTAT
Found at i:3070760 original size:21 final size:22
Alignment explanation
Indices: 3070721--3070764 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3070711 AATAATGTTT
3070721 TTTAACTAAATTTATAATTGAAA
1 TTTAACTAAATTTATAATT-AAA
*
3070744 TTTAA-TAATTTTA-AATTAAA
1 TTTAACTAAATTTATAATTAAA
3070764 T
1 T
3070765 ATAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 7 0.35
23 5 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTAACTAAATTTATAATTAAA
Found at i:3074380 original size:3 final size:3
Alignment explanation
Indices: 3074372--3074408 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3074362 ACATGATTTG
3074372 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3074409 CAACAACAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3075273 original size:2 final size:2
Alignment explanation
Indices: 3075261--3075295 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3075251 TTCATATTAA
*
3075261 AT AT AT GT 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 AT A
3075296 ACTTGACTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3076521 original size:16 final size:16
Alignment explanation
Indices: 3076500--3076530 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3076490 TAATGAAATT
3076500 TATTAAAAAAATTATA
1 TATTAAAAAAATTATA
*
3076516 TATTAAATAAATTAT
1 TATTAAAAAAATTAT
3076531 TATAATGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAAAAAAATTATA
Found at i:3076670 original size:25 final size:24
Alignment explanation
Indices: 3076616--3076671 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3076606 TTTATTCGTG
*
3076616 TTATA-AAATTTATTAAATACATA
1 TTATACAAATTTATGAAATACATA
3076639 TTAATACAAATTATATGAAA-ACATA
1 TT-ATACAAATT-TATGAAATACATA
3076664 TATATACA
1 T-TATACA
3076672 TACATGCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 3 0.11
25 16 0.57
26 7 0.25
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (24 bp):
TTATACAAATTTATGAAATACATA
Found at i:3077539 original size:80 final size:80
Alignment explanation
Indices: 3077366--3077542 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 80
3077356 AAGAAAACCC
* * * *
3077366 AAAAGATACAATCAATAATCACAATTAATAAATAAATATTATTTTTAAAATTGAAGAAATCGAAA
1 AAAAGATACAATTAATAATCACAATCAATAAAGAAATATTATTTTTAAAATTAAAGAAATCGAAA
*
3077431 AGATAAAAAAAGCTA
66 AGATAAAAAAAGCAA
* * * * * *
3077446 AAAATACATAATTAATTATCATAATCAATAGAGAAATATTATTTTT-AAATTCAAAGAAAAT-GA
1 AAAAGATACAATTAATAATCACAATCAATAAAGAAATATTATTTTTAAAATT-AAAG-AAATCGA
* *
3077509 AAAGGTAAAGAAAGCAA
64 AAAGATAAAAAAAGCAA
3077526 AAAAGATACAATTAATA
1 AAAAGATACAATTAATA
3077543 GATAAGTATT
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 5 0.06
80 69 0.88
81 4 0.05
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (80 bp):
AAAAGATACAATTAATAATCACAATCAATAAAGAAATATTATTTTTAAAATTAAAGAAATCGAAA
AGATAAAAAAAGCAA
Found at i:3081540 original size:81 final size:82
Alignment explanation
Indices: 3081445--3081596 Score: 252
Period size: 83 Copynumber: 1.9 Consensus size: 82
3081435 TATAACAGGG
*
3081445 CTGTATGCTTATTATGGGAAAGAGT-GATATTTTTTGTTGCTTATGAATAAACTACAATTCTATG
1 CTGTATGCTTATTATGGGAAAGAGTAGATATTTTTTGTTGCTTATGAATAAACTACAATTCCATG
3081509 CCAATAATATAATTAGA
66 CCAATAATATAATTAGA
* **
3081526 CTGTATGCTTATTATGGGAAAGAGTGAGATATTTTTTGTTGCTTGTGAATAATGTACAATTCCAT
1 CTGTATGCTTATTATGGGAAAGAGT-AGATATTTTTTGTTGCTTATGAATAAACTACAATTCCAT
3081591 GCCAAT
65 GCCAAT
3081597 GTTAGTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
81 25 0.38
83 40 0.62
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (82 bp):
CTGTATGCTTATTATGGGAAAGAGTAGATATTTTTTGTTGCTTATGAATAAACTACAATTCCATG
CCAATAATATAATTAGA
Found at i:3084612 original size:21 final size:22
Alignment explanation
Indices: 3084577--3084622 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
3084567 TTCCTTACCA
3084577 TCTAATTTCCCATTGAACTATT
1 TCTAATTTCCCATTGAACTATT
*
3084599 TCTAATTT-CCATTGACCTATT
1 TCTAATTTCCCATTGAACTATT
3084620 TCT
1 TCT
3084623 GAAAACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (22 bp):
TCTAATTTCCCATTGAACTATT
Found at i:3085238 original size:20 final size:21
Alignment explanation
Indices: 3085197--3085252 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
3085187 ATTCATTTAA
*
3085197 TAAAACTTTTTA-ATATAGAAT
1 TAAAA-TTTTTATTTATAGAAT
3085218 TAAAATTTTTATTTATA-AAT
1 TAAAATTTTTATTTATAGAAT
*
3085238 TGAATAAATTTTATT
1 T-AA-AATTTTTATT
3085253 AATATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 10 0.33
21 11 0.37
22 9 0.30
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
TAAAATTTTTATTTATAGAAT
Found at i:3088771 original size:3 final size:3
Alignment explanation
Indices: 3088763--3088799 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3088753 ACATGATTTG
3088763 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3088800 AACAACAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3089676 original size:2 final size:2
Alignment explanation
Indices: 3089658--3089692 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3089648 ATCATATTAA
* *
3089658 AT AT AT GT AT AT CT 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 AT A
3089693 AACTTGACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3090908 original size:15 final size:16
Alignment explanation
Indices: 3090888--3090917 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3090878 ATAATGAATT
3090888 TATTAAA-AAATTATA
1 TATTAAATAAATTATA
3090903 TATTAAATAAATTAT
1 TATTAAATAAATTAT
3090918 TATAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAAATAAATTATA
Found at i:3091035 original size:24 final size:24
Alignment explanation
Indices: 3091004--3091069 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
3090994 TTATTCATGT
3091004 TATA-AAATTTATTAAATACATATA
1 TATACAAATTTATTAAA-ACATATA
*
3091028 -ATACAAATTATATGAAAACATATA
1 TATACAAATT-TATTAAAACATATA
3091052 TATACATACATTTATTAA
1 TATACA-A-ATTTATTAA
3091070 TACTATCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
23 3 0.09
24 12 0.34
25 11 0.31
26 6 0.17
27 3 0.09
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TATACAAATTTATTAAAACATATA
Found at i:3091934 original size:80 final size:80
Alignment explanation
Indices: 3091750--3091942 Score: 224
Period size: 80 Copynumber: 2.4 Consensus size: 80
3091740 TAAAAAAAAA
* * * **
3091750 AAAAAAAACCCAAAAGATACAATCAATGATAACAATTAATAAATAAATATTATTTTTAAAATTGA
1 AAAAAAAGCCAAAAAGATACAATTAATGATAACAATTAATAAATAAATATTATTTTTAAAATCAA
* *
3091815 AGAAATTGAAAAGAT
66 AGAAAATAAAAAGAT
* * * * * * * *
3091830 AAAAAAAGCTAAAAATACATAATTAATTATCATAATTAATAGATAAATATTATTTTTAAAATCAA
1 AAAAAAAGCCAAAAAGATACAATTAATGATAACAATTAATAAATAAATATTATTTTTAAAATCAA
*
3091895 AGAAAATAAAAAGGT
66 AGAAAATAAAAAGAT
*
3091910 AAAGAAAGCCAAAAAGATACAATTAATAGATAA
1 AAAAAAAGCCAAAAAGATACAATTAAT-GATAA
3091943 GTATTATTTT
Statistics
Matches: 89, Mismatches: 23, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
80 86 0.97
81 3 0.03
ACGTcount: A:0.60, C:0.07, G:0.08, T:0.26
Consensus pattern (80 bp):
AAAAAAAGCCAAAAAGATACAATTAATGATAACAATTAATAAATAAATATTATTTTTAAAATCAA
AGAAAATAAAAAGAT
Found at i:3095924 original size:81 final size:82
Alignment explanation
Indices: 3095827--3095980 Score: 249
Period size: 83 Copynumber: 1.9 Consensus size: 82
3095817 AATATAACAG
3095827 GACTGTATGCTTATTATGGGAAAGAGT-GATATTTTTGGTTGCTTATGAATAAAGTACAAATT-T
1 GACTGTATGCTTATTATGGGAAAGAGTAGATATTTTTGGTTGCTTATGAATAAAGTAC-AATTCT
3095890 ATGCCAATAATATAATTA
65 ATGCCAATAATATAATTA
* * *
3095908 GACTGTATGCTTATTATGGGAAAGAGTGAGATATTTTTTGTTGCTTGTGAATAATGTACAATTCT
1 GACTGTATGCTTATTATGGGAAAGAGT-AGATATTTTTGGTTGCTTATGAATAAAGTACAATTCT
3095973 ATGCCAAT
65 ATGCCAAT
3095981 GTTAGTCATG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
81 27 0.40
82 4 0.06
83 36 0.54
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (82 bp):
GACTGTATGCTTATTATGGGAAAGAGTAGATATTTTTGGTTGCTTATGAATAAAGTACAATTCTA
TGCCAATAATATAATTA
Found at i:3098996 original size:22 final size:22
Alignment explanation
Indices: 3098968--3099014 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
3098958 TTCCTTACCA
3098968 TCTAATTTCCCATTGAACTATT
1 TCTAATTTCCCATTGAACTATT
3098990 TCTAATTTCCCATTGAACTATT
1 TCTAATTTCCCATTGAACTATT
3099012 TCT
1 TCT
3099015 GAAAACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.04, T:0.47
Consensus pattern (22 bp):
TCTAATTTCCCATTGAACTATT
Found at i:3099632 original size:21 final size:21
Alignment explanation
Indices: 3099594--3099653 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
3099584 ATTCATTTAA
*
3099594 TAAAACTTTTTAAT-ATAAAAT
1 TAAAA-TTTTTATTAATAAAAT
3099615 TAAAATTTTTATTAAT-AAAT
1 TAAAATTTTTATTAATAAAAT
*
3099635 TGAATAAATTTTATTAATA
1 T-AA-AATTTTTATTAATA
3099654 TTTTATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 12 0.36
21 9 0.27
22 12 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAAATTTTTATTAATAAAAT
Found at i:3111061 original size:74 final size:74
Alignment explanation
Indices: 3110964--3111113 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 74
3110954 AAAATAAATG
* * * * * *
3110964 AAATAGTCGATCAATTTTTTTAATTAAAACTTCGATCAAATTGGCTCAAAATTAATAACAGAGAA
1 AAATAATCAATCAATTATCTTAATTAAAACTTCGATCAAATTCGCTCAAAATTAATAACAGACAA
3111029 AAGAATAAA
66 AAGAATAAA
* *
3111038 AAATAATCAATCAATTATCTTAATTAAAACTTTGATCAAATTCGCTCAAAATTAATAATAGACAA
1 AAATAATCAATCAATTATCTTAATTAAAACTTCGATCAAATTCGCTCAAAATTAATAACAGACAA
*
3111103 GAGAATAAA
66 AAGAATAAA
3111112 AA
1 AA
3111114 TAAAAATAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (74 bp):
AAATAATCAATCAATTATCTTAATTAAAACTTCGATCAAATTCGCTCAAAATTAATAACAGACAA
AAGAATAAA
Found at i:3112374 original size:17 final size:17
Alignment explanation
Indices: 3112348--3112380 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3112338 TTTGATAATT
3112348 ATTTAA-TTTTAAAAAA
1 ATTTAATTTTTAAAAAA
3112364 ATTTAAATTTTTAAAAA
1 ATTT-AATTTTTAAAAA
3112381 TATAGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 2 0.13
18 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAATTTTTAAAAAA
Found at i:3112921 original size:12 final size:13
Alignment explanation
Indices: 3112898--3112927 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
3112888 ATTATCAGAT
3112898 ATATTATAATATA
1 ATATTATAATATA
3112911 ATATTAT-ATATA
1 ATATTATAATATA
3112923 ATATT
1 ATATT
3112928 GATAGCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATTATAATATA
Found at i:3113257 original size:24 final size:24
Alignment explanation
Indices: 3113230--3113298 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
3113220 AAAAATAAAC
3113230 TTGATTCGTATACTCAACAAAAGT
1 TTGATTCGTATACTCAACAAAAGT
*
3113254 TTGA-T--TAT--T-AAAAATAAGT
1 TTGATTCGTATACTCAACAA-AAGT
3113273 TTGATTCGTATACTCAACAAAAGT
1 TTGATTCGTATACTCAACAAAAGT
3113297 TT
1 TT
3113299 AATTATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 4 0.11
19 9 0.25
20 1 0.03
21 3 0.08
22 3 0.08
23 1 0.03
24 11 0.31
25 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
TTGATTCGTATACTCAACAAAAGT
Found at i:3113267 original size:43 final size:43
Alignment explanation
Indices: 3113211--3113305 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
3113201 TTAAGCTCGA
3113211 TTAA-TATGTAAAAATAAACTTGATTCGTATACTCAACAAAAGT
1 TTAATTAT-TAAAAATAAACTTGATTCGTATACTCAACAAAAGT
* **
3113254 TTGATTATTAAAAATAAGTTTGATTCGTATACTCAACAAAAGT
1 TTAATTATTAAAAATAAACTTGATTCGTATACTCAACAAAAGT
3113297 TTAATTATT
1 TTAATTATT
3113306 TATGCTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
43 44 0.94
44 3 0.06
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (43 bp):
TTAATTATTAAAAATAAACTTGATTCGTATACTCAACAAAAGT
Found at i:3113753 original size:18 final size:19
Alignment explanation
Indices: 3113721--3113758 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3113711 CATGAATAAA
* *
3113721 TTTTTAAAATCAATTTATT
1 TTTTTAAAATAAATTAATT
3113740 TTTTTAAAA-AAATTAATT
1 TTTTTAAAATAAATTAATT
3113758 T
1 T
3113759 CTAAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTAAAATAAATTAATT
Found at i:3123945 original size:11 final size:11
Alignment explanation
Indices: 3123929--3123953 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3123919 AAATCAATGA
3123929 ACTCTTCCTTC
1 ACTCTTCCTTC
3123940 ACTCTTCCTTC
1 ACTCTTCCTTC
3123951 ACT
1 ACT
3123954 GATGTTCGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTCTTCCTTC
Found at i:3125203 original size:25 final size:27
Alignment explanation
Indices: 3125155--3125205 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
3125145 TTATAATTAA
**
3125155 TTAATAAATAAATATATTTTGACATCT
1 TTAATAAATAAATATATTAAGACATCT
3125182 TTAATAAAT-AA-ATATTAAGACATC
1 TTAATAAATAAATATATTAAGACATC
3125206 ATCAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 2 0.09
27 9 0.41
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (27 bp):
TTAATAAATAAATATATTAAGACATCT
Found at i:3125476 original size:2 final size:2
Alignment explanation
Indices: 3125463--3125503 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
3125453 TCTTTAACTC
*
3125463 TA TA TC TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3125503 T
1 T
3125504 CCTAATCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:3125496 original size:18 final size:18
Alignment explanation
Indices: 3125463--3125504 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
3125453 TCTTTAACTC
3125463 TATATCTATATATATATA
1 TATATCTATATATATATA
3125481 TATAT-TATATATTATATA
1 TATATCTATATA-TATATA
3125499 TATATC
1 TATATC
3125505 CTAATCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATCTATATATATATA
Found at i:3125764 original size:21 final size:21
Alignment explanation
Indices: 3125740--3125807 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
3125730 TAGTTGTACT
3125740 TTAATTTTTTTAAACATTTAA
1 TTAATTTTTTTAAACATTTAA
* * * *
3125761 TTAAAATTTTTTATA-GTTGTACT
1 TT-AATTTTTTTAAACATT-TA-A
*
3125784 TTAATTTATTTAAACA-TTAA
1 TTAATTTTTTTAAACATTTAA
3125804 TTAA
1 TTAA
3125808 AAGTTAAGTA
Statistics
Matches: 34, Mismatches: 9, Indels: 9
0.65 0.17 0.17
Matches are distributed among these distances:
20 4 0.12
21 6 0.18
22 22 0.65
23 2 0.06
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (21 bp):
TTAATTTTTTTAAACATTTAA
Found at i:3125784 original size:44 final size:43
Alignment explanation
Indices: 3125725--3125809 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 43
3125715 ACGAATGCAA
*
3125725 TTTTATAGTTGTACTTTAATTTTTTTAAACATTTAATTAAAATT
1 TTTTATAGTTGTACTTTAATTTATTTAAACA-TTAATTAAAATT
3125769 TTTTATAGTTGTACTTTAATTTATTTAAACATTAATTAAAA
1 TTTTATAGTTGTACTTTAATTTATTTAAACATTAATTAAAA
3125810 GTTAAGTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 10 0.25
44 30 0.75
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (43 bp):
TTTTATAGTTGTACTTTAATTTATTTAAACATTAATTAAAATT
Found at i:3125787 original size:23 final size:23
Alignment explanation
Indices: 3125725--3125787 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
3125715 ACGAATGCAA
*
3125725 TTTTATAGTTGTACTTT-AATTT
1 TTTTATAGTTGTACTTTAAAATT
* * *
3125747 TTTTAAACATT-TA-ATTAAAATT
1 TTTTATA-GTTGTACTTTAAAATT
3125769 TTTTATAGTTGTACTTTAA
1 TTTTATAGTTGTACTTTAA
3125788 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
21 4 0.13
22 20 0.67
23 6 0.20
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTTATAGTTGTACTTTAAAATT
Found at i:3133342 original size:74 final size:75
Alignment explanation
Indices: 3133211--3133361 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 75
3133201 AAAATAAATG
* * * * *
3133211 AAATAGTCAATCAATTTTTTACTTAAAACTTCGATCAAATTGGCTCAAAAATTAATAA-CAGAGA
1 AAATAATCAATCAATTTCTTAATTAAAACTTCGATCAAATTCGCTCAAAAATTAATAATCAGACA
3133275 AAAGAATAAA
66 AAAGAATAAA
* *
3133285 AAATAATCAATCAATTATCTTAATTAAAACTTTGATCAAATTCGCTC-AAAATTAATAATTAGAC
1 AAATAATCAATCAATT-TCTTAATTAAAACTTCGATCAAATTCGCTCAAAAATTAATAATCAGAC
*
3133349 AAGAGAATAAA
65 AAAAGAATAAA
3133360 AA
1 AA
3133362 TAAAAATAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
74 26 0.39
75 41 0.61
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (75 bp):
AAATAATCAATCAATTTCTTAATTAAAACTTCGATCAAATTCGCTCAAAAATTAATAATCAGACA
AAAGAATAAA
Found at i:3135505 original size:24 final size:24
Alignment explanation
Indices: 3135478--3135546 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
3135468 AAAAATAAAC
3135478 TTGATTCGTATACTCAACAAAAGT
1 TTGATTCGTATACTCAACAAAAGT
*
3135502 TTGA-T--TAT--T-AAAAATAAGT
1 TTGATTCGTATACTCAACAA-AAGT
3135521 TTGATTCGTATACTCAACAAAAGT
1 TTGATTCGTATACTCAACAAAAGT
3135545 TT
1 TT
3135547 AATTATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 4 0.11
19 9 0.25
20 1 0.03
21 3 0.08
22 3 0.08
23 1 0.03
24 11 0.31
25 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
TTGATTCGTATACTCAACAAAAGT
Found at i:3135515 original size:43 final size:43
Alignment explanation
Indices: 3135459--3135553 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
3135449 TTAAGCTCGA
3135459 TTAA-TATGTAAAAATAAACTTGATTCGTATACTCAACAAAAGT
1 TTAATTAT-TAAAAATAAACTTGATTCGTATACTCAACAAAAGT
* **
3135502 TTGATTATTAAAAATAAGTTTGATTCGTATACTCAACAAAAGT
1 TTAATTATTAAAAATAAACTTGATTCGTATACTCAACAAAAGT
3135545 TTAATTATT
1 TTAATTATT
3135554 TATGCTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
43 44 0.94
44 3 0.06
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (43 bp):
TTAATTATTAAAAATAAACTTGATTCGTATACTCAACAAAAGT
Found at i:3146150 original size:11 final size:11
Alignment explanation
Indices: 3146134--3146158 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3146124 AAATCAATGA
3146134 ACTCTTCCTTC
1 ACTCTTCCTTC
3146145 ACTCTTCCTTC
1 ACTCTTCCTTC
3146156 ACT
1 ACT
3146159 GATGTTCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTCTTCCTTC
Found at i:3146421 original size:16 final size:16
Alignment explanation
Indices: 3146400--3146433 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3146390 AGGAAATGGA
3146400 AAAGGGGATGAGAAGC
1 AAAGGGGATGAGAAGC
3146416 AAAGGGGATGAGAAGC
1 AAAGGGGATGAGAAGC
3146432 AA
1 AA
3146434 TGGGAGTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.41, T:0.06
Consensus pattern (16 bp):
AAAGGGGATGAGAAGC
Found at i:3147375 original size:11 final size:12
Alignment explanation
Indices: 3147352--3147388 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3147342 CGATCAAAAT
3147352 AATTAATTAATA
1 AATTAATTAATA
*
3147364 AATTCATT-AT-
1 AATTAATTAATA
3147374 AATTAATTAATA
1 AATTAATTAATA
3147386 AAT
1 AAT
3147389 AAATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 7 0.33
11 4 0.19
12 10 0.48
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
AATTAATTAATA
Found at i:3147698 original size:2 final size:2
Alignment explanation
Indices: 3147685--3147719 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3147675 TCTTTAACTC
*
3147685 TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3147720 GTCCTAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3155203 original size:3 final size:3
Alignment explanation
Indices: 3155195--3155249 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
3155185 TGTTTAAACT
3155195 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3155243 TAA TAA T
1 TAA TAA T
3155250 TCTTTTTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3155364 original size:3 final size:3
Alignment explanation
Indices: 3155356--3155382 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3155346 ATTTAAGTGC
3155356 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
3155383 ATGTAGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3161617 original size:15 final size:18
Alignment explanation
Indices: 3161588--3161627 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
3161578 CTAAAAGAGT
3161588 ATATATAAAATAATA-GA
1 ATATATAAAATAATAGGA
3161605 ATAT-TAAAA-AATAGGA
1 ATATATAAAATAATAGGA
3161621 ATA-ATAA
1 ATATATAA
3161628 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
ATATATAAAATAATAGGA
Found at i:3163101 original size:27 final size:29
Alignment explanation
Indices: 3163071--3163127 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
3163061 TTAAATATTT
3163071 TATTA-ATTAAAAAATTTAT-AATTTAAA
1 TATTATATTAAAAAATTTATAAATTTAAA
* *
3163098 TATTATATTAAAAATTTTTTAAATTTAAA
1 TATTATATTAAAAAATTTATAAATTTAAA
3163127 T
1 T
3163128 GTCATGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 12 0.46
29 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTATATTAAAAAATTTATAAATTTAAA
Found at i:3163418 original size:5 final size:5
Alignment explanation
Indices: 3163408--3163436 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3163398 CTGAAAAACA
3163408 AGAGG AGAGG AGAGG AGAGG AGAGG AGAG
1 AGAGG AGAGG AGAGG AGAGG AGAGG AGAG
3163437 TCACTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (5 bp):
AGAGG
Found at i:3166199 original size:16 final size:16
Alignment explanation
Indices: 3166178--3166213 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3166168 TATTTATTCA
*
3166178 AATTATTTTAATTTTT
1 AATTATTTTAATATTT
*
3166194 AATTATTTTTATATTT
1 AATTATTTTAATATTT
3166210 AATT
1 AATT
3166214 TTAAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
AATTATTTTAATATTT
Found at i:3166211 original size:23 final size:22
Alignment explanation
Indices: 3166180--3166223 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
3166170 TTTATTCAAA
*
3166180 TTATTTTAATTTTTAATTATTT
1 TTATTTTAATTTTAAATTATTT
3166202 TTATATTTAATTTTAAATTATT
1 TTAT-TTTAATTTTAAATTATT
3166224 AAATTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTTAATTTTAAATTATTT
Found at i:3167256 original size:259 final size:256
Alignment explanation
Indices: 3166768--3167425 Score: 738
Period size: 259 Copynumber: 2.6 Consensus size: 256
3166758 TACTTCATTA
* * *
3166768 ATAAGTTTTTTAAAAAATATTAATTTTTGTATATTTATTTTAAGTG-CCGATATCTGCTCATTAA
1 ATAAGTTTTTAAAAAAATATTAATTTTTGTACATTTATTTTAAG-GACTGATATCTGCTCATTAA
* * * * * *
3166832 AGAGTTAGTATAATCTAATTTACTGATAATGTATAAAGT-T-TATATACTGATAATATATTAAAT
65 TGAGATAATATAATCTAATTTATTGATAATGTATAAAGTCTATATATACTGACAATATATCAAAT
* * * **
3166895 ATAAACTCTTTCTTAATAAATTTATATTTGATGCACTATCAATGTATAAATTTTTTATGCTATTA
130 ATAAACTCTTTCTTAATAAATTTATATTTGATGCACTATCAATATATAAAATTTATATAATATTA
* * **
3166960 GTGAATTGGATGATGTCATCTTATTAATAAAGTGAATAAAATGATACTA-TCTCATTAATGAG
195 ATAAATTGGATGATACCATCTTATTAATAAAGTGAATAAAATGATACTACT-TCATTAATGAG
* * *
3167022 -TAAGTTGTTAAAAAAATATTAATTTTTTTACATTTATTTTAAGGACTGATATCTGCTTATTAAT
1 ATAAGTTTTTAAAAAAATATTAATTTTTGTACATTTATTTTAAGGACTGATATCTGCTCATTAAT
* * * * * *
3167086 GAAATAATATCATTTAATTTATTGATAATATATAGAGTCTATATACTTACCTTGACAATGTATCA
66 GAGATAATATAATCTAATTTATTGATAATGTATAAAGTCTATATA--TA-C-TGACAATATATCA
* * * * * *
3167151 AGTATAAACTTTTTCTTAATATATTTATATTTGATGCACTGTCAGTATATAAAATTTATATAATG
127 AATATAAACTCTTTCTTAATAAATTTATATTTGATGCACTATCAATATATAAAATTTATATAATA
* * *
3167216 TTAATAAATTGGATGATACCATCTTATTAATGAAGTGAATAAGATGATGCTACTTCATTAATGAG
192 TTAATAAATTGGATGATACCATCTTATTAATAAAGTGAATAAAATGATACTACTTCATTAATGAG
* * * * * *
3167281 AAAATTTTTTAATAAAATTTTAATTTTTGTACATTTATTTTAA-GAGTTGATATTTGCTCATTAA
1 ATAAGTTTTTAAAAAAATATTAATTTTTGTACATTTATTTTAAGGA-CTGATATCTGCTCATTAA
* * * * * * * *
3167345 TGAGATAACATTATCTGATTTATTGACAGTGTATAAAGTC--TATACACTGACAGTATATCATAT
65 TGAGATAATATAATCTAATTTATTGATAATGTATAAAGTCTATATATACTGACAATATATCAAAT
*
3167408 ATAAACTCATTCTTAATA
130 ATAAACTCTTTCTTAATA
3167426 CAATGGTTTA
Statistics
Matches: 333, Mismatches: 61, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
252 1 0.00
253 85 0.26
254 29 0.09
255 5 0.02
256 1 0.00
257 2 0.01
258 5 0.02
259 122 0.37
260 83 0.25
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (256 bp):
ATAAGTTTTTAAAAAAATATTAATTTTTGTACATTTATTTTAAGGACTGATATCTGCTCATTAAT
GAGATAATATAATCTAATTTATTGATAATGTATAAAGTCTATATATACTGACAATATATCAAATA
TAAACTCTTTCTTAATAAATTTATATTTGATGCACTATCAATATATAAAATTTATATAATATTAA
TAAATTGGATGATACCATCTTATTAATAAAGTGAATAAAATGATACTACTTCATTAATGAG
Found at i:3171440 original size:55 final size:54
Alignment explanation
Indices: 3171282--3171481 Score: 170
Period size: 55 Copynumber: 3.6 Consensus size: 54
3171272 CTGGCTAGAT
* * * ** * **
3171282 AGAGAATGATGCATAAAGCATATTGGGCATGTTAGCTAAAAAGCCTTAACATAATA
1 AGAGAGTG-TGCATAAGGCACATTGGGCATGTT-GCTGCAGAGCCTTAATGTAATA
* * * *
3171338 A-AGAATGGTGCATAGAGGCACATTGGGCGTGTTGGTGCAGAGACTTAATGTAATA
1 AGAGAGT-GTGCATA-AGGCACATTGGGCATGTTGCTGCAGAGCCTTAATGTAATA
* *
3171393 AGAGAGTGTTGCATAAGGCACATTAGGCATGTTGACT-TAGAGCCTTAATGTAATA
1 AGAGAGTG-TGCATAAGGCACATTGGGCATGTTG-CTGCAGAGCCTTAATGTAATA
* * *
3171448 AGAAAGTAGTGCACAGGGCACATTGGGCATGTTG
1 AGAGAGT-GTGCATAAGGCACATTGGGCATGTTG
3171482 GCAGGAGGTG
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
55 89 0.75
56 29 0.25
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (54 bp):
AGAGAGTGTGCATAAGGCACATTGGGCATGTTGCTGCAGAGCCTTAATGTAATA
Done.