Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 66 of 199
Found at i:24988066 original size:3 final size:3
Alignment explanation
Indices: 24988058--24988084 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24988048 ATTTTTTGTC
24988058 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
24988085 AGCATTAGTT
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:24989127 original size:6 final size:6
Alignment explanation
Indices: 24989116--24989143 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24989106 TTTCAGCTTT
24989116 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
24989144 TTAGATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:24999722 original size:29 final size:30
Alignment explanation
Indices: 24999655--24999723 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
24999645 AAATATCGAT
* *
24999655 TTTATACATTAACTTTGTTTTCATATGTAA
1 TTTATACATGAACTTTGATTTCATATGTAA
*
24999685 TTTGATACATGAACTTTGATTT-A-GTGTAA
1 TTT-ATACATGAACTTTGATTTCATATGTAA
24999714 TTATATACAT
1 TT-TATACAT
24999724 AAAACTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 13 0.38
30 5 0.15
31 16 0.47
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTATACATGAACTTTGATTTCATATGTAA
Found at i:25000794 original size:31 final size:31
Alignment explanation
Indices: 25000721--25000803 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 31
25000711 TAAAAATTTA
*
25000721 ATCAAATTAAAATTTAATATATAAAATCGCAC
1 ATCAAATTAAAA-TTCATATATAAAATCGCAC
* * *
25000753 A--AAATCAAAATTCATATATAACATTGCAC
1 ATCAAATTAAAATTCATATATAAAATCGCAC
*
25000782 ATCAAATTAAAATTCATGTATA
1 ATCAAATTAAAATTCATATATA
25000804 GTTTAATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
32 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (31 bp):
ATCAAATTAAAATTCATATATAAAATCGCAC
Found at i:25008633 original size:24 final size:24
Alignment explanation
Indices: 25008605--25008656 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
25008595 TTTCTAGAAG
*
25008605 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
25008629 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
25008653 ATTT
1 ATTT
25008657 GACTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:25020074 original size:16 final size:15
Alignment explanation
Indices: 25020039--25020068 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
25020029 GCCTATTTTC
25020039 CTTTTTTATTATTAT
1 CTTTTTTATTATTAT
25020054 CTTTTTTAATTATTA
1 CTTTTTT-ATTATTA
25020069 ATTTTTCTAT
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:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
CTTTTTTATTATTAT
Found at i:25030481 original size:12 final size:12
Alignment explanation
Indices: 25030464--25030488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25030454 AATGACCATC
25030464 CAAAATAAGGAA
1 CAAAATAAGGAA
25030476 CAAAATAAGGAA
1 CAAAATAAGGAA
25030488 C
1 C
25030489 CTGTTATAGG
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:0.64, C:0.12, G:0.16, T:0.08
Consensus pattern (12 bp):
CAAAATAAGGAA
Found at i:25036853 original size:52 final size:52
Alignment explanation
Indices: 25036775--25036876 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
25036765 ATATACTTGC
25036775 AGGATAGACGAACCTAGCTCGATTGTGTGGGATTTGTGCTAATCCTGATCGT
1 AGGATAGACGAACCTAGCTCGATTGTGTGGGATTTGTGCTAATCCTGATCGT
25036827 AGGATAGACGAACCTAGCTCGATTGTGTGGGATTTGTGCTAATCCTGATC
1 AGGATAGACGAACCTAGCTCGATTGTGTGGGATTTGTGCTAATCCTGATC
25036877 ATCCTATCGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (52 bp):
AGGATAGACGAACCTAGCTCGATTGTGTGGGATTTGTGCTAATCCTGATCGT
Found at i:25044421 original size:13 final size:13
Alignment explanation
Indices: 25044403--25044445 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
25044393 AAATTTAAAT
25044403 TATTTAGTGATAA
1 TATTTAGTGATAA
*
25044416 TATTTA--GA-AT
1 TATTTAGTGATAA
25044426 TATTTAGTGATAA
1 TATTTAGTGATAA
25044439 TATTTAG
1 TATTTAG
25044446 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:25044426 original size:23 final size:23
Alignment explanation
Indices: 25044395--25044445 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
25044385 GATTTGTAAA
25044395 ATTTA-AATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
25044417 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
25044440 ATTTAG
1 ATTTAG
25044446 GAAAAATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:25046178 original size:14 final size:14
Alignment explanation
Indices: 25046159--25046188 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25046149 AACTCAATCT
*
25046159 ATATTTAAAATTAC
1 ATATTTAAAAGTAC
25046173 ATATTTAAAAGTAC
1 ATATTTAAAAGTAC
25046187 AT
1 AT
25046189 CTTTCTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (14 bp):
ATATTTAAAAGTAC
Found at i:25048184 original size:17 final size:17
Alignment explanation
Indices: 25048162--25048220 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
25048152 ATTTAAAGAT
25048162 TAAATTGAAGGAATTTA
1 TAAATTGAAGGAATTTA
* *
25048179 TAAATTTAAAG-A--T-
1 TAAATTGAAGGAATTTA
25048192 TAAATTGAAGGAATTTA
1 TAAATTGAAGGAATTTA
25048209 TAAATGTGAAGG
1 TAAAT-TGAAGG
25048221 TTAAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
13 9 0.27
14 2 0.06
16 2 0.06
17 14 0.42
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (17 bp):
TAAATTGAAGGAATTTA
Found at i:25048186 original size:30 final size:30
Alignment explanation
Indices: 25048150--25048227 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
25048140 TTTGGTTAAA
25048150 AAATTTAAAGATTAAATTGAAGGAATTTAT
1 AAATTTAAAGATTAAATTGAAGGAATTTAT
25048180 AAATTTAAAGATTAAATTGAAGGAATTTAT
1 AAATTTAAAGATTAAATTGAAGGAATTTAT
* * *
25048210 AAATGTGAAGGTTAAATT
1 AAATTTAAAGATTAAATT
25048228 TATCAAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (30 bp):
AAATTTAAAGATTAAATTGAAGGAATTTAT
Found at i:25053990 original size:20 final size:20
Alignment explanation
Indices: 25053952--25053991 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25053942 TATTTTTTCA
* **
25053952 AATCGAGTCGAGTCGAATTG
1 AATCGAATCGAGTAAAATTG
25053972 AATCGAATCGAGTAAAATTG
1 AATCGAATCGAGTAAAATTG
25053992 TTTAAGTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (20 bp):
AATCGAATCGAGTAAAATTG
Found at i:25056947 original size:19 final size:19
Alignment explanation
Indices: 25056923--25057055 Score: 52
Period size: 19 Copynumber: 7.3 Consensus size: 19
25056913 AAAAGACAAT
25056923 TAAAAATTTAATAAAATTA
1 TAAAAATTTAATAAAATTA
* *
25056942 TAAAAA---ATTAAAATCA
1 TAAAAATTTAATAAAATTA
**
25056958 -ATAAAAGCT-ATAAATATTA
1 TA-AAAATTTAATAAA-ATTA
* * **
25056977 TTAAATTTTAATAAAAAAA
1 TAAAAATTTAATAAAATTA
* *
25056996 TTAAAATAT-A-AAAATTA
1 TAAAAATTTAATAAAATTA
*
25057013 TAAAAAAATTAGA-AAAA-TA
1 T-AAAAATTTA-ATAAAATTA
25057032 TAAAAATTGTAA-AAAATTA
1 TAAAAATT-TAATAAAATTA
25057051 TAAAA
1 TAAAA
25057056 TATATAGAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
15 1 0.01
16 12 0.14
17 6 0.07
18 21 0.25
19 34 0.40
20 10 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAATTTAATAAAATTA
Found at i:25057020 original size:28 final size:28
Alignment explanation
Indices: 25056979--25057047 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
25056969 AAATATTATT
* * **
25056979 AAATTTTAATAAAAAAATTAAAATATAA
1 AAATTATAAAAAAAAAAGAAAAATATAA
**
25057007 AAATTATAAAAAAATTAGAAAAATATAA
1 AAATTATAAAAAAAAAAGAAAAATATAA
*
25057035 AAATTGTAAAAAA
1 AAATTATAAAAAA
25057048 TTATAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AAATTATAAAAAAAAAAGAAAAATATAA
Found at i:25057046 original size:10 final size:10
Alignment explanation
Indices: 25057005--25057081 Score: 67
Period size: 10 Copynumber: 8.2 Consensus size: 10
25056995 ATTAAAATAT
25057005 AAAAATTATAA
1 AAAAATTAT-A
*
25057016 AAAAATTA-G
1 AAAAATTATA
25057025 AAAAA-TAT-
1 AAAAATTATA
*
25057033 AAAAATTGTA
1 AAAAATTATA
25057043 AAAAATTATA
1 AAAAATTATA
*
25057053 AAATA-TAT-
1 AAAAATTATA
*
25057061 AGAAA-TATA
1 AAAAATTATA
25057070 AAAAATTATA
1 AAAAATTATA
25057080 AA
1 AA
25057082 TTTTATAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 13 0.24
9 14 0.26
10 19 0.35
11 8 0.15
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:25057060 original size:28 final size:27
Alignment explanation
Indices: 25056998--25057142 Score: 116
Period size: 28 Copynumber: 5.2 Consensus size: 27
25056988 TAAAAAAATT
* *
25056998 AAAATATAAAAATTATAAAAAAATTAGA
1 AAAATATAAAAATTGT-AAAAAATTATA
25057026 AAAATATAAAAATTGTAAAAAATTATA
1 AAAATATAAAAATTGTAAAAAATTATA
* *
25057053 AAATATATAGAAA-TATAAAAAATTAT-
1 AAA-ATATAAAAATTGTAAAAAATTATA
* * * *
25057079 AAATTTTATAAAGTCGTAAGAAAATTATTA
1 AAAATATA-AAAATTGTAA-AAAATTA-TA
*
25057109 AAAATAT-AAATTTCGTAAAAATATTTATA
1 AAAATATAAAAATT-GTAAAAA-A-TTATA
25057138 AAAAT
1 AAAAT
25057143 TATCGTACCA
Statistics
Matches: 94, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
25 3 0.03
26 5 0.05
27 28 0.30
28 37 0.39
29 13 0.14
30 8 0.09
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATATAAAAATTGTAAAAAATTATA
Found at i:25057074 original size:19 final size:18
Alignment explanation
Indices: 25057001--25057081 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 18
25056991 AAAAATTAAA
25057001 ATATAAAAATTATAAAAAA-
1 ATATAAAAA--ATAAAAAAT
25057020 AT-TAGAAAAATATAAAAAT
1 ATATA-AAAAATA-AAAAAT
* *
25057039 -TGTAAAAAATTATAAAAT
1 ATATAAAAAA-TAAAAAAT
*
25057057 ATATAGAAATATAAAAAAT
1 ATATA-AAAAATAAAAAAT
25057076 -TATAAA
1 ATATAAA
25057082 TTTTATAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
17 5 0.10
18 22 0.43
19 20 0.39
20 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (18 bp):
ATATAAAAAATAAAAAAT
Found at i:25059011 original size:108 final size:106
Alignment explanation
Indices: 25058824--25059027 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 106
25058814 TGGATTAAGA
* * * * *
25058824 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTTGGGCACATTT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAGAAAACGAAACCCAGCACATTAGGGCACATTT
* *
25058889 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACACAAAACATTGCCTTACTTCGAAAT
**
25058930 TTTAAAAGGATATTTGACTATTTGAT-AGAACGAGAAAAAACGAAACCCAGCACATTAGGGCATG
1 TTTAAAAGGATATTTGACTATTTGATCA-AACGAG--AAAACGAAACCCAGCACATTAGGGCACA
25058994 TTTTCTCGAATCTCCAAACACAAAACATTGCCTT
63 TTTTCTCGAATCTCCAAACACAAAACATTGCCTT
25059028 TATTTTTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 1 0.01
106 29 0.34
108 56 0.65
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAACGAGAAAACGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACACAAAACATTGCCTTACTTCGAAAT
Found at i:25059570 original size:12 final size:13
Alignment explanation
Indices: 25059555--25059587 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25059545 AATAGACATG
*
25059555 TAAATAAAT-AAA
1 TAAAAAAATAAAA
25059567 TAAAAAAATAAAA
1 TAAAAAAATAAAA
25059580 TAAAAAAA
1 TAAAAAAA
25059588 GATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:25059847 original size:18 final size:18
Alignment explanation
Indices: 25059824--25059860 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25059814 TAATTAATGG
25059824 TAATAATAAAAATAAAAA
1 TAATAATAAAAATAAAAA
* *
25059842 TAATAATGATAATAAAAA
1 TAATAATAAAAATAAAAA
25059860 T
1 T
25059861 GATCATAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (18 bp):
TAATAATAAAAATAAAAA
Found at i:25059855 original size:12 final size:12
Alignment explanation
Indices: 25059826--25059868 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
25059816 ATTAATGGTA
*
25059826 ATAATAAAAATA
1 ATAATAAAAATG
* *
25059838 AAAATAATAATG
1 ATAATAAAAATG
25059850 ATAATAAAAATG
1 ATAATAAAAATG
*
25059862 ATCATAA
1 ATAATAA
25059869 CACTAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (12 bp):
ATAATAAAAATG
Found at i:25061996 original size:13 final size:12
Alignment explanation
Indices: 25061975--25062017 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
25061965 TTAAATTTTC
25061975 AAAAATTTTAAA
1 AAAAATTTTAAA
25061987 AAAAACTTTTAAA
1 AAAAA-TTTTAAA
**
25062000 ATAATTTTTTAAA
1 A-AAAATTTTAAA
25062013 AAAAA
1 AAAAA
25062018 GTTCATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 7 0.28
13 16 0.64
14 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAATTTTAAA
Found at i:25062527 original size:24 final size:24
Alignment explanation
Indices: 25062495--25062543 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25062485 CGAGCCTCGG
25062495 CCTTAGTGGACGAAGATATGAACT
1 CCTTAGTGGACGAAGATATGAACT
25062519 CCTTAGTGGACGAAGATATGAACT
1 CCTTAGTGGACGAAGATATGAACT
25062543 C
1 C
25062544 TTCACCGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (24 bp):
CCTTAGTGGACGAAGATATGAACT
Found at i:25064705 original size:18 final size:17
Alignment explanation
Indices: 25064662--25064717 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
25064652 TAATGGAGAT
*
25064662 ATTAATACAAATGAATACA
1 ATTAATA-AAATAAATA-A
* *
25064681 TTTAATAAAGATAATTAA
1 ATTAATAAA-ATAAATAA
25064699 ATTAATAAAATAAATAA
1 ATTAATAAAATAAATAA
25064716 AT
1 AT
25064718 AAATTATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 9 0.29
18 11 0.35
19 11 0.35
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (17 bp):
ATTAATAAAATAAATAA
Found at i:25069278 original size:46 final size:46
Alignment explanation
Indices: 25069219--25069991 Score: 493
Period size: 46 Copynumber: 16.5 Consensus size: 46
25069209 AATATCCTTC
* *
25069219 AGAGA-GGTTTGAAAATATATCTAGGGAAAGT-TGAAAGCATCCTCG
1 AGAGAGGGTTTGAAAATATATCTAGGGAGA-TCTAAAAGCATCCTCG
* * * ** *
25069264 AGATAGGGTTTGAAAATATCTCAAGAAAGATCTAAAAGCATCCTCA
1 AGAGAGGGTTTGAAAATATATCTAGGGAGATCTAAAAGCATCCTCG
* * * * *
25069310 AGAGAGGGTTTGAAAATATATCTCATAGGAGATTTGAAAGCATCATGG
1 AGAGAGGGTTTGAAAATATATCT-A-GGGAGATCTAAAAGCATCCTCG
* * * * **
25069358 AGATAGGGTTTGAAAATATCTCAAGAGAGATCTAAAAGCATCCTTA
1 AGAGAGGGTTTGAAAATATATCTAGGGAGATCTAAAAGCATCCTCG
* * * * *
25069404 AGAGAGGGCTTCAAAATAAATCTCATAGGAGATCTGAAAGCATCCTCG
1 AGAGAGGGTTTGAAAATATATCT-A-GGGAGATCTAAAAGCATCCTCG
* * * * *
25069452 AGACAGGATTTGAAAATATCTCAAGAGAGATCTAAAAGCATCCTCG
1 AGAGAGGGTTTGAAAATATATCTAGGGAGATCTAAAAGCATCCTCG
** * * * * * *
25069498 AGAGA-GGACTCAAAAGTATCTCAAGGGAGATCTACAAGTATCCTCA
1 AGAGAGGGTTTGAAAA-TATATCTAGGGAGATCTAAAAGCATCCTCG
* * * * * *
25069544 AGAGAGCGTTTGAAGATATATCTCAAGGGAGATATGAAAGCTTCCTTG
1 AGAGAGGGTTTGAAAATATATCT--AGGGAGATCTAAAAGCATCCTCG
* *
25069592 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATAAAAGCA-CCATTG
1 AGAGAGGGTTTGAAAATATATCT--AGGGAGATCTAAAAGCATCC-TCG
* * * * *
25069640 AG-GTAGGATTTGAAAATATCTCAAGGGAGATCTAAAAGTATCCTCA
1 AGAG-AGGGTTTGAAAATATATCTAGGGAGATCTAAAAGCATCCTCG
* * * * *
25069686 AGAGAGGGTTTGAAAATATATTTCATGAGAGATCTGAAAGCATCTTTG
1 AGAGAGGGTTTGAAAATATATCT-A-GGGAGATCTAAAAGCATCCTCG
* * * * * * * *
25069734 AGAG-GGGACTCGAAAGTATCTCAAGGGAGACCTACAAA-TATCCTCA
1 AGAGAGGG-TTTGAAAATATATCTAGGGAGATCTA-AAAGCATCCTCG
* * * * *
25069780 AGTGAGGGTTTGAAAATATATCTCAAGAGAGATATGAAAGCATTCTCG
1 AGAGAGGGTTTGAAAATATATCT--AGGGAGATCTAAAAGCATCCTCG
* * * * * * * * **
25069828 AGGGAAGATTT-AAAAGCATCTCAAGGGAGATCTAAAAGTATACTTA
1 AGAGAGGGTTTGAAAA-TATATCTAGGGAGATCTAAAAGCATCCTCG
* *
25069874 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCG
1 AGAGAGGGTTTGAAAATATATCT--AGGGAGATCTAAAAGCATCCTCG
* * * * * ** *
25069922 AGAGA-GGATTCAAAAGTATCTCAAGAGAGATCTAAAAGTGTCCTCA
1 AGAGAGGGTTTGAAAA-TATATCTAGGGAGATCTAAAAGCATCCTCG
25069968 AGAGAGGGTTTGAAAATATATCTA
1 AGAGAGGGTTTGAAAATATATCTA
25069992 AAAGCATCTT
Statistics
Matches: 541, Mismatches: 159, Indels: 55
0.72 0.21 0.07
Matches are distributed among these distances:
45 11 0.02
46 255 0.47
47 53 0.10
48 222 0.41
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (46 bp):
AGAGAGGGTTTGAAAATATATCTAGGGAGATCTAAAAGCATCCTCG
Found at i:25069363 original size:94 final size:93
Alignment explanation
Indices: 25069219--25069990 Score: 767
Period size: 94 Copynumber: 8.2 Consensus size: 93
25069209 AATATCCTTC
* * *
25069219 AGAGA-GGTTTGAAAATATATCT-AGGGAAAGT-TGAAAGCATCCTCGAGATAGGGTTTGAAAAT
1 AGAGAGGGTTTGAAAATATATCTCAAGGAGA-TATGAAAGCATCCTCGAGAGAGGGTTTGAAAAT
*
25069281 ATCTCAAGAAAGATCTAAAAGCATCCTCA
65 ATCTCAAGAGAGATCTAAAAGCATCCTCA
* * * *
25069310 AGAGAGGGTTTGAAAATATATCTCATAGGAGATTTGAAAGCATCATGGAGATAGGGTTTGAAAAT
1 AGAGAGGGTTTGAAAATATATCTCA-AGGAGATATGAAAGCATCCTCGAGAGAGGGTTTGAAAAT
*
25069375 ATCTCAAGAGAGATCTAAAAGCATCCTTA
65 ATCTCAAGAGAGATCTAAAAGCATCCTCA
* * * * * *
25069404 AGAGAGGGCTTCAAAATAAATCTCATAGGAGATCTGAAAGCATCCTCGAGACAGGATTTGAAAAT
1 AGAGAGGGTTTGAAAATATATCTCA-AGGAGATATGAAAGCATCCTCGAGAGAGGGTTTGAAAAT
*
25069469 ATCTCAAGAGAGATCTAAAAGCATCCTCG
65 ATCTCAAGAGAGATCTAAAAGCATCCTCA
** * * * * * *
25069498 AGAGA-GGACTCAAAA-GTATCTCAAGGGAGATCT-ACAAGTATCCTCAAGAGAGCGTTTGAAGA
1 AGAGAGGGTTTGAAAATATATCTCAA-GGAGATATGA-AAGCATCCTCGAGAGAGGGTTTGAA-A
* * * * **
25069560 TATATCTCAAGGGAGATATGAAAGCTTCCTTG
63 -ATATCTCAAGAGAGATCTAAAAGCATCCTCA
* * *
25069592 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATAAAAGCA-CCATTGAG-GTAGGATTTGAAA
1 AGAGAGGGTTTGAAAATATATCTCAA-GGAGATATGAAAGCATCC-TCGAGAG-AGGGTTTGAAA
* *
25069655 ATATCTCAAGGGAGATCTAAAAGTATCCTCA
63 ATATCTCAAGAGAGATCTAAAAGCATCCTCA
* * * * * * * *
25069686 AGAGAGGGTTTGAAAATATATTTCATGAGAGATCTGAAAGCATCTTTGAGAG-GGGACTCGAAAG
1 AGAGAGGGTTTGAAAATATATCTCAAG-GAGATATGAAAGCATCCTCGAGAGAGGG-TTTGAAAA
* * *
25069750 TATCTCAAGGGAGACCTACAAA-TATCCTCA
64 TATCTCAAGAGAGATCTA-AAAGCATCCTCA
* * * * *
25069780 AGTGAGGGTTTGAAAATATATCTCAAGAGAGATATGAAAGCATTCTCGAGGGAAGATTT-AAAAG
1 AGAGAGGGTTTGAAAATATATCTCAAG-GAGATATGAAAGCATCCTCGAGAGAGGGTTTGAAAA-
* * * * *
25069844 CATCTCAAGGGAGATCTAAAAGTATACTTA
64 TATCTCAAGAGAGATCTAAAAGCATCCTCA
* *
25069874 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCGAGAGA-GGATTCAAAAG
1 AGAGAGGGTTTGAAAATATATCTCAA-GGAGATATGAAAGCATCCTCGAGAGAGGGTTTGAAAA-
**
25069938 TATCTCAAGAGAGATCTAAAAGTGTCCTCA
64 TATCTCAAGAGAGATCTAAAAGCATCCTCA
25069968 AGAGAGGGTTTGAAAATATATCT
1 AGAGAGGGTTTGAAAATATATCT
25069991 AAAAGCATCT
Statistics
Matches: 575, Mismatches: 83, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
91 7 0.01
92 51 0.09
93 23 0.04
94 444 0.77
95 18 0.03
96 31 0.05
97 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (93 bp):
AGAGAGGGTTTGAAAATATATCTCAAGGAGATATGAAAGCATCCTCGAGAGAGGGTTTGAAAATA
TCTCAAGAGAGATCTAAAAGCATCCTCA
Found at i:25069948 original size:21 final size:23
Alignment explanation
Indices: 25069801--25069973 Score: 84
Period size: 23 Copynumber: 7.4 Consensus size: 23
25069791 GAAAATATAT
* * * *
25069801 CTCAAGAGAGATATGAAAGCATT
1 CTCAAGAGAGATCTAAAAGTATC
* * * *
25069824 CTCGAGGGAAGATTTAAAAGCAT-
1 CTCAAGAG-AGATCTAAAAGTATC
* *
25069847 CTCAAGGGAGATCTAAAAGTATA
1 CTCAAGAGAGATCTAAAAGTATC
* * * *
25069870 CTTAAGAGAGGGTTTGAAAA-TATAT
1 CTCAAGAGA-GATCT-AAAAGTAT-C
* * * *
25069895 CTCAAGGGAGATATGAAAGCATC
1 CTCAAGAGAGATCTAAAAGTATC
*
25069918 CTCGAGAGAGGAT-TCAAAAGTAT-
1 CTCAAGAGA-GATCT-AAAAGTATC
*
25069941 CTCAAGAGAGATCTAAAAGTGTC
1 CTCAAGAGAGATCTAAAAGTATC
25069964 CTCAAGAGAG
1 CTCAAGAGAG
25069974 GGTTTGAAAA
Statistics
Matches: 115, Mismatches: 25, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
22 22 0.19
23 50 0.43
24 32 0.28
25 11 0.10
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (23 bp):
CTCAAGAGAGATCTAAAAGTATC
Found at i:25071993 original size:21 final size:21
Alignment explanation
Indices: 25071969--25072010 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25071959 CCTTTTGTTC
25071969 AATTAATT-ATCGAAACTTTAA
1 AATTAATTGA-CGAAACTTTAA
**
25071990 AATTTCTTGACGAAACTTTAA
1 AATTAATTGACGAAACTTTAA
25072011 TACTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (21 bp):
AATTAATTGACGAAACTTTAA
Found at i:25073358 original size:27 final size:22
Alignment explanation
Indices: 25073301--25073346 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
25073291 AAGAATTTTT
25073301 AATGATTAATTTAGTTAAATTA
1 AATGATTAATTTAGTTAAATTA
25073323 AATGATTAATTTAGTTAAATTA
1 AATGATTAATTTAGTTAAATTA
25073345 AA
1 AA
25073347 CATGATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
AATGATTAATTTAGTTAAATTA
Found at i:25078881 original size:6 final size:7
Alignment explanation
Indices: 25078864--25078888 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25078854 TTTCATTAGT
25078864 TTTTTTA
1 TTTTTTA
25078871 TTTTTTA
1 TTTTTTA
25078878 TTTTTTA
1 TTTTTTA
25078885 TTTT
1 TTTT
25078889 GGAAGTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:25079830 original size:24 final size:24
Alignment explanation
Indices: 25079793--25079840 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25079783 TGCTTTCTGA
* *
25079793 TTAAGTGCTCTTTGAAGCTTCTCG
1 TTAAGTGCTATTTGAAGCTACTCG
* *
25079817 TTAAGTGTTATTTGGAGCTACTCG
1 TTAAGTGCTATTTGAAGCTACTCG
25079841 ATATAGGCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (24 bp):
TTAAGTGCTATTTGAAGCTACTCG
Found at i:25082109 original size:41 final size:41
Alignment explanation
Indices: 25082040--25082149 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
25082030 ATTTAACATC
* * *
25082040 TTCAGATCACCAGCACTTAGCATGCTAGGTTTATAACCTGA
1 TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA
* * *
25082081 TTCATATCACCGGCACTTAGCCTACTAGGCTTATAGCCTGA
1 TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA
25082122 TTCAGATCACCGGCACTTAGCCTGCTAG
1 TTCAGATCACCGGCACTTAGCCTGCTAG
25082150 ACGTAAAGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (41 bp):
TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA
Found at i:25082173 original size:41 final size:41
Alignment explanation
Indices: 25082140--25082245 Score: 212
Period size: 41 Copynumber: 2.6 Consensus size: 41
25082130 ACCGGCACTT
25082140 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
25082181 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
25082222 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
25082246 TTATCTCATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:25089874 original size:41 final size:41
Alignment explanation
Indices: 25089805--25089914 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
25089795 ATTTAACATC
* * *
25089805 TTCAGATCACCAGCACTTAGTCTGCTAGGTTTATAACCTGA
1 TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA
* * *
25089846 TTCATATCACCGGCACTTAGCCTACTAGGCTTATAGCCTGA
1 TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA
25089887 TTCAGATCACCGGCACTTAGCCTGCTAG
1 TTCAGATCACCGGCACTTAGCCTGCTAG
25089915 ACGTAAAGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (41 bp):
TTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA
Found at i:25089938 original size:41 final size:41
Alignment explanation
Indices: 25089905--25090010 Score: 203
Period size: 41 Copynumber: 2.6 Consensus size: 41
25089895 ACCGGCACTT
25089905 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
25089946 AGCCTGCTAGATGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
25089987 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
25090011 TTATCTCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:25110410 original size:26 final size:26
Alignment explanation
Indices: 25110380--25110434 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
25110370 GACCCTTAAC
25110380 AAACAAAAATTACTAAATTCCACTCT
1 AAACAAAAATTACTAAATTCCACTCT
25110406 AAACAAAAATTACTAAATTCCACTCT
1 AAACAAAAATTACTAAATTCCACTCT
25110432 AAA
1 AAA
25110435 GGTACTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (26 bp):
AAACAAAAATTACTAAATTCCACTCT
Found at i:25118114 original size:19 final size:19
Alignment explanation
Indices: 25118092--25118128 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25118082 TTTAAAATAC
25118092 TTTTAAAATAATTTTTTAT
1 TTTTAAAATAATTTTTTAT
25118111 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
25118129 ATGTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAT
Found at i:25118135 original size:20 final size:19
Alignment explanation
Indices: 25118093--25118135 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
25118083 TTAAAATACT
*
25118093 TTTAAAATAATTTTTTATT
1 TTTAAAATAATTTTTTATG
25118112 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTT-ATG
25118132 TTTA
1 TTTA
25118136 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAAAATAATTTTTTATG
Found at i:25119320 original size:15 final size:15
Alignment explanation
Indices: 25119302--25119330 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25119292 AAATGTAAAC
25119302 AAATTTGAAAATAAT
1 AAATTTGAAAATAAT
25119317 AAATTTGAAAATAA
1 AAATTTGAAAATAA
25119331 ATAATAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
AAATTTGAAAATAAT
Found at i:25119380 original size:23 final size:23
Alignment explanation
Indices: 25119353--25119398 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25119343 AAAGAGATTT
* *
25119353 TAAATCAACAATATACAAATCAA
1 TAAATAAACAATACACAAATCAA
**
25119376 TAAATAAATTATACACAAATCAA
1 TAAATAAACAATACACAAATCAA
25119399 CAAAATAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAATAAACAATACACAAATCAA
Found at i:25119633 original size:21 final size:21
Alignment explanation
Indices: 25119605--25119661 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
25119595 AATCATATCT
25119605 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
25119626 TTTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
25119647 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
25119662 CCTTGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:25121405 original size:251 final size:252
Alignment explanation
Indices: 25120955--25121457 Score: 864
Period size: 251 Copynumber: 2.0 Consensus size: 252
25120945 ATTGACATTG
* *
25120955 ATGGGAGTTTTAATCTGGTAATTGCTGATGAAAACTTATTGTATTTTCATTTCTGATGAATGCAA
1 ATGGGAGTTTTAATCTAGTAATTACTGATGAAAACTTATTGTATTTTCATTTCTGATGAATGCAA
* *
25121020 GGTTCTTCCATGCACTACCTATCGTTTTCACGATGAAACTATGAAATTTTAGTATATTTTGCTCG
66 GATTCTTCCATGCACTACCTATCGTTTTCACGATGAAACTATGAAATTTTAGTATATTTTGCTAG
* * *
25121085 GCATTTTGGTTAGTGGAAGCATTGCCATTAGGTTCATATTTTGAAGTAGATGATTCAGAAACAAT
131 GCATTTTGGTTAGTGGAAGCATTCCCATTAAGTTCATACTTTGAAGTAGATGATTCAGAAACAAT
*
25121150 GTATTATGAATGGATTTAGCGAAAGATTGTATGAACTATGCAATGTTTTGGTAATGT
196 GTATTATGAATAGATTTAGCGAAAGATTGTATGAACTATGCAATGTTTTGGTAATGT
*
25121207 ATGGGA-TTTTAATCTAGTAATTACTGATGAAAACTTGTTGTATTTTCATTTCTGATGAATGCAA
1 ATGGGAGTTTTAATCTAGTAATTACTGATGAAAACTTATTGTATTTTCATTTCTGATGAATGCAA
* * * * *
25121271 GATTCTTCCGTGCACTAGCTATCTTTTTCATGATGAAACTGTGAAATTTTAGTATATTTTGCTAG
66 GATTCTTCCATGCACTACCTATCGTTTTCACGATGAAACTATGAAATTTTAGTATATTTTGCTAG
25121336 GCATTTTGGTTAGTGGAAGCATTCCCATTAAGTTCATACTTTGAAGTAGATGATTCAGAAACAAT
131 GCATTTTGGTTAGTGGAAGCATTCCCATTAAGTTCATACTTTGAAGTAGATGATTCAGAAACAAT
*
25121401 GTATTATGAATAGATTTAGTGAAAGATTGTATGAACTATGCAATGTTTTGGTAATGT
196 GTATTATGAATAGATTTAGCGAAAGATTGTATGAACTATGCAATGTTTTGGTAATGT
25121458 GCTGCTTTCA
Statistics
Matches: 236, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
251 230 0.97
252 6 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (252 bp):
ATGGGAGTTTTAATCTAGTAATTACTGATGAAAACTTATTGTATTTTCATTTCTGATGAATGCAA
GATTCTTCCATGCACTACCTATCGTTTTCACGATGAAACTATGAAATTTTAGTATATTTTGCTAG
GCATTTTGGTTAGTGGAAGCATTCCCATTAAGTTCATACTTTGAAGTAGATGATTCAGAAACAAT
GTATTATGAATAGATTTAGCGAAAGATTGTATGAACTATGCAATGTTTTGGTAATGT
Found at i:25122336 original size:6 final size:6
Alignment explanation
Indices: 25122327--25122355 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
25122317 GAGATTGGGG
25122327 TTGGAT TTGGAT TTGGAT TTGGAT TTGGA
1 TTGGAT TTGGAT TTGGAT TTGGAT TTGGA
25122356 GTTGTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (6 bp):
TTGGAT
Found at i:25124310 original size:2 final size:2
Alignment explanation
Indices: 25124303--25124328 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25124293 TGTAAATTAG
25124303 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
25124329 TGGAAAGAAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25130815 original size:16 final size:16
Alignment explanation
Indices: 25130796--25130839 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
25130786 ATGAGTGTAT
25130796 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
25130812 ATATGAAAATAAAATA
1 ATATGTATATAAAAAA
25130828 ATAATGTATATA
1 AT-ATGTATATA
25130840 TATATATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:25130953 original size:18 final size:17
Alignment explanation
Indices: 25130913--25130959 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
25130903 CGTGTAAGTG
*
25130913 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
25130930 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
*
25130949 TATAATAATAA
1 TATAAAAATAA
25130960 GGATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:25130955 original size:15 final size:15
Alignment explanation
Indices: 25130918--25130974 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
25130908 AAGTGTATAA
25130918 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
25130934 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
*
25130947 AATATAATAATAAGGAT
1 AA-ATAATAATGA-GAT
25130964 ACAATAATAAT
1 A-AATAATAAT
25130975 ATTAACAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.11
14 1 0.03
15 15 0.43
16 3 0.09
17 11 0.31
18 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:25132561 original size:44 final size:44
Alignment explanation
Indices: 25132502--25132995 Score: 146
Period size: 44 Copynumber: 11.2 Consensus size: 44
25132492 CTGTAACCTC
* * *
25132502 AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
** * * ** *
25132546 AGGGAGATAAGATCTGTAATCTTCCATCTATTCCACTGTTCCCT
1 AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
* *** * * ** *
25132590 AGGGAGAT-AGAAT-TACTGGCTTCAATGTACTCCACTGCAACCCC
1 AGGGAGATAAG-ATCTGCCATCTTCAATCTACTCCACTAC-TGCCT
* * ** ** * *
25132634 AGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
* * ** * * *
25132678 AGGGAGATAAAACCTGTAATCTTCAATCTATTCGACTGCAATGCC-
1 AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACT--ACTGCCT
* * * **
25132723 AGGGAGAT-AGAATTACTG--GT-TTCAATGTACTCCACTGCAACCT
1 AGGGAGATAAG-A-T-CTGCCATCTTCAATCTACTCCACTACTGCCT
* * ** ** * *
25132766 CAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
* ** * * *
25132811 AGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
* * * * *
25132855 AGGGAGAT-AGAAT-T-ACAGGCTTCAATGTACTCCACT-GTAACCT
1 AGGGAGATAAG-ATCTGCCA-TCTTCAATCTACTCCACTACT-GCCT
* * * ** *
25132898 CAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCT
1 -AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
* * ** * * ** *
25132943 AAGGAGACAAGATCTGTAATCTTCAATCTATTTCACTGTTGCCC
1 AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
25132987 AGGGAGATA
1 AGGGAGATA
25132996 GAATTACTGG
Statistics
Matches: 307, Mismatches: 120, Indels: 46
0.65 0.25 0.10
Matches are distributed among these distances:
42 5 0.02
43 39 0.13
44 191 0.62
45 62 0.20
46 7 0.02
47 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGCCATCTTCAATCTACTCCACTACTGCCT
Found at i:25132654 original size:132 final size:132
Alignment explanation
Indices: 25132460--25133051 Score: 875
Period size: 132 Copynumber: 4.5 Consensus size: 132
25132450 GCAACTTTAA
* **
25132460 GGAGATAGGAA-TATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
*
25132524 TCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCCATCTATTCCACTG-TTCC
65 TCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTTCC
25132588 CTAG
130 C-AG
* *
25132592 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCCCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTT
* * * * * * * *
25132657 TGATCTGCTCCACTACTGCTTAGGGAGATAAAACCTGTAATCTTCAATCTATTCGACTGCAATGC
66 CGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC-TTCC
25132722 CAG
130 CAG
* *
25132725 GGAGATAGAATTACTGGTTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTT
* * * * *
25132790 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCC
66 CGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTTCCC
25132855 AG
131 AG
* *
25132857 GGAGATAGAATTACAGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTT
* * *
25132922 CGATCTACTCCACTACTGCCTAAGGAGACAAGATCTGTAATCTTCAATCTATTTCACTG-TTGCC
66 CGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTT-CC
25132986 CAG
130 CAG
* *
25132989 GGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATC
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC
25133052 AACCTGCTCC
Statistics
Matches: 417, Mismatches: 39, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
131 4 0.01
132 289 0.69
133 121 0.29
134 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTT
CGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTTCCC
AG
Found at i:25132867 original size:265 final size:264
Alignment explanation
Indices: 25132460--25133051 Score: 888
Period size: 265 Copynumber: 2.2 Consensus size: 264
25132450 GCAACTTTAA
* * *
25132460 GGAGATAGGAA-TATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
1 GGAGATA-GAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATCT
* *
25132524 TCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCCATCTATTCCACTGTTCCC
65 TCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTGCCC
* *
25132589 TAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCCCAGGGAGGTAAAATCCACCAT
130 TAGGGAGATAGAATTACAGGCTTCAATGTACTCCACTGCAACCCCAGAGAGGTAAAATCCACCAT
* * * * *
25132654 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAACCTGTAATCTTCAATCTA-TTCGACTGCA
195 CTTCGATCTACTCCACTACTGCCTAAGGAGACAAAACCTGTAATCTTCAATCTATTTC-ACTG--
25132718 ATG-CCAG
257 ATGCCCAG
* *
25132725 GGAGATAGAATTACTGGTTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATCTT
* * * *
25132790 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCC
66 CGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG-TGCCC
* *
25132855 -AGGGAGATAGAATTACAGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCACCAT
130 TAGGGAGATAGAATTACAGGCTTCAATGTACTCCACTGCAACCCCAGAGAGGTAAAATCCACCAT
* * *
25132919 CTTCGATCTACTCCACTACTGCCTAAGGAGACAAGATCTGTAATCTTCAATCTATTTCACTGTTG
195 CTTCGATCTACTCCACTACTGCCTAAGGAGACAAAACCTGTAATCTTCAATCTATTTCACTGATG
25132984 CCCAG
260 CCCAG
25132989 GGAGATAGAATTACTGGCTTT-AATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATC
1 GGAGATAGAATTACTGG-TTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATC
25133052 AACCTGCTCC
Statistics
Matches: 297, Mismatches: 25, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
263 2 0.01
264 64 0.22
265 224 0.75
266 7 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (264 bp):
GGAGATAGAATTACTGGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATCTT
CGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTGCCCT
AGGGAGATAGAATTACAGGCTTCAATGTACTCCACTGCAACCCCAGAGAGGTAAAATCCACCATC
TTCGATCTACTCCACTACTGCCTAAGGAGACAAAACCTGTAATCTTCAATCTATTTCACTGATGC
CCAG
Found at i:25137316 original size:19 final size:19
Alignment explanation
Indices: 25137276--25137317 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25137266 ATAATCTTTG
* *
25137276 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
25137295 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
25137314 ATGC
1 ATGC
25137318 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:25137366 original size:13 final size:13
Alignment explanation
Indices: 25137348--25137373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25137338 GTTTAATTTT
25137348 TTTACTAGAAAAC
1 TTTACTAGAAAAC
25137361 TTTACTAGAAAAC
1 TTTACTAGAAAAC
25137374 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:25139306 original size:18 final size:17
Alignment explanation
Indices: 25139266--25139312 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
25139256 CGTGTAAGTG
*
25139266 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
25139283 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
*
25139302 TATAATAATAA
1 TATAAAAATAA
25139313 GGATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:25139308 original size:15 final size:15
Alignment explanation
Indices: 25139271--25139328 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
25139261 AAGTGTATAA
25139271 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
25139287 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
*
25139300 AATATAATAATAAGGAT
1 AA-ATAATAATGA-GAT
25139317 ACAATAATAATG
1 A-AATAATAATG
25139329 TTAACAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 4 0.11
14 1 0.03
15 15 0.43
16 3 0.09
17 11 0.31
18 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:25144048 original size:25 final size:26
Alignment explanation
Indices: 25144017--25144073 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
25144007 CTGTAATTCC
*
25144017 TAAAAACCT-TAACCCTAACAAAA-T
1 TAAAAAACTCTAACCCTAACAAAATT
* *
25144041 TAAAAAACTCTAACTCTATCAAAATT
1 TAAAAAACTCTAACCCTAACAAAATT
25144067 TAAAAAA
1 TAAAAAA
25144074 AAATCCAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 12 0.43
26 8 0.29
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (26 bp):
TAAAAAACTCTAACCCTAACAAAATT
Found at i:25148255 original size:4 final size:4
Alignment explanation
Indices: 25148246--25148277 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
25148236 CATTATACCT
25148246 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
25148278 CTGTAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:25150410 original size:16 final size:16
Alignment explanation
Indices: 25150389--25150425 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25150379 TGAATTACTG
*
25150389 ATTACAGCTCTATTAT
1 ATTACAACTCTATTAT
*
25150405 ATTACAACTCTATTTT
1 ATTACAACTCTATTAT
25150421 ATTAC
1 ATTAC
25150426 TGTAAGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (16 bp):
ATTACAACTCTATTAT
Found at i:25157622 original size:31 final size:29
Alignment explanation
Indices: 25157584--25157657 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
25157574 AATTAATGGC
* *
25157584 TAAATGACTAAAATGTTACAATGCGATAACG
1 TAAATGACTAAAATGTAACAATGC-A-AACA
* * *
25157615 TAAATGACTAAAAGGTAACATTTCAAACA
1 TAAATGACTAAAATGTAACAATGCAAACA
25157644 TAAATGACTAAAAT
1 TAAATGACTAAAAT
25157658 ATAATCTGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 16 0.43
30 1 0.03
31 20 0.54
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (29 bp):
TAAATGACTAAAATGTAACAATGCAAACA
Found at i:25159113 original size:6 final size:6
Alignment explanation
Indices: 25159102--25159134 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
25159092 AACACCAACC
*
25159102 ATAATT ATAATT ATAATT ATAATC ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATA
25159135 GTTAATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (6 bp):
ATAATT
Found at i:25175921 original size:42 final size:42
Alignment explanation
Indices: 25175875--25175969 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
25175865 GACACACAGT
* *
25175875 CGTGTCCCAGCCTGTGTAACTCACTGACTTGACT-CACACGAC
1 CGTGTCCCAGCCTATGTAACTCACTAACTTGA-TACACACGAC
* * * **
25175917 CGTGTGCTAGCTTATGTAACTCACTAACTTGATACACACGGT
1 CGTGTCCCAGCCTATGTAACTCACTAACTTGATACACACGAC
25175959 CGTGTCCCAGC
1 CGTGTCCCAGC
25175970 TCGTGTCTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (42 bp):
CGTGTCCCAGCCTATGTAACTCACTAACTTGATACACACGAC
Found at i:25176816 original size:20 final size:20
Alignment explanation
Indices: 25176788--25176845 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
25176778 AATGAGGAGT
*
25176788 ACGAGTGTGCAATCAGGGGC
1 ACGAATGTGCAATCAGGGGC
** *
25176808 ACGAATGTGCTGTTAGGGGC
1 ACGAATGTGCAATCAGGGGC
* * *
25176828 ATGAATGTACAAACAGGG
1 ACGAATGTGCAATCAGGG
25176846 ACACCGAAGT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.36, T:0.19
Consensus pattern (20 bp):
ACGAATGTGCAATCAGGGGC
Found at i:25178983 original size:30 final size:30
Alignment explanation
Indices: 25178937--25179030 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
25178927 ATTTCTTATG
* *
25178937 CCAATATCTCGATACCCATATATTTGATTTT
1 CCAATAT-TTGATACCCATATATTTGACTTT
*
25178968 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
* *
25178998 CCATTATTTGATAACCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
25179028 CCA
1 CCA
25179031 TAAATGATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATATTTGACTTT
Found at i:25178992 original size:15 final size:15
Alignment explanation
Indices: 25178947--25179023 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
25178937 CCAATATCTC
25178947 GATACCCATATATTT
1 GATACCCATATATTT
**
25178962 GATTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
25178977 GATACCCATATCTTT
1 GATACCCATATATTT
**
25178992 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
25179007 GATAACCATATATTT
1 GATACCCATATATTT
25179022 GA
1 GA
25179024 CTTTCCATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 9 0.19
15 30 0.62
16 9 0.19
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:25183643 original size:30 final size:30
Alignment explanation
Indices: 25183597--25183690 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
25183587 ATTTCTTATG
* *
25183597 CCAATATCTCGATACCCATATATTTGATTTT
1 CCAATAT-TTGATACCCATATATTTGACTTT
*
25183628 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
* *
25183658 CCATTATTTGATAACCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
25183688 CCA
1 CCA
25183691 TAAATGATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATATTTGACTTT
Found at i:25183652 original size:15 final size:15
Alignment explanation
Indices: 25183607--25183683 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
25183597 CCAATATCTC
25183607 GATACCCATATATTT
1 GATACCCATATATTT
**
25183622 GATTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
25183637 GATACCCATATCTTT
1 GATACCCATATATTT
**
25183652 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
25183667 GATAACCATATATTT
1 GATACCCATATATTT
25183682 GA
1 GA
25183684 CTTTCCATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 9 0.19
15 30 0.62
16 9 0.19
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:25189833 original size:17 final size:17
Alignment explanation
Indices: 25189811--25189843 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25189801 TATTTTTTTA
25189811 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
25189828 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
25189844 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:25193304 original size:3 final size:3
Alignment explanation
Indices: 25193296--25193323 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
25193286 TTTAAAGCAT
25193296 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
25193324 TGATTTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:25193543 original size:7 final size:7
Alignment explanation
Indices: 25193533--25193557 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25193523 AAAATATATA
25193533 AAATTTG
1 AAATTTG
25193540 AAATTTG
1 AAATTTG
25193547 AAATTTG
1 AAATTTG
25193554 AAAT
1 AAAT
25193558 CCTAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (7 bp):
AAATTTG
Found at i:25194671 original size:19 final size:19
Alignment explanation
Indices: 25194632--25194671 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25194622 ATTTTTAAGT
*
25194632 ATGTATAAAAAAAGAAGTA
1 ATGTATAAAAAAAGAAATA
* *
25194651 ATGTATAAATAAATAAATA
1 ATGTATAAAAAAAGAAATA
25194670 AT
1 AT
25194672 TTGTAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
ATGTATAAAAAAAGAAATA
Found at i:25194791 original size:20 final size:21
Alignment explanation
Indices: 25194744--25194788 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
25194734 TATAAATCGC
25194744 AAAATAATAAAGGAAAAGGGA
1 AAAATAATAAAGGAAAAGGGA
25194765 AAAATAATAAAGGAAAAGGGA
1 AAAATAATAAAGGAAAAGGGA
25194786 AAA
1 AAA
25194789 TAAGGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (21 bp):
AAAATAATAAAGGAAAAGGGA
Found at i:25195740 original size:7 final size:7
Alignment explanation
Indices: 25195728--25195754 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25195718 ATTCGTTAAG
25195728 AAAAAAT
1 AAAAAAT
25195735 AAAAAAT
1 AAAAAAT
25195742 AAAAAAT
1 AAAAAAT
25195749 AAAAAA
1 AAAAAA
25195755 AAATCAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:25198828 original size:26 final size:24
Alignment explanation
Indices: 25198769--25198838 Score: 61
Period size: 26 Copynumber: 2.8 Consensus size: 24
25198759 AAATTAATCA
*
25198769 GGAAGCTCACAAAGAGTCTTTATTC
1 GGAAGCTCACAAAGAG-CTATATTC
* *
25198794 AGAAAGCTCACGAAGAGCTATATATC
1 -GGAAGCTCACAAAGAGCTATAT-TC
*
25198820 GGAACGCTCA-TAAGAGCTA
1 GGAA-GCTCACAAAGAGCTA
25198839 CGATGTGCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 16 0.43
26 21 0.57
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCTATATTC
Found at i:25201810 original size:33 final size:33
Alignment explanation
Indices: 25201768--25201835 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
25201758 ATTTGCCTTA
*
25201768 GAGCATCAGCAACTACATTTGTCTTTCCTGGAT
1 GAGCATCAGCAACTACATTTGCCTTTCCTGGAT
25201801 GAGCATCAGCAACTACATTTGCCTTTCCTGGAT
1 GAGCATCAGCAACTACATTTGCCTTTCCTGGAT
25201834 GA
1 GA
25201836 TAATCAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (33 bp):
GAGCATCAGCAACTACATTTGCCTTTCCTGGAT
Found at i:25206707 original size:24 final size:24
Alignment explanation
Indices: 25206662--25206717 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
25206652 GAAGCTCATG
* * * *
25206662 AGAGCCAATAACGGGTAGCTCCGA
1 AGAGCCATTAACGAGAAACTCCGA
*
25206686 AGAGCCATTAACGAGAAACTCCGG
1 AGAGCCATTAACGAGAAACTCCGA
*
25206710 ATAGCCAT
1 AGAGCCAT
25206718 ATATTAGGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (24 bp):
AGAGCCATTAACGAGAAACTCCGA
Found at i:25206826 original size:26 final size:26
Alignment explanation
Indices: 25206650--25206839 Score: 71
Period size: 26 Copynumber: 7.7 Consensus size: 26
25206640 GCTATATAAT
*
25206650 GGGAAGCTCATG-AGAGCCA-ATAAC
1 GGGAAGCTCATGAAGAGCCATATATC
* * *
25206674 GGGTAGCTC-CGAAGAGCCAT-TAAC
1 GGGAAGCTCATGAAGAGCCATATATC
* * * * * *
25206698 GAGAAACTC-CGGATAGCCATATATT
1 GGGAAGCTCATGAAGAGCCATATATC
* * * *
25206723 AGGAAGTTCAAG-TGAGCC--ATATC
1 GGGAAGCTCATGAAGAGCCATATATC
* * *
25206746 GAGAAGCT-ATGGAGAGCCAT-TAATA
1 GGGAAGCTCATGAAGAGCCATAT-ATC
* ** * *
25206771 AGGAAGCTCACAAAGAGCC-TTTATTT
1 GGGAAGCTCATGAAGAGCCATATA-TC
25206797 GGGAAGCTCATGAAGAGCCATATATC
1 GGGAAGCTCATGAAGAGCCATATATC
*
25206823 GGGACGCTCAT-AAGAGC
1 GGGAAGCTCATGAAGAGC
25206840 TATGGTGTGC
Statistics
Matches: 119, Mismatches: 35, Indels: 23
0.67 0.20 0.13
Matches are distributed among these distances:
22 2 0.02
23 15 0.13
24 35 0.29
25 27 0.23
26 37 0.31
27 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (26 bp):
GGGAAGCTCATGAAGAGCCATATATC
Found at i:25215196 original size:31 final size:29
Alignment explanation
Indices: 25215158--25215227 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 29
25215148 ATCCCAAAAC
25215158 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* *
25215189 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
25215218 TATACATGAA
1 TATACATGAA
25215228 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:25215221 original size:29 final size:30
Alignment explanation
Indices: 25215158--25215238 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 30
25215148 ATCCCAAAAC
*
25215158 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
25215189 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
25215218 TATACATGAAATTTTGATTTA
1 TATACATG-AACTTTGATTTA
25215239 ATCCAATTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 17 0.38
30 10 0.22
31 18 0.40
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:25215414 original size:30 final size:29
Alignment explanation
Indices: 25215379--25215459 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
25215369 GATTAAATTA
* *
25215379 AAATTAAAGTTTCAAGTATACATTTAACC
1 AAATTAAAGTTTCATGTATACATTGAACC
*
25215408 ATAATTAGAGTTTCATGTGTATA-ATTGAACC
1 A-AATTAAAGTTTCA--TGTATACATTGAACC
25215439 AAATTAAAG-TTCATGTATACA
1 AAATTAAAGTTTCATGTATACA
25215460 ATTGCGCATT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
27 6 0.14
28 1 0.02
29 5 0.11
30 19 0.43
31 8 0.18
32 5 0.11
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (29 bp):
AAATTAAAGTTTCATGTATACATTGAACC
Found at i:25217293 original size:35 final size:35
Alignment explanation
Indices: 25217247--25217322 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
25217237 TTATTGGTTC
25217247 TTCATAAGGTTCAATATAAAGTCTGTAAAAATCTG
1 TTCATAAGGTTCAATATAAAGTCTGTAAAAATCTG
25217282 TTCATAAGGTTCAATATAAAGTCTGTAAAAATCTG
1 TTCATAAGGTTCAATATAAAGTCTGTAAAAATCTG
25217317 TTCATA
1 TTCATA
25217323 CCTAGGCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (35 bp):
TTCATAAGGTTCAATATAAAGTCTGTAAAAATCTG
Found at i:25227192 original size:11 final size:11
Alignment explanation
Indices: 25227172--25227221 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
25227162 AGAAAATTAA
25227172 AAAAAGTATTTT
1 AAAAA-TATTTT
25227184 AAAAATATTTT
1 AAAAATATTTT
25227195 -AAAA-ATTTT
1 AAAAATATTTT
25227204 -AAAATATTTTT
1 AAAAATA-TTTT
25227215 AAAAATA
1 AAAAATA
25227222 AAAAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.26
10 5 0.14
11 10 0.29
12 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25227202 original size:20 final size:20
Alignment explanation
Indices: 25227179--25227220 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25227169 TAAAAAAAGT
25227179 ATTTTAAAA-ATATTTTAAAA
1 ATTTTAAAATAT-TTTTAAAA
25227199 ATTTTAAAATATTTTTAAAA
1 ATTTTAAAATATTTTTAAAA
25227219 AT
1 AT
25227221 AAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTTAAAATATTTTTAAAA
Found at i:25227227 original size:20 final size:20
Alignment explanation
Indices: 25227184--25227230 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25227174 AAAGTATTTT
**
25227184 AAAAATA-TTTTAAAAATTT
1 AAAAATATTTTTAAAAATAA
*
25227203 TAAAATATTTTTAAAAATAA
1 AAAAATATTTTTAAAAATAA
25227223 AAAAATAT
1 AAAAATAT
25227231 ATATTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATTTTTAAAAATAA
Found at i:25228305 original size:24 final size:27
Alignment explanation
Indices: 25228278--25228341 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 27
25228268 ATTTTTTTAT
25228278 AATTTTTTAAA-A-TATGAA-TTTTGA
1 AATTTTTTAAATATTATGAATTTTTGA
*
25228302 AATTTTTATAAATATTTTGAATTTTTGA
1 AATTTTT-TAAATATTATGAATTTTTGA
25228330 AGATTATTTTAA
1 A-ATT-TTTTAA
25228342 TTTTTTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 7 0.21
25 4 0.12
26 1 0.03
27 5 0.15
28 7 0.21
29 6 0.18
30 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (27 bp):
AATTTTTTAAATATTATGAATTTTTGA
Found at i:25230368 original size:30 final size:30
Alignment explanation
Indices: 25230322--25230415 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
25230312 TTTTATTATG
*
25230322 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
25230353 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
25230383 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25230413 CCA
1 CCA
25230416 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25230374 original size:15 final size:15
Alignment explanation
Indices: 25230332--25230409 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
25230322 CCAATATCTC
*
25230332 GATACCCATATCTTT
1 GATACCCATATATTT
**
25230347 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
25230362 GATACCCATATATTT
1 GATACCCATATATTT
**
25230377 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
25230392 GATACCCATATCTTT
1 GATACCCATATATTT
25230407 GAT
1 GAT
25230410 TTTCCATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 9 0.18
15 31 0.63
16 9 0.18
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:25232845 original size:57 final size:57
Alignment explanation
Indices: 25232748--25232862 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
25232738 GATAAGAATG
*
25232748 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATCG-TGGTT
1 CATTAGTTATAGATACGAACAAAATATGATTAACATGCATTAAAAGGCAT-GATGGTT
* * * *
25232805 CATTGGTTTTAGATGCGAACAAATTATGATTAACATGCATTAAAAGGCATGATGGTT
1 CATTAGTTATAGATACGAACAAAATATGATTAACATGCATTAAAAGGCATGATGGTT
25232862 C
1 C
25232863 TTAAGGATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 1 0.02
57 51 0.98
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (57 bp):
CATTAGTTATAGATACGAACAAAATATGATTAACATGCATTAAAAGGCATGATGGTT
Found at i:25234652 original size:73 final size:73
Alignment explanation
Indices: 25234562--25234703 Score: 230
Period size: 73 Copynumber: 1.9 Consensus size: 73
25234552 TCGGGTTTAG
* * **
25234562 AAAAGGGATCATGCCCAGAAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAAAGGATCATACCCAGAAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
25234627 TGAGAAAA
66 TGAGAAAA
* *
25234635 AAAAAGGATCATACCCAGTAAGTTAGGACACGATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAAAGGATCATACCCAGAAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
25234700 TGAG
66 TGAG
25234704 TTTGAAAGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (73 bp):
AAAAAGGATCATACCCAGAAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
TGAGAAAA
Found at i:25235196 original size:35 final size:34
Alignment explanation
Indices: 25235117--25235197 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
25235107 AAATATGTGG
*
25235117 ATATATATGTATGTGAATTGTAAAATATACGAAAA
1 ATATATATGTATGTGAATTATAAAATATAC-AAAA
*
25235152 ATATGTATGTATGTACGAATTATAAAATATA-AAAA
1 ATATATATGTATGT--GAATTATAAAATATACAAAA
*
25235187 CTATATATGTA
1 ATATATATGTA
25235198 AAACAGGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 26 0.65
37 14 0.35
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (34 bp):
ATATATATGTATGTGAATTATAAAATATACAAAA
Found at i:25235442 original size:12 final size:12
Alignment explanation
Indices: 25235426--25235459 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25235416 AATTTGAAGT
25235426 AAAAAATAAAAA
1 AAAAAATAAAAA
*
25235438 TAAAAATAAAAA
1 AAAAAATAAAAA
25235450 AAACAAATAA
1 AAA-AAATAA
25235460 TATAAGCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAATAAAAA
Found at i:25235479 original size:3 final size:3
Alignment explanation
Indices: 25235473--25235502 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
25235463 AAGCAATTAT
25235473 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25235503 GCTACATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25235484 original size:23 final size:23
Alignment explanation
Indices: 25235455--25235502 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25235445 AAAAAAAACA
*
25235455 AATAAT-ATAAGCAATTATATAAT
1 AATAATAATAA-CAATAATATAAT
*
25235478 AATAATAATAATAATAATATAAT
1 AATAATAATAACAATAATATAAT
25235501 AA
1 AA
25235503 GCTACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAATAATAACAATAATATAAT
Found at i:25236162 original size:18 final size:18
Alignment explanation
Indices: 25236139--25236181 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25236129 ACTCAATCCA
**
25236139 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
25236157 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
25236175 AACCCAA
1 AACCCAA
25236182 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:25236314 original size:9 final size:9
Alignment explanation
Indices: 25236280--25236333 Score: 72
Period size: 9 Copynumber: 5.9 Consensus size: 9
25236270 ATTATGTAGT
25236280 GGTTCAATTC
1 GGTT-AATTC
* *
25236290 GGGTAATCC
1 GGTTAATTC
25236299 GGTTAATTC
1 GGTTAATTC
*
25236308 GGGTAATTC
1 GGTTAATTC
25236317 GGTTAATTC
1 GGTTAATTC
25236326 GGTTAATT
1 GGTTAATT
25236334 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
9 35 0.92
10 3 0.08
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (9 bp):
GGTTAATTC
Found at i:25236333 original size:18 final size:18
Alignment explanation
Indices: 25236280--25236333 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
25236270 ATTATGTAGT
*
25236280 GGTTCAATTCGGGTAATCC
1 GGTT-AATTCGGGTAATTC
25236299 GGTTAATTCGGGTAATTC
1 GGTTAATTCGGGTAATTC
*
25236317 GGTTAATTCGGTTAATT
1 GGTTAATTCGGGTAATT
25236334 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
18 29 0.88
19 4 0.12
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (18 bp):
GGTTAATTCGGGTAATTC
Found at i:25236395 original size:13 final size:13
Alignment explanation
Indices: 25236377--25236404 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25236367 GTTAATTCGG
25236377 TTAACCGAAAAAA
1 TTAACCGAAAAAA
25236390 TTAACCGAAAAAA
1 TTAACCGAAAAAA
25236403 TT
1 TT
25236405 TCGGTTCGGT
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:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
TTAACCGAAAAAA
Found at i:25236651 original size:10 final size:10
Alignment explanation
Indices: 25236636--25236667 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
25236626 TTTAAGCCCA
25236636 ATTTTTTTTT
1 ATTTTTTTTT
25236646 A--TTTTTTT
1 ATTTTTTTTT
25236654 ATTTTTTTTT
1 ATTTTTTTTT
25236664 ATTT
1 ATTT
25236668 CTTTCCCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:25237028 original size:6 final size:7
Alignment explanation
Indices: 25237013--25237041 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
25237003 ATTTTCGTAT
25237013 AAAATAA
1 AAAATAA
25237020 AAAATAA
1 AAAATAA
25237027 AAAAT-A
1 AAAATAA
25237033 AAAATAA
1 AAAATAA
25237040 AA
1 AA
25237042 GTAGAATCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:25237035 original size:13 final size:14
Alignment explanation
Indices: 25237013--25237041 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25237003 ATTTTCGTAT
25237013 AAAATAAAAAATAA
1 AAAATAAAAAATAA
25237027 AAAAT-AAAAATAA
1 AAAATAAAAAATAA
25237040 AA
1 AA
25237042 GTAGAATCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:25237793 original size:31 final size:31
Alignment explanation
Indices: 25237758--25237818 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
25237748 TCAAATATCT
*
25237758 TATTTAAACAACAAATTCATTATGTTCTTCG
1 TATTTAAACAACAAATACATTATGTTCTTCG
* * *
25237789 TATTTAGACAGCAGATACATTATGTTCTTC
1 TATTTAAACAACAAATACATTATGTTCTTC
25237819 AATTGGAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (31 bp):
TATTTAAACAACAAATACATTATGTTCTTCG
Found at i:25237841 original size:16 final size:16
Alignment explanation
Indices: 25237820--25237851 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25237810 ATGTTCTTCA
25237820 ATTGGAATCCTTCTTT
1 ATTGGAATCCTTCTTT
*
25237836 ATTGGAATCTTTCTTT
1 ATTGGAATCCTTCTTT
25237852 TGACACAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTGGAATCCTTCTTT
Found at i:25240423 original size:96 final size:96
Alignment explanation
Indices: 25240301--25240497 Score: 306
Period size: 96 Copynumber: 2.1 Consensus size: 96
25240291 ATTTTCCGAG
* * * * *
25240301 AATCTCTGTTTAGTTTCTTGGAAAACTTTTAAAGCAGCTGAATCATCCTACTCGAATGCTTTATC
1 AATCTCTATTTAGTTTCTTGGAAAACTTTTAAAGCAGCCGAATCATCCCACTCAAATACTTTATC
*
25240366 AGTCTTAAACAAATTATTCTTCGCATAAACA
66 AGTCTTAAACAAATTATTCTTCACATAAACA
25240397 AATCTCTATTTAGTTTCTT-GAGAAACTTTTAAAGCAGCCGAATCATCCCACTCAAATACTTTAT
1 AATCTCTATTTAGTTTCTTGGA-AAACTTTTAAAGCAGCCGAATCATCCCACTCAAATACTTTAT
* *
25240461 TAGTCTTAAACAAATTATTCTTCACATCAACA
65 CAGTCTTAAACAAATTATTCTTCACATAAACA
25240493 AATCT
1 AATCT
25240498 TTTCCATTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 2 0.02
96 90 0.98
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (96 bp):
AATCTCTATTTAGTTTCTTGGAAAACTTTTAAAGCAGCCGAATCATCCCACTCAAATACTTTATC
AGTCTTAAACAAATTATTCTTCACATAAACA
Found at i:25240529 original size:12 final size:12
Alignment explanation
Indices: 25240512--25240536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25240502 CATTTATCAG
25240512 TCTTAAACAAAT
1 TCTTAAACAAAT
25240524 TCTTAAACAAAT
1 TCTTAAACAAAT
25240536 T
1 T
25240537 ATTCTTCAAC
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TCTTAAACAAAT
Found at i:25245224 original size:30 final size:30
Alignment explanation
Indices: 25245188--25245250 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
25245178 ACTTAACAAG
25245188 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
25245218 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
25245248 CAA
1 CAA
25245251 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:25251632 original size:26 final size:27
Alignment explanation
Indices: 25251586--25251640 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
25251576 CAAGTGAAAG
25251586 AATAATTTAGTGCTTTTAAAA-AAAAC
1 AATAATTTAGTGCTTTTAAAACAAAAC
25251612 AATAATTTAG-G-TTTTCAAAAACAAAAC
1 AATAATTTAGTGCTTTT--AAAACAAAAC
25251639 AA
1 AA
25251641 AACAATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.15
25 1 0.04
26 14 0.54
27 7 0.27
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (27 bp):
AATAATTTAGTGCTTTTAAAACAAAAC
Found at i:25253345 original size:4 final size:4
Alignment explanation
Indices: 25253338--25253375 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
25253328 AAATGCATGC
25253338 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
25253376 ATAACAAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:25254759 original size:12 final size:12
Alignment explanation
Indices: 25254742--25254769 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25254732 CCTTTCTCAC
25254742 TTAACCAAAAAT
1 TTAACCAAAAAT
25254754 TTAACCAAAAAT
1 TTAACCAAAAAT
25254766 TTAA
1 TTAA
25254770 GAAAGAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (12 bp):
TTAACCAAAAAT
Found at i:25257037 original size:30 final size:31
Alignment explanation
Indices: 25257003--25257062 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
25256993 AAACCTTTTA
* *
25257003 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCACCCAAAACTTTTACTCCCTTCCCAC
* *
25257033 TTTTCACCTAAAACTTTTATTCCCTTCCCA
1 TTTTCACCCAAAACTTTTACTCCCTTCCCA
25257063 TCTCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCACCCAAAACTTTTACTCCCTTCCCAC
Found at i:25257715 original size:5 final size:5
Alignment explanation
Indices: 25257705--25257730 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25257695 GAACAAATAT
25257705 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
25257731 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:25258187 original size:3 final size:3
Alignment explanation
Indices: 25258179--25258221 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
25258169 TGCGATGTGT
* *
25258179 TTA TTA TTA TCA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25258222 CATCGAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:25258701 original size:8 final size:8
Alignment explanation
Indices: 25258688--25258732 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
25258678 TTTTAGTTGT
*
25258688 TTTATATA
1 TTTATAAA
*
25258696 TTTATATAT
1 TTTATA-AA
25258705 TTTTATAAA
1 T-TTATAAA
25258714 TTTATAAA
1 TTTATAAA
25258722 TTTATAAA
1 TTTATAAA
25258730 TTT
1 TTT
25258733 TAGTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 24 0.75
9 3 0.09
10 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTATAAA
Found at i:25258708 original size:18 final size:18
Alignment explanation
Indices: 25258687--25258732 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
25258677 ATTTTAGTTG
* *
25258687 TTTTATATATTTATATAT
1 TTTTATAAATTTATAAAT
25258705 TTTTATAAATTTATAAA-
1 TTTTATAAATTTATAAAT
25258722 -TTTATAAATTT
1 TTTTATAAATTT
25258733 TAGTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
18 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATAAATTTATAAAT
Found at i:25260077 original size:61 final size:61
Alignment explanation
Indices: 25260002--25260120 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
25259992 TTTGCGCAAT
* *
25260002 AAATATTTAGTTTCTTATTCTCAATTATGTGTATTTAATTCTTTATTTGATGTTTCTAATA
1 AAATATTTAGTTTCTTATTCTCAATTATGCGTATTTAATTCTTGATTTGATGTTTCTAATA
25260063 AAATATTTAGTTTCTTATTCTCAATTATGCGTATTTAATTCTTGATTTGATGTTTCTA
1 AAATATTTAGTTTCTTATTCTCAATTATGCGTATTTAATTCTTGATTTGATGTTTCTA
25260121 GATTATTAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (61 bp):
AAATATTTAGTTTCTTATTCTCAATTATGCGTATTTAATTCTTGATTTGATGTTTCTAATA
Found at i:25266161 original size:41 final size:41
Alignment explanation
Indices: 25266110--25266296 Score: 191
Period size: 41 Copynumber: 4.6 Consensus size: 41
25266100 TTTAAACAGA
* * ** *
25266110 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTAATTCAG
* * *
25266151 TTCATCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * *
25266192 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * * *
25266233 CTCACCGGCACTTAGCCTGCT-GGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CTTATAG-CCTAATTCAG
25266274 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
25266297 ACGTATAGTC
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
40 3 0.02
41 120 0.95
42 3 0.02
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
Found at i:25266319 original size:41 final size:41
Alignment explanation
Indices: 25266151--25266309 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 41
25266141 TTTAATTCCG
* * * *
25266151 TTCATCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* * *
25266192 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* *
25266233 CTCACCGGCACTTAGCCTGCTGGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAA
*
25266274 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGA
25266310 ATAATTTCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
Found at i:25274079 original size:41 final size:41
Alignment explanation
Indices: 25274013--25274213 Score: 208
Period size: 41 Copynumber: 4.9 Consensus size: 41
25274003 ATATAAACAG
* * * * * *
25274013 ATTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCC
1 ATTCACCGGCACTT-AGCCTGCTAGGCGTATAGTCTGATTCA
* * * *
25274054 GTTCATCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCA
* * * * *
25274095 GTTCACCGGCACTTAGCCTGCTAGACTTGTAGCCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCA
* *
25274136 ACTCACCGGCACTTAGCCTGCT-GGACGTATAGTCCGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTGATTCA
*
25274177 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGA
25274214 ATAATTTCAC
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 2 0.01
41 131 0.98
42 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCA
Found at i:25274223 original size:41 final size:41
Alignment explanation
Indices: 25274055--25274213 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 41
25274045 TTTAATTCCG
* * * *
25274055 TTCATCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* *
25274096 TTCACCGGCACTTAGCCTGCTAGACTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* *
25274137 CTCACCGGCACTTAGCCTGCTGGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAA
*
25274178 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGA
25274214 ATAATTTCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
Found at i:25279376 original size:20 final size:21
Alignment explanation
Indices: 25279351--25279393 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
25279341 ATCCTCAAGC
25279351 TTTCTTTTTT-TT-TTTTCCTT
1 TTTCTTTTTTATTATTTT-CTT
25279371 TTTCTTTTTTATTATTTTCTT
1 TTTCTTTTTTATTATTTTCTT
25279392 TT
1 TT
25279394 GATTGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTCTTTTTTATTATTTTCTT
Found at i:25286291 original size:3 final size:3
Alignment explanation
Indices: 25286283--25286341 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
25286273 ATGAACAAAG
* * * *
25286283 ATA ATA ATA ATG ATA CA-A ATA ACA AT- ATAA AGA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
25286328 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
25286342 TGGAATACAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 3 0.07
3 40 0.89
4 2 0.04
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Done.