Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 133 of 160
Found at i:24911665 original size:44 final size:44
Alignment explanation
Indices: 24911527--24911743 Score: 154
Period size: 44 Copynumber: 4.9 Consensus size: 44
24911517 TTAATCATTA
* * * *
24911527 ATAATTTTGTAGTAAACTATTGATAAATTAATAATAAATCAGTT-
1 ATAATTTAGTAGTAAATTATTGATAACTTAATAATAAATTA-TTG
** ** * * **
24911571 ATAATTTTA-TAACAAATATCATCAATAACTTAATAACAAATCATAA
1 ATAA-TTTAGTAGTAAAT-T-ATTGATAACTTAATAATAAATTATTG
24911617 ATAATTTAGTAGTAAATTAGTT-ATAACTTAATAATAAATTATTG
1 ATAATTTAGTAGTAAATTA-TTGATAACTTAATAATAAATTATTG
** * * * *
24911661 ATAATTTAACAGTAAATCATTGATAATTTAATAGTATATTATTG
1 ATAATTTAGTAGTAAATTATTGATAACTTAATAATAAATTATTG
** * *
24911705 ATAGCTTAGTAGTAAATTATAGATAA-TATAATATTAAAT
1 ATAATTTAGTAGTAAATTATTGATAACT-TAATAATAAAT
24911744 CAATTATAAC
Statistics
Matches: 135, Mismatches: 30, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
43 3 0.02
44 92 0.68
45 11 0.08
46 29 0.21
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (44 bp):
ATAATTTAGTAGTAAATTATTGATAACTTAATAATAAATTATTG
Found at i:24911688 original size:66 final size:66
Alignment explanation
Indices: 24911608--24911745 Score: 161
Period size: 66 Copynumber: 2.1 Consensus size: 66
24911598 ACTTAATAAC
* * *
24911608 AAATCATAAATAATTTAGTAGTAAATTAGTT-ATAACTTAATAATAAATTATTGATAATTTAACA
1 AAATCATAAATAATTTAATAGTAAATTA-TTGATAACTTAATAATAAATTATAGATAATATAACA
24911672 GT
65 GT
** * * * * * *
24911674 AAATCATTGATAATTTAATAGTATATTATTGATAGCTTAGTAGTAAATTATAGATAATATAATAT
1 AAATCATAAATAATTTAATAGTAAATTATTGATAACTTAATAATAAATTATAGATAATATAACAG
24911739 T
66 T
24911740 AAATCA
1 AAATCA
24911746 ATTATAACTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 2 0.03
66 58 0.97
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (66 bp):
AAATCATAAATAATTTAATAGTAAATTATTGATAACTTAATAATAAATTATAGATAATATAACAG
T
Found at i:24912127 original size:42 final size:40
Alignment explanation
Indices: 24912081--24912167 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 40
24912071 CAAGAGGAAT
* * *
24912081 TAAAATTTTA-TCAATAGTTAGCAAAATTATATCATAAGTTA
1 TAAAATTGTATTCAA-AGTTACCAAAATT-TATCAAAAGTTA
*
24912122 CTAAAATTGTATTGAAAGTTACCAAAATTTATCAAAAGTTA
1 -TAAAATTGTATTCAAAGTTACCAAAATTTATCAAAAGTTA
24912163 TAAAA
1 TAAAA
24912168 ATCAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 5 0.12
41 11 0.28
42 21 0.52
43 3 0.08
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (40 bp):
TAAAATTGTATTCAAAGTTACCAAAATTTATCAAAAGTTA
Found at i:24912161 original size:20 final size:21
Alignment explanation
Indices: 24912082--24912162 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
24912072 AAGAGGAATT
* * *
24912082 AAAATTTTATCAATAGTTAGC
1 AAAATTATATCAAAAGTTACC
* *
24912103 AAAATTATATCATAAGTTACT
1 AAAATTATATCAAAAGTTACC
* **
24912124 AAAATTGTATTGAAAGTTACC
1 AAAATTATATCAAAAGTTACC
24912145 AAAATT-TATCAAAAGTTA
1 AAAATTATATCAAAAGTTA
24912163 TAAAAATCAA
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
20 10 0.21
21 38 0.79
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAATTATATCAAAAGTTACC
Found at i:24912239 original size:3 final size:3
Alignment explanation
Indices: 24912219--24912264 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
24912209 AAAATTAAAA
*
24912219 TAT TAG TAT T-T T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24912265 CATAATATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24914412 original size:16 final size:16
Alignment explanation
Indices: 24914376--24914409 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24914366 AATTTTTATT
*
24914376 TTATTTTTTATCATTA
1 TTATTTTTTACCATTA
24914392 TTATTTTTTAACCATTA
1 TTATTTTTT-ACCATTA
24914409 T
1 T
24914410 ATTCAATCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTTTTACCATTA
Found at i:24920285 original size:48 final size:47
Alignment explanation
Indices: 24920195--24920290 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 47
24920185 AAAGTTAATG
24920195 TGAGGATGGGGTTTGAAAACAAATTTTTTTTTGAGATTTTTTTTGTTA
1 TGAGGATGGGGTTTGAAAACAAATTTTTTTTTGAGA-TTTTTTTGTTA
*
24920243 TGAGGATGGGGTTTGAAAACAAATTTTTTTTTTTTAGATTTTTTTGTT
1 TGAGGATGGGGTTTGAAAACAAA--TTTTTTTTTGAGATTTTTTTGTT
24920291 TTGTTTTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
48 23 0.51
49 10 0.22
50 12 0.27
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.52
Consensus pattern (47 bp):
TGAGGATGGGGTTTGAAAACAAATTTTTTTTTGAGATTTTTTTGTTA
Found at i:24921496 original size:12 final size:12
Alignment explanation
Indices: 24921479--24921509 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24921469 TTTTCAAAAA
24921479 TTTTATTAATTG
1 TTTTATTAATTG
*
24921491 TTTTATTAATTT
1 TTTTATTAATTG
24921503 TTTTATT
1 TTTTATT
24921510 TTTAATTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTAATTG
Found at i:24922707 original size:28 final size:28
Alignment explanation
Indices: 24922655--24922723 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
24922645 GACTGTTTCT
*
24922655 GCTTTTTTTTTTTTGTTTCTGCAAAATG
1 GCTTTTTTTTTTTTGTTTCTACAAAATG
* *
24922683 GCTTTGTTTTTTTTT-TTTTTACAAAA-A
1 GCTTT-TTTTTTTTTGTTTCTACAAAATG
*
24922710 GCTCTTTTTTTTTT
1 GCTTTTTTTTTTTT
24922724 AATTTTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.25
27 4 0.11
28 14 0.39
29 9 0.25
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.65
Consensus pattern (28 bp):
GCTTTTTTTTTTTTGTTTCTACAAAATG
Found at i:24922989 original size:20 final size:19
Alignment explanation
Indices: 24922960--24923001 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
24922950 TGAATCGGAT
24922960 AAAGAAGAAG-AAGAAGAAA
1 AAAGAAGAAGAAAGAA-AAA
24922979 AAAGAAAGAAGAAAGAAAAA
1 AAAG-AAGAAGAAAGAAAAA
24922999 AAA
1 AAA
24923002 TATATATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAGAAGAAGAAAGAAAAA
Found at i:24925497 original size:2 final size:2
Alignment explanation
Indices: 24925490--24925522 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24925480 AAGATCAGGT
24925490 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
24925523 ATGGCCACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24927484 original size:24 final size:24
Alignment explanation
Indices: 24927457--24927527 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
24927447 TTATATTTGA
*
24927457 TATACACTTTTAAAATAAAAATTT
1 TATATACTTTTAAAATAAAAATTT
* *
24927481 TATATA-TTATTAATATATAAATTT
1 TATATACTT-TTAAAATAAAAATTT
*
24927505 TATATACTATTAATAAATAAAAA
1 TATATACT-TTTA-AAATAAAAA
24927528 ATATTTTCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.05
24 24 0.65
25 3 0.08
26 8 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATACTTTTAAAATAAAAATTT
Found at i:24932789 original size:12 final size:12
Alignment explanation
Indices: 24932772--24932800 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24932762 GATATAATTT
24932772 TAATTATGATTG
1 TAATTATGATTG
24932784 TAATTATGATTG
1 TAATTATGATTG
24932796 TAATT
1 TAATT
24932801 TTAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (12 bp):
TAATTATGATTG
Found at i:24934650 original size:5 final size:5
Alignment explanation
Indices: 24934640--24934666 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24934630 GGTCACAAGT
24934640 TTTGG TTTGG TTTGG TTTGG TTTGG TT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TT
24934667 GTTTGCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (5 bp):
TTTGG
Found at i:24945478 original size:24 final size:25
Alignment explanation
Indices: 24945454--24945501 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
24945444 TTATACGTTA
24945454 TAACAAACAAAACTAAAA-CTTTTAT
1 TAAC-AACAAAACTAAAACCTTTTAT
* *
24945479 TAGCTACAAAACTAAAACCTTTT
1 TAACAACAAAACTAAAACCTTTT
24945502 TTACCTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (25 bp):
TAACAACAAAACTAAAACCTTTTAT
Found at i:24951608 original size:18 final size:19
Alignment explanation
Indices: 24951585--24951629 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
24951575 ATACATATCT
24951585 TTTAAAATATAA-TAAAAA
1 TTTAAAATATAATTAAAAA
24951603 TTTAAAA-ATAATTAAAAA
1 TTTAAAATATAATTAAAAA
*
24951621 -ATAAAATAT
1 TTTAAAATAT
24951630 GTAATAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTAAAATATAATTAAAAA
Found at i:24954439 original size:17 final size:17
Alignment explanation
Indices: 24954417--24954451 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24954407 TTCCTATTTC
24954417 TACTTGATATATGAATA
1 TACTTGATATATGAATA
24954434 TACTTGATATATGAATA
1 TACTTGATATATGAATA
24954451 T
1 T
24954452 CATTCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (17 bp):
TACTTGATATATGAATA
Found at i:24957848 original size:24 final size:24
Alignment explanation
Indices: 24957821--24957899 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
24957811 ATATGCATGT
24957821 TATTTGTTGAATAAAAATATTAAA
1 TATTTGTTGAATAAAAATATTAAA
* **
24957845 TATTT-TAT-AA-AAACTTTCATATTTGA
1 TATTTGT-TGAATAAA----AATATTAAA
24957871 TATTTGTTGAATAAAAATATTAAA
1 TATTTGTTGAATAAAAATATTAAA
24957895 TATTT
1 TATTT
24957900 TATAATTAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
22 3 0.07
23 3 0.07
24 17 0.41
26 12 0.29
27 3 0.07
28 3 0.07
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (24 bp):
TATTTGTTGAATAAAAATATTAAA
Found at i:24960869 original size:30 final size:29
Alignment explanation
Indices: 24960803--24960875 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
24960793 AATTATTATT
*
24960803 ATTTT-TTCAAATAATTTTTTATATTTTT
1 ATTTTATTCAAATAATTTTTTATATTTTG
*
24960831 ATTGTATTCAAATAATTTTTTATATTTTG
1 ATTTTATTCAAATAATTTTTTATATTTTG
24960860 ATTTTTATTCAAATAA
1 A-TTTTATTCAAATAA
24960876 GCATTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.10
29 23 0.57
30 13 0.32
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (29 bp):
ATTTTATTCAAATAATTTTTTATATTTTG
Found at i:24960942 original size:32 final size:31
Alignment explanation
Indices: 24960903--24961012 Score: 127
Period size: 32 Copynumber: 3.6 Consensus size: 31
24960893 ATAATTATTT
24960903 AAGTTAAGAATTTATTTAGATATAAATTAAA
1 AAGTTAAGAATTTATTTAGATATAAATTAAA
*
24960934 AAGTTTAAGAATTTATTTAGATACAAATTAAA
1 AAG-TTAAGAATTTATTTAGATATAAATTAAA
* * * *
24960966 AGGTAAAG-ACTTATTTA-AGTGTAAATTAAA
1 AAGTTAAGAATTTATTTAGA-TATAAATTAAA
*
24960996 AA-TTAAAAATTTATTTA
1 AAGTTAAGAATTTATTTA
24961013 AATGCAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.06
30 26 0.39
31 7 0.11
32 29 0.44
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (31 bp):
AAGTTAAGAATTTATTTAGATATAAATTAAA
Found at i:24961010 original size:30 final size:30
Alignment explanation
Indices: 24960906--24961013 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 30
24960896 ATTATTTAAG
*
24960906 TTAAGAATTTATTT-AGATATAAATTAAAAA
1 TTAAAAATTTATTTAAG-TATAAATTAAAAA
* * *
24960936 GTTTAAGAATTTATTT-AGATACAAATTAAAAG
1 --TTAAAAATTTATTTAAG-TATAAATTAAAAA
* * * *
24960968 GTAAAGACTTATTTAAGTGTAAATTAAAAA
1 TTAAAAATTTATTTAAGTATAAATTAAAAA
24960998 TTAAAAATTTATTTAA
1 TTAAAAATTTATTTAA
24961014 ATGCAATAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
30 33 0.52
31 2 0.03
32 28 0.44
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (30 bp):
TTAAAAATTTATTTAAGTATAAATTAAAAA
Found at i:24961710 original size:24 final size:25
Alignment explanation
Indices: 24961657--24961715 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
24961647 TTATTTAATT
*
24961657 ATATTTTAATTAATTAATTAATTGA
1 ATATTTTAATTAATTAAGTAATTGA
* *
24961682 TTATTTT-ATTAATTAAGTGATAT-A
1 ATATTTTAATTAATTAAGTAAT-TGA
24961706 ATA-TTTAATT
1 ATATTTTAATT
24961716 GACTATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 3 0.11
24 18 0.64
25 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (25 bp):
ATATTTTAATTAATTAAGTAATTGA
Found at i:24968818 original size:2 final size:2
Alignment explanation
Indices: 24968811--24968842 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
24968801 CTTTTGTTAC
*
24968811 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24968843 GAAAGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:24973946 original size:9 final size:9
Alignment explanation
Indices: 24973927--24973955 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24973917 AACTTGGTTC
24973927 AGACA-AAA
1 AGACAGAAA
24973935 AGACAGAAA
1 AGACAGAAA
24973944 AGACAGAAA
1 AGACAGAAA
24973953 AGA
1 AGA
24973956 GCGTTGTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.69, C:0.10, G:0.21, T:0.00
Consensus pattern (9 bp):
AGACAGAAA
Found at i:24974752 original size:28 final size:29
Alignment explanation
Indices: 24974687--24974757 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
24974677 TGAATAACTT
*
24974687 TTAAATTATAATAAAATATTTAATATAATAT
1 TTAAATTAT-A-AAAATATTTAATATAATAC
* * *
24974718 TTTAATTTTAAAAAT-TTTAATTTAATAC
1 TTAAATTATAAAAATATTTAATATAATAC
24974746 TTAAATTATAAA
1 TTAAATTATAAA
24974758 TTTATTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 21 0.62
29 5 0.15
30 1 0.03
31 7 0.21
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTAATATAATAC
Found at i:24974879 original size:28 final size:28
Alignment explanation
Indices: 24974829--24974915 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
24974819 TAAAAATAAT
24974829 TTTTAAAATATT--ATATTAT-TTAATAAA
1 TTTTAAAAT-TTAAATATTATATTAA-AAA
24974856 -TTTAAAATTTAAATATTATATTAAAAA
1 TTTTAAAATTTAAATATTATATTAAAAA
* *
24974883 TTTTTAAATTTAAATATTATATTAAATA
1 TTTTAAAATTTAAATATTATATTAAAAA
24974911 TTTTA
1 TTTTA
24974916 TTATAATTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.04
26 8 0.15
27 10 0.19
28 33 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTAAAATTTAAATATTATATTAAAAA
Found at i:24975261 original size:21 final size:21
Alignment explanation
Indices: 24975220--24975263 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24975210 TAATTTAAAA
* *
24975220 ATTTAATAATAATTAATATAT
1 ATTTAATAATAATAAAAATAT
24975241 ATTTAATAA-AATAAAAA-AT
1 ATTTAATAATAATAAAAATAT
24975260 ATTT
1 ATTT
24975264 TATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTAATAATAATAAAAATAT
Found at i:24977865 original size:10 final size:10
Alignment explanation
Indices: 24977850--24977878 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
24977840 TTCAACAGTA
24977850 AACCTATTGT
1 AACCTATTGT
24977860 AACCTATTGT
1 AACCTATTGT
24977870 AACCTATTG
1 AACCTATTG
24977879 AAAGCACCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (10 bp):
AACCTATTGT
Found at i:24978615 original size:3 final size:3
Alignment explanation
Indices: 24978609--24978639 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
24978599 ATAATAATAC
*
24978609 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24978640 TAGAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24982028 original size:8 final size:8
Alignment explanation
Indices: 24981985--24982035 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
24981975 ATACTGATGG
24981985 TTCTTTTT
1 TTCTTTTT
*
24981993 TTCCTTCTT
1 TT-CTTTTT
*
24982002 TTCTTCTTC
1 TTCTT-TTT
*
24982011 TTCTTCTT
1 TTCTTTTT
24982019 TTCTTTTT
1 TTCTTTTT
24982027 TT-TTTTT
1 TTCTTTTT
24982034 TT
1 TT
24982036 TAATAAGCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 7 0.20
8 15 0.43
9 13 0.37
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTCTTTTT
Found at i:24987500 original size:25 final size:24
Alignment explanation
Indices: 24987472--24987528 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
24987462 TGTCTATATA
24987472 TATATTTTTTGAAATATTTTAAAAT
1 TATATTTTTTGAAATATTTT-AAAT
**
24987497 TATATTATTTTTTAATATTTTAAAT
1 TATATT-TTTTGAAATATTTTAAAT
24987522 TAT-TTTT
1 TATATTTT
24987529 ATATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 13 0.45
26 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TATATTTTTTGAAATATTTTAAAT
Found at i:24987514 original size:26 final size:27
Alignment explanation
Indices: 24987468--24987539 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
24987458 TTTTTGTCTA
24987468 TATATATATTTTTTGAAATATTTTAAAAT
1 TATATATATTTTTT-AAATATTTT-AAAT
24987497 TATAT-TATTTTTT-AATATTTTAAAT
1 TATATATATTTTTTAAATATTTTAAAT
*
24987522 TATTTTTATATTTTTTAA
1 TA--TATATATTTTTTAA
24987540 TTTTTTGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
25 6 0.16
26 8 0.21
27 2 0.05
28 16 0.42
29 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
TATATATATTTTTTAAATATTTTAAAT
Found at i:24987640 original size:25 final size:25
Alignment explanation
Indices: 24987589--24987647 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
24987579 AATTGATTTT
* * *
24987589 AATATATAAAAATATATTAAAATCA
1 AATATTTAAAAATATAATAAAAACA
*
24987614 AATTTTTAAAAAT-TAATAAATAACA
1 AATATTTAAAAATATAATAAA-AACA
24987639 AATATTTAA
1 AATATTTAA
24987648 GATAAAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
AATATTTAAAAATATAATAAAAACA
Found at i:24988933 original size:24 final size:24
Alignment explanation
Indices: 24988906--24988952 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24988896 GTAAAATAAT
* *
24988906 GTTGTATAGATGTATTCTAACAAA
1 GTTGTAGAGATGTAATCTAACAAA
24988930 GTTGTAGAGATGTAATCTAACAA
1 GTTGTAGAGATGTAATCTAACAA
24988953 TCTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (24 bp):
GTTGTAGAGATGTAATCTAACAAA
Found at i:24989637 original size:2 final size:2
Alignment explanation
Indices: 24989630--24989663 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24989620 CATCATGGGC
24989630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24989664 CTTTTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24990480 original size:30 final size:30
Alignment explanation
Indices: 24990444--24990580 Score: 184
Period size: 30 Copynumber: 4.6 Consensus size: 30
24990434 CCCGGTTCCG
* *
24990444 AAGGACCTCCACCGGGAGGTCCGGGTCATC
1 AAGGACCTCCACCAGGAGGTCCGGGTCACC
* *
24990474 ATGGACCTCCACCAGGTGGTCCGGGTCACC
1 AAGGACCTCCACCAGGAGGTCCGGGTCACC
* *
24990504 ATGGACCTCCAACAGGAGGTCCGGGTCACC
1 AAGGACCTCCACCAGGAGGTCCGGGTCACC
* * *
24990534 AAGGACCTCCACCGGGTGGTCCAGGTCACC
1 AAGGACCTCCACCAGGAGGTCCGGGTCACC
*
24990564 AAGGACCTGCACCAGGA
1 AAGGACCTCCACCAGGA
24990581 CACCATGGAC
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.22, C:0.34, G:0.31, T:0.13
Consensus pattern (30 bp):
AAGGACCTCCACCAGGAGGTCCGGGTCACC
Found at i:24991312 original size:20 final size:20
Alignment explanation
Indices: 24991229--24991313 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
24991219 TATTGGGCAC
* *
24991229 GTGGGGAGAGATTGGATGGG
1 GTGGGGAGAGATTGGGTGTG
* * *
24991249 GTGAGGAGGGATTGAGTGTG
1 GTGGGGAGAGATTGGGTGTG
* * *
24991269 GT-GGG-GCG-TTAGGGGGAAG
1 GTGGGGAGAGATT-GGGTG-TG
24991288 GTGGGGAGAGATTGGGTGTG
1 GTGGGGAGAGATTGGGTGTG
24991308 GTGGGG
1 GTGGGG
24991314 TGTTAGGAGG
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
17 2 0.04
18 5 0.11
19 5 0.11
20 27 0.57
21 6 0.13
22 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.61, T:0.21
Consensus pattern (20 bp):
GTGGGGAGAGATTGGGTGTG
Found at i:24991824 original size:25 final size:23
Alignment explanation
Indices: 24991796--24991845 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
24991786 ACTAAAAATA
*
24991796 AAAATATAGGTTTGAAAATTTTATT
1 AAAATATAAGTTT-AAAATTTT-TT
24991821 AAAATATAAGTTTAAAATTTTTT
1 AAAATATAAGTTTAAAATTTTTT
24991844 AA
1 AA
24991846 TTTTTGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.17
24 8 0.33
25 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
AAAATATAAGTTTAAAATTTTTT
Found at i:24991965 original size:480 final size:480
Alignment explanation
Indices: 24991355--24992224 Score: 1324
Period size: 480 Copynumber: 1.8 Consensus size: 480
24991345 AATTTTGTAA
* * **
24991355 TTAATTTTTAAAAGTTTTTTACATAAAATTTAATTAGTGGTTTTGAAATTTTATAATTAAAAAAA
1 TTAATTTTTAAAAGTTTTTTACATAAAATCTAATTAGAGGGATTGAAATTTTATAATTAAAAAAA
24991420 AGAGATTAATAATTTAATATAATATAAATAGAGATTTTAGATGAAATTTGATAAATTTTTTTGTA
66 AGAGATTAATAATTTAATATAATATAAATAGAGATTTT--AT--AA--TGATAAATTTTTTTGTA
* * *
24991485 TAAATTAGATGAAAA-TAATTAAAATTTAAATATTATATTTTGATTGCGTTATATATTAATTTAT
125 TAAATTAGACGAAAATTAATTAAAA-TTAAATATTATATTTTGATTGCATTAGATATTAATTTAT
* * * * *
24991549 AATTTTGTATCTGAATTTTAAT-TTTTTTTTGTTGTTTTTGATATTTATATTATTGTCAATTCTT
189 AATTTTGTATATAAAATTTAATAATTTTTTTATTG-TTTTGATATTTATATTATTGTCAATTCTT
*
24991613 TTGATATTAGATTAATTCTTGTTATTTTTGTGTAATTATTGAAGATTGTGTTTATTATATAATTA
253 TTGATATTAGATTAATTCTTGTTATTTTTGTGTAATTATTGAAGATTGTATTTATTATATAATTA
* *
24991678 TTGAAAGTTATTTGTGATAAAAAAATTTATATCAATTAGTGTATCAAAAAGATTAAATTACTTAA
318 TTGAAAGTTATTTGTGAT-AAAAAATTTATATCAATTAGTATATAAAAAAGATTAAATTACTTAA
24991743 TAAATTTAGCATTTTATGATCTATTACTCTTATTAAGATTAAAACTAAAAATAAAAATATAGGTT
382 TAAATTTAGCATTTTATGATCTATTACTCTTATTAAGATTAAAACTAAAAATAAAAATATAGGTT
24991808 TGAAAATTTTATTAAAATATAAGTTTAAAATTTT
447 TGAAAATTTTATTAAAATATAAGTTTAAAATTTT
* * *
24991842 TTAATTTTT-GAATTTTTTTAAGATAAAATCTAATTAGAGGGATTGAAGA-TTTATAATTAAAAA
1 TTAATTTTTAAAAGTTTTTT-ACATAAAATCTAATTAGAGGGATTGAA-ATTTTATAATT-AAAA
* *
24991905 AATTAAGAGATTAATAATTTAATATGATATATATAGAGA-TTT-T-A-GATAAATTTTTTTGTAT
63 AA--AAGAGATTAATAATTTAATATAATATAAATAGAGATTTTATAATGATAAATTTTTTTGTAT
* *
24991966 AAGTTAGACGAAAATTAATTAAAATTAAATATTATATTTTGATTGTATTAGATATTAATTTATAA
126 AAATTAGACGAAAATTAATTAAAATTAAATATTATATTTTGATTGCATTAGATATTAATTTATAA
*
24992031 TTTTGTATATAAAATTTAATAATTTTTTTATTGTTTTGATATTTATATTGTTGTCAATTCTTTTG
191 TTTTGTATATAAAATTTAATAATTTTTTTATTGTTTTGATATTTATATTATTGTCAATTCTTTTG
24992096 ATATTAGATTAATTCTTGTTATTTTTGTGTAATTATTGAAGATTGTATTTATTATATAATTATTG
256 ATATTAGATTAATTCTTGTTATTTTTGTGTAATTATTGAAGATTGTATTTATTATATAATTATTG
* * *
24992161 AAAGTTATTTGTGATAAAAATTTTATATCAATTAGTATATAAAAAAGATTAAGTTATTTAATAA
321 AAAGTTATTTGTGATAAAAAATTTATATCAATTAGTATATAAAAAAGATTAAATTACTTAATAA
24992225 TATTCTTAAG
Statistics
Matches: 350, Mismatches: 26, Indels: 22
0.88 0.07 0.06
Matches are distributed among these distances:
479 44 0.13
480 194 0.55
481 19 0.05
483 1 0.00
486 9 0.03
487 40 0.11
488 7 0.02
489 3 0.01
490 33 0.09
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (480 bp):
TTAATTTTTAAAAGTTTTTTACATAAAATCTAATTAGAGGGATTGAAATTTTATAATTAAAAAAA
AGAGATTAATAATTTAATATAATATAAATAGAGATTTTATAATGATAAATTTTTTTGTATAAATT
AGACGAAAATTAATTAAAATTAAATATTATATTTTGATTGCATTAGATATTAATTTATAATTTTG
TATATAAAATTTAATAATTTTTTTATTGTTTTGATATTTATATTATTGTCAATTCTTTTGATATT
AGATTAATTCTTGTTATTTTTGTGTAATTATTGAAGATTGTATTTATTATATAATTATTGAAAGT
TATTTGTGATAAAAAATTTATATCAATTAGTATATAAAAAAGATTAAATTACTTAATAAATTTAG
CATTTTATGATCTATTACTCTTATTAAGATTAAAACTAAAAATAAAAATATAGGTTTGAAAATTT
TATTAAAATATAAGTTTAAAATTTT
Found at i:24993273 original size:40 final size:40
Alignment explanation
Indices: 24993218--24993293 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
24993208 TTCAAATACT
* *
24993218 TTATGAGGTCTCAGATGTGTATTTAGAGTCTGAGTACACC
1 TTATGAGATCTCAGATATGTATTTAGAGTCTGAGTACACC
24993258 TTATGAGATCTCAGATATGTATTTAGAGTCTGAGTA
1 TTATGAGATCTCAGATATGTATTTAGAGTCTGAGTA
24993294 TCAACAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.37
Consensus pattern (40 bp):
TTATGAGATCTCAGATATGTATTTAGAGTCTGAGTACACC
Found at i:24993992 original size:20 final size:21
Alignment explanation
Indices: 24993954--24993992 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24993944 TTGTAGACAC
24993954 CCAATTGGGTCCAGGCCCAGA
1 CCAATTGGGTCCAGGCCCAGA
*
24993975 CCAATTGGG-CCTGGCCCA
1 CCAATTGGGTCCAGGCCCA
24993993 AAGGGGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (21 bp):
CCAATTGGGTCCAGGCCCAGA
Found at i:24994053 original size:13 final size:14
Alignment explanation
Indices: 24994035--24994064 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24994025 ATTATTATTA
24994035 TTTTCTTTT-TTCT
1 TTTTCTTTTCTTCT
24994048 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
24994062 TTT
1 TTT
24994065 GTGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:24994192 original size:3 final size:3
Alignment explanation
Indices: 24994184--24994217 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
24994174 GTTATATATG
24994184 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24994218 AATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24994197 original size:17 final size:17
Alignment explanation
Indices: 24994175--24994217 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
24994165 ATTTATATAG
24994175 TTATA-TATGTATTATTA
1 TTATATTAT-TATTATTA
24994192 TTATATTATTATTATTA
1 TTATATTATTATTATTA
*
24994209 TTATTTTAT
1 TTATATTAT
24994218 AATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:24994201 original size:14 final size:15
Alignment explanation
Indices: 24994178--24994209 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
24994168 TATATAGTTA
24994178 TATATGTATTATTAT
1 TATATGTATTATTAT
24994193 TATAT-TATTATTAT
1 TATATGTATTATTAT
24994207 TAT
1 TAT
24994210 TATTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATATGTATTATTAT
Found at i:24994652 original size:25 final size:25
Alignment explanation
Indices: 24994599--24994652 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
24994589 CTGGGAGTGA
*
24994599 GAAAAATTTTTTAGAAATTTTTGGC
1 GAAAAATTTTTTAGAAATTTCTGGC
* *
24994624 GAAAATTTTTTTTGAAAATTTCTGG-
1 GAAAAATTTTTTAG-AAATTTCTGGC
24994649 GAAA
1 GAAA
24994653 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.43
Consensus pattern (25 bp):
GAAAAATTTTTTAGAAATTTCTGGC
Found at i:24995167 original size:10 final size:10
Alignment explanation
Indices: 24995154--24995296 Score: 71
Period size: 10 Copynumber: 13.9 Consensus size: 10
24995144 TTTTTTTTGA
24995154 ATTTTTATTT
1 ATTTTTATTT
*
24995164 ATTTGT-TTT
1 ATTTTTATTT
*
24995173 ATCTTTATTT
1 ATTTTTATTT
24995183 ATTTTTATTT
1 ATTTTTATTT
*
24995193 ATTAGATTAGATTT
1 ATT---TT-TATTT
*
24995207 ATTTAATATTT
1 ATTT-TTATTT
*
24995218 -TTTTTCTTT
1 ATTTTTATTT
*
24995227 CTCTTATT-TTT
1 AT-TT-TTATTT
*
24995238 ATTTTTGTTTT
1 ATTTTT-ATTT
* *
24995249 ACTTTTCTTT
1 ATTTTTATTT
*
24995259 AATTTT-TTT
1 ATTTTTATTT
24995268 ATTTTTATTT
1 ATTTTTATTT
*
24995278 ATTTTCACTTT
1 ATTTTTA-TTT
24995289 -TTTTTATT
1 ATTTTTATT
24995297 ATTCTATTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
9 23 0.22
10 48 0.46
11 22 0.21
12 2 0.02
13 2 0.02
14 7 0.07
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:24995273 original size:19 final size:18
Alignment explanation
Indices: 24995234--24995282 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
24995224 TTTCTCTTAT
*
24995234 TTTTATTT-TTGTTTTAC
1 TTTTATTTATTTTTTTAC
* *
24995251 TTTTCTTTAATTTTTTTAT
1 TTTTATTT-ATTTTTTTAC
24995270 TTTTATTTATTTT
1 TTTTATTTATTTT
24995283 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 14 0.54
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTATTTTTTTAC
Found at i:24995289 original size:24 final size:24
Alignment explanation
Indices: 24995262--24995307 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24995252 TTTCTTTAAT
*
24995262 TTTTTTATTTTTATT-TATTTTCAC
1 TTTTTT-TTATTATTCTATTTTCAC
24995286 TTTTTTTTATTATTCTATTTTC
1 TTTTTTTTATTATTCTATTTTC
24995308 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTTATTATTCTATTTTCAC
Found at i:24995472 original size:117 final size:109
Alignment explanation
Indices: 24995333--24995601 Score: 319
Period size: 117 Copynumber: 2.4 Consensus size: 109
24995323 AAAAATTCCA
24995333 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
24995398 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTTC
65 -A------GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAA-TTTC
* *
24995450 AAAAAAAATATTTTTGGCGAAAAGTTGAAAGTATC-ATTTTTCCTTAGAAATAAATTTTCAAAAA
1 AAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTT-CTTAAAAATAAATTTCCAAAAA
***** *
24995514 AAGGGTTTTTTTGAAGGTATCAATTTTCCTTGAAAATCGAAATTTC
64 AAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
* *
24995560 -CAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTTC
24995602 CTACAAAAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
109 32 0.23
110 40 0.29
111 3 0.02
116 9 0.07
117 53 0.39
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (109 bp):
AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAAA
GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
Found at i:24995485 original size:60 final size:57
Alignment explanation
Indices: 24995333--24995599 Score: 277
Period size: 57 Copynumber: 4.7 Consensus size: 57
24995323 AAAAATTCCA
* *
24995333 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTC
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
*
24995391 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTC
1 AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAA-TTTC
*
24995450 AAAAAAAATATTTTTGGCGAAAAGTTGAAAGTATCATTTTTCCTT-AGAAATAAATTTTC
1 AAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATAAA-TTTC
*** *
24995509 AAAAAAAGGGTTTTT--------TTGAAGGTATCAATTTTCCTTGAAAATCGAAATTTC
1 AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT--AAATTTC
* *
24995560 -CAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
24995600 TCCTACAAAA
Statistics
Matches: 176, Mismatches: 16, Indels: 33
0.78 0.07 0.15
Matches are distributed among these distances:
50 33 0.19
51 5 0.03
52 3 0.02
57 46 0.26
58 3 0.02
59 43 0.24
60 43 0.24
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
Found at i:24997999 original size:59 final size:58
Alignment explanation
Indices: 24997907--24998195 Score: 388
Period size: 59 Copynumber: 4.9 Consensus size: 58
24997897 TCTTATGTAG
* *
24997907 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTGAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAATTTA-TTTCTAA
* *
24997966 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TATTTTTTTGAAA-TTT-ATTTCTAA
* *
24998027 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCT-TTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TATTTTTTTG-AAATTTATTTCTAA
* * *
24998086 GGAAAATTAATACTTTCAACTTTT-TTCCAAAAA-TATTTTTTAGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATTATTTTTTTGAAATTTATTTCTAA
**
24998143 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGATTTTTATTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAATTTATTT
24998196 AAAGAATATA
Statistics
Matches: 205, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
57 60 0.29
58 9 0.04
59 67 0.33
60 23 0.11
61 45 0.22
62 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAATTTATTTCTAA
Found at i:24998058 original size:120 final size:116
Alignment explanation
Indices: 24997909--24998195 Score: 411
Period size: 120 Copynumber: 2.4 Consensus size: 116
24997899 TTATGTAGGG
*
24997909 AAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTGAAATTTATTTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAATTTATTTTTTAAGGAAAATT
* *
24997974 GATACTTTCAACTTTTC-CTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGA
66 AATACTTTCAACTTTTCTC-CAAAAATA--TTTTTTAGAAA-TTT-ATTTCCAAGA
24998029 AAAATTGATACTTTCAACTTTTCCTCAAAAATCT-TTTTTTTGAAAATTTA-TTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TATTTTTTTG-AAATTTATTTTTTAAGGAAAA
* * *
24998092 TTAATACTTTCAACTTTTTTCCAAAAATATTTTTTAGAAATTTATTTCTAAGG
64 TTAATACTTTCAACTTTTCTCCAAAAATATTTTTTAGAAATTTATTTCCAAGA
**
24998145 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGATTTTTATTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAATTTATTT
24998196 AAAGAATATA
Statistics
Matches: 154, Mismatches: 8, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
114 6 0.04
115 10 0.06
116 39 0.25
117 3 0.02
118 10 0.06
120 77 0.50
121 9 0.06
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAATTTATTTTTTAAGGAAAATT
AATACTTTCAACTTTTCTCCAAAAATATTTTTTAGAAATTTATTTCCAAGA
Found at i:24998254 original size:14 final size:15
Alignment explanation
Indices: 24998227--24998255 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24998217 AAGTAAAAGT
24998227 AAATAAAGAAGAAAA
1 AAATAAAGAAGAAAA
24998242 AAATAAA-AAGAAAA
1 AAATAAAGAAGAAAA
24998256 GTAAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AAATAAAGAAGAAAA
Found at i:24998273 original size:31 final size:31
Alignment explanation
Indices: 24998210--24998273 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
24998200 AATATAAAAC
*
24998210 AAAATAAAAGTAAAAGTAAATAAAGAAGAAA
1 AAAATAAAAGTAAAAGTAAATAAAAAAGAAA
*
24998241 AAAATAAAAAG-AAAAGTAAA-ACAAAAATAAA
1 AAAAT-AAAAGTAAAAGTAAATA-AAAAAGAAA
24998272 AA
1 AA
24998274 TAAGATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 1 0.03
31 23 0.79
32 5 0.17
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (31 bp):
AAAATAAAAGTAAAAGTAAATAAAAAAGAAA
Found at i:24999267 original size:21 final size:22
Alignment explanation
Indices: 24999243--24999288 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24999233 AAAACTAGAT
24999243 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* * *
24999264 AATTATTATAGGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
24999286 AAT
1 AAT
24999289 AATAATATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:24999302 original size:24 final size:21
Alignment explanation
Indices: 24999252--24999307 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
24999242 TAATTAGAAA
*
24999252 AGATAAATAAAAAATTATTAT
1 AGATAAATAAAAAATTAATAT
24999273 AGGATAAATAAAAAATAATAATAT
1 A-GATAAATAAAAAAT--TAATAT
*
24999297 CAGATATATAA
1 -AGATAAATAA
24999308 TTAGATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 1 0.03
22 14 0.48
24 13 0.45
25 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
AGATAAATAAAAAATTAATAT
Found at i:24999340 original size:23 final size:23
Alignment explanation
Indices: 24999314--24999361 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
24999304 ATAATTAGAT
*
24999314 AAATAAAA-ATACAAAAATAAATA
1 AAATAAAAGATAAAAAAAT-AATA
24999337 AAATAAAAGATAAAAAAATAATA
1 AAATAAAAGATAAAAAAATAATA
24999360 AA
1 AA
24999362 CATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (23 bp):
AAATAAAAGATAAAAAAATAATA
Found at i:24999354 original size:15 final size:15
Alignment explanation
Indices: 24999318--24999357 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
24999308 TTAGATAAAT
24999318 AAAAATACAAAAATAA
1 AAAAATA-AAAAATAA
*
24999334 ATAAAATAAAAGATAA
1 A-AAAATAAAAAATAA
24999350 AAAAATAA
1 AAAAATAA
24999358 TAAACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:24999433 original size:12 final size:12
Alignment explanation
Indices: 24999416--24999450 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
24999406 TAGGATATAC
24999416 ATAAAATATAAA
1 ATAAAATATAAA
24999428 ATAAAATA-AAA
1 ATAAAATATAAA
24999439 ATAAAA-ATAAA
1 ATAAAATATAAA
24999450 A
1 A
24999451 ATGACAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.59
12 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:24999441 original size:6 final size:6
Alignment explanation
Indices: 24999418--24999452 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
24999408 GGATATACAT
24999418 AAAATA TAAAAT- AAAATA AAAATA AAAATA AAAAT
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAAT
24999453 GACAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:24999560 original size:58 final size:58
Alignment explanation
Indices: 24999470--24999587 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
24999460 ATAAAATTGA
*
24999470 ACCTACCTATTTGGACCAAGCCCAATTGATCCGAGCCTGGATCAAATTGGGTATCTAC
1 ACCTACCTATTTGGACCAAGCCCAATTGATCCGAGCCTGGACCAAATTGGGTATCTAC
* * * *
24999528 ACCTACCTATTTGGGCCAGGCCCAATTGATCCGGGCCTGGACCAAATTGGGTGTCTAC
1 ACCTACCTATTTGGACCAAGCCCAATTGATCCGAGCCTGGACCAAATTGGGTATCTAC
24999586 AC
1 AC
24999588 AGATGATGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (58 bp):
ACCTACCTATTTGGACCAAGCCCAATTGATCCGAGCCTGGACCAAATTGGGTATCTAC
Found at i:24999611 original size:6 final size:6
Alignment explanation
Indices: 24999589--24999637 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
24999579 TGTCTACACA
* * * *
24999589 GATGAT GATGAT GATGGT AATGGT GATGGT GATGGA GATGGT GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
24999637 G
1 G
24999638 CGAATTTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:25000061 original size:33 final size:34
Alignment explanation
Indices: 24999980--25000067 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 34
24999970 TATGGTTATT
* *
24999980 ATCCACCTCAAATGTATCCTCCACCTCAAATTTATC
1 ATCCACCTCAAATGTATCAT-C-CCTCAAATATATC
** * *
25000016 ATTTACCACAAATGTATCAT-CCTTAAATATATC
1 ATCCACCTCAAATGTATCATCCCTCAAATATATC
*
25000049 ATCCACCTCAAATATATCA
1 ATCCACCTCAAATGTATCA
25000068 AGAACAAAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
33 26 0.62
36 16 0.38
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (34 bp):
ATCCACCTCAAATGTATCATCCCTCAAATATATC
Found at i:25000063 original size:18 final size:18
Alignment explanation
Indices: 24999980--25000067 Score: 83
Period size: 18 Copynumber: 5.1 Consensus size: 18
24999970 TATGGTTATT
*
24999980 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATATATC
* *
24999998 CTCCACCTCAAATTTATC
1 ATCCACCTCAAATATATC
** * *
25000016 ATTTACCACAAATGTATC
1 ATCCACCTCAAATATATC
*
25000034 AT---CCTTAAATATATC
1 ATCCACCTCAAATATATC
25000049 ATCCACCTCAAATATATC
1 ATCCACCTCAAATATATC
25000067 A
1 A
25000068 AGAACAAAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
15 12 0.21
18 44 0.79
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (18 bp):
ATCCACCTCAAATATATC
Found at i:25002510 original size:39 final size:39
Alignment explanation
Indices: 25002456--25002533 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
25002446 TTCCAAAGGG
*
25002456 CCGAAGTCTTTTCTTGCGAGCTTCAACAATTGAAAATTT
1 CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
25002495 CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
1 CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
25002534 TAAGTTCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (39 bp):
CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
Found at i:25006028 original size:19 final size:20
Alignment explanation
Indices: 25006003--25006047 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
25005993 AATTATATCA
25006003 TTTTTTAATA-TTTTA-AAT
1 TTTTTTAATATTTTTATAAT
25006021 TATTTTT-ATATTTTTATAAT
1 T-TTTTTAATATTTTTATAAT
25006041 TTTTTTA
1 TTTTTTA
25006048 CATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.17
19 15 0.65
20 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTAATATTTTTATAAT
Found at i:25006140 original size:24 final size:24
Alignment explanation
Indices: 25006095--25006140 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25006085 TTTTAATATA
* *
25006095 TAAAAATATATTAAATCAAAATTT
1 TAAAAATATAATAAATAAAAATTT
25006119 TAAAAAT-TAATAAATAACAAAT
1 TAAAAATATAATAAATAA-AAAT
25006141 ATTTTAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAATATAATAAATAAAAATTT
Found at i:25007428 original size:24 final size:24
Alignment explanation
Indices: 25007401--25007454 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
25007391 TTTGACGTAA
* * *
25007401 AACAATGTTGTATAGATGTATTTT
1 AACAATGTTGTAGAGATGTAATCT
*
25007425 AACAAAGTTGTAGAGATGTAATCT
1 AACAATGTTGTAGAGATGTAATCT
25007449 AACAAT
1 AACAAT
25007455 CTAAAATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (24 bp):
AACAATGTTGTAGAGATGTAATCT
Found at i:25008962 original size:30 final size:30
Alignment explanation
Indices: 25008926--25009058 Score: 203
Period size: 30 Copynumber: 4.4 Consensus size: 30
25008916 CCCGGTTCCG
*
25008926 AAGGACCTCCACCGGGAGGTCCGGGTCATC
1 AAGGACCTCCACCGGGAGGTCCGGGTCACC
* * *
25008956 ATGGACCTCCACCAGGTGGTCCGGGTCACC
1 AAGGACCTCCACCGGGAGGTCCGGGTCACC
25008986 AAGGACCTCCACCGGGAGGTCCGGGTCACC
1 AAGGACCTCCACCGGGAGGTCCGGGTCACC
* *
25009016 AAGGACCTCCACCGGGTGGTCCAGGTCACC
1 AAGGACCTCCACCGGGAGGTCCGGGTCACC
*
25009046 AAGGACCTGCACC
1 AAGGACCTCCACC
25009059 AGGACAACAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.20, C:0.36, G:0.31, T:0.13
Consensus pattern (30 bp):
AAGGACCTCCACCGGGAGGTCCGGGTCACC
Found at i:25009001 original size:51 final size:54
Alignment explanation
Indices: 25008946--25009097 Score: 139
Period size: 60 Copynumber: 2.8 Consensus size: 54
25008936 ACCGGGAGGT
* * *
25008946 CCGGGTCATCATGGACCTCCACCAGGTGGTCCGGGTCACCAAGGACCTCCACCGGGAGG
1 CCGGGTCAACATGGACCTCCACCGGGTGGTCCAGGTCACCAAGGACCT-C-CC--GA-G
* * *
25009005 TCCGGGTCACCAAGGACCTCCACCGGGTGGTCCAGGTCACCAAGGACCT-GC-A-
1 -CCGGGTCAACATGGACCTCCACCGGGTGGTCCAGGTCACCAAGGACCTCCCGAG
* * * *
25009057 CCAGGACAACATGGACCTCCATCGGGTGGGCCAGGTCACCA
1 CCGGGTCAACATGGACCTCCACCGGGTGGTCCAGGTCACCA
25009098 TGGTGGCCAC
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
51 35 0.43
54 1 0.01
57 1 0.01
60 44 0.54
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (54 bp):
CCGGGTCAACATGGACCTCCACCGGGTGGTCCAGGTCACCAAGGACCTCCCGAG
Found at i:25010517 original size:21 final size:21
Alignment explanation
Indices: 25010488--25010527 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25010478 ACTTAATTAT
25010488 ATTACAATAGTTAATTATATA
1 ATTACAATAGTTAATTATATA
* * *
25010509 ATTATAATATTTGATTATA
1 ATTACAATAGTTAATTATA
25010528 ATTGTAACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTACAATAGTTAATTATATA
Found at i:25011311 original size:129 final size:133
Alignment explanation
Indices: 25011156--25011458 Score: 426
Period size: 129 Copynumber: 2.3 Consensus size: 133
25011146 TAGGCCTTCT
*
25011156 CACACACACACACAC-ATATATATCACAAGTGAACAAGAGGCGGTAACGCCAGCCCATGTTAGCA
1 CACACACACACACACAATATATATCACAAGTGAACAAGAAGCGGTAACGCCAGCCCATGTTAGCA
25011220 AAAGGATTGGG-G-GCA-AC-CT-GCCCATGTTAGGCAGCCTTTCTCGCCCATGGCCCTTCCCCG
66 AAAGGATTGGGCGAGCATACGCTAGCCCATGTTAGGCAGCCTTTCTCGCCCATGGCCCTTCCCCG
25011280 ACA
131 ACA
25011283 CACACACACACACACATATATATATCACAAGTGAACAAGAAGCGGTAACGCCAGCCCATGTTAGC
1 CACACACACACACACA-ATATATATCACAAGTGAACAAGAAGCGGTAACGCCAGCCCATGTTAGC
*
25011348 AAAAGGATTGGGCGCAACCAGCAGTTCCGCTAGCCCATGTTAGGCAGCCTTTCTCGCCCATGGCC
65 AAAAGGATTGGGCG-----AGCA--TACGCTAGCCCATGTTAGGCAGCCTTTCTCGCCCATGGCC
* *
25011413 CTTCCTCTACA
123 CTTCCCCGACA
*
25011424 CTCACACACACACAC---ATATATCACAAGTGAACAAG
1 CACACACACACACACAATATATATCACAAGTGAACAAG
25011459 CAGCTTACAT
Statistics
Matches: 157, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
127 15 0.10
129 59 0.38
130 1 0.01
136 3 0.02
137 20 0.13
139 1 0.01
140 2 0.01
141 56 0.36
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (133 bp):
CACACACACACACACAATATATATCACAAGTGAACAAGAAGCGGTAACGCCAGCCCATGTTAGCA
AAAGGATTGGGCGAGCATACGCTAGCCCATGTTAGGCAGCCTTTCTCGCCCATGGCCCTTCCCCG
ACA
Found at i:25011657 original size:39 final size:39
Alignment explanation
Indices: 25011603--25011680 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
25011593 TTCCAAAGGG
*
25011603 CCGAAGTCTTTTCTTGCGAGCTTCAACAATTGAAAATTT
1 CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
25011642 CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
1 CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
25011681 TAAGTTCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (39 bp):
CCGAAGTCTTTTCTTGCAAGCTTCAACAATTGAAAATTT
Found at i:25013016 original size:15 final size:15
Alignment explanation
Indices: 25012845--25013012 Score: 228
Period size: 15 Copynumber: 11.2 Consensus size: 15
25012835 GAAGATGGAC
* *
25012845 CATACTCCAGTCCAT
1 CATACACCAGTTCAT
25012860 CATACACCAGTTCAT
1 CATACACCAGTTCAT
*
25012875 CATCCACCAGTTCAT
1 CATACACCAGTTCAT
25012890 CATACACCAGTTCAT
1 CATACACCAGTTCAT
*
25012905 CATACACCAGTCCAT
1 CATACACCAGTTCAT
*
25012920 CATACACCAGTCCAT
1 CATACACCAGTTCAT
25012935 CATACACCAGTTCAT
1 CATACACCAGTTCAT
* * *
25012950 CATCCCCCAGTCCAT
1 CATACACCAGTTCAT
* *
25012965 CATACAACAGTCCAT
1 CATACACCAGTTCAT
*
25012980 CATCCACCAGTTCAT
1 CATACACCAGTTCAT
*
25012995 CATCCACCAGTTCAT
1 CATACACCAGTTCAT
25013010 CAT
1 CAT
25013013 CCACACCATG
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 138 1.00
ACGTcount: A:0.30, C:0.39, G:0.07, T:0.24
Consensus pattern (15 bp):
CATACACCAGTTCAT
Found at i:25013091 original size:21 final size:21
Alignment explanation
Indices: 25013067--25013152 Score: 133
Period size: 21 Copynumber: 4.2 Consensus size: 21
25013057 ACCGCTGTCA
25013067 CCTCCAGATGCACCTTCGGAT
1 CCTCCAGATGCACCTTCGGAT
*
25013088 CCTCCAGATGCACCTTGGGAT
1 CCTCCAGATGCACCTTCGGAT
25013109 CCTCCAGAT--A-CTTCGGAT
1 CCTCCAGATGCACCTTCGGAT
*
25013127 CCTCCAGATGCACCTTGGGAT
1 CCTCCAGATGCACCTTCGGAT
25013148 CCTCC
1 CCTCC
25013153 TCATCACGGC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.27
19 1 0.02
20 1 0.02
21 41 0.69
ACGTcount: A:0.19, C:0.37, G:0.20, T:0.24
Consensus pattern (21 bp):
CCTCCAGATGCACCTTCGGAT
Found at i:25013900 original size:18 final size:19
Alignment explanation
Indices: 25013863--25013907 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
25013853 TTGTGTTTTA
* *
25013863 ATTTTATATGTAATATTAT
1 ATTTTATATGAAAAATTAT
25013882 ATTTTATAT-AAAAATTAT
1 ATTTTATATGAAAAATTAT
*
25013900 ATATTATA
1 ATTTTATA
25013908 ATTCGTATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTTATATGAAAAATTAT
Found at i:25013969 original size:12 final size:12
Alignment explanation
Indices: 25013943--25013978 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
25013933 TATATTTAAA
25013943 TTTATTAAATTTT
1 TTTA-TAAATTTT
25013956 TTTAT-AATTTT
1 TTTATAAATTTT
25013967 TTTATAAATTTT
1 TTTATAAATTTT
25013979 AAATCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.50
12 7 0.32
13 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATAAATTTT
Found at i:25017204 original size:19 final size:19
Alignment explanation
Indices: 25017176--25017212 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25017166 ATTTGTTCGT
*
25017176 GATGGTTAATTAAAATTAC
1 GATGGCTAATTAAAATTAC
25017195 GATGGCTAATTAAAATTA
1 GATGGCTAATTAAAATTA
25017213 TATTACCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (19 bp):
GATGGCTAATTAAAATTAC
Found at i:25028819 original size:39 final size:39
Alignment explanation
Indices: 25028774--25028854 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
25028764 GGAAGCACAT
25028774 AAACAGTTTCCTAAATAAGAAATTTAAAAACAATGAATA
1 AAACAGTTTCCTAAATAAGAAATTTAAAAACAATGAATA
* * *
25028813 AAACAGTTTTCTCAATAAGAAATTTAAAAACTATGAATA
1 AAACAGTTTCCTAAATAAGAAATTTAAAAACAATGAATA
25028852 AAA
1 AAA
25028855 TAAAAAGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (39 bp):
AAACAGTTTCCTAAATAAGAAATTTAAAAACAATGAATA
Found at i:25045042 original size:107 final size:107
Alignment explanation
Indices: 25044894--25045394 Score: 423
Period size: 107 Copynumber: 4.7 Consensus size: 107
25044884 TTAACTTGTA
* * *
25044894 GTTTAATCCCAGTCGCTTTTATTTCTCTGACTTG-CGATTCAATCTCAGTTATCGTTAATTTTTG
1 GTTTAAT-CCAGTCACTTTTATTTCTCTGACTTGTAG-TTCAATCTCAGTTATCGTTAATCTTTG
* *
25044958 ACTTGTGGTTTAATCTCGA-TCATTCCTATGTTCCTGACTTATG
64 ACTCGTGGTTTAATCTCGAGTCATTCCTATGTTCCTGACTTACG
* * * * *
25045001 GTTTAATCCAAGTCACTTTTATTTCTCTGACTTATTGTTCAATCCCAATTGTCGTTAATCTTTGA
1 GTTTAATCC-AGTCACTTTTATTTCTCTGACTTGTAGTTCAATCTCAGTTATCGTTAATCTTTGA
* * * * *
25045066 CTCATGGTTTAATCTC-AGTCATTGCTATGTTCTTGACTTGCA
65 CTCGTGGTTTAATCTCGAGTCATTCCTATGTTCCTGACTTACG
* ** * * * *
25045108 GTTTAATTTCAGTCGTTTTTATTTTTTTGACTTGTAGTTCAATCTCAGTTATCATTAATCTCTGA
1 GTTTAA-TCCAGTCACTTTTATTTCTCTGACTTGTAGTTCAATCTCAGTTATCGTTAATCTTTGA
* * *
25045173 TTCGTGGTTTAATC-CTAGTCATTCCTATGTTCCTGACTCACG
65 CTCGTGGTTTAATCTCGAGTCATTCCTATGTTCCTGACTTACG
* * * ** * * *
25045215 ATTTAATCCTAGTCACTTTTATTTTTTTGACTTGCGGTTCAGTC-CTAGTTGTTGTTAATCTTTG
1 GTTTAATCC-AGTCACTTTTATTTCTCTGACTTGTAGTTCAATCTC-AGTTATCGTTAATCTTTG
* * * * * **
25045279 ACTCGTGATTTAATCTCGA-TCATT-CT-TTTTCTTAACGTGTG
64 ACTCGTGGTTTAATCTCGAGTCATTCCTATGTTCCTGACTTACG
* * ** * * * *
25045320 GTTTAATCCCGATCA-TTTT-TTT-T-TTACTTGCGGTTCAGTCTTAGTCATCGTAAATCTTTGA
1 GTTTAATCCAG-TCACTTTTATTTCTCTGACTTGTAGTTCAATCTCAGTTATCGTTAATCTTTGA
25045381 CTCGTGGTTTAATC
65 CTCGTGGTTTAATC
25045395 CCAATCATTT
Statistics
Matches: 321, Mismatches: 63, Indels: 26
0.78 0.15 0.06
Matches are distributed among these distances:
101 44 0.14
102 1 0.00
103 3 0.01
104 5 0.02
105 19 0.06
106 9 0.03
107 235 0.73
108 5 0.02
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (107 bp):
GTTTAATCCAGTCACTTTTATTTCTCTGACTTGTAGTTCAATCTCAGTTATCGTTAATCTTTGAC
TCGTGGTTTAATCTCGAGTCATTCCTATGTTCCTGACTTACG
Found at i:25045112 original size:36 final size:36
Alignment explanation
Indices: 25045072--25045156 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
25045062 TTGACTCATG
25045072 GTTTAATCTCAGTCATTGCTATGTTCTTGACTTGCA
1 GTTTAATCTCAGTCATTGCTATGTTCTTGACTTGCA
* * ** * * *
25045108 GTTTAATTTCAGTCGTTTTTATTTTTTTGACTTGTA
1 GTTTAATCTCAGTCATTGCTATGTTCTTGACTTGCA
*
25045144 GTTCAATCTCAGT
1 GTTTAATCTCAGT
25045157 TATCATTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (36 bp):
GTTTAATCTCAGTCATTGCTATGTTCTTGACTTGCA
Found at i:25045274 original size:214 final size:214
Alignment explanation
Indices: 25044887--25045503 Score: 540
Period size: 214 Copynumber: 2.9 Consensus size: 214
25044877 TACATTTTTA
* * *
25044887 ACTTGTAGTTTAATCCCAGTCGCTTTTATTTCTCTGACTTGCGATTCAATCTCAGTTATCGTTAA
1 ACTTGCAGTTTAATCCCAGTCGCTTTTATTTCTCTGACTTGAGATTCAATCTCAGTTATCATTAA
* * * * * *
25044952 TTTTTGACTTGTGGTTTAATCTCGATCATTCCTATGTTCCTGACTTATGGTTTAATCCAAGTCAC
66 TCTCTGACTTGTGGTTTAATCTAGATCATTCCTATGTTCCTGACTCACGATTTAATCCAAGTCAC
** *
25045017 TTTTATTTCTCTGACTTATTGTTCAATCCCAATTGTCGTTAATCTTTGACTCATGGTTTAATCTC
131 TTTTATTTCTCTGACTTACGGTTCAATCCCAATTGTCGTTAATCTTTGACTCATGATTTAATCTC
25045082 AGTCATTGCTATGTTCTTG
196 AGTCATTGCTATGTTCTTG
** * * *
25045101 ACTTGCAGTTTAATTTCAGTCGTTTTTATTTTTTTGACTTGTAG-TTCAATCTCAGTTATCATTA
1 ACTTGCAGTTTAATCCCAGTCGCTTTTATTTCTCTGACTTG-AGATTCAATCTCAGTTATCATTA
*
25045165 ATCTCTGA-TTCGTGGTTTAATCCTAG-TCATTCCTATGTTCCTGACTCACGATTTAATCCTAGT
65 ATCTCTGACTT-GTGGTTTAAT-CTAGATCATTCCTATGTTCCTGACTCACGATTTAATCCAAGT
* * * * * * * *
25045228 CACTTTTATTTTTTTGACTTGCGGTTCAGTCCTAGTTGTTGTTAATCTTTGACTCGTGATTTAAT
128 CACTTTTATTTCTCTGACTTACGGTTCAATCCCAATTGTCGTTAATCTTTGACTCATGATTTAAT
* *
25045293 CTC-GATCATT-CT-TTTTCTTA
193 CTCAG-TCATTGCTATGTTCTTG
* ** * * * * * * * * *
25045313 ACGTGTGGTTTAATCCC-GATC-ATTTT-TTT-T-TTACTTGCGGTTCAGTCTTAGTCATCGTAA
1 ACTTGCAGTTTAATCCCAG-TCGCTTTTATTTCTCTGACTTGAGATTCAATCTCAGTTATCATTA
* * * * * ** * ** *
25045373 ATCTTTGACTCGTGGTTTAATCCCA-ATCATTTCTATAACTTATTAACTTGCAATTTAATCCCAA
65 ATCTCTGACTTGTGGTTTAAT-CTAGATCATTCCTAT--GTTCCTGACTCACGATTTAAT-CCAA
* * * * * * *
25045437 -TCACTTTTATTTTTGTGACTTACGATTCAATCCCAATTGTCGTTAATCTCTAACTCGTGGTTTA
126 GTCACTTTTATTTCTCTGACTTACGGTTCAATCCCAATTGTCGTTAATCTTTGACTCATGATTTA
25045501 ATC
191 ATC
25045504 CTGGTCACTT
Statistics
Matches: 329, Mismatches: 63, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
207 1 0.00
208 50 0.15
209 2 0.01
210 74 0.22
211 8 0.02
212 20 0.06
213 5 0.02
214 165 0.50
215 4 0.01
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (214 bp):
ACTTGCAGTTTAATCCCAGTCGCTTTTATTTCTCTGACTTGAGATTCAATCTCAGTTATCATTAA
TCTCTGACTTGTGGTTTAATCTAGATCATTCCTATGTTCCTGACTCACGATTTAATCCAAGTCAC
TTTTATTTCTCTGACTTACGGTTCAATCCCAATTGTCGTTAATCTTTGACTCATGATTTAATCTC
AGTCATTGCTATGTTCTTG
Found at i:25045512 original size:71 final size:71
Alignment explanation
Indices: 25045426--25045605 Score: 202
Period size: 71 Copynumber: 2.5 Consensus size: 71
25045416 TAACTTGCAA
** *
25045426 TTTAATCCCAATCACTTTTATTTTTGTGACTTACGATTCAATCCCAATTGTCGTTAATCTCTAAC
1 TTTAATCCTGATCACTTTTATTTTTCTGACTTACGATTCAATCCCAATTGTCGTTAATCTCTAAC
*
25045491 TCGTGG
66 TCATGG
* * * * * **
25045497 TTTAATCCTGGTCACTTTTATTTTTTTAACTTAC-AGTACAATCCCAGTTGTCGTTAATCTCTGG
1 TTTAATCCTGATCACTTTTATTTTTCTGACTTACGA-TTCAATCCCAATTGTCGTTAATCTCTAA
25045561 CTCATGG
65 CTCATGG
* * *
25045568 TTTAATCTTGATCA-TTCTTATATTCCTGACTTACGATT
1 TTTAATCCTGATCACTT-TTATTTTTCTGACTTACGATT
25045606 TTAATCTCAA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
70 3 0.03
71 85 0.96
72 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (71 bp):
TTTAATCCTGATCACTTTTATTTTTCTGACTTACGATTCAATCCCAATTGTCGTTAATCTCTAAC
TCATGG
Found at i:25046582 original size:20 final size:20
Alignment explanation
Indices: 25046559--25046597 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25046549 GATTTTGGCA
25046559 AAGGCTAAAGGATTTTTTTG
1 AAGGCTAAAGGATTTTTTTG
* *
25046579 AAGGCTGAATGATTTTTTT
1 AAGGCTAAAGGATTTTTTT
25046598 TTTTAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (20 bp):
AAGGCTAAAGGATTTTTTTG
Found at i:25046930 original size:23 final size:22
Alignment explanation
Indices: 25046885--25046932 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
25046875 CCAATTCAAG
*
25046885 TAAATTTTTTTTTATAATTTTT
1 TAAATTTTTTTTTATAATATTT
25046907 TAAATTATTTTTTTAT-ATCATTT
1 TAAATT-TTTTTTTATAAT-ATTT
25046930 TAA
1 TAA
25046933 CTTTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TAAATTTTTTTTTATAATATTT
Found at i:25047114 original size:10 final size:10
Alignment explanation
Indices: 25047094--25047153 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
25047084 TTTTAACACA
*
25047094 AATATTAAAT
1 AATAATAAAT
25047104 ACA-AATAAAT
1 A-ATAATAAAT
25047114 AATAATAAAT
1 AATAATAAAT
25047124 AATATATAAATT
1 AATA-ATAAA-T
* *
25047136 GATTATAAA-
1 AATAATAAAT
25047145 AATAATAAA
1 AATAATAAA
25047154 ACAAGTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
9 8 0.20
10 19 0.46
11 11 0.27
12 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AATAATAAAT
Found at i:25050011 original size:31 final size:31
Alignment explanation
Indices: 25049951--25050011 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
25049941 ATGAAATAAT
* *
25049951 TATTTATGAAATAACTCTTTCATAGAACAAC
1 TATTTATGAAATAACTCTTTCAAAAAACAAC
* * *
25049982 TATTTTTGGAATAACTTTTTCAAAAAACAA
1 TATTTATGAAATAACTCTTTCAAAAAACAA
25050012 AGATAACACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.38
Consensus pattern (31 bp):
TATTTATGAAATAACTCTTTCAAAAAACAAC
Found at i:25050501 original size:22 final size:22
Alignment explanation
Indices: 25050459--25050502 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25050449 AGACTTTGAC
*
25050459 AAATTTTTTACAACGATTTCTT
1 AAATTTTTTACAACAATTTCTT
*
25050481 AAATTTTTT-CTACAATCTTCTT
1 AAATTTTTTACAACAAT-TTCTT
25050503 TTTTTAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATTTTTTACAACAATTTCTT
Found at i:25051775 original size:21 final size:21
Alignment explanation
Indices: 25051715--25051781 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
25051705 TTTTTGAAAT
* *
25051715 ATTTTAAAATTATATTCTTTA
1 ATTTTAAAATAATATTTTTTA
** *
25051736 A-CATATAAA-AATCTTTTTTA
1 ATTTTA-AAATAATATTTTTTA
*
25051756 ATTTTAAAATAATATTTTTTC
1 ATTTTAAAATAATATTTTTTA
25051777 ATTTT
1 ATTTT
25051782 TTTACTTTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTAAAATAATATTTTTTA
Found at i:25051848 original size:20 final size:19
Alignment explanation
Indices: 25051805--25051844 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25051795 ATTAAAAATC
* *
25051805 ATAAAATTTTAATTTTATA
1 ATAAAAATTTAATTTTAAA
25051824 ATAAAAATTTAATTTTAAA
1 ATAAAAATTTAATTTTAAA
25051843 AT
1 AT
25051845 TAAATACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAAAAATTTAATTTTAAA
Found at i:25052740 original size:41 final size:39
Alignment explanation
Indices: 25052695--25052781 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 39
25052685 TAACAATCTT
*
25052695 ATAATAGATTT-TAAAATTTGAAAAAATTAAGAGTAAAACTG
1 ATAATAGATTTAAAAAATTT---AAAATTAAGAGTAAAACTG
*
25052736 ATAATTTATATTTAAAAAATTTAAAATTAAGAGTAAAACTG
1 ATAA--TAGATTTAAAAAATTTAAAATTAAGAGTAAAACTG
*
25052777 TTAAT
1 ATAAT
25052782 TTATATTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
39 1 0.03
41 26 0.65
43 6 0.15
44 7 0.17
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (39 bp):
ATAATAGATTTAAAAAATTTAAAATTAAGAGTAAAACTG
Found at i:25052782 original size:41 final size:41
Alignment explanation
Indices: 25052717--25052798 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
25052707 AAAATTTGAA
25052717 AAAATTAAGAGTAAAACTGATAATTTATATTTAAAAAATTT
1 AAAATTAAGAGTAAAACTGATAATTTATATTTAAAAAATTT
* **
25052758 AAAATTAAGAGTAAAACTGTTAATTTATATTTGGAAAATTT
1 AAAATTAAGAGTAAAACTGATAATTTATATTTAAAAAATTT
25052799 TTACTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (41 bp):
AAAATTAAGAGTAAAACTGATAATTTATATTTAAAAAATTT
Found at i:25053215 original size:14 final size:14
Alignment explanation
Indices: 25053174--25053220 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
25053164 TTAAAGTTGA
25053174 ATTTTTT-TATTTT
1 ATTTTTTATATTTT
* **
25053187 -TTTATTATAACTT
1 ATTTTTTATATTTT
25053200 ATTTTTTATATTTT
1 ATTTTTTATATTTT
25053214 ATTTTTT
1 ATTTTTT
25053221 TCAAATCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 17 0.65
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTTATATTTT
Found at i:25054239 original size:22 final size:23
Alignment explanation
Indices: 25054209--25054262 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
25054199 ATATTAACTC
*
25054209 AAATCTTATAAGAGA-TTTGTTTG
1 AAAT-TTATAAGAGATTTTATTTG
*
25054232 AAATTTATTAGAGATTTTATTTG
1 AAATTTATAAGAGATTTTATTTG
*
25054255 AGATTTAT
1 AAATTTAT
25054263 CAGATATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (23 bp):
AAATTTATAAGAGATTTTATTTG
Found at i:25054358 original size:52 final size:51
Alignment explanation
Indices: 25054302--25054416 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 51
25054292 GCAAAATAAA
* *
25054302 AATTCTAAGAGAAAGAAAATTTTTAATAGGTAAGTTTGACTTACAAGAGAAT
1 AATTCTAAGAGAAAG-AAATTTTTAATAGGTAAATTTGACTTACAAGAGAAG
* * *
25054354 AATTCTAAAAAGAAAGAGATTTTTAATAGGTAAATTTGACTTACAGGAGAAG
1 AATTCT-AAGAGAAAGAAATTTTTAATAGGTAAATTTGACTTACAAGAGAAG
25054406 AATTCTAAGAG
1 AATTCTAAGAG
25054417 GAGAGTAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 4 0.07
52 44 0.79
53 8 0.14
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (51 bp):
AATTCTAAGAGAAAGAAATTTTTAATAGGTAAATTTGACTTACAAGAGAAG
Found at i:25055321 original size:11 final size:11
Alignment explanation
Indices: 25055303--25055344 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
25055293 AATCCCATAA
25055303 GAGATTTGTTT
1 GAGATTTGTTT
* *
25055314 GGGATTTGTTA
1 GAGATTTGTTT
25055325 GAGATTTGTTT
1 GAGATTTGTTT
25055336 GAGATTTGT
1 GAGATTTGT
25055345 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:25055330 original size:22 final size:22
Alignment explanation
Indices: 25055302--25055344 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
25055292 AAATCCCATA
*
25055302 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
25055324 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
25055345 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:25055456 original size:52 final size:53
Alignment explanation
Indices: 25055369--25055500 Score: 205
Period size: 52 Copynumber: 2.5 Consensus size: 53
25055359 TGGACAAGAA
*
25055369 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGTAAGTTT
* *
25055421 GACTTGCAAGAGAAAAATTCTAAAAGGAAAG-GGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGTAAGTTT
* *
25055473 GACTTACAGGAGAAGAATTCTAAGAGGA
1 GACTTGCAAGAGAAGAATTCTAAGAGGA
25055501 GAAAGATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 67 0.93
53 5 0.07
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.25
Consensus pattern (53 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGTAAGTTT
Found at i:25055514 original size:52 final size:52
Alignment explanation
Indices: 25055369--25055524 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
25055359 TGGACAAGAA
* *
25055369 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGA-GATTCTTAATAGGTAAGTTT
* * * *
25055421 GACTTGCAAGAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
* * * *
25055473 GACTTACAGGAGAAGAATTCTAAGAGGAGAA-AGATTTTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGA-AAGAGATTCTTAATAGGTAAGTTT
25055525 ATATGGTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 83 0.92
53 7 0.08
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:25062642 original size:45 final size:45
Alignment explanation
Indices: 25062542--25062678 Score: 220
Period size: 45 Copynumber: 3.0 Consensus size: 45
25062532 ACGTACGACA
* *
25062542 AGAACAAAAGTAATCTTAGAATAATAGGAATGAGATTGACTTTGTC
1 AGAATAAAAGTAATCTTAGAATAATAGGAATGAGA-TGACTTCGTC
*
25062588 AGAATAAAAGTAATCTTAGAATAATAGGAATGAGATGACTTCGTT
1 AGAATAAAAGTAATCTTAGAATAATAGGAATGAGATGACTTCGTC
* *
25062633 AGAATAAAAGTAATCTTAGAATAATAGGAATAAGATCACTTCGTC
1 AGAATAAAAGTAATCTTAGAATAATAGGAATGAGATGACTTCGTC
25062678 A
1 A
25062679 AGATCCTGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 51 0.60
46 34 0.40
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (45 bp):
AGAATAAAAGTAATCTTAGAATAATAGGAATGAGATGACTTCGTC
Found at i:25065355 original size:2 final size:2
Alignment explanation
Indices: 25065348--25065385 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
25065338 AAAACTAATT
* *
25065348 TA TA TA TA AA TA AA TA TA TA TA TA TA TA 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
25065386 AAGGGTGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:25065397 original size:2 final size:2
Alignment explanation
Indices: 25065392--25065430 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
25065382 TATAAAGGGT
25065392 GA GA GA GA GA GA -A GA GA GA GA GA GA G- GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
25065431 GTGCATGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25065412 original size:15 final size:15
Alignment explanation
Indices: 25065392--25065430 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
25065382 TATAAAGGGT
25065392 GAGAGAGAGAGAAGA
1 GAGAGAGAGAGAAGA
*
25065407 GAGAGAGAGAGGAGA
1 GAGAGAGAGAGAAGA
25065422 GAGAGAGAG
1 GAGAGAGAG
25065431 GTGCATGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (15 bp):
GAGAGAGAGAGAAGA
Found at i:25065430 original size:13 final size:13
Alignment explanation
Indices: 25065392--25065431 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
25065382 TATAAAGGGT
*
25065392 GAGAGAGAGAGAA
1 GAGAGAGAGAGAG
25065405 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
25065418 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
25065431 G
1 G
25065432 TGCATGGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (13 bp):
GAGAGAGAGAGAG
Found at i:25067030 original size:21 final size:23
Alignment explanation
Indices: 25067000--25067053 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
25066990 TGATGCTTTA
*
25067000 AAAAAATCATAAGTA-A-AACTT
1 AAAAATTCATAAGTACAGAACTT
**
25067021 AAAAATTCATCGGTACAGAACTT
1 AAAAATTCATAAGTACAGAACTT
25067044 AAAAATTCAT
1 AAAAATTCAT
25067054 CGGTACAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 12 0.43
22 1 0.04
23 15 0.54
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (23 bp):
AAAAATTCATAAGTACAGAACTT
Found at i:25067042 original size:23 final size:23
Alignment explanation
Indices: 25067016--25067061 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25067006 TCATAAGTAA
25067016 AACTTAAAAATTCATCGGTACAG
1 AACTTAAAAATTCATCGGTACAG
25067039 AACTTAAAAATTCATCGGTACAG
1 AACTTAAAAATTCATCGGTACAG
25067062 CATAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (23 bp):
AACTTAAAAATTCATCGGTACAG
Found at i:25072004 original size:12 final size:12
Alignment explanation
Indices: 25071979--25072013 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
25071969 TACATTTTAA
*
25071979 TTAAAATTTAATT
1 TTAAAATAT-ATT
25071992 TTAAAATATATT
1 TTAAAATATATT
25072004 TTAAAATATA
1 TTAAAATATA
25072014 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAAAATATATT
Found at i:25072084 original size:2 final size:2
Alignment explanation
Indices: 25072077--25072119 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
25072067 TTCAAATCTA
*
25072077 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT -T AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25072117 AT A
1 AT A
25072120 GTTATCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25072100 original size:16 final size:16
Alignment explanation
Indices: 25072075--25072119 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 16
25072065 AATTCAAATC
25072075 TAATATATATATATATA
1 TAATATATATATAT-TA
25072092 TACATATATATATATTA
1 TA-ATATATATATATTA
25072109 TAATATATATA
1 TAATATATATA
25072120 GTTATCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 12 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATATATATATATTA
Found at i:25076127 original size:31 final size:31
Alignment explanation
Indices: 25076089--25076152 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
25076079 AAATAAAATG
** *
25076089 TATAATTTACACTTTCAATTTTTAAATAATA
1 TATAATTTACACCATAAATTTTTAAATAATA
* *
25076120 TATAATTTGCACCATAAATTTTTAAATTATA
1 TATAATTTACACCATAAATTTTTAAATAATA
25076151 TA
1 TA
25076153 CCATATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (31 bp):
TATAATTTACACCATAAATTTTTAAATAATA
Found at i:25076500 original size:24 final size:24
Alignment explanation
Indices: 25076455--25076501 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25076445 AATATTAGAA
*
25076455 TAAAAATTAAAATAATATATTATT
1 TAAAAATTAAAATAATAAATTATT
*
25076479 TAAAAATTTAAAGT-ATAAATTAT
1 TAAAAA-TTAAAATAATAAATTAT
25076502 ACATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAAAATTAAAATAATAAATTATT
Found at i:25076554 original size:45 final size:48
Alignment explanation
Indices: 25076505--25076608 Score: 133
Period size: 52 Copynumber: 2.1 Consensus size: 48
25076495 AAATTATACA
25076505 TTTTATTTTT-TA-AA-TTATATATTTGTTAAAAATTAAGTACCAAAG
1 TTTTATTTTTATACAATTTATATATTTGTTAAAAATTAAGTACCAAAG
*
25076550 TTTTATTTTTTAAATACCAATTTCTATATTTGTTAAAAATTAAGTACCAAAG
1 TTTTA-TTTTT--ATA-CAATTTATATATTTGTTAAAAATTAAGTACCAAAG
*
25076602 TGTTATT
1 TTTTATT
25076609 AACTCTATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
45 5 0.10
46 5 0.10
49 2 0.04
51 4 0.08
52 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (48 bp):
TTTTATTTTTATACAATTTATATATTTGTTAAAAATTAAGTACCAAAG
Found at i:25077165 original size:11 final size:11
Alignment explanation
Indices: 25077151--25077194 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 11
25077141 TTATTTAATA
25077151 ATTATAATTTT
1 ATTATAATTTT
25077162 ATTATAATTTAAT
1 ATTATAATTT--T
25077175 AATTATAATTTT
1 -ATTATAATTTT
25077187 ATTATAAT
1 ATTATAAT
25077195 ATAATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 18 0.60
12 1 0.03
13 1 0.03
14 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:25077172 original size:25 final size:25
Alignment explanation
Indices: 25077143--25077203 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
25077133 TTAATTGATT
25077143 ATTTAATAATTATAATTTTATTATA
1 ATTTAATAATTATAATTTTATTATA
25077168 ATTTAATAATTATAATTTTATTATA
1 ATTTAATAATTATAATTTTATTATA
*
25077193 ATATAATAATT
1 ATTTAATAATT
25077204 TATTATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTAATAATTATAATTTTATTATA
Found at i:25077222 original size:25 final size:24
Alignment explanation
Indices: 25077146--25077222 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
25077136 ATTGATTATT
*
25077146 TAATAATTATAATTTTATTATAATT-
1 TAATAATTATAA-TTTAAT-TAATTA
* *
25077171 TAATAATTATAATTTTATTATAATA
1 TAATAATTATAATTTAATTA-ATTA
*
25077196 TAATAATTTATTATTTAATTAATTA
1 TAATAA-TTATAATTTAATTAATTA
25077221 TA
1 TA
25077223 TGGATTTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
23 2 0.05
24 6 0.14
25 23 0.53
26 12 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATAATTATAATTTAATTAATTA
Found at i:25083247 original size:16 final size:16
Alignment explanation
Indices: 25083220--25083266 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
25083210 AGCTTGATTT
25083220 AAATTATTATTTTATTA
1 AAATTA-TATTTTATTA
*
25083237 ATAATTA-ATTTTTATTT
1 A-AATTATA-TTTTATTA
25083254 AAATTATATTTTA
1 AAATTATATTTTA
25083267 AATATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 11 0.42
17 10 0.38
18 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTATATTTTATTA
Found at i:25083251 original size:17 final size:17
Alignment explanation
Indices: 25083220--25083265 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
25083210 AGCTTGATTT
25083220 AAATTAT-TATTTTATTA
1 AAATTATAT-TTTTATTA
*
25083237 ATAATTA-ATTTTTATTT
1 A-AATTATATTTTTATTA
25083254 AAATTATATTTT
1 AAATTATATTTT
25083266 AAATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATTATATTTTTATTA
Found at i:25090568 original size:6 final size:6
Alignment explanation
Indices: 25090557--25090581 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25090547 TTATGATATA
25090557 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
25090582 GTTAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:25098494 original size:17 final size:16
Alignment explanation
Indices: 25098474--25098508 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
25098464 ATATTAAAGG
25098474 AATTAAAATATTTTTAA
1 AATT-AAATATTTTTAA
*
25098491 AATTTAATATTTTTAA
1 AATTAAATATTTTTAA
25098507 AA
1 AA
25098509 AAATTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAAATATTTTTAA
Done.