Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 168 of 208
Found at i:51327173 original size:17 final size:17
Alignment explanation
Indices: 51327151--51327196 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
51327141 TTTAACTTGT
*
51327151 CTTGCAAGTAAATTTAA
1 CTTGCAAGTAAAATTAA
*
51327168 CTTGCAAGTAAAATTGA
1 CTTGCAAGTAAAATTAA
51327185 CTTGCAAGTAAA
1 CTTGCAAGTAAA
51327197 CTCTTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (17 bp):
CTTGCAAGTAAAATTAA
Found at i:51329127 original size:30 final size:30
Alignment explanation
Indices: 51329091--51329148 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
51329081 AACCTATTAC
51329091 AACCTATGGATAAACCAAGTTGCATGTTAA
1 AACCTATGGATAAACCAAGTTGCATGTTAA
51329121 AACCTATGGATAAACCAAGTTGCATGTT
1 AACCTATGGATAAACCAAGTTGCATGTT
51329149 CAAGAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (30 bp):
AACCTATGGATAAACCAAGTTGCATGTTAA
Found at i:51343292 original size:20 final size:22
Alignment explanation
Indices: 51343264--51343314 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
51343254 TCAAATACAG
*
51343264 ATTAAATTA-TTTTTAAAAA-A
1 ATTATATTATTTTTTAAAAATA
51343284 ATTATATTAATTTTTTAAAAATA
1 ATTATATT-ATTTTTTAAAAATA
51343307 ATT-TATTA
1 ATTATATTA
51343315 AAATCTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 14 0.52
23 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATATTATTTTTTAAAAATA
Found at i:51343301 original size:22 final size:22
Alignment explanation
Indices: 51343273--51343315 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
51343263 GATTAAATTA
51343273 TTTTTAAAAA-AATTATATTAAT
1 TTTTTAAAAATAATT-TATTAAT
51343295 TTTTTAAAAATAATTTATTAA
1 TTTTTAAAAATAATTTATTAA
51343316 AATCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTTAAAAATAATTTATTAAT
Found at i:51345217 original size:31 final size:30
Alignment explanation
Indices: 51345182--51345242 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51345172 GAGAGGTGGG
* *
51345182 ATGGGAAGGGAATAAAAGTTTTAGGGGAAAA
1 ATGGG-AGAGAATAAAAATTTTAGGGGAAAA
* *
51345213 ATGGGAGAGAGTAAAAATTTTGGGGGAAAA
1 ATGGGAGAGAATAAAAATTTTAGGGGAAAA
51345243 TTTGGGAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (30 bp):
ATGGGAGAGAATAAAAATTTTAGGGGAAAA
Found at i:51345535 original size:9 final size:9
Alignment explanation
Indices: 51345518--51345548 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51345508 TCGAGTTGAT
51345518 TCGAATAAC
1 TCGAATAAC
*
51345527 TCGATTAAC
1 TCGAATAAC
51345536 TCGAATAAC
1 TCGAATAAC
51345545 TCGA
1 TCGA
51345549 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:51354039 original size:87 final size:86
Alignment explanation
Indices: 51353870--51354122 Score: 382
Period size: 87 Copynumber: 2.9 Consensus size: 86
51353860 TTTTTTTCTC
* *
51353870 AAACGCCGGAATAGACCCTGATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
*
51353935 CTTTAGCGGCGCTTTCCCCTA
66 CTTTAGCGGCGCTTTCCCCAA
*
51353956 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC-AAACGCCACTAAAGAACCTAA
51354021 TCTTTAGCGGCGCTTTCCCCAA
65 TCTTTAGCGGCGCTTTCCCCAA
* * ** * * *
51354043 AAACGCCGCTAA-AGACCATGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAA
51354107 TCTTTAGCGGCGCTTT
65 TCTTTAGCGGCGCTTT
51354123 GACCAAAANN
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
86 74 0.48
87 77 0.50
88 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (86 bp):
AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
CTTTAGCGGCGCTTTCCCCAA
Found at i:51354056 original size:130 final size:130
Alignment explanation
Indices: 51353890--51354127 Score: 320
Period size: 130 Copynumber: 1.8 Consensus size: 130
51353880 ATAGACCCTG
* * *
51353890 ATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACC-TAATCTTTAGCGGCGCTTTCCCC
1 ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAG-ACCATAATCTTTAGCGGCGCTTTCCCC
51353954 TA-AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAAC
65 -ACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAAC
51354017 CTA
128 CTA
* * * * **
51354020 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCA
1 ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTTTAGCGGCGCTTTCCCCA
* * *
51354085 CAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCA
66 CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCA
51354128 AAANNNNNNN
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 4 0.04
130 87 0.94
131 2 0.02
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (130 bp):
ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTTTAGCGGCGCTTTCCCCA
CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
Found at i:51354119 original size:43 final size:43
Alignment explanation
Indices: 51353724--51354127 Score: 282
Period size: 43 Copynumber: 9.4 Consensus size: 43
51353714 TATTGGTCTA
* * *** *
51353724 TAGCGGCGC-TTCAAGCACAAACGCCGCTGAAGACTAAGACCTT
1 TAGCGGCGCTTTC-ACCACAAACGCCGCTAAAGACCCTGATCTT
**** *
51353767 TAGCGGCGCTTT-AGTGGAAGCGCCGCTAAAGACCCTGATCTT
1 TAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCCTGATCTT
* ** * * * * * ** *
51353809 TAGCGGAG-TTTGTGCTAGAAGCGCCGCTATAGATCAGGGTCTT
1 TAGCGGCGCTTT-CACCACAAACGCCGCTAAAGACCCTGATCTT
* *** * * *
51353852 TAGCGGCGTTTTTTTCTCAAACGCCG-GAATAGACCCTGATCTA
1 TAGCGGCGCTTTCACCACAAACGCCGCTAA-AGACCCTGATCTT
* * * * *
51353895 TAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAATCTT
1 TAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCCTGATCTT
* *
51353938 TAGCGGCGCTTTCCCCTA-AAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTCACC-ACAAACGCCGCTAA-AGACCCTGATCTT
* * *
51353981 TAGCGGCGC-TTCGACCACAAAACGCCACTAAAGAACCTAATCTT
1 TAGCGGCGCTTTC-ACCAC-AAACGCCGCTAAAGACCCTGATCTT
* * *
51354025 TAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATGATCTT
1 TAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCCTGATCTT
** *
51354068 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCCTGATCTT
*
51354111 TAGCGGCGCTTTGACCA
1 TAGCGGCGCTTTCACCA
51354128 AAANNNNNNN
Statistics
Matches: 280, Mismatches: 68, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
41 3 0.01
42 35 0.12
43 199 0.71
44 38 0.14
45 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCCTGATCTT
Found at i:51354531 original size:21 final size:21
Alignment explanation
Indices: 51354505--51354597 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
51354495 TATGACGCTG
*
51354505 CTCTGCTTTCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
51354526 CTCTGCTTCCCTCCCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
51354547 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
51354568 CTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
51354589 CTCTGCTTC
1 CTCTGCTTC
51354598 TCTTACTGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.05, C:0.44, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:51354598 original size:21 final size:21
Alignment explanation
Indices: 51354545--51354617 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
51354535 CCTCCCTTTA
* * *
51354545 GCCTCTGCTTCCCTCGCTGCA
1 GCCTCTGCTTCTCTAGCTGCC
* *
51354566 GCCTGTACTTCTCTAGCTGCC
1 GCCTCTGCTTCTCTAGCTGCC
51354587 GCCTCTGCTTCTCTTA-CTGCC
1 GCCTCTGCTTCTC-TAGCTGCC
*
51354608 GCATCTGCTT
1 GCCTCTGCTT
51354618 TAAGCTGCTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 41 0.95
22 2 0.05
ACGTcount: A:0.07, C:0.41, G:0.18, T:0.34
Consensus pattern (21 bp):
GCCTCTGCTTCTCTAGCTGCC
Found at i:51354734 original size:66 final size:66
Alignment explanation
Indices: 51354588--51354734 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
51354578 CTAGCTGCCG
* **
51354588 CCTCTGCTTCTCTTACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
51354653 A
66 A
* * * *
51354654 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTG-TAGCTGGAGTTCTTCATATCTTT-TTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
51354717 GAA
64 GAA
51354720 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
51354735 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
A
Found at i:51354750 original size:66 final size:66
Alignment explanation
Indices: 51354627--51354750 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
51354617 TTAAGCTGCT
* *
51354627 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTCAGTTGT
51354692 A
66 A
* * *
51354693 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTT
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTT
51354751 AAGGTTGTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 48 0.92
67 4 0.08
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTCAGTTGT
A
Found at i:51361076 original size:9 final size:9
Alignment explanation
Indices: 51361037--51361277 Score: 130
Period size: 9 Copynumber: 27.8 Consensus size: 9
51361027 TATGTATTAA
*
51361037 GTAAATTAT
1 GTAAGTTAT
*
51361046 GTAGGTTAT
1 GTAAGTTAT
*
51361055 GTACGTGTA-
1 GTAAGT-TAT
51361064 -TAAGTTAT
1 GTAAGTTAT
*
51361072 GTAAGTTTT
1 GTAAGTTAT
*
51361081 GT-A-TTAA
1 GTAAGTTAT
**
51361088 GTAAACTAT
1 GTAAGTTAT
*
51361097 GT-AGTTGT
1 GTAAGTTAT
51361105 GT-A-TTAT
1 GTAAGTTAT
*
51361112 GTAACTTAT
1 GTAAGTTAT
51361121 GTAAGTTAT
1 GTAAGTTAT
** *
51361130 CAAAGTAAT
1 GTAAGTTAT
*
51361139 GTATGTTAT
1 GTAAGTTAT
51361148 GTAAG-T-T
1 GTAAGTTAT
51361155 GTAAGTTAT
1 GTAAGTTAT
*
51361164 -TATGTATTAT
1 GTAAG--TTAT
* * *
51361174 ATAACTTCT
1 GTAAGTTAT
51361183 GTAAGTTAT
1 GTAAGTTAT
*
51361192 GTAAGTTGT
1 GTAAGTTAT
*
51361201 GTAAGCTAT
1 GTAAGTTAT
* *
51361210 TTTAGTTAT
1 GTAAGTTAT
51361219 GTAAGCTT-T
1 GTAAG-TTAT
51361228 GT-A-TTAT
1 GTAAGTTAT
51361235 GTAAGTTAT
1 GTAAGTTAT
* *
51361244 GTAGGTTAA
1 GTAAGTTAT
*
51361253 GTAAGTTGT
1 GTAAGTTAT
*
51361262 GTAAATTAT
1 GTAAGTTAT
51361271 GTAAGTT
1 GTAAGTT
51361278 CTTGTACATA
Statistics
Matches: 171, Mismatches: 45, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
6 2 0.01
7 20 0.12
8 20 0.12
9 119 0.70
10 8 0.05
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:51361107 original size:24 final size:24
Alignment explanation
Indices: 51361029--51361123 Score: 70
Period size: 24 Copynumber: 3.8 Consensus size: 24
51361019 TATATATTTA
* *
51361029 TGTATTAAGTAAATTATGTAGGTTA
1 TGTATTAAGTAACTTATGTA-GTTG
* *
51361054 TGTACGTGT-A-TAAGTTATGTAAGTTT
1 TGTA--T-TAAGTAACTTATGT-AGTTG
51361080 TGTATTAAGTAAAC-TATGTAGTTG
1 TGTATTAAGT-AACTTATGTAGTTG
*
51361104 TGTATTATGTAACTTATGTA
1 TGTATTAAGTAACTTATGTA
51361124 AGTTATCAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
23 4 0.07
24 21 0.37
25 10 0.18
26 18 0.32
27 3 0.05
28 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (24 bp):
TGTATTAAGTAACTTATGTAGTTG
Found at i:51361480 original size:53 final size:53
Alignment explanation
Indices: 51361422--51361557 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 53
51361412 TTTATAGCGG
51361422 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * *
51361475 TTAATGTA-ACTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTC-AAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* **
51361528 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAA
51361558 TATATTCAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 70 0.99
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (53 bp):
GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:51361543 original size:13 final size:13
Alignment explanation
Indices: 51361525--51361576 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
51361515 GAAATTTTAG
*
51361525 TAAGTAATGTATT
1 TAAGTAATATATT
*
51361538 TAAGTAATTTATT
1 TAAGTAATATATT
51361551 TAAGTAATATATT
1 TAAGTAATATATT
*
51361564 CAAGTAATATATT
1 TAAGTAATATATT
51361577 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:51361764 original size:100 final size:100
Alignment explanation
Indices: 51361646--51362255 Score: 1044
Period size: 100 Copynumber: 6.1 Consensus size: 100
51361636 ATACTTAAAA
51361646 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
51361711 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
*
51361746 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAAA-TATATTCGAACAATATATGTATTA
1 ATATATATTTAAGTAATGTAATATATAAATTTT-AAAAAATTATATTCGAACAATATATGTATTA
51361810 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
65 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * * *
51361846 ATATATATTTAAGTCATGTAATATATAAATTTTGAAAAATTATATTCAAACAATATATGTATTCG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
51361911 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
51361946 ATATATATTTAAGTAATGTAACATATAAATTGTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
*
51362011 TAATAAGTTAAATTAAATTTTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
51362046 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAATTTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
* *
51362111 TAATAAGTAAAATTAAATTGTAAAAATATTAACAC
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
** *
51362146 ATATATATTCCCA-TAATGTAATATATAAATTTTAAAAAATTATATTCGAACAAAATATGTATTA
1 ATATATATT-TAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTA
51362210 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
65 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
51362246 ATATATATTT
1 ATATATATTT
51362256 TTTAATATTA
Statistics
Matches: 479, Mismatches: 28, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
99 5 0.01
100 467 0.97
101 7 0.01
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:51362282 original size:45 final size:43
Alignment explanation
Indices: 51362233--51362316 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
51362223 TTAAATTGTA
*
51362233 AAAATATTAACATATATATATTTTTTAATATTAATAAGTTATGAT
1 AAAATA-TAACA-ATATATACTTTTTAATATTAATAAGTTATGAT
**
51362278 AAAATATATGAATATATACTTTTTAATATTAATAAGTTA
1 AAAATATAACAATATATACTTTTTAATATTAATAAGTTA
51362317 AATAAAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 27 0.75
44 3 0.08
45 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (43 bp):
AAAATATAACAATATATACTTTTTAATATTAATAAGTTATGAT
Found at i:51362716 original size:35 final size:35
Alignment explanation
Indices: 51362673--51362740 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
51362663 AATAGCAAAA
* *
51362673 CAGAAAACAAAAAATAGAAAACAGAAAACAGAATG
1 CAGAAAACAAAAAACAGAAAACAAAAAACAGAATG
*
51362708 CAGAAAACAAAAAACAGAAAACAAAAAATAGAA
1 CAGAAAACAAAAAACAGAAAACAAAAAACAGAA
51362741 AATAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.04
Consensus pattern (35 bp):
CAGAAAACAAAAAACAGAAAACAAAAAACAGAATG
Found at i:51362744 original size:7 final size:7
Alignment explanation
Indices: 51362656--51362742 Score: 93
Period size: 7 Copynumber: 12.3 Consensus size: 7
51362646 CACTTAATTC
51362656 AACAGAA
1 AACAGAA
*
51362663 AATAGCAA
1 AACAG-AA
51362671 AACAGAA
1 AACAGAA
*
51362678 AACAAAA
1 AACAGAA
*
51362685 AATAGAA
1 AACAGAA
51362692 AACAGAA
1 AACAGAA
51362699 AACAGAA
1 AACAGAA
**
51362706 TGCAGAA
1 AACAGAA
*
51362713 AACAAAA
1 AACAGAA
51362720 AACAGAA
1 AACAGAA
*
51362727 AACAAAA
1 AACAGAA
*
51362734 AATAGAA
1 AACAGAA
51362741 AA
1 AA
51362743 TAAAGAAACA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
7 58 0.91
8 6 0.09
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.05
Consensus pattern (7 bp):
AACAGAA
Found at i:51362788 original size:18 final size:19
Alignment explanation
Indices: 51362746--51362789 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
51362736 TAGAAAATAA
*
51362746 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
51362765 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
51362783 AGAAACA
1 AGAAACA
51362790 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:51365279 original size:7 final size:7
Alignment explanation
Indices: 51365267--51365377 Score: 116
Period size: 7 Copynumber: 15.9 Consensus size: 7
51365257 ATAACCCAAT
51365267 CCCTAAC
1 CCCTAAC
51365274 CCCTAAC
1 CCCTAAC
*
51365281 CCCAAAC
1 CCCTAAC
51365288 CCCTAAC
1 CCCTAAC
*
51365295 CCTTAAC
1 CCCTAAC
51365302 CCCTAAC
1 CCCTAAC
*
51365309 CCTTAAC
1 CCCTAAC
*
51365316 CCTTAAC
1 CCCTAAC
*
51365323 CCTTAAC
1 CCCTAAC
*
51365330 CCTTAA-
1 CCCTAAC
51365336 CCCTAAAC
1 CCCT-AAC
*
51365344 CCTTAAC
1 CCCTAAC
* *
51365351 CCATGAC
1 CCCTAAC
*
51365358 CTCTAAC
1 CCCTAAC
51365365 CCCTAAC
1 CCCTAAC
51365372 CCCTAA
1 CCCTAA
51365378 AACTTATTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
6 3 0.03
7 83 0.93
8 3 0.03
ACGTcount: A:0.31, C:0.49, G:0.01, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:51365487 original size:14 final size:14
Alignment explanation
Indices: 51365476--51365526 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
51365466 CTCTTAACAT
51365476 CTAACCCCTAA--C
1 CTAACCCCTAACCC
51365488 CTAACCCCTAACCC
1 CTAACCCCTAACCC
*
51365502 CTAACCCATAACCC
1 CTAACCCCTAACCC
51365516 CTAACCCCTAA
1 CTAACCCCTAA
51365527 TCCATAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.31
14 24 0.69
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.16
Consensus pattern (14 bp):
CTAACCCCTAACCC
Found at i:51365491 original size:33 final size:33
Alignment explanation
Indices: 51365454--51365521 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
51365444 TTTTATAAAT
* * *
51365454 CCTAAACCCTAACTCTTAACATC-TAACCCCTAA
1 CCTAAACCCTAACCCCTAAC-CCATAACCCCTAA
*
51365487 CCTAACCCCTAACCCCTAACCCATAACCCCTAA
1 CCTAAACCCTAACCCCTAACCCATAACCCCTAA
51365520 CC
1 CC
51365522 CCTAATCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (33 bp):
CCTAAACCCTAACCCCTAACCCATAACCCCTAA
Found at i:51365531 original size:21 final size:20
Alignment explanation
Indices: 51365476--51365533 Score: 91
Period size: 21 Copynumber: 2.9 Consensus size: 20
51365466 CTCTTAACAT
51365476 CTAACCCCTAACC-TAACCC
1 CTAACCCCTAACCATAACCC
51365495 CTAACCCCTAACCCATAACCC
1 CTAACCCCTAA-CCATAACCC
51365516 CTAACCCCTAATCCATAA
1 CTAACCCCTAA-CCATAA
51365534 ACCTTAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 23 0.64
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (20 bp):
CTAACCCCTAACCATAACCC
Found at i:51366578 original size:114 final size:112
Alignment explanation
Indices: 51366234--51366817 Score: 504
Period size: 114 Copynumber: 5.1 Consensus size: 112
51366224 GTTTTATCGT
* *
51366234 AAACGCCACTAATTCTAATATACCTGAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACAT-CAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * *
51366299 GCATAAAAATAAACGCCACTAATCATGTTCTTTTACGGCGTTTTTCTAA
65 GC-TTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
* * * * * ** *
51366348 AAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATA-TTTGCGGC
1 AAACGCCACTAATTCTAATATACATCAA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * * *
51366412 GCTTTACCGA-AAACGCCGCTAA-TACTATTCTTTTGCGGCG-TTTTATAGA
65 GC-TTA-CAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTTTA-A
** *
51366461 AAACGCCAC-AATGTCTAATATACAATTGAACCAAACGTTGCGTTTTGGTTAAGGTATTTTGCGG
1 AAACGCCACTAAT-TCTAATATAC-ATCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
* * *
51366525 CACATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
64 CGCTTAC-AATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
* * ** * * ** *
51366575 AAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCATTTTCCTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACATCAA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
**** * * **
51366638 CGCTTTTTGTTAAACGCCGCTAA-TACTATTCTTTCGCGGCGTTTTTTATAAAA
64 CGC-TTACAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTT-T--AA
* **
51366691 AAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATAC-ATCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* *
51366755 GCTTACAATAAACGTCACTAATTATGTTCTTTTACGGC-TTTTTTTAG
65 GCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
*
51366802 AAACGCCACTAGTTCT
1 AAACGCCACTAATTCT
51366818 TCAGGTTTTA
Statistics
Matches: 367, Mismatches: 81, Indels: 47
0.74 0.16 0.09
Matches are distributed among these distances:
111 15 0.04
112 13 0.04
113 122 0.33
114 126 0.34
115 55 0.15
116 34 0.09
117 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (112 bp):
AAACGCCACTAATTCTAATATACATCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG
CTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
Found at i:51366613 original size:227 final size:227
Alignment explanation
Indices: 51366216--51366812 Score: 875
Period size: 227 Copynumber: 2.6 Consensus size: 227
51366206 CGTTAAGATA
* * * *
51366216 TTTGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC--CTGAAAACCAAACGCTGCGTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAATTG--AACCAAACGCTGCGTTT
* *
51366279 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATCATGTTCTTTTACGGCGTTTTT
64 TGGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
* * *
51366344 CTAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTTGC
129 TTAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCATTTTCATTAAGATATTTGC
51366409 GGCGCTTTACCG-AAAACGCCGCTAATACTATTCT
194 GGCGCTTT-CCGTAAAACGCCGCTAATACTATTCT
*
51366443 TTTGCGGCGTTTTATAGAAAACGCCAC-AATGTCTAATATACAATTGAACCAAACGTTGCGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTT
* *
51366507 GGTTAAGGTATTTTGCGGCACATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
65 GGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
* * *
51366572 TAAAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCATTTTCCTTAAGATATTTGCG
130 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCATTTTCATTAAGATATTTGCG
** *
51366637 GCGCTTTTTGTTAAACGCCGCTAATACTATTCT
195 GCGCTTTCCGTAAAACGCCGCTAATACTATTCT
* *
51366670 TTCGCGGCGTTTTTTATAAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCGTT
1 TTTGCGGCG--TTTTAT-AGAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTT
* *
51366734 TTGGTTAAGGTATTTTGCGGCGCTTAC-AATAAACGTCACTAATTATGTTCTTTTACGGC-TTTT
63 TTGGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTT
*
51366797 TTTAGAAACGCCACTA
128 TTTAAAAACGCCACTA
51366813 GTTCTTCAGG
Statistics
Matches: 337, Mismatches: 25, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
226 4 0.01
227 227 0.67
228 31 0.09
229 42 0.12
230 30 0.09
231 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (227 bp):
TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
GTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
AAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCATTTTCATTAAGATATTTGCGG
CGCTTTCCGTAAAACGCCGCTAATACTATTCT
Found at i:51389188 original size:23 final size:21
Alignment explanation
Indices: 51389139--51389179 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51389129 ACAAAATGTC
*
51389139 ATGTGTGGCGTGACACGCAAT
1 ATGTGTGGCGCGACACGCAAT
*
51389160 ATGTGTGGCGCGACATGCAA
1 ATGTGTGGCGCGACACGCAA
51389180 GGTCTGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (21 bp):
ATGTGTGGCGCGACACGCAAT
Found at i:51392810 original size:6 final size:6
Alignment explanation
Indices: 51392799--51392924 Score: 243
Period size: 6 Copynumber: 21.0 Consensus size: 6
51392789 ACATGGAATA
51392799 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
51392847 TATATG TATATG TATATG TATATG TATATG TACATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
51392895 TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG
51392925 CAATTGTCTC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 118 1.00
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:51394010 original size:20 final size:20
Alignment explanation
Indices: 51393973--51394010 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51393963 TTAGGGTTAC
*
51393973 AAAACATTACCATACAATCA
1 AAAACATTAACATACAATCA
51393993 AAAACATTTAACAT-CAAT
1 AAAACA-TTAACATACAAT
51394011 ATTCAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAACATTAACATACAATCA
Found at i:51394752 original size:9 final size:9
Alignment explanation
Indices: 51394738--51394766 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
51394728 TACCAAAATG
51394738 TCATACACA
1 TCATACACA
51394747 TCATACACA
1 TCATACACA
51394756 TCATACACA
1 TCATACACA
51394765 TC
1 TC
51394767 CATCATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (9 bp):
TCATACACA
Found at i:51399459 original size:34 final size:34
Alignment explanation
Indices: 51399416--51399485 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
51399406 TGAGGTCGAA
*
51399416 AGAAAATTTATTTTAATATTATTTTATGGTCTAT
1 AGAAAATTTATTTGAATATTATTTTATGGTCTAT
51399450 AGAAAATTTATTTGAATATTATTTTATGGTCTAT
1 AGAAAATTTATTTGAATATTATTTTATGGTCTAT
51399484 AG
1 AG
51399486 TACGATAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (34 bp):
AGAAAATTTATTTGAATATTATTTTATGGTCTAT
Found at i:51400678 original size:25 final size:25
Alignment explanation
Indices: 51400644--51400698 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
51400634 ACACACCACA
*
51400644 GCTCTTATGAGCGTCTCGATATTTG
1 GCTCTCATGAGCGTCTCGATATTTG
* *
51400669 GCTCTCATGAGCTTCTCGTTATTTG
1 GCTCTCATGAGCGTCTCGATATTTG
51400694 GCTCT
1 GCTCT
51400699 GCGAAGCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.42
Consensus pattern (25 bp):
GCTCTCATGAGCGTCTCGATATTTG
Found at i:51400706 original size:25 final size:24
Alignment explanation
Indices: 51400652--51400770 Score: 75
Period size: 25 Copynumber: 4.8 Consensus size: 24
51400642 CAGCTCTTAT
*
51400652 GAGCGTCTCGATATTTGGCTCTCA
1 GAGCTTCTCGATATTTGGCTCTCA
*
51400676 TGAGCTTCTCGTTATTTGGCTCTGC-
1 -GAGCTTCTCGATATTTGGCTCT-CA
* * *
51400701 GAAGCTTC-CTGATAATTGGATCTTA
1 G-AGCTTCTC-GATATTTGGCTCTCA
* * *
51400726 TGAGCTTCCCGAT-TAATGGCTCTCC
1 -GAGCTTCTCGATAT-TTGGCTCTCA
51400751 GAAGCTTCTCGATA-TTGGCT
1 G-AGCTTCTCGATATTTGGCT
51400771 AGCATGAGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 19
0.69 0.12 0.18
Matches are distributed among these distances:
24 8 0.11
25 61 0.85
26 3 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (24 bp):
GAGCTTCTCGATATTTGGCTCTCA
Found at i:51400746 original size:50 final size:50
Alignment explanation
Indices: 51400661--51400839 Score: 136
Period size: 50 Copynumber: 3.6 Consensus size: 50
51400651 TGAGCGTCTC
* * * * *
51400661 GATATTTGGCTCTCATGAGCTTCTCGTTATTTGGCTCTGCGAAGCTTCCT
1 GATAATTGGATCTCATGAGCTTCCCGTTATATGGCTCTCCGAAGCTTCCT
*
51400711 GATAATTGGATCTTATGAGCTTCCCGATTA-ATGGCTCTCCGAAGCTT-CT
1 GATAATTGGATCTCATGAGCTTCCCG-TTATATGGCTCTCCGAAGCTTCCT
* ** * * **
51400760 CGAT-ATTGGCTAGCATGAGCTT-CC-TAATTATAGCTCTTATG-AGCTTCCT
1 -GATAATTGGATCTCATGAGCTTCCCGTTA-TATGGCTC-TCCGAAGCTTCCT
* * *
51400809 GATAATTGGCTCGCAAGAGCTTCCCGTTATA
1 GATAATTGGATCTCATGAGCTTCCCGTTATA
51400840 CAGCTCACAT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
46 2 0.02
48 16 0.16
49 36 0.35
50 44 0.43
51 5 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (50 bp):
GATAATTGGATCTCATGAGCTTCCCGTTATATGGCTCTCCGAAGCTTCCT
Found at i:51404148 original size:111 final size:112
Alignment explanation
Indices: 51403947--51404238 Score: 448
Period size: 111 Copynumber: 2.6 Consensus size: 112
51403937 ATAAACGAGG
* *
51403947 AATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAACGCAAAACATTGCCTTATT
1 AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
* *
51404010 TTGAAATTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
66 TTAAAAGTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
* *
51404057 AATCGACACCCAGCACCTTAGGGCAGGTTTTCTCGAATTTCCCAAGCGCAAAACATTGCCTTATT
1 AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
*
51404122 CTTAAAAGTTTT-AA-AAGGATATTAAGCCATTTGGTTGGACGAGAAA
66 -TTAAAAGTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
* * * *
51404168 AATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCGAAATATTGCCTTATT
1 AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
51404233 TTAAAA
66 TTAAAA
51404239 CATTTTCCTT
Statistics
Matches: 167, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
110 31 0.19
111 102 0.61
112 25 0.15
113 9 0.05
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (112 bp):
AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
TTAAAAGTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
Found at i:51404757 original size:21 final size:22
Alignment explanation
Indices: 51404732--51404781 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
51404722 TGGACGAGTA
51404732 AACAATA-ATAA-AAATAGTAAT
1 AACAATAGATAACAAATA-TAAT
51404753 AACAA-AGATAACAAATATAAT
1 AACAATAGATAACAAATATAAT
*
51404774 AATAATAG
1 AACAATAG
51404782 TTAGTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (22 bp):
AACAATAGATAACAAATATAAT
Found at i:51405860 original size:15 final size:15
Alignment explanation
Indices: 51405840--51405878 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
51405830 AGCAGGTGGG
51405840 CAGAAGACCAAAGGT
1 CAGAAGACCAAAGGT
51405855 CAGAAGACCAAAGGT
1 CAGAAGACCAAAGGT
51405870 CAGAAGACC
1 CAGAAGACC
51405879 TTAGGAGCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.23, G:0.26, T:0.05
Consensus pattern (15 bp):
CAGAAGACCAAAGGT
Found at i:51407656 original size:3 final size:3
Alignment explanation
Indices: 51407648--51407699 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
51407638 AACATTAAAT
51407648 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
51407696 TTA T
1 TTA T
51407700 CTCTACAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:51408879 original size:25 final size:24
Alignment explanation
Indices: 51408848--51408973 Score: 65
Period size: 25 Copynumber: 5.2 Consensus size: 24
51408838 TAAAATTTAA
51408848 ATTTATTATATAATTTTTTGAAAAT
1 ATTTATTATATAATTTTTT-AAAAT
51408873 ATTTATT-TATTCATATTTTTT-AAAT
1 ATTTATTATA-T-A-ATTTTTTAAAAT
*
51408898 ATATATTAT-T-ATTTCTTGTCAACAAT
1 ATTTATTATATAATTT-TT-T-AA-AAT
*
51408924 A-TTATT-T-TTATTTTTT--AA-
1 ATTTATTATATAATTTTTTAAAAT
*
51408942 ATTTATTATTATATTTTTTTGAAAAT
1 ATTTATTA-TATAATTTTTT-AAAAT
51408968 ATTTAT
1 ATTTAT
51408974 GTATTTATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 35
0.67 0.03 0.30
Matches are distributed among these distances:
18 1 0.01
19 7 0.09
21 5 0.06
22 9 0.11
23 2 0.03
24 7 0.09
25 29 0.37
26 12 0.15
27 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTATTATATAATTTTTTAAAAT
Found at i:51409171 original size:46 final size:48
Alignment explanation
Indices: 51409063--51409262 Score: 215
Period size: 48 Copynumber: 4.0 Consensus size: 48
51409053 ACTAAAATAG
*
51409063 TATTTTTTTAATCGCGCCTATCTGGCAGGCGCGAATCAATTTTTTTAT
1 TATTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTTAT
* **
51409111 TATTTTTTTAATCGCGCCAATCTGACAGGCGCGAATTGA-TTTTTTAT
1 TATTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTTAT
* *
51409158 TA-TTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAAATTTTTATATTAAAAA
1 TATTTTTTTAATCGCGCCTATCTGACAGGCGCGAATC-AA-TTTT-T-TT---AT
* * * **
51409212 TATTTTTTTAATTGCTCCTACCTGACAGGTACGAATCAATTTTTTATAT
1 TATTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTT-TAT
51409261 TA
1 TA
51409263 AAAATAATTT
Statistics
Matches: 126, Mismatches: 16, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
46 31 0.25
47 11 0.09
48 35 0.28
49 6 0.05
50 1 0.01
51 3 0.02
52 2 0.02
53 4 0.03
54 5 0.04
55 28 0.22
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (48 bp):
TATTTTTTTAATCGCGCCTATCTGACAGGCGCGAATCAATTTTTTTAT
Found at i:51409222 original size:55 final size:55
Alignment explanation
Indices: 51409159--51409275 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
51409149 ATTTTTTATT
* **
51409159 ATTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAAATTTTTATATTAAAAATA
1 ATTTTTTAATCGCGCCTACCTGACAGGCACGAATCAAATTTTTATATTAAAAATA
* * * * *
51409214 TTTTTTTAATTGCTCCTACCTGACAGGTACGAATCAATTTTTTATATTAAAAATA
1 ATTTTTTAATCGCGCCTACCTGACAGGCACGAATCAAATTTTTATATTAAAAATA
51409269 ATTTTTT
1 ATTTTTT
51409276 GTTTAAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (55 bp):
ATTTTTTAATCGCGCCTACCTGACAGGCACGAATCAAATTTTTATATTAAAAATA
Found at i:51409866 original size:45 final size:49
Alignment explanation
Indices: 51409817--51409910 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
51409807 AAAAAAAATT
* *
51409817 TAAT-ATAAAAAATTGATTCATGCCTGTCAAATAGGCGCGATTAAATAA
1 TAATAATAATAAATTGATTCACGCCTGTCAAATAGGCGCGATTAAATAA
* *
51409865 TAATAATAATAAATTGATTCGCGCCTGTCAGATAGGCGCGATTAAA
1 TAATAATAATAAATTGATTCACGCCTGTCAAATAGGCGCGATTAAA
51409911 AAAACATACC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 4 0.10
49 37 0.90
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (49 bp):
TAATAATAATAAATTGATTCACGCCTGTCAAATAGGCGCGATTAAATAA
Found at i:51415218 original size:20 final size:19
Alignment explanation
Indices: 51415174--51415227 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
51415164 ATCTGTTCAC
*
51415174 CAAGAGATACAA-T-TGTT
1 CAAGAGATACAACTATTTT
*
51415191 CAAAAGATACAACTATTTAT
1 CAAGAGATACAACTATTT-T
*
51415211 CAAGAGATAGAACTATT
1 CAAGAGATACAACTATT
51415228 GTTTAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 2 0.07
20 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (19 bp):
CAAGAGATACAACTATTTT
Found at i:51423829 original size:21 final size:19
Alignment explanation
Indices: 51423792--51423866 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
51423782 AATCATATCT
51423792 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
51423811 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
51423832 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
51423851 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
51423867 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:51424460 original size:45 final size:45
Alignment explanation
Indices: 51424411--51424515 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
51424401 CATTGCAATA
* *
51424411 TCAGGGGGATAAGACTTACTTTCTTGAGTCTGCTCCACTGCAACT
1 TCAGGGGGATAAGACTCACTTTCTTGAGTCTGCTCCACCGCAACT
* * * *
51424456 TCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCTCCGCAACT
1 TCAGGGGGATAAGACTCACTTTCTTGAGTCTGCTCCACCGCAACT
51424501 TCAGGGAGG-TAAGAC
1 TCAGGG-GGATAAGAC
51424516 CTGATATCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (45 bp):
TCAGGGGGATAAGACTCACTTTCTTGAGTCTGCTCCACCGCAACT
Found at i:51424788 original size:88 final size:88
Alignment explanation
Indices: 51424635--51425163 Score: 752
Period size: 88 Copynumber: 6.0 Consensus size: 88
51424625 TCGATAAGAT
* * * * * * * * * * *
51424635 TGGTGTCTTCGATCTGCTTCGCTATCGGTGCAAGATGGCAAGATCTACTATCTTTAGCCTACTCC
1 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
*
51424700 ACTACAACCCAGGGAGGCAAGAC
66 ACTACAACCCAGGGAGGCAAGGC
* * * *
51424723 TAGTGTCTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
1 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
* *
51424788 ACTACGACCTAGGGAGGCAAGGC
66 ACTACAACCCAGGGAGGCAAGGC
* *
51424811 TGGTATCTTTGATCTGCTTTACTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
1 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
*
51424876 ACTACAACCCAAGGAGGCAAGGC
66 ACTACAACCCAGGGAGGCAAGGC
* * *
51424899 TGGTATCTTTGATCTGCTTCACTGTCGGTGTAGGAATGCAAGATCTGCTATCTTCAACCTGCTCC
1 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
51424964 ACTACAACCCAGGGAGGCAAGGC
66 ACTACAACCCAGGGAGGCAAGGC
* *
51424987 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACTTGCTCC
1 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
*
51425052 ACTACGACCCAGGGAGGCAAGGC
66 ACTACAACCCAGGGAGGCAAGGC
* * * *
51425075 TGGTATCTTCGATCTACTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTCCTCC
1 TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
* * *
51425140 ACTACGACCTAGGGAGACAAGGC
66 ACTACAACCCAGGGAGGCAAGGC
51425163 T
1 T
51425164 TTGTGATTTC
Statistics
Matches: 398, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 398 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (88 bp):
TGGTATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
ACTACAACCCAGGGAGGCAAGGC
Found at i:51426505 original size:27 final size:26
Alignment explanation
Indices: 51426474--51426527 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
51426464 GATTTTCACC
51426474 TTGGCCTCTCATTT-TCTTTTCTTTTTT
1 TTGGCCTCTC-TTTCT-TTTTCTTTTTT
* *
51426501 TTGGCTTTTCTTTCTTTTTCTTTTTT
1 TTGGCCTCTCTTTCTTTTTCTTTTTT
51426527 T
1 T
51426528 GATGAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.02, C:0.19, G:0.07, T:0.72
Consensus pattern (26 bp):
TTGGCCTCTCTTTCTTTTTCTTTTTT
Found at i:51426525 original size:16 final size:14
Alignment explanation
Indices: 51426485--51426524 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
51426475 TGGCCTCTCA
51426485 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
51426499 TTTTGGCTTTTCTTTCT
1 TTTT--CTTTTCTTT-T
51426516 TTTTCTTTT
1 TTTTCTTTT
51426525 TTTGATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 9 0.39
17 5 0.22
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:51432021 original size:21 final size:19
Alignment explanation
Indices: 51431984--51432058 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
51431974 AATCATATCT
51431984 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
51432003 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
51432024 TCTAAGATTGCACATCATA
1 TCTAAGATTGCATATCATA
51432043 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
51432059 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:51434648 original size:41 final size:41
Alignment explanation
Indices: 51434584--51434680 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
51434574 GCAGAAAGCG
*
51434584 CTTCCAGCTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
1 CTTCCAGTTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
* *
51434625 CTTCCAGTTGAAAG-TATTGTTTTGCAAATCAACTGAAAATT
1 CTTCCAGTTGAAAGCT-TTCTTTTGCAAATCAACTGAAAACT
*
51434666 TTTCCAGTTGAAAGC
1 CTTCCAGTTGAAAGC
51434681 GTTTTCGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.02
41 49 0.98
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (41 bp):
CTTCCAGTTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
Found at i:51434977 original size:41 final size:41
Alignment explanation
Indices: 51434915--51435143 Score: 310
Period size: 41 Copynumber: 5.7 Consensus size: 41
51434905 AAACAAAAAT
*
51434915 GCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
* * *
51434956 GCCTCTAAAGAGCATGGTCTTTAGCGGCGTTTTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCTAAGC
51434998 GCCGCTAAAGAACA-------TAGCGGCGCTTTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCTAAGC
* *
51435033 GCCCCTGAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
* *
51435074 GTCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTATAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
*
51435115 GCCGCTAAAGAACATGGTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
51435144 CTAAAGAACA
Statistics
Matches: 166, Mismatches: 14, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
35 32 0.19
41 102 0.61
42 32 0.19
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (41 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGC
Found at i:51435145 original size:25 final size:25
Alignment explanation
Indices: 51435112--51435168 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
51435102 GTTTTTTATA
51435112 AGCGCCGCTAAAGAACATGGTCTTT
1 AGCGCCGCTAAAGAACATGGTCTTT
*
51435137 AGCGGCGCTAAAGAACATGGTCTTT
1 AGCGCCGCTAAAGAACATGGTCTTT
51435162 AGCGCCG
1 AGCGCCG
51435169 TTTTTTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (25 bp):
AGCGCCGCTAAAGAACATGGTCTTT
Found at i:51435539 original size:21 final size:21
Alignment explanation
Indices: 51435515--51435561 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
51435505 TTGCAGCTTT
51435515 TGCTTCCCTCGCTGCAGCCGC
1 TGCTTCCCTCGCTGCAGCCGC
* *
51435536 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCCCTCGCTGCAGCCGC
51435557 TGCTT
1 TGCTT
51435562 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.47, G:0.21, T:0.30
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCGC
Found at i:51438638 original size:43 final size:43
Alignment explanation
Indices: 51438576--51438661 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
51438566 TTAATTAGTT
* *
51438576 AACACCTTTCTATGGGATACATCCATTGATAGAAAACGGGTCC
1 AACACCTTTCTATGAGATACATCCATCGATAGAAAACGGGTCC
51438619 AACACCTTTCTATGAGATACATCCATCGATAGAAAACGGGTCC
1 AACACCTTTCTATGAGATACATCCATCGATAGAAAACGGGTCC
51438662 GCTAAGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
AACACCTTTCTATGAGATACATCCATCGATAGAAAACGGGTCC
Found at i:51441124 original size:9 final size:9
Alignment explanation
Indices: 51441110--51441292 Score: 173
Period size: 9 Copynumber: 20.9 Consensus size: 9
51441100 TTTTTATGTA
51441110 TTATGTAAG
1 TTATGTAAG
51441119 TTATGTAAG
1 TTATGTAAG
*
51441128 TTGTGT-A-
1 TTATGTAAG
*
51441135 TTATGTGAG
1 TTATGTAAG
51441144 TTATGTAAG
1 TTATGTAAG
51441153 TTATGTAAG
1 TTATGTAAG
* *
51441162 TTATTTAATT
1 TTATGTAA-G
51441172 TTATGTAAG
1 TTATGTAAG
51441181 TTATGTAAG
1 TTATGTAAG
*
51441190 TTATGTAGG
1 TTATGTAAG
*
51441199 CTATGT-A-
1 TTATGTAAG
* *
51441206 TTATCTAAA
1 TTATGTAAG
*
51441215 TAATGTAAG
1 TTATGTAAG
*
51441224 TTA-GGAAGG
1 TTATGTAA-G
51441233 TTATGT-A-
1 TTATGTAAG
51441240 TTATGTAAG
1 TTATGTAAG
*
51441249 TTATTTAAG
1 TTATGTAAG
*
51441258 TTATGCAAG
1 TTATGTAAG
* *
51441267 TTATTTAAT
1 TTATGTAAG
51441276 TTATGTAAG
1 TTATGTAAG
51441285 TTATGTAA
1 TTATGTAA
51441293 TTAGAAATTT
Statistics
Matches: 139, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
7 15 0.11
8 7 0.05
9 109 0.78
10 8 0.06
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:51441148 original size:34 final size:34
Alignment explanation
Indices: 51441074--51441292 Score: 203
Period size: 34 Copynumber: 6.3 Consensus size: 34
51441064 ACTATAAATG
* *
51441074 AGTTATGTAAGTTATGATATGATATAT-TTTTATGT-
1 AGTTATGTAAGTTATG-TAAG-T-TATGTATTATGTA
* *
51441109 A-TTATGTAAGTTATGTAAGTTGTGTATTATGTG
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
*
51441142 AGTTATGTAAGTTATGTAAGTTATTTAATTTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGT-A--TTATGTA
* * *
51441179 AGTTATGTAAGTTATGTAGGCTATGTATTATCTA
1 AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* * *
51441213 AATAATGTAAGTTA-GGAAGGTTATGTATTATGTA
1 AGTTATGTAAGTTATGTAA-GTTATGTATTATGTA
* * *
51441247 AGTTATTTAAGTTATGCAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGT-A-TTATGTA
51441283 AGTTATGTAA
1 AGTTATGTAA
51441293 TTAGAAATTT
Statistics
Matches: 152, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
31 2 0.01
32 8 0.05
33 6 0.04
34 84 0.55
35 6 0.04
36 17 0.11
37 29 0.19
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (34 bp):
AGTTATGTAAGTTATGTAAGTTATGTATTATGTA
Found at i:51441221 original size:62 final size:62
Alignment explanation
Indices: 51441110--51441226 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 62
51441100 TTTTTATGTA
* * * * *
51441110 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGTAAGTTATTTAATT
1 TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGTAAGTTATTTAATT
51441172 TTATGTAAGTTATGTAAGTTATGTAGGCTATGT-A-TTATCTAAATAATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATGTA--CTATGTGAGTTATCTAAATAATGTAAGTTA
51441227 GGAAGGTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
62 42 0.88
63 1 0.02
64 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (62 bp):
TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGTAAGTTATTTAATT
Found at i:51441347 original size:57 final size:57
Alignment explanation
Indices: 51441271--51441436 Score: 271
Period size: 57 Copynumber: 2.9 Consensus size: 57
51441261 TGCAAGTTAT
* *
51441271 TTAAT-TTATGTAAGTTATGTAATTAGAAATTTGATCTTAATATTATATATGTAATC
1 TTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
* *
51441327 TTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATC
1 TTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
* *
51441384 TTAATACTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGT
1 TTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGT
51441437 TATGTAATTC
Statistics
Matches: 101, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 5 0.05
57 96 0.95
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.46
Consensus pattern (57 bp):
TTAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
Found at i:51441432 original size:37 final size:37
Alignment explanation
Indices: 51441381--51441812 Score: 317
Period size: 37 Copynumber: 11.6 Consensus size: 37
51441371 TATAAAAGTA
* *
51441381 ATCTTAATACTATATAAGTTATGTAATTAGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
*
51441418 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTG
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * * **
51441455 ATCTTAATATTATATAAGTAATCTTAATAT-TATATAAGTT
1 ATCTTAATATTATATAAGTTAT-GTAAT-TCGA-A-ATTTT
* ** * * ** ** *
51441495 AT-GT-A-ATTCGA-AATTTGATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAAGTT-AT-GT-A-ATTCGAAATTTT
51441532 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * *
51441569 ACCTTAATATTGTATAAGTTATGTAATTCGACATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * * *
51441606 ATCTTAACATTATATAAGTTATGTAATTTATGTAA-GTT
1 ATCTTAATATTATATAAGTTATGTAA-TT-CGAAATTTT
* * * * ** ** *
51441644 AT-GT-A-ATTAGA-AATTTTATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAA-GTTAT-GT-A-ATTCGAAATTTT
*
51441681 ATATTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* *
51441718 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* *
51441755 ATCTTAATATTGTATAAGTTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
51441792 ATCTTAATATTATATAAGTTA
1 ATCTTAATATTATATAAGTTA
51441813 AGAAATTTTA
Statistics
Matches: 316, Mismatches: 56, Indels: 46
0.76 0.13 0.11
Matches are distributed among these distances:
34 2 0.01
35 9 0.03
36 7 0.02
37 240 0.76
38 20 0.06
39 13 0.04
40 19 0.06
41 6 0.02
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
Found at i:51441435 original size:94 final size:94
Alignment explanation
Indices: 51441324--51441530 Score: 369
Period size: 94 Copynumber: 2.2 Consensus size: 94
51441314 TATATATGTA
51441324 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAAT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAAT
*
51441389 ACTATATAAGTTATGTAATTAGAAATTTT
66 ACTATATAAGTTATGTAATTAGAAATTTG
*
51441418 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAAT
* *
51441483 ATTATATAAGTTATGTAATTCGAAATTTG
66 ACTATATAAGTTATGTAATTAGAAATTTG
*
51441512 ATCTTAATATTATAAAAGT
1 ATCTTAATATTATATAAGT
51441531 AATCTTAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 108 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (94 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAAT
ACTATATAAGTTATGTAATTAGAAATTTG
Found at i:51441466 original size:151 final size:151
Alignment explanation
Indices: 51441267--51441773 Score: 806
Period size: 151 Copynumber: 3.4 Consensus size: 151
51441257 GTTATGCAAG
* * *
51441267 TTAT-TTAAT-TTATGTAAGTTATGTAATTAGAAATTTGATCTTAATATTATATATGTAATCTTA
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTA
*
51441330 ATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATACTATA
66 ATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATA
*
51441395 TAAGTTATGTAATTAGAAATT
131 TAAGTTATGTAATTCGAAATT
51441416 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTA
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTA
51441481 ATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATA
66 ATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATA
51441546 TAAGTTATGTAATTCGAAATT
131 TAAGTTATGTAATTCGAAATT
* * * * * * *
51441567 TTACCTTAATATTGTATAAGTTATGTAATTCGACATTTTATCTTAACATTATATAAGTTAT-GTA
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTA
* * * *
51441631 AT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAATATTAATATTATA
66 ATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATA
51441695 TAAGTTATGTAATTCGAAATT
131 TAAGTTATGTAATTCGAAATT
* * * *
51441716 TTATCTTAATATTGTATAAGTTATGTAATTCGATATTTTATCTTAATATTGTATAAGT
1 TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGT
51441774 TATGTAATTC
Statistics
Matches: 336, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
149 137 0.41
150 9 0.03
151 190 0.57
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (151 bp):
TTATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTA
ATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATA
TAAGTTATGTAATTCGAAATT
Found at i:51441479 original size:57 final size:57
Alignment explanation
Indices: 51441418--51441587 Score: 304
Period size: 57 Copynumber: 3.0 Consensus size: 57
51441408 TAGAAATTTT
51441418 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
*
51441475 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
* * *
51441532 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTATAAGT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGT
51441588 TATGTAATTC
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 108 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (57 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
Found at i:51441641 original size:18 final size:18
Alignment explanation
Indices: 51441615--51441708 Score: 68
Period size: 18 Copynumber: 5.1 Consensus size: 18
51441605 TATCTTAACA
51441615 TTATATAAGTTATGTAAT
1 TTATATAAGTTATGTAAT
*
51441633 TTATGTAAGTTATGTAA-
1 TTATATAAGTTATGTAAT
* * *
51441650 TTAGA-AATTTTATCTTAAT
1 TTATATAA-GTTAT-GTAAT
*
51441669 ATTATAAAAGTAATAT-TAAT
1 -TTATATAAGT--TATGTAAT
51441689 ATTATATAAGTTATGTAAT
1 -TTATATAAGTTATGTAAT
51441708 T
1 T
51441709 CGAAATTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.03
17 7 0.12
18 23 0.38
19 4 0.07
20 19 0.32
21 2 0.03
22 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (18 bp):
TTATATAAGTTATGTAAT
Found at i:51441714 original size:57 final size:55
Alignment explanation
Indices: 51441572--51441744 Score: 231
Period size: 57 Copynumber: 3.1 Consensus size: 55
51441562 AAATTTTACC
* * * *
51441572 TTAATATTGTATAAGTTATGTAATTCGACATTTTATCTTAACATTATATAAGTTA
1 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTTA
* *
51441627 TGTAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAAAGTAATA
1 T-TAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGT--TA
* *
51441684 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTA
1 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTTA
51441739 TGTAAT
1 T-TAAT
51441745 TCGATATTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
55 45 0.44
56 12 0.12
57 46 0.45
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (55 bp):
TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATAAAAGTTA
Found at i:51444284 original size:19 final size:19
Alignment explanation
Indices: 51444260--51444296 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51444250 GGACTACGTT
*
51444260 GGGGAACTGTTAGGGATTA
1 GGGGAAATGTTAGGGATTA
*
51444279 GGGGAAATTTTAGGGATT
1 GGGGAAATGTTAGGGATT
51444297 TGGAAGAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.41, T:0.30
Consensus pattern (19 bp):
GGGGAAATGTTAGGGATTA
Found at i:51445386 original size:7 final size:7
Alignment explanation
Indices: 51445371--51445424 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
51445361 CTCAAAAACT
*
51445371 CAAATCC
1 CAAACCC
51445378 CAAACCC
1 CAAACCC
51445385 CAAACCC
1 CAAACCC
51445392 CAAACCC
1 CAAACCC
*
51445399 CTAACCC
1 CAAACCC
**
51445406 CAAAAAC
1 CAAACCC
*
51445413 GAAACCC
1 CAAACCC
51445420 CAAAC
1 CAAAC
51445425 TCAATAACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.46, C:0.48, G:0.02, T:0.04
Consensus pattern (7 bp):
CAAACCC
Found at i:51446513 original size:72 final size:73
Alignment explanation
Indices: 51446385--51446552 Score: 207
Period size: 71 Copynumber: 2.3 Consensus size: 73
51446375 TCATTAGCGA
* * * *
51446385 CGCTTTTCACAAAACGCCGCTAAAGGCCCAAAAAACACAGAAAACGGCGTCGTTGGCCTTAGGTT
1 CGCTTTTCAAAAAACGCCGCTAAAGGCCAAAAAAACACAGAAAACGACATCGTTGGCCTTAGG-T
51446450 TTTTTGCGG
65 TTTTTGCGG
* * *
51446459 CGCTTTTCAAAAAACGCCGC-AACAGG-GAAAAAAACGC-GGAAACGACATCGTTGGCCTTAGGT
1 CGCTTTTCAAAAAACGCCGCTAA-AGGCCAAAAAAACACAGAAAACGACATCGTTGGCCTTAGGT
51446521 TTTTTGCGG
65 TTTTTGCGG
* * *
51446530 CGCTTTTTAGAAATCGCCGCTAA
1 CGCTTTTCAAAAAACGCCGCTAA
51446553 GTCCCCCGAG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 27 0.33
72 23 0.28
73 10 0.12
74 22 0.27
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (73 bp):
CGCTTTTCAAAAAACGCCGCTAAAGGCCAAAAAAACACAGAAAACGACATCGTTGGCCTTAGGTT
TTTTGCGG
Found at i:51447416 original size:2 final size:2
Alignment explanation
Indices: 51447409--51447436 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51447399 ATATTTACAA
51447409 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
51447437 TCCAGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51473195 original size:18 final size:19
Alignment explanation
Indices: 51473166--51473201 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51473156 GTTTGTTTGC
*
51473166 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
51473185 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
51473202 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:51475754 original size:42 final size:42
Alignment explanation
Indices: 51475707--51475827 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
51475697 TTAGGGTTAC
51475707 TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
* * * * *
51475749 TGAGATTTCGTGTAAGACCATAGCAGGG-CTATGGCACCGATG
1 TGAGATTACGTGTAAGACCATATCTGGGAC-ATGGCATCGATA
* * *
51475791 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGACATGGCAT
51475828 TAGTATTGTG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
Found at i:51481499 original size:25 final size:25
Alignment explanation
Indices: 51481439--51481499 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
51481429 ATACAGGTAT
51481439 GCTCATATGAGCATGTAATCGGGAA
1 GCTCATATGAGCATGTAATCGGGAA
* * *
51481464 GCTCTTTTGAGCCATGTAA-CGTGAA
1 GCTCATATGAG-CATGTAATCGGGAA
*
51481489 GCTCATGTGAG
1 GCTCATATGAG
51481500 TTGTATAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (25 bp):
GCTCATATGAGCATGTAATCGGGAA
Found at i:51481557 original size:25 final size:25
Alignment explanation
Indices: 51481508--51481571 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
51481498 AGTTGTATAA
* * *
51481508 CGAGAAGCTCTTGCGAGCCATTTAT
1 CGAGAAGCTCATACAAGCCATTTAT
*
51481533 C-AGGAATCTCATACAAGCCATTTAT
1 CGA-GAAGCTCATACAAGCCATTTAT
51481558 CGAGAAGCTCATAC
1 CGAGAAGCTCATAC
51481572 GAGCTATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
CGAGAAGCTCATACAAGCCATTTAT
Found at i:51481637 original size:24 final size:24
Alignment explanation
Indices: 51481555--51481639 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
51481545 ACAAGCCATT
51481555 TATCGAGAAGCTCAT-ACGAGCT-A
1 TATCGAGAAGCTCATGA-GAGCTAA
* * *
51481578 TAAACGAGAAGCTCAAGAGAGCCAA
1 T-ATCGAGAAGCTCATGAGAGCTAA
* * *
51481603 -ATTAGAAAAGCTCATGTGAGCTAA
1 TA-TCGAGAAGCTCATGAGAGCTAA
51481627 TATCGAGAAGCTC
1 TATCGAGAAGCTC
51481640 CAGAGAGTCA
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
23 2 0.04
24 41 0.89
25 3 0.07
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (24 bp):
TATCGAGAAGCTCATGAGAGCTAA
Found at i:51483090 original size:16 final size:17
Alignment explanation
Indices: 51483066--51483098 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51483056 GGGGAAACCA
51483066 AAAAGGGAAAGA-AAAT
1 AAAAGGGAAAGACAAAT
*
51483082 AAAATGGAAAGACAAAT
1 AAAAGGGAAAGACAAAT
51483099 GGAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAAGGGAAAGACAAAT
Found at i:51486833 original size:25 final size:24
Alignment explanation
Indices: 51486805--51486866 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
51486795 TCCTGTACAT
*
51486805 GTATGCTCACACAATCTGTGAATCG
1 GTATGCTCACACAAT-TGTGAATCA
* *
51486830 GTATGCTCACATGAGTTGTGAATCA
1 GTATGCTCACA-CAATTGTGAATCA
51486855 GTATGCTCACAC
1 GTATGCTCACAC
51486867 GAGCTATGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
GTATGCTCACACAATTGTGAATCA
Found at i:51493106 original size:87 final size:86
Alignment explanation
Indices: 51492868--51493118 Score: 331
Period size: 86 Copynumber: 2.9 Consensus size: 86
51492858 TCTGATCTGG
*
51492868 CAGTTTAACTCTAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTTTGT
1 CAGTTTAACT-TAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTTTGC
* * **
51492933 TGTGTACTGTTATCTAATATGG
65 TGCGTACTATTATCTAATATAA
* * * * *
51492955 CAGTTTAACTAAACTTATCAGTATAGCGGTTTACCGCACTGTACCGCTTGTACATCATCTTTGCT
1 CAGTTTAACTTAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTTTGCT
*
51493020 GCGTACTATTATCTAATCTAA
66 GCGTACTATTATCTAATATAA
* * * * * *
51493041 CAGTTTAACTGTAACTTATCGGTACAGTGGTTTACCGTACTATACCGCATGTACGTCAGCGTTGC
1 CAGTTTAACT-TAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTTTGC
51493106 TGCGTACTATTAT
65 TGCGTACTATTAT
51493119 ATGATCTGGT
Statistics
Matches: 142, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
86 75 0.53
87 67 0.47
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (86 bp):
CAGTTTAACTTAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTTTGCT
GCGTACTATTATCTAATATAA
Found at i:51493133 original size:87 final size:86
Alignment explanation
Indices: 51492857--51493135 Score: 351
Period size: 87 Copynumber: 3.2 Consensus size: 86
51492847 ACTGATTATG
*
51492857 ATCTGATCTGGCAGTTTAACTCTAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTAC
1 ATCTAATCTGGCAGTTTAACT-TAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTAC
* * *
51492922 GTCAACTTTGTTGTGTACTGTT
65 GTCAACTTTGCTGCGTACTATT
* * * * *
51492944 ATCTAATATGGCAGTTTAACTAAACTTATCAGTATAGCGGTTTACCGCACTGTACCGCTTGTACA
1 ATCTAATCTGGCAGTTTAACTTAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACG
*
51493009 TCATCTTTGCTGCGTACTATT
66 TCAACTTTGCTGCGTACTATT
** * * * *
51493030 ATCTAATCTAACAGTTTAACTGTAACTTATCGGTACAGTGGTTTACCGTACTATACCGCATGTAC
1 ATCTAATCTGGCAGTTTAACT-TAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTAC
* *
51493095 GTCAGCGTTGCTGCGTACTATT
65 GTCAACTTTGCTGCGTACTATT
* * *
51493117 ATATGATCTGGTAGTTTAA
1 ATCTAATCTGGCAGTTTAA
51493136 ATTGCAACAT
Statistics
Matches: 163, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
86 75 0.46
87 88 0.54
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (86 bp):
ATCTAATCTGGCAGTTTAACTTAACTTATCGGTATAGTGGTTTACCGCACTGTACCGCTTGTACG
TCAACTTTGCTGCGTACTATT
Found at i:51494859 original size:18 final size:19
Alignment explanation
Indices: 51494822--51494860 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
51494812 GTGACCCCTG
*
51494822 TTTCCAAAATTTTTCAATT
1 TTTCCAAAAGTTTTCAATT
*
51494841 TTTCC-AAAGTTTTCTATT
1 TTTCCAAAAGTTTTCAATT
51494859 TT
1 TT
51494861 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTCCAAAAGTTTTCAATT
Found at i:51498142 original size:50 final size:52
Alignment explanation
Indices: 51498079--51498225 Score: 192
Period size: 50 Copynumber: 2.9 Consensus size: 52
51498069 AGTGAAAGTG
*
51498079 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAACGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAACGATA
* * * * *
51498130 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAACGATA
* * *
51498180 ATGGTCACATGTGTAGTACTATGTGCACGCTACTATGTGAACCGAA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
51498226 CATCATTGAT
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
49 4 0.05
50 39 0.48
51 37 0.46
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (52 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAACGATA
Found at i:51498281 original size:45 final size:45
Alignment explanation
Indices: 51498220--51498319 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
51498210 TACTATGTGA
* * *
51498220 ACCGAACATCATTGATTAGTAAGGTGGTTTCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTTCTATGTGCAGAATCC
* *
51498265 ACCGGACATTATTGATTAATAAGGTGGTTTCTATGTGCAGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTTCTATGTGCAGAATCC
*
51498310 ACCGAGCATC
1 ACCGAACATC
51498320 TGTTATTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTTCTATGTGCAGAATCC
Found at i:51510889 original size:15 final size:16
Alignment explanation
Indices: 51510871--51510909 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
51510861 TTTTATTTTT
51510871 TTTTAAAAATTT-AAA
1 TTTTAAAAATTTAAAA
*
51510886 TTTTAAAATTTTAAAA
1 TTTTAAAAATTTAAAA
51510902 TTTTAAAA
1 TTTTAAAA
51510910 TATAAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAAAATTTAAAA
Found at i:51510890 original size:7 final size:8
Alignment explanation
Indices: 51510871--51510910 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
51510861 TTTTATTTTT
51510871 TTTTAAAA
1 TTTTAAAA
*
51510879 ATTT-AAA
1 TTTTAAAA
51510886 TTTTAAAA
1 TTTTAAAA
51510894 TTTTAAAA
1 TTTTAAAA
51510902 TTTTAAAA
1 TTTTAAAA
51510910 T
1 T
51510911 ATAAACAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTTAAAA
Found at i:51517185 original size:2 final size:2
Alignment explanation
Indices: 51517173--51517214 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
51517163 TCATCAATGG
*
51517173 AT AT GT AT 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 AT AT AT AT
51517215 TCAGGTTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51521400 original size:45 final size:46
Alignment explanation
Indices: 51521344--51521433 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 46
51521334 AATGCCGCTA
* *
51521344 AAGATCATGTTCTTTAGCGGCGCTTATGAA-AAAACGCCGCTAAAG
1 AAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACACCGCTAAAG
51521389 AAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACACCGCTAAA
1 AAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACACCGCTAAA
51521434 AGTAATGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 29 0.69
46 13 0.31
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (46 bp):
AAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACACCGCTAAAG
Found at i:51521485 original size:42 final size:43
Alignment explanation
Indices: 51521350--51521516 Score: 124
Period size: 42 Copynumber: 3.9 Consensus size: 43
51521340 GCTAAAGATC
* * * * * *
51521350 ATGTTCTTTAGCGGCGCTTATG-AAAAAACGCCGCTAAAGAAGATC
1 ATGTTCTATAGCGGCGCTTAGGTCAAAAACGCCACT-AA-AA-CTA
* * * * *
51521395 ATGTTCTTTAGCGGCGCTTAGG-AAGAAAACACCGCTAAAAGTA
1 ATGTTCTATAGCGGCGCTTAGGTCA-AAAACGCCACTAAAACTA
*
51521438 ATGTTCTATAGCGTCGCTT-GGTCAAAAACGCCACTAAAACTA
1 ATGTTCTATAGCGGCGCTTAGGTCAAAAACGCCACTAAAACTA
* * ** *
51521480 GTGTTCTTTAGCGGCGCTTATTTCACAAACGCCACTA
1 ATGTTCTATAGCGGCGCTTAGGTCAAAAACGCCACTA
51521517 TTTGATATGA
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 33 0.32
43 33 0.32
44 2 0.02
45 25 0.24
46 10 0.10
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGTTCTATAGCGGCGCTTAGGTCAAAAACGCCACTAAAACTA
Found at i:51521950 original size:12 final size:12
Alignment explanation
Indices: 51521933--51521992 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
51521923 TTTTGAACCT
*
51521933 CTGCTTCTATCG
1 CTGCTTCTCTCG
51521945 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
51521957 TTGCTTCTCTCG
1 CTGCTTCTCTCG
**
51521969 CTGCGGC-CT--
1 CTGCTTCTCTCG
51521978 CTGCTTCTCTCG
1 CTGCTTCTCTCG
51521990 CTG
1 CTG
51521993 TAGCCTCTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 5 0.13
10 2 0.05
11 2 0.05
12 29 0.76
ACGTcount: A:0.02, C:0.38, G:0.20, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:51521984 original size:21 final size:21
Alignment explanation
Indices: 51521930--51522025 Score: 102
Period size: 21 Copynumber: 4.4 Consensus size: 21
51521920 TTCTTTTGAA
* **
51521930 CCTCTGCTTCTATCGCTGCTT
1 CCTCTGCTTCTCTCGCTGCAG
*
51521951 CTCTCGTTGCTTCTCTCGCTGCGG
1 C-CTC--TGCTTCTCTCGCTGCAG
*
51521975 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
51521996 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
51522017 CCTCTGCTT
1 CCTCTGCTT
51522026 TAAGTTGTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 43 0.67
22 3 0.05
23 3 0.05
24 15 0.23
ACGTcount: A:0.02, C:0.42, G:0.19, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:51522508 original size:44 final size:44
Alignment explanation
Indices: 51522450--51522537 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
51522440 TTAAAACATT
* *
51522450 TTTGCGGCGTTTTAAGCAAAGCGCCACAAACTATAAGCCAAAAC
1 TTTGCGGCATTTTAAACAAAGCGCCACAAACTATAAGCCAAAAC
* * *
51522494 TTTGCGGCATTTTAAACTAAGCGCCACTAACTATAAGTCAAAAC
1 TTTGCGGCATTTTAAACAAAGCGCCACAAACTATAAGCCAAAAC
51522538 GCAGTCGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (44 bp):
TTTGCGGCATTTTAAACAAAGCGCCACAAACTATAAGCCAAAAC
Found at i:51523282 original size:7 final size:7
Alignment explanation
Indices: 51523272--51523313 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
51523262 AACCTTAAAC
51523272 CCCAAAT
1 CCCAAAT
51523279 CCCAAAT
1 CCCAAAT
*
51523286 CCCAAACC
1 CCCAAA-T
51523294 CCCAAAT
1 CCCAAAT
51523301 CCCAAAT
1 CCCAAAT
51523308 CCCAAA
1 CCCAAA
51523314 ACCCCAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.43, C:0.48, G:0.00, T:0.10
Consensus pattern (7 bp):
CCCAAAT
Found at i:51523299 original size:15 final size:15
Alignment explanation
Indices: 51523279--51523322 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
51523269 AACCCCAAAT
51523279 CCCAAATCCCAAACC
1 CCCAAATCCCAAACC
*
51523294 CCCAAATCCCAAATC
1 CCCAAATCCCAAACC
* *
51523309 CCAAAACCCCAAAC
1 CCCAAATCCCAAAC
51523323 ACTAAAAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.50, G:0.00, T:0.07
Consensus pattern (15 bp):
CCCAAATCCCAAACC
Found at i:51523299 original size:22 final size:22
Alignment explanation
Indices: 51523268--51523321 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
51523258 TCTAAACCTT
51523268 AAACCCCAAATCCCAAATCCCA
1 AAACCCCAAATCCCAAATCCCA
*
51523290 AACCCCCAAATCCCAAATCCCA
1 AAACCCCAAATCCCAAATCCCA
51523312 AAACCCCAAA
1 AAACCCCAAA
51523322 CACTAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.07
Consensus pattern (22 bp):
AAACCCCAAATCCCAAATCCCA
Found at i:51523322 original size:7 final size:7
Alignment explanation
Indices: 51523268--51523322 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
51523258 TCTAAACCTT
51523268 AAACCCC
1 AAACCCC
*
51523275 AAATCCC
1 AAACCCC
*
51523282 AAATCCC
1 AAACCCC
51523289 AAACCCCC
1 AAA-CCCC
*
51523297 AAATCCC
1 AAACCCC
*
51523304 AAATCCCA
1 AAA-CCCC
51523312 AAACCCC
1 AAACCCC
51523319 AAAC
1 AAAC
51523323 ACTAAAAGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 29 0.73
8 11 0.28
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.07
Consensus pattern (7 bp):
AAACCCC
Found at i:51523814 original size:20 final size:20
Alignment explanation
Indices: 51523786--51523826 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51523776 ATTAATTAAT
*
51523786 CAAAACCCTAAATCCTAACC
1 CAAAACCCTAAACCCTAACC
* *
51523806 CAAATCCCTAACCCCTAACC
1 CAAAACCCTAAACCCTAACC
51523826 C
1 C
51523827 TTAAACCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.46, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAAACCCTAAACCCTAACC
Found at i:51524210 original size:18 final size:18
Alignment explanation
Indices: 51524187--51524222 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
51524177 ATTGAATTTT
51524187 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
51524205 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
51524223 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:51524230 original size:18 final size:19
Alignment explanation
Indices: 51524191--51524230 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
51524181 AATTTTAATT
*
51524191 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
51524210 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
51524228 AAT
1 AAT
51524231 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:51524597 original size:113 final size:112
Alignment explanation
Indices: 51524329--51524984 Score: 543
Period size: 113 Copynumber: 5.8 Consensus size: 112
51524319 TCGGGAAAAG
* * * ** *
51524329 CGCCGCTAATACTATGC-TTCAGCGGTGTTTTCCTGTGTGCGCCACTAATTCCAATATACATCAA
1 CGCCGCTAATACTATACATT-AGCGGCGTTTTCC-ATAAGCGCCACTAATTCTAATATACATCAA
* * * * * * *
51524393 GAACTAAACGCTGTGTTTTCGTTAATAT-CTTTTGGCGGCGCTTACCAAAAA
64 G-ACCAAACTCTGCGTTTTGGTTAAGATAC-TTT-GCGGCGCTTTCCACAAA
* * ** * *
51524444 GCGCCG-TAAATAGTAAACATTAGCGGCGTTTTGAAGTAAGCGCCACTAACTCTAATATACGTCA
1 -CGCCGCT-AATACTATACATTAGCGGCGTTTTCCA-TAAGCGCCACTAATTCTAATATACATCA
* *
51524508 AGGCCAAACTCTACGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAA
63 AGACCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAA
* * *
51524558 CGCCGCTACTACTATACTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATACATTAGCGGCGTTTTCC-ATAAGCGCCACTAATTCTAATATACATCAAG
* * * * * *
51524623 ACTAAATTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAA
65 ACCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCA-CAAA
* * * * * * * *
51524672 CGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCCACTAATTATAATATACATCAAGA
1 CGCCGCTAATACTATACATTAGCGGCGTTTTCCATAAGCGCCACTAATTCTAATATACATCAAGA
* ** * * * * *
51524737 CCAAAACGCTGCGTTTTGGTTAAGATGTTTTGTGGC-ATTTAACACTCAG
66 CC-AAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTT-CCAC-AAA
* * *
51524786 TGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCAA
1 CGCCGCTAATACTATACATTAGCGGCGTTTTC--CATAAGCGCCACTAATTCTAATATACATCAA
* * * * *
51524851 GACCAAACTTTGCGTTTTGGTTAACAT-CTTTTGC-GCGCTTTTGC-TAAG
64 GACCAAACTCTGCGTTTTGGTTAAGATAC-TTTGCGGCGC-TTTCCACAAA
* * * * *
51524899 CGCCGCTAATACTATGCATTACCGGCGTTTGTTCGTATGCGCCACTAATTCTAATATACATCAAG
1 CGCCGCTAATACTATACATTAGCGGCGTTT-TCCATAAGCGCCACTAATTCTAATATACATCAAG
* *
51524964 ACCAGAACGCTGCGTGTTGGT
65 ACCA-AACTCTGCGTTTTGGT
51524985 CTTGAGATTT
Statistics
Matches: 437, Mismatches: 86, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
112 32 0.07
113 163 0.37
114 110 0.25
115 48 0.11
116 82 0.19
117 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (112 bp):
CGCCGCTAATACTATACATTAGCGGCGTTTTCCATAAGCGCCACTAATTCTAATATACATCAAGA
CCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAA
Found at i:51524956 original size:228 final size:227
Alignment explanation
Indices: 51524329--51524984 Score: 581
Period size: 228 Copynumber: 2.9 Consensus size: 227
51524319 TCGGGAAAAG
* * ** ** *
51524329 CGCCGCTAATACTATGC-TTCAGCGGTGTTTTCCTGTGTGCGCCACTAATTCCAATATACATCAA
1 CGCCGCTAATACTATACATT-AGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACATCAA
* ** * * * * * * *
51524393 GAACTAAACGCTGTGTTTTCGTTAATATCTTTTGGCGGCGCTTACCA-AAAAGCGCCG-TAAATA
65 G-ACCAAATTCCGCGTTTTGGTTAACATATTTTGAC-GCGCTTACCACCAAA-CGCCGCT-AATA
* ** * ** * * * *
51524456 GTAAACATTAGCGGCGTTTTGAAGTAAGCGCCACTAACTCTAATATACGTCAAGGCC-AAACTCT
126 CTATGCATTACCGGCGTTTT-CCGTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCT
* * *
51524520 ACGTTTTGGTTAAGATACTTTGCGGCGCTTTCCACAAA
190 GCGTTTTGGTTAAGATACTTTGCGGCGATTTACACAAA
* * *
51524558 CGCCGCTACTACTATACTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATACATTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACATCAAG
* * * * *
51524623 ACTAAATTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAACGCTGCTATTACTATG
66 ACCAAATTCCGCGTTTTGGTTAACATATTTTGACGCGCTTACCACCAAACGCCGCTAATACTATG
* ** * * *
51524688 CTTTAGTGGCGTTTTCCTTAAACGCCACTAATTATAATATACATCAAGACCAAAACGCTGCGTTT
131 CATTACCGGCGTTTTCCGTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTT
** * * *
51524753 TGGTTAAGATGTTTTGTGGC-ATTTAACACTCAG
196 TGGTTAAGATACTTTGCGGCGATTT-ACAC-AAA
* ** *
51524786 TGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCAA
1 CGCCGCTAATACTATACATTAGCGGCGTTTTC-CAATAAGCGCCACTAATTCTAATATACATCAA
* * *** * *
51524851 GACCAAACTT-TGCGTTTTGGTTAACATCTTTTG-CGCGCTT-TTGCTAAGCGCCGCTAATACTA
65 GACCAAA-TTCCGCGTTTTGGTTAACATATTTTGACGCGCTTACCACCAAACGCCGCTAATACTA
* * *
51524913 TGCATTACCGGCGTTTGTTCGTATGCGCCACTAATTCTAATATACATCAAGACCAGAACGCTGCG
129 TGCATTACCGGCGTTT-TCCGTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCG
*
51524978 TGTTGGT
193 TTTTGGT
51524985 CTTGAGATTT
Statistics
Matches: 346, Mismatches: 72, Indels: 19
0.79 0.16 0.04
Matches are distributed among these distances:
226 31 0.09
227 91 0.26
228 113 0.33
229 107 0.31
230 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (227 bp):
CGCCGCTAATACTATACATTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACATCAAG
ACCAAATTCCGCGTTTTGGTTAACATATTTTGACGCGCTTACCACCAAACGCCGCTAATACTATG
CATTACCGGCGTTTTCCGTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTT
TGGTTAAGATACTTTGCGGCGATTTACACAAA
Found at i:51529526 original size:93 final size:93
Alignment explanation
Indices: 51529411--51529581 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
51529401 TACAAAAAAG
* * * *
51529411 AATGTAACTATCTGCCTAAGTTTAGTTATTAGTAGCAATAATATGAAAATTTACAAAAAAAGAAT
1 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAAGAAT
51529476 ATGCCTAAGTTTAGAAATCAATAGCGTC
66 ATGCCTAAGTTTAGAAATCAATAGCGTC
*
51529504 AATGTAGCTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAAGAAT
1 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAAGAAT
*
51529569 TTGCCTAAGTTTA
66 ATGCCTAAGTTTA
51529582 AACTTCCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (93 bp):
AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAAGAAT
ATGCCTAAGTTTAGAAATCAATAGCGTC
Found at i:51541040 original size:21 final size:21
Alignment explanation
Indices: 51541011--51541057 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
51541001 GTCCAACATG
* *
51541011 GCTAGTTAATAGG-CCACGTCA
1 GCTATTTAA-AGGCCCACATCA
*
51541032 GCTATTTAACGGCCCACATCA
1 GCTATTTAAAGGCCCACATCA
51541053 GCTAT
1 GCTAT
51541058 CCTGTTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (21 bp):
GCTATTTAAAGGCCCACATCA
Found at i:51541182 original size:29 final size:30
Alignment explanation
Indices: 51541091--51541183 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
51541081 TGGGCTCAAG
* **
51541091 GTGATTGATTTGTCACTTTTGAAAACATTA
1 GTGATTGATTTATCACTTTTGAAAAGTTTA
* *
51541121 GTGATTGATTTAT-AATTTTCGTAAAGTTTA
1 GTGATTGATTTATCACTTTT-GAAAAGTTTA
*
51541151 GTGATTGAGTTATCACTTTTG-AAAGTTTA
1 GTGATTGATTTATCACTTTTGAAAAGTTTA
51541180 GTGA
1 GTGA
51541184 CTGAAATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
29 17 0.31
30 32 0.59
31 5 0.09
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (30 bp):
GTGATTGATTTATCACTTTTGAAAAGTTTA
Found at i:51543536 original size:30 final size:30
Alignment explanation
Indices: 51543485--51543544 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51543475 TCGCCTCTTT
* *
51543485 TTTTGAAAGGTTGATGATCAAATTTGATTA
1 TTTTGAAAGGTTGAAGATCAAATTTAATTA
*
51543515 TTTT-AAAGGATTGAAGGTCAAATTTAATTA
1 TTTTGAAAGG-TTGAAGATCAAATTTAATTA
51543545 AATAAAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (30 bp):
TTTTGAAAGGTTGAAGATCAAATTTAATTA
Found at i:51546299 original size:5 final size:5
Alignment explanation
Indices: 51546285--51546334 Score: 82
Period size: 5 Copynumber: 9.8 Consensus size: 5
51546275 AATGGTTCAA
*
51546285 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAGAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
51546335 AAACACAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
5 37 0.88
6 5 0.12
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:51547182 original size:49 final size:49
Alignment explanation
Indices: 51547110--51547238 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 49
51547100 ATTTAGCTTT
* * *
51547110 AATTTGTTCCACTGTAACTTCAGGGAAATAAGATTTGTAGCCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGAAAATAAGATTTGTAGCCGGTCTTC
*
51547159 AATTTGCTCCACTGCAACTTCAGGAAAATAAGATTTGTAGCTGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGAAAATAAGATTTGTAGCCGGTCTTC
*
51547208 AATTTGCTCCACTGCAACTTCAGGAAGATAA
1 AATTTGCTCCACTGCAACTTCAGGAAAATAA
51547239 AACTTATGGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (49 bp):
AATTTGCTCCACTGCAACTTCAGGAAAATAAGATTTGTAGCCGGTCTTC
Found at i:51559088 original size:15 final size:15
Alignment explanation
Indices: 51559068--51559097 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51559058 ATGAGCAACC
51559068 ATAAAAAAAATAAAA
1 ATAAAAAAAATAAAA
51559083 ATAAAAAAAATAAAA
1 ATAAAAAAAATAAAA
51559098 TACATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
ATAAAAAAAATAAAA
Found at i:51559106 original size:15 final size:14
Alignment explanation
Indices: 51559068--51559112 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
51559058 ATGAGCAACC
51559068 ATAAAAAAAATAAAA
1 ATAAAAAAAAT-AAA
51559083 ATAAAAAAAATAAA
1 ATAAAAAAAATAAA
51559097 ATACATAAAAAA-AAA
1 ATA-A-AAAAAATAAA
51559112 A
1 A
51559113 ACAAATCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.13
Consensus pattern (14 bp):
ATAAAAAAAATAAA
Found at i:51559436 original size:28 final size:27
Alignment explanation
Indices: 51559404--51559465 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
51559394 AAATTATAAA
51559404 ATAAAAATATAAGTA-TGTATATATATTT
1 ATAAAAATAT--GTACTGTATATATATTT
*
51559432 ATAAAAATATGTACGTGTATGTATATTT
1 ATAAAAATATGTAC-TGTATATATATTT
51559460 ATAAAA
1 ATAAAA
51559466 GGGATACATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
28 28 0.90
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (27 bp):
ATAAAAATATGTACTGTATATATATTT
Found at i:51559522 original size:2 final size:2
Alignment explanation
Indices: 51559517--51559603 Score: 61
Period size: 2 Copynumber: 44.0 Consensus size: 2
51559507 ACTCAAAAAA
* * * *
51559517 AT AT AT AT AT AT AT A- AT TT AT AG AC GT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * ** *
51559557 AT AA AA AT GT AT GAT GG AT AT AG 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 AT AT AT AT
51559600 AT AT
1 AT AT
51559604 GTAAGTATAA
Statistics
Matches: 65, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
1 2 0.03
2 61 0.94
3 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.44
Consensus pattern (2 bp):
AT
Found at i:51568424 original size:63 final size:63
Alignment explanation
Indices: 51568321--51568457 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 63
51568311 GCCATGTGGT
* * * *
51568321 AGGTCATGTAACTCACTATTTTAGAATTAAAGTCATACGAGTCAGAGACACAAGC-TTGTGTCC
1 AGGTCATGTAGCTCACTATTTTAGAATTAAAGTCACACGAGCCAAAGACACAAGCGTT-TGTCC
* * * * *
51568384 AGGTCGTGTAGCTCACTGTTTTGGAATTAGAGTCACACGAGCCAAAGACACAGGCGTTTGTCC
1 AGGTCATGTAGCTCACTATTTTAGAATTAAAGTCACACGAGCCAAAGACACAAGCGTTTGTCC
*
51568447 AAGTCATGTAG
1 AGGTCATGTAG
51568458 GAGAATATTT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
63 60 0.97
64 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (63 bp):
AGGTCATGTAGCTCACTATTTTAGAATTAAAGTCACACGAGCCAAAGACACAAGCGTTTGTCC
Found at i:51569192 original size:22 final size:22
Alignment explanation
Indices: 51569161--51569206 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
51569151 GGTAGGAATT
*
51569161 TGCATTTGTATCTGATATGTTC
1 TGCATCTGTATCTGATATGTTC
*
51569183 TGCATCTGTATCTGATTTGTTC
1 TGCATCTGTATCTGATATGTTC
51569205 TG
1 TG
51569207 TATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (22 bp):
TGCATCTGTATCTGATATGTTC
Found at i:51570351 original size:16 final size:16
Alignment explanation
Indices: 51570327--51570357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51570317 CAGGTTTGAA
51570327 AAGTGTAGCGGAAAAT
1 AAGTGTAGCGGAAAAT
*
51570343 AAGTTTAGCGGAAAA
1 AAGTGTAGCGGAAAA
51570358 ACTAGAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (16 bp):
AAGTGTAGCGGAAAAT
Found at i:51570822 original size:58 final size:60
Alignment explanation
Indices: 51570760--51570892 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 60
51570750 ATCATTTTAA
* **
51570760 TATTAAATTAATATAATACTTAT-C-AAGATAAATAGTAGAT-TAATTTTAATATTAAATT
1 TATTAAATTAATATAATACTTATCCAAAGATAAATAGTAAATATAA-TTTAATATTAAAAC
* *
51570818 TATTAAATTAATATAATATTTATCCATAAGATAAATATTAAATATAATTTAATATTAAAAC
1 TATTAAATTAATATAATACTTATCCA-AAGATAAATAGTAAATATAATTTAATATTAAAAC
*
51570879 TATTAAAATAATAT
1 TATTAAATTAATAT
51570893 TTTTTTTGGA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
58 22 0.34
59 1 0.02
61 39 0.60
62 3 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (60 bp):
TATTAAATTAATATAATACTTATCCAAAGATAAATAGTAAATATAATTTAATATTAAAAC
Found at i:51570830 original size:20 final size:20
Alignment explanation
Indices: 51570805--51570893 Score: 60
Period size: 20 Copynumber: 4.4 Consensus size: 20
51570795 TAGATTAATT
51570805 TTAATATTAAATTTATTAAA
1 TTAATATTAAATTTATTAAA
51570825 TTAATA-TAATATTTATCCATAAGA
1 TTAATATTAA-ATTTAT---TAA-A
* *
51570849 TAAATATTAAA--TA-TAAT
1 TTAATATTAAATTTATTAAA
**
51570866 TTAATATTAAAACTATTAAA
1 TTAATATTAAATTTATTAAA
*
51570886 ATAATATT
1 TTAATATT
51570894 TTTTTTGGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
17 10 0.18
18 3 0.05
19 5 0.09
20 22 0.40
22 2 0.04
23 3 0.05
24 7 0.13
25 3 0.05
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (20 bp):
TTAATATTAAATTTATTAAA
Found at i:51574214 original size:24 final size:24
Alignment explanation
Indices: 51574182--51574228 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
51574172 AAGAAAGTCA
51574182 AAAAAAATTCTAGAAAATTTTAAG
1 AAAAAAATTCTAGAAAATTTTAAG
*
51574206 AAAAAAATTCTAGAAATTTTTAA
1 AAAAAAATTCTAGAAAATTTTAA
51574229 TTTTTTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAAAATTCTAGAAAATTTTAAG
Found at i:51577996 original size:294 final size:295
Alignment explanation
Indices: 51577459--51578021 Score: 1013
Period size: 294 Copynumber: 1.9 Consensus size: 295
51577449 GATTTTGTCT
* *
51577459 TTTTAGGTCAGTAAATGAATCTGGCCGTTTAATTTGTAAAATTAATTATTTGCTGAACTTCTGAT
1 TTTTAGGTCAGTAAATAAATCTGGCCGTTTAATTTGTAAAATGAATTATTTGCTGAACTTCTGAT
51577524 TTGCATTGCTTTGTATAAGGATATTAGACAATAATAATTAATTTCAAGCACTTTATTCATCCAGC
66 TTGCATTGCTTTGTATAAGGATATTAGACAATAATAATTAATTTCAAGCACTTTATTCATCCAGC
51577589 TTTTTATTCTCTCCCTTAATGTTGGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGTACA
131 TTTTTATTCTCTCCCTTAATGTTGGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGTACA
51577654 ATAAATAAATCTCCAGTTAATGGTTCAACATACTTAATTATAGAAGGAGATTCATAACCAACATA
196 ATAAATAAATCTCCAGTTAATGGTTCAACATACTTAATTATAGAAGGAGATTCATAACCAACATA
51577719 TATTCCCAAGCTGGTATGTGAGATTTTCTAATTCC
261 TATTCCCAAGCTGGTATGTGAGATTTTCTAATTCC
* * *
51577754 TTTTAGTTCAGTAAATAAATTTGGCCGTTTGATTTGTAAAATGAATTA-TTGCTGAACTTCTGAT
1 TTTTAGGTCAGTAAATAAATCTGGCCGTTTAATTTGTAAAATGAATTATTTGCTGAACTTCTGAT
* * *
51577818 TTGCATTGCTTTGTATAAGGATATTAGACAATGATAATTAATTTCAAGCATTTTATTCATCTAGC
66 TTGCATTGCTTTGTATAAGGATATTAGACAATAATAATTAATTTCAAGCACTTTATTCATCCAGC
*
51577883 TTTTTATTCTCTACCC-TAATGTTGGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGTGC
131 TTTTTATTCTCT-CCCTTAATGTTGGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGTAC
*
51577947 AGTAAATAAATCTCCAGTTAATGGTTCAACATACTTAATTATAGAAGGAGATTCATAACCAACAT
195 AATAAATAAATCTCCAGTTAATGGTTCAACATACTTAATTATAGAAGGAGATTCATAACCAACAT
51578012 ATATTCCCAA
260 ATATTCCCAA
51578022 CCTCCTTTGA
Statistics
Matches: 257, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
294 211 0.82
295 46 0.18
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (295 bp):
TTTTAGGTCAGTAAATAAATCTGGCCGTTTAATTTGTAAAATGAATTATTTGCTGAACTTCTGAT
TTGCATTGCTTTGTATAAGGATATTAGACAATAATAATTAATTTCAAGCACTTTATTCATCCAGC
TTTTTATTCTCTCCCTTAATGTTGGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGTACA
ATAAATAAATCTCCAGTTAATGGTTCAACATACTTAATTATAGAAGGAGATTCATAACCAACATA
TATTCCCAAGCTGGTATGTGAGATTTTCTAATTCC
Found at i:51595823 original size:16 final size:16
Alignment explanation
Indices: 51595802--51595832 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51595792 TTCACTATTA
51595802 TGTCTTTTTTATTTTC
1 TGTCTTTTTTATTTTC
51595818 TGTCTTTTTTATTTT
1 TGTCTTTTTTATTTT
51595833 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.77
Consensus pattern (16 bp):
TGTCTTTTTTATTTTC
Found at i:51596942 original size:34 final size:34
Alignment explanation
Indices: 51596904--51596986 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
51596894 GAATTTTCTT
*
51596904 GAAAATTTATTTTGGTAAATCTAAATGATTTTAA
1 GAAAATTTATTTTGGAAAATCTAAATGATTTTAA
* * *
51596938 GAAAAATTAATTTGGAAAATCTAAGTGATTTTAA
1 GAAAATTTATTTTGGAAAATCTAAATGATTTTAA
51596972 GAAAATTTAATTTTG
1 GAAAATTT-ATTTTG
51596987 ATGAAGTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 37 0.88
35 5 0.12
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (34 bp):
GAAAATTTATTTTGGAAAATCTAAATGATTTTAA
Found at i:51603624 original size:16 final size:16
Alignment explanation
Indices: 51603603--51603633 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51603593 TTCATTATTA
*
51603603 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
51603619 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
51603634 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:51606641 original size:32 final size:32
Alignment explanation
Indices: 51606605--51606682 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
51606595 TATATAGATA
* * **
51606605 TATATATATATATATATATTGCCGAATTAATT
1 TATATATAGATATATAAATAACCGAATTAATT
*
51606637 TATATATAGATATATAAATAACCGAATTGATT
1 TATATATAGATATATAAATAACCGAATTAATT
* *
51606669 TGTATATGGATATA
1 TATATATAGATATA
51606683 CATTGCTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (32 bp):
TATATATAGATATATAAATAACCGAATTAATT
Done.