Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 3 of 310
Found at i:559312 original size:23 final size:21
Alignment explanation
Indices: 559262--559313 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
559252 TGTTATTTCA
*
559262 TTTATTATTTTATTTATGTCG
1 TTTATTATTTTATTTATGTCC
559283 TTT-TTATTTTATTCT-TGTCC
1 TTTATTATTTTATT-TATGTCC
559303 TCATTATTATT
1 T--TTATTATT
559314 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 15 0.58
21 4 0.15
22 2 0.08
23 5 0.19
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATTTATGTCC
Found at i:559328 original size:15 final size:14
Alignment explanation
Indices: 559300--559338 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
559290 TTTATTCTTG
559300 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
559315 TCTTATTATATATTA
1 TCCTATTAT-TATTA
559330 TCCTATTAT
1 TCCTATTAT
559339 GTACCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:571051 original size:134 final size:134
Alignment explanation
Indices: 570751--571100 Score: 374
Period size: 134 Copynumber: 2.6 Consensus size: 134
570741 ACAAATTTTG
* *
570751 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTAGATCTTATCTCTCTG-A
1 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
*
570815 GATAGCAGTGGAGCAGATCAAATACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
66 G-TAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
570880 AAGCT
130 AAGCT
*
570885 ACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
1 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
* * * *** *
570950 GTAGCAGTAGAGTAGATCGAAGACGGTGAATCTTATC-T-CC-ATGTAGC-GGCAATGGAGCAGA
66 GTAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGG----GGAGCAGA
571011 TTTAAG-T
127 TTTAAGCT
* * * * ** * * * *
571018 CACCAGTCTTATCTCCCTGAAGTTGCAGCGGAGC-AGACTGAAGATAG-CGAGTCTTATCTCCTT
1 -ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAG-CTAAAGATTGTAGA-TCTTATCTCCCT
*
571081 GAAGTTGCAGTGGAGCAGAT
63 GAAGTAGCAGTGGAGCAGAT
571101 TGAAAATAGC
Statistics
Matches: 183, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
130 2 0.01
131 6 0.03
132 2 0.01
133 6 0.03
134 165 0.90
135 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (134 bp):
ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
GTAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTA
AGCT
Found at i:571061 original size:89 final size:90
Alignment explanation
Indices: 570932--571167 Score: 226
Period size: 89 Copynumber: 2.6 Consensus size: 90
570922 TAAAGATTGT
* ** * * * *
570932 AGATCTTATCTCCCTGAAGTAGCAGTAGAGTAGATCGAAGACGGTGAATCTTATCTCCATGTAGC
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGAAGC
* *
570997 GGCAATGGAGCAGATT-TAAGTCACC
66 GGCAATGGAGCAGATTGAAAAT-ACC
* * *
571022 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAGTCTTATCTCCTTGAAG
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATC-GAAGACAGCGAATCTTATCTCCATGAAG
** * *
571085 TTGCAGTGGAGCAGATTGAAAATAGC
65 CGGCAATGGAGCAGATTGAAAATACC
* * * * * * *
571111 AGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCAAACCTTATCTC
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTC
571168 TTTGAAGTTG
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.56
90 50 0.42
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (90 bp):
AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGAAGC
GGCAATGGAGCAGATTGAAAATACC
Found at i:571077 original size:45 final size:45
Alignment explanation
Indices: 571022--571366 Score: 191
Period size: 45 Copynumber: 7.8 Consensus size: 45
571012 TTAAGTCACC
*
571022 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
* * *
571067 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAAATAGC-
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
* * * ** *
571111 AGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCA
1 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** ** * * * **
571157 AACCTTATCTCTTTGAAGTTGCAG-AGAGCAGGTTGAAGTTATAG
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** * * ** *
571201 A-TCCCATCTCCCTAAAGTTGTAGCGGAGCAGATCAAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** * * * * * * *
571245 AACCTTGTCTCTCTGAAGTTACTG-AGAGCAGGTTGAAGTTA-C-
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** * * * * *
571287 ATGTCACATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAG-T
1 A-GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
* * * * *
571332 AGATCTTATTTCCTTAAAGTTGCAGTGGAACAGAT
1 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGAT
571367 CGAAAATGGC
Statistics
Matches: 214, Mismatches: 77, Indels: 18
0.69 0.25 0.06
Matches are distributed among these distances:
42 1 0.00
43 32 0.15
44 52 0.24
45 128 0.60
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
Found at i:571234 original size:88 final size:89
Alignment explanation
Indices: 571028--571318 Score: 329
Period size: 88 Copynumber: 3.3 Consensus size: 89
571018 CACCAGTCTT
* * ** *
571028 ATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAGTCTTATCTCCTTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATC-AAAGATAGCAAACCTTATCTCTTTGAAGTTGCAG-
* * ** *
571092 GGAGCAGATTGAAAATAGCAGATCTC
64 AGAGCAGGTTGAAGTTAGCAGATCCC
* *
571118 ATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
*
571183 AGCAGGTTGAAGTTA-TAGATCCC
66 AGCAGGTTGAAGTTAGCAGATCCC
* * * * * *
571206 ATCTCCCTAAAGTTGTAGCGGAGCAGATCAAAGATAGCAAACCTTGTCTCTCTGAAGTTACTGAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
*
571271 AGCAGGTTGAAGTTA-CATG-TCAC
66 AGCAGGTTGAAGTTAGCA-GATCCC
* *
571294 ATCTCTCTGAAGTTGCAGTGGAGCA
1 ATCTCCCTGAAGTTGCAGCGGAGCA
571319 AACTGAAGAT
Statistics
Matches: 172, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
88 103 0.60
89 14 0.08
90 54 0.31
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
AGCAGGTTGAAGTTAGCAGATCCC
Found at i:571431 original size:133 final size:131
Alignment explanation
Indices: 571027--571432 Score: 356
Period size: 133 Copynumber: 3.1 Consensus size: 131
571017 TCACCAGTCT
* * *
571027 TATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAG-CGAGTCTTATCTCCTTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAG-GGAGCAGACTGAAGATAGTAGA-TCTTATCTCCTTAAAGTTGCAG
* * * * * * * * ** *
571091 TGGAGCAGATTGAAAATAGCAGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGC
64 TGGAGCAGATCGAAAATAGCAAACCTTATCTCTCTGAAGTTGCAG-AGAGCAG-TTGAAGTTA-C
*
571156 AA-ACC
126 AATTCC
* * ** * ** * * *
571161 TTATCTCTTTGAAGTTGCAGAGAGCAGGTTGAAGTTA-TAGATCCCATCTCCCTAAAGTTGTAGC
1 -TATCTCTCTGAAGTTGCAGGGAGCAGACTGAAGATAGTAGATCTTATCTCCTTAAAGTTGCAGT
* * *
571225 GGAGCAGATC-AAAGATAGCAAACCTTGTCTCTCTGAAGTTACTGAGAGCAGGTTGAAGTTAC-A
65 GGAGCAGATCGAAA-ATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCA-GTTGAAGTTACAA
571288 TGTCAC
128 T-TC-C
* *
571294 -ATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTAGATCTTATTTCCTTAAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAG-GGAGCAGACTGAAGATAGTAGATCTTATCTCCTTAAAGTTGCAGT
* * * *
571358 GGAACAGATCGAAAATGGCACACCTTATCTCTCTAAAGTTGCAGAGAGCATGTTGAAGTTACAAT
65 GGAGCAGATCGAAAATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCA-GTTGAAGTTACAAT
571423 TCC
129 TCC
571426 TATCTCT
1 TATCTCT
571433 GAATCAGCAA
Statistics
Matches: 212, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
130 1 0.00
131 18 0.08
132 27 0.13
133 129 0.61
134 20 0.09
135 17 0.08
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
TATCTCTCTGAAGTTGCAGGGAGCAGACTGAAGATAGTAGATCTTATCTCCTTAAAGTTGCAGTG
GAGCAGATCGAAAATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCAGTTGAAGTTACAATTC
C
Found at i:571715 original size:24 final size:24
Alignment explanation
Indices: 571669--571720 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
571659 AAATTAAATA
571669 CCCAAACAAAAACCAAAGACCTAGG
1 CCCAAACAAAAACCAAAGACCTA-G
*
571694 CCCAAAC-ACAACCAAA-ACCCTAG
1 CCCAAACAAAAACCAAAGA-CCTAG
571717 CCCA
1 CCCA
571721 CTTAGCACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 12 0.48
25 7 0.28
ACGTcount: A:0.48, C:0.40, G:0.08, T:0.04
Consensus pattern (24 bp):
CCCAAACAAAAACCAAAGACCTAG
Found at i:572694 original size:3 final size:3
Alignment explanation
Indices: 572686--572847 Score: 98
Period size: 3 Copynumber: 54.7 Consensus size: 3
572676 AGTTTTATAT
* *
572686 TTA TTA TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
572730 TCTG TTA TTA CTG TTA CTA CTA TTT TTA TTA GTA TTG TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
572776 TTA TT- TTA TCA CTA CTG TCA TTA TTA -TA GTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
572822 TTA CTA TTA TTT TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
572848 TTTTTAAATC
Statistics
Matches: 119, Mismatches: 34, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
2 7 0.06
3 109 0.92
4 3 0.03
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:572701 original size:18 final size:18
Alignment explanation
Indices: 572680--572729 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
572670 AAATTAAGTT
572680 TTATATTTATTATTATTA
1 TTATATTTATTATTATTA
*
572698 TTATATTTATTATTATTT
1 TTATATTTATTATTATTA
572716 TTAGTA-TTATTATT
1 TTA-TATTTATTATT
572730 TCTGTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATATTTATTATTATTA
Found at i:572997 original size:23 final size:21
Alignment explanation
Indices: 572947--572998 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
572937 TGTTATTTCA
*
572947 TTTATTATTTTATTTATGTCG
1 TTTATTATTTTATTTATGTCC
572968 TTT-TTATTTTA-TTATTGTCC
1 TTTATTATTTTATTTA-TGTCC
572988 TCATTATTATT
1 T--TTATTATT
572999 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 3 0.12
22 2 0.08
23 5 0.19
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATTTATGTCC
Found at i:573013 original size:15 final size:14
Alignment explanation
Indices: 572976--573023 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
572966 CGTTTTTATT
*
572976 TTATTATTGTCCTCA
1 TTATTATTATCCT-A
*
572991 TTATTATTATCTTA
1 TTATTATTATCCTA
573005 TTATATATTATCCTA
1 TTAT-TATTATCCTA
573020 TTAT
1 TTAT
573024 GTACCTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATTATTATCCTA
Found at i:580162 original size:25 final size:25
Alignment explanation
Indices: 580112--580163 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
580102 TAATTATTTG
* *
580112 TTTGATAATATATTAATTTTTTATT
1 TTTGAAAATATATTAATTTTTAATT
*
580137 TTTGAAAATTTATT-ATTTTATAATT
1 TTTGAAAATATATTAATTTT-TAATT
580162 TT
1 TT
580164 AATGTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTGAAAATATATTAATTTTTAATT
Found at i:582643 original size:20 final size:20
Alignment explanation
Indices: 582607--582649 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
582597 TATTCTTTAA
*
582607 ATTATTATTTTAATATTATT
1 ATTATTATTTTAATATTACT
*
582627 ATTATT-TTTTCATTATTACT
1 ATTATTATTTT-AATATTACT
582647 ATT
1 ATT
582650 TTCTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTATTTTAATATTACT
Found at i:582881 original size:3 final size:3
Alignment explanation
Indices: 582857--582950 Score: 59
Period size: 3 Copynumber: 31.0 Consensus size: 3
582847 TTTTGCTGTA
* * *
582857 ATT ATT CTT ATT AAT A-T ATT ATT ATTT CTT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * * *
582901 ATT ATT CTT ATT AATGT AGT ATT ATT GTT ATT TTCT ACT -TT ATT ATT
1 ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
582948 ATT
1 ATT
582951 GTATTATCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
2 5 0.07
3 57 0.83
4 6 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:582898 original size:24 final size:23
Alignment explanation
Indices: 582864--582913 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
582854 GTAATTATTC
582864 TTATTAATATATTATTATTTCTTA
1 TTATTAATATATTATTA-TTCTTA
*
582888 TTATTATTATATTATTATTCTTA
1 TTATTAATATATTATTATTCTTA
582911 TTA
1 TTA
582914 ATGTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATTAATATATTATTATTCTTA
Found at i:582911 original size:17 final size:16
Alignment explanation
Indices: 582873--582957 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 16
582863 CTTATTAATA
*
582873 TATTATTATTTCTTAT
1 TATTATTATTTATTAT
582889 TATTATTATATTATTAT
1 TATTATTAT-TTATTAT
* * *
582906 TCTTATTAATGTAGTAT
1 TATTATT-ATTTATTAT
*
582923 TATTGTTATTT-TCTACTT
1 TATTATTATTTAT-TA--T
582941 TATTATTATTGTATTAT
1 TATTATTATT-TATTAT
582958 CACTATCATT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 14 0.26
17 23 0.43
18 12 0.23
19 3 0.06
20 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (16 bp):
TATTATTATTTATTAT
Found at i:582968 original size:23 final size:24
Alignment explanation
Indices: 582920--582971 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
582910 ATTAATGTAG
* *
582920 TATTATTGTTATTTTCTACTTTAT
1 TATTATTGTTATTATCTACTTCAT
582944 TATTATTG-TATTATC-ACTATCAT
1 TATTATTGTTATTATCTACT-TCAT
582967 TATTA
1 TATTA
582972 CCATATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 14 0.56
24 8 0.32
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTATTGTTATTATCTACTTCAT
Found at i:585145 original size:26 final size:26
Alignment explanation
Indices: 585116--585174 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
585106 TTTACCAGGG
*
585116 GTAAAATTGTCAAAAATTTATCGGGC
1 GTAAAATCGTCAAAAATTTATCGGGC
* * *
585142 GTAAAATCGTCAAAATTTTATTGGGG
1 GTAAAATCGTCAAAAATTTATCGGGC
585168 GTAAAAT
1 GTAAAAT
585175 ATGGATGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (26 bp):
GTAAAATCGTCAAAAATTTATCGGGC
Found at i:587697 original size:26 final size:26
Alignment explanation
Indices: 587661--587714 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
587651 GAGTGTTGTA
587661 AATATTTTATAAGTGGATGTCCTTTC
1 AATATTTTATAAGTGGATGTCCTTTC
587687 AATATTTTATAAGTGGATGTCCTTTC
1 AATATTTTATAAGTGGATGTCCTTTC
587713 AA
1 AA
587715 CTCTCACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (26 bp):
AATATTTTATAAGTGGATGTCCTTTC
Found at i:596013 original size:23 final size:23
Alignment explanation
Indices: 595987--596033 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
595977 ATTCCAAGTT
*
595987 TCCCATC-TTGTGTCTTATTATTC
1 TCCCATCTTTGT-TCTTACTATTC
596010 TCCCATCTTTGTTCTTACTATTC
1 TCCCATCTTTGTTCTTACTATTC
596033 T
1 T
596034 ATTATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.13, C:0.28, G:0.06, T:0.53
Consensus pattern (23 bp):
TCCCATCTTTGTTCTTACTATTC
Found at i:603080 original size:5 final size:5
Alignment explanation
Indices: 603070--603094 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
603060 TTTAATCTAC
603070 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
603095 CATAAAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:611029 original size:56 final size:57
Alignment explanation
Indices: 610918--611029 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 57
610908 GTCATGTCCT
* * *
610918 TTTGGTGGATAAGTGCATTGTATTGTAATCACTGACATTCATTTGCAAAATCTTAACAA
1 TTTGGTGGATAAGTGCAATGAATTGGAATCAC--ACATTCATTTGCAAAATCTTAACAA
610977 TTTGGT-GATTAAGTGCAATGAATTGGAATCAC-CATTCATTTGCAAAATCTTAA
1 TTTGGTGGA-TAAGTGCAATGAATTGGAATCACACATTCATTTGCAAAATCTTAA
611030 TTTGGATTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 21 0.43
58 2 0.04
59 26 0.53
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (57 bp):
TTTGGTGGATAAGTGCAATGAATTGGAATCACACATTCATTTGCAAAATCTTAACAA
Found at i:611099 original size:33 final size:33
Alignment explanation
Indices: 611035--611100 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
611025 CTTAATTTGG
* *
611035 ATTGTATCGGAATCACCATTCATTTGCAAAATC
1 ATTGTATCGGAATCACCAGTCATTTACAAAATC
* *
611068 ATTGTATTGGAATCACCAGTCATTTATAAAATC
1 ATTGTATCGGAATCACCAGTCATTTACAAAATC
611101 TTAGTACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGGAATCACCAGTCATTTACAAAATC
Found at i:613124 original size:18 final size:19
Alignment explanation
Indices: 613086--613128 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
613076 TAAATTCGAA
*
613086 AAATAATTTGAGTTGACTC
1 AAATAATTTGAGTTAACTC
613105 AAATAATTTGA-TTAACTC
1 AAATAATTTGAGTTAACTC
613123 AAATAA
1 AAATAA
613129 CTCGATTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (19 bp):
AAATAATTTGAGTTAACTC
Found at i:613135 original size:18 final size:18
Alignment explanation
Indices: 613101--613135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
613091 ATTTGAGTTG
* *
613101 ACTCAAATAATTTGATTA
1 ACTCAAATAACTCGATTA
613119 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
613136 CGTTTAACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:615465 original size:24 final size:24
Alignment explanation
Indices: 615397--615485 Score: 74
Period size: 26 Copynumber: 3.6 Consensus size: 24
615387 TTAGCTCTTA
*
615397 TGAGCTTCCTC-ATTATGGCTCTTCG
1 TGAGCTTCC-CGA-TATGGCTCTTTG
* * *
615422 TGTGCTTCTCGTTAATTGGCTCTTTG
1 TGAGCTTCCCGAT-A-TGGCTCTTTG
**
615448 TGAGCTTCCCGATATGGCTCGCT-
1 TGAGCTTCCCGATATGGCTCTTTG
615471 TGAGCTTCCCGATAT
1 TGAGCTTCCCGATAT
615486 ATGGCTATCC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
23 15 0.29
24 9 0.17
25 9 0.17
26 19 0.37
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.39
Consensus pattern (24 bp):
TGAGCTTCCCGATATGGCTCTTTG
Found at i:615549 original size:24 final size:24
Alignment explanation
Indices: 615522--615589 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
615512 TGGCTCTTTG
*
615522 GAGCTACCTATTATATGCTCGTAC
1 GAGCTTCCTATTATATGCTCGTAC
* *
615546 GAGCTTCCTA-AATATTGCTCTTAC
1 GAGCTTCCTATTATA-TGCTCGTAC
* *
615570 AAGCTTCCTATTTTA-GCTCG
1 GAGCTTCCTATTATATGCTCG
615590 AATAAGCTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 7 0.20
24 26 0.74
25 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (24 bp):
GAGCTTCCTATTATATGCTCGTAC
Found at i:615812 original size:10 final size:10
Alignment explanation
Indices: 615797--615822 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
615787 TATATGAAAA
615797 ATATTTCTTG
1 ATATTTCTTG
615807 ATATTTCTTG
1 ATATTTCTTG
615817 ATATTT
1 ATATTT
615823 ATATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (10 bp):
ATATTTCTTG
Found at i:623274 original size:29 final size:29
Alignment explanation
Indices: 623232--623313 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
623222 ATGATTGGAT
*
623232 AATATTTATTTAATAATATTAATTTATAC
1 AATAATTATTTAATAATATTAATTTATAC
623261 AATAATTATTTAATAATATTAATTTATAC
1 AATAATTATTTAATAATATTAATTTATAC
* *
623290 AACAATTATTCAATAATATTAATT
1 AATAATTATTTAATAATATTAATT
623314 ATAAAATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAATTATTTAATAATATTAATTTATAC
Found at i:627603 original size:23 final size:24
Alignment explanation
Indices: 627556--627606 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
627546 AATTTAATAA
627556 TTTTTCGTATTAAACTTAAATTTT
1 TTTTTCGTATTAAACTTAAATTTT
627580 TTTTTCGTATTAAACTTAAATTTT
1 TTTTTCGTATTAAACTTAAATTTT
627604 TTT
1 TTT
627607 GTCCGAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTTCGTATTAAACTTAAATTTT
Found at i:628208 original size:19 final size:19
Alignment explanation
Indices: 628184--628223 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
628174 TTATTATCAG
628184 TATTATTTATAAATTTATT
1 TATTATTTATAAATTTATT
* *
628203 TATTATTTATTATTTTATT
1 TATTATTTATAAATTTATT
628222 TA
1 TA
628224 ATAATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTTATAAATTTATT
Found at i:631377 original size:21 final size:22
Alignment explanation
Indices: 631348--631394 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
631338 CAGAAGGAGT
*
631348 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
631370 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
631391 GAGT
1 GAGT
631395 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:634839 original size:21 final size:22
Alignment explanation
Indices: 634815--634856 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
634805 TAAAATTGCT
*
634815 TAATTAATATT-TTGAAAAAAA
1 TAATTAATATTAGTGAAAAAAA
*
634836 TAATTAGTATTAGTGAAAAAA
1 TAATTAATATTAGTGAAAAAA
634857 TTATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATTAATATTAGTGAAAAAAA
Found at i:636694 original size:91 final size:91
Alignment explanation
Indices: 636513--636708 Score: 295
Period size: 91 Copynumber: 2.2 Consensus size: 91
636503 ACTCTTTGTA
* *
636513 TAAGGGTTGGTATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTAGCTTTGTCTAGTCCTAAG
1 TAAGGGTTGGGATATGCATACCTAAAGCAACGCTTAAATAAGAGTTAGCTTTGTCTAGTCCTAAG
636578 ACGACACTTTTGGGGCAACACTTTCC
66 ACGACACTTTTGGGGCAACACTTTCC
* * * * *
636604 TAGGGGTTGGGATATGTATACCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGCATACCTAAAGCAACGCTTAAATAAGAGTTAG-CTTTGTCTAGTCCTAA
*
636669 GACGACACTTTTGTGGCAACA-TTTCC
65 GACGACACTTTTGGGGCAACACTTTCC
*
636695 TAAGTGTTGGGATA
1 TAAGGGTTGGGATA
636709 GACTATGCTT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 59 0.63
92 35 0.37
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (91 bp):
TAAGGGTTGGGATATGCATACCTAAAGCAACGCTTAAATAAGAGTTAGCTTTGTCTAGTCCTAAG
ACGACACTTTTGGGGCAACACTTTCC
Found at i:636892 original size:132 final size:131
Alignment explanation
Indices: 636607--637349 Score: 887
Period size: 132 Copynumber: 5.5 Consensus size: 131
636597 ACTTTCCTAG
* * *
636607 GGGTTGGGATATGTATACCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTCTAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
**
636672 GACACTTTTGTGGCAACA-TTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
66 GACACTTTT-TGGTGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
636736 AA
130 AA
* * *
636738 GGGTTGGTATATGTATGCCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* * * *
636803 GACACTTTTGTGGCGACATTTTACTAAGTGTTGGGATAGACTATGCTTTGGCCAACTATTTGTAT
66 GACACTTTT-TGGTGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
636868 AA
130 AA
* * *
636870 GGGTTGGGATATGTATGTCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* *
636935 GACACTTTTTTGGTGACATTTTCCTAAGTGTTCGGATAGACTATGCTTTGGCCAACTCTTTGTAT
66 GACAC-TTTTTGGTGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
637000 AA
130 AA
* * * **
637002 GGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTCGTTGTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* * * *
637067 GACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGCCAAC
66 GACACTTTTTG-GTGACACTTTCCTAAGTGTTGGGAT--A---G---AC-TATGCTTTGGCCAAC
637132 TCTTTGTATAA
121 TCTTTGTATAA
* * * * * * **
637143 GGGTTGGGACATGTATTCCTAAGGCAGCGCTTGGATAAGAGTGGGCTTTTGTCTCGTTGTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* * * *
637208 GACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAGACTTGCCGACATATGCTTTAGCCAAC
66 GACACTTTTTG-GTGACACTTTCCTAAGTGTTGGGAT--A------GAC-TATGCTTTGGCCAAC
637273 TCTTTGTATAA
121 TCTTTGTATAA
* * * *
637284 GGGTTGGGATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGC-TTTGTCCAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
637348 GA
66 GA
637350 TATATATTTT
Statistics
Matches: 550, Mismatches: 47, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
131 82 0.15
132 249 0.45
133 4 0.01
134 1 0.00
137 1 0.00
140 18 0.03
141 194 0.35
144 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (131 bp):
GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
GACACTTTTTGGTGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTATA
A
Found at i:637230 original size:141 final size:141
Alignment explanation
Indices: 636976--637332 Score: 615
Period size: 141 Copynumber: 2.5 Consensus size: 141
636966 TCGGATAGAC
*
636976 TATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAG
1 TATGCTTTAGCCAACTCTTTGTATAAGGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAG
637041 AGTTGGCTTTTGTCTCGTTGTAAGACGACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAG
66 AGTTGGCTTTTGTCTCGTTGTAAGACGACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAG
637106 ACTGGCCAACA
131 ACTGGCCAACA
* *
637117 TATGCTTTAGCCAACTCTTTGTATAAGGGTTGGGACATGTATTCCTAAGGCAGCGCTTGGATAAG
1 TATGCTTTAGCCAACTCTTTGTATAAGGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAG
*
637182 AGTGGGCTTTTGTCTCGTTGTAAGACGACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAG
66 AGTTGGCTTTTGTCTCGTTGTAAGACGACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAG
* *
637247 ACTTGCCGACA
131 ACTGGCCAACA
* * * * *
637258 TATGCTTTAGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCAAAGGCAACGCTTAAATAAG
1 TATGCTTTAGCCAACTCTTTGTATAAGGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAG
637323 AGTTGGCTTT
66 AGTTGGCTTT
637333 GTCCAGTCCT
Statistics
Matches: 202, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 202 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (141 bp):
TATGCTTTAGCCAACTCTTTGTATAAGGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAG
AGTTGGCTTTTGTCTCGTTGTAAGACGACAGTTTTTGTATGACACTTTCCGAAGTGTTGGGATAG
ACTGGCCAACA
Found at i:637462 original size:130 final size:130
Alignment explanation
Indices: 637227--637467 Score: 358
Period size: 130 Copynumber: 1.9 Consensus size: 130
637217 TGTATGACAC
* *
637227 TTTCCGAAGTGTTGGGATAGACTTGCCGACATATGCTTTAGCCAACTCTTTGTATAAGGGTTGGG
1 TTTCCGAAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
**
637292 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCCAGTCCTAAGACGATATATAT
66 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAAGACGATATATAT
* ** * *
637357 TTTCCTAAGTGTTGGGATAGACTTGCCGACATACGC-TTAGGTTAACTTTTTATATAAGGGTTGT
1 TTTCCGAAGTGTTGGGATAGACTTGCCGACATACGCTTTA-GCCAACTCTTTATATAAGGGTTGG
** *
637421 GATATGCATGCTTAATGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
65 GATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
637468 ACACTATGCC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
129 3 0.03
130 95 0.97
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (130 bp):
TTTCCGAAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAAGACGATATATAT
Found at i:637598 original size:7 final size:7
Alignment explanation
Indices: 637577--637634 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
637567 CATGCCTAAT
637577 GGGTTTA
1 GGGTTTA
637584 GGGTGTTTA
1 -GG-GTTTA
637593 GGGTTTA
1 GGGTTTA
*
637600 GGATTTA
1 GGGTTTA
*
637607 GGGCTTA
1 GGGTTTA
637614 GGGTTTA
1 GGGTTTA
*
637621 AGGTTTA
1 GGGTTTA
*
637628 GGATTTA
1 GGGTTTA
637635 AGAGTTGGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 33 0.79
8 4 0.10
9 5 0.12
ACGTcount: A:0.19, C:0.02, G:0.38, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:637806 original size:14 final size:14
Alignment explanation
Indices: 637787--637884 Score: 63
Period size: 15 Copynumber: 6.6 Consensus size: 14
637777 AGCTTGTATA
637787 TTTAGGTTTTAGGG
1 TTTAGGTTTTAGGG
* *
637801 TTTAGGGTTTAGGA
1 TTTAGGTTTTAGGG
* *
637815 TTTATAG-TTTAGGAC
1 TTTA-GGTTTTAGG-G
*
637830 TTTAGGGTTTAGGG
1 TTTAGGTTTTAGGG
* *
637844 TGTATGGTTTTAAGG
1 TTTA-GGTTTTAGGG
*
637859 TTTAGGATTTTATGG
1 TTTAGG-TTTTAGGG
637874 TCTTGAGGTTT
1 T-TT-AGGTTT
637885 AAGGTTTGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
14 28 0.42
15 30 0.45
16 5 0.08
17 3 0.05
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (14 bp):
TTTAGGTTTTAGGG
Found at i:637862 original size:29 final size:29
Alignment explanation
Indices: 637791--637864 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
637781 TGTATATTTA
* *
637791 GGTTTTAGGGTTTAGGGTTTAGGATTTAT
1 GGTTTTAAGGTTTAGGGTTTAGGATGTAT
* *
637820 AG-TTT-AGGACTTTAGGGTTTAGGGTGTAT
1 GGTTTTAAGG--TTTAGGGTTTAGGATGTAT
637849 GGTTTTAAGGTTTAGG
1 GGTTTTAAGGTTTAGG
637865 ATTTTATGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
27 2 0.06
28 3 0.08
29 25 0.69
30 3 0.08
31 3 0.08
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (29 bp):
GGTTTTAAGGTTTAGGGTTTAGGATGTAT
Found at i:637869 original size:15 final size:15
Alignment explanation
Indices: 637849--637902 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
637839 TAGGGTGTAT
637849 GGTTTTAAGGTTT-A
1 GGTTTTAAGGTTTGA
*
637863 GGATTTTATGGTCTTGA
1 GG-TTTTAAGGT-TTGA
*
637880 GG-TTTAAGGTTTGT
1 GGTTTTAAGGTTTGA
637894 GG-TTTAAGG
1 GGTTTTAAGG
637903 CTTAGGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 14 0.41
15 15 0.44
16 2 0.06
17 3 0.09
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTTAAGGTTTGA
Found at i:648223 original size:17 final size:17
Alignment explanation
Indices: 648197--648229 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
648187 GGATATTTCC
648197 TTGGGCTGTTTTTATTT
1 TTGGGCTGTTTTTATTT
*
648214 TTGGGTTGTTTTTATT
1 TTGGGCTGTTTTTATT
648230 CAAATATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.24, T:0.67
Consensus pattern (17 bp):
TTGGGCTGTTTTTATTT
Found at i:651966 original size:35 final size:37
Alignment explanation
Indices: 651925--652307 Score: 174
Period size: 37 Copynumber: 10.5 Consensus size: 37
651915 TATACCAACG
* * **
651925 TTTTTAAGGTTACCTTAGAAGAA-TCTATCGTAACC-
1 TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
* *
651960 TTTTTAACGTTGCTTTA-AACAAGTCTATCCCAACCTT
1 TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACC-T
* * *
651997 TTTTTAAGGTTGCCTTAG-ACAATGTCTATTCTAACAT
1 TTTTTAAGGTTGCCTTAGAACAA-GTCTATCCCAACCT
* * * * *
652034 TTTTAAAAGGTGGCCTTAG-ACATGCCTGTCCCAACCT
1 TTTT-TAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
* *
652071 TTCCTAAAGGTTGCCTTAG-ACAAGATCTATCCCAA-CT
1 TT-TTTAAGGTTGCCTTAGAACAAG-TCTATCCCAACCT
* * * * * *
652108 TTTTTAAAAAGTTGCTTTAGATA-AGGTTTATACCAA-TT
1 TTTTT--AAGGTTGCCTTAGA-ACAAGTCTATCCCAACCT
* * *
652146 TTTTTAAGGGTTGCTTTA-TACAAGGCATATCCCAACC-
1 TTTTTAA-GGTTGCCTTAGAACAAGTC-TATCCCAACCT
** *
652183 TTTTTAAGGTTGCCTTA-AATGAGTCAATCCCAACC-
1 TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
* * **
652218 TTTTAAAGGTTGCCATA-AA-TGGATCTATCCCAA-CT
1 TTTTTAAGGTTGCCTTAGAACAAG-TCTATCCCAACCT
* * * *
652253 ATTCTTAAAAGTTGCCTTAG-ACAAGAACTATACCAACC-
1 -TT-TTTAAGGTTGCCTTAGAACAAG-TCTATCCCAACCT
652291 TTTTTATA-GTTGCCTTA
1 TTTTTA-AGGTTGCCTTA
652308 TACAGGTTTA
Statistics
Matches: 267, Mismatches: 57, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
34 6 0.02
35 60 0.22
36 32 0.12
37 96 0.36
38 69 0.26
39 3 0.01
40 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (37 bp):
TTTTTAAGGTTGCCTTAGAACAAGTCTATCCCAACCT
Found at i:652128 original size:75 final size:75
Alignment explanation
Indices: 651968--652128 Score: 189
Period size: 75 Copynumber: 2.1 Consensus size: 75
651958 CCTTTTTAAC
* * ** * * *
651968 GTTGCTTTAAACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAATGTCTATTCTAACA
1 GTTGCTTTAGACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAATGTCTATCCCAACA
*
652033 TTTTTAAAAG
66 TTTTTAAAAA
* * * *
652043 GTGGCCTTAGACATGCCTGTCCCAACCTTTCCTAAAGGTTGCCTTAGACAA-GATCTATCCCAAC
1 GTTGCTTTAGACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAATG-TCTATCCCAAC
*
652107 TTTTTTAAAAA
65 ATTTTTAAAAA
652118 GTTGCTTTAGA
1 GTTGCTTTAGA
652129 TAAGGTTTAT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
74 1 0.01
75 69 0.99
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (75 bp):
GTTGCTTTAGACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAATGTCTATCCCAACA
TTTTTAAAAA
Found at i:659789 original size:25 final size:24
Alignment explanation
Indices: 659753--659800 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
659743 AACTTCACAA
* *
659753 TTTTTCTTAATTTGGTATTTTAAT
1 TTTTTCTTAATTTAGTATGTTAAT
*
659777 TTTTTTTTCAATTTAGTATGTTAA
1 TTTTTCTT-AATTTAGTATGTTAA
659801 CTTGATGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTTCTTAATTTAGTATGTTAAT
Found at i:661816 original size:28 final size:27
Alignment explanation
Indices: 661752--661816 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
661742 ACACAAATTG
* *
661752 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTGAATATATTA
* *
661779 AAATTGAAAATAAAATGTGAATATGATTA
1 AAAAT-AAAATAAAAAGTGAATAT-ATTA
661808 AAAATAAAA
1 AAAATAAAA
661817 AATATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.61
29 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTGAATATATTA
Found at i:674125 original size:4 final size:4
Alignment explanation
Indices: 674116--674148 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
674106 GTTTACACAT
674116 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
674149 ATCTTTAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:674395 original size:22 final size:22
Alignment explanation
Indices: 674343--674395 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
674333 ATTGTTCTTG
* *
674343 TGTTGTTGTTTTGCTATCATTT
1 TGTTGTTATATTGCTATCATTT
* *
674365 TGCTATTATATTGCTA-CTATTT
1 TGTTGTTATATTGCTATC-ATTT
674387 TGTTGTTAT
1 TGTTGTTAT
674396 TGTTTAGATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.60
Consensus pattern (22 bp):
TGTTGTTATATTGCTATCATTT
Found at i:676757 original size:39 final size:39
Alignment explanation
Indices: 676699--676779 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
676689 AAAAGGAAAA
*
676699 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
676738 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
676777 ACT
1 ACT
676780 AAAAATTGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.27
Consensus pattern (39 bp):
ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
Found at i:677415 original size:4 final size:4
Alignment explanation
Indices: 677406--677432 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
677396 GTCACCAGGT
677406 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
677433 TTTTTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:681607 original size:13 final size:13
Alignment explanation
Indices: 681589--681614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
681579 AATATCTTTG
681589 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
681602 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
681615 TTAATGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (13 bp):
GTTTTTGTTGTTT
Found at i:684008 original size:12 final size:12
Alignment explanation
Indices: 683987--684021 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
683977 TATATATTTT
*
683987 AAAATTATATAA
1 AAAATAATATAA
683999 AAAATAATATAA
1 AAAATAATATAA
*
684011 AAATTAATATA
1 AAAATAATATA
684022 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:689419 original size:20 final size:20
Alignment explanation
Indices: 689381--689451 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
689371 CATGTTTACT
689381 TTTCGTTTAACTC-TCATGAG
1 TTTCGTTTAACTCAT-ATGAG
689401 CTTTCG-TTAACTCATATGAG
1 -TTTCGTTTAACTCATATGAG
*
689421 TTTCAGTTTAAC-CATATTGGG
1 TTTC-GTTTAACTCATA-TGAG
689442 TTTTCGTTTA
1 -TTTCGTTTA
689452 GCTCTTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 4 0.09
20 17 0.39
21 19 0.43
22 4 0.09
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTCGTTTAACTCATATGAG
Found at i:689507 original size:42 final size:44
Alignment explanation
Indices: 689425--689521 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 44
689415 TATGAGTTTC
* * **
689425 AGTTTAA-CCATATTGGGTTTTCGTTTAGCTCTTTTAAGCTT-T
1 AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
* *
689467 AGTTTAACCCTTA-TGGGTTTTTGTTTAGCCCTTACGAGCTTCT
1 AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
*
689510 A-TTCAACCCTTA
1 AGTTTAACCCTTA
689522 CTGTTTTTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 40 0.87
43 6 0.13
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (44 bp):
AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
Found at i:690875 original size:16 final size:14
Alignment explanation
Indices: 690846--690920 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 14
690836 GTTCATAATT
690846 AAAGTTTTAAGGAG
1 AAAGTTTTAAGGAG
690860 AAAGCTTTTGAAGGAG
1 AAAG-TTTT-AAGGAG
** * **
690876 AGTGATCTT-AGTTG
1 AAAG-TTTTAAGGAG
690890 AAAGTTTTAAGGAG
1 AAAGTTTTAAGGAG
690904 AAAGCTTTTGAAGGAG
1 AAAG-TTTT-AAGGAG
690920 A
1 A
690921 GTGATCTTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
13 3 0.07
14 16 0.36
15 8 0.18
16 18 0.40
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.29
Consensus pattern (14 bp):
AAAGTTTTAAGGAG
Found at i:690909 original size:44 final size:44
Alignment explanation
Indices: 690846--690935 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
690836 GTTCATAATT
690846 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
1 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
690890 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
1 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
690934 AA
1 AA
690936 GTATAAGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (44 bp):
AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
Found at i:705187 original size:3 final size:3
Alignment explanation
Indices: 705179--705216 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
705169 AATTGAGTCT
705179 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT
705217 TGAAATGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:705880 original size:50 final size:50
Alignment explanation
Indices: 705805--705952 Score: 269
Period size: 50 Copynumber: 3.0 Consensus size: 50
705795 AACCTAAAAA
*
705805 TTTAAATACGCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGGAG
1 TTTAAACACGCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGGAG
705855 TTTAAACACGCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGGAG
1 TTTAAACACGCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGGAG
* *
705905 TTTAAACATGCTAAAGCATATGATATCTTCCACTTTGGAGATTGAAGG
1 TTTAAACACGCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGG
705953 GTTATGTTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (50 bp):
TTTAAACACGCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGGAG
Found at i:709122 original size:15 final size:14
Alignment explanation
Indices: 709087--709125 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
709077 GTTTTAGTTC
709087 ATATTTTATTTTAT
1 ATATTTTATTTTAT
709101 ATATTTTATTTTGA-
1 ATATTTTATTTT-AT
709115 ATTATTTTATT
1 A-TATTTTATT
709126 AATTTTGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
ATATTTTATTTTAT
Found at i:709387 original size:32 final size:29
Alignment explanation
Indices: 709324--709398 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
709314 TTCATACTGT
* *
709324 TTTATGTAAATATTGTTCTTTTAAATGTA
1 TTTATGTATATATTCTTCTTTTAAATGTA
* *
709353 TTTATATGTATATATATCTTCTTTTGAATTTA
1 -TT-TATGTATATAT-TCTTCTTTTAAATGTA
709385 TTTATGTATATATT
1 TTTATGTATATATT
709399 ATTGTCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.33
31 12 0.31
32 13 0.33
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (29 bp):
TTTATGTATATATTCTTCTTTTAAATGTA
Found at i:720308 original size:14 final size:14
Alignment explanation
Indices: 720289--720321 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
720279 GCACGTTAAA
720289 AAAAATATAAAA-AT
1 AAAAATA-AAAATAT
720303 AAAAATAAAAATAT
1 AAAAATAAAAATAT
720317 AAAAA
1 AAAAA
720322 GTTCAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAATAAAAATAT
Found at i:722658 original size:9 final size:9
Alignment explanation
Indices: 722644--722673 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
722634 TTGAATTAAA
722644 AAATTAATT
1 AAATTAATT
722653 AAATTAATT
1 AAATTAATT
*
722662 AAATTAAAT
1 AAATTAATT
722671 AAA
1 AAA
722674 AAATAGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATTAATT
Found at i:731525 original size:4 final size:4
Alignment explanation
Indices: 731516--731667 Score: 304
Period size: 4 Copynumber: 38.0 Consensus size: 4
731506 GATGATCATG
731516 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
731564 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
731612 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
731660 CATA CATA
1 CATA CATA
731668 TGCACGTTCA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 148 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:739068 original size:15 final size:15
Alignment explanation
Indices: 739050--739079 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
739040 TATCTATTAT
739050 CTATTTATTTTAAAA
1 CTATTTATTTTAAAA
739065 CTATTTATTTTAAAA
1 CTATTTATTTTAAAA
739080 TTTCGGTTTT
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:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
CTATTTATTTTAAAA
Found at i:739258 original size:22 final size:25
Alignment explanation
Indices: 739209--739256 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
739199 TATATTATCT
739209 TAAATATTTAATTAGATAATAAAAAA
1 TAAATATTTAATTA-ATAATAAAAAA
739235 TAAATATTTAATT-A-AATAAAAA
1 TAAATATTTAATTAATAATAAAAA
739257 TAGATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.36
24 1 0.05
26 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAATATTTAATTAATAATAAAAAA
Found at i:742522 original size:9 final size:9
Alignment explanation
Indices: 742508--742533 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
742498 AAAAAATATT
742508 ATATTAAAA
1 ATATTAAAA
742517 ATATTAAAA
1 ATATTAAAA
742526 ATATTAAA
1 ATATTAAA
742534 TAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATATTAAAA
Found at i:747160 original size:126 final size:126
Alignment explanation
Indices: 746934--747167 Score: 362
Period size: 126 Copynumber: 1.9 Consensus size: 126
746924 GTTTTAGCCT
* * *
746934 TAAGAGGATATTCGAATATTCAATACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGCACGATT
* * *
746999 CTTCGAATTCTTTAAATACCGACTATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAAGTCTTTAAATACCGACTATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
* * * *
747060 TAAGAGGATATCCGAATATTCAAGACAAAGAAAGAAAGCGAAACCCGGTACGTTAAGGTAGGATT
1 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGCACGATT
747125 CTTCGAAGTCTTTAAATACCGAAC-ATTGCCATTATTTTAAAAA
66 CTTCGAAGTCTTTAAATACCG-ACTATTGCCATTATTTTAAAAA
747168 CAATTGAGAA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 95 0.98
127 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGCACGATT
CTTCGAAGTCTTTAAATACCGACTATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
Found at i:747705 original size:18 final size:18
Alignment explanation
Indices: 747682--747723 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
747672 ATAATGCTAC
*
747682 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
747700 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
747718 AATAAC
1 AATAAC
747724 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:747748 original size:3 final size:3
Alignment explanation
Indices: 747742--747854 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
747732 AATAGAATAC
* * * *
747742 AAT AAT AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
747788 AAA AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT A-AT
*
747836 AAA AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
747855 TTATTATTAT
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
2 6 0.07
3 66 0.79
4 12 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:747765 original size:14 final size:14
Alignment explanation
Indices: 747742--747795 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
747732 AATAGAATAC
* *
747742 AATAATAATATATT
1 AATAAAAATATATA
747756 AATAAAAATA-ATA
1 AATAAAAATATATA
*
747769 ATATAAAAATAATAAA
1 A-ATAAAAAT-ATATA
747785 AATAAAAATAT
1 AATAAAAATAT
747796 GTTTCTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 9 0.26
16 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATATATA
Found at i:747779 original size:20 final size:21
Alignment explanation
Indices: 747737--747789 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
747727 AACAAAATAG
**
747737 AATACAATAATAATATATTAAT
1 AATA-AATAATAATATAAAAAT
747759 AA-AAATAATAATATAAAAAT
1 AATAAATAATAATATAAAAAT
747779 AATAAA-AATAA
1 AATAAATAATAA
747790 AAATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 22 0.79
21 4 0.14
22 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAAATAATAATATAAAAAT
Found at i:747781 original size:23 final size:23
Alignment explanation
Indices: 747755--747848 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 23
747745 AATAATATAT
747755 TAATAAAAATAATAATATAAAAA
1 TAATAAAAATAATAATATAAAAA
* ***
747778 TAATAAAAATAAAAATATGTTTCTAA
1 TAATAAAAATAATAATA---TAAAAA
747804 TAATAATAAATCAATAATGATAATAAA
1 TAATAA-AAAT-AATAAT-ATAA-AAA
747831 TATATAAAAATAATAATA
1 TA-ATAAAAATAATAATA
747849 ATAATATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
23 16 0.29
25 1 0.02
26 16 0.29
27 12 0.22
28 9 0.16
29 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
TAATAAAAATAATAATATAAAAA
Found at i:747821 original size:17 final size:16
Alignment explanation
Indices: 747801--747854 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
747791 AATATGTTTC
747801 TAATAATAATAAATCAA
1 TAATAATAATAAAT-AA
*
747818 TAATGATAATAAATATA
1 TAATAATAATAAATA-A
*
747835 TAAAAATAAT-AATAA
1 TAATAATAATAAATAA
747850 TAATA
1 TAATA
747855 TTATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 22 0.69
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
TAATAATAATAAATAA
Found at i:747981 original size:24 final size:24
Alignment explanation
Indices: 747949--747996 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
747939 TCTTTTTGTA
*
747949 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
747973 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
747997 AGGATGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (24 bp):
GGCAAGTGGGGTAATGGAGTTAGT
Found at i:748040 original size:13 final size:13
Alignment explanation
Indices: 748022--748058 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
748012 GGTGATAGAG
748022 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
748035 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
*
748048 TTAGTAGGGTG
1 TTAGTGGGGTG
748059 TGGGGGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:748045 original size:30 final size:30
Alignment explanation
Indices: 747977--748047 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
747967 GTTAGTGGCA
* * *
747977 AGTGGGGTAATGGAGTTAGTAGGATGGTTT
1 AGTGGGGTGATAGAGTTAGTAGGATGATTT
* *
748007 AGTGGGGTGATAGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATAGAGTTAGTAGGATGATTT
748037 AGTGGGGTGAT
1 AGTGGGGTGAT
748048 TTAGTAGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.32
Consensus pattern (30 bp):
AGTGGGGTGATAGAGTTAGTAGGATGATTT
Found at i:748585 original size:133 final size:134
Alignment explanation
Indices: 748345--748653 Score: 426
Period size: 133 Copynumber: 2.3 Consensus size: 134
748335 GATCTGCTGT
* * * *
748345 AATTTGATCTGCTTTACTCCTTCTCAGTAAAGATAAGATTTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCTAGTA-GTTTAGCCTGCTCCACTCC
* * ** *
748410 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGGTCCATTGTCGATACATGGAGATAAGA-TT
65 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGACTT
748474 -CATCAA
130 GC--CAA
* * **
748480 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA-TTTAGCCTGCTCCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
* * *
748544 GCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGTTACATGGAGATAAGACTTG
66 GCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGACTTG
748609 CCAA
131 CCAA
748613 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCT
748654 GTCGAAATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
133 112 0.74
134 2 0.01
135 38 0.25
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (134 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGACTTG
CCAA
Found at i:748800 original size:85 final size:85
Alignment explanation
Indices: 748693--749078 Score: 641
Period size: 85 Copynumber: 4.6 Consensus size: 85
748683 CAGTGGCATG
* * * *
748693 AGATCTG-CAATTTTAGCTTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* *
748757 CACCACTGCTCGGCGAGCCC
66 CACCACTACTCGGTGAGCCC
* *
748777 AAATCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
748842 CACCACTACTCGGTGAGCCC
66 CACCACTACTCGGTGAGCCC
748862 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
748927 CACCACTACTCGGTGAGCCC
66 CACCACTACTCGGTGAGCCC
748947 AGATCTGTAAATTTTAGCCTGTTA-CCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* **
749011 CAGCACCGCTCGGTGAGCCC
66 CACCACTACTCGGTGAGCCC
* *
749031 AGATCTGTAAATTTTAGCCTGTTATCCTACTGCATAGGGGGTTAAGGC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
749079 TTGTATCTTT
Statistics
Matches: 286, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
84 87 0.30
85 199 0.70
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
CACCACTACTCGGTGAGCCC
Found at i:749009 original size:169 final size:170
Alignment explanation
Indices: 748693--749078 Score: 641
Period size: 169 Copynumber: 2.3 Consensus size: 170
748683 CAGTGGCATG
* * *
748693 AGATCTG-CAATTTTAGCTTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTACTC
*
748757 CACCACTGCTCGGCGAGCCCAAATCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
66 CACCACTACTCGGCGAGCCCAAATCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
*
748822 GGCGAGTCTTCGACCTGCTCCACCACTACTCGGTGAGCCC
131 GGCGAGTCTTCGACCTGCTCCACCACCACTCGGTGAGCCC
*
748862 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTACTC
* * *
748927 CACCACTACTCGGTGAGCCCAGATCTGTAAATTTTAGCCTGTTA-CCTACTGCTTAGGGGGTTAA
66 CACCACTACTCGGCGAGCCCAAATCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
* *
748991 GGCGAGTCTTCGACCTGCTCCAGCACCGCTCGGTGAGCCC
131 GGCGAGTCTTCGACCTGCTCCACCACCACTCGGTGAGCCC
* *
749031 AGATCTGTAAATTTTAGCCTGTTATCCTACTGCATAGGGGGTTAAGGC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
749079 TTGTATCTTT
Statistics
Matches: 203, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
169 110 0.54
170 93 0.46
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (170 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTACTC
CACCACTACTCGGCGAGCCCAAATCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
GGCGAGTCTTCGACCTGCTCCACCACCACTCGGTGAGCCC
Found at i:749149 original size:44 final size:43
Alignment explanation
Indices: 749101--749376 Score: 151
Period size: 44 Copynumber: 6.3 Consensus size: 43
749091 TCTGCTCAAC
*
749101 TATTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTACCA
1 TATTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCTTGTTACCA
* * * * * *
749145 TATTGCCTA-GGAGTTAA-AGCCTGCAATCTTTAGCTTGTTACCC
1 TATTGCTTAGGGAGATAAGA-TCTGTAAT-TTCAGCTTGTTACCA
* * * * *
749188 TATTCCTTAGGGAGTTAAAGCTTGCTGT--TTTC-G-AT-CTACCCA
1 TATTGCTTAGGGAGAT-AAG-AT-CTGTAATTTCAGCTTGTTA-CCA
* *
749230 CTATTGCTTAGGGAGATAGGATCTGTAATTTTCAGCTTGTTACCC
1 -TATTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCTTGTTACCA
* * * **
749275 TATTGCTTAGGGAGTTAAAGCCTGCTGT--TTTC-GATCTG-CCCCA
1 TATTGCTTAGGGAGAT-AAG-AT-CTGTAATTTCAGCT-TGTTACCA
* *
749318 CTATTGCTTAGGGAGATAAGATCTGTAATTTTTAGCTTGTTACCC
1 -TATTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCTTGTTACCA
749363 TATTGCTTAGGGAG
1 TATTGCTTAGGGAG
749377 TTAAAGCCTC
Statistics
Matches: 171, Mismatches: 37, Indels: 48
0.67 0.14 0.19
Matches are distributed among these distances:
40 4 0.02
41 7 0.04
42 7 0.04
43 59 0.35
44 72 0.42
45 12 0.07
46 3 0.02
47 7 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (43 bp):
TATTGCTTAGGGAGATAAGATCTGTAATTTCAGCTTGTTACCA
Found at i:749180 original size:43 final size:44
Alignment explanation
Indices: 749126--749299 Score: 126
Period size: 43 Copynumber: 4.0 Consensus size: 44
749116 TAAGATCTAT
749126 AATCTTCAGCTTGTTACCATATTGCC-TA-GGAGTTAAAGCCTGC
1 AATCTTCAGCTTGTTACCATATT-CCTTAGGGAGTTAAAGCCTGC
* * *
749169 AATCTTTAGCTTGTTACCCTATTCCTTAGGGAGTTAAAGCTTGC
1 AATCTTCAGCTTGTTACCATATTCCTTAGGGAGTTAAAGCCTGC
** * * * * * * * *
749213 TGTTTTC-G-AT-CTACCCACTATTGCTTAGGGAGAT-AGGATCTGT
1 AATCTTCAGCTTGTTA-CCA-TATTCCTTAGGGAGTTAAAG-CCTGC
* * *
749256 AATTTTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGC
1 AATCTTCAGCTTGTTACCATATTCCTTAGGGAGTTAAAGCCTGC
749300 TGTTTTCGAT
Statistics
Matches: 97, Mismatches: 25, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 45 0.46
44 36 0.37
45 5 0.05
46 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (44 bp):
AATCTTCAGCTTGTTACCATATTCCTTAGGGAGTTAAAGCCTGC
Found at i:749362 original size:88 final size:87
Alignment explanation
Indices: 749173--749385 Score: 372
Period size: 88 Copynumber: 2.4 Consensus size: 87
749163 GCCTGCAATC
* *
749173 TTTAGCTTGTTACCCTATTCCTTAGGGAGTTAAAGCTTGCTGTTTTCGATCTACCCACTATTGCT
1 TTTAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTACCCACTATTGCT
*
749238 TAGGGAGATAGGATCTGTAATT
66 TAGGGAGATAAGATCTGTAATT
* *
749260 TTCAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTGCCCCACTATTGC
1 TTTAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCT-ACCCACTATTGC
749325 TTAGGGAGATAAGATCTGTAATT
65 TTAGGGAGATAAGATCTGTAATT
749348 TTTAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCT
1 TTTAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCT
749386 CTGAAATTTT
Statistics
Matches: 119, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 49 0.41
88 70 0.59
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (87 bp):
TTTAGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCCTGCTGTTTTCGATCTACCCACTATTGCT
TAGGGAGATAAGATCTGTAATT
Found at i:750014 original size:17 final size:18
Alignment explanation
Indices: 749981--750039 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
749971 ATTTAAAAAA
749981 AAATTATATAAATATA-TT
1 AAATTA-ATAAATATATTT
749999 AAATATAATAAA-ATATTT
1 AAAT-TAATAAATATATTT
*
750017 AAATTAATTAATGATATTAT
1 AAATTAATAAAT-ATATT-T
750037 AAA
1 AAA
750040 AATTGAGGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 9 0.26
18 15 0.43
19 7 0.20
20 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTAATAAATATATTT
Found at i:750260 original size:31 final size:31
Alignment explanation
Indices: 750225--750285 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
750215 AATTAATTAG
*
750225 ATCAACAATTTTATTTA-AAATCAATCACTAT
1 ATCAACAATTTTA-ATAGAAATCAATCACTAT
* *
750256 ATCAATAATTTTAATAGGAATCAATCACTA
1 ATCAACAATTTTAATAGAAATCAATCACTA
750286 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (31 bp):
ATCAACAATTTTAATAGAAATCAATCACTAT
Found at i:751154 original size:22 final size:22
Alignment explanation
Indices: 751129--751172 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
751119 TAGTCTTATA
751129 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
751151 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
751173 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:751217 original size:15 final size:16
Alignment explanation
Indices: 751196--751231 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
751186 AATTTTATTT
751196 TAATAATAAATTTAAA
1 TAATAATAAATTTAAA
*
751212 -AATAATAATTTTAAA
1 TAATAATAAATTTAAA
751227 TAATA
1 TAATA
751232 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATAAATTTAAA
Found at i:751284 original size:15 final size:15
Alignment explanation
Indices: 751264--751319 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
751254 ATTCAATATT
751264 AATATTTTAATAATA
1 AATATTTTAATAATA
*
751279 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
751298 AATATATTAATAATA
1 AATATTTTAATAATA
751313 AAT-TTTT
1 AATATTTT
751320 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 14 0.42
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:751293 original size:19 final size:19
Alignment explanation
Indices: 751266--751302 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
751256 TCAATATTAA
*
751266 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
751285 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
751303 ATTAATAATA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:752224 original size:126 final size:126
Alignment explanation
Indices: 752066--752299 Score: 389
Period size: 126 Copynumber: 1.9 Consensus size: 126
752056 GTTTTAGCCT
* *
752066 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGTGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* * *
752131 CTTCGAATTCTTTAAATACCG-ACTATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAAGTCTTTAAATACCGAAC-ATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
* *
752192 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
752257 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
752300 CAATTGAGAA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
126 98 0.98
127 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
Found at i:752846 original size:18 final size:18
Alignment explanation
Indices: 752823--752864 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
752813 ATAATGCTAC
*
752823 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
752841 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
752859 AATAAC
1 AATAAC
752865 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:752889 original size:3 final size:3
Alignment explanation
Indices: 752883--752995 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
752873 AATAGAAGAC
* * * *
752883 AAT AAT AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
752929 AAA AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT A-AT
*
752977 AAA AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
752996 TTATTATTAT
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
2 6 0.07
3 66 0.79
4 12 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:752906 original size:14 final size:14
Alignment explanation
Indices: 752883--752936 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
752873 AATAGAAGAC
* *
752883 AATAATAATATATT
1 AATAAAAATATATA
752897 AATAAAAATA-ATA
1 AATAAAAATATATA
*
752910 ATATAAAAATAATAAA
1 A-ATAAAAAT-ATATA
752926 AATAAAAATAT
1 AATAAAAATAT
752937 GTTTCTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 9 0.26
16 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATATATA
Found at i:752920 original size:20 final size:21
Alignment explanation
Indices: 752883--752930 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
752873 AATAGAAGAC
**
752883 AATAATAATATATTAATAA-A
1 AATAATAATATAAAAATAATA
752903 AATAATAATATAAAAATAATA
1 AATAATAATATAAAAATAATA
752924 AA-AATAA
1 AATAATAA
752931 AAATATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAATAATATAAAAATAATA
Found at i:752922 original size:23 final size:23
Alignment explanation
Indices: 752896--752989 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 23
752886 AATAATATAT
752896 TAATAAAAATAATAATATAAAAA
1 TAATAAAAATAATAATATAAAAA
* ***
752919 TAATAAAAATAAAAATATGTTTCTAA
1 TAATAAAAATAATAATA---TAAAAA
752945 TAATAATAAATCAATAATGATAATAAA
1 TAATAA-AAAT-AATAAT-ATAA-AAA
752972 TATATAAAAATAATAATA
1 TA-ATAAAAATAATAATA
752990 ATAATATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
23 16 0.29
25 1 0.02
26 16 0.29
27 12 0.22
28 9 0.16
29 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
TAATAAAAATAATAATATAAAAA
Found at i:752962 original size:17 final size:16
Alignment explanation
Indices: 752942--752995 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
752932 AATATGTTTC
752942 TAATAATAATAAATCAA
1 TAATAATAATAAAT-AA
*
752959 TAATGATAATAAATATA
1 TAATAATAATAAATA-A
*
752976 TAAAAATAAT-AATAA
1 TAATAATAATAAATAA
752991 TAATA
1 TAATA
752996 TTATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 22 0.69
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
TAATAATAATAAATAA
Found at i:755882 original size:8 final size:7
Alignment explanation
Indices: 755858--755904 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
755848 ATACCTCGAC
755858 AGGGTTT
1 AGGGTTT
755865 AGGGTTT
1 AGGGTTT
755872 AGGGTTTT
1 AGGG-TTT
755880 AGGGTTT
1 AGGGTTT
755887 AGGGTTTT
1 AGGG-TTT
*
755895 AAGGTTT
1 AGGGTTT
755902 AGG
1 AGG
755905 CTTTCGACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
7 23 0.64
8 13 0.36
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:755882 original size:15 final size:15
Alignment explanation
Indices: 755858--755904 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
755848 ATACCTCGAC
755858 AGGG-TTTAGGGTTT
1 AGGGTTTTAGGGTTT
755872 AGGGTTTTAGGGTTT
1 AGGGTTTTAGGGTTT
*
755887 AGGGTTTTAAGGTTT
1 AGGGTTTTAGGGTTT
755902 AGG
1 AGG
755905 CTTTCGACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 4 0.13
15 27 0.87
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (15 bp):
AGGGTTTTAGGGTTT
Found at i:755904 original size:22 final size:22
Alignment explanation
Indices: 755858--755901 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
755848 ATACCTCGAC
*
755858 AGGGTTTAGGGTTTAGGGTTTT
1 AGGGTTTAGGGTTTAAGGTTTT
755880 AGGGTTTAGGGTTTTAAGGTTT
1 AGGGTTTAGGG-TTTAAGGTTT
755902 AGGCTTTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (22 bp):
AGGGTTTAGGGTTTAAGGTTTT
Found at i:756267 original size:17 final size:17
Alignment explanation
Indices: 756247--756279 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
756237 ATCTTTTCTT
756247 CTTTT-TTTATTTTTTTC
1 CTTTTGTTT-TTTTTTTC
756264 CTTTTGTTTTTTTTTT
1 CTTTTGTTTTTTTTTT
756280 GAATTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (17 bp):
CTTTTGTTTTTTTTTTC
Found at i:758630 original size:19 final size:20
Alignment explanation
Indices: 758606--758652 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
758596 ATTTTTGAAT
* *
758606 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGAGATG
758625 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
758645 -AATGCAAA
1 TAATGCAAA
758653 AGAAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:760632 original size:18 final size:18
Alignment explanation
Indices: 760609--760650 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
760599 ATAATGCTAC
*
760609 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
760627 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
760645 AATAAC
1 AATAAC
760651 AACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:760647 original size:3 final size:3
Alignment explanation
Indices: 760639--760823 Score: 89
Period size: 3 Copynumber: 61.7 Consensus size: 3
760629 TAACGATTAA
* * * *
760639 AAT AAT AAT AAC AAC AAT AA- AAT AGA- AGAC AAT AAT AAT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
* * * * ** **
760683 AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT AAA AAT -AT GTT TCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
760729 AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT ATAT ACAA AAT AAT AGT
1 AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT A-AT A-AT AAT AAT AAT
* *
760776 AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
760819 AAT AA
1 AAT AA
760824 CACTCTCCCC
Statistics
Matches: 139, Mismatches: 30, Indels: 26
0.71 0.15 0.13
Matches are distributed among these distances:
2 13 0.09
3 109 0.78
4 17 0.12
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:760692 original size:14 final size:14
Alignment explanation
Indices: 760669--760722 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
760659 AATAGAAGAC
* *
760669 AATAATAATATATT
1 AATAAAAATATATA
760683 AATAAAAATA-ATA
1 AATAAAAATATATA
*
760696 ATATAAAAATAATAAA
1 A-ATAAAAAT-ATATA
760712 AATAAAAATAT
1 AATAAAAATAT
760723 GTTTCTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 9 0.26
16 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATATATA
Found at i:760706 original size:20 final size:21
Alignment explanation
Indices: 760669--760716 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
760659 AATAGAAGAC
**
760669 AATAATAATATATTAATAA-A
1 AATAATAATATAAAAATAATA
760689 AATAATAATATAAAAATAATA
1 AATAATAATATAAAAATAATA
760710 AA-AATAA
1 AATAATAA
760717 AAATATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAATAATATAAAAATAATA
Found at i:761251 original size:30 final size:30
Alignment explanation
Indices: 761211--761277 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
761201 GTGGCAAATG
* *
761211 GGGTAATGGAGTTAGTGGGATGGTTTACTA
1 GGGTGATGGAGTTAGTGGGATGATTTACTA
* * *
761241 GGGTGATGGAGTTAGTGGGGTGATTTAGTG
1 GGGTGATGGAGTTAGTGGGATGATTTACTA
761271 GGGTGAT
1 GGGTGAT
761278 TTAGTAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.01, G:0.46, T:0.33
Consensus pattern (30 bp):
GGGTGATGGAGTTAGTGGGATGATTTACTA
Found at i:761270 original size:13 final size:13
Alignment explanation
Indices: 761252--761288 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
761242 GGTGATGGAG
761252 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
761265 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
*
761278 TTAGTAGGGTG
1 TTAGTGGGGTG
761289 TGGGGGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:764661 original size:3 final size:3
Alignment explanation
Indices: 764653--764836 Score: 77
Period size: 3 Copynumber: 59.7 Consensus size: 3
764643 GACAATAATT
* ** *
764653 TAA TAA TAA TAA TAA TAA TAA CAA TAA T-A TGT TGA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * ** * * * *
764698 TAA -AA GGAA TAA AAA TAA TAG TAA CGA GAA TAT TAA CAA TAG TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
764743 TAA TAA CGA TAA T-A TAAA TAC TAA TATA TACA TTAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA
* ** * *
764791 TAG TAA TCG TAA TAA TGA TAA TAA TAA TACA TTAA TGA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TA
764837 TATGTTAATA
Statistics
Matches: 131, Mismatches: 40, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
2 6 0.05
3 107 0.82
4 14 0.11
5 4 0.03
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:764932 original size:3 final size:3
Alignment explanation
Indices: 764926--765031 Score: 56
Period size: 3 Copynumber: 34.7 Consensus size: 3
764916 GTAGTAGTAG
* * * *
764926 TAA TAA TAA TAA TAA TAA TAA TACA TTAA GTTA CAA TAG TAA -AG TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA -TAA TAA TAA TAA TAA TAA
* * * * * *
764973 TAA CAG TGA TAA TGA TAA T-A TAT TAGA TAA TAA TAG TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
765017 TAA GTAA TAA TAA TA
1 TAA -TAA TAA TAA TA
765032 GATTAAATTG
Statistics
Matches: 75, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
2 5 0.07
3 59 0.79
4 9 0.12
5 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:764985 original size:44 final size:42
Alignment explanation
Indices: 764927--765031 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 42
764917 TAGTAGTAGT
*
764927 AATAATAA-TAATAATAATAATACATTA-AGTTACAATAGTAA
1 AATAATAAGTAATAATAATAATACATTAGA-TAACAATAGTAA
* * * * *
764968 AGTAATAACAGTGATAATGATAATATATTAGATAATAATAGTAA
1 AATAAT-A-AGTAATAATAATAATACATTAGATAACAATAGTAA
765012 AATAATAAGTAATAATAATA
1 AATAATAAGTAATAATAATA
765032 GATTAAATTG
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
41 5 0.10
42 12 0.24
43 2 0.04
44 31 0.61
45 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (42 bp):
AATAATAAGTAATAATAATAATACATTAGATAACAATAGTAA
Found at i:766274 original size:18 final size:20
Alignment explanation
Indices: 766239--766281 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
766229 AAAAATCATT
766239 AAAAATTGTAAAAGTTAA-A
1 AAAAATTGTAAAAGTTAACA
766258 AAAAATATG-AAAA-TTAACA
1 AAAAAT-TGTAAAAGTTAACA
766277 AAAAA
1 AAAAA
766282 AATTATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (20 bp):
AAAAATTGTAAAAGTTAACA
Found at i:766327 original size:19 final size:19
Alignment explanation
Indices: 766280--766332 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
766270 ATTAACAAAA
*
766280 AAAATTATTTAGAAAATTTT
1 AAAATTATTTA-AAAATTAT
766300 AAAATTTATTTAAAAA-TAT
1 AAAA-TTATTTAAAAATTAT
766319 AAGAATTATTTAAA
1 AA-AATTATTTAAA
766333 GACACTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
AAAATTATTTAAAAATTAT
Found at i:767992 original size:47 final size:48
Alignment explanation
Indices: 767889--768011 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 48
767879 TTTTACTAAA
* * **
767889 ATGCCATAACCCAGCTATGGTCTTACATCTTATACACATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTACATCAAATACACATATCACACCG
* * *
767937 ATGCCATATCCCAGATATGGTCTTACA-CAAATGCACTTATCACTCCG
1 ATGCCATATCCCAGATATGGTCTTACATCAAATACACATATCACACCG
* *
767984 ATGCCATATCCCAGATATGATTTTACAT
1 ATGCCATATCCCAGATATGGTCTTACAT
768012 GGAAATCACT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 40 0.62
48 25 0.38
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.29
Consensus pattern (48 bp):
ATGCCATATCCCAGATATGGTCTTACATCAAATACACATATCACACCG
Found at i:768065 original size:31 final size:31
Alignment explanation
Indices: 768030--768182 Score: 245
Period size: 31 Copynumber: 5.0 Consensus size: 31
768020 CTTGTCACTT
*
768030 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
768061 GTAGCCGAAGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
768092 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
768123 GTAGCCAAAGCTACCAC-TTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
768153 GTAGCCAAAGCTACCACTTTTCACTTATCA
1 GTAGCCGAAGCTACCACTTTTCACTGATCA
768183 TTTGTCCTTG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
30 30 0.26
31 84 0.74
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:768256 original size:57 final size:57
Alignment explanation
Indices: 768171--769124 Score: 1744
Period size: 57 Copynumber: 17.0 Consensus size: 57
768161 AGCTACCACT
*
768171 TTTCACTTATCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768228 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768285 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768342 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768399 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768456 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768513 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768570 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768627 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768684 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768741 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768798 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768855 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768912 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
768969 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
* *
769026 TTTCACTTG-----T-T-C---ATCAGTTAAGTGTAGCCGGAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
* *
769073 TTTCACTTG-----T-T-CTTGATCAGATAAATGTAGCTGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
769123 TT
1 TT
769125 GTTGCCATGG
Statistics
Matches: 887, Mismatches: 7, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
47 45 0.05
50 34 0.04
51 1 0.00
52 1 0.00
57 806 0.91
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (57 bp):
TTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
Found at i:769048 original size:47 final size:48
Alignment explanation
Indices: 768963--769124 Score: 211
Period size: 50 Copynumber: 3.3 Consensus size: 48
768953 AGCTATCACT
* *
768963 TATCACTT-TCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTT-TCACTTGTTC-T-ATCAGATAAGTGTAGCCGAAGC
* *
769013 TATCACTTATCACTTTCACTTGTTC-ATCAGTTAAGTGTAGCCGGAGC
1 TATCACTTATCACTTTCACTTGTTCTATCAGATAAGTGTAGCCGAAGC
* *
769060 TATCACTTATCACTTTCACTTGTTCTTGATCAGATAAATGTAGCTGAAGC
1 TATCACTTATCACTTTCACTTGTTC-T-ATCAGATAAGTGTAGCCGAAGC
769110 TATCACTTATCACTT
1 TATCACTTATCACTT
769125 GTTGCCATGG
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
47 45 0.45
50 49 0.49
51 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (48 bp):
TATCACTTATCACTTTCACTTGTTCTATCAGATAAGTGTAGCCGAAGC
Found at i:784046 original size:41 final size:41
Alignment explanation
Indices: 784001--784082 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
783991 CGGGGTCGCT
*
784001 AATTGTGGCGATCTAATGAAAAAGTTT-AGAAACTGAAGTTC
1 AATTGTGGCGATCTAATGAAAAAATTTGA-AAACTGAAGTTC
784042 AATTGTGGCGATCTAATGAAAAAATTTGAAAACTGAAGTTC
1 AATTGTGGCGATCTAATGAAAAAATTTGAAAACTGAAGTTC
784083 GATTTTGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (41 bp):
AATTGTGGCGATCTAATGAAAAAATTTGAAAACTGAAGTTC
Found at i:784504 original size:109 final size:109
Alignment explanation
Indices: 784313--784531 Score: 420
Period size: 109 Copynumber: 2.0 Consensus size: 109
784303 AATACGAGTT
784313 CAATATTAAAATTTAGTCGTGATCCAATTAAAAGAAGACGAGAGATTTTAGTTTATTCCAGTTTT
1 CAATATTAAAATTTAGTCGTGATCCAATTAAAAGAAGACGAGAGATTTTAGTTTATTCCAGTTTT
784378 TTGAGAAGGGTATATCGCTTTAACACGAGTCAATTGACGTTCAC
66 TTGAGAAGGGTATATCGCTTTAACACGAGTCAATTGACGTTCAC
**
784422 CAATATTAAAATTTAGTCGTGATCCAATTAAAAGAAGACGAGAGATTTTAGTTTATTCTGGTTTT
1 CAATATTAAAATTTAGTCGTGATCCAATTAAAAGAAGACGAGAGATTTTAGTTTATTCCAGTTTT
784487 TTGAGAAGGGTATATCGCTTTAACACGAGTCAATTGACGTTCAC
66 TTGAGAAGGGTATATCGCTTTAACACGAGTCAATTGACGTTCAC
784531 C
1 C
784532 CAACATAGCG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (109 bp):
CAATATTAAAATTTAGTCGTGATCCAATTAAAAGAAGACGAGAGATTTTAGTTTATTCCAGTTTT
TTGAGAAGGGTATATCGCTTTAACACGAGTCAATTGACGTTCAC
Found at i:785551 original size:13 final size:13
Alignment explanation
Indices: 785533--785584 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
785523 ATGTATATGC
785533 ATATAATAAAAAT
1 ATATAATAAAAAT
785546 ATATAATAAAAAT
1 ATATAATAAAAAT
*
785559 ATATAATAATAAT
1 ATATAATAAAAAT
*
785572 A-ATAATAATAAT
1 ATATAATAAAAAT
785584 A
1 A
785585 ATATGAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
12 12 0.32
13 26 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAATAAAAAT
Found at i:785554 original size:3 final size:3
Alignment explanation
Indices: 785535--785587 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
785525 GTATATGCAT
* *
785535 ATA ATA AAA ATA TATA ATA AAA ATA TATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
785582 ATA ATA
1 ATA ATA
785588 TGAAAATACA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.