Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 170 of 222
Found at i:54507703 original size:28 final size:29
Alignment explanation
Indices: 54507671--54507733 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
54507661 AATAAAAATT
* *
54507671 ATTTTATGAGAC-TAGGGGCAAAATCATA
1 ATTTTATGAAACTTAGGGGCAAAAACATA
*
54507699 ATTTTGTGAAACTTTAGGGGCAAAAACATA
1 ATTTTATGAAAC-TTAGGGGCAAAAACATA
54507729 ATTTT
1 ATTTT
54507734 GCCAAAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 10 0.33
30 20 0.67
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (29 bp):
ATTTTATGAAACTTAGGGGCAAAAACATA
Found at i:54508106 original size:26 final size:26
Alignment explanation
Indices: 54508077--54508157 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
54508067 TTTAATCACG
54508077 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
54508103 TGTGTA-T-CGAATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
54508128 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
54508154 TGTG
1 TGTG
54508158 AATCGAACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 21 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:54508115 original size:100 final size:102
Alignment explanation
Indices: 54507972--54508155 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 102
54507962 AAAGTGATGG
*
54507972 TCACGTGTGTAGTACTATGGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGGCAGGCTACTACGTGTACCGGAATGATAATGGTCACATGTGTAGTA
*
54508035 CTATTTGCAGGCTACTATGCGTACCGGATAGTTTTAA
66 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTTAA
* * *
54508072 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATC-GAATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATG-GCAGGCTACTACGTGTACCGGAATGATAATGGTCACATGTGTAGT
54508136 ACTATGTGCAGGCTACTATG
65 ACTATGTGCAGGCTACTATG
54508156 TGAATCGAAC
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 25 0.33
101 18 0.24
102 33 0.43
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGGCAGGCTACTACGTGTACCGGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTTAA
Found at i:54508164 original size:51 final size:50
Alignment explanation
Indices: 54507968--54508157 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 50
54507958 AGTGAAAGTG
* * *
54507968 ATGGTCACGTGTGTAGTACTATG-GCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGGT
* * * * *
54508018 A-GGTCGCATGTGTAGTACTATTTGCAGGCTACTATGCGTACCGGATAGTT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAT-GGT
* ** * *
54508068 TTAATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGT
54508118 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
54508158 AATCGAACAT
Statistics
Matches: 115, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 21 0.18
50 22 0.19
51 72 0.63
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGT
Found at i:54508215 original size:45 final size:45
Alignment explanation
Indices: 54508164--54508251 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
54508154 TGTGAATCGA
* *
54508164 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
54508209 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
54508252 GAGTATCTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:54529553 original size:29 final size:29
Alignment explanation
Indices: 54529520--54529578 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
54529510 AGGAAAGTGA
54529520 ATGCCAAACTAGGAAGGACCTTATGTGGT
1 ATGCCAAACTAGGAAGGACCTTATGTGGT
54529549 ATGCCAAACTAGGAAGGACCTTATGTGGT
1 ATGCCAAACTAGGAAGGACCTTATGTGGT
54529578 A
1 A
54529579 AAGAAGGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (29 bp):
ATGCCAAACTAGGAAGGACCTTATGTGGT
Found at i:54530617 original size:44 final size:43
Alignment explanation
Indices: 54530567--54530934 Score: 179
Period size: 44 Copynumber: 8.0 Consensus size: 43
54530557 TCATTGTGAA
* * *
54530567 AAATCTTATCTCACTGAATTTGCAATGGAGCAGATTAAAGCTAC
1 AAATCTTATCTC-CTGAAGTTACAATGGAACAGATTAAAGCTAC
* * ** *
54530611 AAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAA-CGAC
1 AAATCTTATCT-CCTGAAGTTACAATGGAACAGATT-AAAGCTAC
* * * * * *
54530655 AAATCTTATCTCCTTGGAGTTGCAGTGAAACAGATTGAAGCTGC
1 AAATCTTATCTCC-TGAAGTTACAATGGAACAGATTAAAGCTAC
*
54530699 AAATCTTATTTTCCTGAAGTTACAATGGAACAGATTAAAGCTACAAGTTAC
1 AAATCTTA-TCTCCTGAAGTTACAATGGAACAGATTAAAG---C----TAC
* * * *
54530750 AAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAA-CTAC
1 AAATCTTATCT-CCTGAAGTTACAATGGAACAGATT-AAAGCTAC
* * ** * *
54530794 AAATCTTATTTCCCTGAGGTTGTAGTGGAATAGATTAAAGCTACAAGTTAC
1 AAATCTTATCT-CCTGAAGTTACAATGGAACAGATTAAAG---C----TAC
* *
54530845 AAATCTTATCTCCCTGAAGTTGC-A-GAGAAGCAGATTGAAA-CTAT
1 AAATCTTATCT-CCTGAAGTTACAATG-GAA-CAGATT-AAAGCTAC
* * * *
54530889 AAATCTTATTTCCTTGAGGTTGCAGTGGAACAGATTAAAGCTAC
1 AAATCTTATCTCC-TGAAGTTACAATGGAACAGATTAAAGCTAC
54530933 AA
1 AA
54530935 GTTACAAATT
Statistics
Matches: 254, Mismatches: 41, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
43 12 0.05
44 156 0.61
45 11 0.04
46 1 0.00
47 2 0.01
48 2 0.01
49 1 0.00
50 5 0.02
51 58 0.23
52 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (43 bp):
AAATCTTATCTCCTGAAGTTACAATGGAACAGATTAAAGCTAC
Found at i:54530779 original size:51 final size:51
Alignment explanation
Indices: 54530698--54531012 Score: 262
Period size: 44 Copynumber: 6.6 Consensus size: 51
54530688 ATTGAAGCTG
* * * *
54530698 CAAATCTTATTTTCCTGAAGTTACAATGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * *
54530749 CAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATT---G--A-AA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * *
54530793 CAAATCTTATTTCCCTGAGGTTGTAGTGGAATAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
*
54530844 CAAATCTTATCTCCCTGAAGTTGCAG-AGAAGCAGATTGAAA-CT---A--T-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATT-AAAGCTACAAGTTA
* * *
54530889 -AAATCTTATTTCCTTGAGGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
* * * * *
54530939 CAAATTTTATCTCCTTGAAGATGTAGTGGAGCAGA-T-----TA-AAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
*
54530983 CAAATCTCATCTCCCTGAAGTTGCAGTGGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGA
54531013 CCAAATTGAC
Statistics
Matches: 214, Mismatches: 32, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
43 3 0.01
44 96 0.45
45 7 0.03
46 2 0.01
47 2 0.01
48 2 0.01
49 2 0.01
50 6 0.03
51 91 0.43
52 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
Found at i:54530893 original size:139 final size:132
Alignment explanation
Indices: 54530567--54531007 Score: 341
Period size: 139 Copynumber: 3.2 Consensus size: 132
54530557 TCATTGTGAA
* * * *
54530567 AAATCTTATCTCACTGAATTTGCAATGGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTAAAGCTATAAATCTTATCTCCCTAAAGTT
* * * * *
54530632 ACAGTGGAGTAGATTGAAACGACAAATCTTATCTCCTTGGAGTTGCAGTGAAACAGATTGAAGCT
66 GCAGTGGAATAGATTGAAACTACAAATCTTATCTCCCTGGAGTTGCAGTGAAACAGATTAAAGCT
54530697 GC
131 GC
* * *
54530699 AAATCTTATTTTCCTGAAGTTACAATGGAA-CAGATTAAAGCTACAAGTTACAAATCTTATCTCC
1 AAATCTTATCTCCCTGAAGTTGCAAT-GAAGCAGATTAAAGCT---A--T--AAATCTTATCTCC
* * * *
54530763 CTAAAGTTGCAGTGGAATAGATTGAAACTACAAATCTTATTTCCCT-GAGGTTGTAGTGGAATAG
58 CTAAAGTTGCAGTGGAATAGATTGAAACTACAAATCTTATCTCCCTGGA-GTTGCAGTGAAACAG
54530827 ATTAAAGCTACAAGTTAC
122 ATTAAAGCT----G---C
* * * *
54530845 AAATCTTATCTCCCTGAAGTTGCAGA-GAAGCAGATTGAAA-CTATAAATCTTATTTCCTTGAGG
1 AAATCTTATCTCCCTGAAGTTGCA-ATGAAGCAGATT-AAAGCTATAAATCTTATCTCCCTAAAG
* * * * * * * * *
54530908 TTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATTTTATCTCCTTGAAGATGTAGTGGAGCAG
64 TTGCAGTGGAATAGATT---G--A-AA-CTACAAATCTTATCTCCCTGGAGTTGCAGTGAAACAG
* *
54530973 ATTAAAGTTAC
122 ATTAAAGCTGC
*
54530984 AAATCTCATCTCCCTGAAGTTGCA
1 AAATCTTATCTCCCTGAAGTTGCA
54531008 GTGGACCAAA
Statistics
Matches: 247, Mismatches: 35, Indels: 47
0.75 0.11 0.14
Matches are distributed among these distances:
132 33 0.13
133 2 0.01
135 1 0.00
138 2 0.01
139 129 0.52
141 1 0.00
142 1 0.00
143 2 0.01
144 1 0.00
145 5 0.02
146 65 0.26
147 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (132 bp):
AAATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTAAAGCTATAAATCTTATCTCCCTAAAGTT
GCAGTGGAATAGATTGAAACTACAAATCTTATCTCCCTGGAGTTGCAGTGAAACAGATTAAAGCT
GC
Found at i:54531028 original size:95 final size:95
Alignment explanation
Indices: 54530567--54531012 Score: 487
Period size: 95 Copynumber: 4.8 Consensus size: 95
54530557 TCATTGTGAA
* * * * *
54530567 AAATCTTATCTCACTGAATTTGCAATGGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAAGTT
* ** *
54530632 ACAGTGGAGTAGATTGAA---AC--G--AC
66 GCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * * * *
54530655 AAATCTTATCTCCTTGGAGTTGCAGTGAAACAGATTGAAGCTGCAAATCTTATTTTCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAAGTT
* *
54530720 ACAATGGAACAGATTAAAGCTACAAGTTAC
66 GCAGTGGAACAGATTAAAGCTACAAGTTAC
* ** *
54530750 AAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAA-CTACAAATCTTATTTCCCTGAGGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAATCTTATTTCCCTGAAGT
* *
54530814 TGTAGTGGAATAGATTAAAGCTACAAGTTAC
65 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * *
54530845 AAATCTTATCTCCCTGAAGTTGCAGAGAAGCAGATTGAAA-CTATAAATCTTATTTCCTTGAGGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAATCTTATTTCCCTGAAGT
54530909 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
65 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * * * *
54530940 AAATTTTATCTCCTTGAAGATGTAGTGGAGCAGATTAAAGTTACAAATCTCATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAAGTT
54531005 GCAGTGGA
66 GCAGTGGA
54531013 CCAAATTGAC
Statistics
Matches: 299, Mismatches: 50, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
88 67 0.22
91 2 0.01
93 1 0.00
94 3 0.01
95 224 0.75
96 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (95 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATTTCCCTGAAGTT
GCAGTGGAACAGATTAAAGCTACAAGTTAC
Found at i:54534431 original size:60 final size:59
Alignment explanation
Indices: 54534331--54534484 Score: 193
Period size: 60 Copynumber: 2.6 Consensus size: 59
54534321 GAAGAACAGA
* * * * * *
54534331 CTTTGTGGAAAAACTCTGGATATGAAAGCCTTTATGGCGAGTACTGAGTGTAAATGATGC
1 CTTTGTGG-AAAACTCTTGATAGGAAAGCCTTTGTAGCGAGTACTAAATGTAAATGATGC
*
54534391 CTTTGTGGTAAATCTCTTGATAGGAAAGCCTTTGTAGCGAGTACTAAATGTAAATGATGC
1 CTTTGTGG-AAAACTCTTGATAGGAAAGCCTTTGTAGCGAGTACTAAATGTAAATGATGC
* *
54534451 CTTTGTAGCAAACT-TTGGATAGGAAAGCCTTTGT
1 CTTTGTGGAAAACTCTT-GATAGGAAAGCCTTTGT
54534485 GAAAAAACTC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
58 2 0.02
59 21 0.26
60 59 0.72
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (59 bp):
CTTTGTGGAAAACTCTTGATAGGAAAGCCTTTGTAGCGAGTACTAAATGTAAATGATGC
Found at i:54534562 original size:61 final size:61
Alignment explanation
Indices: 54534490--54534609 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 61
54534480 TTTGTGAAAA
* *
54534490 AACTCTAGACAGGAAAGCCTTTATGGTGAGTATTAGATGTAAAGGACAACTTTTGTGGCAC
1 AACTCTAGACAGGAAAGCCTTTATAGTGAGTATTAGATGTAAAGGACAACCTTTGTGGCAC
* * * *
54534551 AACTCTGGACAGGAAAGTCTTTATAGTGAGTATTGGATGTAAAGGACAGCCTTTGTGGC
1 AACTCTAGACAGGAAAGCCTTTATAGTGAGTATTAGATGTAAAGGACAACCTTTGTGGC
54534610 GAGTATTGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (61 bp):
AACTCTAGACAGGAAAGCCTTTATAGTGAGTATTAGATGTAAAGGACAACCTTTGTGGCAC
Found at i:54534637 original size:31 final size:32
Alignment explanation
Indices: 54534578--54534638 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
54534568 TCTTTATAGT
54534578 GAGTATTGGATGTAAAGGACAGCCTTTGTGGC
1 GAGTATTGGATGTAAAGGACAGCCTTTGTGGC
*
54534610 GAGTATTGGATGTAAAGGA-TGCCTTTGTG
1 GAGTATTGGATGTAAAGGACAGCCTTTGTG
54534639 ACAACCTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.25, C:0.10, G:0.34, T:0.31
Consensus pattern (32 bp):
GAGTATTGGATGTAAAGGACAGCCTTTGTGGC
Found at i:54536809 original size:17 final size:17
Alignment explanation
Indices: 54536787--54536836 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
54536777 TAAAGTCAAA
54536787 TAAATTGTTTAAAAAAT
1 TAAATTGTTTAAAAAAT
*
54536804 TAAATTATTGTTTTAAAAAT
1 T-AA--ATTGTTTAAAAAAT
*
54536824 TAAATTCTTTAAA
1 TAAATTGTTTAAA
54536837 TGTTGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 9 0.33
18 2 0.07
19 2 0.07
20 14 0.52
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (17 bp):
TAAATTGTTTAAAAAAT
Found at i:54536815 original size:20 final size:20
Alignment explanation
Indices: 54536790--54536829 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
54536780 AGTCAAATAA
54536790 ATTGTTTAAAAAATTAAATT
1 ATTGTTTAAAAAATTAAATT
*
54536810 ATTGTTTTAAAAATTAAATT
1 ATTGTTTAAAAAATTAAATT
54536830 CTTTAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTGTTTAAAAAATTAAATT
Found at i:54552234 original size:41 final size:41
Alignment explanation
Indices: 54552177--54552282 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
54552167 AATGAGATAA
* * *
54552177 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTAAAATAT
*
54552218 TTCAGACTTTACGTCTACCAGGCTTGACGCCGGTAAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTAAAATAT
*
54552259 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
54552283 AATTGCCAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTAAAATAT
Found at i:54575328 original size:125 final size:125
Alignment explanation
Indices: 54575106--54575348 Score: 459
Period size: 125 Copynumber: 1.9 Consensus size: 125
54575096 TTTTAAGGGA
54575106 TCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGA
1 TCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGA
54575171 TGCATTGTCAGCAAAAGTACTGAAATCGCTCCCACATGGACGCGCTTTTGCTATACTAGC
66 TGCATTGTCAGCAAAAGTACTGAAATCGCTCCCACATGGACGCGCTTTTGCTATACTAGC
*
54575231 TCCTGAAAAAATAATTTCGAGTAGATGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGA
1 TCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGA
* *
54575296 TGCTTTGTCAGCAAAAGTACTGAAATCGCTCCCACGTGGACGCGCTTTTGCTA
66 TGCATTGTCAGCAAAAGTACTGAAATCGCTCCCACATGGACGCGCTTTTGCTA
54575349 CAGTAGTACA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 115 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (125 bp):
TCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGA
TGCATTGTCAGCAAAAGTACTGAAATCGCTCCCACATGGACGCGCTTTTGCTATACTAGC
Found at i:54577296 original size:30 final size:29
Alignment explanation
Indices: 54577245--54577311 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
54577235 TTGCTGTTGC
*
54577245 TGGGCCTAGTGATTGTATGGGCGCT-GATGA
1 TGGGCC-AGTGAATGTATGGGC-CTCGATGA
* *
54577275 TGGGCCAGGTGAATGTCTGGGCCTCGTTGA
1 TGGGCCA-GTGAATGTATGGGCCTCGATGA
54577305 TGGGCCA
1 TGGGCCA
54577312 ATGTCATCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.15, C:0.18, G:0.40, T:0.27
Consensus pattern (29 bp):
TGGGCCAGTGAATGTATGGGCCTCGATGA
Found at i:54579000 original size:28 final size:27
Alignment explanation
Indices: 54578947--54579005 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 27
54578937 AAAAAAATTC
*
54578947 AAAAAAATAAAAATTTAAAACTTTTTT
1 AAAAAAATAAAAAATTAAAACTTTTTT
*
54578974 AAAAATAATTAAAAAATTAAAGCTTTTTT
1 AAAAA-AA-TAAAAAATTAAAACTTTTTT
54579003 AAA
1 AAA
54579006 TAGGAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.18
28 2 0.07
29 21 0.75
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAAAATAAAAAATTAAAACTTTTTT
Found at i:54579024 original size:11 final size:11
Alignment explanation
Indices: 54579010--54579054 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
54579000 TTTAAATAGG
54579010 AATTTGAGAGA
1 AATTTGAGAGA
*
54579021 AATTTGAGAGG
1 AATTTGAGAGA
54579032 AATTTGAGAGA
1 AATTTGAGAGA
54579043 AA-TTGAGAGA
1 AATTTGAGAGA
54579053 AA
1 AA
54579055 GAATTAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 10 0.31
11 22 0.69
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:54579050 original size:10 final size:10
Alignment explanation
Indices: 54579013--54579054 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
54579003 AAATAGGAAT
54579013 TTGAGAGAAA
1 TTGAGAGAAA
*
54579023 TTTGAGAGGAAT
1 -TTGAGA-GAAA
54579035 TTGAGAGAAA
1 TTGAGAGAAA
54579045 TTGAGAGAAA
1 TTGAGAGAAA
54579055 GAATTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 13 0.46
11 12 0.43
12 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:54580103 original size:25 final size:25
Alignment explanation
Indices: 54580072--54580145 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
54580062 AATTTAAATT
54580072 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAATATAA
*
54580097 TTATATTAATTTTAAATAAATATAA
1 TTATATTAATATTAAATAAATATAA
*
54580122 TTATGTTAATATTAAATAAA-ATAA
1 TTATATTAATATTAAATAAATATAA
54580146 AAATCTCTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 4 0.09
25 42 0.91
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (25 bp):
TTATATTAATATTAAATAAATATAA
Found at i:54580739 original size:22 final size:22
Alignment explanation
Indices: 54580714--54580755 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
54580704 TCCCAGAAAT
*
54580714 CCCTAAGTTTTTTTCCCCAAAC
1 CCCTAACTTTTTTTCCCCAAAC
**
54580736 CCCTTTCTTTTTTTCCCCAA
1 CCCTAACTTTTTTTCCCCAA
54580756 TTTCTTTCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.38, G:0.02, T:0.43
Consensus pattern (22 bp):
CCCTAACTTTTTTTCCCCAAAC
Found at i:54580845 original size:81 final size:80
Alignment explanation
Indices: 54580677--54580940 Score: 292
Period size: 79 Copynumber: 3.3 Consensus size: 80
54580667 AAACCACAAA
* *
54580677 TTCTTTTCCCCCAATCAGTTCCCTCTCTCCCAGAAATCCCTAAGTTTTT-TTCCCCAAACCCCTT
1 TTCTTTTCCCCAAATCAGTTCCCCCTCTCCC-GAAATCCCTAAGTTTTTCTTCCCCAAACCCCTT
54580741 TCTTTTTTTCCCCAAT
65 TCTTTTTTTCCCCAAT
* *
54580757 TTC-TTTCCCCAAATCAGTTCCCCCTCTCTCCGAAATCCCTAAGTTGTTTCTTTCCCACACCCCT
1 TTCTTTTCCCCAAATCAGTTCCCCCTCTC-CCGAAATCCCTAAGTT-TTTCTTCCCCAAACCCCT
54580821 TTC-TTTTTTCCCCAAT
64 TTCTTTTTTTCCCCAAT
* * * ** * *
54580837 TTCTTTTCCCCAAATCAATTCCCTCTC-CCCAAAATCCCTAA--TTTT-TT-CTGAAATCTCTTT
1 TTCTTTTCCCCAAATCAGTTCCCCCTCTCCCGAAATCCCTAAGTTTTTCTTCCCCAAACCCCTTT
***
54580897 CTTTCTTTTTCGTGAAT
66 C-TT-TTTTTCCCCAAT
*
54580914 TTCTTTTCCCCAAATCAATTCCCCCTC
1 TTCTTTTCCCCAAATCAGTTCCCCCTC
54580941 CTCGATATAT
Statistics
Matches: 161, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
74 9 0.06
75 2 0.01
76 4 0.02
77 36 0.22
79 49 0.30
80 25 0.16
81 36 0.22
ACGTcount: A:0.18, C:0.37, G:0.04, T:0.41
Consensus pattern (80 bp):
TTCTTTTCCCCAAATCAGTTCCCCCTCTCCCGAAATCCCTAAGTTTTTCTTCCCCAAACCCCTTT
CTTTTTTTCCCCAAT
Found at i:54581515 original size:13 final size:13
Alignment explanation
Indices: 54581499--54581529 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
54581489 ATGGAAGGAA
54581499 GAAATTTTATTAG
1 GAAATTTTATTAG
54581512 GAAATTTTATTAG
1 GAAATTTTATTAG
*
54581525 AAAAT
1 GAAAT
54581530 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
GAAATTTTATTAG
Found at i:54581555 original size:12 final size:12
Alignment explanation
Indices: 54581538--54581563 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54581528 ATAATTAAAA
54581538 TATTTTGTTTGT
1 TATTTTGTTTGT
54581550 TATTTTGTTTGT
1 TATTTTGTTTGT
54581562 TA
1 TA
54581564 AGGCAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (12 bp):
TATTTTGTTTGT
Found at i:54583345 original size:25 final size:25
Alignment explanation
Indices: 54583271--54583345 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
54583261 ATACTTTCTC
*
54583271 TTTTTTTTAATAATTT-A-ATTTAA
1 TTTTTTTTTATAATTTGATATTTAA
* * *
54583294 TTTAATTTTTTTTAATTTGGTACTTAA
1 TTT--TTTTTTATAATTTGATATTTAA
*
54583321 TTTTTTTTTCTAATTTGATATTTAA
1 TTTTTTTTTATAATTTGATATTTAA
54583346 ATTTATCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.07
25 30 0.73
27 8 0.20
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTTTTTTATAATTTGATATTTAA
Found at i:54584009 original size:35 final size:35
Alignment explanation
Indices: 54583963--54584032 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
54583953 TAAATGAATA
*
54583963 AAATTTAATGATTATCATAGCTTACATAAACATTT
1 AAATTTAATGATTATCATAACTTACATAAACATTT
*
54583998 AAATTTAATGATTATCATAACTTATATAAACATTT
1 AAATTTAATGATTATCATAACTTACATAAACATTT
54584033 GAAGAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (35 bp):
AAATTTAATGATTATCATAACTTACATAAACATTT
Found at i:54584126 original size:7 final size:7
Alignment explanation
Indices: 54584114--54584138 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54584104 TAAATAATTA
54584114 GATACTT
1 GATACTT
54584121 GATACTT
1 GATACTT
54584128 GATACTT
1 GATACTT
54584135 GATA
1 GATA
54584139 TTATATTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (7 bp):
GATACTT
Found at i:54592853 original size:40 final size:40
Alignment explanation
Indices: 54592808--54593039 Score: 243
Period size: 40 Copynumber: 5.8 Consensus size: 40
54592798 ATAACCACAT
* *
54592808 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * *
54592848 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-CCTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* *
54592888 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
54592928 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * * *
54592968 GCACAAATGCCTTCGAGTCTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * *
54593008 GCATAAATGCCTTCAGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
54593040 CATTCAAATG
Statistics
Matches: 161, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.02
40 150 0.93
41 7 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:54592892 original size:80 final size:81
Alignment explanation
Indices: 54592808--54593038 Score: 306
Period size: 80 Copynumber: 2.9 Consensus size: 81
54592798 ATAACCACAT
54592808 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
54592873 CGGATAAAATC-CCTA
66 CGGATAAAATCAACTA
54592888 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
54592953 CGGAT-ATATCAACTC
66 CGGATAAAATCAACTA
* * * * * * * * * * *
54592968 GCACAAATGCCTTCGAGTCTTAGCCCAGATAAAATC-ACTAGCATAAATGCCTTCAGGACTTAGC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
54593032 CCGGATA
65 CCGGATA
54593039 TCATTCAAAT
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 4 0.03
80 127 0.95
81 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (81 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCAACTA
Found at i:54593021 original size:120 final size:120
Alignment explanation
Indices: 54592808--54593035 Score: 348
Period size: 120 Copynumber: 1.9 Consensus size: 120
54592798 ATAACCACAT
* * *
54592808 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGAGTCTTAGCC
* * * * *
54592873 CGGATAAAATCCCTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
66 CAGATAAAATCACTAGCACAAATGCCTTCAGGACTTAACCCGGGTATAGCAACTC
* *
54592928 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGAGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGAGTCTTAGCC
* *
54592993 CAGATAAAATCACTAGCATAAATGCCTTCAGGACTTAGCCCGG
66 CAGATAAAATCACTAGCACAAATGCCTTCAGGACTTAACCCGG
54593036 ATATCATTCA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGAGTCTTAGCC
CAGATAAAATCACTAGCACAAATGCCTTCAGGACTTAACCCGGGTATAGCAACTC
Found at i:54600193 original size:415 final size:418
Alignment explanation
Indices: 54599420--54600252 Score: 1492
Period size: 415 Copynumber: 2.0 Consensus size: 418
54599410 ACGCACAGTT
54599420 AAGCAAATTGCTCAACTTAAAGCGGAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGA
1 AAGCAAATTGCTCAACTTAAAGCGGAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGA
*
54599485 AGAACTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAGCAAAAGCAACAAGAAAATATTA
66 AGAACTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAGCAAAAGAAACAAGAAAATATTA
* * * *
54599550 TGATGAACTCCAGCTACAGCTTCAGAATATGATGAAAATGTTTCAGCGGTCGCAGAATCTGCCAT
131 TGACGAACTCCAGCTACAACTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCGCCAT
*
54599615 CTTAGTCTTTTGTTTACTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATACATTT
196 CTTAGTCTTTTGTTTACTTATTATGAGAATATCTTAACAATACAACTTTTGAATGTAATACATTT
*
54599680 TGTTATTTCATTTATTAATTTATATCATATACATATTTCATTCATGATAGTATCATTTAGATTTG
261 TGTTATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTG
*
54599745 AAGTTTTTGATTGGATTTGATGTTACAGGAAATTATGTTTAAAATTTGGGTTCTATATGAATTAA
326 AAGTTTTTGATTGGATTTGATGTTACAGGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAA
*
54599810 AATGGATTGGTAAAATATGCTAAAATTA
391 AATGGATAGGTAAAATATGCTAAAATTA
* *
54599838 AAGCAAATTGCTCAACTTAAAGTGGAGACAACATCAAGAGAAGCAGAGGCTTAAAGAAAATATGA
1 AAGCAAATTGCTCAACTTAAAGCGGAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGA
54599903 AGAACTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAGCAAAAGAAACAAG-AAA-A-TA
66 AGAACTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAGCAAAAGAAACAAGAAAATATTA
*
54599965 TGACGAACTCCAGCTACAACTTCAGAATATGATGAAAATGTTTCAGCAGTCGTAGAATCCGCCAT
131 TGACGAACTCCAGCTACAACTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCGCCAT
* * *
54600030 CTTAGTCTTTTGTTTTCTTATTATGAGAATATTTTAACAATACAACTTTTGAATGTAATATATTT
196 CTTAGTCTTTTGTTTACTTATTATGAGAATATCTTAACAATACAACTTTTGAATGTAATACATTT
*
54600095 TGTTATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATTATTTAGATTTG
261 TGTTATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTG
*
54600160 AAGTTTTTGGTTGGATTTGATGTTACAGGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAA
326 AAGTTTTTGATTGGATTTGATGTTACAGGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAA
54600225 AATGGATAGGTAAAATATGCTAAAATTA
391 AATGGATAGGTAAAATATGCTAAAATTA
54600253 GTGGCGTTTT
Statistics
Matches: 398, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
415 276 0.69
416 1 0.00
417 3 0.01
418 118 0.30
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (418 bp):
AAGCAAATTGCTCAACTTAAAGCGGAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGA
AGAACTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAGCAAAAGAAACAAGAAAATATTA
TGACGAACTCCAGCTACAACTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCGCCAT
CTTAGTCTTTTGTTTACTTATTATGAGAATATCTTAACAATACAACTTTTGAATGTAATACATTT
TGTTATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTG
AAGTTTTTGATTGGATTTGATGTTACAGGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAA
AATGGATAGGTAAAATATGCTAAAATTA
Found at i:54600883 original size:25 final size:24
Alignment explanation
Indices: 54600849--54600897 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
54600839 GTGGTGGATT
54600849 TTTATTTTATTTAATATTAATATA
1 TTTATTTTATTTAATATTAATATA
54600873 TTTATCTTTATTTAATATTAATATA
1 TTTAT-TTTATTTAATATTAATATA
54600898 AAATATGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTATTTTATTTAATATTAATATA
Found at i:54601874 original size:139 final size:139
Alignment explanation
Indices: 54601624--54601901 Score: 495
Period size: 139 Copynumber: 2.0 Consensus size: 139
54601614 TACTTTTGTT
*
54601624 GAAAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATCT
1 GAAAAAAACTATCTAAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATCT
*
54601689 GTAAAGAATGAAACTAAGGGGATGAGCTTAAGAATTACAATGTGGGTCTAAACACAAGAAAATCA
66 GTAAAGAAGGAAACTAAGGGGATGAGCTTAAGAATTACAATGTGGGTCTAAACACAAGAAAATCA
54601754 ATGCAAAAA
131 ATGCAAAAA
*
54601763 GAAAAAAACTATCTAAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATTT
1 GAAAAAAACTATCTAAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATCT
* *
54601828 GTAAAGAAGGAAATTAAGGGTATGAGCTTAAGAATCT-CAATGTGGGTCTAAACACAAGAAAATC
66 GTAAAGAAGGAAACTAAGGGGATGAGCTTAAGAAT-TACAATGTGGGTCTAAACACAAGAAAATC
54601892 AATGCAAAAA
130 AATGCAAAAA
54601902 AGTAGACATG
Statistics
Matches: 133, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
139 132 0.99
140 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (139 bp):
GAAAAAAACTATCTAAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATCT
GTAAAGAAGGAAACTAAGGGGATGAGCTTAAGAATTACAATGTGGGTCTAAACACAAGAAAATCA
ATGCAAAAA
Found at i:54606200 original size:38 final size:38
Alignment explanation
Indices: 54606105--54606200 Score: 140
Period size: 38 Copynumber: 2.5 Consensus size: 38
54606095 TTATTGATTG
**
54606105 CATGTTCAA-CATGCCTACTATTACTATTAAACTGAATA
1 CATGTT-AAGCATGCCTACTGCTACTATTAAACTGAATA
* *
54606143 CATGTTAAGCATGTCTACTGCTACTATTGAACTGAATA
1 CATGTTAAGCATGCCTACTGCTACTATTAAACTGAATA
54606181 CATGTTAAGCATGCCTACTG
1 CATGTTAAGCATGCCTACTG
54606201 TTTTTACATG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
37 2 0.04
38 50 0.96
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTGCTACTATTAAACTGAATA
Found at i:54607988 original size:269 final size:269
Alignment explanation
Indices: 54607502--54607995 Score: 720
Period size: 269 Copynumber: 1.8 Consensus size: 269
54607492 ACTTGAACTT
* *
54607502 TTTTGTTTGAAAACTGTAGATATACTTCAAAATTTAAACTTTCGAGAATACAATATGAACACTCA
1 TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATGAACACTCA
* * * *
54607567 AGGTAGATGTGGTAGGGGTAGGCCGCGTAGGGCTGCACCCGCTGAGCCACCCATTGTTCAGAGGG
66 AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
* * *
54607632 GAAACCAAATCCTTAAAGTGGAGTACGTGGAGAATTCTACCACCAATGGTGACAAAGGTTACGAG
131 AAAACCAAATCCCTAAAGAGGAGTACGTGGAGAATTCTACCACCAATGGTGACAAAGGTTACGAG
* *
54607697 AACAGAGATGATGCATTGTCGCAAACAATGCTGAAGGTTCTGCAAAAGGTTGCTAGAGCCCAAGC
196 AACAGAGACGATGCAGTGTCGCAAACAATGCTGAAGGTTCTGCAAAAGGTTGCTAGAGCCCAAGC
54607762 TAGATCGGG
261 TAGATCGGG
* * * **
54607771 TTTTGTTTGAAAACTATAGATATACTTTAGAACTTAAATTTTTTAGAATACAATATGAACACTCA
1 TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATGAACACTCA
* * * * *
54607836 AGGTAGACGTGGTAGGGGTAGGCTGCATAGGGTTGCACCCATTTAGCCACCCATTGTTTAGAAGG
66 AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
* * ** *
54607901 AAAACCCAATCCCTAAGGAGGAGTACGTGGAGAATTCTACCGA-CAATGGTGGTAGAGGTTACGA
131 AAAACCAAATCCCTAAAGAGGAGTACGTGGAGAATTCTACC-ACCAATGGTGACAAAGGTTACGA
* *
54607965 GAACGGAGACGATGCAGTGTCGCAAGCAATG
195 GAACAGAGACGATGCAGTGTCGCAAACAATG
54607996 TTGGGGATTT
Statistics
Matches: 196, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
269 195 0.99
270 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (269 bp):
TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATGAACACTCA
AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
AAAACCAAATCCCTAAAGAGGAGTACGTGGAGAATTCTACCACCAATGGTGACAAAGGTTACGAG
AACAGAGACGATGCAGTGTCGCAAACAATGCTGAAGGTTCTGCAAAAGGTTGCTAGAGCCCAAGC
TAGATCGGG
Found at i:54608698 original size:26 final size:25
Alignment explanation
Indices: 54608669--54608720 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
54608659 AGTACATGTA
*
54608669 AATTTTGTTATTATATAAAGAAATAT
1 AATTTTATTATTATAT-AAGAAATAT
* *
54608695 AATTTTATTTTTATATAATAAATAT
1 AATTTTATTATTATATAAGAAATAT
54608720 A
1 A
54608721 TAAATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AATTTTATTATTATATAAGAAATAT
Found at i:54608728 original size:27 final size:26
Alignment explanation
Indices: 54608679--54608730 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
54608669 AATTTTGTTA
*
54608679 TTATATAAAGAAATATAATTTTATTT
1 TTATATAAAGAAATATAAATTTATTT
54608705 TTATATAATA-AATATATAAATTTATT
1 TTATATAA-AGAA-ATATAAATTTATT
54608731 ACCATAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TTATATAAAGAAATATAAATTTATTT
Found at i:54610876 original size:61 final size:62
Alignment explanation
Indices: 54610811--54610937 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 62
54610801 CTTTTTTTTT
* * * * * *
54610811 TTGAAACTTTT-AGAATTATAACCAAATTTATAAATTTTGTAAATGTTGAGGGTTAAATTTA
1 TTGAAACTTTTAAGAACTAGAACCAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTA
* * *
54610872 TTG-AATTTTTAAGAACTAGAACTAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTG
1 TTGAAACTTTTAAGAACTAGAACCAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTA
54610933 TTGAA
1 TTGAA
54610938 TTTTTTAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
60 6 0.11
61 48 0.87
62 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (62 bp):
TTGAAACTTTTAAGAACTAGAACCAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTA
Found at i:54617796 original size:57 final size:57
Alignment explanation
Indices: 54617702--54617809 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
54617692 TTGTTCCAAC
* *
54617702 GAACATGACTATCTCTTGCTATCTCATGGACAGTTTGAGTTAATGTTAAAAGCTGAG
1 GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAAGCTGAG
* *
54617759 GAACATGACTATCTCTTGCTATTTCATGGATAATTTGAATTAATGTTAAAA
1 GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAA
54617810 TAGTGTATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (57 bp):
GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAAGCTGAG
Found at i:54618574 original size:22 final size:20
Alignment explanation
Indices: 54618531--54618589 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
54618521 TCAAAGAGAG
*
54618531 AAAAATAAGTTTTTAATCTTTT
1 AAAAATAA-TTTTT-ATATTTT
*
54618553 AAATATTATATTTTTATATTTT
1 AAA-AATA-ATTTTTATATTTT
54618575 AAAAATAATTTTTAT
1 AAAAATAATTTTTAT
54618590 TGTAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.25
21 3 0.09
22 12 0.38
23 8 0.25
24 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AAAAATAATTTTTATATTTT
Found at i:54618855 original size:27 final size:26
Alignment explanation
Indices: 54618825--54618889 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
54618815 TCCATAATCC
*
54618825 AAAATAAAAAACCAAACCCTAAAATTTA
1 AAAATAAAAAACCAAA-CCTAAAA-TGA
* * **
54618853 AAATTCAAAATTCAAACCTAAAATGA
1 AAAATAAAAAACCAAACCTAAAATGA
54618879 AAAATAAAAAA
1 AAAATAAAAAA
54618890 TAACTATAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
26 10 0.34
27 7 0.24
28 12 0.41
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAATAAAAAACCAAACCTAAAATGA
Found at i:54618890 original size:27 final size:28
Alignment explanation
Indices: 54618825--54618890 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
54618815 TCCATAATCC
**
54618825 AAAATAAAAAA-CCAAACCCTAAAATTT
1 AAAATAAAAAATCCAAACCCTAAAATGA
** *
54618852 AAAATTCAAAATTCAAA-CCTAAAATGA
1 AAAATAAAAAATCCAAACCCTAAAATGA
54618879 AAAATAAAAAAT
1 AAAATAAAAAAT
54618891 AACTATAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATAAAAAATCCAAACCCTAAAATGA
Found at i:54619553 original size:15 final size:16
Alignment explanation
Indices: 54619535--54619570 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
54619525 TTTCGAGAAT
54619535 TTTTAAATTTATAT-A
1 TTTTAAATTTATATAA
*
54619550 TTTTAAATTTTTATAA
1 TTTTAAATTTATATAA
54619566 TTTTA
1 TTTTA
54619571 TTTTTAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAAATTTATATAA
Found at i:54627076 original size:46 final size:44
Alignment explanation
Indices: 54626969--54627248 Score: 317
Period size: 46 Copynumber: 6.6 Consensus size: 44
54626959 TACGTATGAT
*
54626969 CACTTATCAC-TTCTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTA-GCTAC
*
54627012 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
*
54627058 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT--AGCTAC
*
54627104 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
54627140 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
54627176 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
54627222 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
54627249 AGTACTCAAA
Statistics
Matches: 216, Mismatches: 7, Indels: 25
0.87 0.03 0.10
Matches are distributed among these distances:
36 65 0.30
38 3 0.01
40 3 0.01
42 3 0.01
43 10 0.05
44 7 0.03
45 21 0.10
46 102 0.47
47 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (44 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:54627145 original size:36 final size:36
Alignment explanation
Indices: 54627104--54627212 Score: 200
Period size: 36 Copynumber: 3.0 Consensus size: 36
54627094 CTAAAGCTAC
*
54627104 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
54627140 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
54627176 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
54627212 C
1 C
54627213 TAAAGCTACC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:54632940 original size:33 final size:32
Alignment explanation
Indices: 54632818--54633040 Score: 95
Period size: 33 Copynumber: 6.7 Consensus size: 32
54632808 AACTGACGGA
* * * * *
54632818 TAAGACCATAACTGGGTTATGGCACTATGAACG
1 TAAGACCATAACTGGGCTATGACATTCT-AATG
*** * *
54632851 TAAGACCATGGTTGGGCCATGACAATGTTTATATG
1 TAAGACCATAACTGGGCTATGAC-AT-TCTA-ATG
* * *
54632886 TAAAACCATAGCTAGGCTATGACATTCTAATG
1 TAAGACCATAACTGGGCTATGACATTCTAATG
* * * *
54632918 ATAAGACCATAACTGGGTTATGACACTATGAACG
1 -TAAGACCATAACTGGGCTATGACATTCT-AATG
* *** * * * *
54632952 TAATACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAACTGGGCTATGACA-T-TCTA-ATG
* * *
54632987 TAAGACCATAGCTGGGCTATGGCATTCTGATG
1 TAAGACCATAACTGGGCTATGACATTCTAATG
*
54633019 ATAAGACCATAACTGGGTTATG
1 -TAAGACCATAACTGGGCTATG
54633041 GCACTACGAA
Statistics
Matches: 139, Mismatches: 42, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
32 6 0.04
33 79 0.57
34 9 0.06
35 45 0.32
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (32 bp):
TAAGACCATAACTGGGCTATGACATTCTAATG
Found at i:54632995 original size:101 final size:101
Alignment explanation
Indices: 54632816--54633055 Score: 381
Period size: 101 Copynumber: 2.4 Consensus size: 101
54632806 TGAACTGACG
*
54632816 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGGCCATGACAATGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAATGTTT
54632881 ATATGTAAAACCATAGCTAGGCTATGACATTCTAAT
66 ATATGTAAAACCATAGCTAGGCTATGACATTCTAAT
* * * *
54632917 GATAAGACCATAACTGGGTTATGACACTATGAACGTAATACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAATGTTT
* * * *
54632982 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAAACCATAGCTAGGCTATGACATTCTAAT
* *
54633018 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
54633056 AGGATGAATT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 127 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAATGTTT
ATATGTAAAACCATAGCTAGGCTATGACATTCTAAT
Found at i:54635743 original size:21 final size:21
Alignment explanation
Indices: 54635719--54635769 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
54635709 ATGATAACGT
*
54635719 AAAATGAAAT-AAAAATTAAAA
1 AAAAAGAAATGAAAAATT-AAA
* *
54635740 AAAAAGATATGAAACATTAAA
1 AAAAAGAAATGAAAAATTAAA
*
54635761 TAAAAGAAA
1 AAAAAGAAA
54635770 CTTCCTGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAAAGAAATGAAAAATTAAA
Found at i:54636258 original size:21 final size:20
Alignment explanation
Indices: 54636234--54636280 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
54636224 TATAGGTATT
54636234 AATTTATTAATTATAAA-TAAA
1 AATTTATTAA--ATAAATTAAA
*
54636255 AATTAATTAAATAAATTAAA
1 AATTTATTAAATAAATTAAA
*
54636275 CATTTA
1 AATTTA
54636281 ATGTATCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTATTAAATAAATTAAA
Found at i:54643342 original size:64 final size:64
Alignment explanation
Indices: 54643241--54643371 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
54643231 CGGTAGACAC
54643241 TTTAGTTCCATTCTTGTTCATCTTAAAACAGTATGCAATGTTAATGATGTGGACCGTCCACTAA
1 TTTAGTTCCATTCTTGTTCATCTTAAAACAGTATGCAATGTTAATGATGTGGACCGTCCACTAA
*
54643305 TTTAGTTCCATTCTTGTTCATCTTAAAACAGTATGCAATGTTAATGATGTGGACTGTCCACTAA
1 TTTAGTTCCATTCTTGTTCATCTTAAAACAGTATGCAATGTTAATGATGTGGACCGTCCACTAA
54643369 TTT
1 TTT
54643372 CGCATATTGC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (64 bp):
TTTAGTTCCATTCTTGTTCATCTTAAAACAGTATGCAATGTTAATGATGTGGACCGTCCACTAA
Found at i:54650863 original size:21 final size:22
Alignment explanation
Indices: 54650825--54650885 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
54650815 TGTGTGGGAG
*
54650825 GAGGCACATGACCATGTG-GCT
1 GAGGCACATGACCGTGTGAGCT
*
54650846 GAGGCACATGCCCGTGTGAGCT
1 GAGGCACATGACCGTGTGAGCT
* *
54650868 -AGGGACATGGCCGTGTGA
1 GAGGCACATGACCGTGTGA
54650886 ATAGGCCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.18
Consensus pattern (22 bp):
GAGGCACATGACCGTGTGAGCT
Found at i:54656724 original size:25 final size:25
Alignment explanation
Indices: 54656692--54656747 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
54656682 AAATACTAAT
* **
54656692 TTTTAACGGTATGGATTTATAAAAA
1 TTTTAACGGCATAAATTTATAAAAA
*
54656717 TTTTAACGGCATAAATTTATAAAAT
1 TTTTAACGGCATAAATTTATAAAAA
54656742 TTTTAA
1 TTTTAA
54656748 TAGAAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (25 bp):
TTTTAACGGCATAAATTTATAAAAA
Found at i:54658370 original size:36 final size:35
Alignment explanation
Indices: 54658288--54658375 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 35
54658278 GAAAATGAAT
*
54658288 AAAATTAT-AAACATACAAAAAATATACATGCATGTT
1 AAAATTATGAAA-ATA-AAAAAATATACATGCATGTG
* * * * *
54658324 TAAATCATGAAATATAAAAATATATATATGTATGTG
1 AAAATTATGAAA-ATAAAAAAATATACATGCATGTG
54658360 AAAATTATGAAAATAA
1 AAAATTATGAAAATAA
54658376 GATAAAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
35 4 0.10
36 32 0.76
37 6 0.14
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (35 bp):
AAAATTATGAAAATAAAAAAATATACATGCATGTG
Found at i:54658489 original size:12 final size:11
Alignment explanation
Indices: 54658474--54658536 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 11
54658464 TGTAGATATA
54658474 ATAATATATAAC
1 ATAATA-ATAAC
*
54658486 ATAACAATAAC
1 ATAATAATAAC
*
54658497 AATAATAATAAAA
1 -ATAATAAT-AAC
54658510 ATAATAATAAC
1 ATAATAATAAC
* *
54658521 AATATTAATAAA
1 -ATAATAATAAC
54658533 ATAA
1 ATAA
54658537 ACTAAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
11 10 0.24
12 29 0.71
13 2 0.05
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAATAAC
Found at i:54658497 original size:6 final size:6
Alignment explanation
Indices: 54658481--54658524 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
54658471 ATAATAATAT
* * *
54658481 ATAAC- ATAACA ATAACA ATAATA ATAAAA ATAATA ATAACA ATA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATA
54658525 TTAATAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAACA
Found at i:54658513 original size:24 final size:25
Alignment explanation
Indices: 54658471--54658533 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
54658461 ATATGTAGAT
54658471 ATAATAATATATAACATAACAATAACA
1 ATAATAATA-A-AACATAACAATAACA
*
54658498 ATAATAATAAAA-ATAATAATAACA
1 ATAATAATAAAACATAACAATAACA
*
54658522 ATATTAATAAAA
1 ATAATAATAAAA
54658534 TAAACTAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 22 0.65
25 2 0.06
26 1 0.03
27 9 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAATAATAAAACATAACAATAACA
Found at i:54668905 original size:27 final size:27
Alignment explanation
Indices: 54668867--54668922 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
54668857 AGTTTCGAGC
54668867 TTTTGAACGTCTATGTCTAATCTTAAG
1 TTTTGAACGTCTATGTCTAATCTTAAG
54668894 TTTTGAACGTCTATGTCTAATCTTAAG
1 TTTTGAACGTCTATGTCTAATCTTAAG
54668921 TT
1 TT
54668923 CATCTTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (27 bp):
TTTTGAACGTCTATGTCTAATCTTAAG
Found at i:54671996 original size:3 final size:3
Alignment explanation
Indices: 54671988--54672053 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
54671978 ATATGTAGAT
* * *
54671988 ATA ATA ATA TATA AT- ATA ACA ATA ACA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
54672033 ATA ACA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
54672054 ACTAAAGAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:54672030 original size:24 final size:25
Alignment explanation
Indices: 54671988--54672052 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
54671978 ATATGTAGAT
54671988 ATAATAATATATAATATAACAATAACA
1 ATAATAATA-A-AATATAACAATAACA
*
54672015 ATAATAATAAAA-ATAATAATAACA
1 ATAATAATAAAATATAACAATAACA
*
54672039 ATATTAATAAAATA
1 ATAATAATAAAATA
54672053 AACTAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 22 0.63
25 3 0.09
26 1 0.03
27 9 0.26
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
ATAATAATAAAATATAACAATAACA
Found at i:54693544 original size:40 final size:40
Alignment explanation
Indices: 54693496--54693803 Score: 499
Period size: 40 Copynumber: 7.7 Consensus size: 40
54693486 GCAAACACAT
* * *
54693496 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54693536 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
54693576 TTGCCTTCGGGTTTTAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
54693616 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
54693656 TTGCCTTCGGGTTTTAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
54693696 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
54693736 TTGCCTTCGGGTTTTAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
54693776 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
54693804 TCCAATGCTC
Statistics
Matches: 245, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 245 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:54702321 original size:15 final size:16
Alignment explanation
Indices: 54702292--54702321 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54702282 CAAACATGCT
54702292 TTAACACATTATCAAA
1 TTAACACATTATCAAA
54702308 TTAACACA-TATCAA
1 TTAACACATTATCAA
54702322 CAAGCCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:54703435 original size:25 final size:25
Alignment explanation
Indices: 54703401--54703494 Score: 152
Period size: 25 Copynumber: 3.8 Consensus size: 25
54703391 TCCTGTACAT
*
54703401 TGCTCACATGAGCTGTGAATCAGAA
1 TGCTCACACGAGCTGTGAATCAGAA
*
54703426 TGCTCACATGAGCTGTGAATCAGAA
1 TGCTCACACGAGCTGTGAATCAGAA
* *
54703451 TGCTCACACGAGCTATGAATTAGAA
1 TGCTCACACGAGCTGTGAATCAGAA
54703476 TGCTCACACGAGCTGTGAA
1 TGCTCACACGAGCTGTGAA
54703495 AATGGGCCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATCAGAA
Found at i:54705047 original size:28 final size:28
Alignment explanation
Indices: 54704965--54705049 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
54704955 GAGCTGTTAT
**
54704965 AAAGCCTTTGTGGCAAACCTCTACAAAAG
1 AAAGCCTTTGTGGCAAA-CTCTAGTAAAG
* * *
54704994 AAAGCCTTTATGATG-AACCT-TTGTAAAG
1 AAAGCCTTTGTG--GCAAACTCTAGTAAAG
54705022 AAAGCCTTTGTGGCAAACTCTAGTAAAG
1 AAAGCCTTTGTGGCAAACTCTAGTAAAG
54705050 GAATCCTCGT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 23 0.52
29 13 0.30
30 2 0.05
31 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (28 bp):
AAAGCCTTTGTGGCAAACTCTAGTAAAG
Found at i:54706696 original size:50 final size:50
Alignment explanation
Indices: 54706635--54706741 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
54706625 ACATGAGAGT
* * *
54706635 TCTCATATCGGTGCCCATGCCATGTCCTAGAAATGGTCTTACGGGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCTAGAAATGGTCTTACGGGGGACC
* * * * * *
54706685 TCTCATCTCGGTACCAACGCCATGTGCTAGACATTGTCTTATGTGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCTAGAAATGGTCTTACGGGGGACC
54706735 TCTCATA
1 TCTCATA
54706742 ACCTCAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGTCCTAGAAATGGTCTTACGGGGGACC
Found at i:54719643 original size:16 final size:16
Alignment explanation
Indices: 54719622--54719655 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
54719612 AATTATTCTA
54719622 GGGCTTTAATTAAATT
1 GGGCTTTAATTAAATT
54719638 GGGCTTTAATTAAATT
1 GGGCTTTAATTAAATT
54719654 GG
1 GG
54719656 AAACCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (16 bp):
GGGCTTTAATTAAATT
Found at i:54724044 original size:29 final size:29
Alignment explanation
Indices: 54723985--54724054 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
54723975 GTGCCAGTGA
* * * *
54723985 TTACAGTTATCATGTACTTTGTACTGATG
1 TTACAATTATCAAGCACTTTGTACCGATG
*
54724014 TTACAATTATCAAGCACTTTGTACCGGTG
1 TTACAATTATCAAGCACTTTGTACCGATG
* *
54724043 TTATATTTATCA
1 TTACAATTATCA
54724055 GGTACCATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (29 bp):
TTACAATTATCAAGCACTTTGTACCGATG
Found at i:54729819 original size:20 final size:20
Alignment explanation
Indices: 54729783--54729820 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54729773 TCTAACTTTT
*
54729783 TTGAAAAATAGTTTAACTGA
1 TTGAAAAATAATTTAACTGA
54729803 TTGAAAAA-AATTCTAACT
1 TTGAAAAATAATT-TAACT
54729821 TGACTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (20 bp):
TTGAAAAATAATTTAACTGA
Found at i:54740802 original size:20 final size:20
Alignment explanation
Indices: 54740773--54740826 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
54740763 ACAAATAGTT
54740773 TAAC-TGATTGAAAAAATTC
1 TAACTTGATTGAAAAAATTC
* *
54740792 TAACTTGATTGAAATAATTT
1 TAACTTGATTGAAAAAATTC
*
54740812 TAACTTGATTTAAAA
1 TAACTTGATTGAAAA
54740827 GTTTATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (20 bp):
TAACTTGATTGAAAAAATTC
Found at i:54743100 original size:12 final size:12
Alignment explanation
Indices: 54743083--54743120 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
54743073 GGTACAAGCA
54743083 ATCATGGAGGAT
1 ATCATGGAGGAT
54743095 ATCATGGAGGAT
1 ATCATGGAGGAT
**
54743107 ATTGTGGAGGAT
1 ATCATGGAGGAT
54743119 AT
1 AT
54743121 AGAGGCAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (12 bp):
ATCATGGAGGAT
Found at i:54757214 original size:3 final size:3
Alignment explanation
Indices: 54757206--54757269 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
54757196 GCTCCTATTC
*
54757206 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
54757254 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
54757270 CAGAAATGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:54775242 original size:15 final size:16
Alignment explanation
Indices: 54775212--54775244 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54775202 CTCCTAAATC
*
54775212 ACATAATGTCTTTCCA
1 ACATAATGTATTTCCA
54775228 ACATAATG-ATTTCCA
1 ACATAATGTATTTCCA
54775243 AC
1 AC
54775245 TGAACAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (16 bp):
ACATAATGTATTTCCA
Found at i:54778202 original size:36 final size:36
Alignment explanation
Indices: 54778162--54778237 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
54778152 ATGTCCAAAG
* *
54778162 TCCATTTACAACGAAAACTAACTAATTCCTGGGAGT
1 TCCATTTACAACCAAAACCAACTAATTCCTGGGAGT
54778198 TCCATTTACAACCAAAACCAACTAATTCCTGGGAGT
1 TCCATTTACAACCAAAACCAACTAATTCCTGGGAGT
54778234 TCCA
1 TCCA
54778238 CAATGCCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (36 bp):
TCCATTTACAACCAAAACCAACTAATTCCTGGGAGT
Found at i:54781373 original size:26 final size:26
Alignment explanation
Indices: 54781312--54781391 Score: 70
Period size: 26 Copynumber: 3.1 Consensus size: 26
54781302 GCCAACACAC
* * *
54781312 CAATATCGCAGCAGAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTACCAGTAA
* **
54781338 TAATGGCGCAGCAAAGCTACCAGTAA
1 CAATAACGCAGCAAAGCTACCAGTAA
* * * *
54781364 CAATAACGCATCAAGGCTTCCAATAA
1 CAATAACGCAGCAAAGCTACCAGTAA
54781390 CA
1 CA
54781392 GTATATGTGG
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTACCAGTAA
Found at i:54781741 original size:79 final size:79
Alignment explanation
Indices: 54781607--54781780 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 79
54781597 TAATTTTAGT
* * ***
54781607 TATTTCGATAATTTTAC-CTTTCGAGGGTATTTCAATAATTTTACCCTTTGGGGGTATTTCAGTG
1 TATTTCGATAA-TTTACTCTTT-AAGAG-ATTTCAATAATTTTACCCTTCAAGGGTATTTC-GTG
*
54781671 AA-TTTATCCATCAAGGG
62 AATTTTACCCATCAAGGG
* * *
54781688 TATTTTGGTAATTTACTCTTTAAGAGATTTCAATAATTTTACCCTTCAAGGGTATTTCGTTAATT
1 TATTTCGATAATTTACTCTTTAAGAGATTTCAATAATTTTACCCTTCAAGGGTATTTCGTGAATT
*
54781753 TTACCCATCGAGGG
66 TTACCCATCAAGGG
54781767 TATTTCGATAATTT
1 TATTTCGATAATTT
54781781 TACCCATCGA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
78 4 0.05
79 54 0.68
80 8 0.10
81 13 0.16
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (79 bp):
TATTTCGATAATTTACTCTTTAAGAGATTTCAATAATTTTACCCTTCAAGGGTATTTCGTGAATT
TTACCCATCAAGGG
Found at i:54781785 original size:27 final size:27
Alignment explanation
Indices: 54781607--54781791 Score: 162
Period size: 27 Copynumber: 6.9 Consensus size: 27
54781597 TAATTTTAGT
*
54781607 TATTTCGATAATTTTACCTTTCGAGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
* * *
54781634 TATTTCAATAATTTTACCCTTTGGGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
* * *
54781661 TATTTC-AGTGAA-TTTATCCATCAAGGG
1 TATTTCGA-T-AATTTTACCCTTCGAGGG
* * * ** *
54781688 TATTTTGGTAA-TTTACTCTTTAAGAG
1 TATTTCGATAATTTTACCCTTCGAGGG
* *
54781714 -ATTTCAATAATTTTACCCTTCAAGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
* *
54781740 TATTTCGTTAATTTTACCCATCGAGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
*
54781767 TATTTCGATAATTTTACCCATCGAG
1 TATTTCGATAATTTTACCCTTCGAG
54781792 TCGCAAGTTG
Statistics
Matches: 126, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
25 7 0.06
26 25 0.20
27 92 0.73
28 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTCGAGGG
Found at i:54782645 original size:17 final size:19
Alignment explanation
Indices: 54782609--54782648 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
54782599 AATCTGCAAT
*
54782609 AAGAGAAGAAGAAACCGAA
1 AAGAGAAGAAGAAACAGAA
54782628 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAACAGAA
54782645 AAGA
1 AAGA
54782649 TGAGGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAACAGAA
Found at i:54786631 original size:15 final size:15
Alignment explanation
Indices: 54786611--54786639 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54786601 TATTTTTTAA
54786611 ATTATTTTTATTTTC
1 ATTATTTTTATTTTC
54786626 ATTATTTTTATTTT
1 ATTATTTTTATTTT
54786640 TTTAGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTATTTTTATTTTC
Found at i:54789949 original size:13 final size:12
Alignment explanation
Indices: 54789924--54789953 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
54789914 AAATCCATTT
54789924 TTATTTTTTTAA
1 TTATTTTTTTAA
54789936 TTATTTTATTTAA
1 TTATTTT-TTTAA
54789949 TTATT
1 TTATT
54789954 CAATACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATTTTTTTAA
Found at i:54802663 original size:23 final size:24
Alignment explanation
Indices: 54802613--54802661 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
54802603 TACTTATCAA
*
54802613 TTTGTTTGGATTTAATTCATTACT
1 TTTGTTTGGATTGAATTCATTACT
*
54802637 TTTGTTT-GATTGAA-TCTTTACT
1 TTTGTTTGGATTGAATTCATTACT
54802659 TTT
1 TTT
54802662 TGAATGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTGTTTGGATTGAATTCATTACT
Found at i:54803364 original size:19 final size:19
Alignment explanation
Indices: 54803340--54803393 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
54803330 ATATTCCTTT
54803340 TTCCCTTCCCAATCCCTAA
1 TTCCCTTCCCAATCCCTAA
* * * *
54803359 TTCCCTTTCCGATCTCTAT
1 TTCCCTTCCCAATCCCTAA
54803378 TTCCCCTTCCCTAATC
1 TT-CCCTTCCC-AATC
54803394 TTTAATGACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 17 0.63
20 7 0.26
21 3 0.11
ACGTcount: A:0.15, C:0.44, G:0.02, T:0.39
Consensus pattern (19 bp):
TTCCCTTCCCAATCCCTAA
Found at i:54804512 original size:17 final size:17
Alignment explanation
Indices: 54804490--54804527 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
54804480 AATTTTCAAG
54804490 AATTCTAAAAAATTAAA
1 AATTCTAAAAAATTAAA
**
54804507 AATTCTTTAAAATTAAA
1 AATTCTAAAAAATTAAA
54804524 AATT
1 AATT
54804528 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTCTAAAAAATTAAA
Found at i:54808938 original size:41 final size:41
Alignment explanation
Indices: 54808881--54809114 Score: 360
Period size: 41 Copynumber: 5.7 Consensus size: 41
54808871 CAAGCTTAGT
*
54808881 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
** * *
54808922 GCCTAGCAGGCTAAGTGCTAGTGAACTGAATCAGGTTAAAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
54808963 GCCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
54809004 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCATGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
54809045 GCCTAGCAGGCTAAGTGCCAGTGATCTGAATTAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
54809086 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
54809115 TTTAAATTAA
Statistics
Matches: 172, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 167 0.97
42 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
Found at i:54809323 original size:34 final size:34
Alignment explanation
Indices: 54809285--54809398 Score: 86
Period size: 34 Copynumber: 3.3 Consensus size: 34
54809275 GTTGGATATA
* * *
54809285 TATATGTATGCATTCGACATATGTGGATT-ATAAG
1 TATATATATGCATTCGACACATGTAG-TTGATAAG
* *
54809319 TATATATGTGCATTCGTCACATGTAGTTGATAAG
1 TATATATATGCATTCGACACATGTAGTTGATAAG
* * * * * *
54809353 TATAAATATATGCTTTTGGCATATGTATTTGAAAAG
1 TAT--ATATATGCATTCGACACATGTAGTTGATAAG
54809389 TTATATATAT
1 -TATATATAT
54809399 AAATGCATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
33 2 0.03
34 29 0.45
35 6 0.09
36 24 0.38
37 3 0.05
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (34 bp):
TATATATATGCATTCGACACATGTAGTTGATAAG
Found at i:54811246 original size:43 final size:43
Alignment explanation
Indices: 54811124--54811287 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
54811114 TAGGGTTACC
* *
54811124 GAGATTACGTGTAAGACCATAT-CTGGGATA-TGGCATCGATAT
1 GAGATTTCGTGTAAGACCAT-TGCTAGGATATTGGCATCGATAT
* *
54811166 GAGACTTCGTGTAAGACCA-TGTCTAGGACATTGGCATCGATAT
1 GAGATTTCGTGTAAGACCATTG-CTAGGATATTGGCATCGATAT
* * *
54811209 GTGATTTCGTGTAAGACCATTGCT-GGATTATTAGCATCGATAC
1 GAGATTTCGTGTAAGACCATTGCTAGGA-TATTGGCATCGATAT
* * * *
54811252 AAGATTACATGTAAGACCATAT-CTGGGATA-TGGCAT
1 GAGATTTCGTGTAAGACCAT-TGCTAGGATATTGGCAT
54811288 TGTTACGGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
42 31 0.31
43 63 0.62
44 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
GAGATTTCGTGTAAGACCATTGCTAGGATATTGGCATCGATAT
Found at i:54829603 original size:20 final size:21
Alignment explanation
Indices: 54829568--54829609 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
54829558 CTCATTCAGT
*
54829568 TTTTTTATTTCCCATAATAAA
1 TTTTTTATTTCACATAATAAA
*
54829589 TTTTTTATTT-ACATATTAAA
1 TTTTTTATTTCACATAATAAA
54829609 T
1 T
54829610 AATTTTCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTTATTTCACATAATAAA
Found at i:54829937 original size:9 final size:9
Alignment explanation
Indices: 54829923--54829948 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
54829913 TCTTTTTCTA
54829923 TTCATTTCG
1 TTCATTTCG
54829932 TTCATTTCG
1 TTCATTTCG
54829941 TTCATTTC
1 TTCATTTC
54829949 TATTCAAATA
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:0.12, C:0.23, G:0.08, T:0.58
Consensus pattern (9 bp):
TTCATTTCG
Found at i:54838525 original size:27 final size:27
Alignment explanation
Indices: 54838466--54838617 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
54838456 TAAATTGTAC
*
54838466 AGCACTAAGTGTGCGAGTTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
54838494 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
54838521 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
54838548 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
54838576 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
54838603 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54838618 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:54838532 original size:55 final size:55
Alignment explanation
Indices: 54838466--54838617 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
54838456 TAAATTGTAC
54838466 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
54838521 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
54838576 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
54838618 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:54838580 original size:82 final size:82
Alignment explanation
Indices: 54838466--54838617 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
54838456 TAAATTGTAC
* *
54838466 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
54838531 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
54838548 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
54838613 GTGCG
66 GTGCG
54838618 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:54847581 original size:39 final size:40
Alignment explanation
Indices: 54847377--54847599 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
54847367 TTGAATGCTG
* * * * * *
54847377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
54847417 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
54847457 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
54847497 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
54847537 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
54847576 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54847600 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:54847619 original size:79 final size:80
Alignment explanation
Indices: 54847452--54847634 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
54847442 GTGCGAGATA
* * *
54847452 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
54847517 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
54847532 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
54847596 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
54847611 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
54847635 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:54855531 original size:39 final size:40
Alignment explanation
Indices: 54855327--54855549 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
54855317 TTGAATGCTG
* * * * * *
54855327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
54855367 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
54855407 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
54855447 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
54855487 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
54855526 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54855550 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:54855569 original size:79 final size:80
Alignment explanation
Indices: 54855402--54855584 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
54855392 GTGCGAGATA
* * *
54855402 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
54855467 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
54855482 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
54855546 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
54855561 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
54855585 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:54857438 original size:46 final size:46
Alignment explanation
Indices: 54857371--54857798 Score: 653
Period size: 46 Copynumber: 9.5 Consensus size: 46
54857361 TGAGTACTTT
*
54857371 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
54857417 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACGCTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
54857463 TGATCAAGTGACAAAGTGATGAGTGGTAGCC-TAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
54857508 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* * *
54857554 TGATCAAGTGACAAAGTGATGACTGGTAG-CGTAGCTACAC---T-
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* *
54857595 T-ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTGCACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
54857640 TGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACAATTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
54857685 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* *
54857731 TGATAAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
54857776 TGATC-AGGGAC-AAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
54857799 ATCATACGTA
Statistics
Matches: 349, Mismatches: 25, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
40 25 0.07
41 9 0.03
42 1 0.00
43 12 0.03
44 6 0.02
45 111 0.32
46 185 0.53
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
Found at i:54857527 original size:91 final size:91
Alignment explanation
Indices: 54857371--54857798 Score: 690
Period size: 91 Copynumber: 4.8 Consensus size: 91
54857361 TGAGTACTTT
*
54857371 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATCAAGTGACAAAGTGA
* *
54857436 TAAGTGGTAGCCTTAGCTACGCTTATC
65 TAAGTGGTAGCTTTAGCTACACTTATC
*
54857463 TGATCAAGTGACAAAGTGATGAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
54857528 AAGTGGTAGCTTTAGCTACACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
* * *
54857554 TGATCAAGTGACAAAGTGATGACTGGTAGCGTAGCTACAC---T-T-ATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
*
54857614 AAGTGGTAGCTTTAGCTGCACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
*
54857640 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACAATTATCTGATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
54857705 AAGTGGTAGCTTTAGCTACACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
* * *
54857731 TGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATTTGATC-AGGGAC-AAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
54857794 AAGTG
66 AAGTG
54857799 ATCATACGTA
Statistics
Matches: 315, Mismatches: 16, Indels: 13
0.92 0.05 0.04
Matches are distributed among these distances:
86 79 0.25
87 1 0.00
88 1 0.00
89 13 0.04
90 6 0.02
91 185 0.59
92 30 0.10
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (91 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
AAGTGGTAGCTTTAGCTACACTTATC
Found at i:54857673 original size:177 final size:177
Alignment explanation
Indices: 54857371--54857774 Score: 664
Period size: 177 Copynumber: 2.2 Consensus size: 177
54857361 TGAGTACTTT
*
54857371 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACAC---T-T-ATCAAGTGACAAAGTGA
* *
54857436 TAAGTGGTAGCCTTAGCTACGCTTATCTGATCAAGTGACAAAGTGATGAGTGGTAGCCTAGCTAC
60 TAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTAC
*
54857501 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
125 AATTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* * *
54857554 TGATCAAGTGACAAAGTGATGACTGGTAGCGTAGCTACACTTATCAAGTGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCAAGTGACAAAGTGATAAGTG
* *
54857619 GTAGCTTTAGCTGCACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACAATTAT
66 GTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACAATTAT
54857684 CTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
131 CTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
54857731 TGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTAT
54857775 TTGATCAGGG
Statistics
Matches: 208, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
177 170 0.82
178 1 0.00
179 1 0.00
182 8 0.04
183 28 0.13
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (177 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCAAGTGACAAAGTGATAAGTG
GTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACAATTAT
CTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:54862280 original size:20 final size:20
Alignment explanation
Indices: 54862254--54862421 Score: 142
Period size: 20 Copynumber: 8.2 Consensus size: 20
54862244 AATGGGATGT
54862254 AATTGATGCACTTTGGTGCA
1 AATTGATGCACTTTGGTGCA
* * **
54862274 GATTGATGCTCTTTGGTGTG
1 AATTGATGCACTTTGGTGCA
* *
54862294 AATTAATGCACTTTGGTTTG-T
1 AATTGATGCACTTTGG--TGCA
* *
54862315 AATTGATGCACTTCGATGCA
1 AATTGATGCACTTTGGTGCA
54862335 AATTGATGCACTTTGGTGCA
1 AATTGATGCACTTTGGTGCA
* *
54862355 AATCGATGCACTTTAGTGCA
1 AATTGATGCACTTTGGTGCA
* * *
54862375 TAACTGATACACTTTAGTGCA
1 -AATTGATGCACTTTGGTGCA
* *
54862396 TAATGGA-GCATTTTGGTGCA
1 -AATTGATGCACTTTGGTGCA
54862416 ATATTG
1 A-ATTG
54862422 TGATTGTGCA
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.03
20 78 0.66
21 35 0.30
22 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (20 bp):
AATTGATGCACTTTGGTGCA
Found at i:54862344 original size:41 final size:41
Alignment explanation
Indices: 54862254--54862367 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
54862244 AATGGGATGT
* * * **
54862254 AATTGATGCACTTTGG-TGCAGATTGATGCTCTTTGGTGTG
1 AATTGATGCACTTTGGTTGCAGATTGATGCACTTCGATGCA
* *
54862294 AATTAATGCACTTTGGTTTGTA-ATTGATGCACTTCGATGCA
1 AATTGATGCACTTTGG-TTGCAGATTGATGCACTTCGATGCA
* *
54862335 AATTGATGCACTTTGG-TGCAAATCGATGCACTT
1 AATTGATGCACTTTGGTTGCAGATTGATGCACTT
54862368 TAGTGCATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.05
40 26 0.43
41 29 0.48
42 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (41 bp):
AATTGATGCACTTTGGTTGCAGATTGATGCACTTCGATGCA
Found at i:54862364 original size:61 final size:61
Alignment explanation
Indices: 54862251--54862368 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
54862241 ACTAATGGGA
* * * * ** *
54862251 TGTAATTGATGCACTTTGGTGCAGATTGATGCTCTTTGGTGTGAATTAATGCACTTTGGTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCAATGCACTTTGGTT
*
54862312 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCGATGCACTTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCAATGCACTTT
54862369 AGTGCATAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (61 bp):
TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCAATGCACTTTGGTT
Found at i:54862388 original size:21 final size:20
Alignment explanation
Indices: 54862338--54862400 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
54862328 CGATGCAAAT
*
54862338 TGATGCACTTTGGTGCA-AA
1 TGATGCACTTTAGTGCATAA
54862357 TCGATGCACTTTAGTGCATAA
1 T-GATGCACTTTAGTGCATAA
*
54862378 CTGATACACTTTAGTGCATAA
1 -TGATGCACTTTAGTGCATAA
54862399 TG
1 TG
54862401 GAGCATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.44
21 20 0.51
22 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (20 bp):
TGATGCACTTTAGTGCATAA
Found at i:54869503 original size:11 final size:11
Alignment explanation
Indices: 54869483--54869512 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
54869473 ATGAAAAGGT
*
54869483 TGATGAATAAA
1 TGATGTATAAA
54869494 TGATGTATAAA
1 TGATGTATAAA
54869505 TGATGTAT
1 TGATGTAT
54869513 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (11 bp):
TGATGTATAAA
Found at i:54880042 original size:24 final size:24
Alignment explanation
Indices: 54880015--54880060 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
54880005 TAAATTTTTT
54880015 TATGATT-AAATTATTGTTATTAAG
1 TATGATTGAAATTATTG-TATTAAG
*
54880039 TATGCTTGAAATTATTGTATTA
1 TATGATTGAAATTATTGTATTA
54880061 TATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (24 bp):
TATGATTGAAATTATTGTATTAAG
Found at i:54894809 original size:30 final size:30
Alignment explanation
Indices: 54894775--54894836 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
54894765 CTTAACAAGT
*
54894775 AAATGTCTCTAAAATAATAATAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
*
54894805 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
54894835 AA
1 AA
54894837 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAC
Found at i:54899700 original size:63 final size:63
Alignment explanation
Indices: 54899596--54899767 Score: 200
Period size: 63 Copynumber: 2.7 Consensus size: 63
54899586 TTTTTTTTGT
* * * * * * ****
54899596 CACAAGCATCACAACACGCACACTTATTCCCTGCATTAACACATTTAGCTTTGGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
54899659 CACAAGTACCACAACATACACAATCATTCCCTGCATCAACACACTCAGCACCAGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
54899722 CACAAGCACCACAGCACGCGCAATCATTCCCTGCATCAACACATTC
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTC
54899768 TTTAGTGATA
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.25
Consensus pattern (63 bp):
CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
Found at i:54903111 original size:6 final size:6
Alignment explanation
Indices: 54903102--54903150 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
54903092 TTAATATAAA
*
54903102 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATGATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
54903150 A
1 A
54903151 ATTTATTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:54903489 original size:26 final size:26
Alignment explanation
Indices: 54903439--54903490 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
54903429 GATGTTTAAT
*
54903439 TATTATTTGATATTCAATAGTTTTAC
1 TATTATTTGATATTCAATAATTTTAC
*
54903465 TATTATTTGAT-TTTAATAATATTTAC
1 TATTATTTGATATTCAATAAT-TTTAC
54903491 ATAATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (26 bp):
TATTATTTGATATTCAATAATTTTAC
Found at i:54910527 original size:12 final size:12
Alignment explanation
Indices: 54910506--54910551 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 12
54910496 GTTTTTCAAA
54910506 AAAAAT-TATTT
1 AAAAATATATTT
54910517 AAAAATATATTT
1 AAAAATATATTT
*
54910529 -AAAATTTATTT
1 AAAAATATATTT
*
54910540 AAATATATATTT
1 AAAAATATATTT
54910552 CTTTCCCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAAATATATTT
Found at i:54910532 original size:23 final size:23
Alignment explanation
Indices: 54910506--54910551 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
54910496 GTTTTTCAAA
54910506 AAAAATTATTTAAAAATATATTT
1 AAAAATTATTTAAAAATATATTT
* *
54910529 AAAATTTATTTAAATATATATTT
1 AAAAATTATTTAAAAATATATTT
54910552 CTTTCCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAATTATTTAAAAATATATTT
Found at i:54910542 original size:52 final size:52
Alignment explanation
Indices: 54910439--54910551 Score: 142
Period size: 52 Copynumber: 2.2 Consensus size: 52
54910429 TGAATATATT
*
54910439 AATATATTTGTTCAAAAAAAATATTTTAAAAATATTTAATATATTCATTAAA
1 AATATATTTGTTCAAAAAAAATATTTAAAAAATATTTAATATATTCATTAAA
* *
54910491 AATATGTTT-TTCAAAAAAAATTATTTAAAAATATATTTAA-A-ATTTATTTAAA
1 AATATATTTGTTCAAAAAAAA-TATTTAAAAA-ATATTTAATATATTCA-TTAAA
*
54910543 TATATATTT
1 AATATATTT
54910552 CTTTCCCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
51 15 0.28
52 30 0.57
53 8 0.15
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (52 bp):
AATATATTTGTTCAAAAAAAATATTTAAAAAATATTTAATATATTCATTAAA
Found at i:54910876 original size:21 final size:21
Alignment explanation
Indices: 54910850--54910895 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
54910840 AAAATATTTA
* *
54910850 AAAATATTAATATATTAATAT
1 AAAATATAAATATATAAATAT
*
54910871 AAAATATAAATTTATAAATAT
1 AAAATATAAATATATAAATAT
54910892 AAAA
1 AAAA
54910896 AAATGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATATAAATATATAAATAT
Found at i:54910905 original size:31 final size:32
Alignment explanation
Indices: 54910870--54910931 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
54910860 TATATTAATA
54910870 TAAAATATAAATTTATAAATATAAAA-AAATG
1 TAAAATATAAATTTATAAATATAAAATAAATG
*
54910901 TAAAATATAAATTTATAGATATAAAATAAAT
1 TAAAATATAAATTTATAAATATAAAATAAAT
54910932 TCAATTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAAATATAAATTTATAAATATAAAATAAATG
Found at i:54915827 original size:8 final size:8
Alignment explanation
Indices: 54915810--54915854 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
54915800 CAATTTAAAC
54915810 AAAAAA-A
1 AAAAAAGA
54915817 AAAAAAGA
1 AAAAAAGA
54915825 AAAAAAGA
1 AAAAAAGA
54915833 AAAAAA-A
1 AAAAAAGA
*
54915840 AGAAAAGA
1 AAAAAAGA
*
54915848 AGAAAAG
1 AAAAAAG
54915855 GCTGCTTGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
7 12 0.34
8 23 0.66
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:54915837 original size:18 final size:18
Alignment explanation
Indices: 54915810--54915853 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
54915800 CAATTTAAAC
54915810 AAAA-AAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
54915827 AAAAGAAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
*
54915845 AGAAGAAAA
1 AAAAGAAAA
54915854 GGCTGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAGAAA
Found at i:54915840 original size:23 final size:23
Alignment explanation
Indices: 54915810--54915854 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
54915800 CAATTTAAAC
54915810 AAAAAAAAAAAAAGAAAAAAAGA
1 AAAAAAAAAAAAAGAAAAAAAGA
* *
54915833 AAAAAAAAGAAAAGAAGAAAAG
1 AAAAAAAAAAAAAGAAAAAAAG
54915855 GCTGCTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAGAAAAAAAGA
Found at i:54917013 original size:16 final size:16
Alignment explanation
Indices: 54916971--54917013 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
54916961 TTCTTTCTAG
54916971 TTTTCTATCCATTCAA
1 TTTTCTATCCATTCAA
*
54916987 TTTTCCATCCATTCAA
1 TTTTCTATCCATTCAA
*
54917003 TTTTCTTTCCA
1 TTTTCTATCCA
54917014 CCCTACCGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTCTATCCATTCAA
Found at i:54920387 original size:20 final size:20
Alignment explanation
Indices: 54920359--54920396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54920349 GGCTATTACA
*
54920359 TCCAGTTCTACCAATACAAG
1 TCCACTTCTACCAATACAAG
*
54920379 TCCACTTCTACCCATACA
1 TCCACTTCTACCAATACA
54920397 TCTTGTGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (20 bp):
TCCACTTCTACCAATACAAG
Found at i:54922351 original size:10 final size:10
Alignment explanation
Indices: 54922333--54922361 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
54922323 TTAGTTTTGC
54922333 AAAAA-AAAA
1 AAAAATAAAA
54922342 AAAAATAAAA
1 AAAAATAAAA
54922352 AAAAATAAAA
1 AAAAATAAAA
54922362 TGGACTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:54922353 original size:15 final size:15
Alignment explanation
Indices: 54922333--54922362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54922323 TTAGTTTTGC
54922333 AAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAT
*
54922348 AAAAAAAAATAAAAT
1 AAAAAAAAAAAAAAT
54922363 GGACTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAAAAAT
Done.