Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1420948
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:731836 original size:16 final size:15
Alignment explanation
Indices: 731781--731833 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
731771 TTTTATAAAA
*
731781 ATAATAATATAATAAT
1 ATAATAA-AAAATAAT
*
731797 AATGAATAAAAAATGAAA
1 -AT-AATAAAAAAT-AAT
731815 ATAATAAAAAATAAT
1 ATAATAAAAAATAAT
731830 ATAA
1 ATAA
731834 ATATATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.19
16 10 0.32
17 8 0.26
18 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (15 bp):
ATAATAAAAAATAAT
Found at i:732106 original size:18 final size:17
Alignment explanation
Indices: 732083--732125 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
732073 ATATATACAT
732083 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
732101 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
732118 ATAA-AATA
1 ATAATAATA
732126 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:732533 original size:37 final size:37
Alignment explanation
Indices: 732483--732587 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
732473 GTTCTTGTGG
* * * *
732483 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
732520 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
732557 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
732588 GACAAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:733426 original size:105 final size:105
Alignment explanation
Indices: 733130--733760 Score: 851
Period size: 105 Copynumber: 6.0 Consensus size: 105
733120 GCATTGTTCC
* * * * ** *
733130 GAGTCAAATATCCTCCGTCGTGAAGTTGAAATTAGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
733194 ACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
733236 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT-A-AAT--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
733296 CAGCGGTCTCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
733336 GAGTACAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
733401 TAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
733441 GAGTCCAACATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
733506 CGGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
733546 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
733611 CAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
733651 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTT-GTTGTTGACAA
* ** * * * * *
733716 CCAGCCATCCCTTCATTGTGAAGTTAAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
733757 GAGT
1 GAGT
733761 GTCACGATAT
Statistics
Matches: 474, Mismatches: 44, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
100 80 0.17
101 1 0.00
102 8 0.02
104 6 0.01
105 300 0.63
106 79 0.17
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:734007 original size:36 final size:36
Alignment explanation
Indices: 733960--734035 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
733950 TGTTTGGAGA
* * *
733960 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
733996 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
734032 GAAA
1 GAAA
734036 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:734156 original size:106 final size:105
Alignment explanation
Indices: 733937--734254 Score: 493
Period size: 106 Copynumber: 3.1 Consensus size: 105
733927 CGTTAAATTA
* ** *
733937 TTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGGAA
1 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAA
* *
733999 ACTATCTCA-AGCGAGATAAAATTCATTTCAAGGGAAATG
66 ACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAATG
734038 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAA
1 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAA
* *
734103 ACTATATCAAGAGAGAGAAAAAAATCATTTCAAGGGAAATG
66 ACTATCTC-AGAGAGAGAAAAAATTCATTTCAAGGGAAATG
*
734144 TTTTTAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAA
1 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAA
*
734209 ACTATCTCAG-GAGAGAAAAAATTAATTTCAAGGGAAATG
66 ACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAATG
*
734248 CTTTCAA
1 TTTTCAA
734255 GAGAAACTGT
Statistics
Matches: 198, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
101 44 0.22
103 3 0.02
104 50 0.25
105 3 0.02
106 98 0.49
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (105 bp):
TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAA
ACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAATG
Found at i:734211 original size:39 final size:39
Alignment explanation
Indices: 734157--734231 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
734147 TTAATGTTTA
* *
734157 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
734196 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
734232 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:734430 original size:36 final size:36
Alignment explanation
Indices: 734385--734499 Score: 117
Period size: 36 Copynumber: 3.2 Consensus size: 36
734375 GATCTCAAGA
*
734385 GAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* * ** **
734421 GAAATAAATCTTCTTTCGAGAAAAACAATCTCAAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* *
734457 GAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTGAGT
1 GAGATAAA-TCTTGTTTTAAGAAAAAC-AATCTTGAGT
734493 GAGATAA
1 GAGATAA
734500 TCATCTGCAT
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
36 57 0.93
37 4 0.07
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (36 bp):
GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
Found at i:734461 original size:72 final size:75
Alignment explanation
Indices: 734338--734499 Score: 208
Period size: 72 Copynumber: 2.2 Consensus size: 75
734328 AAAAAATAGC
* * * *
734338 CTTGAGTGAAATGAAATGCCTTCTTTTGAGTGAAAACGATCTCAAGAGAGACAAA-TCTTGTTTT
1 CTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAATCTCAAGAGAGACAAAGT-ATGTTTT
734402 AAGAAAAAC-AAT
63 AAGAAAAACAAAT
*
734414 CTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAATCTCAAGTGAGACAAAGTATGTTTTAAG
1 CTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAATCTCAAGAGAGACAAAGTATGTTTTAAG
734477 AAAAACAAAT
66 AAAAACAAAT
*
734487 -TTGAGTGAGATAA
1 CTTGAGTGAAATAA
734500 TCATCTGCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
72 48 0.62
73 14 0.18
75 4 0.05
76 12 0.15
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (75 bp):
CTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAATCTCAAGAGAGACAAAGTATGTTTTAAG
AAAAACAAAT
Found at i:735992 original size:181 final size:182
Alignment explanation
Indices: 735640--736174 Score: 939
Period size: 181 Copynumber: 2.9 Consensus size: 182
735630 ATTAGGTTTA
* *
735640 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTAGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* **
735705 GCCAAGTGTCTGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGC-ATGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
735769 TTCCTCTATAACCAATTGCCTTAGTGTAATAGCTCAGCTTTAGAGGGACAAATC
129 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
735823 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
735888 GCCAAGTGTCCGAGCA-GTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
66 GCCAAGTGTCCGAGCATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
*
735952 CCTTTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
736004 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAATGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
736069 GCCAAGTGTCCGAGAAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCA-TGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
736134 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
736175 CGGATTTAAT
Statistics
Matches: 337, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
181 172 0.51
182 2 0.01
183 163 0.48
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (182 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:739710 original size:19 final size:19
Alignment explanation
Indices: 739677--739713 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
739667 TGCAGATGAT
739677 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
739696 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
739714 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:740891 original size:2 final size:2
Alignment explanation
Indices: 740875--740915 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
740865 AAAGAAAAAA
*
740875 AT AT A- AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
740916 CAAAGTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:740955 original size:37 final size:36
Alignment explanation
Indices: 740903--740977 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 36
740893 TATATATATA
*
740903 TATATATATATATCAAAGTA-TTAATAAATA-AATAAGC
1 TATATATATACATCAAA-TACTTAA-AAATAGAA-AAGC
740940 TATATATATACATCAAATACTTAAAAATAGAAAAGC
1 TATATATATACATCAAATACTTAAAAATAGAAAAGC
740976 TA
1 TA
740978 CCCTCCTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (36 bp):
TATATATATACATCAAATACTTAAAAATAGAAAAGC
Found at i:741114 original size:3 final size:3
Alignment explanation
Indices: 741108--741159 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
741098 TTTAAAAAAA
* *
741108 AAT AAT AAT AAT AAT AAT AAT GAAT AA- AAA AAT GAA- AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT
741153 AAT AAT A
1 AAT AAT A
741160 TAAATATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:741122 original size:9 final size:8
Alignment explanation
Indices: 741106--741170 Score: 58
Period size: 9 Copynumber: 7.2 Consensus size: 8
741096 TTTTTAAAAA
741106 AAAATAAT
1 AAAATAAT
741114 AATAATAAT
1 AA-AATAAT
741123 AATAATGAAT
1 AA-AAT-AAT
*
741133 AAAAAAAT
1 AAAATAAT
741141 GAAAATAAT
1 -AAAATAAT
741150 AAAAATAAT
1 -AAAATAAT
741159 ATAAATATAT
1 A-AAATA-AT
741169 AA
1 AA
741171 GTTATAAGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
8 6 0.12
9 35 0.71
10 8 0.16
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
AAAATAAT
Found at i:741443 original size:16 final size:18
Alignment explanation
Indices: 741411--741449 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
741401 ATATACATAT
741411 ATAATAATAACATGAATA
1 ATAATAATAACATGAATA
741429 ATAA-AATAA-ATGAATA
1 ATAATAATAACATGAATA
741445 A-AATA
1 ATAATA
741450 TCCATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 9 0.45
17 5 0.25
18 4 0.20
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAATAACATGAATA
Found at i:741856 original size:37 final size:37
Alignment explanation
Indices: 741806--741910 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
741796 GTGCTTGTGG
* * * *
741806 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
741843 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
741880 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
741911 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:743229 original size:20 final size:20
Alignment explanation
Indices: 743206--743243 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
743196 CGCGTTGTGA
* *
743206 TTTTTGTGTTGCGAATTTCG
1 TTTTCGTGTTACGAATTTCG
743226 TTTTCGTGTTACGAATTT
1 TTTTCGTGTTACGAATTT
743244 AAGTTTCAAA
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:0.13, C:0.11, G:0.21, T:0.55
Consensus pattern (20 bp):
TTTTCGTGTTACGAATTTCG
Found at i:743740 original size:19 final size:20
Alignment explanation
Indices: 743718--743755 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
743708 AATATTGTGT
743718 TTCGAATT-CAAAAATAAAA
1 TTCGAATTGCAAAAATAAAA
**
743737 TTCGCGTTGCAAAAATAAA
1 TTCGAATTGCAAAAATAAA
743756 CGCGCTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCAAAAATAAAA
Found at i:743801 original size:20 final size:20
Alignment explanation
Indices: 743778--743833 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
743768 ATCTTACTTC
*
743778 TGTGTTGTGAATTACAAATT
1 TGTGTTGCGAATTACAAATT
*
743798 TGTGTTGCGATTTACAAATT
1 TGTGTTGCGAATTACAAATT
* * *
743818 CGCGTTGCGATTTACA
1 TGTGTTGCGAATTACA
743834 TATTCGCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.41
Consensus pattern (20 bp):
TGTGTTGCGAATTACAAATT
Found at i:743838 original size:20 final size:20
Alignment explanation
Indices: 743789--743868 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
743779 GTGTTGTGAA
* *
743789 TTACAAATTTGTGTTGCGAT
1 TTACAAATTCGCGTTGCGAT
743809 TTACAAATTCGCGTTGCGAT
1 TTACAAATTCGCGTTGCGAT
* *
743829 TTACATATTCGCATTGCGAAT
1 TTACAAATTCGCGTTGCG-AT
** *
743850 TTGGAAAATCGCGTTGCGA
1 TTACAAATTCGCGTTGCGA
743869 ATTTGGAAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (20 bp):
TTACAAATTCGCGTTGCGAT
Found at i:743861 original size:21 final size:21
Alignment explanation
Indices: 743837--743877 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
743827 ATTTACATAT
743837 TCGCATTGCGAATTTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
*
743858 TCGCGTTGCGAATTTGGAAA
1 TCGCATTGCGAATTTGGAAA
743878 CTGTGTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGAATTTGGAAAA
Found at i:744774 original size:11 final size:11
Alignment explanation
Indices: 744756--744786 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
744746 TATTTCGTTC
744756 TATTTTTATTT
1 TATTTTTATTT
*
744767 TGTTTTTATTT
1 TATTTTTATTT
744778 TATTTTTAT
1 TATTTTTAT
744787 CATTGATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:749517 original size:29 final size:29
Alignment explanation
Indices: 749436--749504 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
749426 TTAACTGCTA
749436 ACTTTTATTTTATCGCACATTAACCACTG
1 ACTTTTATTTTATCGCACATTAACCACTG
749465 ACTTTTATTTTATCGCACATTAACCACTG
1 ACTTTTATTTTATCGCACATTAACCACTG
749494 ACTTTTATTTT
1 ACTTTTATTTT
749505 CTTTCATTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (29 bp):
ACTTTTATTTTATCGCACATTAACCACTG
Found at i:749682 original size:34 final size:34
Alignment explanation
Indices: 749639--749723 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
749629 GCTAACTTTT
749639 CTAAC-TTTTATTTTATTTGTTCATACTAACATA
1 CTAACATTTTATTTTATTTGTTCATACTAACATA
* * * *
749672 CTAGCTTTTTATTTTCA-TTGTTCTTACTAACTTA
1 CTAACATTTTATTTT-ATTTGTTCATACTAACATA
749706 CTAACATTTTATTTTATT
1 CTAACATTTTATTTTATT
749724 GCACAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 5 0.11
34 38 0.86
35 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.04, T:0.55
Consensus pattern (34 bp):
CTAACATTTTATTTTATTTGTTCATACTAACATA
Found at i:749856 original size:201 final size:199
Alignment explanation
Indices: 749639--750048 Score: 617
Period size: 201 Copynumber: 2.1 Consensus size: 199
749629 GCTAACTTTT
* * *
749639 CTAACTTTTATTTTATTTGTTCATACTAACATACTAGCTTTTTATTTTCATTGTTCTTACTAACT
1 CTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTCATTGTTCTTACTAACT
* **
749704 TACTAACATTTTATTTTATTGCACAAACTAACCCAC-AAGTTTTCTAACATTTGAATATTCAACG
66 TACTAACATTTTATTTTATTGCACAAACTAACCCACTAA-CTTTCTAACATTCAAATATTCAACG
* * * ** *
749768 ACTTTG-AGGTGACCTGCCCTGGGGGATGATCCACATTATTTATGGTTTGGGTTAAACGGTTAAA
130 ACCTTGCA-ATGACCTGCCCTGGGGGACGATCCACATTATTTATGGTCCGAGTTAAACGGTTAAA
*
749832 AACACCCC
194 AA-A-ACC
*
749840 CTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTTATTGTTCTTACTAACT
1 CTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTCATTGTTCTTACTAACT
* *
749905 TACTAATATTTTATTTTATTGCACAAACTAACCCGCTAACTTTCTAACATTCAAATATTCAACGA
66 TACTAACATTTTATTTTATTGCACAAACTAACCCACTAACTTTCTAACATTCAAATATTCAACGA
*
749970 CCTTGCAATGACCTGCCCTGGGGGACGATCCACATTATTTATGGTCCGAGTTAAATGGTTAAAAA
131 CCTTGCAATGACCTGCCCTGGGGGACGATCCACATTATTTATGGTCCGAGTTAAACGGTTAAAAA
750035 AACC
196 AACC
750039 CTAACTTTTA
1 CTAACTTTTA
750049 AATTTATGCA
Statistics
Matches: 190, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
199 12 0.06
200 1 0.01
201 174 0.92
202 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (199 bp):
CTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTCATTGTTCTTACTAACT
TACTAACATTTTATTTTATTGCACAAACTAACCCACTAACTTTCTAACATTCAAATATTCAACGA
CCTTGCAATGACCTGCCCTGGGGGACGATCCACATTATTTATGGTCCGAGTTAAACGGTTAAAAA
AACC
Found at i:749901 original size:34 final size:33
Alignment explanation
Indices: 749840--749924 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
749830 AAAACACCCC
749840 CTAACTTTTATTTTATTTATTCATACTAACATA
1 CTAACTTTTATTTTATTTATTCATACTAACATA
* * *
749873 CTAACTTTTCATTTT-TATTGTTCTTACTAACTTA
1 CTAACTTTT-ATTTTAT-TTATTCATACTAACATA
*
749907 CTAATATTTTATTTTATT
1 CTAA-CTTTTATTTTATT
749925 GCACAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 10 0.23
34 29 0.66
35 5 0.11
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.56
Consensus pattern (33 bp):
CTAACTTTTATTTTATTTATTCATACTAACATA
Found at i:750082 original size:18 final size:17
Alignment explanation
Indices: 750059--750094 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
750049 AATTTATGCA
750059 ATTTATTTATGTTTATTT
1 ATTTATTTAT-TTTATTT
750077 ATTTATTTATTTTATTT
1 ATTTATTTATTTTATTT
750094 A
1 A
750095 CTTTCCAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
ATTTATTTATTTTATTT
Found at i:750695 original size:16 final size:15
Alignment explanation
Indices: 750661--750713 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
750651 TTGTTTTACT
*
750661 TTTTTATCTTATTAT-
1 TTTTTAT-TTATTCTA
750676 TTTTTATTTCATTCTA
1 TTTTTATTT-ATTCTA
*
750692 TTTTTATTTATTTTA
1 TTTTTATTTATTCTA
750707 TTTTTAT
1 TTTTTAT
750714 CGTTGATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 2 0.06
15 23 0.68
16 9 0.26
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATTTATTCTA
Found at i:758645 original size:26 final size:26
Alignment explanation
Indices: 758616--758684 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
758606 TAAATTTTAA
* * *
758616 AAATATCTTTTATTTTTTTATTTATT
1 AAATATATTTTATTTTTTAACTTATT
*
758642 AAATATATTTT-TTGTCTTAACTTATT
1 AAATATATTTTATT-TTTTAACTTATT
*
758668 AAATAGATTTTATTTTT
1 AAATATATTTTATTTTT
758685 ATTTTAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.06
26 31 0.89
27 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (26 bp):
AAATATATTTTATTTTTTAACTTATT
Found at i:758768 original size:29 final size:29
Alignment explanation
Indices: 758733--758799 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
758723 ATTTAAGGTA
758733 TTTTAAAAGTATCTTA-TTATTTT-TTAAC
1 TTTTAAAA-TATCTTATTTATTTTCTTAAC
* *
758761 TTATTAAATATATTTTATTTTTTTTCTTAAC
1 TT-TTAAA-ATATCTTATTTATTTTCTTAAC
758792 TTTTAAAA
1 TTTTAAAA
758800 ATATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 12 0.36
30 12 0.36
31 7 0.21
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTAAAATATCTTATTTATTTTCTTAAC
Found at i:758884 original size:13 final size:13
Alignment explanation
Indices: 758868--758892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
758858 AATACAAAAA
758868 TAAAATATATTTT
1 TAAAATATATTTT
758881 TAAAATATATTT
1 TAAAATATATTT
758893 AATAAGTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAATATATTTT
Found at i:758912 original size:43 final size:40
Alignment explanation
Indices: 758843--758921 Score: 113
Period size: 43 Copynumber: 1.9 Consensus size: 40
758833 TTAAGAATAC
* *
758843 AATATATTTTAATTTAATACAAAAATAAAATATATTTTTAA
1 AATATATTTTAAGTTAAGACAAAAATAAAA-ATATTTTTAA
758884 AATATATTTAATAAGTTAAGACAAAAATAAAAATATTT
1 AATATATTT--TAAGTTAAGACAAAAATAAAAATATTT
758922 AATAAGCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 9 0.26
42 6 0.18
43 19 0.56
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (40 bp):
AATATATTTTAAGTTAAGACAAAAATAAAAATATTTTTAA
Found at i:758922 original size:29 final size:30
Alignment explanation
Indices: 758881--758989 Score: 170
Period size: 28 Copynumber: 3.7 Consensus size: 30
758871 AATATATTTT
*
758881 TAAAATATATTTAATAAGTTAAGACAAAAA
1 TAAAATATATTTAATAAGTTAAGATAAAAA
*
758911 TAAAA-ATATTTAATAAGCTAAGATAAAAA
1 TAAAATATATTTAATAAGTTAAGATAAAAA
*
758940 T-AAA-ATATTTAATAAATTAAGATAAAAA
1 TAAAATATATTTAATAAGTTAAGATAAAAA
758968 TAAAATATATTTAATAAGTTAA
1 TAAAATATATTTAATAAGTTAA
758990 AAAAGATATT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
28 26 0.36
29 26 0.36
30 20 0.28
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (30 bp):
TAAAATATATTTAATAAGTTAAGATAAAAA
Found at i:761725 original size:20 final size:20
Alignment explanation
Indices: 761700--761737 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
761690 ACTTCATTTT
*
761700 TTTTATTCTTAGTGCTATTA
1 TTTTATTCATAGTGCTATTA
761720 TTTTATTCATAGTGCTAT
1 TTTTATTCATAGTGCTAT
761738 AAGTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
TTTTATTCATAGTGCTATTA
Found at i:762118 original size:29 final size:30
Alignment explanation
Indices: 762072--762164 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 30
762062 ATTTAATTTT
762072 AAATA-AAATTATATATAATCATTAATA-AAA
1 AAATATAAATTATATATAAT--TTAATATAAA
762102 AAATATAAATTA-A-ATAATTTAATATAAA
1 AAATATAAATTATATATAATTTAATATAAA
*
762130 AATTATTAAATTAT-TA-AA-TTAATTATAAA
1 AAATA-TAAATTATATATAATTTAA-TATAAA
*
762159 TAATAT
1 AAATAT
762165 TATATTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
27 6 0.11
28 12 0.22
29 23 0.43
30 7 0.13
31 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATATAAATTATATATAATTTAATATAAA
Found at i:764870 original size:11 final size:11
Alignment explanation
Indices: 764854--764883 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
764844 AAATAAGAGC
764854 GTATACTTTTT
1 GTATACTTTTT
764865 GTATACTTTTT
1 GTATACTTTTT
*
764876 GTCTACTT
1 GTATACTT
764884 AAAGAAACCC
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:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (11 bp):
GTATACTTTTT
Found at i:769096 original size:19 final size:19
Alignment explanation
Indices: 769072--769110 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
769062 TCGAATGCAT
769072 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
769091 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
769110 T
1 T
769111 GAATACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:769235 original size:64 final size:65
Alignment explanation
Indices: 769058--769220 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
769048 GAATTAATTG
* * * *
769058 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATACTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTCAA
* ** ** *
769123 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-CTTTCA
769186 A
65 A
769187 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
769221 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTCAA
Found at i:776662 original size:19 final size:19
Alignment explanation
Indices: 776618--776669 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
776608 AATTAATTGA
776618 ACATCGAATGCA-T-TCCAT
1 ACATCG-ATGCACTCTCCAT
*
776636 ACACCGATGCACTCTCCAT
1 ACATCGATGCACTCTCCAT
*
776655 GCATCGATGCACTCT
1 ACATCGATGCACTCT
776670 GAATACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 6 0.21
19 18 0.62
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.25
Consensus pattern (19 bp):
ACATCGATGCACTCTCCAT
Found at i:776709 original size:65 final size:63
Alignment explanation
Indices: 776617--776777 Score: 164
Period size: 65 Copynumber: 2.5 Consensus size: 63
776607 GAATTAATTG
* * * *** *
776617 AACATCGAATGCATTCCATACACCGATGCACTCTCCATGCATCGATGCACTCTGAA-TA-CTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCAC-C--AACTATCTTTC
776680 AA
63 -A
* * * *
776682 AACATTGAATGCATTTGATGCATCGATGTACAAGCCATACATCGATGCACCAAGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACCAA-CTATCTTTCA
776746 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
776778 CTTGGTGCAC
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
62 2 0.03
64 33 0.42
65 44 0.56
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACCAACTATCTTTCA
Found at i:787951 original size:29 final size:30
Alignment explanation
Indices: 787907--787982 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
787897 TCAAAAAACA
*
787907 TAAG-TTTAGTCACTTACATTAT-TGTTAT
1 TAAGTTTTGGTCACTTACATTATATGTTAT
* * * *
787935 TATGTTTTGGTCACTTACGTTATAGTTTTGT
1 TAAGTTTTGGTCACTTACATTATA-TGTTAT
787966 TAAGTTTTGGTCACTTA
1 TAAGTTTTGGTCACTTA
787983 GACGTTGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 3 0.08
29 16 0.41
31 20 0.51
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (30 bp):
TAAGTTTTGGTCACTTACATTATATGTTAT
Found at i:788003 original size:31 final size:30
Alignment explanation
Indices: 787915--788003 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 30
787905 CATAAGTTTA
* *
787915 GTCACTTACATTAT--TGTTATTATGTTTTG
1 GTCACTTACGTTATAGTGTTGTTA-GTTTTG
*
787944 GTCACTTACGTTATAGTTTTGTTAAGTTTTG
1 GTCACTTACGTTATAGTGTTGTT-AGTTTTG
787975 GTCACTTAGACGTTGA-A-TGTTGTTAGTTT
1 GTCACTT--ACGTT-ATAGTGTTGTTAGTTT
788004 GATGACGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
29 13 0.26
31 23 0.46
32 7 0.14
33 6 0.12
34 1 0.02
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.51
Consensus pattern (30 bp):
GTCACTTACGTTATAGTGTTGTTAGTTTTG
Found at i:789603 original size:21 final size:21
Alignment explanation
Indices: 789554--789617 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
789544 CATATGAAAT
* *
789554 TTGTCCAGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
789575 TATGTCCCGAAGGACTTATGAA
1 T-TGTCCCGAAGGACCTATGAA
789597 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
789618 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:791988 original size:104 final size:105
Alignment explanation
Indices: 791862--792075 Score: 281
Period size: 104 Copynumber: 2.0 Consensus size: 105
791852 GCACAATTAA
* * * * *
791862 AATATAAATTTTGATGAATTTGTTT-GACACTAAAAATATATTTTATGACCATCAATATTGTCAC
1 AATAGAAATTGTGATAAATTTGTTTAG-CACTAAAAATATATTTTATAACCACCAATATTGTCAC
791926 ACTAA-GTATTTTTAGTGATCAAATAG-TCGATACTATTATC
65 ACTAAGGTATTTTTAGTGATCAAAT-GTTCGATACTATTATC
* * * * *
791966 AATAGAAATTGTGATAAATTTGTTTAGTACTGAAAGTATATTTTGTAACCACCAATGTTGTCACA
1 AATAGAAATTGTGATAAATTTGTTTAGCACTAAAAATATATTTTATAACCACCAATATTGTCACA
*
792031 CTAAGTGTTTTTTTAGTGATCAAATGTTCGATACTATTATC
66 CTAAG-GTATTTTTAGTGATCAAATGTTCGATACTATTATC
792072 AATA
1 AATA
792076 ACTTCATCAC
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
104 57 0.60
105 2 0.02
106 36 0.38
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (105 bp):
AATAGAAATTGTGATAAATTTGTTTAGCACTAAAAATATATTTTATAACCACCAATATTGTCACA
CTAAGGTATTTTTAGTGATCAAATGTTCGATACTATTATC
Found at i:792835 original size:22 final size:20
Alignment explanation
Indices: 792810--792849 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
792800 TAGGTTGATT
792810 TTAAAATTTAATCAAATAAATA
1 TTAAAATTTAA--AAATAAATA
*
792832 TTAAGATTTAAAAATAAA
1 TTAAAATTTAAAAATAAA
792850 AATACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
TTAAAATTTAAAAATAAATA
Found at i:793132 original size:12 final size:12
Alignment explanation
Indices: 793115--793199 Score: 61
Period size: 12 Copynumber: 7.3 Consensus size: 12
793105 TTAGCTAATG
793115 AAAATAAAATTT
1 AAAATAAAATTT
* **
793127 AAAATAATATAA
1 AAAATAAAATTT
793139 AAAAT-AAATTT
1 AAAATAAAATTT
** *
793150 AAAAGTTTAA-TG
1 AAAA-TAAAATTT
793162 AAAATAAAATTT
1 AAAATAAAATTT
* *
793174 AAAATAATA-TA
1 AAAATAAAATTT
793185 AAAAT-AAATTT
1 AAAATAAAATTT
793196 AAAA
1 AAAA
793200 GTTTAAGGTA
Statistics
Matches: 54, Mismatches: 15, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
10 2 0.04
11 21 0.39
12 29 0.54
13 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAAATAAAATTT
Found at i:793147 original size:23 final size:24
Alignment explanation
Indices: 793115--793199 Score: 101
Period size: 23 Copynumber: 3.7 Consensus size: 24
793105 TTAGCTAATG
793115 AAAATAAAATTTAAAATAATATAA
1 AAAATAAAATTTAAAATAATATAA
793139 AAAAT-AAATTTAAAAGT--T-TAA
1 AAAATAAAATTTAAAA-TAATATAA
793160 TGAAAATAAAATTTAAAATAATAT-A
1 --AAAATAAAATTTAAAATAATATAA
793185 AAAAT-AAATTTAAAA
1 AAAATAAAATTTAAAA
793200 GTTTAAGGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.06
22 11 0.20
23 21 0.39
24 16 0.30
25 2 0.04
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATAAAATTTAAAATAATATAA
Found at i:793205 original size:46 final size:47
Alignment explanation
Indices: 793110--793205 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
793100 TTTATTTAGC
793110 TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
1 TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
793157 TAATGAAAATAAAATTTAAAATAATAT-AAAAATAAATTTAAAAGTT
1 TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
793203 TAA
1 TAA
793206 GGTAATTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 22 0.45
47 27 0.55
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (47 bp):
TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
Found at i:793522 original size:3 final size:3
Alignment explanation
Indices: 793516--793596 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
793506 TTTATCGCAA
793516 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
793564 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
793597 TGGTCACAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:798381 original size:41 final size:41
Alignment explanation
Indices: 798333--798424 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
798323 TTTTTTAAAC
* * * *
798333 GCCGCTAAATATAATAATTTTTAGTGGCATTGTT-TAAAAAT
1 GCCGCTAAAGATAATAATATTTAGCGACATT-TTGTAAAAAT
* * *
798374 GCCGCTAAAGGTAATGATATTTAGCGACATTTTGTTAAAAT
1 GCCGCTAAAGATAATAATATTTAGCGACATTTTGTAAAAAT
798415 GCCGCTAAAG
1 GCCGCTAAAG
798425 GTTATGAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.05
41 41 0.95
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (41 bp):
GCCGCTAAAGATAATAATATTTAGCGACATTTTGTAAAAAT
Found at i:798425 original size:41 final size:41
Alignment explanation
Indices: 798369--798482 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 41
798359 GCATTGTTTA
798369 AAAATGCCGCTAAAGGTAATGATATTTAGCGACATTTTGT-T
1 AAAATGCCGCTAAAGGT-ATGATATTTAGCGACATTTTGTCT
* * * * *
798410 AAAATGCCGCTAAAGGTTATGAAAGTTGGCGGCATTTTTTCT
1 AAAATGCCGCTAAAGG-TATGATATTTAGCGACATTTTGTCT
* * *
798452 CAAACGCCGCTAAAGGGTATGTTATTTAGCG
1 AAAATGCCGCTAAA-GGTATGATATTTAGCG
798483 GGCTATTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
41 33 0.56
42 24 0.41
43 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (41 bp):
AAAATGCCGCTAAAGGTATGATATTTAGCGACATTTTGTCT
Found at i:801285 original size:41 final size:41
Alignment explanation
Indices: 801200--801455 Score: 248
Period size: 41 Copynumber: 6.3 Consensus size: 41
801190 ATTTGTAAGT
* *** *
801200 GCCACTAAA-TACGAGTCTATAGCGGCATTTGTATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGTGATGTTTATATAAAAAC
* * * *
801240 GCCACTAAATTATGAGTATATA-TCGATGTTTATATAAAAAT
1 GCCACTAAAGTACGAGTCTATAGT-GATGTTTATATAAAAAC
*
801281 GCCACTAAAGTACGAGTCTATAGTG-TCGTTTACATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGTGAT-GTTTATATAAAAAC
* * *** * *
801322 GCCACTAAAGTACAAGACTATAGTGGCATTTGTGTAAAAAC
1 GCCACTAAAGTACGAGTCTATAGTGATGTTTATATAAAAAC
* * ** *
801363 GCCACTAAATTATGAGTCTATAACGACGTTTATATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGTGATGTTTATATAAAAAC
* *
801404 GCCACTAAAGTAAGAGTCTATAGTGATGTTTGTATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGTGATGTTTATATAAAAAC
*
801445 GCCACTTAAGT
1 GCCACTAAAGT
801456 TATTCTTTTT
Statistics
Matches: 174, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
40 10 0.06
41 163 0.94
42 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (41 bp):
GCCACTAAAGTACGAGTCTATAGTGATGTTTATATAAAAAC
Found at i:801300 original size:82 final size:82
Alignment explanation
Indices: 801200--801455 Score: 286
Period size: 82 Copynumber: 3.1 Consensus size: 82
801190 ATTTGTAAGT
* * * * *
801200 GCCACTAAA-TACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTATATA-T
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTAAGAGTATATAGT
* *
801263 CGATGTTTATATAAAAAT
66 -GATGTTTGTATAAAAAC
* * *
801281 GCCACTAAAGTACGAGTCTATAGTGTCGTTTACATAAAAACGCCACTAAAGTACA-AG-ACTATA
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTA-AGAGTA-TATA
*** *
801344 GTGGCATTTGTGTAAAAAC
64 GTGATGTTTGTATAAAAAC
* * * *
801363 GCCACTAAATTATGAGTCTATAACGACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGT
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTAAGAGTATATAGT
801428 GATGTTTGTATAAAAAC
66 GATGTTTGTATAAAAAC
*
801445 GCCACTTAAGT
1 GCCACTAAAGT
801456 TATTCTTTTT
Statistics
Matches: 143, Mismatches: 26, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
81 11 0.08
82 131 0.92
83 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (82 bp):
GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTAAGAGTATATAGT
GATGTTTGTATAAAAAC
Found at i:801371 original size:123 final size:123
Alignment explanation
Indices: 801200--801455 Score: 381
Period size: 123 Copynumber: 2.1 Consensus size: 123
801190 ATTTGTAAGT
* * *
801200 GCCACTAAA-TACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTATATATC
1 GCCACTAAAGTACAAGACTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTATATAAC
* * *
801264 GATGTTTATATAAAAATGCCACTAAAGTACGAGTCTATAGTG-TCGTTTACATAAAAAC
66 GACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGTGAT-GTTTACATAAAAAC
* * *
801322 GCCACTAAAGTACAAGACTATAGTGGCATTTGTGTAAAAACGCCACTAAATTATGAGTCTATAAC
1 GCCACTAAAGTACAAGACTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTATATAAC
**
801387 GACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGTGATGTTTGTATAAAAAC
66 GACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGTGATGTTTACATAAAAAC
*
801445 GCCACTTAAGT
1 GCCACTAAAGT
801456 TATTCTTTTT
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 9 0.08
123 110 0.92
124 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (123 bp):
GCCACTAAAGTACAAGACTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTATATAAC
GACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGTGATGTTTACATAAAAAC
Found at i:802004 original size:6 final size:6
Alignment explanation
Indices: 801993--802020 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
801983 GAATAGAACC
801993 ATCGTT ATCGTT ATCGTT ATCGTT ATCG
1 ATCGTT ATCGTT ATCGTT ATCGTT ATCG
802021 ATTACTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (6 bp):
ATCGTT
Found at i:802152 original size:18 final size:18
Alignment explanation
Indices: 802129--802170 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
802119 CGAAATGTAG
*
802129 GATTACCGGCGGGAATAA
1 GATTACCAGCGGGAATAA
802147 GATTACCAGCGGGAATAA
1 GATTACCAGCGGGAATAA
802165 GATTAC
1 GATTAC
802171 TGAGAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.19
Consensus pattern (18 bp):
GATTACCAGCGGGAATAA
Found at i:804004 original size:69 final size:69
Alignment explanation
Indices: 803923--804169 Score: 243
Period size: 71 Copynumber: 3.4 Consensus size: 69
803913 ACAGACATAA
* * * *
803923 TATATAGTATATAATTTTTAAAACACTTTTAAAAACTATATAATATATAGTTTTTAAAACATTTT
1 TATATAATATAT-AGTTTTAAAATATTTTTAAAAA-TATATAATATATAGTTTTTAAAACATTTT
803988 GAAAAC
64 GAAAAC
803994 TATATAATATATAGTTTTTAAAATATTTTTAAAATATATATATAATATATAGTTTTTTAAAAACA
1 TATATAATATATAG-TTTTAAAATATTTTT-AAA-A-ATATATAATATATAG-TTTTT-AAAACA
804059 TTTTG-AAA-
60 TTTTGAAAAC
* *
804067 -A-AT-ATATATAGTTTTAAAATATTTTTTAAAAATATATTATATTATATGGTTTTGAAAAGCAT
1 TATATAATATATAGTTTTAAAATA-TTTTTAAAAATATA-TA-A-TATATAGTTTTTAAAA-CAT
*
804129 TTTTAAAATC
61 TTTGAAAA-C
*
804139 ATATATAAAATATAGTTTTAAAAATATTTTT
1 -TATATAATATATAGTTTT-AAAATATTTTT
804170 TTATTATTTT
Statistics
Matches: 149, Mismatches: 8, Indels: 33
0.78 0.04 0.17
Matches are distributed among these distances:
67 5 0.03
68 7 0.05
69 24 0.16
70 23 0.15
71 26 0.17
72 4 0.03
73 15 0.10
74 10 0.07
75 13 0.09
76 16 0.11
77 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (69 bp):
TATATAATATATAGTTTTAAAATATTTTTAAAAATATATAATATATAGTTTTTAAAACATTTTGA
AAAC
Found at i:804045 original size:38 final size:36
Alignment explanation
Indices: 803921--804169 Score: 217
Period size: 38 Copynumber: 6.9 Consensus size: 36
803911 ATACAGACAT
* * *
803921 AATATATAGTATATAATTTTTAAAACACTTTTAAAA
1 AATATATAATATATAGTTTTTAAAACATTTTTAAAA
* *
803957 ACTATATAATATATAGTTTTTAAAACA-TTTTGAAA
1 AATATATAATATATAGTTTTTAAAACATTTTTAAAA
* *
803992 ACTATATAATATATAGTTTTTAAAATATTTTTAAAA
1 AATATATAATATATAGTTTTTAAAACATTTTTAAAA
*
804028 TATATATATAATATATAGTTTTTTAAAAACA-TTTT--GA
1 -A-ATATATAATATATAG-TTTTT-AAAACATTTTTAAAA
*
804065 AA-A-AT-ATATATAG-TTTTAAAATATTTTTTAAAA
1 AATATATAATATATAGTTTTTAAAACA-TTTTTAAAA
* * *
804098 ATATATTATATTATATGGTTTTGAAAAGCATTTTTAAAA
1 A-ATA-TATAATATATAGTTTTTAAAA-CATTTTTAAAA
* * * *
804137 TCATATATAAAATATAGTTTTAAAAATATTTTT
1 -AATATATAATATATAGTTTTTAAAACATTTTT
804170 TTATTATTTT
Statistics
Matches: 175, Mismatches: 21, Indels: 33
0.76 0.09 0.14
Matches are distributed among these distances:
29 5 0.03
30 4 0.02
31 4 0.02
32 8 0.05
33 4 0.02
34 2 0.01
35 35 0.20
36 32 0.18
37 10 0.06
38 37 0.21
39 28 0.16
40 6 0.03
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (36 bp):
AATATATAATATATAGTTTTTAAAACATTTTTAAAA
Found at i:804082 original size:30 final size:31
Alignment explanation
Indices: 804038--804103 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
804028 TATATATATA
804038 ATATATAGTTTTTTAAAA-ACATTTTGAAAAAT
1 ATATATAG-TTTTTAAAATA-ATTTTGAAAAAT
* *
804070 ATATATAG-TTTTAAAATATTTTTTAAAAAT
1 ATATATAGTTTTTAAAATAATTTTGAAAAAT
804100 ATAT
1 ATAT
804104 TATATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 22 0.71
31 1 0.03
32 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATATAGTTTTTAAAATAATTTTGAAAAAT
Found at i:804212 original size:20 final size:19
Alignment explanation
Indices: 804170--804213 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
804160 AAATATTTTT
* * *
804170 TTATTATTTTATTTATTTT
1 TTATTATTCTATTTAATTG
804189 TTATTATTACTATTTAATTG
1 TTATTATT-CTATTTAATTG
804209 TTATT
1 TTATT
804214 TTTTTTCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTATTATTCTATTTAATTG
Found at i:805245 original size:27 final size:27
Alignment explanation
Indices: 805181--805250 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
805171 CCGTTTTTAT
*
805181 TTTATTTTATTATTGTTTTTTTCCTCA
1 TTTATTTTATTATTATTTTTTTCCTCA
** *
805208 -TTAGTACTATTGTTATTTTTTT-CTCTA
1 TTTA-TTTTATTATTATTTTTTTCCTC-A
805235 TTTATTTTATTATTAT
1 TTTATTTTATTATTAT
805251 CACGATATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
26 6 0.18
27 24 0.73
28 3 0.09
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTATTTTATTATTATTTTTTTCCTCA
Found at i:805277 original size:16 final size:17
Alignment explanation
Indices: 805258--805302 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
805248 TATCACGATA
805258 TTTATTTATTTTATA-T
1 TTTATTTATTTTATACT
* *
805274 TTTATATATTTTTTACT
1 TTTATTTATTTTATACT
805291 TTTATTTATTTT
1 TTTATTTATTTT
805303 CTTTTGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTTATACT
Found at i:805307 original size:22 final size:22
Alignment explanation
Indices: 805283--805325 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
805273 TTTTATATAT
*
805283 TTTTTACTT-TTATTTATTTTC
1 TTTTGACTTCTTATTTATTTTC
*
805304 TTTTGACTTCTTTTTTATTTTC
1 TTTTGACTTCTTATTTATTTTC
805326 CTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTGACTTCTTATTTATTTTC
Found at i:808332 original size:97 final size:95
Alignment explanation
Indices: 808077--808336 Score: 324
Period size: 95 Copynumber: 2.7 Consensus size: 95
808067 ATTATATATA
* * * * * * * *
808077 TATATATATACAATAAAGCTTGAGCTGTCACTATAAAACAATTGGTTAAACGCCCCCGCTTTATG
1 TATA-ATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
*
808142 GATAAGATTCATCTAGCCTAATAAAGGTGAT
65 GATAAGATTCAGCTAGCCTAATAAAGGTGAT
* * *
808173 TATAATATACAATAAAGATTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCTCCGGCTTTATGG
1 TATAATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
* * *
808238 TTAATATTCAGCTAGCCTAATAATGGTGAT
66 ATAAGATTCAGCTAGCCTAATAAAGGTGAT
* *
808268 TATAATAT-CTATACAATGATATAAGTTGTCCCTCTAGAGTAATTGGTTAAACGCCCCGGCTTTA
1 TATAATATACAATA-AA-GAT-TAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
808332 TGGAT
63 TGGAT
808337 TCAGCTAGCC
Statistics
Matches: 142, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
94 4 0.03
95 88 0.62
96 7 0.05
97 43 0.30
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
TATAATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
ATAAGATTCAGCTAGCCTAATAAAGGTGAT
Found at i:809603 original size:84 final size:84
Alignment explanation
Indices: 809462--810448 Score: 1230
Period size: 84 Copynumber: 11.8 Consensus size: 84
809452 TTCTAAAGAA
* * * * * *
809462 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
809527 ACGCTCAGCTCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * *
809546 ATCATTTACAGCATAATTCAAGGCTAGAAGGGTTATTTGCCAACCAAATACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* *
809611 AAGCTCAGCTTCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * * * **
809630 ATTATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAATAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
*
809695 ACGCTCAGCTCAAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* *
809714 ATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
809779 ACGCTCAGCTCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * * *
809798 ATCATTTGCAACATAGCTCAAGG-AAGGAAGGGCTAAT-TGCCAACAAAAGACCTTCGAGTTCGA
1 ATCATTTGCAGCATAACTCAAGGCTA-GAAGGG-TTATCTGCCAACCAAAGACCTTCGAGTTCGA
809861 CTACGCTCAGCTCCAAGGCAC
64 CTACGCTCAGCTCCAAGGCAC
* * * * *
809882 ATTATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAATT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* *
809947 ACACTCAGCTCAAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * * * ** * *
809966 AACATTTGCAGCATAGCTCAAGACGAGAATGACTATCTGCCAACAAAAGACCTTCAAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
**
810031 ACGCTCAGCTCCAATACAC
66 ACGCTCAGCTCCAAGGCAC
*
810050 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACTAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* *
810115 ACGCTCAGCTCCAAGGAAT
66 ACGCTCAGCTCCAAGGCAC
* * * * *
810134 ATCATTTGCAGCATAGCT-TAGGCTAGAAGCGCTATCTGCC-ACCAAAAGAACTTCGAGTTCGAC
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGAC
* * *
810197 TACACTCAACTCCAAGGCAT
65 TACGCTCAGCTCCAAGGCAC
*
810217 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* *
810282 ACGCTCAGCTTCAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
* * *
810301 ATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAA-CAAATGACCTTCGAGTTCGAT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAA-GACCTTCGAGTTCGAC
* ** * *
810365 TCCATTCAGCTCAAAGGCAT
65 TACGCTCAGCTCCAAGGCAC
* * * * *
810385 ATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAGCC-AATACCTTCGAGTTCGA
1 AT-C-ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
810449 TTCCATTCAG
Statistics
Matches: 786, Mismatches: 106, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
82 2 0.00
83 79 0.10
84 644 0.82
85 22 0.03
86 38 0.05
87 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (84 bp):
ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGCAC
Found at i:809743 original size:168 final size:168
Alignment explanation
Indices: 809462--810448 Score: 1363
Period size: 168 Copynumber: 5.9 Consensus size: 168
809452 TTCTAAAGAA
*
809462 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
809527 ACGCTCAGCTCCAAGGCACATCATTTACAGCATAATTCAAGGCTAGAAGGGTTATTTGCCAACCA
66 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCA
* *
809592 AATACCTTCGAGTTCGACTAAGCTCAGCTTCAAGGCAC
131 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCAC
* * * *
809630 ATTATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAATAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
809695 ACGCTCAGCTCAAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCA
66 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCA
*
809760 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
131 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCAC
809798 ATCATTTGCAACATAGCTCAAGG-AAGGAAGGGCTAAT-TGCCAACAAAAGACCTTCGAGTTCGA
1 ATCATTTGCAACATAGCTCAAGGCAA-GAAGGGCT-ATCTGCCAACAAAAGACCTTCGAGTTCGA
* *
809861 CTACGCTCAGCTCCAAGGCACATTATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC
64 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC
* * * *
809926 AAAAGACCTTCGAGTTCAATTACACTCAGC-TCAAAGGCAC
129 CAAAGACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCAC
* * * * * * *
809966 AACATTTGCAGCATAGCTCAAGACGAGAATGACTATCTGCCAACAAAAGACCTTCAAGTTCGACT
1 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACT
** *
810031 ACGCTCAGCTCCAATACACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACTA
66 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCA
* * *
810096 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGAAT
131 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCAC
* * * * * *
810134 ATCATTTGCAGCATAGCT-TAGGCTAGAAGCGCTATCTGCCACCAAAAGAACTTCGAGTTCGACT
1 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * * *
810198 ACACTCAACTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCA
66 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCA
*
810263 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCAT
131 AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCAC
* * * * *
810301 ATCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAATGACCTTCGAGTTCGATT
1 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* ** * * * * * *
810366 CCATTCAGCTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAGC
66 ACGCTCAGCTCCAAGGCACAT-C-ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC
*
810431 C-AATACCTTCGAGTTCGA
129 CAAAGACCTTCGAGTTCGA
810449 TTCCATTCAG
Statistics
Matches: 732, Mismatches: 78, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
167 154 0.21
168 520 0.71
169 21 0.03
170 37 0.05
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (168 bp):
ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCA
AAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCAC
Found at i:810509 original size:85 final size:85
Alignment explanation
Indices: 810184--810509 Score: 230
Period size: 84 Copynumber: 3.9 Consensus size: 85
810174 ACCAAAAGAA
* * * * * * * * *
810184 CTTCGAGTTCGACTACACTCAACTCCAAGGCATATC--ATTTGCAGCATAACTCAAGGCTAGAAG
1 CTTCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAAAAA
* * ** * *
810247 GGTTATCTACCAACCAAAGAC
66 AGCTATCTGTCAGCC-AATAC
* * ** * * *
810268 CTTCGAGTTCGACTACGCTCAGCTTC-AAGGCATATC--ATTTGCAGCATAGCTCAAGGCGAGAA
1 CTTCGAGTTCGATTCCATTCAGC-TCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAAAA
** * * * *
810330 GGGTTATCTGCCAACAAATGAC
65 AAGCTATCTGTCAGCCAAT-AC
* * *
810352 CTTCGAGTTCGATTCCATTCAGCTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAG
1 CTTCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAAAAA
* *
810417 GGTTATCTGTCAGCCAATAC
66 AGCTATCTGTCAGCCAATAC
* * * * * * *
810437 CTTCGAGTTCGATTCCATTCAGCTCAAGGGCGTGTCAAATTTACAGTATAGCTTAAGTCGAAAAA
1 CTTCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAAAAA
810502 AGCTATCT
66 AGCTATCT
810510 AACAAAAAAA
Statistics
Matches: 209, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
83 4 0.02
84 100 0.48
85 65 0.31
86 40 0.19
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (85 bp):
CTTCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAAAAA
AGCTATCTGTCAGCCAATAC
Found at i:810928 original size:23 final size:23
Alignment explanation
Indices: 810897--810949 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
810887 CATCCGCAAC
*
810897 TCAATTCGACAGGGAGTTATTCT
1 TCAACTCGACAGGGAGTTATTCT
810920 TCAACTCGACAGGGAGTTATTCT
1 TCAACTCGACAGGGAGTTATTCT
810943 TCAACTC
1 TCAACTC
810950 CACCGAACGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (23 bp):
TCAACTCGACAGGGAGTTATTCT
Found at i:811127 original size:6 final size:6
Alignment explanation
Indices: 811118--811181 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
811108 ATATGCAAAC
* * * **
811118 TATATG TATATG TATATG CATATG CATATG TATATG CA-AAC TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
811165 TATATG GATATG TATAT
1 TATATG TATATG TATAT
811182 ATACATATAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
5 2 0.04
6 45 0.96
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (6 bp):
TATATG
Found at i:811147 original size:41 final size:41
Alignment explanation
Indices: 811090--811182 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
811080 TATAGTTTGC
*
811090 ATATGCATATACATATGCATATGCAAACTATATGTATATGT
1 ATATGCATATACATATGCATATGCAAACTATATGTATATGG
* *
811131 ATATGCATATGCATATGTATATGCAAACTATATGTATATGG
1 ATATGCATATACATATGCATATGCAAACTATATGTATATGG
*
811172 ATATGTATATA
1 ATATGCATATA
811183 TACATATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (41 bp):
ATATGCATATACATATGCATATGCAAACTATATGTATATGG
Found at i:811189 original size:6 final size:6
Alignment explanation
Indices: 811180--812121 Score: 1786
Period size: 6 Copynumber: 159.3 Consensus size: 6
811170 GGATATGTAT
811180 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811228 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811276 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811324 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811372 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811420 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811468 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811516 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811562 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811608 ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811654 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811702 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811750 ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811796 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811844 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811890 ATATAC ATATAC ATATAC ATATAC ATAT-- ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811936 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
811984 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
812032 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
812078 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC AT
812122 TCCGTTTTTT
Statistics
Matches: 922, Mismatches: 0, Indels: 28
0.97 0.00 0.03
Matches are distributed among these distances:
4 28 0.03
6 894 0.97
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:812349 original size:27 final size:26
Alignment explanation
Indices: 812282--812349 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
812272 TCTAACCGTG
*
812282 TTTATTTTATTATT-GTTTTTCCTCA
1 TTTATTTTATTATTATTTTTTCCTCA
* *
812307 -TTATTATTATTGTTATTTTTTTCTCTA
1 TTTATT-TTATTATTATTTTTTCCTC-A
812334 TTTATTTTATTATTAT
1 TTTATTTTATTATTAT
812350 CACGATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 5 0.14
25 7 0.20
26 8 0.23
27 10 0.29
28 5 0.14
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTTATTATTATTTTTTCCTCA
Found at i:812385 original size:17 final size:17
Alignment explanation
Indices: 812354--812400 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
812344 TATTATCACG
812354 ATATTTATTTATTTTAT
1 ATATTTATTTATTTTAT
812371 ATATTATATTT-TTTTA-
1 ATATT-TATTTATTTTAT
*
812387 CT-TTTATTTATTTT
1 ATATTTATTTATTTT
812401 CTTTTGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 1 0.04
17 10 0.37
18 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:812405 original size:23 final size:22
Alignment explanation
Indices: 812354--812398 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
812344 TATTATCACG
*
812354 ATATTTATTTATTTTATATATT
1 ATATTTTTTTATTTTATATATT
*
812376 ATATTTTTTTACTTTTATTTATT
1 ATATTTTTTTA-TTTTATATATT
812399 TTCTTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
ATATTTTTTTATTTTATATATT
Found at i:812670 original size:13 final size:13
Alignment explanation
Indices: 812652--812681 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
812642 GAATAATGTT
812652 TTTTAAATTTAAA
1 TTTTAAATTTAAA
812665 TTTTAAATTTAAA
1 TTTTAAATTTAAA
812678 TTTT
1 TTTT
812682 CGCAACTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTTAAA
Found at i:812957 original size:5 final size:5
Alignment explanation
Indices: 812947--812976 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
812937 TTTTTTCTTT
812947 AATTA AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AATTA
812977 GGAAATAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:814444 original size:21 final size:20
Alignment explanation
Indices: 814419--814457 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
814409 CATCAAGGTC
*
814419 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCAT-AAATCT
*
814440 TTTGTCGATGCCATAAAT
1 TTTGTCGAGGCCATAAAT
814458 TCCTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGTCGAGGCCATAAATCT
Found at i:820513 original size:103 final size:103
Alignment explanation
Indices: 820288--820505 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
820278 GTCGAGAGTC
*
820288 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
* *
820353 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
820391 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
*
820456 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
820494 TATGTGGTCCTT
1 TATGTGGTCCTT
820506 ATAGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:820571 original size:23 final size:23
Alignment explanation
Indices: 820512--820589 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
820502 CCTTATAGAC
*
820512 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
820536 ATTCTACGCGGCACTCCAGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
820559 ATTATATGTGGCACTTCGGTACA
1 ATTATATGTGGCACTACGGTGCA
820582 ATTATATG
1 ATTATATG
820590 AGCTATGGTG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 39 0.93
24 3 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:822993 original size:119 final size:119
Alignment explanation
Indices: 822771--822993 Score: 326
Period size: 119 Copynumber: 1.9 Consensus size: 119
822761 TATTTTTAAC
* *
822771 TAAATTTATATATTGACAATGTAAAAAATATTTTTAATAAAATATACTATAAACATTGAAAATAA
1 TAAATTTATATATTGACAATGTAAAAAATAATTTTAATAAAATATACTACAAACATTGAAAATAA
***
822836 AAATTTAACAGAATTAAATTATGATTTTTTTGTTTAAAATGTTTTTAAAGTTGT
66 AAATTTAACAGAATTAAATTATGATTTTTTTAAATAAAATGTTTTTAAAGTTGT
*
822890 TAAATTTATATATTGAGAATGTAAAAAATAATTTTAATAAAATATACTACAATA-ATTGAAAATA
1 TAAATTTATATATTGACAATGTAAAAAATAATTTTAATAAAATATACTACAA-ACATTGAAAATA
* *
822954 AAATTTTAATAGAATTAAAATTA--ATATTTTTTAAATAAAA
65 AAAATTTAACAGAATT-AAATTATGAT-TTTTTTAAATAAAA
822994 ATATTAAATT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 84 0.90
120 7 0.08
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (119 bp):
TAAATTTATATATTGACAATGTAAAAAATAATTTTAATAAAATATACTACAAACATTGAAAATAA
AAATTTAACAGAATTAAATTATGATTTTTTTAAATAAAATGTTTTTAAAGTTGT
Found at i:840457 original size:90 final size:90
Alignment explanation
Indices: 840304--840777 Score: 732
Period size: 90 Copynumber: 5.3 Consensus size: 90
840294 GCTCGAAAGA
* * * * * * *
840304 CTTATAGATGACCCAAAGGATTTAAAAATCAAGAAACCCCTAAAGGCTTAGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
*
840369 TTTGAAAACATCATGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
* * * ** *
840394 CTTATGAATGGCCCGAATGACTTAAAAATCAAGAAACCCCCAAATGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
*
840459 TTTGAAAACATCTTGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
** *
840484 CTTATGGATATCCCGAAGGACTTACAAATCAAGAAACCGCTGAAGGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
840549 TTTGAAAACATCCTGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
* * * *
840574 CTTATGGATGGCCCGAATGACATACAAATCAAGAAACCCCTGAAGGCTTTGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
*
840639 TTTGAAAACATCCTGCATTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
840664 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
840729 TTTGAAAACATCCTGCACTGAAGGT
66 TTTGAAAACATCCTGCACTGAAGGT
*
840754 CTTATAGATGGCCCGAAGGACTTA
1 CTTATGGATGGCCCGAAGGACTTA
840778 TGATCTTGCT
Statistics
Matches: 350, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 350 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (90 bp):
CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAAATCTCA
TTTGAAAACATCCTGCACTGAAGGT
Found at i:840777 original size:20 final size:20
Alignment explanation
Indices: 840748--840814 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
840738 ATCCTGCACT
*
840748 GAAGGTCTTATAGATGGCCC
1 GAAGGACTTATAGATGGCCC
* **
840768 GAAGGACTTAT-GATCTTGCTA
1 GAAGGACTTATAGA--TGGCCC
* *
840789 GAAAGACTTATAGATGACCC
1 GAAGGACTTATAGATGGCCC
840809 GAAGGA
1 GAAGGA
840815 TTTACGCATC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 13 0.38
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (20 bp):
GAAGGACTTATAGATGGCCC
Found at i:840841 original size:22 final size:21
Alignment explanation
Indices: 840816--840883 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
840806 CCCGAAGGAT
840816 TTACGCATCATGCTCGAAAGAC
1 TTAC-CATCATGCTCGAAAGAC
* * * *
840838 TTA-C-TGATGACCCGAAGGAT
1 TTACCATCATG-CTCGAAAGAC
*
840858 TTACACATCATGCTCGAAAGGC
1 TTAC-CATCATGCTCGAAAGAC
840880 TTAC
1 TTAC
840884 TGATGGCCTG
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 11 0.33
22 14 0.42
23 4 0.12
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
TTACCATCATGCTCGAAAGAC
Found at i:840847 original size:42 final size:42
Alignment explanation
Indices: 840760--840911 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
840750 AGGTCTTATA
* * * *
840760 GATGGCCCGAAGGACTTATG-ATCTTGCTAGAAAGACTTA-T
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
*
840800 AGATGACCCGAAGGATTTACGCATCATGCTCGAAAGACTTACT
1 -GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
* * *
840843 GATGACCCGAAGGATTTACACATCATGCTCGAAAGGCTTACT
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
* * *
840885 GATGGCCTGAAGGACTTACTCATCATG
1 GATGACCCGAAGGACTTACGCATCATG
840912 AAACTCTTGA
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
41 17 0.17
42 80 0.82
43 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (42 bp):
GATGACCCGAAGGACTTACGCATCATGCTCGAAAGACTTACT
Found at i:840861 original size:20 final size:19
Alignment explanation
Indices: 840801--840861 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
840791 AAGACTTATA
840801 GATGACCCGAAGGATTTAC
1 GATGACCCGAAGGATTTAC
* * * *
840820 GCATCATGCTCGAAAGACTTAC
1 G-ATGA--CCCGAAGGATTTAC
840842 TGATGACCCGAAGGATTTAC
1 -GATGACCCGAAGGATTTAC
840862 ACATCATGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 7
0.67 0.18 0.16
Matches are distributed among these distances:
19 1 0.03
20 14 0.47
22 14 0.47
23 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (19 bp):
GATGACCCGAAGGATTTAC
Found at i:840878 original size:23 final size:23
Alignment explanation
Indices: 840810--840878 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
840800 AGATGACCCG
*
840810 AAGGATTTACGCATCATGCTCGA
1 AAGGATTTACACATCATGCTCGA
* * *
840833 AA-GACTT--AC-TGATGACCCG-
1 AAGGATTTACACATCATG-CTCGA
840852 AAGGATTTACACATCATGCTCGA
1 AAGGATTTACACATCATGCTCGA
840875 AAGG
1 AAGG
840879 CTTACTGATG
Statistics
Matches: 33, Mismatches: 7, Indels: 12
0.63 0.13 0.23
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
22 9 0.27
23 10 0.30
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (23 bp):
AAGGATTTACACATCATGCTCGA
Found at i:841004 original size:43 final size:43
Alignment explanation
Indices: 840943--841181 Score: 379
Period size: 43 Copynumber: 5.6 Consensus size: 43
840933 AGTTTCTTAG
* * * * *
840943 TTGTCACCAAGGAACCCCTATATATTATGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
* *
840986 TTGTCATCAAGGAACCCCTACATATCACGATAGTCTCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
841029 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
* *
841072 TTGTCATCAAGGAACCCCTACATATCACGATAGTCTCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
*
841115 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
*
841158 TTATCATCAAGGAACCCCTACATA
1 TTGTCATCAAGGAACCCCTACATA
841182 ACACGAGGTT
Statistics
Matches: 181, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGC
Found at i:841088 original size:86 final size:86
Alignment explanation
Indices: 840943--841187 Score: 427
Period size: 86 Copynumber: 2.8 Consensus size: 86
840933 AGTTTCTTAG
* * * *
840943 TTGTCACCAAGGAACCCCTATATATTATGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
841008 TATCACGATAGTCTCTCAAGC
66 TATCACGATAGTCTCTCAAGC
*
841029 TTGTCATCAAGGAACCCCTACATATTACGATAGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
841094 TATCACGATAGTCTCTCAAGC
66 TATCACGATAGTCTCTCAAGC
*
841115 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTATCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
*
841180 TAACACGA
66 TATCACGA
841188 GGTTCTACCA
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 151 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (86 bp):
TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
TATCACGATAGTCTCTCAAGC
Found at i:843381 original size:48 final size:55
Alignment explanation
Indices: 843282--843386 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 55
843272 TCACTGGTTC
* * *
843282 GTAAAACATTTGACAACACATTCATCCTTTCTTGTGCCTTTTGCTCAGATTT-TT
1 GTAAAACATTTGACAACACATTCATCCTATCTTGTGCCTTCTGCCCAGATTTCTT
*
843336 GTAAAACATTTGACCACA-ATTCAT-C-AT-TTG-G-CTTCTGCCCAGATTTCTT
1 GTAAAACATTTGACAACACATTCATCCTATCTTGTGCCTTCTGCCCAGATTTCTT
843385 GT
1 GT
843387 CAGTGAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
48 13 0.28
49 5 0.11
50 3 0.07
51 1 0.02
52 1 0.02
53 6 0.13
54 17 0.37
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (55 bp):
GTAAAACATTTGACAACACATTCATCCTATCTTGTGCCTTCTGCCCAGATTTCTT
Found at i:843893 original size:52 final size:52
Alignment explanation
Indices: 843836--843981 Score: 222
Period size: 52 Copynumber: 2.8 Consensus size: 52
843826 TACCCCAACC
* * *
843836 TTTTCATACTGGTGTGAGCCTTCAAGTTACCCCACATGGATTACTTTTGTCT
1 TTTTCATACTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTGTCT
* * *
843888 TTTTCATTCTGATGTGAACCTTCAAGATGCCCCACATGGATTACTTCTGTCT
1 TTTTCATACTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTGTCT
*
843940 TTTTCATGCTGATGTGAGCCTTCAAGATA-CCCACATGGATTA
1 TTTTCATACTGATGTGAGCCTTCAAGATACCCCACATGGATTA
843982 TATGGACCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
51 13 0.15
52 72 0.85
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (52 bp):
TTTTCATACTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTGTCT
Found at i:845163 original size:10 final size:10
Alignment explanation
Indices: 845137--845215 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
845127 ATCTTCCTCA
*
845137 TTCTTTTTGT
1 TTCTTTTTCT
*
845147 TAC-TTTTCT
1 TTCTTTTTCT
845156 TTCTTTTT-T
1 TTCTTTTTCT
845165 CTTCTTTTGTC-
1 -TTCTTTT-TCT
845176 TTCTTTTTTCT
1 TTC-TTTTTCT
*
845187 TTCTTTTTTT
1 TTCTTTTTCT
845197 CTTCTTTTTTCT
1 -TTC-TTTTTCT
*
845209 CTCTTTT
1 TTCTTTT
845216 GTTTCTCTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
9 8 0.15
10 28 0.51
11 13 0.24
12 6 0.11
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:845163 original size:20 final size:18
Alignment explanation
Indices: 845149--845208 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 18
845139 CTTTTTGTTA
845149 CTTTTCTTTCTTTTTTCTT
1 CTTTT-TTTCTTTTTTCTT
845168 CTTTTGTCTTCTTTTTTCTTT
1 CTTTT-T-TTCTTTTTTC-TT
845189 CTTTTTTTCTTCTTTT-TT
1 CTTTTTTTCTT-TTTTCTT
845207 CT
1 CT
845209 CTCTTTTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 15 0.41
21 7 0.19
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (18 bp):
CTTTTTTTCTTTTTTCTT
Found at i:845166 original size:11 final size:11
Alignment explanation
Indices: 845150--845229 Score: 85
Period size: 11 Copynumber: 7.2 Consensus size: 11
845140 TTTTTGTTAC
845150 TTTTCTTTCTT
1 TTTTCTTTCTT
845161 TTTTC-TTCTT
1 TTTTCTTTCTT
*
845171 TTGTC-TTCTT
1 TTTTCTTTCTT
845181 TTTTCTTTCTT
1 TTTTCTTTCTT
845192 TTTT-TCTTCTT
1 TTTTCT-TTCTT
*
845203 TTTTCTCTCTTT
1 TTTTCTTTC-TT
845215 TGTTTCTCTTCTT
1 T-TTTCT-TTCTT
845228 TT
1 TT
845230 ACAGATAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
10 19 0.32
11 25 0.42
12 5 0.08
13 8 0.14
14 2 0.03
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:845188 original size:31 final size:33
Alignment explanation
Indices: 845150--845229 Score: 110
Period size: 32 Copynumber: 2.4 Consensus size: 33
845140 TTTTTGTTAC
845150 TTTTCTTTCTTTTTTCTTCTTTTGTCT-TC-TT
1 TTTTCTTTCTTTTTTCTTCTTTTGTCTCTCTTT
*
845181 TTTTCTTTCTTTTTTTCTTCTTTTTTCTCTCTTT
1 TTTTCTTTC-TTTTTTCTTCTTTTGTCTCTCTTT
845215 TGTTTCTCTTCTTTT
1 T-TTTCT-TTCTTTT
845230 ACAGATAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
31 9 0.21
32 17 0.40
33 2 0.05
34 3 0.07
35 9 0.21
36 3 0.07
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (33 bp):
TTTTCTTTCTTTTTTCTTCTTTTGTCTCTCTTT
Found at i:857329 original size:31 final size:31
Alignment explanation
Indices: 857291--857349 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
857281 TTTTAATAAC
857291 ATGGGAACTTAACAAAACATCATATATATAG
1 ATGGGAACTTAACAAAACATCATATATATAG
857322 ATGGGAACTTAACAAAACATCATATATA
1 ATGGGAACTTAACAAAACATCATATATA
857350 GTTAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (31 bp):
ATGGGAACTTAACAAAACATCATATATATAG
Found at i:861575 original size:22 final size:23
Alignment explanation
Indices: 861513--861578 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
861503 CATTAAGGTC
*
861513 TGATA-TGATTTTATATGTTATGAT
1 TGATATTGTTTTTA-ATG-TATGAT
*
861537 TG-TATTTTTCTTTAATGTATG-T
1 TGATATTGTT-TTTAATGTATGAT
861559 TGATATTGTTTTTAATGTAT
1 TGATATTGTTTTTAATGTAT
861579 TTTTTTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 13 0.36
23 12 0.33
24 7 0.19
25 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (23 bp):
TGATATTGTTTTTAATGTATGAT
Found at i:861886 original size:27 final size:27
Alignment explanation
Indices: 861844--861898 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
861834 AATGTTTTAT
861844 TACCAATAGTAAATTTTATGGGGTATA
1 TACCAATAGTAAATTTTATGGGGTATA
*
861871 TACCAATAGTAGATTTTATGGGGTATA
1 TACCAATAGTAAATTTTATGGGGTATA
861898 T
1 T
861899 TACTGGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (27 bp):
TACCAATAGTAAATTTTATGGGGTATA
Found at i:862228 original size:37 final size:36
Alignment explanation
Indices: 862153--862228 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
862143 TTTTTATATT
*
862153 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
862189 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
862226 TTT
1 TTT
862229 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:862431 original size:20 final size:20
Alignment explanation
Indices: 862375--862424 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
862365 TCCTATTCCC
862375 TGGTAATCTTTTATTCCCAT
1 TGGTAATCTTTTATTCCCAT
862395 TGGTAATCTTTTATTCCCAT
1 TGGTAATCTTTTATTCCCAT
862415 TGGTAATCTT
1 TGGTAATCTT
862425 ACATTCCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (20 bp):
TGGTAATCTTTTATTCCCAT
Found at i:862887 original size:2 final size:2
Alignment explanation
Indices: 862880--862968 Score: 178
Period size: 2 Copynumber: 44.5 Consensus size: 2
862870 AAAATACATT
862880 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
862922 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
862964 TC TC T
1 TC TC T
862969 TAAAAAAATT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:863194 original size:50 final size:50
Alignment explanation
Indices: 863119--863232 Score: 165
Period size: 50 Copynumber: 2.3 Consensus size: 50
863109 GTAGCAGTAA
* * *
863119 AGCGCGCCCCCTGAATCGCGCTATACGCTGATTTGGCGCCATGTGGGTAT
1 AGCGCGCCCCCTGAATCGCGATATACGCTGATCTGGCGCCACGTGGGTAT
** *
863169 AGCGCGCCCCCTGCCTCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAATCGCGATATACGCTGATCTGGCGCCACGTGGGTAT
*
863219 AGCGCGTCCCCTGA
1 AGCGCGCCCCCTGA
863233 TCCGAGCTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAATCGCGATATACGCTGATCTGGCGCCACGTGGGTAT
Found at i:863382 original size:10 final size:10
Alignment explanation
Indices: 863367--863405 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
863357 TTATCACACT
863367 AAATTCTCTC
1 AAATTCTCTC
863377 AAATTCTCT-
1 AAATTCTCTC
863386 AAATTTCTCTC
1 AAA-TTCTCTC
*
863397 AAATACTCT
1 AAATTCTCT
863406 ATCTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 20 0.77
11 3 0.12
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:863395 original size:20 final size:19
Alignment explanation
Indices: 863365--863406 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
863355 TTTTATCACA
*
863365 CTAAATTCTCTCAAATTCT
1 CTAAATTCTCTCAAATACT
863384 CTAAATTTCTCTCAAATACT
1 CTAAA-TTCTCTCAAATACT
863404 CTA
1 CTA
863407 TCTTTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (19 bp):
CTAAATTCTCTCAAATACT
Found at i:863482 original size:17 final size:19
Alignment explanation
Indices: 863462--863497 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
863452 CTTTATTTAA
863462 TATTTTAC-TA-ATATAAT
1 TATTTTACATATATATAAT
863479 TATTTTACATATATATAAT
1 TATTTTACATATATATAAT
863498 GGAAGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTACATATATATAAT
Found at i:863670 original size:111 final size:111
Alignment explanation
Indices: 863532--863864 Score: 603
Period size: 111 Copynumber: 3.0 Consensus size: 111
863522 TGGAAATCAT
*
863532 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * *
863597 TATTTAGTTGATTTACTTAATACATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
863643 ATATCTCGACACTTTGCTGATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
863708 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
863754 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
863819 TAATTAATTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
863865 TTTTTATAAT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:865751 original size:21 final size:21
Alignment explanation
Indices: 865721--865773 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
865711 GGACAACGAC
* * *
865721 GACGATGATGACGATGGTGAT
1 GACGACGATGACGACGATGAT
865742 GACGACGATGACGACGATGAT
1 GACGACGATGACGACGATGAT
865763 GAC-AGCGATGA
1 GACGA-CGATGA
865774 GTCAGAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.17
Consensus pattern (21 bp):
GACGACGATGACGACGATGAT
Found at i:865765 original size:12 final size:12
Alignment explanation
Indices: 865718--865764 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
865708 TCAGGACAAC
865718 GACGACGATGAT
1 GACGACGATGAT
* *
865730 GACGATGGTGAT
1 GACGACGATGAT
*
865742 GACGACGATGAC
1 GACGACGATGAT
*
865754 GACGATGATGA
1 GACGACGATGA
865765 CAGCGATGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.17
Consensus pattern (12 bp):
GACGACGATGAT
Found at i:873948 original size:32 final size:32
Alignment explanation
Indices: 873893--873957 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
873883 GCAATAAAAA
*
873893 TAACAATTAATACACATTAACATACATGCCAT
1 TAACAATTAATACACATTAACATACATACCAT
* * * *
873925 TAACAATTACTACATATTGACATATATACCAT
1 TAACAATTAATACACATTAACATACATACCAT
873957 T
1 T
873958 CATATTAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (32 bp):
TAACAATTAATACACATTAACATACATACCAT
Found at i:876306 original size:18 final size:18
Alignment explanation
Indices: 876283--876330 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
876273 TCTGATATTT
*
876283 TTTTCTTCTTATTTTCGA
1 TTTTCTTCTTATTTACGA
*
876301 TTTTCTTC--ATTCACGA
1 TTTTCTTCTTATTTACGA
*
876317 TATTCTTCTTATTT
1 TTTTCTTCTTATTT
876331 CCCATTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 13 0.54
18 11 0.46
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTCTTCTTATTTACGA
Found at i:878290 original size:41 final size:41
Alignment explanation
Indices: 878245--878375 Score: 135
Period size: 41 Copynumber: 3.2 Consensus size: 41
878235 GTGTTTTTAT
* *
878245 ACAAACGTCACAATAGGGTTCATCTATAGTGACATTTTTCA
1 ACAAACGTCGCAATAGGGTTCATCTATAGTGGCATTTTTCA
* * * * *
878286 ACAAACGCCGCAACAGAGTAGCA-CTTTAGTGGCATTTTT-A
1 ACAAACGTCGCAATAGGGT-TCATCTATAGTGGCATTTTTCA
**
878326 TA-AAAAAT-GCAATAGGGTTCATCTATAGTGGCATTTTTCA
1 -ACAAACGTCGCAATAGGGTTCATCTATAGTGGCATTTTTCA
878366 ACAAACGTCG
1 ACAAACGTCG
878376 TAACAGAGTA
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
38 2 0.03
39 24 0.35
40 9 0.13
41 31 0.46
42 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (41 bp):
ACAAACGTCGCAATAGGGTTCATCTATAGTGGCATTTTTCA
Found at i:878344 original size:80 final size:79
Alignment explanation
Indices: 878255--878573 Score: 345
Period size: 80 Copynumber: 3.9 Consensus size: 79
878245 ACAAACGTCA
* *
878255 CAATAGGGTTCATCTATAGTGACATTTTTCAACAAACGCCGCAACAGAGTAGCACTTTAGTGGCA
1 CAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAG-GG-A
878320 TTTTTATA-AAAAATG
64 TTTTTATACAAAAATG
* * * *
878335 CAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGTCGTAACAGAGTAGTACATTAGAGATG
1 CAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGGGAT-
* **
878400 TTTTAATACTAATGTCG
65 TTTT-ATACAAAAAT-G
* * * * * *
878417 TAATAGGGTTTATCTATAGTGGTATTTTTCAACAAATGCCGCAACAAAGTAGTACTTTAGCGGAG
1 CAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAG-GGAT
**
878482 TTTTATACAAACGCTG
65 TTTTATACAAA-AATG
* ** * *
878498 CAATAGGGTTCATCTATAGT-GCATTTTTCAACAAACACTACAACAGAGGAGTACTTTAGCGGTG
1 CAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAG-GG-A
878562 TTTTTATACAAA
64 TTTTTATACAAA
878574 CGTCGCTATA
Statistics
Matches: 199, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
78 2 0.01
79 5 0.03
80 93 0.47
81 39 0.20
82 58 0.29
83 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (79 bp):
CAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGGGATT
TTTATACAAAAATG
Found at i:878545 original size:162 final size:161
Alignment explanation
Indices: 878256--878570 Score: 420
Period size: 162 Copynumber: 1.9 Consensus size: 161
878246 CAAACGTCAC
* * *
878256 AATAGGGTTCATCTATAGTGACATTTTTCAACAAACGCCGCAACAGAGTAGCACTTTAGTGGCAT
1 AATAGGGTTCATCTATAGTGACATTTTTCAACAAACGCCGCAACAAAGTAGCACTTTAGCGGCAG
* *
878321 TTTTATAAAAAATGCAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACGTCGTAACAGAGTA
66 TTTTATAAAAAATGCAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACCTCG-AACAGAGGA
878386 GTACATTAGAGATGTTTTAATACTAATGTCGT
130 GTACATTAGAGATGTTTTAATACTAATGTCGT
* ** * *
878418 AATAGGGTTTATCTATAGTGGTATTTTTCAACAAATGCCGCAACAAAGTAGTACTTTAGCGG-AG
1 AATAGGGTTCATCTATAGTGACATTTTTCAACAAACGCCGCAACAAAGTAGCACTTTAGCGGCAG
**
878482 TTTTATACAAACGCTGCAATAGGGTTCATCTATAGT-GCATTTTTCAACAAACACTAC-AACAGA
66 TTTTATA-AAA-AATGCAATAGGGTTCATCTATAGTGGCATTTTTCAACAAAC-CT-CGAACAGA
* * * *
878545 GGAGTACTTTAGCGGTGTTTTTATAC
127 GGAGTACATTAGAGATGTTTTAATAC
878571 AAACGTCGCT
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
161 8 0.06
162 101 0.76
163 23 0.17
164 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (161 bp):
AATAGGGTTCATCTATAGTGACATTTTTCAACAAACGCCGCAACAAAGTAGCACTTTAGCGGCAG
TTTTATAAAAAATGCAATAGGGTTCATCTATAGTGGCATTTTTCAACAAACCTCGAACAGAGGAG
TACATTAGAGATGTTTTAATACTAATGTCGT
Found at i:883220 original size:21 final size:21
Alignment explanation
Indices: 883194--883235 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
883184 TGATTTATTA
*
883194 TTATGGATTTCAAGTTGATTG
1 TTATGGATGTCAAGTTGATTG
*
883215 TTATGGATGTCAAGTTTATTG
1 TTATGGATGTCAAGTTGATTG
883236 GATAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.48
Consensus pattern (21 bp):
TTATGGATGTCAAGTTGATTG
Found at i:884465 original size:24 final size:25
Alignment explanation
Indices: 884407--884471 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
884397 TTCTTTTGAG
884407 TAAATGATATGAACATGAATAAATTA
1 TAAATGATATGAACATGAAT-AATTA
* * *
884433 TAAATGATAGGAACATGAAT-TTTT
1 TAAATGATATGAACATGAATAATTA
884457 TAAATGATATGAACA
1 TAAATGATATGAACA
884472 CGACGAGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 16 0.46
26 19 0.54
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (25 bp):
TAAATGATATGAACATGAATAATTA
Found at i:885634 original size:34 final size:34
Alignment explanation
Indices: 885591--885660 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
885581 ATAAGGGTAG
885591 AATAAGTTGACTACAGACTCCTTCACAAGGCAAA
1 AATAAGTTGACTACAGACTCCTTCACAAGGCAAA
*
885625 AATAAGTTGACTACAGACTCCTTCGCAAGGCAAA
1 AATAAGTTGACTACAGACTCCTTCACAAGGCAAA
885659 AA
1 AA
885661 GGCAGCTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (34 bp):
AATAAGTTGACTACAGACTCCTTCACAAGGCAAA
Found at i:893464 original size:65 final size:64
Alignment explanation
Indices: 893345--893574 Score: 204
Period size: 65 Copynumber: 3.6 Consensus size: 64
893335 TTTTTCAGAG
* * * *
893345 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCAAATG
1 TGATGCATCGATGCA-CATA-CCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATG
893406 CATT
61 CATT
* *
893410 TCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACATACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
893474 T
64 T
* * * * * *
893475 TGATGCATCGATGCACCA-GCCATGCATCGATACACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CATACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
**
893539 TGATGCATCGATGCAC-TAAGAGTGCACCGATGCACT
1 TGATGCATCGATGCACATACCA-TGCACCGATGCACT
893575 AAGGGTCCAA
Statistics
Matches: 136, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 59 0.43
65 67 0.49
66 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (64 bp):
TGATGCATCGATGCACATACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:900209 original size:63 final size:63
Alignment explanation
Indices: 900133--900253 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
900123 ACTCTAATAA
* *
900133 AATAAAATCATCGAATGCCATTAGTGCATCGATGCATAAGGAGTGCATCGATGCACCCCATTG
1 AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCCCATTG
** * ** *
900196 AATAAAAACATCGAATGTGATTCGTGCACCGATGTTTAAGTAGTGCATCGATGCACCC
1 AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCC
900254 GTTAAGGAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (63 bp):
AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCCCATTG
Found at i:900876 original size:38 final size:38
Alignment explanation
Indices: 900817--900891 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
900807 GAGGGATATA
* * * * *
900817 CAGTGGTCTTTCGGGATATAGTGGTTCTTCGGAACAAT
1 CAGTGGTCCTTCAGGACATAGTGATCCTTCGGAACAAT
*
900855 CAGTGGTCCTTCAGGACATAGTGATCCTTCGGGACAA
1 CAGTGGTCCTTCAGGACATAGTGATCCTTCGGAACAA
900892 ATACTGAACG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (38 bp):
CAGTGGTCCTTCAGGACATAGTGATCCTTCGGAACAAT
Found at i:900882 original size:18 final size:18
Alignment explanation
Indices: 900856--900890 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
900846 CGGAACAATC
*
900856 AGTGGTCCTTCAGGACAT
1 AGTGATCCTTCAGGACAT
*
900874 AGTGATCCTTCGGGACA
1 AGTGATCCTTCAGGACA
900891 AATACTGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (18 bp):
AGTGATCCTTCAGGACAT
Done.