Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 28 of 138
Found at i:6846244 original size:75 final size:76
Alignment explanation
Indices: 6846165--6846619 Score: 366
Period size: 75 Copynumber: 5.9 Consensus size: 76
6846155 CGGTGCATTA
* * *
6846165 TCCTCCACCA-CCTTACAAGTACAAGTCTCCTTCTCCTCCTAAGGAGGAGCCATACAAATACAAG
1 TCCTCCACCAGCCATACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAG
6846229 TCTCCTCCTCC
66 TCTCCTCCTCC
** *
6846240 TCCTCCAAAGGAGGAGCCATACAAATACATGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAAT
1 TCCTCC-----ACCAGCCATACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAAT
* *
6846305 ACAAGTCTCCCCCACC
61 ACAAGTCTCCTCCTCC
* * * ** * *
6846321 ACCTTCTCCAG-TTTACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGCCATACAAATTCAAG
1 TCCTCCACCAGCCATACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAG
6846385 TCTCCTCCTCC
66 TCTCCTCCTCC
* ** ** * * * ***** **
6846396 CCCTAAGGAGGAGCCATACAAATACAAGTCTCCCCCGCCCCCT--CCTCCAG-TTTACAAATACA
1 TCCT--CCACCAGCCATACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAATACA
6846458 AGTCTCCTCCTCC
64 AGTCTCCTCCTCC
** ** * *
6846471 TCCTAAGGAGGAGCCATACAAATACAAGCCTCTTCCTCCTCCTAAGGAGGAGCCATACAAATACA
1 TCCT--CCACCAGCCATACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAATACA
* *
6846536 AGTCTCCCCCACC
64 AGTCTCCTCCTCC
* *** *
6846549 -CCTCCTCCA-ATTTACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGGAGCCATACAAATAC
1 TCCTCCACCAGCCATACAAATACAAGTCTCCTCCTCCTCCT-A--AGGAGGAGCCATACAAATAC
6846612 AAGTCTCC
63 AAGTCTCC
6846620 CCCACCACCA
Statistics
Matches: 299, Mismatches: 66, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
74 24 0.08
75 127 0.42
76 4 0.01
77 35 0.12
78 44 0.15
80 2 0.01
81 63 0.21
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (76 bp):
TCCTCCACCAGCCATACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAG
TCTCCTCCTCC
Found at i:6846365 original size:114 final size:113
Alignment explanation
Indices: 6846217--6846619 Score: 644
Period size: 114 Copynumber: 3.5 Consensus size: 113
6846207 GGAGGAGCCA
* *
6846217 TACAAATACAAGTCTCCTCCTCCTCCTCCAAAGGAGGAGCCATACAAATACATGTCTCCTCCTCC
1 TACAAATACAAG--TCC-CCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAGTCTCCTCCTCC
*
6846282 TCCTAAGGAGGAGCCATACAAATACAAGTCTCCCCCACCACCTTCTCCAGTT
63 TCCTAAGGAGGAGCCATACAAATACAAGTCTCCCCCACC-CCTCCTCCAGTT
* *
6846334 TACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGCCATACAAATTCAAGTCTCCTCCTCCCCC
1 TACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAGTCTCCTCCTCCTCC
*
6846399 TAAGGAGGAGCCATACAAATACAAGTCTCCCCCGCCCCCTCCTCCAGTT
66 TAAGGAGGAGCCATACAAATACAAGTCTCCCCC-ACCCCTCCTCCAGTT
* * *
6846448 TACAAATACAAGTCTCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAGCCTCTTCCTCCTCC
1 TACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAGTCTCCTCCTCCTCC
*
6846513 TAAGGAGGAGCCATACAAATACAAGTCTCCCCCACCCCTCCTCCAATT
66 TAAGGAGGAGCCATACAAATACAAGTCTCCCCCACCCCTCCTCCAGTT
6846561 TACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGGAGCCATACAAATACAAGTCTCC
1 TACAAATACAAGTCCCCTCCTCCTCCT-A--AGGAGGAGCCATACAAATACAAGTCTCC
6846620 CCCACCACCA
Statistics
Matches: 266, Mismatches: 16, Indels: 9
0.91 0.05 0.03
Matches are distributed among these distances:
113 39 0.15
114 184 0.69
115 5 0.02
116 26 0.10
117 12 0.05
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.21
Consensus pattern (113 bp):
TACAAATACAAGTCCCCTCCTCCTCCTAAGGAGGAGCCATACAAATACAAGTCTCCTCCTCCTCC
TAAGGAGGAGCCATACAAATACAAGTCTCCCCCACCCCTCCTCCAGTT
Found at i:6848658 original size:43 final size:40
Alignment explanation
Indices: 6848563--6848659 Score: 95
Period size: 43 Copynumber: 2.4 Consensus size: 40
6848553 AATACTTTTT
* ** * *
6848563 TAACCGTCAGTATAAATAATTTTTTTTGATGGTATGTGAC
1 TAACCGTCAGTATAAATAATTTATACTGACGGTATGTGAA
* * *
6848603 TATCCGTTAGTATAAATATATTATATACTGACGGTTATGTTAA
1 TAACCGTCAGTATAAATA-ATT-TATACTGACGG-TATGTGAA
6848646 TAACCGTCAGTATA
1 TAACCGTCAGTATA
6848660 GACTCAAAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
40 16 0.36
41 3 0.07
42 7 0.16
43 18 0.41
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (40 bp):
TAACCGTCAGTATAAATAATTTATACTGACGGTATGTGAA
Found at i:6848915 original size:64 final size:64
Alignment explanation
Indices: 6848703--6849695 Score: 690
Period size: 64 Copynumber: 15.7 Consensus size: 64
6848693 AATTGAATGG
* * * * * * *
6848703 GATTATTGAAGGTATTTTTGGACAAAAATGCTTTCAATAATCCCCTC-T-AAAATTTTTTGTATG
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAAT-CCTTCATAAAAATTTATTG-AGG
6848766 -
64 A
* * * ** * *
6848766 GATTGTTGAAGGCATTTTTAGTCAAAAACGCCTTCAATAATCC--CCTAAAAA---ATTGAAAGA
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTG-AGGA
**
6848826 GATTATTGAAGGCATTTTTTACCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
* * * *
6848890 GATTATTAAAAGCATTTTTGGCCAAAAATTACCTTCAATAAT-CTCTCATAAAAATTTAAT-AAG
1 GATTATTGAAGGCATTTTTGGCCAAAAA-TACCTTCAATAATCCT-TCATAAAAATTTATTGAGG
6848953 A
64 A
* * * * * * *
6848954 GAATTATTGAAAGCTTTTTTTGCTAAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGGG
1 G-ATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
* * * * *
6849019 GATTATTGAAGGCGTTTTTAGTCAAAATATA--TTCAATAAT-C-TCATGAAAAATTT-TCGAAG
1 GATTATTGAAGGCATTTTTGGCCAAAA-ATACCTTCAATAATCCTTCAT-AAAAATTTATTGAGG
6849079 A
64 A
* * * * *
6849080 GATTATTAAAGGCGTTTTTGGCCAAAAATATCTTTAATAATCCTTCATAAAAATTTATGGAGGA
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
* * * * * *
6849144 GATTATTGAAGGCGTTTTTTGG-CAAAAATTACCTTCAATAATCTTTTATAAAAATTAAATAAGG
1 GATTATTGAAGGC-ATTTTTGGCCAAAAA-TACCTTCAATAATCCTTCATAAAAATTTATTGAGG
6849208 -
64 A
* * * *
6849208 GAATTATTGAAGGCATTTTTTGTCAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGGG
1 G-ATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
**** * * * * * **
6849273 GATTATTGAATATGTTTTTAGTCC-AAAATGCCTTCAATAAT-CTCCTAAAAAAATTTA--AAAA
1 GATTATTGAAGGCATTTTT-GGCCAAAAATACCTTCAATAATCCTTC-ATAAAAATTTATTGAGG
6849334 A
64 A
* * * * * * * *
6849335 AATTATTAAAGACATTTTTGACCAAAAATACATTTAATAAT-CTCTCATAAAAATTTATAGAGGG
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCT-TCATAAAAATTTATTGAGGA
* * * * * * *
6849399 GATTATTAAAGGCGTTTTTTGTCAAAAACACCTTCAATAATCC-TC-TGAATAAA-TT-TGGA-A
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCAT-AA-AAATTTATTGAGG
6849459 A
64 A
* ** * * *
6849460 GGATTATTTAAGGCATTTTTAACAAAAAAATGCTTTCAATAATCCTT--TAAAAATTT-TTGAAA
1 -GATTATTGAAGGCATTTTTGGC-CAAAAATACCTTCAATAATCCTTCATAAAAATTTATTG--A
6849522 GG-
62 GGA
** * * *
6849524 GATTATTGAAGTAATTTTTTGCCAAAAACACCTTCAATAATCCCTCATAAAAATTTATTGAAGG-
1 GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTG-AGGA
* * * *
6849588 GATTATTGAAGGTAATTTTGGTCAAAAA-AGCCTTCAATAATCCTTCATAAAAATTTATTGA-TA
1 GATTATTGAAGGCATTTTTGGCCAAAAATA-CCTTCAATAATCCTTCATAAAAATTTATTGAGGA
* * * *
6849651 GGATTATTGAAGAG-GTTTTTAGCCAAAAATGCCTTGAATAA-CCTT
1 -GATTATTGAAG-GCATTTTTGGCCAAAAATACCTTCAATAATCCTT
6849696 ATTGAATTTT
Statistics
Matches: 741, Mismatches: 140, Indels: 98
0.76 0.14 0.10
Matches are distributed among these distances:
59 5 0.01
60 41 0.06
61 39 0.05
62 115 0.16
63 104 0.14
64 318 0.43
65 119 0.16
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (64 bp):
GATTATTGAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
Found at i:6849089 original size:190 final size:188
Alignment explanation
Indices: 6848826--6849691 Score: 711
Period size: 190 Copynumber: 4.5 Consensus size: 188
6848816 AATTGAAAGA
* * *
6848826 GATTATTGAAGGCATTTTTTA-CCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGA
1 GATTATTGAAGGC-GTTTTTAGTCAAAAATA-CTTCAATAATCCTTCATAAAAATTTATTGAAGA
*
6848890 GATTATTAAAAGCATTTTTGGCCAAAAATTACCTTCAATAATCTCTCATAAAAATTTA-ATAAGA
64 GATTATTAAAGGCATTTTTGGCCAAAAA-TACCTTCAATAATC-CTCATAAAAATTTATA-AAG-
*
6848954 GAATTATTGAAAGCTTTTTTTGCTAAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGGG
125 GAATTATTGAAAGCTTTTTTTGCCAAAAACACCTTCAATAATC-TTCATAAAAATTTATTGAGGG
*
6849019 GATTATTGAAGGCGTTTTTAGTCAAAATATA-TTCAATAAT-C-TCATGAAAAATTT-TCGAAGA
1 GATTATTGAAGGCGTTTTTAGTCAAAA-ATACTTCAATAATCCTTCAT-AAAAATTTATTGAAGA
* * * **
6849080 GATTATTAAAGGCGTTTTTGGCCAAAAATATCTTTAATAATCCTTCATAAAAATTTATGGAGGAG
64 GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCC-TCATAAAAATTTATAAAGGA-
* * * * * * * *
6849145 ATTATTGAAGGCGTTTTTTGGCAAAAATTACCTTCAATAATCTTTTATAAAAATTAAATAAGGG
127 ATTATTGAAAGCTTTTTTTGCCAAAAA-CACCTTCAATAATC-TTCATAAAAATTTATTGAGGG
* * * * * *
6849209 AATTATTGAAGGCATTTTTTGTCAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGGGG
1 GATTATTGAAGGCGTTTTTAGTCAAAAAT-ACTTCAATAATCCTTCATAAAAATTTATTGAAGAG
* * * * *
6849274 ATTATTGAATATG--TTTTTAGTCC-AAAATGCCTTCAATAAT-CTCCTAAAAAAATTTA-AAAA
65 ATTATT-AA-AGGCATTTTT-GGCCAAAAATACCTTCAATAATCCT-C-ATAAAAATTTATAAAG
* * * * * *
6849334 AAATTATT-AAAGAC-ATTTTTGACCAAAAATACATTTAATAATCTCTCATAAAAATTTATAGAG
125 GAATTATTGAAAG-CTTTTTTTG-CCAAAAACACCTTCAATAATCT-TCATAAAAATTTATTGAG
6849397 GG
187 GG
* * * *
6849399 GATTATTAAAGGCGTTTTTTGTCAAAAACACCTTCAATAATCC-TC-TGAATAAA-TT-TGGAA-
1 GATTATTGAAGGCGTTTTTAGTCAAAAATA-CTTCAATAATCCTTCAT-AA-AAATTTATTGAAG
* ** * * * * *
6849459 AGGATTATTTAAGGCATTTTTAACAAAAAAATGCTTTCAATAATCCT-TTAAAAATTTTTGAAAG
63 A-GATTATTAAAGGCATTTTTGGC-CAAAAATACCTTCAATAATCCTCATAAAAATTTAT-AAAG
* * *
6849523 GGATTATTG-AAG-TAATTTTTTGCCAAAAACACCTTCAATAATCCCTCATAAAAATTTATTGAA
125 GAATTATTGAAAGCT--TTTTTTGCCAAAAACACCTTCAATAAT-CTTCATAAAAATTTATTGAG
6849586 GG
187 GG
*** *
6849588 GATTATTGAAGGTAATTTTGGTCAAAAA-AGCCTTCAATAATCCTTCATAAAAATTTATTGATAG
1 GATTATTGAAGGCGTTTTTAGTCAAAAATA--CTTCAATAATCCTTCATAAAAATTTATTGA-AG
* * *
6849652 -GATTATTGAAGAGG--TTTTTAGCCAAAAATGCCTTGAATAA
63 AGATTATT-AA-AGGCATTTTTGGCCAAAAATACCTTCAATAA
6849692 CCTTATTGAA
Statistics
Matches: 543, Mismatches: 85, Indels: 93
0.75 0.12 0.13
Matches are distributed among these distances:
186 2 0.00
187 10 0.02
188 20 0.04
189 161 0.30
190 195 0.36
191 50 0.09
192 30 0.06
193 65 0.12
194 8 0.01
195 2 0.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (188 bp):
GATTATTGAAGGCGTTTTTAGTCAAAAATACTTCAATAATCCTTCATAAAAATTTATTGAAGAGA
TTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCTCATAAAAATTTATAAAGGAATTA
TTGAAAGCTTTTTTTGCCAAAAACACCTTCAATAATCTTCATAAAAATTTATTGAGGG
Found at i:6849172 original size:254 final size:254
Alignment explanation
Indices: 6848765--6849440 Score: 835
Period size: 254 Copynumber: 2.7 Consensus size: 254
6848755 TTTTTTGTAT
* * * * ** * * * *
6848765 GGATTGTTGAAGGCATTTTTAGTCAAAAACGCCTTCAATAATCCCCT-AAAAAA-TTGAAAGAGA
1 GGATTATTGAAGACGTTTTTAGTCCAAAATACATTCAATAATCTCATAAAAAAATTTAAAAGAGA
* * * *
6848828 TTATTGAAGGCATTTTTTACCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGGAGAT
66 TTATTAAAGGCATTTTTGACCAAAAATA-CTTTAATAATCCTTCATAAAAATTTATAGAGGAGAT
* * *
6848893 TATTAAAAGC-ATTTTTGGCCAAAAATTACCTTCAATAATCTCTCATAAAAATTTAATAAGAGAA
130 TATTAAAGGCGTTTTTTGG-CAAAAATTACCTTCAATAATCTCTCATAAAAATTAAATAAGAGAA
*
6848957 TTATTGAAAGCTTTTTTTG-CTAAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGG
194 TTATTGAAAGCATTTTTTGTC-AAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGG
* * * * **
6849018 GGATTATTGAAGGCGTTTTTAGT-CAAAATATATTCAATAATCTCATGAAAAATTTTCGAAGAGA
1 GGATTATTGAAGACGTTTTTAGTCCAAAATACATTCAATAATCTCATAAAAAAATTTAAAAGAGA
* * *
6849082 TTATTAAAGGCGTTTTTGGCCAAAAATATCTTTAATAATCCTTCATAAAAATTTATGGAGGAGAT
66 TTATTAAAGGCATTTTTGACCAAAAATA-CTTTAATAATCCTTCATAAAAATTTATAGAGGAGAT
* * * *
6849147 TATTGAAGGCGTTTTTTGGCAAAAATTACCTTCAATAATCTTTTATAAAAATTAAATAAGGGAAT
130 TATTAAAGGCGTTTTTTGGCAAAAATTACCTTCAATAATCTCTCATAAAAATTAAATAAGAGAAT
* ** *
6849212 TATTGAAGGCATTTTTTGTCAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGG
195 TATTGAAAGCATTTTTTGTCAAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGG
* * * * * * *
6849272 GGATTATTGAATATGTTTTTAGTCCAAAATGCCTTCAATAATCTCCTAAAAAAATTTAAAAAAAA
1 GGATTATTGAAGACGTTTTTAGTCCAAAATACATTCAATAATCTCATAAAAAAATTTAAAAGAGA
* *
6849337 TTATTAAAGACATTTTTGACCAAAAATACATTTAATAAT-CTCTCATAAAAATTTATAGAGGGGA
66 TTATTAAAGGCATTTTTGACCAAAAATAC-TTTAATAATCCT-TCATAAAAATTTATAGAGGAGA
* *
6849401 TTATTAAAGGCGTTTTTTGTCAAAAA-CACCTTCAATAATC
129 TTATTAAAGGCGTTTTTTGGCAAAAATTACCTTCAATAATC
6849441 CTCTGAATAA
Statistics
Matches: 364, Mismatches: 52, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
252 16 0.04
253 26 0.07
254 205 0.56
255 117 0.32
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (254 bp):
GGATTATTGAAGACGTTTTTAGTCCAAAATACATTCAATAATCTCATAAAAAAATTTAAAAGAGA
TTATTAAAGGCATTTTTGACCAAAAATACTTTAATAATCCTTCATAAAAATTTATAGAGGAGATT
ATTAAAGGCGTTTTTTGGCAAAAATTACCTTCAATAATCTCTCATAAAAATTAAATAAGAGAATT
ATTGAAAGCATTTTTTGTCAAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGG
Found at i:6849747 original size:126 final size:127
Alignment explanation
Indices: 6848702--6849756 Score: 702
Period size: 126 Copynumber: 8.3 Consensus size: 127
6848692 AAATTGAATG
* * * * *
6848702 GGATTATTGAAGGTATTTTTGGAC-AAAAATGCTTTCAATAATCCCCTC-T-AAAATTTTTTGTA
1 GGATTATTAAAGGCATTTTTGG-CTAAAAATGCCTTCAATAAT-CCTTCATAAAAATTTATTG-A
* * * * ** * *
6848764 -TGGATTGTTGAAG-GCATTTTTAGTCAAAAACGCCTTCAATAATCC-C-CTAAAAA-ATTG-AA
63 GGGGATTATTGAAGAGCGTTTTTAGCCAAAAATACCTTCAATAA-CCTCATTAAAAATTTTGTAA
6848823 A
127 A
* ** * *
6848824 GAGATTATTGAAGGCATTTTTTACCAAAAATACCTTCAATAATCCTTCATAAAAATTTATTGAGG
1 G-GATTATTAAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGG
* * * * **
6848889 AGATTATT-AAAAGCATTTTTGGCCAAAAATTACCTTCAATAATCTCTCA-TAAAAATTTAATAA
65 GGATTATTGAAGAGCGTTTTTAGCCAAAAA-TACCTTCAATAA-C-CTCATTAAAAATTTTGTAA
6848952 GA
127 -A
* * * ** *
6848954 GAATTATTGAAA-GCTTTTTTTGCTAAAAACACCTTCAATAATCATTCATAAAAATTTATTGAGG
1 GGATTATT-AAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGG
* * *
6849018 GGATTATTGAAG-GCGTTTTTAGTCAAAATATA--TTCAATAATCTCATGAAAAATTTTCG--AA
65 GGATTATTGAAGAGCGTTTTTAGCCAAAA-ATACCTTCAATAACCTCATTAAAAATTTT-GTAAA
* * ** * *
6849078 GAGATTATTAAAGGCGTTTTTGGCCAAAAATATCTTTAATAATCCTTCATAAAAATTTATGGAGG
1 G-GATTATTAAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGG
* * * * ** *** *
6849143 AGATTATTGAAG-GCGTTTTTTGGCAAAAATTACCTTCAATAATCTTTTATAAAAATTAAATAAG
65 GGATTATTGAAGAGCGTTTTTAGCCAAAAA-TACCTTCAATAACCTCAT-TAAAAATTTTGTAAA
* *
6849207 GGAATTATTGAAGGCATTTTTTG-TCAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAG
1 GG-ATTATTAAAGGCATTTTTGGCT-AAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAG
* * * * * * * **
6849271 GGGATTATTGAATA-TGTTTTTAGTCC-AAAATGCCTTCAATAATCTCCTAAAAAAATTTAAAAA
64 GGGATTATTGAAGAGCGTTTTTAG-CCAAAAATACCTTCAATAACCTCATTAAAAATTTTGTAAA
** * * * * * * *
6849334 AAATTATTAAAGACATTTTTGACCAAAAATACATTTAATAAT-CTCTCATAAAAATTTATAGAGG
1 GGATTATTAAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCT-TCATAAAAATTTATTGAGG
* * * * * *
6849398 GGATTATTAAAG-GCGTTTTTTGTCAAAAACACCTTCAATAATCCTC-TGAATAAA-TTTGGAAA
65 GGATTATTGAAGAGCGTTTTTAGCCAAAAATACCTTCAATAA-CCTCATTAA-AAATTTTGTAAA
* ** * * *
6849460 GGATTATTTAAGGCATTTTTAACAAAAAAATGCTTTCAATAATCCTT--TAAAAATTT-TTGAAA
1 GGATTATTAAAGGCATTTTTGGC-TAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTG-AG
* * *
6849522 GGGATTATTGAAGTA--ATTTTTTGCCAAAAACACCTTCAATAATCCCTCA-TAAAAATTTAT-T
64 GGGATTATTGAAG-AGCGTTTTTAGCCAAAAATACCTTCAATAA--CCTCATTAAAAATTT-TGT
*
6849583 GAAG
125 -AAA
* * * * **
6849587 GGATTATTGAAGGTAATTTTGG-TCAAAAAAGCCTTCAATAATCCTTCATAAAAATTTATTGATA
1 GGATTATTAAAGGCATTTTTGGCT-AAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGG
* * * * **
6849651 GGATTATTGAAGAG-GTTTTTAGCCAAAAATGCCTTGAATAACCTTATTGAATTTTTTGTAAA
65 GGATTATTGAAGAGCGTTTTTAGCCAAAAATACCTTCAATAACCTCATTAAAAATTTTGTAAA
* * * *
6849713 GGATTATTCAAGGTATTTTTGGCTAAAAACGCCTTGAATAATCC
1 GGATTATTAAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCC
6849757 AAAAAAAAAT
Statistics
Matches: 740, Mismatches: 139, Indels: 104
0.75 0.14 0.11
Matches are distributed among these distances:
122 6 0.01
123 38 0.05
124 39 0.05
125 147 0.20
126 189 0.26
127 87 0.12
128 70 0.09
129 156 0.21
130 8 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (127 bp):
GGATTATTAAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGAGGG
GATTATTGAAGAGCGTTTTTAGCCAAAAATACCTTCAATAACCTCATTAAAAATTTTGTAAA
Found at i:6850773 original size:24 final size:24
Alignment explanation
Indices: 6850738--6850786 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6850728 AAACCATATC
* *
6850738 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
6850761 ATATTAATAATTAAAAATATAATTA
1 ATATT-ATAATTAAAAATATAATTA
6850786 A
1 A
6850787 AAAAAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:6852043 original size:3 final size:3
Alignment explanation
Indices: 6852035--6852063 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6852025 TTGCAGGGCT
6852035 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6852064 TTGTTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6853133 original size:21 final size:22
Alignment explanation
Indices: 6853088--6853134 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
6853078 AAACTTTAAG
*
6853088 AAAATAGCAAATATAAAAACTA
1 AAAATAGCAAATATAAAAACAA
* *
6853110 AAAATA-CCAATATAAAACCAA
1 AAAATAGCAAATATAAAAACAA
6853131 AAAA
1 AAAA
6853135 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.70, C:0.13, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAATAGCAAATATAAAAACAA
Found at i:6853425 original size:14 final size:14
Alignment explanation
Indices: 6853406--6853440 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6853396 CACTTGAATC
6853406 AATTATAATATATA
1 AATTATAATATATA
6853420 AATTATAA-ATATA
1 AATTATAATATATA
6853433 AA-TATAAT
1 AATTATAAT
6853441 TCTTATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 7 0.35
14 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTATAATATATA
Found at i:6853960 original size:1 final size:1
Alignment explanation
Indices: 6853954--6853981 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6853944 TGCATGTCGG
6853954 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
6853982 GCCCAGAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6855165 original size:22 final size:22
Alignment explanation
Indices: 6855137--6855180 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6855127 TATCCGAAAA
6855137 TTAAATTATTAA-TAAAAATATT
1 TTAAATT-TTAATTAAAAATATT
6855159 TTAAATTTTAATTAAAAATATT
1 TTAAATTTTAATTAAAAATATT
6855181 AATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATTTTAATTAAAAATATT
Found at i:6855175 original size:21 final size:20
Alignment explanation
Indices: 6855136--6855192 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
6855126 CTATCCGAAA
6855136 ATTAAATTATTAATAAAAATAT
1 ATTAAATT-TTAATAAAAA-AT
* *
6855158 TTTAAATTTTAATTAAAAAT
1 ATTAAATTTTAATAAAAAAT
6855178 ATTAATATTTTAATA
1 ATTAA-ATTTTAATA
6855193 TTTTAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.20
21 17 0.57
22 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAAATTTTAATAAAAAAT
Found at i:6857938 original size:23 final size:23
Alignment explanation
Indices: 6857912--6857971 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
6857902 CAAAATAAAT
*
6857912 TAGGAAATCAAGCTGCACTAATG
1 TAGGAAATCAAGCTACACTAATG
*
6857935 TAGGAAAATCATATCTACACTAATG
1 TAGG-AAATCA-AGCTACACTAATG
6857960 TAGGAGAATCAA
1 TAGGA-AATCAA
6857972 ATTTCTACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 4 0.12
24 8 0.25
25 20 0.62
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (23 bp):
TAGGAAATCAAGCTACACTAATG
Found at i:6864502 original size:180 final size:180
Alignment explanation
Indices: 6864200--6864558 Score: 646
Period size: 180 Copynumber: 2.0 Consensus size: 180
6864190 CTAAATCAAA
* * *
6864200 TGTGACTCCTATTGTTCACATAAACATTACAACTCTAAAAGCAAGAGGTTTGCTTGAAACAGGCT
1 TGTGACTCCTATCGTTCACAAAAACATTACAACTCCAAAAGCAAGAGGTTTGCTTGAAACAGGCT
*
6864265 GACATAATCAAAGTTCATATCACAAAGAATGTAAGAAATCATGCCAAACTCCAACTACATGAAAC
66 GACATAATCAAAGTTCATATCACAAAGAATGTAAGAAAGCATGCCAAACTCCAACTACATGAAAC
6864330 CAGTGAAGCCAAGCTACAACTTGCTACATATGATAACTCTAAACAGCAGT
131 CAGTGAAGCCAAGCTACAACTTGCTACATATGATAACTCTAAACAGCAGT
* *
6864380 TGTGACTCCTATCGTTCACAAAAACATTACAACTCCAAAAGCAAGAGGTTTTCTTGAGACAGGCT
1 TGTGACTCCTATCGTTCACAAAAACATTACAACTCCAAAAGCAAGAGGTTTGCTTGAAACAGGCT
6864445 GACATAATCAAAGTTCATATCACAAAGAATGTAAGAAAGCATGCCAAACTCCAACTACATGAAAC
66 GACATAATCAAAGTTCATATCACAAAGAATGTAAGAAAGCATGCCAAACTCCAACTACATGAAAC
* *
6864510 CAGTGAAGCCAAGCTACAATTTGCTACTTATGATAACTCTAAACAGCAG
131 CAGTGAAGCCAAGCTACAACTTGCTACATATGATAACTCTAAACAGCAG
6864559 CTACATCTTA
Statistics
Matches: 171, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
180 171 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (180 bp):
TGTGACTCCTATCGTTCACAAAAACATTACAACTCCAAAAGCAAGAGGTTTGCTTGAAACAGGCT
GACATAATCAAAGTTCATATCACAAAGAATGTAAGAAAGCATGCCAAACTCCAACTACATGAAAC
CAGTGAAGCCAAGCTACAACTTGCTACATATGATAACTCTAAACAGCAGT
Found at i:6864600 original size:24 final size:24
Alignment explanation
Indices: 6864543--6864592 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6864533 CTACTTATGA
* *
6864543 TAACTCTAAACAGCAGCTACATCT
1 TAACTCTAAACAGAAGCAACATCT
6864567 TAACTCTAAACAGAAGCAACATCT
1 TAACTCTAAACAGAAGCAACATCT
6864591 TA
1 TA
6864593 CAGTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (24 bp):
TAACTCTAAACAGAAGCAACATCT
Found at i:6866164 original size:72 final size:73
Alignment explanation
Indices: 6866063--6866200 Score: 224
Period size: 72 Copynumber: 1.9 Consensus size: 73
6866053 ATATACATAT
* *
6866063 GATAGTTGTCCTACATAAATACAAATGCACTGAAGCACACCAACTATATCCTATATCAGAAATTA
1 GATAGTAGTCCTACATAAATACAAATGCACTGAAACACACCAACTATATCCTATATCAGAAATTA
6866128 GTCAATAA
66 GTCAATAA
* * *
6866136 GATAGTAGTCCTACGT-AATACAAATGCACTGAAACACGCCAACTATATGCTATATCAGAAATTA
1 GATAGTAGTCCTACATAAATACAAATGCACTGAAACACACCAACTATATCCTATATCAGAAATTA
6866200 G
66 G
6866201 CCAGTACGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 46 0.77
73 14 0.23
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.25
Consensus pattern (73 bp):
GATAGTAGTCCTACATAAATACAAATGCACTGAAACACACCAACTATATCCTATATCAGAAATTA
GTCAATAA
Found at i:6866365 original size:2 final size:2
Alignment explanation
Indices: 6866358--6866384 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6866348 CGAGCACAAA
6866358 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
6866385 AAGATGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6870226 original size:2 final size:2
Alignment explanation
Indices: 6870219--6870248 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6870209 GGAAATCCAT
6870219 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6870249 AACCCGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6876242 original size:3 final size:3
Alignment explanation
Indices: 6876236--6876285 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
6876226 AATAATAATA
* *
6876236 ATT ATT ATA AAT ATT ATT ATT ATT A-T ATT A-T ATT A-T ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6876280 ATT ATT
1 ATT ATT
6876286 TTGTAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 8 0.21
3 31 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6876257 original size:18 final size:18
Alignment explanation
Indices: 6876227--6876276 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
6876217 TAGTATAATA
*
6876227 ATAATAATA-ATTATTAT
1 ATAATATTATATTATTAT
6876244 A-AATATTATTATTATTAT
1 ATAATATTA-TATTATTAT
*
6876262 ATTATATTATATTAT
1 ATAATATTATATTAT
6876277 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 1 0.04
18 15 0.54
19 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAATATTATATTATTAT
Found at i:6876266 original size:5 final size:5
Alignment explanation
Indices: 6876250--6876281 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
6876240 TTATAAATAT
6876250 TATTA TTATTA TATTA TATTA TATTA TATTA T
1 TATTA -TATTA TATTA TATTA TATTA TATTA T
6876282 TATTTTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:6877374 original size:35 final size:35
Alignment explanation
Indices: 6877335--6877401 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
6877325 GTTTTTATAG
*
6877335 CTTTTAATTTAATATTTTGGTATTGGAATATTCAA
1 CTTTTAATTTAATATTTTCGTATTGGAATATTCAA
6877370 CTTTTAATTTAATATTTTCGTATTGGAATATT
1 CTTTTAATTTAATATTTTCGTATTGGAATATT
6877402 TTGTTGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (35 bp):
CTTTTAATTTAATATTTTCGTATTGGAATATTCAA
Found at i:6877475 original size:16 final size:17
Alignment explanation
Indices: 6877448--6877481 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6877438 AGAAATCAGG
6877448 AATTTAAAATATAATTT
1 AATTTAAAATATAATTT
*
6877465 AATTT-AAATATATTTT
1 AATTTAAAATATAATTT
6877481 A
1 A
6877482 TTATTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTAAAATATAATTT
Found at i:6877634 original size:9 final size:9
Alignment explanation
Indices: 6877622--6877647 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6877612 ATTTAATTTA
6877622 AAATTAACT
1 AAATTAACT
6877631 AAATTAACT
1 AAATTAACT
6877640 AAATTAAC
1 AAATTAAC
6877648 ACTCTGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATTAACT
Found at i:6878781 original size:30 final size:30
Alignment explanation
Indices: 6878734--6878791 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6878724 GTTTTGTTTG
* *
6878734 AGAAAATATTTTCTATTTTTATTTTTTTCT
1 AGAAAATATTTTCTATTTTCAATTTTTTCT
*
6878764 AGAAAATGGTTTT-TATTTTCAATTTTTT
1 AGAAAAT-ATTTTCTATTTTCAATTTTTT
6878792 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (30 bp):
AGAAAATATTTTCTATTTTCAATTTTTTCT
Found at i:6880481 original size:12 final size:13
Alignment explanation
Indices: 6880447--6880493 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 13
6880437 TTCGATCGAG
* *
6880447 TTCGAGTTTCGAA
1 TTCGAATTTTGAA
6880460 TCTCGAATTTTGAA
1 T-TCGAATTTTGAA
6880474 TT-GAA-TTTGAA
1 TTCGAATTTTGAA
6880485 TTCGAATTT
1 TTCGAATTT
6880494 AATACTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 8 0.28
12 6 0.21
13 4 0.14
14 11 0.38
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (13 bp):
TTCGAATTTTGAA
Found at i:6880484 original size:11 final size:12
Alignment explanation
Indices: 6880447--6880493 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6880437 TTCGATCGAG
*
6880447 TTCGAGTTTCGAA
1 TTCGAATTT-GAA
6880460 TCTCGAATTTTGAA
1 T-TCGAA-TTTGAA
6880474 TT-GAATTTGAA
1 TTCGAATTTGAA
6880485 TTCGAATTT
1 TTCGAATTT
6880494 AATACTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 8 0.27
12 9 0.30
13 2 0.07
14 8 0.27
15 3 0.10
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (12 bp):
TTCGAATTTGAA
Found at i:6880699 original size:15 final size:15
Alignment explanation
Indices: 6880679--6880740 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 15
6880669 TTTATACAAA
6880679 ATAAATTATAAATAT
1 ATAAATTATAAATAT
6880694 ATAAATTATAAATATT
1 ATAAATTATAAATA-T
* *
6880710 TTATATTATATAAATAT
1 ATA-AAT-TATAAATAT
6880727 ATAAATTATCAAAT
1 ATAAATTAT-AAAT
6880741 TTATTTAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 17 0.44
16 9 0.23
17 5 0.13
18 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATTATAAATAT
Found at i:6881335 original size:6 final size:6
Alignment explanation
Indices: 6881324--6881356 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
6881314 CCGTCCACCT
*
6881324 CATCAC CATCAC CATCAC CATCAC CACCAC CAT
1 CATCAC CATCAC CATCAC CATCAC CATCAC CAT
6881357 AATCACAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (6 bp):
CATCAC
Found at i:6884503 original size:22 final size:19
Alignment explanation
Indices: 6884473--6884522 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
6884463 ACGAAAAATT
6884473 AAAAAAAGTGAAAAAGAGGAA
1 AAAAAAAGT-AAAAA-AGGAA
*
6884494 AATAAAAAGTAAAAAATGAA
1 AA-AAAAAGTAAAAAAGGAA
6884514 AAAAAAAGT
1 AAAAAAAGT
6884523 TAAGAGCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 7 0.26
20 6 0.22
21 7 0.26
22 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAAAAAGTAAAAAAGGAA
Found at i:6885975 original size:24 final size:24
Alignment explanation
Indices: 6885950--6885998 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
6885940 CTTTTTCTTT
* *
6885950 TTTTTA-TTATTTTTTGTTTT-GA
1 TTTTTATTTAATTTTTATTTTCGA
6885972 TTTTTATTTAATTTTTATTTTCGA
1 TTTTTATTTAATTTTTATTTTCGA
6885996 TTT
1 TTT
6885999 AATTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 12 0.52
24 5 0.22
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTTATTTAATTTTTATTTTCGA
Found at i:6886008 original size:28 final size:25
Alignment explanation
Indices: 6885959--6886038 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 25
6885949 TTTTTTATTA
* *
6885959 TTTTTTGTTTTGATTTTTATTTAATTT
1 TTTTTTG-TTT-AATTTGATTTAATTT
6885986 TTATTTTCGATTTAATTTGATTTAA--T
1 TT-TTTT-G-TTTAATTTGATTTAATTT
*
6886012 TTTTTTGTTTAATTTGATTTGATTT
1 TTTTTTGTTTAATTTGATTTAATTT
6886037 TT
1 TT
6886039 CTGTTTGGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 14 0.31
24 1 0.02
25 7 0.16
26 3 0.07
27 2 0.04
28 14 0.31
29 4 0.09
ACGTcount: A:0.19, C:0.01, G:0.09, T:0.71
Consensus pattern (25 bp):
TTTTTTGTTTAATTTGATTTAATTT
Found at i:6886054 original size:23 final size:23
Alignment explanation
Indices: 6885996--6886044 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
6885986 TTATTTTCGA
*
6885996 TTTAATTTGATTTAATTTTTTTG
1 TTTAATTTGATTTAATTTTTCTG
*
6886019 TTTAATTTGATTTGATTTTTCTG
1 TTTAATTTGATTTAATTTTTCTG
6886042 TTT
1 TTT
6886045 GGTTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.02, G:0.10, T:0.69
Consensus pattern (23 bp):
TTTAATTTGATTTAATTTTTCTG
Found at i:6886353 original size:20 final size:20
Alignment explanation
Indices: 6886299--6886353 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
6886289 ATTTGCATGG
*
6886299 TATTT-TATATTTAATTGCA
1 TATTTCTATATTTATTTGCA
* **
6886318 TAATTACTA-AAATATTTGCA
1 T-ATTTCTATATTTATTTGCA
6886338 TATTTCTATATTTATT
1 TATTTCTATATTTATT
6886354 GTATGCATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 5
0.68 0.18 0.13
Matches are distributed among these distances:
19 7 0.27
20 17 0.65
21 2 0.08
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTTCTATATTTATTTGCA
Found at i:6897090 original size:13 final size:13
Alignment explanation
Indices: 6897072--6897102 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6897062 ATTTTACTTA
*
6897072 AAAAATTAAAAAT
1 AAAAATAAAAAAT
6897085 AAAAATAAAAAAT
1 AAAAATAAAAAAT
6897098 AAAAA
1 AAAAA
6897103 AAGAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:6897104 original size:8 final size:7
Alignment explanation
Indices: 6897070--6897103 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
6897060 ATATTTTACT
6897070 TAAAAAA
1 TAAAAAA
*
6897077 TTAAAAA
1 TAAAAAA
6897084 T-AAAAA
1 TAAAAAA
6897090 TAAAAAA
1 TAAAAAA
6897097 TAAAAAA
1 TAAAAAA
6897104 AGAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:6897955 original size:91 final size:89
Alignment explanation
Indices: 6897731--6897945 Score: 304
Period size: 90 Copynumber: 2.4 Consensus size: 89
6897721 CCCTATTTAT
* * * *
6897731 ATTTAGATGATAAAATGGATAAGATTATTTGATAGTGCATGATGTCCATGAAGATCATGCATGAA
1 ATTTGGATGAT-AAATGGATGAGATTACTTGATAGTGCATGATATCCATGAAGATCATGCATGAA
6897796 ACCCATGTTGATAAAAAATCTTTGA
65 ACCCATGTTGATAAAAAATCTTTGA
* * *
6897821 ATTTGGATGATAAAGTGTATGAGATTACTTAATAGTGCATGATATCCATGAGGATCATGCATGAT
1 ATTTGGATGATAAA-TGGATGAGATTACTTGATAGTGCATGATATCCATGAAGATCATGCATGA-
* * *
6897886 AACCCATGTTGATAAGAATTTTTTGA
64 AACCCATGTTGATAAAAAATCTTTGA
6897912 ATTTGGATGATGAAATGGATGAGATTACTTGATA
1 ATTTGGATGAT-AAATGGATGAGATTACTTGATA
6897946 AGCCATGATA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
89 3 0.03
90 53 0.48
91 51 0.46
92 3 0.03
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (89 bp):
ATTTGGATGATAAATGGATGAGATTACTTGATAGTGCATGATATCCATGAAGATCATGCATGAAA
CCCATGTTGATAAAAAATCTTTGA
Found at i:6898513 original size:45 final size:43
Alignment explanation
Indices: 6898399--6898605 Score: 163
Period size: 43 Copynumber: 4.8 Consensus size: 43
6898389 AGAATGATCT
* ** * *
6898399 CATTTTATTTTTTAAAAGTTTCAAAATTTCAGTTATAATGGAG
1 CATTTTCTTTTTTAAAAGTTTCAAAGCTTCAGTTATGATGAAG
*
6898442 CATTTTCTTTTTTAAAAGTTTCAAAGCCTCAGTTATGATGAAG
1 CATTTTCTTTTTTAAAAGTTTCAAAGCTTCAGTTATGATGAAG
* * * *
6898485 TATTTTATTTTTTTTAAAAGATTCAAAGCTTCAATTATGGGA-GAA-
1 CA-TTT-TCTTTTTTAAAAGTTTCAAAGCTTCAGTTAT--GATGAAG
** * * *
6898530 CA-TTTAGTTTTCAAAAGTTTCAAAGCTTCAATTATGGGTG-AG
1 CATTTTCTTTTTTAAAAGTTTCAAAGCTTCAGTTAT-GATGAAG
* **
6898572 CATTTTATTTTACAAAAGTTTCAAAGTCTT-AGTT
1 CATTTTCTTTTTTAAAAGTTTCAAAG-CTTCAGTT
6898606 GTGGGAGAAG
Statistics
Matches: 136, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.02
42 30 0.22
43 64 0.47
44 6 0.04
45 28 0.21
46 3 0.02
47 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (43 bp):
CATTTTCTTTTTTAAAAGTTTCAAAGCTTCAGTTATGATGAAG
Found at i:6898555 original size:42 final size:41
Alignment explanation
Indices: 6898491--6898620 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 41
6898481 GAAGTATTTT
* *
6898491 ATTT-TTTTTAAAAGATTCAAAGCTTCAATTATGGGAGAAC
1 ATTTATTTTCAAAAGTTTCAAAGCTTCAATTATGGGAGAAC
* *
6898531 ATTTAGTTTTCAAAAGTTTCAAAGCTTCAATTATGGGTGAGC
1 ATTTA-TTTTCAAAAGTTTCAAAGCTTCAATTATGGGAGAAC
* *
6898573 ATTTTATTTTACAAAAGTTTCAAAGTCTT-AGTTGTGGGAGAAGC
1 A-TTTATTTT-CAAAAGTTTCAAAG-CTTCAATTATGGGAGAA-C
6898617 ATTT
1 ATTT
6898621 TTCAAAAAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
40 4 0.05
42 37 0.49
43 30 0.39
44 5 0.07
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (41 bp):
ATTTATTTTCAAAAGTTTCAAAGCTTCAATTATGGGAGAAC
Found at i:6898876 original size:6 final size:6
Alignment explanation
Indices: 6898859--6898932 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
6898849 AAAGCCCAAA
* * * *
6898859 AATTTT -ATTTT AATTTT AATTTT GATTTT AATTTT GATTTT -AGTCT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* *
6898905 AATTTT GATTTT AACTTT -ATTTT -ATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
6898933 TTTGTTTAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
5 17 0.31
6 38 0.69
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:6898881 original size:17 final size:17
Alignment explanation
Indices: 6898859--6898945 Score: 77
Period size: 17 Copynumber: 5.0 Consensus size: 17
6898849 AAAGCCCAAA
6898859 AATTTTATTTTAATTTT
1 AATTTTATTTTAATTTT
6898876 AATTTTGATTTTAATTTT
1 AATTTT-ATTTTAATTTT
* * *
6898894 GATTTTAGTCTAATTTT
1 AATTTTATTTTAATTTT
* *
6898911 GATTTTAACTTT-ATTTT
1 AATTTT-ATTTTAATTTT
* *
6898928 ATTTTTTTGTTTAATTTT
1 AATTTTAT-TTTAATTTT
6898946 TGGTTAAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
17 33 0.58
18 24 0.42
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (17 bp):
AATTTTATTTTAATTTT
Found at i:6899921 original size:16 final size:17
Alignment explanation
Indices: 6899897--6899947 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
6899887 GATTTTTACA
6899897 TTTATTTTGCATGAC-AT
1 TTTA-TTTGCATGACTAT
* *
6899914 TTTATTTGTATGTCTAT
1 TTTATTTGCATGACTAT
*
6899931 TATATTTGCATG-CTAT
1 TTTATTTGCATGACTAT
6899947 T
1 T
6899948 ATGATTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (17 bp):
TTTATTTGCATGACTAT
Found at i:6899948 original size:16 final size:17
Alignment explanation
Indices: 6899898--6899949 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
6899888 ATTTTTACAT
6899898 TTAT-TTTGCATGAC-A
1 TTATATTTGCATGACTA
* * *
6899913 TTTTATTTGTATGTCTA
1 TTATATTTGCATGACTA
6899930 TTATATTTGCATG-CTA
1 TTATATTTGCATGACTA
6899946 TTAT
1 TTAT
6899950 GATTAGTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 3 0.10
16 15 0.50
17 12 0.40
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.56
Consensus pattern (17 bp):
TTATATTTGCATGACTA
Found at i:6900217 original size:18 final size:20
Alignment explanation
Indices: 6900180--6900220 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
6900170 ATTTGCATGG
*
6900180 TATTATTGCTTTGCATTTTA
1 TATTATTGCTGTGCATTTTA
6900200 TATTATTGC-GTG-ATTTTA
1 TATTATTGCTGTGCATTTTA
6900218 TAT
1 TAT
6900221 AGTTGCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.59
Consensus pattern (20 bp):
TATTATTGCTGTGCATTTTA
Found at i:6900996 original size:10 final size:9
Alignment explanation
Indices: 6900983--6901021 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
6900973 AAAAAAAAAC
6900983 AAAAAAGCTA
1 AAAAAAG-TA
6900993 AAAAAAGTAA
1 AAAAAAGT-A
*
6901003 AAAAAAGAA
1 AAAAAAGTA
6901012 AAAAAAGTA
1 AAAAAAGTA
6901021 A
1 A
6901022 CCGAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:6901198 original size:20 final size:20
Alignment explanation
Indices: 6901144--6901206 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 20
6901134 AAATTAAGAT
* **
6901144 ATTAAAT-AATAATAATATT
1 ATTAAATAAATAATTATAAA
6901163 ATTATAATATATATAATTATAAA
1 ATTA-AATA-A-ATAATTATAAA
6901186 ATTAAATAAATAATT-TAAA
1 ATTAAATAAATAATTATAAA
6901205 AT
1 AT
6901207 ACAATTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 10 0.27
20 9 0.24
21 1 0.03
22 5 0.14
23 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAAATAAATAATTATAAA
Found at i:6901448 original size:9 final size:8
Alignment explanation
Indices: 6901433--6901471 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
6901423 AATTATTTAA
*
6901433 TAAAAATT
1 TAAAAAAT
6901441 TAAAAAAT
1 TAAAAAAT
6901449 TAAAAAAT
1 TAAAAAAT
6901457 TAAAAAAT
1 TAAAAAAT
6901465 TAAAAAA
1 TAAAAAA
6901472 GCAAAAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAAAAT
Found at i:6901477 original size:16 final size:16
Alignment explanation
Indices: 6901442--6901479 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6901432 ATAAAAATTT
**
6901442 AAAAAATTAAAAAATT
1 AAAAAATTAAAAAAGC
6901458 AAAAAATTAAAAAAGC
1 AAAAAATTAAAAAAGC
6901474 AAAAAA
1 AAAAAA
6901480 GTGAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAAATTAAAAAAGC
Found at i:6901477 original size:24 final size:24
Alignment explanation
Indices: 6901433--6901479 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6901423 AATTATTTAA
* **
6901433 TAAAAATTTAAAAAATTAAAAAAT
1 TAAAAAATTAAAAAAGCAAAAAAT
6901457 TAAAAAATTAAAAAAGCAAAAAA
1 TAAAAAATTAAAAAAGCAAAAAA
6901480 GTGAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (24 bp):
TAAAAAATTAAAAAAGCAAAAAAT
Found at i:6901781 original size:29 final size:31
Alignment explanation
Indices: 6901748--6901816 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
6901738 TTCAAACATT
* *
6901748 AAAAAAAAACTATAAAT-ATT-TAAA-AAAAG
1 AAAAAAAAA-TAAAAATGATTAAAAAGAAAAG
*
6901777 AAAAAGTAAATAAAAATGATTAAAAAGAAAAG
1 AAAAA-AAAATAAAAATGATTAAAAAGAAAAG
6901809 AAAAAAAA
1 AAAAAAAA
6901817 GAAGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
29 11 0.34
30 6 0.19
31 5 0.16
32 10 0.31
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.16
Consensus pattern (31 bp):
AAAAAAAAATAAAAATGATTAAAAAGAAAAG
Found at i:6903610 original size:17 final size:18
Alignment explanation
Indices: 6903588--6903626 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6903578 TTAATTAAAA
*
6903588 AATAA-TTTTTAATCTAT
1 AATAATTTTTTAATCAAT
6903605 AATAATTTTTTAATCAAT
1 AATAATTTTTTAATCAAT
6903623 AATA
1 AATA
6903627 TTAAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAATTTTTTAATCAAT
Found at i:6904012 original size:33 final size:34
Alignment explanation
Indices: 6903964--6904028 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
6903954 TTATTAAATA
*
6903964 TAAAAAATAACAAAAAACAGAAAGAAATAAAACT
1 TAAAAAATAACAAAAAACAGAAAAAAATAAAACT
* **
6903998 TAAAAACTAA-AAAAAATGGAAAAAAATAAAA
1 TAAAAAATAACAAAAAACAGAAAAAAATAAAA
6904029 AACTAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.12
Consensus pattern (34 bp):
TAAAAAATAACAAAAAACAGAAAAAAATAAAACT
Found at i:6905005 original size:8 final size:8
Alignment explanation
Indices: 6904962--6904987 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6904952 GGTTTTTATG
6904962 TATTAAAA
1 TATTAAAA
6904970 TATTAAAA
1 TATTAAAA
6904978 TATTAAAA
1 TATTAAAA
6904986 TA
1 TA
6904988 ATTTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATTAAAA
Found at i:6905053 original size:14 final size:14
Alignment explanation
Indices: 6905036--6905062 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6905026 GAAAAATGAT
6905036 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
6905050 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
6905063 TAATTTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:6905313 original size:8 final size:8
Alignment explanation
Indices: 6905295--6905345 Score: 70
Period size: 8 Copynumber: 6.4 Consensus size: 8
6905285 AATATTTATT
6905295 AAATATAAA
1 AAAT-TAAA
6905304 AAATT-AA
1 AAATTAAA
6905311 AAATTAAA
1 AAATTAAA
6905319 AAATTAAA
1 AAATTAAA
6905327 AAATTAAA
1 AAATTAAA
6905335 AAGA-TAAA
1 AA-ATTAAA
6905343 AAA
1 AAA
6905346 CTAATAATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 8 0.20
8 27 0.68
9 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AAATTAAA
Found at i:6905314 original size:7 final size:7
Alignment explanation
Indices: 6905292--6905336 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
6905282 CAAAATATTT
*
6905292 ATTAAAT
1 ATTAAAA
*
6905299 ATAAAAA
1 ATTAAAA
6905306 ATTAAAA
1 ATTAAAA
6905313 ATTAAAAA
1 ATT-AAAA
6905321 ATTAAAAA
1 ATT-AAAA
6905329 ATTAAAA
1 ATTAAAA
6905336 A
1 A
6905337 GATAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 19 0.56
8 15 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATTAAAA
Found at i:6912607 original size:172 final size:172
Alignment explanation
Indices: 6912321--6912668 Score: 660
Period size: 172 Copynumber: 2.0 Consensus size: 172
6912311 AAAAAGCCTA
*
6912321 ACATAAGTTATTTTCATCCTTTTGGTTGCCAATGTTTTATTTTGAATAATGGAAAAGATAATCTT
1 ACATAAGTTAATTTCATCCTTTTGGTTGCCAATGTTTTATTTTGAATAATGGAAAAGATAATCTT
*
6912386 AAAAAATTTGATGCAGAAAGTCATGAAGGTATTTTCCTAGAATATTATTTAAATTTAAAAGTCTA
66 AAAAAATTTGATGCAGAAAGTCATGAAGGTATTTTCCTAGAATATTATTTAAATTTAAAAGCCTA
*
6912451 TAAAGTCTTTAATAAAGGAACATTAGTTGTAGAAGAGTCTAT
131 TAAAGTCTTTAATAAAAGAACATTAGTTGTAGAAGAGTCTAT
6912493 ACATAAGTTAATTTCATCCTTTTGGTTGCCAATGTTTTATTTTGAATAATGGAAAAGATAATCTT
1 ACATAAGTTAATTTCATCCTTTTGGTTGCCAATGTTTTATTTTGAATAATGGAAAAGATAATCTT
6912558 AAAAAATTTGATGCAGAAAGTCATGAAGGTATTTTCCTAGAATATTATTTAAATTTAAAAGCCTA
66 AAAAAATTTGATGCAGAAAGTCATGAAGGTATTTTCCTAGAATATTATTTAAATTTAAAAGCCTA
*
6912623 TAGAGTCTTTAATAAAAGAACATTAGTTGTAGAAGAGTCTAT
131 TAAAGTCTTTAATAAAAGAACATTAGTTGTAGAAGAGTCTAT
6912665 ACAT
1 ACAT
6912669 GTTATATTTG
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (172 bp):
ACATAAGTTAATTTCATCCTTTTGGTTGCCAATGTTTTATTTTGAATAATGGAAAAGATAATCTT
AAAAAATTTGATGCAGAAAGTCATGAAGGTATTTTCCTAGAATATTATTTAAATTTAAAAGCCTA
TAAAGTCTTTAATAAAAGAACATTAGTTGTAGAAGAGTCTAT
Found at i:6923375 original size:15 final size:16
Alignment explanation
Indices: 6923345--6923378 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6923335 ACATCTTAAA
*
6923345 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
6923361 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
6923376 ATT
1 ATT
6923379 TTTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:6931097 original size:3 final size:3
Alignment explanation
Indices: 6931089--6931151 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
6931079 AGATTTATGC
6931089 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6931137 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
6931152 AATTCCAACC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6940218 original size:9 final size:9
Alignment explanation
Indices: 6940204--6940228 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6940194 TTAACTAAAA
6940204 AAATTAACC
1 AAATTAACC
6940213 AAATTAACC
1 AAATTAACC
6940222 AAATTAA
1 AAATTAA
6940229 TCGAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:6945909 original size:191 final size:188
Alignment explanation
Indices: 6945546--6945916 Score: 423
Period size: 191 Copynumber: 2.0 Consensus size: 188
6945536 ATAATATGAC
* * * * ** * * *
6945546 AATTATTTTTCTTGAAATTTCATTTAAATTCTTCCATTATTTGGGACGAATTTAAACAAATTTCT
1 AATTATTGTTATTGAAATTTCATCTAAATTATTCCACAATTTAGGACAAATTTAAAAAAATTTCT
*
6945611 CACCTAGAGATTTCTTAAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAGATAATTA
66 CACCTAGAGAATTCTTAAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAGATAATTA
* * *
6945676 TCAAATATTTTCAATCAAATTTTTATTTTTTCTTTCTTTTTTTCGTTTGAAAATAAATATT
131 TCAAATATTCTCAA-CAAATTTTTATTTTCTCTTTATTTTTTT--TTTGAAAATAAATATT
6945737 AATTATTGTTATTGAAACTTT-ATCTAAATTATTCCACAATTTAGGACAAATTTAGAAAAAATTT
1 AATTATTGTTATTGAAA-TTTCATCTAAATTATTCCACAATTTAGGACAAATTTA-AAAAAATTT
* * *
6945801 CTCACCTA-AGAATT-TTATAAAAATTTACCATTTGATATTTCTATA-AATTTCATCATTGGATA
64 CTCACCTAGAGAATTCTTA-AAAAATTTACCATTTGAAATTTCTA-AGAATCTCATCATTAGATA
** *
6945863 ATTAAT-ATTTATTCTCAA-AATATTTTT-TTATTCTGTTTAATTTTTTTTTTGAAA
127 ATT-ATCAAATATTCTCAACAA-ATTTTTATT-TTCTCTTT-ATTTTTTTTTTGAAA
6945917 TAATAGTATA
Statistics
Matches: 153, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
189 11 0.07
190 15 0.10
191 105 0.69
192 22 0.14
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (188 bp):
AATTATTGTTATTGAAATTTCATCTAAATTATTCCACAATTTAGGACAAATTTAAAAAAATTTCT
CACCTAGAGAATTCTTAAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAGATAATTA
TCAAATATTCTCAACAAATTTTTATTTTCTCTTTATTTTTTTTTTGAAAATAAATATT
Found at i:6947152 original size:16 final size:15
Alignment explanation
Indices: 6947112--6947159 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
6947102 AAAACCAAAG
*
6947112 ATAAATTACATAAAAA
1 ATAAATAACA-AAAAA
6947128 ATGAAATAACAAAACAA
1 AT-AAATAACAAAA-AA
6947145 ATAAATAATCAAAAA
1 ATAAATAA-CAAAAA
6947160 GGATAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.19
Consensus pattern (15 bp):
ATAAATAACAAAAAA
Found at i:6949907 original size:18 final size:18
Alignment explanation
Indices: 6949886--6949920 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6949876 AATTTATTTG
6949886 TTTGTTTTGAATAGACTA
1 TTTGTTTTGAATAGACTA
6949904 TTTGTTTTGAATAGACT
1 TTTGTTTTGAATAGACT
6949921 TAACTATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (18 bp):
TTTGTTTTGAATAGACTA
Found at i:6963127 original size:24 final size:23
Alignment explanation
Indices: 6963082--6963132 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
6963072 GAGCCCGTTT
*
6963082 TTTTGTTTTATTTTTATTTTTAC
1 TTTTGTTTTATTTTTATATTTAC
*
6963105 TTTTGTTTTTATTTATT-TATTTAG
1 TTTTG-TTTTATTT-TTATATTTAC
6963129 TTTT
1 TTTT
6963133 ATAATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 17 0.71
25 2 0.08
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTGTTTTATTTTTATATTTAC
Found at i:6963173 original size:10 final size:10
Alignment explanation
Indices: 6963158--6963218 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
6963148 ATAAGATATT
6963158 AAACAAAAAA
1 AAACAAAAAA
6963168 AAACAAAACAA
1 AAACAAAA-AA
6963179 AAA-AAATTAAA
1 AAACAAA--AAA
6963190 AAACACAAAAA
1 AAACA-AAAAA
**
6963201 AATTAAAAAA
1 AAACAAAAAA
6963211 AAACAAAA
1 AAACAAAA
6963219 TGGCTTGGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 22 0.52
11 16 0.38
12 2 0.05
13 2 0.05
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.07
Consensus pattern (10 bp):
AAACAAAAAA
Found at i:6963199 original size:18 final size:18
Alignment explanation
Indices: 6963160--6963210 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
6963150 AAGATATTAA
6963160 ACAAAAAAA--AACAAAAC
1 ACAAAAAAATTAA-AAAAC
6963177 A-AAAAAAATTAAAAAAC
1 ACAAAAAAATTAAAAAAC
6963194 ACAAAAAAATTAAAAAA
1 ACAAAAAAATTAAAAAA
6963211 AAACAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 17 0.55
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (18 bp):
ACAAAAAAATTAAAAAAC
Found at i:6963453 original size:7 final size:7
Alignment explanation
Indices: 6963441--6963473 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
6963431 TCACTACCAC
6963441 TGAGCCT
1 TGAGCCT
6963448 TGAGCCT
1 TGAGCCT
6963455 TGAGCCT
1 TGAGCCT
*
6963462 TGAGCCC
1 TGAGCCT
6963469 TGAGC
1 TGAGC
6963474 TTAAGCCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
TGAGCCT
Found at i:6963931 original size:18 final size:17
Alignment explanation
Indices: 6963903--6963937 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
6963893 ACCATCAAAC
6963903 CAAAAAAAAAAAAAGAA
1 CAAAAAAAAAAAAAGAA
6963920 CAAAAAACAAAAAAAGAA
1 CAAAAAA-AAAAAAAGAA
6963938 AGAGGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.86, C:0.09, G:0.06, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAAAGAA
Found at i:6964453 original size:21 final size:21
Alignment explanation
Indices: 6964412--6964472 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 21
6964402 GTTATGTACT
*
6964412 TTTTTTAA-ATTTTTTGATTTAA
1 TTTTTTAATATTATTT--TTTAA
*
6964434 TTTTTTAATATTATTTTTTAG
1 TTTTTTAATATTATTTTTTAA
*
6964455 TTTTTT--TATTATTGTTTA
1 TTTTTTAATATTATTTTTTA
6964473 TGCTATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.31
21 10 0.29
22 8 0.23
23 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTTTAATATTATTTTTTAA
Found at i:6964819 original size:15 final size:15
Alignment explanation
Indices: 6964801--6964844 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6964791 TAAAAATTTG
*
6964801 AAACCCTAAAATTCA
1 AAACCCTAAAACTCA
* *
6964816 AAACCATAAAACTCT
1 AAACCCTAAAACTCA
*
6964831 AAATCCTAAAACTC
1 AAACCCTAAAACTC
6964845 TCAAAATTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTAAAACTCA
Found at i:6964897 original size:23 final size:23
Alignment explanation
Indices: 6964871--6964923 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
6964861 CCAAAAATTA
* **
6964871 AAACCCTAAACCCTCAAAACCCT
1 AAACCCTAAACACTCAAAACAAT
* *
6964894 AAACCTTAAATACTCAAAACAAT
1 AAACCCTAAACACTCAAAACAAT
6964917 AAACCCT
1 AAACCCT
6964924 TAAAATCTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (23 bp):
AAACCCTAAACACTCAAAACAAT
Found at i:6964974 original size:15 final size:17
Alignment explanation
Indices: 6964954--6964986 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6964944 TCAAAACCCT
6964954 AAACC-TAAAA-CATGA
1 AAACCTTAAAATCATGA
6964969 AAACCTTAAAATCATGA
1 AAACCTTAAAATCATGA
6964986 A
1 A
6964987 CCCTCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (17 bp):
AAACCTTAAAATCATGA
Found at i:6965023 original size:16 final size:15
Alignment explanation
Indices: 6965004--6965046 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
6964994 AACCCTAAAC
6965004 CTTAAATACTTAAAAT
1 CTTAAA-ACTTAAAAT
*
6965020 CTTAAACCTTAAAAT
1 CTTAAAACTTAAAAT
*
6965035 C-TAAGACTTAAA
1 CTTAAAACTTAAA
6965047 CCCTAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.38
15 9 0.38
16 6 0.25
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (15 bp):
CTTAAAACTTAAAAT
Found at i:6965067 original size:15 final size:14
Alignment explanation
Indices: 6965006--6965069 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
6964996 CCCTAAACCT
*
6965006 TAAATACTTAAAATC
1 TAAA-ACTTAAACTC
* *
6965021 TTAAACCTTAAAATC
1 -TAAAACTTAAACTC
* *
6965036 TAAGACTTAAACCC
1 TAAAACTTAAACTC
6965050 TAAAACTTGAAACTC
1 TAAAACTT-AAACTC
6965065 TAAAA
1 TAAAA
6965070 TCCTCAACCC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 17 0.43
15 19 0.47
16 4 0.10
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (14 bp):
TAAAACTTAAACTC
Found at i:6965191 original size:15 final size:15
Alignment explanation
Indices: 6965151--6965202 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
6965141 ATAAACCCTT
6965151 AAACCCTAAAATTTCA
1 AAACCCT-AAATTTCA
* *
6965167 AAATCTTAAATTTCA
1 AAACCCTAAATTTCA
* *
6965182 AAACCCTAAAATCCA
1 AAACCCTAAATTTCA
6965197 AAACCC
1 AAACCC
6965203 AAAACCCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (15 bp):
AAACCCTAAATTTCA
Found at i:6973203 original size:3 final size:3
Alignment explanation
Indices: 6973195--6973225 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6973185 ACCAGAAAAG
6973195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6973226 AATGAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6973493 original size:49 final size:49
Alignment explanation
Indices: 6973396--6973589 Score: 205
Period size: 49 Copynumber: 4.0 Consensus size: 49
6973386 TGAAAATTTA
* * * *
6973396 AAAAGCTTCTCTAAGCAAAGGC-TAACAACTTTAAAAGTTCCATCTTGG
1 AAAAGCTTATCTAAGTAGAGGCTTAACAACTTTAAAAATTCCATCTTGG
* * *
6973444 AAAAGCTTATCTAAGTAGAGGCTTTACAACTTTAAAAATTTCATTTTGG
1 AAAAGCTTATCTAAGTAGAGGCTTAACAACTTTAAAAATTCCATCTTGG
* * * * * * *
6973493 AAAAGCTCATTTAATTAGAGGCTTCATAACTTT-AAAATTTCATTTTGG
1 AAAAGCTTATCTAAGTAGAGGCTTAACAACTTTAAAAATTCCATCTTGG
* * *
6973541 AAAATCTCT-TCTAAGTAGAGACTTAACAATTTTAAAAATTCCATCTTGG
1 AAAAGCT-TATCTAAGTAGAGGCTTAACAACTTTAAAAATTCCATCTTGG
6973590 CTTGAAACTA
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 58 0.48
49 63 0.52
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (49 bp):
AAAAGCTTATCTAAGTAGAGGCTTAACAACTTTAAAAATTCCATCTTGG
Found at i:6986189 original size:13 final size:14
Alignment explanation
Indices: 6986171--6986201 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6986161 TTGAAATAAC
6986171 AAAAAT-AATTCAA
1 AAAAATAAATTCAA
6986184 AAAAATAAATTCAA
1 AAAAATAAATTCAA
6986198 AAAA
1 AAAA
6986202 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAATTCAA
Found at i:6986428 original size:25 final size:26
Alignment explanation
Indices: 6986381--6986451 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
6986371 CCTATATGGT
* *
6986381 CAAACAACATCATTTTGGTTATTCCC
1 CAAACGACATCATTTTGGCTATTCCC
**
6986407 CAAACGGGATCA-TTTGGCTATTCCC
1 CAAACGACATCATTTTGGCTATTCCC
6986432 CAAACGACATCATTTTGGCT
1 CAAACGACATCATTTTGGCT
6986452 TTAGGCAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 22 0.58
26 16 0.42
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (26 bp):
CAAACGACATCATTTTGGCTATTCCC
Found at i:6987604 original size:121 final size:120
Alignment explanation
Indices: 6987469--6987715 Score: 424
Period size: 121 Copynumber: 2.0 Consensus size: 120
6987459 AAAAACGAAA
*
6987469 AAAAAACATAAGGCTTTTGTCAAACCAAAAAAATCTTTTCGCTTTCCCAAAAATCTAAAAAAAAA
1 AAAAAACATAAGGCTTTTGTCAAACCAAAAAAATCTTTTCACTTTCCCAAAAATCT--AAAAAAA
*
6987534 AAACCAAACAC-AATAAAAAAAGTCCCATAGGACAGGGACCCAGTACTATCAAACCC
64 AAACCAAACACAAATAAAAAAAGTCCCATAGAACAGGGACCCAGTACTATCAAACCC
6987590 AAAAAACATAAGGCTTTTGTCAAACCAAAAAAATCTTTTCACTTTCCCAAAAATCTAAAAAAAAA
1 AAAAAACATAAGGCTTTTGTCAAACCAAAAAAATCTTTTCACTTTCCCAAAAATCTAAAAAAAAA
* *
6987655 ACCAAACACAAAATAAAAAAAGTCCCATAGAACAGGGACCTAGTGCTATCAAACCC
66 ACCAAACAC-AAATAAAAAAAGTCCCATAGAACAGGGACCCAGTACTATCAAACCC
6987711 AAAAA
1 AAAAA
6987716 GCAAAAAAAA
Statistics
Matches: 120, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
119 18 0.15
121 102 0.85
ACGTcount: A:0.51, C:0.22, G:0.09, T:0.18
Consensus pattern (120 bp):
AAAAAACATAAGGCTTTTGTCAAACCAAAAAAATCTTTTCACTTTCCCAAAAATCTAAAAAAAAA
ACCAAACACAAATAAAAAAAGTCCCATAGAACAGGGACCCAGTACTATCAAACCC
Found at i:6988343 original size:3 final size:3
Alignment explanation
Indices: 6988335--6988380 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6988325 ATATTTATTT
6988335 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6988381 GAAAAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6988687 original size:32 final size:30
Alignment explanation
Indices: 6988645--6988752 Score: 85
Period size: 32 Copynumber: 3.5 Consensus size: 30
6988635 TTGAATTTCG
*
6988645 AAACCCTAAAACTCCTAACCTTAAAACTCTGA
1 AAACCTTAAAACTCCTAACCTTAAAAC-CT-A
* * **
6988677 AAACCTTAAAAATCCAAAATTTAAAACCTTA
1 AAACCTTAAAACTCCTAACCTTAAAACC-TA
* *
6988708 AATA-CTCAAAA-TCCTAAACCTTCAAAACCTT
1 AA-ACCTTAAAACTCCT-AACCTT-AAAACCTA
6988739 AAACCTTAAAACTC
1 AAACCTTAAAACTC
6988753 GAAACCTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
30 4 0.07
31 23 0.39
32 32 0.54
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (30 bp):
AAACCTTAAAACTCCTAACCTTAAAACCTA
Found at i:6988708 original size:8 final size:8
Alignment explanation
Indices: 6988661--6988750 Score: 50
Period size: 7 Copynumber: 11.4 Consensus size: 8
6988651 TAAAACTCCT
6988661 AACCTTAA
1 AACCTTAA
*
6988669 AACTCTGAA
1 AAC-CTTAA
6988678 AACCTTAAA
1 AACCTT-AA
6988687 AATCC--AA
1 AA-CCTTAA
*
6988694 AA-TTTAA
1 AACCTTAA
6988701 AACCTTAA
1 AACCTTAA
*
6988709 ATA-CTCAA
1 A-ACCTTAA
6988717 AATCC-T-A
1 AA-CCTTAA
6988724 AACCTTCAA
1 AACCTT-AA
6988733 AACCTT-A
1 AACCTTAA
6988740 AACCTTAA
1 AACCTTAA
6988748 AAC
1 AAC
6988751 TCGAAACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 26
0.66 0.06 0.27
Matches are distributed among these distances:
6 2 0.03
7 20 0.32
8 19 0.30
9 20 0.32
10 2 0.03
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.24
Consensus pattern (8 bp):
AACCTTAA
Found at i:6988732 original size:16 final size:16
Alignment explanation
Indices: 6988699--6988750 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
6988689 TCCAAAATTT
*
6988699 AAAACCTTAAATAC-TC
1 AAAACCTTAAA-CCTTC
6988715 AAAATCC-TAAACCTTC
1 AAAA-CCTTAAACCTTC
6988731 AAAACCTTAAACCTT-
1 AAAACCTTAAACCTTC
6988746 AAAAC
1 AAAAC
6988751 TCGAAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 22 0.69
17 2 0.06
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAACCTTAAACCTTC
Found at i:6988811 original size:53 final size:54
Alignment explanation
Indices: 6988715--6988816 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 54
6988705 TTAAATACTC
* * * *
6988715 AAAATCCTAAACCTTCAAAACCTTAAACCTTAAAACTCGAAA-CCTAAAGTGCA
1 AAAACCCTAAACATTCAAAACCTTAAACCCTAAAACTCAAAACCCTAAAGTGCA
* * *
6988768 AAAACCCTAAACATTCGAAACCTTAAACCCTACAACTTAAAACCCTAAA
1 AAAACCCTAAACATTCAAAACCTTAAACCCTAAAACTCAAAACCCTAAA
6988817 ATTGTGAACC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 35 0.85
54 6 0.15
ACGTcount: A:0.48, C:0.28, G:0.04, T:0.20
Consensus pattern (54 bp):
AAAACCCTAAACATTCAAAACCTTAAACCCTAAAACTCAAAACCCTAAAGTGCA
Found at i:6988832 original size:38 final size:39
Alignment explanation
Indices: 6988768--6988908 Score: 102
Period size: 39 Copynumber: 3.7 Consensus size: 39
6988758 CTAAAGTGCA
6988768 AAAACCCTAAACATTCGAAACCTT-AAACCCTACAACT-T
1 AAAACCCTAAACATTCGAAACCTTAAAACCCTA-AACTCT
*
6988806 AAAACCCTAAA-ATT-GTGAACCTTTAAAACCCTAAACTCT
1 AAAACCCTAAACATTCG-AAACC-TTAAAACCCTAAACTCT
* * * * *
6988845 AAAATCC-AATAC---CTAAACCATAAAA-CTTGAAACCCT
1 AAAACCCTAA-ACATTCGAAACCTTAAAACCCT-AAACTCT
**
6988881 AAAACCCTAAACCCTCGAAACCTTAAAA
1 AAAACCCTAAACATTCGAAACCTTAAAA
6988909 TTTCAAATCC
Statistics
Matches: 81, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
35 2 0.02
36 20 0.25
37 13 0.16
38 19 0.23
39 27 0.33
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.21
Consensus pattern (39 bp):
AAAACCCTAAACATTCGAAACCTTAAAACCCTAAACTCT
Found at i:6989006 original size:16 final size:16
Alignment explanation
Indices: 6988980--6989029 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
6988970 TCATACCCTT
* *
6988980 AAAACCCTAAAATTTC
1 AAAACCTTAAAATTTA
*
6988996 AAAA-CTTTAAATTTA
1 AAAACCTTAAAATTTA
*
6989011 AAAACCTTAAAATCTA
1 AAAACCTTAAAATTTA
6989027 AAA
1 AAA
6989030 CCTGAAGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAACCTTAAAATTTA
Found at i:6989029 original size:15 final size:15
Alignment explanation
Indices: 6988979--6989121 Score: 60
Period size: 15 Copynumber: 9.3 Consensus size: 15
6988969 ATCATACCCT
* *
6988979 TAAAACCCTAAAATT
1 TAAAACCTTAAAATC
* *
6988994 TCAAAA-CTTTAAATT
1 T-AAAACCTTAAAATC
6989009 TAAAAACCTTAAAATC
1 T-AAAACCTTAAAATC
* **
6989025 TAAAACCTGAAGCTC
1 TAAAACCTTAAAATC
**
6989040 TCAAAACCTTAAACCC
1 T-AAAACCTTAAAATC
* *
6989056 TAAAATCTCAAAATC
1 TAAAACCTTAAAATC
*
6989071 TCAAAACC--AAAACC
1 T-AAAACCTTAAAATC
*
6989085 TTAAAACC-TAAAACC
1 -TAAAACCTTAAAATC
* *
6989100 TTAAAACTTTGAAAACC
1 -TAAAACCTT-AAAATC
6989117 TAAAA
1 TAAAA
6989122 TGAGACCCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.11
15 50 0.49
16 35 0.34
17 6 0.06
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.24
Consensus pattern (15 bp):
TAAAACCTTAAAATC
Found at i:6989045 original size:23 final size:22
Alignment explanation
Indices: 6989019--6989105 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 22
6989009 TAAAAACCTT
**
6989019 AAAATCTAAAACCTGAAGCTCTC
1 AAAATCTAAAACCT-AAAATCTC
* *
6989042 AAAACCTTAAACCCTAAAATCTC
1 AAAATC-TAAAACCTAAAATCTC
* *
6989065 AAAATCTCAAAACC-AAAACCTT
1 AAAATCT-AAAACCTAAAATCTC
*
6989087 AAAACCTAAAACCTTAAAA
1 AAAATCTAAAACC-TAAAA
6989106 CTTTGAAAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 6 0.12
22 13 0.25
23 25 0.49
24 7 0.14
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAATCTAAAACCTAAAATCTC
Found at i:6989059 original size:31 final size:31
Alignment explanation
Indices: 6989011--6989121 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 31
6989001 TTTAAATTTA
** * **
6989011 AAAACCTTAAAATCTAAAACCTGAAGCTCTC
1 AAAACCTTAAACCCTAAAACCTCAAAATCTC
*
6989042 AAAACCTTAAACCCTAAAATCTCAAAATCTC
1 AAAACCTTAAACCCTAAAACCTCAAAATCTC
* * * *
6989073 AAAACC-AAAACCTTAAAACCT-AAAACCTT
1 AAAACCTTAAACCCTAAAACCTCAAAATCTC
* *
6989102 AAAACTTTGAAAACCTAAAA
1 AAAACCTT-AAACCCTAAAA
6989122 TGAGACCCTA
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
29 11 0.17
30 12 0.19
31 40 0.63
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.21
Consensus pattern (31 bp):
AAAACCTTAAACCCTAAAACCTCAAAATCTC
Found at i:6989140 original size:7 final size:8
Alignment explanation
Indices: 6989011--6989121 Score: 65
Period size: 8 Copynumber: 14.5 Consensus size: 8
6989001 TTTAAATTTA
6989011 AAAACCTT
1 AAAACCTT
*
6989019 AAAATC-T
1 AAAACCTT
6989026 AAAACC-T
1 AAAACCTT
* * *
6989033 GAAGCTCTC
1 AAAAC-CTT
6989042 AAAACCTT
1 AAAACCTT
*
6989050 -AAACCCT
1 AAAACCTT
* *
6989057 AAAATCTC
1 AAAACCTT
* *
6989065 AAAATCTC
1 AAAACCTT
6989073 AAAACC--
1 AAAACCTT
6989079 AAAACCTT
1 AAAACCTT
6989087 AAAACC-T
1 AAAACCTT
6989094 AAAACCTT
1 AAAACCTT
*
6989102 AAAACTTT
1 AAAACCTT
6989110 GAAAACC-T
1 -AAAACCTT
6989118 AAAA
1 AAAA
6989122 TGAGACCCTA
Statistics
Matches: 81, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
6 6 0.07
7 27 0.33
8 40 0.49
9 8 0.10
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.21
Consensus pattern (8 bp):
AAAACCTT
Found at i:6990932 original size:23 final size:24
Alignment explanation
Indices: 6990892--6990953 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
6990882 TTACATATAT
*
6990892 AATTATCT-ATTTTAAATAGA-T-A
1 AATTATCTAATTTTGAATA-ATTAA
*
6990914 AATTGTCTAATTTTGAATAATTAA
1 AATTATCTAATTTTGAATAATTAA
6990938 AATTAT-TAATTTTGAA
1 AATTATCTAATTTTGAA
6990954 CAAACTTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 8 0.24
23 20 0.59
24 6 0.18
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (24 bp):
AATTATCTAATTTTGAATAATTAA
Found at i:6991383 original size:18 final size:18
Alignment explanation
Indices: 6991357--6991391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6991347 AATAAAACAC
* *
6991357 TTAATTAAAAATTAAATT
1 TTAAATAAAAATAAAATT
6991375 TTAAATAAAAATAAAAT
1 TTAAATAAAAATAAAAT
6991392 AATATTTTTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATAAAAATAAAATT
Found at i:6991431 original size:7 final size:7
Alignment explanation
Indices: 6991416--6991455 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
6991406 GCACTGCACA
6991416 TGCCAAG
1 TGCCAAG
*
6991423 TGTCAAG
1 TGCCAAG
6991430 TGCCAAG
1 TGCCAAG
*
6991437 TACCAAG
1 TGCCAAG
*
6991444 TACCAAG
1 TGCCAAG
6991451 TGCCA
1 TGCCA
6991456 TGTGTCCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.17
Consensus pattern (7 bp):
TGCCAAG
Found at i:6991659 original size:27 final size:27
Alignment explanation
Indices: 6991608--6991661 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6991598 TTAAATAAAT
* *
6991608 TTATTTATCTATTTTATACAGACTTAA
1 TTATTTATCTATTTTAGACAAACTTAA
* *
6991635 TTATTTGTCTATTTTAGATAAACTTAA
1 TTATTTATCTATTTTAGACAAACTTAA
6991662 CTAATAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (27 bp):
TTATTTATCTATTTTAGACAAACTTAA
Found at i:6995226 original size:11 final size:11
Alignment explanation
Indices: 6995212--6995265 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
6995202 AATTAACACC
*
6995212 TATTTAATATG
1 TATTTAATATA
6995223 TATTTAATATA
1 TATTTAATATA
6995234 TATTT-A-A-A
1 TATTTAATATA
6995242 T-TTTAATATA
1 TATTTAATATA
*
6995252 TATAT-ATATA
1 TATTTAATATA
6995262 TATT
1 TATT
6995266 ATATAACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 2 0.06
10 11 0.31
11 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:6998223 original size:60 final size:61
Alignment explanation
Indices: 6998154--6998268 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 61
6998144 AAACAATAGA
*
6998154 TTTAAATGCTAAAAAGTAAAAAAAAAAAA-ATTTAAATTTTTAAAATTTAGAATTTAGAAT
1 TTTAAATGCTAAAAAGTAAAAAAAAAAAATATTTAAATTTTAAAAATTTAGAATTTAGAAT
*
6998214 TTTAAATGCTAAAAAGTAAAAAAAAAAAATTTTTAAATTTTAAAAATTTAGAATT
1 TTTAAATGCTAAAAAGTAAAAAAAAAAAATATTTAAATTTTAAAAATTTAGAATT
6998269 GTTTGTGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
60 29 0.56
61 23 0.44
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (61 bp):
TTTAAATGCTAAAAAGTAAAAAAAAAAAATATTTAAATTTTAAAAATTTAGAATTTAGAAT
Found at i:6998857 original size:9 final size:9
Alignment explanation
Indices: 6998830--6998874 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
6998820 GTTTAATTTT
6998830 ATGTTATTG
1 ATGTTATTG
6998839 A--TTATTG
1 ATGTTATTG
*
6998846 ATGTTGTTG
1 ATGTTATTG
6998855 ATGTTATTG
1 ATGTTATTG
*
6998864 AAGTTATTG
1 ATGTTATTG
6998873 AT
1 AT
6998875 ATAAAAGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 7 0.23
9 23 0.77
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (9 bp):
ATGTTATTG
Found at i:7001591 original size:26 final size:26
Alignment explanation
Indices: 7001562--7001621 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
7001552 TATGATACAA
* * *
7001562 ATGCAAATGCAAATGTCTTTCTTGTG
1 ATGCAAATGCAAATGCCTTGCTTATG
* * *
7001588 ATGCGAATGCGAATGCCTTGGTTATG
1 ATGCAAATGCAAATGCCTTGCTTATG
7001614 ATGCAAAT
1 ATGCAAAT
7001622 AATATGAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (26 bp):
ATGCAAATGCAAATGCCTTGCTTATG
Found at i:7010546 original size:64 final size:64
Alignment explanation
Indices: 7010471--7010642 Score: 199
Period size: 64 Copynumber: 2.7 Consensus size: 64
7010461 TTTGATAAAC
*
7010471 GAAATAAAAAGAATTTCTAAATTGGCCCAAATGGTGA-AAAATTTAGAAATAAACAAAAAAAGAA
1 GAAAAAAAAAGAATTTCTAAATTGGCCCAAATGGTGAGAAAATTTAGAAATAAA-AAAAAAAGAA
* ** *
7010535 GAAAAAAAAAGAATTTCTAAATTGACCCAAATGGT-AGAAAATTTAGAAATTCAAAAAAAATAA
1 GAAAAAAAAAGAATTTCTAAATTGGCCCAAATGGTGAGAAAATTTAGAAATAAAAAAAAAAGAA
* * * *
7010598 -ATAAATAAAAGAAATTTTTAAATAGGCTCAAATGGTG-GAATAATT
1 GA-AAAAAAAAG-AATTTCTAAATTGGCCCAAATGGTGAGAA-AATT
7010643 AGATATATTT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 70 0.75
65 4 0.04
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (64 bp):
GAAAAAAAAAGAATTTCTAAATTGGCCCAAATGGTGAGAAAATTTAGAAATAAAAAAAAAAGAA
Found at i:7014232 original size:24 final size:24
Alignment explanation
Indices: 7014204--7014251 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7014194 AAAAGGTCTT
* *
7014204 AAAGAGAGAAAGAAAAGCAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
*
7014228 AAAGAAAGAGAGAAAAGAAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
7014252 CCATAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (24 bp):
AAAGAAAGAAAGAAAAGAAAAATG
Found at i:7014621 original size:12 final size:12
Alignment explanation
Indices: 7014604--7014645 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
7014594 TGAAAGAGAG
7014604 AAAAAAAAAAGA
1 AAAAAAAAAAGA
*
7014616 AAAAAAATAAGA
1 AAAAAAAAAAGA
*
7014628 AGAAAAAAAAGA
1 AAAAAAAAAAGA
7014640 AAAAAA
1 AAAAAA
7014646 TGAAAGAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:7015568 original size:23 final size:22
Alignment explanation
Indices: 7015542--7015585 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
7015532 GAAGCCTATA
*
7015542 AATGGTGAACAAGTGATGAAAAT
1 AATGATGAACAAGTGAT-AAAAT
* *
7015565 AATGATGATCAATTGATAAAA
1 AATGATGAACAAGTGATAAAA
7015586 CTTATTCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (22 bp):
AATGATGAACAAGTGATAAAAT
Found at i:7015955 original size:21 final size:21
Alignment explanation
Indices: 7015931--7016010 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
7015921 TGAGAATGAG
7015931 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTTGAATTTCA
* * ****
7015952 AATGTGAAACCCAAAATTTGTCA
1 AATGAGAATCTTTGAA-TT-TCA
* *
7015975 AATGAGAATATTTGAGTTTCA
1 AATGAGAATCTTTGAATTTCA
7015996 AATGAGAATCTTTGA
1 AATGAGAATCTTTGA
7016011 GATGAGAAAC
Statistics
Matches: 42, Mismatches: 15, Indels: 4
0.69 0.25 0.07
Matches are distributed among these distances:
21 27 0.64
22 4 0.10
23 11 0.26
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGAGAATCTTTGAATTTCA
Found at i:7016011 original size:21 final size:21
Alignment explanation
Indices: 7015972--7016011 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7015962 CCAAAATTTG
7015972 TCAAATGAGAATATTTGAGTT
1 TCAAATGAGAATATTTGAGTT
*
7015993 TCAAATGAGAATCTTTGAG
1 TCAAATGAGAATATTTGAG
7016012 ATGAGAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (21 bp):
TCAAATGAGAATATTTGAGTT
Found at i:7016508 original size:41 final size:41
Alignment explanation
Indices: 7016465--7016846 Score: 385
Period size: 41 Copynumber: 9.3 Consensus size: 41
7016455 GATTCCTTTG
* * * * *
7016465 TTTAAAGGAGTAATTTACTTGTCAAAGTTGTGATGCCTCTG
1 TTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* *
7016506 TTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTGCCTTTA
1 TTTAAAGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTA
* * *
7016548 TTTAGAA-GAGCAGTTTACTTTTCAAAGTTGTGGTGCCTCTG
1 TTTA-AAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* * * **
7016589 TTTAGAGGAGCAATTTACTTTTCAATGTCATGGTGCCTCTA
1 TTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* * * * * *
7016630 TTTAGAGAAGTAATTTACTTTTT-AAAGTTGTGGTGCATTTG
1 TTTAAAGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTA
* *
7016671 TTTAAAAGAGCAATTTATTTTTCCAAGTTGTGGTGCCTCTA
1 TTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* * * *
7016712 TTTAGAGGAGCATTTTATTTTTCCAAAGTTGTGTTACCTCTA
1 TTTAAAGGAGCAATTTATTTTT-CAAAGTTGTGGTGCCTCTA
* * * * *
7016754 TTTAAAAGAGCAATTTTTTTTTCCAAAGTTACT-GTGCCTTTG
1 TTTAAAGGAGCAATTTATTTTT-CAAAGTT-GTGGTGCCTCTA
7016796 TTTAAA-GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
1 TTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
*
7016836 TTTAGAGGAGC
1 TTTAAAGGAGC
7016847 TTTGTTTACT
Statistics
Matches: 277, Mismatches: 55, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.00
40 25 0.09
41 160 0.58
42 89 0.32
43 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (41 bp):
TTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
Found at i:7016819 original size:206 final size:206
Alignment explanation
Indices: 7016461--7016842 Score: 525
Period size: 206 Copynumber: 1.9 Consensus size: 206
7016451 CTATGATTCC
* * *
7016461 TTTGTTTAAAGGAGTAATTTACTTGTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTATTT
1 TTTGTTTAAAAGAGCAATTTACTTGTCAAAGTTGTGATGCCTCTATTTAGAGGAGCAATTTATTT
* * * * * *
7016526 TTTCAAAGTTGTGGTGCCTTTATTTAGAAGAGCAGTTTACTTTTCAAAGTTGTGGTGCCTCTGTT
66 TTCCAAAGTTGTGGTACCTCTATTTAAAAGAGCAATTTACTTTTCAAAGTTCTGGTGCCTCTGTT
* *
7016591 TAGAGGAGCAATTTACTTTTCAATGTCATGGTGCCTCTATTTAGAGAAGTAATTTACTTTTTAAA
131 TAGAAGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAGAAGTAATTTACTTTTTAAA
7016656 GTTGTGGTGCA
196 GTTGTGGTGCA
* * * * *
7016667 TTTGTTTAAAAGAGCAATTTATTTTTCCAAGTTGTGGTGCCTCTATTTAGAGGAGCATTTTATTT
1 TTTGTTTAAAAGAGCAATTTACTTGTCAAAGTTGTGATGCCTCTATTTAGAGGAGCAATTTATTT
* ** *
7016732 TTCCAAAGTTGTGTTACCTCTATTTAAAAGAGCAATTTTTTTTTCCAAAGTTACT-GTGCCTTTG
66 TTCCAAAGTTGTGGTACCTCTATTTAAAAGAGCAATTTACTTTT-CAAAGTT-CTGGTGCCTCTG
* **
7016796 TTTA-AAGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
129 TTTAGAAGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAG
7016843 GAGCTTTGTT
Statistics
Matches: 151, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
206 131 0.87
207 19 0.13
208 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (206 bp):
TTTGTTTAAAAGAGCAATTTACTTGTCAAAGTTGTGATGCCTCTATTTAGAGGAGCAATTTATTT
TTCCAAAGTTGTGGTACCTCTATTTAAAAGAGCAATTTACTTTTCAAAGTTCTGGTGCCTCTGTT
TAGAAGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAGAAGTAATTTACTTTTTAAA
GTTGTGGTGCA
Found at i:7016823 original size:124 final size:123
Alignment explanation
Indices: 7016465--7016846 Score: 466
Period size: 124 Copynumber: 3.1 Consensus size: 123
7016455 GATTCCTTTG
* * * * * *
7016465 TTTAAAGGAGTAATTTACTTGTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTATTTTTTC
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGATGCCTCTATTTAAAAGAGCAATTTATTTTTTC
* * * *
7016530 AAAGTTGTGGTGCCTTTATTTAGAAGAGCAGTTTACTTTTCAAAGTTGTGGTGCCTCTG
66 AAAGTTGTGGTGCCTTTGTTTA-AAGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* ** * * * *
7016589 TTTAGAGGAGCAATTTACTTTTCAATGTCATGGTGCCTCTATTT-AGAGAAGTAATTTACTTTTT
1 TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGATGCCTCTATTTAAAAG-AGCAATTTATTTTTT
* *
7016653 -AAAGTTGTGGTGCATTTGTTTAAAAGAGCAATTTATTTTTCCAAGTTGTGGTGCCTCTA
65 CAAAGTTGTGGTGCCTTTGTTT-AAAGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
* * * *
7016712 TTTAGAGGAGCATTTTATTTTTCCAAAGTTGTGTTACCTCTATTTAAAAGAGCAATTT-TTTTTT
1 TTTAGAGGAGCAATTTACTTTT-CAAAGTTGTGATGCCTCTATTTAAAAGAGCAATTTATTTTTT
*
7016776 CCAAAGTTACT-GTGCCTTTGTTTAAAGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
65 -CAAAGTT-GTGGTGCCTTTGTTTAAAGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
7016836 TTTAGAGGAGC
1 TTTAGAGGAGC
7016847 TTTGTTTACT
Statistics
Matches: 219, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
123 77 0.35
124 121 0.55
125 20 0.09
126 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (123 bp):
TTTAGAGGAGCAATTTACTTTTCAAAGTTGTGATGCCTCTATTTAAAAGAGCAATTTATTTTTTC
AAAGTTGTGGTGCCTTTGTTTAAAGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTA
Found at i:7020947 original size:13 final size:13
Alignment explanation
Indices: 7020926--7020961 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7020916 TTACTATTTA
7020926 ATTAATATTTATT
1 ATTAATATTTATT
*
7020939 ATTATTATTTATT
1 ATTAATATTTATT
7020952 ATTAAT-TTTA
1 ATTAATATTTA
7020962 ATACAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTAATATTTATT
Found at i:7023788 original size:19 final size:19
Alignment explanation
Indices: 7023746--7023790 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7023736 GATGTAAAAC
*
7023746 AAATAAATACATAAATACA
1 AAATAAATAAATAAATACA
*
7023765 TAATAAATAAATAAAATA-A
1 AAATAAATAAAT-AAATACA
7023784 AAATAAA
1 AAATAAA
7023791 AATACTAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAATAAATAAATACA
Found at i:7024869 original size:44 final size:42
Alignment explanation
Indices: 7024821--7024973 Score: 150
Period size: 44 Copynumber: 3.6 Consensus size: 42
7024811 TACCATTTTG
* * *
7024821 AAAAATATAGAAGGCTCTTCTAAGTAGAGACTTAACAACTTTTA
1 AAAAATATAAAAGGCTCTTCTAAATAAAG-CTTAACAAC-TTTA
7024865 AAAAATATAAAAGGCTGC-TCTAAATAAAGGCTTAACAACTTT-
1 AAAAATATAAAAGGCT-CTTCTAAATAAA-GCTTAACAACTTTA
* * *
7024907 AAAAATATAAAAGGTTCTTCTATACA-AAAGCTCAATAACTTTA
1 AAAAATATAAAAGGCTCTTCTA-A-ATAAAGCTTAACAACTTTA
* * *
7024950 AAAAATAGAGAAGGCTCCTCTAAA
1 AAAAATATAAAAGGCTCTTCTAAA
7024974 CAGAGGCATA
Statistics
Matches: 93, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.02
42 31 0.33
43 25 0.27
44 33 0.35
45 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (42 bp):
AAAAATATAAAAGGCTCTTCTAAATAAAGCTTAACAACTTTA
Found at i:7024989 original size:42 final size:43
Alignment explanation
Indices: 7024821--7024990 Score: 155
Period size: 42 Copynumber: 4.0 Consensus size: 43
7024811 TACCATTTTG
* ** * *
7024821 AAAAATATAGAAGGCTCTTCTAAGTAGAGACTTAACAACTTTTA
1 AAAAATATAGAAGGCTCCTCTAAACAAAGGCTTAACAAC-TTTA
* * *
7024865 AAAAATATAAAAGGCTGCTCTAAATAAAGGCTTAACAACTTT-
1 AAAAATATAGAAGGCTCCTCTAAACAAAGGCTTAACAACTTTA
* * * * * * *
7024907 AAAAATATAAAAGGTTCTTCTATACAAAAGCTCAATAACTTTA
1 AAAAATATAGAAGGCTCCTCTAAACAAAGGCTTAACAACTTTA
* * *
7024950 AAAAATAGAGAAGGCTCCTCTAAACAGAGGCAT-ACAACTTT
1 AAAAATATAGAAGGCTCCTCTAAACAAAGGCTTAACAACTTT
7024991 TTTTTAAAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 41 0.41
43 27 0.27
44 33 0.33
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (43 bp):
AAAAATATAGAAGGCTCCTCTAAACAAAGGCTTAACAACTTTA
Found at i:7034985 original size:4 final size:4
Alignment explanation
Indices: 7034978--7035072 Score: 72
Period size: 4 Copynumber: 24.5 Consensus size: 4
7034968 TTTTAATTAC
* * * *
7034978 AAAT AAAT AAA- CAAT AAAT AAAT AAAT -AAC AAAT AAAC AAA- ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
7035023 AGAT GAA- AAAC AAAT AAAC AGAT AAAT AAAT AAAT AAAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
7035071 AA
1 AA
7035073 GAGAACAGTT
Statistics
Matches: 71, Mismatches: 15, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
3 8 0.11
4 59 0.83
5 4 0.06
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:7034995 original size:11 final size:10
Alignment explanation
Indices: 7034978--7035069 Score: 68
Period size: 11 Copynumber: 9.1 Consensus size: 10
7034968 TTTTAATTAC
7034978 AAATAAATAA
1 AAATAAATAA
7034988 ACAATAAAT--
1 A-AATAAATAA
7034997 AAATAAATAA
1 AAATAAATAA
*
7035007 CAAATAAACAA
1 -AAATAAATAA
*
7035018 AATATAGATGAA
1 AA-ATAAAT-AA
*
7035030 AAACAAATAA
1 AAATAAATAA
7035040 ACAGATAAAT--
1 A-A-ATAAATAA
7035050 AAATAAAT-A
1 AAATAAATAA
7035059 AAATAAATAA
1 AAATAAATAA
7035069 A
1 A
7035070 TAAGAGAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
8 13 0.20
9 10 0.15
10 9 0.14
11 25 0.38
12 9 0.14
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATAAATAA
Found at i:7035013 original size:26 final size:26
Alignment explanation
Indices: 7034982--7035059 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
7034972 AATTACAAAT
7034982 AAATAAACAATAAATAAATAAATAAC
1 AAATAAACAATAAATAAATAAATAAC
*
7035008 AAATAAACAA-AATATAGATGAAA-AAC
1 AAATAAACAATAA-ATAAAT-AAATAAC
7035034 AAATAAACAGATAAATAAATAAATAA
1 AAATAAACA-ATAAATAAATAAATAA
7035060 AATAAATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 2 0.04
26 30 0.67
27 11 0.24
28 2 0.04
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (26 bp):
AAATAAACAATAAATAAATAAATAAC
Found at i:7035937 original size:22 final size:22
Alignment explanation
Indices: 7035912--7035964 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
7035902 AGTAATTATC
* *
7035912 GATAATTTAATACTAAATTAAT
1 GATAATTTAATAATAAATGAAT
7035934 GATAACTTT-ATAATAAATGAAT
1 GATAA-TTTAATAATAAATGAAT
*
7035956 AATAATTTA
1 GATAATTTA
7035965 GTAGTCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (22 bp):
GATAATTTAATAATAAATGAAT
Found at i:7036003 original size:21 final size:22
Alignment explanation
Indices: 7035935--7036003 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
7035925 TAAATTAATG
*
7035935 ATAACTTTATAATAAATGAA-TA
1 ATAACTTTATAGTAAAT-AATTA
* *
7035957 ATAA-TTTAGTAGTCAATAATTT
1 ATAACTTTA-TAGTAAATAATTA
*
7035979 ATAACTTT-TAGTAAATCATTA
1 ATAACTTTATAGTAAATAATTA
7036000 ATAA
1 ATAA
7036004 TATAATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
21 20 0.53
22 15 0.39
23 3 0.08
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (22 bp):
ATAACTTTATAGTAAATAATTA
Found at i:7036015 original size:22 final size:21
Alignment explanation
Indices: 7035987--7036084 Score: 79
Period size: 22 Copynumber: 4.5 Consensus size: 21
7035977 TTATAACTTT
7035987 TAGTAAATCATTAATAATATAA
1 TAGTAAATCA-TAATAATATAA
* * *
7036009 TAATAAATTCATAATACTTTAA
1 TAGTAAA-TCATAATAATATAA
* *
7036031 TGGTAAATCAATTATAATATAA
1 TAGTAAATC-ATAATAATATAA
* * *
7036053 TTGTAAATACATACTAATATAG
1 TAGTAAAT-CATAATAATATAA
*
7036075 TACTAAATCA
1 TAGTAAATCA
7036085 ATGACAACTT
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
21 4 0.07
22 51 0.86
23 4 0.07
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (21 bp):
TAGTAAATCATAATAATATAA
Done.