Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 259 of 316
Found at i:85710302 original size:6 final size:6
Alignment explanation
Indices: 85710291--85710320 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
85710281 GGAGTTATAT
85710291 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
85710321 AAAAAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:85711598 original size:61 final size:64
Alignment explanation
Indices: 85711513--85711631 Score: 183
Period size: 61 Copynumber: 1.9 Consensus size: 64
85711503 GTAACGCATC
*
85711513 TAGTTAAGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAAGCATCACATT
1 TAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACAT-AAGCATCACATT
*
85711574 TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
1 TAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
85711632 AGATACATGG
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
61 24 0.46
62 2 0.04
63 1 0.02
64 7 0.13
65 18 0.35
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (64 bp):
TAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCATCACATT
Found at i:85711937 original size:68 final size:68
Alignment explanation
Indices: 85711828--85712014 Score: 277
Period size: 68 Copynumber: 2.8 Consensus size: 68
85711818 TTTCTTTTTC
* * ** *
85711828 CCTGAAATGACATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGGATTTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCA-AACCTCT
85711892 TCTT
65 TCTT
* *
85711896 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTTAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
85711961 CTT
66 CTT
* *
85711964 CCAGAAATGGCATTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTT
85712015 CCAGTGGAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
68 107 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
CTT
Found at i:85712310 original size:132 final size:132
Alignment explanation
Indices: 85712174--85712770 Score: 762
Period size: 132 Copynumber: 4.5 Consensus size: 132
85712164 ACAGCAGATT
*
85712174 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
85712239 GAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTTAA
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGATTTCAA
85712304 CA
131 CA
* *
85712306 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
85712371 GAACAGATCGAAGATAGTAGATCTGACATTCCTGTGCTTAC-GATGAAGCAGATCGAAGATTTCA
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAG-TGAAGCAGATCGAAGATTTCA
*
85712435 GCA
130 ACA
*
85712438 TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * * * * * **
85712503 GAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTACTTATAGGGAA-TAGATCGAAGATAGCA
66 GAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGATTTCA
85712566 GATC-
130 -A-CA
* * * * * ** *
85712570 TGACATTCTTGTGCTTA-CGGTGAAGC-AGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTA
1 TGGCATCCCTGTGCTTATAGG-GAA-CAAG-TTGAAGATAGCAG-ATTTGGCATCCCTGTGCTTA
*
85712631 TAGGGAAC-GAATCGAAGATAGCAGATCTGACATTCCTGTACTTACGGTGAAGCAGATCGAAGAT
62 TAGGGAACAG-ATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGAT
*
85712695 TTCAGCA
126 TTCAACA
* *
85712702 TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
85712767 GAAC
66 GAAC
85712771 CAGTTGAAGA
Statistics
Matches: 396, Mismatches: 52, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
130 1 0.00
131 29 0.07
132 336 0.85
133 29 0.07
134 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGATTTCAA
CA
Found at i:85712356 original size:176 final size:175
Alignment explanation
Indices: 85712072--85712606 Score: 720
Period size: 176 Copynumber: 3.0 Consensus size: 175
85712062 GGAACAGACT
*
85712072 GAAGATAGCAGATTTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGA-TTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACATGGCATC
85712137 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA-A
65 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
* * * * * *
85712201 GTTGAAGACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATC
130 -TCGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGGGAAGCAGATC
* *
85712248 GAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTTAACATGGCATC
1 GAAGATAGCAGAT-TGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACATGGCATC
85712313 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
65 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
* *
85712378 TCGAAGATAGTAGATCTGACATTCCTGTGCTTACGATGAAGCAGATC
130 TCGAAGATAGCAGATCTGACATTCCTGTGCTTACG-GGAAGCAGATC
** * * * * * ** **
85712425 GAAGATTTCAGCATGGA-ATCCCTGTGCTTATAGGGAA-CA-AGTTGAAGATAGCAGATTTGGCA
1 GAAGATAGCAG-ATTGACATTCCTGTGCTTACAGTGAAGCAGA-TCGAAGATTTCA-ACATGGCA
* * *
85712487 TCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTACTTATAGGGAATA
63 TCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
*
85712552 GATCGAAGATAGCAGATCTGACATTCTTGTGCTTACGGTGAAGCAGATC
128 GATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGG-GAAGCAGATC
85712601 GAAGAT
1 GAAGAT
85712607 TTCAGCATGG
Statistics
Matches: 321, Mismatches: 30, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
174 1 0.00
175 12 0.04
176 288 0.90
177 18 0.06
178 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (175 bp):
GAAGATAGCAGATTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACATGGCATCC
CTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGAT
CGAAGATAGCAGATCTGACATTCCTGTGCTTACGGGAAGCAGATC
Found at i:85712405 original size:88 final size:88
Alignment explanation
Indices: 85712062--85712832 Score: 634
Period size: 88 Copynumber: 8.8 Consensus size: 88
85712052 AAGTTGCAGA
* * * * **
85712062 GGAACAGA-CTGAAGATAGCAGATTTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
1 GGAACAGATC-GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGC
85712126 AG--CATGGCATCCCTGTGCTTATAG
64 AGATC-TGGCATCCCTGTGCTTATAG
* * * * *
85712150 GGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAGACAGC
1 GGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGC
*
85712213 AGATTTGGCATCCCTGTGCTTATAG
64 AGATCTGGCATCCCTGTGCTTATAG
* * * * * * ***
85712238 GGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTTA
1 GGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCA
85712303 -A-CATGGCATCCCTGTGCTTATAG
65 GATC-TGGCATCCCTGTGCTTATAG
* * * *
85712326 GGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGTA
1 GGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCA
* * *
85712390 GATCTGACATTCCTGTGCTTA-CG
65 GATCTGGCATCCCTGTGCTTATAG
* ** * *
85712413 ATGAAGCAGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAGATA
1 -GGAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATA
*
85712475 GCAGATTTGGCATCCCTGTGCTTATAG
62 GCAGATCTGGCATCCCTGTGCTTATAG
* * * *
85712502 GGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTACTTATAGGGAATAGATCGAAGATAGCA
1 GGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCA
* * * *
85712566 GATCTGACATTCTTGTGCTTA-CG
65 GATCTGGCATCCCTGTGCTTATAG
** *
85712589 GTGAAGCAGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAAC-GAATCGAAGATA
1 G-GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAG-ATCGAAGATA
* * * *
85712651 GCAGATCTGACATTCCTGTACTTA-CG
62 GCAGATCTGGCATCCCTGTGCTTATAG
** * *
85712677 GTGAAGCAGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAGATA
1 G-GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATA
* *
85712739 GCAGATTTGGCATCCCTGTGTTTATAG
62 GCAGATCTGGCATCCCTGTGCTTATAG
* * * * * *
85712766 GGAACCAG-TTGAAGACATCAGATTTGGCATCCCTGTGTTTATGGGGAACAAATCGAAGA-AGCA
1 GGAA-CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCA
85712829 GATC
65 GATC
85712833 AAGAACTCAA
Statistics
Matches: 557, Mismatches: 93, Indels: 67
0.78 0.13 0.09
Matches are distributed among these distances:
86 4 0.01
87 61 0.11
88 450 0.81
89 37 0.07
90 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (88 bp):
GGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
ATCTGGCATCCCTGTGCTTATAG
Found at i:85712607 original size:176 final size:176
Alignment explanation
Indices: 85712129--85712674 Score: 719
Period size: 176 Copynumber: 3.1 Consensus size: 176
85712119 AGATTTCAGC
85712129 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
1 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
* * * * * * **
85712194 GGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-CAGATCGAAGATAG
66 GGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTT
* * * * * *** *
85712256 CAG-ATCTGACATTCCTATGCTTACAGTGAAGC-AGATCGAAGATTTTA-AC
129 CAGCAT-GGA-ATCCCTGTGCTTATAGGGAA-CAAG-TCGAAGATAGCAGAT
85712305 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
1 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
* *
85712370 GGAACAGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACGATGAAGCAGATCGAAGATTTCA
66 GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCA
*
85712435 GCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGAT
131 GCATGGAATCCCTGTGCTTATAGGGAACAAGTCGAAGATAGCAGAT
* * *
85712481 TTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTACTTATAG
1 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
* *
85712546 GGAATAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACGGTGAAGCAGATCGAAGATTTCA
66 GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCA
85712611 GCATGGAATCCCTGTGCTTATAGGGAACGAA-TCGAAGATAGCAGAT
131 GCATGGAATCCCTGTGCTTATAGGGAAC-AAGTCGAAGATAGCAGAT
* * * *
85712657 CTGACATTCCTGTACTTA
1 ATGGCATCCCTGTGCTTA
85712675 CGGTGAAGCA
Statistics
Matches: 331, Mismatches: 32, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
175 10 0.03
176 299 0.90
177 20 0.06
178 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (176 bp):
ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCA
GCATGGAATCCCTGTGCTTATAGGGAACAAGTCGAAGATAGCAGAT
Found at i:85713067 original size:4 final size:4
Alignment explanation
Indices: 85713058--85713091 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
85713048 CCCAAACACA
85713058 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
85713092 CCTTGGCCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:85713135 original size:13 final size:13
Alignment explanation
Indices: 85713119--85713178 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
85713109 ACCACCCTTT
85713119 TTGGCCACCCACC
1 TTGGCCACCCACC
*
85713132 TTGGCCACCTA-C
1 TTGGCCACCCACC
*** ***
85713144 TCCACCACCCTTG
1 TTGGCCACCCACC
85713157 TTGGCCACCCACC
1 TTGGCCACCCACC
85713170 TTGGCCACC
1 TTGGCCACC
85713179 TAAACCACCC
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:85713189 original size:22 final size:22
Alignment explanation
Indices: 85713161--85713210 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
85713151 CCCTTGTTGG
85713161 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
85713183 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
*
85713205 CGACCC
1 CCACCC
85713211 CAACCACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.52, G:0.10, T:0.12
Consensus pattern (22 bp):
CCACCCACCTTGGCCACCTAAA
Found at i:85713194 original size:38 final size:38
Alignment explanation
Indices: 85713091--85713180 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
85713081 TAAATAAATA
*
85713091 ACCTTGGCCACCTACTCCACCACCCTTTTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
85713129 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
85713167 ACCTTGGCCACCTA
1 ACCTTGGCCACCTA
85713181 AACCACCCAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (38 bp):
ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
Found at i:85713671 original size:3 final size:3
Alignment explanation
Indices: 85713657--85713739 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
85713647 GAGCTTTGTT
* *
85713657 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
85713701 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
85713740 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:85713717 original size:21 final size:18
Alignment explanation
Indices: 85713657--85713739 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
85713647 GAGCTTTGTT
*
85713657 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
85713677 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
85713695 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
85713716 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
85713734 -TATTAT
1 TTATTAT
85713740 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:85713742 original size:27 final size:26
Alignment explanation
Indices: 85713656--85713743 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
85713646 AGAGCTTTGT
* * *
85713656 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
85713683 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
85713708 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
85713734 TATTATATAT
1 T-TTATATAT
85713744 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:85714025 original size:119 final size:117
Alignment explanation
Indices: 85713900--85714162 Score: 266
Period size: 119 Copynumber: 2.2 Consensus size: 117
85713890 TAATATATTA
*
85713900 TTAATATTACTCATATTTTCATTATT-T-TTGCTATCACTATTATTATTATATATTAGTGTATAT
1 TTAATATTA-TCATATTTTCATTATTGTATTGCTAT-A-T-TTATTATTATATAGTAGTGTATAT
* * * * *
85713963 TTTTATGTATATACATATATATATTTATATATA-ATATTATT-TTTTATTACTTTAAT
62 TTCTAT-TATATACATATATATATATATATATATATAGTATTATTGT-TCACTTTAAT
* * * * *
85714019 TTAATATTTTTATTATATTTGC-TTTTTGTATTTCTATATTTATTATTATATAGTAGTGTGTATT
1 TTAATA---TTATCATATTTTCATTATTGTATTGCTATATTTATTATTATATAGTAGTGTATATT
* *
85714083 TCTATTATATACATATATATATATATTTATATATAGTATTATTGTTCACTTTACT
63 TCTATTATATACATATATATATATATATATATATAGTATTATTGTTCACTTTAAT
* *
85714138 TTAATATTATTCTTATTATCATTAT
1 TTAATATTA-TCATATTTTCATTAT
85714163 ATCCAACCCA
Statistics
Matches: 117, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
116 3 0.03
117 6 0.05
118 27 0.23
119 54 0.46
120 8 0.07
121 10 0.09
122 9 0.08
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (117 bp):
TTAATATTATCATATTTTCATTATTGTATTGCTATATTTATTATTATATAGTAGTGTATATTTCT
ATTATATACATATATATATATATATATATATAGTATTATTGTTCACTTTAAT
Found at i:85718421 original size:57 final size:57
Alignment explanation
Indices: 85718352--85718467 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
85718342 GTTGTACACA
85718352 TAATCAACAGAGATGAAAAAGGAAGAGAGGGAGCAATGTCAAAGAAGGCTAGTTCAC
1 TAATCAACAGAGATGAAAAAGGAAGAGAGGGAGCAATGTCAAAGAAGGCTAGTTCAC
85718409 TAATCAACAGAGATGAAAAAGGAAGAGAGGGAGCAATGTCAAAGAAGGCTAGTTCAC
1 TAATCAACAGAGATGAAAAAGGAAGAGAGGGAGCAATGTCAAAGAAGGCTAGTTCAC
85718466 TA
1 TA
85718468 GACAAACAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.46, C:0.12, G:0.28, T:0.15
Consensus pattern (57 bp):
TAATCAACAGAGATGAAAAAGGAAGAGAGGGAGCAATGTCAAAGAAGGCTAGTTCAC
Found at i:85722441 original size:49 final size:50
Alignment explanation
Indices: 85722334--85722427 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
85722324 GTAATAAAGG
* * *
85722334 CCCTACTCCTAGACACATGGGGAGAGGTTTACGGAAGGTGGTACTGATGA
1 CCCTACTCCTAGACACATGGGGAGAGGCTCACGGAAGGTGGTAATGATGA
* * *
85722384 CCCTACTCCTAGACGCGTGGGG-GAGGCTCACGGAATGTGGTAAT
1 CCCTACTCCTAGACACATGGGGAGAGGCTCACGGAAGGTGGTAAT
85722428 TATGGTCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
49 18 0.47
50 20 0.53
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.21
Consensus pattern (50 bp):
CCCTACTCCTAGACACATGGGGAGAGGCTCACGGAAGGTGGTAATGATGA
Found at i:85722995 original size:29 final size:30
Alignment explanation
Indices: 85722946--85723006 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
85722936 ACTTATTTTA
85722946 TTGTTAATTTTTTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTTTATTATTTTAAAGGCAT
*
85722976 TTGTTAA-TTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTTTTATTATTTTAAAGGCAT
85723005 TT
1 TT
85723007 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTTTTATTATTTTAAAGGCAT
Found at i:85729669 original size:8 final size:8
Alignment explanation
Indices: 85729656--85729682 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
85729646 GTTATCTTTT
85729656 TCTTTATC
1 TCTTTATC
85729664 TCTTTATC
1 TCTTTATC
85729672 TCTTTATC
1 TCTTTATC
85729680 TCT
1 TCT
85729683 GCTTTGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (8 bp):
TCTTTATC
Found at i:85730086 original size:22 final size:23
Alignment explanation
Indices: 85730047--85730089 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
85730037 CAGTTAGAGG
85730047 GTTACTTTTGTATCTACCACAAA
1 GTTACTTTTGTATCTACCACAAA
85730070 GTTACTTTTG-ATCTACCACA
1 GTTACTTTTGTATCTACCACA
85730090 GATTTAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (23 bp):
GTTACTTTTGTATCTACCACAAA
Found at i:85736397 original size:13 final size:13
Alignment explanation
Indices: 85736379--85736420 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
85736369 AATTTTGAAT
85736379 TATTTAGTGATAA
1 TATTTAGTGATAA
85736392 TATTTAG-GAT--
1 TATTTAGTGATAA
*
85736402 TACTTAGTGATAA
1 TATTTAGTGATAA
85736415 TATTTA
1 TATTTA
85736421 AGAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:85736403 original size:23 final size:23
Alignment explanation
Indices: 85736377--85736420 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
85736367 TAAATTTTGA
*
85736377 ATTATTTAGTGATAATATTTAGG
1 ATTACTTAGTGATAATATTTAGG
85736400 ATTACTTAGTGATAATATTTA
1 ATTACTTAGTGATAATATTTA
85736421 AGAAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (23 bp):
ATTACTTAGTGATAATATTTAGG
Found at i:85743162 original size:14 final size:15
Alignment explanation
Indices: 85743143--85743180 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
85743133 ACTACGTTTG
*
85743143 AAAATAAATAATA-A
1 AAAATAAAAAATATA
85743157 AAAATAAAAAATATA
1 AAAATAAAAAATATA
*
85743172 TAAATAAAA
1 AAAATAAAA
85743181 GTATATATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAAAATATA
Found at i:85743777 original size:13 final size:13
Alignment explanation
Indices: 85743759--85743801 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
85743749 AAATTTGAAT
85743759 TATTTAGTGATAA
1 TATTTAGTGATAA
85743772 TATTTAG-GAT--
1 TATTTAGTGATAA
*
85743782 TATTTAGTAATAA
1 TATTTAGTGATAA
85743795 TATTTAG
1 TATTTAG
85743802 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 3 0.12
13 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:85743783 original size:23 final size:23
Alignment explanation
Indices: 85743757--85743803 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
85743747 TAAAATTTGA
*
85743757 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTAATAATATTTAGG
85743780 ATTATTTAGTAATAATATTTAGG
1 ATTATTTAGTAATAATATTTAGG
85743803 A
1 A
85743804 AAAATCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTAATAATATTTAGG
Found at i:85744727 original size:14 final size:14
Alignment explanation
Indices: 85744677--85744734 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
85744667 TTCTTAAATT
85744677 TATTTTATTTTTTG
1 TATTTTATTTTTTG
* *
85744691 CATTTTTGAATCTGTTT-
1 TA-TTTT--AT-TTTTTG
85744708 TATTTTATTTTTTG
1 TATTTTATTTTTTG
85744722 TATTTTATTTTTT
1 TATTTTATTTTTT
85744735 ATTTATCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
13 4 0.11
14 16 0.46
15 4 0.11
16 4 0.11
17 3 0.09
18 4 0.11
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.74
Consensus pattern (14 bp):
TATTTTATTTTTTG
Found at i:85748106 original size:8 final size:8
Alignment explanation
Indices: 85748093--85748119 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
85748083 CTTTGGTATG
85748093 TTTAAACT
1 TTTAAACT
85748101 TTTAAACT
1 TTTAAACT
85748109 TTTAAACT
1 TTTAAACT
85748117 TTT
1 TTT
85748120 GCTTAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAACT
Found at i:85754043 original size:21 final size:21
Alignment explanation
Indices: 85754005--85754044 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85753995 TTAATTTAAT
*
85754005 ATTATATTTTATAGTATAGTA
1 ATTATATTGTATAGTATAGTA
85754026 ATTATATATGTATA-TATAG
1 ATTATAT-TGTATAGTATAG
85754045 GATAGATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTATATTGTATAGTATAGTA
Found at i:85754934 original size:24 final size:24
Alignment explanation
Indices: 85754907--85754952 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
85754897 TTATCATCAT
*
85754907 TATGCATAAGTGGAATT-CATAATG
1 TATGCACAAGT-GAATTACATAATG
*
85754931 TATGTACAAGTGAATTACATAA
1 TATGCACAAGTGAATTACATAA
85754953 ATATGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (24 bp):
TATGCACAAGTGAATTACATAATG
Found at i:85761074 original size:37 final size:37
Alignment explanation
Indices: 85761032--85761105 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
85761022 CAGGAACTAA
85761032 GTAAATTTTAAATAAAAAACAATAATACCTCTATTTT
1 GTAAATTTTAAATAAAAAACAATAATACCTCTATTTT
85761069 GTAAATTTTAAATAAAAAACAATAATACCTCTATTTT
1 GTAAATTTTAAATAAAAAACAATAATACCTCTATTTT
85761106 ATTCATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (37 bp):
GTAAATTTTAAATAAAAAACAATAATACCTCTATTTT
Found at i:85761520 original size:22 final size:22
Alignment explanation
Indices: 85761493--85761534 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85761483 GTTTAATATA
*
85761493 AATTTATATTATAATATAATTC
1 AATTTATAATATAATATAATTC
*
85761515 AATTTATAATATAATTTAAT
1 AATTTATAATATAATATAAT
85761535 AATAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTATAATATAATATAATTC
Found at i:85766764 original size:42 final size:43
Alignment explanation
Indices: 85766662--85766824 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 43
85766652 AGATCATACA
* * *
85766662 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCA--AATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAAT-ATGAA-ATCG
* *
85766705 ATGCC-ACTGTCCTAGACAGGGTCTTACACGAAGT-T-AAATACG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATATGAAAT-CG
** * *
85766747 ATGCTGACGTCCCAGACATGGTCTTACACTTAAATATGAAATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACAC-GAAATATGAAATCG
85766791 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAAT
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAAT
85766825 CACACATCGA
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 33 0.34
44 29 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATATGAAATCG
Found at i:85766805 original size:44 final size:43
Alignment explanation
Indices: 85766662--85766819 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 43
85766652 AGATCATACA
* *
85766662 ATGCCAACGTCCCAAACGTGGTCTTACA-TGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACT-TAAAT-ATAA-ATCG
* * * *
85766705 ATGCC-ACTGTCCTAGACAGGGTCTTACAC-GAAGT-TAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACTTAAATATAAAT-CG
**
85766747 ATGCTGACGTCCCAGACATGGTCTTACACTTAAATATGAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACTTAAATAT-AAATCG
*
85766791 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
85766820 GAAATCACAC
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 28 0.30
44 29 0.32
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACTTAAATATAAATCG
Found at i:85771816 original size:13 final size:14
Alignment explanation
Indices: 85771795--85771831 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
85771785 AAAATTATAA
85771795 AAATTAAAAACT-T
1 AAATTAAAAACTCT
*
85771808 AATTTAAAAACTCT
1 AAATTAAAAACTCT
85771822 AAATTAAAAA
1 AAATTAAAAA
85771832 AAAATGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTAAAAACTCT
Found at i:85775396 original size:41 final size:40
Alignment explanation
Indices: 85775339--85775419 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 40
85775329 CACAAGTTAA
85775339 TTGGACACCAACTCGATTAGAAAAATTATAAAAAAAATGAC
1 TTGGACACCAACTCGATTAGAAAAATTAT-AAAAAAATGAC
85775380 TTGGACACCAACTCGATTAGAAAAATTATAAAAAAATGAC
1 TTGGACACCAACTCGATTAGAAAAATTATAAAAAAATGAC
85775420 ATTTTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 11 0.28
41 29 0.73
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (40 bp):
TTGGACACCAACTCGATTAGAAAAATTATAAAAAAATGAC
Found at i:85785071 original size:17 final size:16
Alignment explanation
Indices: 85785037--85785100 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
85785027 ACACACGGCC
* * *
85785037 TGACGACACGGCCTTG
1 TGACCACACGGGCGTG
85785053 TGACCCACACGGGCGTG
1 TGA-CCACACGGGCGTG
*
85785070 TGGAGCACACGGGCGTG
1 T-GACCACACGGGCGTG
*
85785087 TGGAGCACACGGGC
1 T-GACCACACGGGC
85785101 ATGTCCAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
16 3 0.07
17 37 0.88
18 2 0.05
ACGTcount: A:0.19, C:0.30, G:0.39, T:0.12
Consensus pattern (16 bp):
TGACCACACGGGCGTG
Found at i:85785177 original size:22 final size:20
Alignment explanation
Indices: 85785140--85785262 Score: 70
Period size: 22 Copynumber: 5.5 Consensus size: 20
85785130 ATCTCCCCAA
*
85785140 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
85785160 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
*
85785182 TCTTATTTTAATAATTAATTAATTAAT
1 TTTTATTTT-AT-ATT-A-T--TT-AT
*
85785209 TTATTATTCTTATATT-TATAT
1 TT-TTATT-TTATATTATTTAT
*
85785230 TTTTAATTTT-TATATATTTTAA
1 TTTT-ATTTTATAT-TA-TTTAT
85785252 TTTTATTTTAT
1 TTTTATTTTAT
85785263 TTTTCTATTT
Statistics
Matches: 81, Mismatches: 6, Indels: 30
0.69 0.05 0.26
Matches are distributed among these distances:
19 3 0.04
20 11 0.14
21 20 0.25
22 27 0.33
23 1 0.01
24 2 0.02
26 2 0.02
27 6 0.07
28 7 0.09
29 2 0.02
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:85785245 original size:23 final size:21
Alignment explanation
Indices: 85785219--85785260 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
85785209 TTATTATTCT
*
85785219 TATATTTATATTTTTAATTTTTA
1 TATATTT-TAATTTT-ATTTTTA
85785242 TATATTTTAATTTTATTTT
1 TATATTTTAATTTTATTTT
85785261 ATTTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TATATTTTAATTTTATTTTTA
Found at i:85785251 original size:16 final size:15
Alignment explanation
Indices: 85785223--85785255 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
85785213 TATTCTTATA
85785223 TTTATATTTTTAATT
1 TTTATATTTTTAATT
85785238 TTTATATATTTTAATT
1 TTTATAT-TTTTAATT
85785254 TT
1 TT
85785256 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATATTTTTAATT
Found at i:85785271 original size:24 final size:24
Alignment explanation
Indices: 85785244--85785290 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
85785234 AATTTTTATA
85785244 TATTTTAATTTTATTT-TATTTTTC
1 TATTTTAATTTT-TTTCTATTTTTC
*
85785268 TATTTTAGTTTTTTTCTATTTTT
1 TATTTTAATTTTTTTCTATTTTT
85785291 TCTTTCGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (24 bp):
TATTTTAATTTTTTTCTATTTTTC
Found at i:85785413 original size:3 final size:3
Alignment explanation
Indices: 85785405--85785430 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85785395 GTTTTAATTG
85785405 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
85785431 TTCTCTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:85793002 original size:40 final size:40
Alignment explanation
Indices: 85792958--85793159 Score: 284
Period size: 40 Copynumber: 5.0 Consensus size: 40
85792948 CGATATAATA
85792958 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
*
85792998 CCAGCACGAAGTCTGCGGGTCTTTAAGCCCGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
* * *
85793038 CTAGCA-TATAGCCTGCGGGTCTTTAAGCCAGGAT-ACAATT
1 CCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATAAC-ATT
* *
85793078 CTAGCACGAAGCCTGCAGGTCTTTAAGCCCGGAT-ACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAAC-ATT
* *
85793118 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATAAAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
85793158 CC
1 CC
85793160 TCAAGAATCA
Statistics
Matches: 146, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
Found at i:85804892 original size:44 final size:41
Alignment explanation
Indices: 85804843--85804994 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 41
85804833 ATATGTGTTA
* *
85804843 TCGTGTAGGACCATGTTTGGGACATTGGCATCGACTTATAATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGACTT-T-ATT
* * *
85804886 TACGTGTAAGACTACGTCTGGGACGTTGGCATCGTACTTTATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ACTTTATT
* * * *
85804929 TCGTGTAAGACCTTGTCTGGGATAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGA-CTTT-ATT
* *
85804972 ACATGTAAGACCATGTCTGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
85804995 GTTGAAATTG
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 27 0.30
44 28 0.31
45 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTTATT
Found at i:85804947 original size:42 final size:43
Alignment explanation
Indices: 85804843--85804998 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
85804833 ATATGTGTTA
* * *
85804843 TCGTGTAGGACCATGTTTGGGACATTGGCATCG-ACTTATAATT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGTACTT-TAATT
* *
85804886 TACGTGTAAGACTACGTCTGGGACGTTGGCATCGTACTTT-ATT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGTACTTTAATT
* * *
85804929 TCGTGTAAGACCTTGTCTGGGATAG-TGGCATCGATA-TTTGATT
1 TCGTGTAAGACCATGTCTGGGA-CGTTGGCATCG-TACTTTAATT
* *
85804972 ACATGTAAGACCATGTCTGGGACGTTG
1 TCGTGTAAGACCATGTCTGGGACGTTG
85804999 AAATTGTATG
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.32
43 32 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGTACTTTAATT
Found at i:85808769 original size:41 final size:40
Alignment explanation
Indices: 85808642--85808786 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
85808632 CTCGCACAAG
* * * * *
85808642 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
85808682 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
85808722 GCCTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
85808763 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
85808787 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.63
41 28 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:85816735 original size:40 final size:40
Alignment explanation
Indices: 85816688--85816832 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
85816678 CTCGCACAAG
* * * * *
85816688 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
85816728 GCCTTCGGGACTTAGCCCAGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
** * * *
85816768 GCCTT-TTGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
85816809 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
85816833 CATTCGAGTA
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 55 0.65
41 26 0.31
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:85819837 original size:19 final size:18
Alignment explanation
Indices: 85819813--85819853 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
85819803 ATGTGACTCC
*
85819813 TTTTTCCAAAATTTTCTAA
1 TTTTTCCAAAATCTTCT-A
*
85819832 TTTTTCTAAAATCTTCTA
1 TTTTTCCAAAATCTTCTA
85819850 TTTT
1 TTTT
85819854 GTTTCGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTCCAAAATCTTCTA
Found at i:85831665 original size:20 final size:21
Alignment explanation
Indices: 85831635--85831689 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
85831625 TAATTAAGTT
85831635 AAAGCTAAGTAAATGA-AATGG
1 AAAG-TAAGTAAATGAGAATGG
85831656 AAAGTAAGTAAAT-AGAATGG
1 AAAGTAAGTAAATGAGAATGG
* *
85831676 TAAGAAAGTAAATG
1 AAAGTAAGTAAATG
85831690 GAGTGGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.24, T:0.20
Consensus pattern (21 bp):
AAAGTAAGTAAATGAGAATGG
Found at i:85831696 original size:20 final size:20
Alignment explanation
Indices: 85831641--85831696 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
85831631 AGTTAAAGCT
* * *
85831641 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
85831661 AAGTAAATAGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
85831681 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
85831697 TCATAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:85832394 original size:14 final size:15
Alignment explanation
Indices: 85832369--85832398 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
85832359 ACTGGTTGAA
85832369 TGAAATTTGGTTATT
1 TGAAATTTGGTTATT
85832384 TGAAA-TTGGTTATT
1 TGAAATTTGGTTATT
85832398 T
1 T
85832399 TATGCATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
TGAAATTTGGTTATT
Found at i:85835057 original size:24 final size:23
Alignment explanation
Indices: 85835017--85835062 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
85835007 TTAATCTATA
**
85835017 TTTTATTTTTATTAATAATTTTT
1 TTTTATTTTTAAAAATAATTTTT
*
85835040 TTTTATTTTTCAAAAATAGTTTT
1 TTTTATTTTT-AAAAATAATTTT
85835063 AACAGAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATTTTTAAAAATAATTTTT
Found at i:85838380 original size:27 final size:27
Alignment explanation
Indices: 85838350--85838401 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
85838340 TCATACAACC
* *
85838350 CATGTAATAGTAATTTAACATTCAAAT
1 CATGTAACAATAATTTAACATTCAAAT
**
85838377 CATGTAACAATAATTTGCCATTCAA
1 CATGTAACAATAATTTAACATTCAA
85838402 TTTCACATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAAAT
Found at i:85860555 original size:25 final size:24
Alignment explanation
Indices: 85860514--85860563 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
85860504 ATTAAACTGA
*
85860514 TTTTTTTAATAATAATATAGATAT
1 TTTTTTTAATAATAATATAAATAT
85860538 TTTTATTTAAT-ATCAATATAAATAT
1 TTTT-TTTAATAAT-AATATAAATAT
85860563 T
1 T
85860564 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTTTTAATAATAATATAAATAT
Found at i:85860872 original size:29 final size:30
Alignment explanation
Indices: 85860839--85860896 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
85860829 ATTATGTAAA
* *
85860839 GTTCAGTTTAGTCCATGT-ATTAAAAATAG
1 GTTCAATTTAATCCATGTAATTAAAAATAG
*
85860868 GTTCAATTTAATCCTTGTAAATTAAAAAT
1 GTTCAATTTAATCCATGT-AATTAAAAAT
85860897 TTATTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
31 9 0.38
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (30 bp):
GTTCAATTTAATCCATGTAATTAAAAATAG
Found at i:85873346 original size:42 final size:43
Alignment explanation
Indices: 85873247--85873357 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 43
85873237 GGTGCAGGAT
* * *
85873247 TCACATGGCCAAGACACACGCCCGT-TGGCTAGGCCTTGTGTC
1 TCACATAGCTAAGACACACGCCCGTGTGGCTAGGCCATGTGTC
*
85873289 TCACATAGCTAAGACACACACCCGTGT-GCTAGGCCATGTGTC
1 TCACATAGCTAAGACACACGCCCGTGTGGCTAGGCCATGTGTC
* * *
85873331 TCACA-CGTCTGAGACACATGCCCGTGT
1 TCACATAG-CTAAGACACACGCCCGTGT
85873358 CTCTGCCCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 57 0.97
43 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (43 bp):
TCACATAGCTAAGACACACGCCCGTGTGGCTAGGCCATGTGTC
Found at i:85877192 original size:5 final size:5
Alignment explanation
Indices: 85877182--85877209 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
85877172 AATTAATGAT
85877182 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
85877210 GGTTCTAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:85885898 original size:21 final size:22
Alignment explanation
Indices: 85885858--85885898 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
85885848 TTCCAAATAA
* *
85885858 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
85885880 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
85885899 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:85887137 original size:15 final size:16
Alignment explanation
Indices: 85887110--85887139 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85887100 AGATATTCCA
85887110 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
85887126 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
85887140 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:85889744 original size:26 final size:26
Alignment explanation
Indices: 85889672--85889744 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
85889662 AGCTCTTATA
*
85889672 AGCTTCCTGA-TATATGGCTCATTGTG
1 AGCTTCCTGATTA-ATGGCTCTTTGTG
** *
85889698 AGCTTCCCAATTAAAGGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
85889724 AGCTTCCTGATTAATGGCTCT
1 AGCTTCCTGATTAATGGCTCT
85889745 CCGGAGCTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 37 0.95
27 2 0.05
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
AGCTTCCTGATTAATGGCTCTTTGTG
Found at i:85891397 original size:66 final size:66
Alignment explanation
Indices: 85891319--85891446 Score: 247
Period size: 66 Copynumber: 1.9 Consensus size: 66
85891309 TTAGAACCCT
*
85891319 ACTTTTAGCTGTGTACTTGTACCCTTTTGAATCAAGAGTACTCAATGAAATCAAATTTATCTCCC
1 ACTTTCAGCTGTGTACTTGTACCCTTTTGAATCAAGAGTACTCAATGAAATCAAATTTATCTCCC
85891384 C
66 C
85891385 ACTTTCAGCTGTGTACTTGTACCCTTTTGAATCAAGAGTACTCAATGAAATCAAATTTATCT
1 ACTTTCAGCTGTGTACTTGTACCCTTTTGAATCAAGAGTACTCAATGAAATCAAATTTATCT
85891447 TCAATTCTGG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (66 bp):
ACTTTCAGCTGTGTACTTGTACCCTTTTGAATCAAGAGTACTCAATGAAATCAAATTTATCTCCC
C
Found at i:85893294 original size:20 final size:20
Alignment explanation
Indices: 85893254--85893319 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
85893244 TTAACTTTGC
*
85893254 AACTCAAAAAAT-TATAAAA
1 AACTTAAAAAATATATAAAA
* *
85893273 AA-TCTAAAGAATATATAGAA
1 AACT-TAAAAAATATATAAAA
85893293 AACTTAAAAAATATA-AAAA
1 AACTTAAAAAATATATAAAA
*
85893312 ACCTTAAA
1 AACTTAAA
85893320 CCCTAACCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.47
20 18 0.47
21 1 0.03
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.23
Consensus pattern (20 bp):
AACTTAAAAAATATATAAAA
Found at i:85898359 original size:17 final size:17
Alignment explanation
Indices: 85898326--85898358 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
85898316 CAAATATCTA
*
85898326 GGTTTGGTTTAGTTTTT
1 GGTTTGGTTGAGTTTTT
85898343 GGTTTGGTTGA-TTTTT
1 GGTTTGGTTGAGTTTTT
85898359 TTGCTTAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.00, G:0.30, T:0.64
Consensus pattern (17 bp):
GGTTTGGTTGAGTTTTT
Found at i:85898395 original size:4 final size:4
Alignment explanation
Indices: 85898386--85898424 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
85898376 ATAGCCTTTC
85898386 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
85898425 GGCACAATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:85898635 original size:29 final size:27
Alignment explanation
Indices: 85898603--85898674 Score: 65
Period size: 28 Copynumber: 2.5 Consensus size: 27
85898593 TTTGATATTT
*
85898603 TTTAAATTTTTAAAAAATTTATAATATAA
1 TTTAAATTTTTAAAAAAATT-TAA-ATAA
*
85898632 TTT-ATTTTTTACAAAAAAATTTAAATAA
1 TTTAAATTTTT--AAAAAAATTTAAATAA
*
85898660 TTATATATTTTTAAA
1 TT-TAAATTTTTAAA
85898675 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
28 15 0.43
29 7 0.20
30 13 0.37
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTAAATTTTTAAAAAAATTTAAATAA
Found at i:85898671 original size:30 final size:30
Alignment explanation
Indices: 85898614--85898672 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85898604 TTAAATTTTT
*
85898614 AAAAAATTTATAATATAATTTATTTTTTAC
1 AAAAAAATTATAATATAATTTATTTTTTAC
85898644 AAAAAAATT-TAA-ATAATTATATATTTTTA
1 AAAAAAATTATAATATAATT-TAT-TTTTTA
85898673 AATTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 6 0.23
29 6 0.23
30 14 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAAAAATTATAATATAATTTATTTTTTAC
Found at i:85900016 original size:28 final size:29
Alignment explanation
Indices: 85899985--85900055 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
85899975 GTCACCAAAT
*
85899985 AATTTAAAAAATTATAAATA-TTCAAAAA
1 AATTCAAAAAATTATAAATACTTCAAAAA
* **
85900013 AATTCAAAAAAATATAAATACTTCATCAA
1 AATTCAAAAAATTATAAATACTTCAAAAA
85900042 AATTCAAAAAATTA
1 AATTCAAAAAATTA
85900056 GCATGAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (29 bp):
AATTCAAAAAATTATAAATACTTCAAAAA
Found at i:85900037 original size:29 final size:28
Alignment explanation
Indices: 85899985--85900052 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
85899975 GTCACCAAAT
* *
85899985 AATTTAAAAAATTATAAATATTCAAAAA
1 AATTCAAAAAAATATAAATATTCAAAAA
**
85900013 AATTCAAAAAAATATAAATACTTCATCAA
1 AATTCAAAAAAATATAAATA-TTCAAAAA
85900042 AATTCAAAAAA
1 AATTCAAAAAA
85900053 TTAGCATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (28 bp):
AATTCAAAAAAATATAAATATTCAAAAA
Found at i:85905432 original size:41 final size:40
Alignment explanation
Indices: 85905334--85905473 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 40
85905324 ACACACTAGT
* *
85905334 TTGACACCCAGTGCCTCATC-AGATAATTCGAAGTAGTAAC
1 TTGACACCCAGTGCCTCATCGA-ATAAATCGAAGTAGTAAA
* **
85905374 TTGGCACCCAGTATCTCATCGAATAAATCTGAAGTAGTAAA
1 TTGACACCCAGTGCCTCATCGAATAAATC-GAAGTAGTAAA
* * * *
85905415 TTGACACCTAGTGTCTCATCGATTAAACCG-A--AGTAAA
1 TTGACACCCAGTGCCTCATCGAATAAATCGAAGTAGTAAA
*
85905452 TTGACACCCTGTGCCTCATCGA
1 TTGACACCCAGTGCCTCATCGA
85905474 CTTGAAGTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 25 0.29
39 1 0.01
40 24 0.28
41 35 0.41
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TTGACACCCAGTGCCTCATCGAATAAATCGAAGTAGTAAA
Found at i:85906365 original size:25 final size:25
Alignment explanation
Indices: 85906319--85906382 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
85906309 AGGCCGTGGC
*
85906319 TTTCTTTCTTTTTTCCTTTTTC-TT
1 TTTCTTTCTTTTTTCCTGTTTCGTT
85906343 TTTCTTTCTTTCTTTCCTGTTTCGTT
1 TTTCTTTCTTT-TTTCCTGTTTCGTT
* *
85906369 TTGCTTTATTTTTT
1 TTTCTTTCTTTTTT
85906383 TTTCTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.31
25 13 0.37
26 11 0.31
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTCTTTCTTTTTTCCTGTTTCGTT
Found at i:85906393 original size:13 final size:13
Alignment explanation
Indices: 85906373--85906416 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
85906363 TTCGTTTTGC
85906373 TTTATTTTTTT-T
1 TTTATTTTTTTCT
*
85906385 TCTATTTTTTTCT
1 TTTATTTTTTTCT
* *
85906398 TTTATTTATTTAT
1 TTTATTTTTTTCT
85906411 TTTATT
1 TTTATT
85906417 ATTATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTATTTTTTTCT
Found at i:85907685 original size:20 final size:20
Alignment explanation
Indices: 85907623--85907685 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
85907613 CCTGAATTGC
* *
85907623 ACATACGTGCCCTTATTTGT
1 ACATACGTGCCCCTGTTTGT
* * *
85907643 AC-TTCGATACCCCTGAATTGT
1 ACATACG-TGCCCCTG-TTTGT
85907664 ACATACGTGCCCCTGTTTGT
1 ACATACGTGCCCCTGTTTGT
85907684 AC
1 AC
85907686 TTCGGTACCC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 13 0.41
22 3 0.09
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (20 bp):
ACATACGTGCCCCTGTTTGT
Found at i:85907696 original size:20 final size:21
Alignment explanation
Indices: 85907632--85907699 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
85907622 CACATACGTG
* *
85907632 CCCTTATTTGTACTTCGATAC
1 CCCTGATTTGTACTTCGGTAC
* * *
85907653 CCCTGAATTGTACATAC-GTGC
1 CCCTGATTTGTAC-TTCGGTAC
85907674 CCCTG-TTTGTACTTCGGTAC
1 CCCTGATTTGTACTTCGGTAC
85907694 CCCTGA
1 CCCTGA
85907700 ATGACACATT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
21 18 0.50
22 2 0.06
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (21 bp):
CCCTGATTTGTACTTCGGTAC
Found at i:85907722 original size:41 final size:41
Alignment explanation
Indices: 85907612--85907722 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
85907602 TTTAATTATT
*
85907612 CCCTGAATTGCACATACGTGCCCTTATTTGTACTTCGATAC
1 CCCTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATAC
* * *
85907653 CCCTGAATTGTACATACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATAC
* *
85907694 CCCTGAA-TGACACATTCGTGCCATTGTTT
1 CCCTGAATTG-CACATACGTGCCCTTGTTT
85907723 ACACTTGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.03
41 59 0.97
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATAC
Found at i:85908624 original size:12 final size:12
Alignment explanation
Indices: 85908607--85908632 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85908597 GGTAGTACAT
85908607 GGCCTGGCACAC
1 GGCCTGGCACAC
85908619 GGCCTGGCACAC
1 GGCCTGGCACAC
85908631 GG
1 GG
85908633 GCGTGTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (12 bp):
GGCCTGGCACAC
Found at i:85912643 original size:48 final size:48
Alignment explanation
Indices: 85912575--85912715 Score: 160
Period size: 48 Copynumber: 2.9 Consensus size: 48
85912565 AGGGTAAATT
* * * *
85912575 GCTGATGCCCTATCCCAGACATGGTCTTACATTGGCTCACATATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
** * *
85912623 G-TCGATGCCATGTCTTAGACATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAG
* *
85912671 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGTTCTCATATC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC
85912716 ACCCAAATGT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
47 3 0.04
48 70 0.92
49 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:85922433 original size:48 final size:48
Alignment explanation
Indices: 85922381--85922512 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
85922371 GCCACCTTAT
* *
85922381 GAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCGGCATTGAG-AC
1 GAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATAGGCATCG-GCAC
* * * * * *
85922429 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATATGCCTCGGCAT
1 GAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATAGGCATCGGCAC
*
85922477 GTGAGCCAGTGTAAGACCATGTTTTGA-ACATGGCAT
1 GAGAGCCAGTGTAAGACCATG-TTTGAGACATGGCAT
85922513 TAACAATTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 1 0.01
48 66 0.94
49 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATAGGCATCGGCAC
Found at i:85934284 original size:38 final size:38
Alignment explanation
Indices: 85934237--85934315 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
85934227 TTACGAAGTC
* *
85934237 TTACCCGGACATAA-TCTCCACACGAAGTTATCGGGTCT
1 TTACCCGGACAAAATTC-CCACACGAAGTCATCGGGTCT
*
85934275 TTACCCGGACAAAATTCCCACACGTAGTCATCGGGTCT
1 TTACCCGGACAAAATTCCCACACGAAGTCATCGGGTCT
85934313 TTA
1 TTA
85934316 GAGCTCGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (38 bp):
TTACCCGGACAAAATTCCCACACGAAGTCATCGGGTCT
Found at i:85934607 original size:25 final size:27
Alignment explanation
Indices: 85934579--85934640 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 27
85934569 ATTAGGCCTT
85934579 ATCACAT-A-TATACACTTTCACATTC
1 ATCACATCATTATACACTTTCACATTC
85934604 ATCACATCAGCCATTATACACTTTCACATTC
1 ATCACAT----CATTATACACTTTCACATTC
85934635 ATCACA
1 ATCACA
85934641 ATCGGCCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
25 7 0.23
30 1 0.03
31 23 0.74
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (27 bp):
ATCACATCATTATACACTTTCACATTC
Found at i:85934625 original size:31 final size:32
Alignment explanation
Indices: 85934587--85934651 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
85934577 TTATCACATA
85934587 TATACACTTTCACATTCATCAC-ATCAGCCAT
1 TATACACTTTCACATTCATCACAATCAGCCAT
*
85934618 TATACACTTTCACATTCATCACAATCGGCCAT
1 TATACACTTTCACATTCATCACAATCAGCCAT
85934650 TA
1 TA
85934652 GGCCTTATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (32 bp):
TATACACTTTCACATTCATCACAATCAGCCAT
Found at i:85934631 original size:77 final size:79
Alignment explanation
Indices: 85934541--85934699 Score: 270
Period size: 79 Copynumber: 2.0 Consensus size: 79
85934531 TTATCACATA
85934541 TATACACTTTCACATTCAT-AC-ATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACAATATATACACTTTCA-ATT
85934603 CATCACATCAGCCAT
65 CATCACATCAGCCAT
85934618 TATACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACATATATATACACTTTCAATT
1 TATACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCAATT
*
85934683 CATCACATCGGCCAT
65 CATCACATCAGCCAT
85934698 TA
1 TA
85934700 GGCCCTTATC
Statistics
Matches: 77, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
77 19 0.25
78 2 0.03
79 22 0.29
80 19 0.25
81 15 0.19
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (79 bp):
TATACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACAATATATACACTTTCAATTC
ATCACATCAGCCAT
Found at i:85934632 original size:47 final size:47
Alignment explanation
Indices: 85934434--85934619 Score: 257
Period size: 47 Copynumber: 3.9 Consensus size: 47
85934424 CCCTTCCGGA
* * * * * * *
85934434 CTTATCACATTTATTGCACTTTCACATCCATCACGTTTGGCCACTCGGC
1 CTTATCACATATA-TACACTTTCACATTCATCAC-ATCGGCCATTAGGC
* *
85934483 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85934530 CTTATCACATATATACACTTTCACATTCAT-ACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85934576 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
85934620 TACACTTTCA
Statistics
Matches: 124, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
46 46 0.37
47 50 0.40
48 18 0.15
49 10 0.08
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85934707 original size:49 final size:49
Alignment explanation
Indices: 85934618--85934765 Score: 248
Period size: 48 Copynumber: 3.0 Consensus size: 49
85934608 CATCAGCCAT
85934618 TATACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCAC-ATCGGCCATTAGGCCTTATCACATATA
85934668 TATACACTTTCA-ATTCATCACATCGGCCATTAGGCCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGG-CCTTATCACATATA
*
85934715 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
85934764 TA
1 TA
85934766 CACTATCTTG
Statistics
Matches: 93, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
47 24 0.26
48 34 0.37
49 23 0.25
50 12 0.13
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:85934754 original size:47 final size:47
Alignment explanation
Indices: 85934618--85934769 Score: 252
Period size: 47 Copynumber: 3.2 Consensus size: 47
85934608 CATCAGCCAT
85934618 TATACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCAC-ATCGGCCATTAGGCCTTATCAC--ATA
85934668 TATACACTTTCA-ATTCATCACATCGGCCATTAGGCCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGG-CCTTATCACATA
*
85934715 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
85934762 TATACACT
1 TATACACT
85934770 ATCTTGGCTG
Statistics
Matches: 99, Mismatches: 1, Indels: 7
0.93 0.01 0.07
Matches are distributed among these distances:
47 35 0.35
48 34 0.34
49 18 0.18
50 12 0.12
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:85934760 original size:128 final size:124
Alignment explanation
Indices: 85934497--85934748 Score: 425
Period size: 128 Copynumber: 2.0 Consensus size: 124
85934487 TCACATATAT
85934497 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATAC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATAC
*
85934562 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAT
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAG
85934621 ACACTTTCACATTCATCACAATCGGCCATTAGGCCTTATCACATATATATACACTTTCA-ATTCA
1 ACACTTTCACATTCATCAC-ATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCA
* *
85934685 TCACATCGGCCATTAGGCCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAG
63 T-ACATCGGCCATTAGG-CCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAG
85934749 GCCTTATCAC
Statistics
Matches: 120, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
124 19 0.16
125 22 0.18
126 6 0.05
127 30 0.25
128 43 0.36
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (124 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAG
Found at i:85938158 original size:40 final size:39
Alignment explanation
Indices: 85938114--85938249 Score: 204
Period size: 40 Copynumber: 3.5 Consensus size: 39
85938104 TCTTCGAGGT
* * *
85938114 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTC-TCGGGAC
*
85938154 TTAGCCCGGATACATCACTAGCACGAAT-C-CTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGAC
85938191 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCT-CTCGGGAC
85938231 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
85938250 GCCATGCTGG
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
37 33 0.38
38 2 0.02
39 1 0.01
40 52 0.59
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGAC
Found at i:85948628 original size:17 final size:17
Alignment explanation
Indices: 85948595--85948627 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
85948585 CAAATATCTA
*
85948595 GGTTTGGTTTAGTTTTT
1 GGTTTGGTTGAGTTTTT
85948612 GGTTTGGTTGA-TTTTT
1 GGTTTGGTTGAGTTTTT
85948628 TTGCTTAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.00, G:0.30, T:0.64
Consensus pattern (17 bp):
GGTTTGGTTGAGTTTTT
Found at i:85948664 original size:4 final size:4
Alignment explanation
Indices: 85948655--85948692 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
85948645 ATAGCCTTTC
85948655 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
85948693 GGCACAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:85948935 original size:30 final size:30
Alignment explanation
Indices: 85948878--85948936 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85948868 TTTTAAATTT
*
85948878 AAAAAATTTATAATATAATTTATTTTTTAC
1 AAAAAAATTATAATATAATTTATTTTTTAC
85948908 AAAAAAATT-TAA-ATAATTATATATTTTTA
1 AAAAAAATTATAATATAATT-TAT-TTTTTA
85948937 AATTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 6 0.23
29 6 0.23
30 14 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAAAAATTATAATATAATTTATTTTTTAC
Found at i:85948945 original size:31 final size:30
Alignment explanation
Indices: 85948863--85948956 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 30
85948853 TTAATTTTTG
85948863 ATATTTTTTAAATTTAAAAAATTTATAATATAATT
1 ATATTTTTTAAA-TT-AAAAA-TT-TAA-ATAATT
85948898 -TATTTTTTACAA--AAAAATTTAAATAATT
1 ATATTTTTTA-AATTAAAAATTTAAATAATT
* *
85948926 ATATATTTTTAAATTAAAAAATTAATTAATT
1 ATAT-TTTTTAAATTAAAAATTTAAATAATT
85948957 GTTGATGTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
28 6 0.12
29 8 0.15
30 8 0.15
31 19 0.37
34 9 0.17
35 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATTTTTTAAATTAAAAATTTAAATAATT
Found at i:85950278 original size:28 final size:29
Alignment explanation
Indices: 85950247--85950317 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
85950237 GTCACCAAAT
*
85950247 AATTTAAAAAATTATAAATA-TTCAAAAA
1 AATTCAAAAAATTATAAATACTTCAAAAA
* **
85950275 AATTCAAAAAAATATAAATACTTCATCAA
1 AATTCAAAAAATTATAAATACTTCAAAAA
85950304 AATTCAAAAAATTA
1 AATTCAAAAAATTA
85950318 GCATGAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (29 bp):
AATTCAAAAAATTATAAATACTTCAAAAA
Found at i:85950299 original size:29 final size:28
Alignment explanation
Indices: 85950247--85950314 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
85950237 GTCACCAAAT
* *
85950247 AATTTAAAAAATTATAAATATTCAAAAA
1 AATTCAAAAAAATATAAATATTCAAAAA
**
85950275 AATTCAAAAAAATATAAATACTTCATCAA
1 AATTCAAAAAAATATAAATA-TTCAAAAA
85950304 AATTCAAAAAA
1 AATTCAAAAAA
85950315 TTAGCATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (28 bp):
AATTCAAAAAAATATAAATATTCAAAAA
Found at i:85955688 original size:41 final size:40
Alignment explanation
Indices: 85955590--85955728 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 40
85955580 ACACACTAGT
* *
85955590 TTGACACCCAGTGCCTCATC-AGATAATTCGAAGTAGTAAC
1 TTGACACCCAGTGCCTCATCGA-ATAAATCGAAGTAGTAAA
* **
85955630 TTGGCACCCAGTATCTCATCGAATAAATCTGAAGTAGTAAA
1 TTGACACCCAGTGCCTCATCGAATAAATC-GAAGTAGTAAA
* * *
85955671 TTGACACCTAGTGTCTCATCGATTAAA-CG-A--AGTAAA
1 TTGACACCCAGTGCCTCATCGAATAAATCGAAGTAGTAAA
*
85955707 TTGACACCCTGTGCCTCATCGA
1 TTGACACCCAGTGCCTCATCGA
85955729 CTTGAAGTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
36 25 0.29
38 1 0.01
39 1 0.01
40 24 0.28
41 34 0.40
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
TTGACACCCAGTGCCTCATCGAATAAATCGAAGTAGTAAA
Found at i:85956613 original size:25 final size:23
Alignment explanation
Indices: 85956568--85956628 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 23
85956558 AGGCCGTGGC
* *
85956568 TTTCTTTTTTTTTCCTTTTTCTT
1 TTTCTTTTTTTTTCCTGTTTCGT
85956591 TTTCTTTCTTTCTTTCCTGTTTCGT
1 TTTCTTT-TTT-TTTCCTGTTTCGT
*
85956616 TTGCTTTTTTTTT
1 TTTCTTTTTTTTT
85956629 TTCTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.30
24 6 0.18
25 17 0.52
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTCTTTTTTTTTCCTGTTTCGT
Found at i:85957920 original size:20 final size:20
Alignment explanation
Indices: 85957858--85957920 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
85957848 CCTGAATTGC
* *
85957858 ACATACGTGCCCTTATTTGT
1 ACATACGTGCCCCTGTTTGT
* * *
85957878 AC-TTCGATACCCCTGAATTGT
1 ACATACG-TGCCCCTG-TTTGT
85957899 ACATACGTGCCCCTGTTTGT
1 ACATACGTGCCCCTGTTTGT
85957919 AC
1 AC
85957921 TTCGGTACCC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 13 0.41
22 3 0.09
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (20 bp):
ACATACGTGCCCCTGTTTGT
Found at i:85957931 original size:20 final size:21
Alignment explanation
Indices: 85957867--85957934 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
85957857 CACATACGTG
* *
85957867 CCCTTATTTGTACTTCGATAC
1 CCCTGATTTGTACTTCGGTAC
* * *
85957888 CCCTGAATTGTACATAC-GTGC
1 CCCTGATTTGTAC-TTCGGTAC
85957909 CCCTG-TTTGTACTTCGGTAC
1 CCCTGATTTGTACTTCGGTAC
85957929 CCCTGA
1 CCCTGA
85957935 ATGACACATT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
21 18 0.50
22 2 0.06
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (21 bp):
CCCTGATTTGTACTTCGGTAC
Found at i:85957957 original size:41 final size:41
Alignment explanation
Indices: 85957847--85957957 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
85957837 TTTAATTATT
*
85957847 CCCTGAATTGCACATACGTGCCCTTATTTGTACTTCGATAC
1 CCCTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATAC
* * *
85957888 CCCTGAATTGTACATACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATAC
* *
85957929 CCCTGAA-TGACACATTCGTGCCATTGTTT
1 CCCTGAATTG-CACATACGTGCCCTTGTTT
85957958 ACACTTGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.03
41 59 0.97
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATAC
Found at i:85962782 original size:47 final size:48
Alignment explanation
Indices: 85962714--85962852 Score: 158
Period size: 47 Copynumber: 2.9 Consensus size: 48
85962704 AGGGTAAATT
* * * *
85962714 GCTGATGCCCTATCCCAGACATGGTCTTACATTGGCTCACATATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
** * *
85962762 G-TCGATGCCATGT-TTAGACATGGTCTTACACTAGCTCTCATAT-GTG
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* *
85962808 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGTTCTCATATC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC
85962853 CCAAATGTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
46 13 0.18
47 52 0.70
48 9 0.12
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:85967941 original size:15 final size:16
Alignment explanation
Indices: 85967917--85967953 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
85967907 ATGAATGATG
85967917 TGGT-TGAGATGG-AT
1 TGGTATGAGATGGTAT
85967931 TGGTATGAGATGGTAT
1 TGGTATGAGATGGTAT
*
85967947 AGGTATG
1 TGGTATG
85967954 TGCGTAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (16 bp):
TGGTATGAGATGGTAT
Found at i:85984287 original size:37 final size:37
Alignment explanation
Indices: 85984237--85984315 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
85984227 TTATTACGAA
* *
85984237 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
85984274 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
85984311 GTCTT
1 GTCTT
85984316 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:85984624 original size:31 final size:31
Alignment explanation
Indices: 85984586--85984649 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
85984576 TTATCACATA
85984586 TATACACTTTCACATTCATCACATCAGCCAT
1 TATACACTTTCACATTCATCACATCAGCCAT
*
85984617 TATACACTTTCACATTCATCACATCGGCCAT
1 TATACACTTTCACATTCATCACATCAGCCAT
85984648 TA
1 TA
85984650 GGCCTTATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (31 bp):
TATACACTTTCACATTCATCACATCAGCCAT
Found at i:85984625 original size:78 final size:78
Alignment explanation
Indices: 85984539--85984696 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
85984529 TTATCACATA
85984539 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
85984604 TCACATCAGCCAT
66 TCACATCAGCCAT
85984617 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
85984682 TCACATCGGCCAT
66 TCACATCAGCCAT
85984695 TA
1 TA
85984697 GGCCTTATCA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (78 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCAGCCAT
Found at i:85984631 original size:47 final size:47
Alignment explanation
Indices: 85984434--85984618 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
85984424 CCCTTCGGGA
* * * * * * *
85984434 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85984481 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85984528 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85984575 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
85984619 TACACTTTCA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85984670 original size:47 final size:47
Alignment explanation
Indices: 85984617--85984765 Score: 289
Period size: 47 Copynumber: 3.2 Consensus size: 47
85984607 CATCAGCCAT
85984617 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
85984664 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
85984711 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
85984758 TATACACT
1 TATACACT
85984766 ATCTTGGCTG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:85984676 original size:125 final size:125
Alignment explanation
Indices: 85984492--85984735 Score: 488
Period size: 125 Copynumber: 2.0 Consensus size: 125
85984482 CTGTCACATA
85984492 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
85984557 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAT
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAT
85984617 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
85984682 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
85984736 GGCTATTAGG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 119 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (125 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCAT
Found at i:85984735 original size:172 final size:172
Alignment explanation
Indices: 85984444--85984765 Score: 563
Period size: 172 Copynumber: 1.9 Consensus size: 172
85984434 CTTATCACAT
* * * * *
85984444 TTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTC
1 TTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTC
85984509 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
85984574 CCTTATCACATATATACACTTTCACATTCATCACATCAGCCA
131 CCTTATCACATATATACACTTTCACATTCATCACATCAGCCA
* * *
85984616 TTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 TTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTC
*
85984681 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
66 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
85984746 CCTTATCACATATATACACT
131 CCTTATCACATATATACACT
85984766 ATCTTGGCTG
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 141 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (172 bp):
TTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATACACTTTCACATTCATCACATCAGCCA
Found at i:85988369 original size:40 final size:40
Alignment explanation
Indices: 85988325--85988503 Score: 295
Period size: 40 Copynumber: 4.5 Consensus size: 40
85988315 TCTTCGAGGT
* * * *
85988325 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
85988365 TTAGCCCGGATACATCACTAGCACGAATTCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
85988405 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
85988445 TTAGCCCGGATATATCACTAGCACGAATGCTCCTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
85988485 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
85988504 CTCAATTCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:85990369 original size:37 final size:37
Alignment explanation
Indices: 85990319--85990398 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
85990309 CTTATTACGA
* *
85990319 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
85990356 AGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
85990393 GGTCTT
1 AGTCTT
85990399 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:85990595 original size:47 final size:47
Alignment explanation
Indices: 85990517--85990723 Score: 324
Period size: 47 Copynumber: 4.4 Consensus size: 47
85990507 CCCTTCGGGA
* * * * * * *
85990517 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85990564 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85990611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85990658 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85990705 CTTATCACATATATACACT
1 CTTATCACATATATACACT
85990724 GTCTTGGCTC
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85997355 original size:46 final size:44
Alignment explanation
Indices: 85997251--85997358 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
85997241 TGTCTTTGAC
** * * *
85997251 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
85997295 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
85997341 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
85997359 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:86001142 original size:48 final size:49
Alignment explanation
Indices: 86001074--86001441 Score: 386
Period size: 48 Copynumber: 7.7 Consensus size: 49
86001064 TGCTATGTGT
* *
86001074 GCTAGTG-AAAACCATGTCTAGGACATGGCATCGGCATTGACATGTGCA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCA
* *
86001122 -CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CGATATGAG-A
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGATATGTGCA
* * * * *
86001169 GCCAGTGTAATACCATGT-TTGGAACATGGCATCAGCAATG-TA-GTGCGA
1 GCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGATATGTGC-A
*
86001217 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGATATGTGC-
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCA
* *
86001265 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTAC-
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCA
* * *
86001313 GCTAGT-TAAGACCATGTCTGGGACATGGCATTGGCATTGATACT-AG-A
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATA-TGTGCA
* * * *
86001360 GCTAGTGTAAGACCATGTCT-GGAACATGGCATCAGCCTCGACATGTG-A
1 GCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATTGATATGTGCA
* * * *
86001408 GCCAGTGTAAGACCATGTTTAGAACTTGGCATCG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCG
86001442 ACAATTCACC
Statistics
Matches: 271, Mismatches: 33, Indels: 32
0.81 0.10 0.10
Matches are distributed among these distances:
46 2 0.01
47 58 0.21
48 199 0.73
49 8 0.03
50 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCA
Found at i:86001417 original size:191 final size:191
Alignment explanation
Indices: 86001067--86001444 Score: 505
Period size: 191 Copynumber: 2.0 Consensus size: 191
86001057 ATTTGGGTGC
* *
86001067 TATGTGTGCTAGTGAAAACCATGTCTAGGACATGGCATCGGCATTGACATGTGCACTAGTGTAAG
1 TATGTGCGCTAGTGAAAACCATGTCTAGGACATGGCATCGGCATTGACATGTACACTAGTGTAAG
* *
86001132 ACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAATACCATGTTTGGAACATG
66 ACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATG
* * *
86001197 GCATCAGCAATGTAGTGCGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGA
131 GCATCAGCAATGTAATGCGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGACATTGA
* * * *
86001258 TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTACGCTAGT-TAA
1 TATGTGCGCTAGTG-AAAACCATGTCTAGGACATGGCATCGGCATTGACATGTACACTAGTGTAA
* * * *
86001322 GACCATGTCTGGGACATGGCATTGG-CATTGATACT-AGAGCTAGTGTAAGACCATGTCTGGAAC
65 GACCATGTCTAGGACATGGCATCGGCCA-CGATA-TGAGAGCCAGTGTAAGACCATGTCTGGAAC
* * * *
86001385 ATGGCATCAGC-CTCG-ACATGTGAGCCAGTGTAAGACCATGTTTAGAACTTGGCATCGACA
128 ATGGCATCAGCAAT-GTA-ATGCGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGACA
86001445 ATTCACCCTC
Statistics
Matches: 163, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
190 4 0.02
191 117 0.72
192 42 0.26
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (191 bp):
TATGTGCGCTAGTGAAAACCATGTCTAGGACATGGCATCGGCATTGACATGTACACTAGTGTAAG
ACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATG
GCATCAGCAATGTAATGCGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGACATTGA
Found at i:86002366 original size:30 final size:30
Alignment explanation
Indices: 86002332--86002400 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
86002322 CACGGGCAGA
* *
86002332 GACACGGCCATGTATACCAATCGTGTGGAG
1 GACACGGCCATGTATACCAATCATATGGAG
* * * *
86002362 GACACGACCGTGTGTCCCAATCATATGGAG
1 GACACGGCCATGTATACCAATCATATGGAG
86002392 GACACGGCC
1 GACACGGCC
86002401 TAGTACACAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (30 bp):
GACACGGCCATGTATACCAATCATATGGAG
Found at i:86008975 original size:48 final size:47
Alignment explanation
Indices: 86008920--86009249 Score: 306
Period size: 48 Copynumber: 6.9 Consensus size: 47
86008910 GTTAATTGCT
* *
86008920 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATC-AGGCC
* * *
86008968 GATGCCATG-TCTCAAACATGGTCTTACACTAGC-CTCGTCTCAATGCC
1 GATGCCATGTTC-CAAACATGGTCTTACACTAGCTCTCATATC-AGGCC
* * * * *** *
86009015 GATGCCATGTCCCAGACGTGGTCTTACACTGGCTCTCATAAGGTGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAT-ATCAGGCC
* * * * * *
86009063 TATGCCATGTACCAGACATGGTCTTACACTAGCGCACATATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATC-AGGCC
* * * * *
86009111 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACTA-CATTGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCA-TATCA-GGCC
* *
86009159 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCA-GGCC
* * *
86009207 GATGCCATGTTCCAAGCATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCA
86009250 CCCAAATGTC
Statistics
Matches: 233, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
47 42 0.18
48 189 0.81
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCAGGCC
Found at i:86009139 original size:96 final size:93
Alignment explanation
Indices: 86008920--86009236 Score: 343
Period size: 96 Copynumber: 3.3 Consensus size: 93
86008910 GTTAATTGCT
* * * * ** *
86008920 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCTCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AAGTGGCCGATGCCATGTC-CAAAC
* *
86008985 ATGGTCTTACACTAGCCTCGTCTCAATGCC
64 ATGGTCTTACACTAGCCTCATATCAATGCC
* * * *
86009015 GATGCCATGTCCCAGACGTGGTCTTACACTGGCTCTCATAAGGTGGTCTATGCCATGTACCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-GTGGCCGATGCCATGT-CCAAAC
*
86009080 ATGGTCTTACACTAGCGCACATATCAATGCC
64 ATGGTCTTACACTAGC-CTCATATCAATGCC
* *
86009111 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACTACA-TTGCCGATGCCATGTTCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TA-AGTGGCCGATGCCATG-TCCAAA
* *
86009175 CATGGTCTTACACTGGCTCTCATATC-ATGGTC
63 CATGGTCTTACACTAGC-CTCATATCAAT-GCC
*
86009207 GATGCCATGTTCCA-AGCATGGTCTTACACT
1 GATGCCATGTCCCAGA-CATGGTCTTACACT
86009237 AGCACACATA
Statistics
Matches: 188, Mismatches: 26, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
95 70 0.37
96 114 0.61
97 3 0.02
98 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGTGGCCGATGCCATGTCCAAACAT
GGTCTTACACTAGCCTCATATCAATGCC
Found at i:86009215 original size:144 final size:142
Alignment explanation
Indices: 86008920--86009249 Score: 437
Period size: 144 Copynumber: 2.3 Consensus size: 142
86008910 GTTAATTGCT
* * * * *
86008920 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCTCAAAC
1 GATGCCATGTTCC-AACATGGTCTTACACTAGCACACATATCAAGGCCAATGCCATGTCCCAAAC
* * *
86008985 ATGGTCTTACACTAGCCTCGTCTCAATGCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTC
65 ATGGTCTTACACTAGCCTCGACTCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
**
86009050 TCATAAGGTGGTC
130 TCATAACATGGTC
* * * * *
86009063 TATGCCATGTACCAGACATGGTCTTACACTAGCGCACATATCAATGCCAATGCCATGTCCCAGAC
1 GATGCCATGTTCCA-ACATGGTCTTACACTAGCACACATATCAAGGCCAATGCCATGTCCCAAAC
* * *
86009128 ATGGTCTTACACTGGCTCTC-ACTACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGC
65 ATGGTCTTACACTAGC-CTCGACT-CAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
*
86009192 TCTCATATCATGGTC
128 TCTCATAACATGGTC
86009207 GATGCCATGTTCCAAGCATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTTCCAA-CATGGTCTTACACTAGCACACATATCA
86009250 CCCAAATGTC
Statistics
Matches: 162, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
142 1 0.01
143 72 0.44
144 89 0.55
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (142 bp):
GATGCCATGTTCCAACATGGTCTTACACTAGCACACATATCAAGGCCAATGCCATGTCCCAAACA
TGGTCTTACACTAGCCTCGACTCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT
CATAACATGGTC
Found at i:86018774 original size:47 final size:47
Alignment explanation
Indices: 86018716--86019208 Score: 824
Period size: 47 Copynumber: 10.4 Consensus size: 47
86018706 CAGCCAAGAC
* *
86018716 AGTGTATATATGTGATAAGGCCAAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86018763 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86018810 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86018859 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86018906 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
86018955 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
86019002 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGGTGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86019049 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86019096 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
86019143 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
86019190 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
86019209 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 19, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 329 0.78
49 94 0.22
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:86019383 original size:37 final size:37
Alignment explanation
Indices: 86019327--86019405 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
86019317 CCGAGCTCTA
* *
86019327 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
86019364 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
86019401 AAGAC
1 AAGAC
86019406 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:86021278 original size:40 final size:40
Alignment explanation
Indices: 86021223--86021361 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
86021213 GAGAATTGAG
86021223 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
86021263 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
86021303 AGTGATGTATCCGGGCTGAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
86021343 AGT-AGTATATCCGTGCTAA
1 AGTGA-TATATCCGGGCTAA
86021362 ACCTCGAAGA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 90 0.99
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:86024976 original size:47 final size:47
Alignment explanation
Indices: 86024918--86025124 Score: 306
Period size: 47 Copynumber: 4.4 Consensus size: 47
86024908 CAGCCAAGAC
*
86024918 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
86024965 AGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
86025012 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
86025059 AGTGTATTTATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
86025106 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
86025125 TCCCGAAGGG
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:86025299 original size:37 final size:37
Alignment explanation
Indices: 86025243--86025321 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
86025233 CCGAGCTCTA
* *
86025243 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
86025280 AAGACCCGATAACTCCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
86025317 AAGAC
1 AAGAC
86025322 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Done.