Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3217407
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1241485 original size:17 final size:17
Alignment explanation
Indices: 1241433--1241478 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
1241423 AGTTCACTAA
1241433 CTCTTTTATTTTTTGTT
1 CTCTTTTATTTTTTGTT
1241450 CTCTTTTATTTTTTGTT
1 CTCTTTTATTTTTTGTT
1241467 CTCTTTTATTTT
1 CTCTTTTATTTT
1241479 GTTTTCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (17 bp):
CTCTTTTATTTTTTGTT
Found at i:1244560 original size:84 final size:83
Alignment explanation
Indices: 1244414--1245872 Score: 1250
Period size: 84 Copynumber: 17.6 Consensus size: 83
1244404 TTCTATTTGT
* * * * * *
1244414 AGCATAACTCAATGCTAGAAGGGTTATCTACTAACCAAAGACCTTCGAATTCAACTACGCTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCT-GTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
1244479 TTCGAGGGCACATCATTTAC
65 -TCCAAGGCACATCATTTAC
* * * * * * *
1244499 AACATAACTCAAGGCTAGAAAGGTTATCTGTCACCAAAGACCTTAGAGTTCAACTTCGCTCAACT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
1244564 CGAAGGTACATCATTTAC
66 CCAAGGCACATCATTTAC
* * * * * *
1244582 AGCATAGCTTAAGTCGAGAAGGGTTATC---CGCCAAAGACCTTTGAATTCGACTACGCTCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
* *
1244644 TCGAAGGCACATCATTTAT
65 TCCAAGGCACATCATTTAC
* * * *
1244663 AGCATAACTCAAGGCTAGAAAGGTTATCTGTCAGCAAAGACCTTCAAGTTCGACTACGCTCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
1244728 CCAAGGCACGTCATTTGC
66 CCAAGGCACATCATTTAC
* * * *
1244746 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAGACCTTCAAGTTCGACTACGCTCATCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * *
1244810 CCAAGGCATATCATGTGC
66 CCAAGGCACATCATTTAC
* * * * * *
1244828 AGCATGACTTAAGTCGAGAAGGGTAATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1244893 TCCAAGGCACATCATTTAC
65 TCCAAGGCACATCATTTAC
* * * * * * * * *
1244912 AGTATAGCTTAAGTCGATAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACACTCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
* * *
1244974 TCGAGGGCACATTATTTAC
65 TCCAAGGCACATCATTTAC
** * * * *
1244993 AATATAACTCAAGGCTAGAGGGGTTATCTATGACCAAAAGACCTTCGAGTTCGACTAC-CTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGC
* *
1245057 TCCAAGGAATATCATTTAC
65 TCCAAGGCACATCATTTAC
* * * ** *
1245076 AGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGTTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGC
*
1245141 TCCAAGGCACATCATTTGC
65 TCCAAGGCACATCATTTAC
* * * * * * * * * *
1245160 AGCATAGCTTAAGTCAACAAGGGCTATCTG---CCAAATACCCTCGAGTTTGATTACACTCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
* * * * *
1245222 TCGAGGGTACATAATTTAT
65 TCCAAGGCACATCATTTAC
* * * * * * *
1245241 AGAATAACTCAAGGCTATAGGGGTTATTTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGC
* *
1245306 TCCAAGGCATATCATTTGC
65 TCCAAGGCACATCATTTAC
* * * **
1245325 AGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGC
**
1245390 TCCAAGGCACATCATTTGT
65 TCCAAGGCACATCATTTAC
** * * ** * * * *
1245409 AGCATAGTTTAAGTCGAGAAGGACTATCTG---CCAAAGACCCTCGAGTTCGATTACACGCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
1245471 TCAAGGGCATATCATTTAC
66 CCAA-GGCACATCATTTAC
* * * * * * *
1245490 AACATAACTCAAGGCTAGAAGGGTTATTTGTAACCAAACGACCTTCGAGTTTGACTACGCTAAGG
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAA-GACCTTCGAGTTCGACTACGCTCAGC
* * *
1245555 TCCAGGGCATATCATTTGC
65 TCCAAGGCACATCATTTAC
* * *
1245574 AGCATAACTTAA-GTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAG
1 AGCATAACTTAAGGCT-AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAG
**
1245638 CTCCAAGGCACATCATTTGT
64 CTCCAAGGCACATCATTTAC
* * * * * * * *
1245658 AGCATAGCTTAAGTCGAGAAGGGATATCTG---CCAAAGACCCTCGAGTTCGATTACACTCAACT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
** *
1245720 TTGAGGGCACATCATTTAC
65 TCCAAGGCACATCATTTAC
* * * * *
1245739 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTTGACTCCACTCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
1245804 CAAAGGCACCATCATTTGC
66 CCAAGGCA-CATCATTTAC
* * * * * *
1245823 AGCATAGCTCAAGGCAAGAAGGGCTATATG---CCAAAGACCTTTGAGTTCGA
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGA
1245873 TTCCATTAAG
Statistics
Matches: 1109, Mismatches: 233, Indels: 68
0.79 0.17 0.05
Matches are distributed among these distances:
80 136 0.12
81 199 0.18
82 70 0.06
83 158 0.14
84 446 0.40
85 100 0.09
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
AGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCACATCATTTAC
Found at i:1244902 original size:249 final size:248
Alignment explanation
Indices: 1244448--1245828 Score: 1725
Period size: 249 Copynumber: 5.6 Consensus size: 248
1244438 TATCTACTAA
* * * * *
1244448 CCAAAGACCTTCGAATTCAACTACGCTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
* * * * * * * * *
1244513 CTAGAAAGGTTATCTGTCACCAAAGACCTTAGAGTTCAACTTCGCTCAACTCGAAGGTACATCAT
66 CTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
* * * * *
1244578 TTACAGCATAGCTTAAGTCGAGAAGGGTTA--T-CC-GCCAAAGACCTTTGAATTCGACTACGCT
131 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCT
* * * * * * * *
1244639 CAGCTTCGAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAAGGTTATCTG
196 CAGC-TCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * * * * * * * *
1244693 TCAGCAAAGACCTTCAAGTTCGACTACGCTCAGC-TCCAAGGCACGTCATTTGCAGCATAACTCA
1 -C--CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCA
* *
1244757 AGGCTAGAAGGGTTATCTGCCACC-AAGACCTTCAAGTTCGACTACGCTCATCTCCAAGGCATAT
63 AGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
* * * * *
1244821 CATGTGCAGCATGACTTAAGTCGAGAAGGGTAATCTGCCAACCAAAGACCTTCGAGTTCGACTAT
128 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTAC
** * *
1244886 GCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGTCGATAAGGGCTATCTG
193 GCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* *
1244942 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTACAATATAACTCAAGG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
* *** *
1245007 CTAGAGGGGTTATCTATGACCAAAAGACCTTCGAGTTCGACTAC-CTCAGCTCCAAGGAATATCA
66 CTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * *
1245071 TTTACAGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGT
130 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
1245136 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAACAAGGGCTATCTG
195 TCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * * * *
1245190 CCAAATACCCTCGAGTTTGATTACACTCAGCTTCGAGGGTACATAATTTATAGA-ATAACTCAAG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA-ACATAACTCAAG
* * * ** *
1245254 GCTATAGGGGTTATTTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATC
65 GCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
*
1245319 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
129 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
* *
1245384 CTCAGCTCCAAGGCACATCATTTGTAGCATAGTTTAAGTCGAGAAGGACTATCTG
194 CTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * *
1245439 CCAAAGACCCTCGAGTTCGATTACACGCAGCTTCAAGGGCATATCATTTACAACATAACTCAAGG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
* ** * * * *
1245504 CTAGAAGGGTTATTTGTAACCAAACGACCTTCGAGTTTGACTACGCTAAGGTCCAGGGCATATCA
66 CTAGAAGGGTTATCTGCCACCAAA-GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * *
1245569 TTTGCAGCATAACTTAAGTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
130 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGC
*
1245634 TCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGATATCTG
195 TCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG
* * * *
1245688 CCAAAGACCCTCGAGTTCGATTACACTCAACTTTGAGGGCACATCATTTACAGCATAACTTAAGG
1 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
* * * * * * * *
1245753 CTAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTTGACTCCACTCAGCTCAAAGGCACCATCA
66 CTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-TATCA
1245818 TTTGCAGCATA
130 TTTGCAGCATA
1245829 GCTCAAGGCA
Statistics
Matches: 996, Mismatches: 125, Indels: 25
0.87 0.11 0.02
Matches are distributed among these distances:
246 87 0.09
247 90 0.09
248 284 0.29
249 507 0.51
250 28 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (248 bp):
CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
CTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG
Found at i:1245874 original size:165 final size:163
Alignment explanation
Indices: 1244414--1245872 Score: 1248
Period size: 165 Copynumber: 8.8 Consensus size: 163
1244404 TTCTATTTGT
* * * * *
1244414 AGCATAACTCAATGCTAGAAGGGTTATCTACTAACCAAAGACCTTCGAATTCAACTACGCTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGC-AA-CAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * *
1244479 TTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAAGGTTATCTGTCACCAAAGACCTTA
64 -TCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG--ACCAAAGACCTTC
* * * * *
1244544 GAGTTCAACTTCGCTCAACTCGAAGGTACATCATTTAC
126 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
* * * * * *
1244582 AGCATAGCTTAAGTCGAGAAGGGTTATCCGC--CAAAGACCTTTGAATTCGACTACGCTCAGCTT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* ** * * *
1244645 CGAAGGCACATCATTTATAGCATAACTCAAGGCTAGAAAGGTTATCTGTCAGCAAAGACCTTCAA
65 CCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG--ACCAAAGACCTTCGA
* *
1244710 GTTCGACTACGCTCAGCTCCAAGGCACGTCATTTGC
128 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
* * * * *
1244746 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAGACCTTCAAGTTCGACTACGCTCATCTC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * * * * *
1244811 CAAGGCATATCATGTGCAGCATGACTTAAGTCGAGAAGGGTAATCTGCCAACCAAAGACCTTCGA
66 CAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG---ACCAAAGACCTTCGA
*
1244876 GTTCGACTATGCTCAGCTCCAAGGCACATCATTTAC
128 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
* * * * * * * * *
1244912 AGTATAGCTTAAGTCGATAAGGGCTATCTGC--CAAAGACCCTCGAGTTCGATTACACTCAGCTT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* * * * ** *
1244975 CGAGGGCACATTATTTACAATATAACTCAAGGCTAGAGGGGTTATCTATGACCAAAAGACCTTCG
65 CCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATC--TGACC-AAAGACCTTCG
* *
1245040 AGTTCGACTAC-CTCAGCTCCAAGGAATATCATTTAC
127 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
* * * * *
1245076 AGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGTTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCT-GCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * * * *
1245141 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAACAAGGGCTATCTG-CCAAATACCCTCGAG
64 TCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACCAAAGACCTTCGAG
* * * * * * * *
1245205 TTTGATTACACTCAGCTTCGAGGGTACATAATTTAT
129 TTCGACTACGCTCAGC-TCCAAGGCACATCATTTAC
* * * * * * * *
1245241 AGAATAACTCAAGGCTATAGGGGTTATTTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGC
1 AGCATAACTTAAGGCTAGAAGGGTTATCTG-CAAC-AAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * *
1245306 TCCAAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTC
64 TCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCT---GACCAAAGACCTTC
**
1245371 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGT
126 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
** * * ** * * * * *
1245409 AGCATAGTTTAAGTCGAGAAGGACTATCTGC--CAAAGACCCTCGAGTTCGATTACACGCAGCTT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* * * *
1245472 CAAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATTTGTAACCAAACGACCTTCG
66 CAA-GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG--ACCAAA-GACCTTCG
* * * * * *
1245537 AGTTTGACTACGCTAAGGTCCAGGGCATATCATTTGC
127 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTAC
* *
1245574 AGCATAACTTAA-GTTGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAG
1 AGCATAACTTAAGGCT-AGAAGGGTTATCTG-CAA-CAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * * *
1245638 CTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGATATCTG-CCAAAGACCCTCGA
63 CTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACCAAAGACCTTCGA
* * * ** *
1245702 GTTCGATTACACTCAACTTTGAGGGCACATCATTTAC
128 GTTCGACTACGCTCAGC-TCCAAGGCACATCATTTAC
* * * *
1245739 AGCATAACTTAAGGCTAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTTGACTCCACTCAGCT
1 AGCATAACTTAAGGCTAGAAGGGTTATCTG-CAACAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * * *
1245804 CAAAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATATG-CCAAAGACCTTTGAG
65 CCAAGGCA-CATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACCAAAGACCTTCGAG
1245868 TTCGA
129 TTCGA
1245873 TTCCATTAAG
Statistics
Matches: 1040, Mismatches: 220, Indels: 65
0.78 0.17 0.05
Matches are distributed among these distances:
163 18 0.02
164 317 0.30
165 399 0.38
166 98 0.09
167 36 0.03
168 117 0.11
169 55 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (163 bp):
AGCATAACTTAAGGCTAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
CAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTT
CGACTACGCTCAGCTCCAAGGCACATCATTTAC
Found at i:1246240 original size:18 final size:16
Alignment explanation
Indices: 1246217--1246267 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
1246207 ACAAAAACAT
1246217 TTTATTATATTATATTTG
1 TTTATT-TATTAT-TTTG
*
1246235 TTTATTTATTATTATTA
1 TTTATTTATTATT-TTG
1246252 TTTATTTTATTATTTT
1 TTTA-TTTATTATTTT
1246268 TGTAGGCCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.03
17 14 0.47
18 15 0.50
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTATTATTTTG
Found at i:1246252 original size:13 final size:12
Alignment explanation
Indices: 1246215--1246266 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 12
1246205 CTACAAAAAC
1246215 ATTTTATTATATT
1 ATTTTATTAT-TT
*
1246228 ATATTTGTTTATTT
1 AT-TTT-ATTATTT
1246242 ATTATTATTATTT
1 ATT-TTATTATTT
1246255 ATTTTATTATTT
1 ATTTTATTATTT
1246267 TTGTAGGCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 9 0.26
13 12 0.35
14 9 0.26
15 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (12 bp):
ATTTTATTATTT
Found at i:1246257 original size:25 final size:25
Alignment explanation
Indices: 1246218--1246266 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1246208 CAAAAACATT
1246218 TTATTATATTATATTTGT-TTATTTA
1 TTATTATATTATATTT-TATTATTTA
1246243 TTATTATTATT-TATTTTATTATTT
1 TTATTA-TATTATATTTTATTATTT
1246267 TTGTAGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.05
25 17 0.77
26 4 0.18
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
TTATTATATTATATTTTATTATTTA
Found at i:1246355 original size:33 final size:33
Alignment explanation
Indices: 1246308--1246377 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1246298 AGTGAGATTC
*
1246308 AAAACCATCATATTTGAGTCCTATTGAAACACT
1 AAAACCAACATATTTGAGTCCTATTGAAACACT
* *
1246341 AAAACCAACGTATTTGAGTCTTATTGAAACACT
1 AAAACCAACATATTTGAGTCCTATTGAAACACT
1246374 AAAA
1 AAAA
1246378 TTGAAGCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (33 bp):
AAAACCAACATATTTGAGTCCTATTGAAACACT
Found at i:1246730 original size:2 final size:2
Alignment explanation
Indices: 1246725--1246751 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1246715 TTTACATTGT
1246725 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1246752 TTAATTATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1247353 original size:39 final size:37
Alignment explanation
Indices: 1247266--1247688 Score: 390
Period size: 39 Copynumber: 11.5 Consensus size: 37
1247256 AATATATATG
* * *
1247266 TATATATTATATAATTTTGAAAGCA-TTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
1247302 TATATGA-TATATAGTTTTTAAAACATTTTTGAAAGCATA
1 TATAT-ATTATATAGTTTTTAAAACATTTTTGAAA--ATA
1247341 TATATATTATATAGTTTTTAAAACA-TTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
*
1247377 TATATGATGATATAGTTTTTAAAACATTTTTGAAAACATA
1 TATAT-ATTATATAGTTTTTAAAACATTTTTG-AAA-ATA
1247417 TATATATTATATAGTTTTTAAAACA-TTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
* * *
1247453 TGTATA--ATATA-TTTTCAAAACA-TTTTAAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
* ** *
1247486 TATATAATATATAGTTTTT-AAATTTTTTTGAAAAACACA
1 TATATATTATATAGTTTTTAAAACATTTTTG--AAA-ATA
*
1247525 TATATATTATATAGTTTTTAAAATA-TTTT-AAAA-A
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
* * * **
1247559 CATATTTTATATAATTTTTAAAATGTTTTTGAAATATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAA-ATA
** *
1247597 TATATAAAATATAAGTTCTTAAAACAATTTTTG-AAA-A
1 TATATATTATAT-AGTTTTTAAAAC-ATTTTTGAAAATA
* * * * **
1247634 TATCTATTATATAGTTTTGAAAATTATTTTT-TAAACG
1 TATATATTATATAGTTTTTAAAA-CATTTTTGAAAATA
1247671 TATATATTATATAGTTTT
1 TATATATTATATAGTTTT
1247689 AAGAAATGTT
Statistics
Matches: 325, Mismatches: 36, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
33 25 0.08
34 27 0.08
35 13 0.04
36 68 0.21
37 59 0.18
38 32 0.10
39 83 0.26
40 18 0.06
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
Found at i:1247420 original size:76 final size:73
Alignment explanation
Indices: 1247266--1247688 Score: 402
Period size: 75 Copynumber: 5.7 Consensus size: 73
1247256 AATATATATG
* * *
1247266 TATATATTATATAATTTTGAAAGCATTTTGAAAATATATATGATATATAGTTTTTAAAACATTTT
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATATATAT-ATATATAGTTTTTAAAACATTTT
*
1247331 TGAAAGCATA
65 TGAAA-AATA
1247341 TATATATTATATAGTTTTTAAAACATTTTGAAAATATATATGATGATATAGTTTTTAAAACATTT
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATATATAT-AT-ATATAGTTTTTAAAACATTT
1247406 TTGAAAACATA
64 TTGAAAA-ATA
* *
1247417 TATATATTATATAGTTTTTAAAACATTTTGAAAATATGTATA-ATATA-TTTTCAAAACA-TTTT
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATATATAGTTTTTAAAACATTTTT
1247479 -AAAAATA
66 GAAAAATA
* *** * *
1247486 TATATAATATATAGTTTTTAAATTTTTTTGAAAAACACATATATATTATATAGTTTTTAAAATA-
1 TATATATTATATAGTTTTTAAAACATTTTG--AAA-ATATATATA-TATATAGTTTTTAAAACAT
*
1247550 TTTT-AAAAACA
62 TTTTGAAAAATA
* ** * *
1247561 TAT-T-TTATATAATTTTTAAAATGTTTTTGAAATATATATATAAAATATAAGTTCTTAAAACAA
1 TATATATTATATAGTTTTTAAAA-CATTTTGAAA-ATATATAT-ATATAT-AGTTTTTAAAAC-A
1247624 TTTTTG--AAA-A
61 TTTTTGAAAAATA
* * * * *
1247634 TATCTATTATATAGTTTTGAAAATTATTTTTTAAACGTATATAT-TATATAGTTTT
1 TATATATTATATAGTTTTTAAAA-CA-TTTTGAAA-ATATATATATATATAGTTTT
1247689 AAGAAATGTT
Statistics
Matches: 298, Mismatches: 33, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
69 29 0.10
70 4 0.01
71 7 0.02
72 31 0.10
73 39 0.13
74 21 0.07
75 84 0.28
76 83 0.28
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (73 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAATATATATATATATAGTTTTTAAAACATTTTT
GAAAAATA
Found at i:1247592 original size:74 final size:74
Alignment explanation
Indices: 1247299--1247592 Score: 194
Period size: 76 Copynumber: 3.9 Consensus size: 74
1247289 CATTTTGAAA
* * * * *
1247299 ATATATATGATATATAGTTTTTAAAACATTTTTGAAAGCATATATATATTATATAGTTTTTAAAA
1 ATATATAT-A-ATATA-TTTTCAAAACA-TTTTAAAAACATATATA-A-TATATAATTTTTAAAT
** *
1247364 CATTTTG--AAA-AT
60 GTTTTTGAAAAACAC
* * * * **
1247376 ATATATGATGATATAGTTTTTAAAACATTTTTGAAAACATATATATATTATATAGTTTTTAAAAC
1 ATATAT-ATAATATA-TTTTCAAAACA-TTTTAAAAACATATATA-A-TATATAATTTTTAAATG
*
1247441 ATTTTG---AA-A-
61 TTTTTGAAAAACAC
* * * *
1247450 ATATGTATAATATATTTTCAAAACATTTTAAAAATATATATAATATATAGTTTTTAAATTTTTTT
1 ATATATATAATATATTTTCAAAACATTTTAAAAACATATATAATATATAATTTTTAAATGTTTTT
1247515 GAAAAACAC
66 GAAAAACAC
* * * *
1247524 ATATATATTATATAGTTTTTAAAATATTTTAAAAACATAT-T-TTATATAATTTTTAAAATGTTT
1 ATATATATAATATA-TTTTCAAAACATTTTAAAAACATATATAATATATAATTTTT-AAATGTTT
1247587 TTGAAA
64 TTGAAA
1247593 TATATATATA
Statistics
Matches: 191, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
69 20 0.10
70 1 0.01
71 15 0.08
72 12 0.06
73 19 0.10
74 31 0.16
75 25 0.13
76 60 0.31
77 6 0.03
78 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (74 bp):
ATATATATAATATATTTTCAAAACATTTTAAAAACATATATAATATATAATTTTTAAATGTTTTT
GAAAAACAC
Found at i:1248856 original size:26 final size:27
Alignment explanation
Indices: 1248821--1248880 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 27
1248811 AATTTTTTTC
1248821 TTTTATTTCTCTTAAATTTATGTT-AT-T
1 TTTTA-TTCTCTTAAATTTAT-TTAATAT
1248848 TTTTA-T-TCTTAAATTTATTTAATAT
1 TTTTATTCTCTTAAATTTATTTAATAT
1248873 TTTTATTC
1 TTTTATTC
1248881 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
23 2 0.07
24 14 0.48
25 7 0.24
26 1 0.03
27 5 0.17
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTATTCTCTTAAATTTATTTAATAT
Found at i:1248857 original size:24 final size:25
Alignment explanation
Indices: 1248830--1248880 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
1248820 CTTTTATTTC
1248830 TCTTAAATTTATGTT-AT-TTTTTAT
1 TCTTAAATTTAT-TTAATATTTTTAT
1248854 TCTTAAATTTATTTAATATTTTTAT
1 TCTTAAATTTATTTAATATTTTTAT
1248879 TC
1 TC
1248881 ATATTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 2 0.08
24 14 0.56
25 9 0.36
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (25 bp):
TCTTAAATTTATTTAATATTTTTAT
Found at i:1253890 original size:84 final size:84
Alignment explanation
Indices: 1253713--1254320 Score: 652
Period size: 84 Copynumber: 7.4 Consensus size: 84
1253703 TTTAAGACAA
* * * *
1253713 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGA-CTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
1253776 TCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * * *
1253795 CATTTGCAGCATAACTTAAGTTGAGAAGGGTTATCTGCCAACCAAAAACCTTAGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
1253860 GCTTAGCTCTAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * *
1253879 CATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C-A--AAAGATCC-TCGAGGTCGATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGA-CCTTCGAGTTCGACTA
* * * *
1253939 CACTCAACTTCGAGGGCACAT
65 CGCTCAGC-TCCAAGGCACAT
* * * * *
1253960 CATTTACAGCATAACTTAAGGCTAGAAGGGCTATCTGTC-ACCAAAGTCCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
1254024 TCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* *
1254043 CATTTGCAGCATAGCTTAAGTCGAGAAGTGCTATCTG-C-ACCAAATGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAA-GACCTTCGAGTTCGACTA
* *
1254106 CGCTCAGCTCAAAGGCACTAA
65 CGCTCAGCTCCAAGGCAC-AT
* * *
1254127 CATTTGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1254192 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * * *
1254211 CATTTGTAGCATAACTTAAGTCGAGAAGGGATATCTG-----TAAAGACCCTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * ** * *
1254271 ACTCACCTTTGAGGGCACAA
66 GCTCAGC-TCCAAGGCACAT
* *
1254291 CATTTGTAGCATAACTTATGTCGAGAAGGG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGG
1254321 TTATTCTTCG
Statistics
Matches: 448, Mismatches: 65, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
79 24 0.05
80 56 0.12
81 44 0.10
82 47 0.10
83 83 0.19
84 153 0.34
85 35 0.08
86 6 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACAT
Found at i:1254540 original size:235 final size:232
Alignment explanation
Indices: 1254091--1254559 Score: 532
Period size: 235 Copynumber: 2.0 Consensus size: 232
1254081 ACCAAATGAC
*
1254091 CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACTAACATTTGCAGCATAACTTAAGTCGATAAGG
1 CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACTAACATTTGCAGCATAACTTAAGTCGAGAAGG
* * * * **
1254156 GTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGC
66 GCTATCTG---ACCAAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGC
* * * * * * ** *
1254221 ATAACTTAAGTCGAGAAGGGATATCTGTAAAGACCCTCGAGTTCGATTACACTCACCTTTGAGGG
128 ATAACTCAAGGCGAGAAGGGATATATGAAAAGACCCTCAAGTTCGACTACACTCACCTTCCAAGG
* *
1254286 CACAACATTTGTAGCATAACTTATGTCGAGAAGGGTTATT
193 CACAACATTTGCAGCATAACTTAAGTCGAGAAGGGTTATT
* * * *
1254326 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-TATCATTTGCAGCATAGCTTAAGTCGAGAATG
1 CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACTAACATTTGCAGCATAACTTAAGTCGAGAAGG
* *** *
1254390 GCTATCTG-CCAAATACCCTCGAGTTCGA-TCACACTCAGCTTCGTGGGCACATCATTTACAGTA
66 GCTATCTGACCAAAGACCCTCGAGTTCGACT-ACACTCAGC-TCCAAGGCACATCATTTACAGCA
* * * *
1254453 TAACTCAAGGCTAGAAGGGTTATATATGAACAAAAGACCTTCAAGTTCGACTACGCTCAGC-TCC
129 TAACTCAAGGCGAGAAGGG--ATATATG---AAAAGACCCTCAAGTTCGACTACACTCACCTTCC
*
1254517 AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
189 AAGGCACAACATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
1254560 CTGCCATCCG
Statistics
Matches: 195, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
229 1 0.01
230 25 0.13
231 33 0.17
233 6 0.03
234 35 0.18
235 71 0.36
236 24 0.12
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (232 bp):
CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACTAACATTTGCAGCATAACTTAAGTCGAGAAGG
GCTATCTGACCAAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATA
ACTCAAGGCGAGAAGGGATATATGAAAAGACCCTCAAGTTCGACTACACTCACCTTCCAAGGCAC
AACATTTGCAGCATAACTTAAGTCGAGAAGGGTTATT
Found at i:1254553 original size:84 final size:82
Alignment explanation
Indices: 1254326--1254559 Score: 249
Period size: 84 Copynumber: 2.8 Consensus size: 82
1254316 AAGGGTTATT
* * *
1254326 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAATGG
1 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * *
1254391 --CTATCTGCCAAATAC
66 TTATATATGCAAAAGAC
* * *** * * * * *
1254406 CCTCGAGTTCGA-TCACACTCAGCTTCGTGGGCACATCATTTACAGTATAACTCAAGGCTAGAAG
1 CTTCGAGTTCGACT-ACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
1254470 GGTTATATATGAACAAAAGAC
64 GGTTATATATG--CAAAAGAC
*
1254491 CTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
1 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
1254556 TTAT
66 TTAT
1254560 CTGCCATCCG
Statistics
Matches: 119, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
79 1 0.01
80 19 0.16
81 31 0.26
83 5 0.04
84 38 0.32
85 24 0.20
86 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (82 bp):
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
TTATATATGCAAAAGAC
Found at i:1254584 original size:84 final size:81
Alignment explanation
Indices: 1254326--1254599 Score: 239
Period size: 84 Copynumber: 3.3 Consensus size: 81
1254316 AAGGGTTATT
* * * *
1254326 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAATGG
1 CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
*
1254391 CTATCTGCCA-AA-TAC
66 TTATCTGCCACAAGT-C
* *** * * * * *
1254406 CCTCGAGTTCGA-TCACACTCAGCTTCGTGGGCACATCATTTACAGTATAACTCAAGGCTAGAAG
1 CTTCGAGTTCGACT-ACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
* * * *
1254470 GGTTATATATGAACAAAAGAC
64 GG-T-TATCTG-CCACAAGTC
* *
1254491 CTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
1 CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
1254556 TTATCTGCCATCCGAAGTC
66 TTATCTGCCA--C-AAGTC
* **
1254575 CTTTGAGTTCGGTTACACTCAGCTC
1 CTTCGAGTTCGACTACACTCAGCTC
1254600 AGAGGCAAAC
Statistics
Matches: 146, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
79 1 0.01
80 19 0.13
81 33 0.23
82 5 0.03
83 6 0.04
84 60 0.41
85 21 0.14
86 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (81 bp):
CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
TTATCTGCCACAAGTC
Found at i:1255282 original size:36 final size:35
Alignment explanation
Indices: 1255235--1255466 Score: 313
Period size: 36 Copynumber: 6.4 Consensus size: 35
1255225 AATATATATG
* * *
1255235 TATATAT-TATATAATTTTGAAAGCATTTTGAAAA
1 TATATATATATATAGTTTTTAAAACATTTTGAAAA
1255269 TATATATGATATATAGTTTTTAAAACATTTTTGAAAA
1 TATATAT-ATATATAGTTTTTAAAACA-TTTTGAAAA
1255306 CGTATATATATTATATAGTTTTTAAAACATTTTGAAAA
1 --TATATATA-TATATAGTTTTTAAAACATTTTGAAAA
1255344 TATATATGATATATAGTTTTTAAAACATTTTGAAAA
1 TATATAT-ATATATAGTTTTTAAAACATTTTGAAAA
* *
1255380 TATGTATAATATATAGTTTTCAAAACATTTTGAAAA
1 TATATAT-ATATATAGTTTTTAAAACATTTTGAAAA
*
1255416 TATATATAATATATAGTTTTTAAAACATTTTCAAAAA
1 TATATAT-ATATATAGTTTTTAAAACATTTT-GAAAA
*
1255453 CATATATATATATA
1 TATATATATATATA
1255467 TATATATTAT
Statistics
Matches: 180, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
34 7 0.04
36 118 0.66
37 20 0.11
38 10 0.06
39 25 0.14
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (35 bp):
TATATATATATATAGTTTTTAAAACATTTTGAAAA
Found at i:1255485 original size:49 final size:47
Alignment explanation
Indices: 1255414--1255515 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 47
1255404 ACATTTTGAA
*
1255414 AATATATATAATATATAGTTTTTAAAACATTTTCAAAAACATATATAT
1 AATATATATAATATATAATTTTTAAAACATTTTCAAAAA-ATATATAT
* * **
1255462 ATATATATATATTATATAATTTTTAAAATATTTTTGAAAAATATATAT
1 A-ATATATATAATATATAATTTTTAAAACATTTTCAAAAAATATATAT
1255510 AATATA
1 AATATA
1255516 CAAGTTCTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 5 0.10
48 10 0.21
49 33 0.69
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (47 bp):
AATATATATAATATATAATTTTTAAAACATTTTCAAAAAATATATAT
Found at i:1255506 original size:40 final size:42
Alignment explanation
Indices: 1255460--1255554 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 42
1255450 AAACATATAT
* * * *
1255460 ATATATATATATATTATATAA-TTTTTAAAA-TATTTTTGAAA
1 ATATATATATATA-TATACAAGTTCTTAAAACAACTTTTGAAA
1255501 A-ATATATATA-ATATACAAGTTCTTAAAACAACTTTTGAAA
1 ATATATATATATATATACAAGTTCTTAAAACAACTTTTGAAA
1255541 ATATATAT-TATATA
1 ATATATATATATATA
1255555 GTTTTGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
38 6 0.13
39 9 0.20
40 21 0.46
41 10 0.22
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (42 bp):
ATATATATATATATATACAAGTTCTTAAAACAACTTTTGAAA
Found at i:1255584 original size:39 final size:35
Alignment explanation
Indices: 1255464--1255598 Score: 110
Period size: 37 Copynumber: 3.7 Consensus size: 35
1255454 ATATATATAT
*
1255464 ATATATATATTATATAATTTTTAAAATATTTTTGAAAA
1 ATATATATATTATAT-AGTTTTAAAATATTTTTG--AA
* * * *
1255502 ATATATATAATATACAAGTTCTTAAAACAACTTTTGAA
1 ATATATATATTATA-TAGTT-TTAAAA-TATTTTTGAA
*
1255540 A-ATATATATTATATAGTTTTGAAAATTATTTTTTAA
1 ATATATATATTATATAGTTTT-AAAA-TATTTTTGAA
** *
1255576 ACGTATATATTATATACTTTTAA
1 ATATATATATTATATAGTTTTAA
1255599 GAAATGTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 2 0.03
36 18 0.23
37 28 0.35
38 19 0.24
39 6 0.08
40 6 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (35 bp):
ATATATATATTATATAGTTTTAAAATATTTTTGAA
Found at i:1255646 original size:18 final size:16
Alignment explanation
Indices: 1255607--1255657 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 16
1255597 AAGAAATGTT
1255607 TTTATTATTATTATTATTA
1 TTTATT-TT-TTATT-TTA
1255626 TTTACCTTTTTTATTTTA
1 TTTA--TTTTTTATTTTA
1255644 TTTATTTTTTATTT
1 TTTATTTTTTATTT
1255658 GTTACTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.33
18 7 0.23
19 9 0.30
20 2 0.07
21 2 0.07
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTTTTATTTTA
Found at i:1256910 original size:7 final size:8
Alignment explanation
Indices: 1256894--1256931 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
1256884 TAAATTTATG
1256894 TTATTTTT
1 TTATTTTT
1256902 TTATTTTT
1 TTATTTTT
1256910 TTATTTTT
1 TTATTTTT
*
1256918 TTAATATTT
1 TT-ATTTTT
1256927 TTATT
1 TTATT
1256932 CCTATTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTATTTTT
Found at i:1263300 original size:18 final size:17
Alignment explanation
Indices: 1263246--1263294 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1263236 TTGGACCCTT
* *
1263246 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1263264 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1263282 AGTGCATTCGATG
1 AGTGCA-TCGATG
1263295 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1263399 original size:65 final size:65
Alignment explanation
Indices: 1263246--1263425 Score: 208
Period size: 65 Copynumber: 2.8 Consensus size: 65
1263236 TTGGACCCTT
*
1263246 AGTGCATCGGTGCACTA-AGA-GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCC
1 AGTGCATCGGTGCA-TAGA-ATGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCC
1263308 AA
64 AA
* ** * *
1263310 AGTGCATCGATGCAT-GGCTGGTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAA-ATCC
1 AGTGCATCGGTGCATAGAAT-GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCC
**
1263373 TC
64 AA
*
1263375 AGTGCATCGGTGCATAGAATGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATAGAATGTGCATCGATGCATCAAATGCATTCGATGTT
1263426 CAATTTAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 40 0.41
65 51 0.53
66 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (65 bp):
AGTGCATCGGTGCATAGAATGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAA
Found at i:1263464 original size:65 final size:64
Alignment explanation
Indices: 1263266--1263473 Score: 201
Period size: 65 Copynumber: 3.2 Consensus size: 64
1263256 TGCACTAAGA
* * ** *
1263266 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAAAGTGCATCGATGCATGG-CT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTC--AGTGCATCGATGCATGGAAT
1263329 G
64 G
* * * *
1263330 GTGCATCGATGCATCAAATGTATTCGATGTTTTC-ATAAAATCCTCAGTGCATCGGTGCATAGAA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGTGCATCGATGCATGGAA
1263394 T-
63 TG
* * *
1263395 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA--GTGCATCGATGCATGGAAT
1263459 G
64 G
*
1263460 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1263474 TACTCTGAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 50 0.42
65 60 0.51
66 1 0.01
67 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGTGCATCGATGCATGGAATG
Found at i:1264485 original size:21 final size:21
Alignment explanation
Indices: 1264461--1264504 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1264451 GAACTGGAGG
* *
1264461 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
1264482 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
1264503 AG
1 AG
1264505 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:1271433 original size:21 final size:20
Alignment explanation
Indices: 1271407--1271490 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 20
1271397 TTTTGGTGCA
* *
1271407 GAGGGAATCGATCCCCCCCGT
1 GAGGGAACCGATTCCCCCC-T
*
1271428 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-CT
*
1271449 GAAGGGGAACCGATTCCCCCCA
1 G-A-GGGAACCGATTCCCCCCT
* *
1271471 G-GGGAATCGATACCCCCCT
1 GAGGGAACCGATTCCCCCCT
1271490 G
1 G
1271491 GGGTTCTGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 16 0.31
21 18 0.35
22 2 0.04
23 16 0.31
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCCT
Found at i:1271475 original size:19 final size:19
Alignment explanation
Indices: 1271451--1271493 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
1271441 CCCCCTTTGA
*
1271451 AGGGGAACCGATTCCCCCC
1 AGGGGAACCGATACCCCCC
*
1271470 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
*
1271489 TGGGG
1 AGGGG
1271494 TTCTGTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.35, G:0.33, T:0.12
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCC
Found at i:1278592 original size:16 final size:16
Alignment explanation
Indices: 1278571--1278602 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1278561 TTGAAATCAA
1278571 GTTTTGAAATTACTCC
1 GTTTTGAAATTACTCC
1278587 GTTTTGAAATTACTCC
1 GTTTTGAAATTACTCC
1278603 CCCTTACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTTGAAATTACTCC
Found at i:1286815 original size:65 final size:65
Alignment explanation
Indices: 1286682--1286889 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 65
1286672 TGGACCCTTA
* *
1286682 GTGCATCGATGCATCAAGA-GCATTTGATG-TTTCAAAATAGCCACAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAA-ATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGAT
1286745 G
65 G
* * * *
1286746 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATTGGTGCATGGAA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGG-A
1286810 T-
64 TG
* ** ** **
1286811 GTGCATCGATGCATGAAATGCATTCGATG--TTCAATTTAATTCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAT-AGCCACAGTGCATCGATGCATGGA-
1286874 TG
64 TG
*
1286876 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1286890 TACTCTGAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 44 0.37
65 65 0.54
66 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGATG
Found at i:1287257 original size:21 final size:23
Alignment explanation
Indices: 1287231--1287278 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
1287221 ACTGTTATAG
*
1287231 TTTACCTTT-TATTTT-AAATAA
1 TTTACCTTTAAATTTTCAAATAA
*
1287252 TTTACCTTTAAATTTTCAACTAA
1 TTTACCTTTAAATTTTCAAATAA
1287275 TTTA
1 TTTA
1287279 TAATTATACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 5 0.22
23 9 0.39
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTACCTTTAAATTTTCAAATAA
Found at i:1289444 original size:706 final size:707
Alignment explanation
Indices: 1287860--1289997 Score: 4010
Period size: 706 Copynumber: 3.0 Consensus size: 707
1287850 ATCTTTAACT
* * * *
1287860 TTGAAATATTAAAATGGAAGATATTCCAATGGCAAGTTAAAATTATCATGTTTTATTAAGGGCAA
1 TTGAGATAGTAAAAAGGAAGATATTCCAATGGCAAGTTGAAATTATCATGTTTTATTAAGGGCAA
*
1287925 ATAATAATTTCATATTAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
66 ATGATAATTTCATATTAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
1287990 TTTTAATTGAAGAAAAATCAGAAATTTGCATCATGTTCCAACCCCAAAACGTGAACCACCATAGC
131 TTTTAATTGAAGAAAAATCAGAAATTTGCATCATGTTCCAACCCCAAAACGTGAACCACCATAGC
1288055 TAGGTAGGAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTGATTTTTGGATTAAGCTATTA
196 TAGGTAGGAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTGATTTTTGGATTAAGCTATTA
1288120 GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
261 GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
1288185 TGGATGATGATGTTCATGATTAGCATTCATTAATAACATGTTTGATTTTAAAGAATTAAATGATG
326 TGGATGATGATGTTCATGATTAGCATTCATTAATAACATGTTTGATTTTAAAGAATTAAATGATG
1288250 GTTTTTATGTTATTAGTGTTGTAGAATAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
391 GTTTTTATGTTATTAGTGTTGTAGAATAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
1288315 ATGCTTATAATCAATTTGGTCTAGTTAGGGTTTATGGAAATTGGATTTAGTTTGATGTTATGATG
456 ATGCTTATAATCAATTTGGTCTAGTTAGGGTTTATGGAAATTGGATTTA-TTTGATGTTATGATG
1288380 ATTGAAATTACATGAATTTGATCATAGGAGATTGAATTCTTGCTTGAAATTGAATGAAAATCAAG
520 ATTGAAATTACATGAATTTGATCATAGGAGATTGAATTCTTGCTTGAAATTGAATGAAAATCAAG
1288445 TCTTAGTATACTAATTATATTCGGCCATAGGGGAATAAATTGAGGGAAAATGTTG-AAATTTTCC
585 TCTTAGTATACTAATTATATTCGGCCATAGGGGAATAAATTGAGGGAAAATGTTGAAAATTTTCC
1288509 TATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACC
650 TATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACC
* *
1288567 TTGAGATAGTAAAAAAGAAGATATTCAAATGGCAAGTTGAAATTATCATGTTTTATTAAGGGCAA
1 TTGAGATAGTAAAAAGGAAGATATTCCAATGGCAAGTTGAAATTATCATGTTTTATTAAGGGCAA
1288632 ATGATAATTTCATATTAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
66 ATGATAATTTCATATTAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
* * * *
1288697 TTTTAATTGAAGAAAAATAAAAAATTTGCAGCATCTTCCAACCCCAAAACGTGAACCACCATAGC
131 TTTTAATTGAAGAAAAATCAGAAATTTGCATCATGTTCCAACCCCAAAACGTGAACCACCATAGC
* * *
1288762 TAGGTAGAAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTAATTTTTGGATTAAGATATTA
196 TAGGTAGGAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTGATTTTTGGATTAAGCTATTA
1288827 GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
261 GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
* *
1288892 TGGATGATGATGTTCATGATTAGCGTTCATTAAGAACATGTTTGATTTTAAAGAATTAAATGATG
326 TGGATGATGATGTTCATGATTAGCATTCATTAATAACATGTTTGATTTTAAAGAATTAAATGATG
*
1288957 GTTTTTATGTTATTAGTGTTGTAGAGTAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
391 GTTTTTATGTTATTAGTGTTGTAGAATAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
1289022 ATGCTTATAATCAATTTGGTCTAGTTAGGGTTTATGGAAATTGGATTTATTTGATGTTATGATGA
456 ATGCTTATAATCAATTTGGTCTAGTTAGGGTTTATGGAAATTGGATTTATTTGATGTTATGATGA
1289087 TTGAAATTACATGAATTTGATCATAGGAGATTGAATTCTTGCTTGAAATTGAATGAAAATCAAGT
521 TTGAAATTACATGAATTTGATCATAGGAGATTGAATTCTTGCTTGAAATTGAATGAAAATCAAGT
*
1289152 CTTAGTATACTAATTATATTAGGCCATAGGGGAA-AAATTGAGGGAAAATGTTGAAAATTTTCCT
586 CTTAGTATACTAATTATATTCGGCCATAGGGGAATAAATTGAGGGAAAATGTTGAAAATTTTCCT
*
1289216 ATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACT
651 ATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACC
1289273 TTGAGATAGTAAAAAGGAAGATATTCCAATGGCAAGTTGAAATTATCATGTTTTATTAAGGGCAA
1 TTGAGATAGTAAAAAGGAAGATATTCCAATGGCAAGTTGAAATTATCATGTTTTATTAAGGGCAA
*
1289338 ATGATAATTTCATATGAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
66 ATGATAATTTCATATTAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
1289403 TTTTAATTGAAGAAAAATCAGAAATTTGCATCATGTTCCAACCCCAAAACGTGAACCACCATAGC
131 TTTTAATTGAAGAAAAATCAGAAATTTGCATCATGTTCCAACCCCAAAACGTGAACCACCATAGC
1289468 TAGGTAGGAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTGATTTTTGGATTAAGCTATTA
196 TAGGTAGGAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTGATTTTTGGATTAAGCTATTA
1289533 GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
261 GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
1289598 TGGATGATGATGTTCATGATTAGCATTCATTAATAACATGTTTGATTTTAAAGAATTAAATGATG
326 TGGATGATGATGTTCATGATTAGCATTCATTAATAACATGTTTGATTTTAAAGAATTAAATGATG
1289663 GTTTTTATGTTATTAGTGTTGTAGAATAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
391 GTTTTTATGTTATTAGTGTTGTAGAATAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
* * *
1289728 ATGCTTATAATCAATTTGGTCAAGTTAGGGTTTATGGAAATTGGATTTAATTTTATGTTATAATG
456 ATGCTTATAATCAATTTGGTCTAGTTAGGGTTTATGGAAATTGGATTT-ATTTGATGTTATGATG
* *
1289793 ATTGAAATTGCATGAATTTGATCATAGGAGATTGAATTCATGCTTGAAATTGAATGAAAATCAAG
520 ATTGAAATTACATGAATTTGATCATAGGAGATTGAATTCTTGCTTGAAATTGAATGAAAATCAAG
*
1289858 TCTTAGTATACTAATTATATTCGGCCATAGGGGAATAATTTGAGGGAAAATGTTGAAAATTTTCC
585 TCTTAGTATACTAATTATATTCGGCCATAGGGGAATAAATTGAGGGAAAATGTTGAAAATTTTCC
1289923 TATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACC
650 TATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACC
1289981 TTGAGATAGTAAAAAGG
1 TTGAGATAGTAAAAAGG
1289998 CTAATTTATA
Statistics
Matches: 1388, Mismatches: 40, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
705 19 0.01
706 669 0.48
707 598 0.43
708 102 0.07
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (707 bp):
TTGAGATAGTAAAAAGGAAGATATTCCAATGGCAAGTTGAAATTATCATGTTTTATTAAGGGCAA
ATGATAATTTCATATTAATTGAATTTTAAATTCATTTATATTAGATAAAGCCAAGTGTAATATGA
TTTTAATTGAAGAAAAATCAGAAATTTGCATCATGTTCCAACCCCAAAACGTGAACCACCATAGC
TAGGTAGGAAAACTTTTTGATTTCATTTTTAAGCTTATTCGATTGATTTTTGGATTAAGCTATTA
GATAGAGAATTAATCTACTTGAAATTCTCTATCATTTGGTATAAATAGTTCATGGAAAACATGTT
TGGATGATGATGTTCATGATTAGCATTCATTAATAACATGTTTGATTTTAAAGAATTAAATGATG
GTTTTTATGTTATTAGTGTTGTAGAATAATTTCCAAGCCTTTGTGATGATTAAAATCAAGTAGAA
ATGCTTATAATCAATTTGGTCTAGTTAGGGTTTATGGAAATTGGATTTATTTGATGTTATGATGA
TTGAAATTACATGAATTTGATCATAGGAGATTGAATTCTTGCTTGAAATTGAATGAAAATCAAGT
CTTAGTATACTAATTATATTCGGCCATAGGGGAATAAATTGAGGGAAAATGTTGAAAATTTTCCT
ATGTTCTAGAACTGATATTAGAAGTGTTCTATATGATTTGGAGATCAATTTGGAACC
Found at i:1293101 original size:21 final size:21
Alignment explanation
Indices: 1293043--1293101 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
1293033 ATATCAACTT
*
1293043 AAAATATA-ATAAAAAT-ATA
1 AAAATATATATAATAATAATA
*
1293062 AAAATATATATAATTATAATA
1 AAAATATATATAATAATAATA
* *
1293083 AAAATATATTTTATAATAA
1 AAAATATATATAATAATAA
1293102 CTCACTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 8 0.24
20 6 0.18
21 19 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATATATAATAATAATA
Found at i:1293189 original size:19 final size:20
Alignment explanation
Indices: 1293140--1293190 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1293130 TGAATTTTAT
1293140 TTAC-TTTTAAGTAACTAAA
1 TTACTTTTTAAGTAACTAAA
* *
1293159 ATAATTTATTAAGTAA-TAAA
1 TTACTTT-TTAAGTAACTAAA
1293179 TTACTTTTTAAG
1 TTACTTTTTAAG
1293191 GGTGTTAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.27
20 11 0.42
21 8 0.31
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (20 bp):
TTACTTTTTAAGTAACTAAA
Found at i:1296719 original size:4 final size:4
Alignment explanation
Indices: 1296710--1296795 Score: 136
Period size: 4 Copynumber: 21.5 Consensus size: 4
1296700 TAAAGACCAC
1296710 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * *
1296758 CTCT CTCT CTCT CTCC CTCC CTCC CTCC CTCT CTCT CT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT
1296796 GCCAAGGGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 80 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (4 bp):
CTCT
Found at i:1305461 original size:24 final size:24
Alignment explanation
Indices: 1305433--1305491 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
1305423 GTTTAAATTA
1305433 ATAATAATACTA-ATA-TATTATAAT
1 ATAATAATA-TATATATTA-TATAAT
*
1305457 ATAATAATATATGTATTATATAAT
1 ATAATAATATATATATTATATAAT
1305481 ATAAT-ATATAT
1 ATAATAATATAT
1305492 GTACGTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 8 0.25
24 22 0.69
25 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
ATAATAATATATATATTATATAAT
Found at i:1306391 original size:3 final size:3
Alignment explanation
Indices: 1306383--1306410 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1306373 TTAACCAACC
1306383 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1306411 AATCCAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:1308411 original size:14 final size:14
Alignment explanation
Indices: 1308381--1308421 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1308371 TTTGAATTCA
*
1308381 AAATAAAAGAGAATT
1 AAATAAAA-ATAATT
1308396 AAATAAAAATAATT
1 AAATAAAAATAATT
*
1308410 AAATAATAATAA
1 AAATAAAAATAA
1308422 AAAAGACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:1315295 original size:14 final size:14
Alignment explanation
Indices: 1315276--1315309 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1315266 TTGAGGGGTA
*
1315276 TGGATACCAACATG
1 TGGATACCAACAGG
*
1315290 TGGATACCAGCAGG
1 TGGATACCAACAGG
1315304 TGGATA
1 TGGATA
1315310 TCGATACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (14 bp):
TGGATACCAACAGG
Found at i:1323167 original size:18 final size:18
Alignment explanation
Indices: 1323132--1323177 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1323122 TAGTTTGATT
*
1323132 AATGAAATAACATCATTC
1 AATGAACTAACATCATTC
* *
1323150 AATGAACTAACTTTATTC
1 AATGAACTAACATCATTC
*
1323168 ATTGAACTAA
1 AATGAACTAA
1323178 ATGCATGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATCATTC
Found at i:1323253 original size:17 final size:17
Alignment explanation
Indices: 1323233--1323285 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1323223 ACTACTTCCC
*
1323233 TAAATGAAATACATGCT
1 TAAATGAAATACATACT
* *
1323250 TAAATGCAATGCATACT
1 TAAATGAAATACATACT
*
1323267 TTAATGAACA-ACATACT
1 TAAATGAA-ATACATACT
1323284 TA
1 TA
1323286 TTAAATACAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 27 0.96
18 1 0.04
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (17 bp):
TAAATGAAATACATACT
Found at i:1326820 original size:18 final size:18
Alignment explanation
Indices: 1326778--1326823 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1326768 TAGTTTGATT
*
1326778 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
1326796 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
1326814 AATGAACTAA
1 AATGAACTAA
1326824 ATGCATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:1326836 original size:17 final size:17
Alignment explanation
Indices: 1326814--1326872 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1326804 AACTTTATTC
1326814 AATGAACTAAATGCATA
1 AATGAACTAAATGCATA
* * **
1326831 AATGAAGT-AGTTTATTA
1 AATGAACTAAATGCA-TA
*
1326848 AAT-AACTAGATGCATA
1 AATGAACTAAATGCATA
1326864 AATGAACTA
1 AATGAACTA
1326873 CTTCCCTAGA
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (17 bp):
AATGAACTAAATGCATA
Found at i:1352105 original size:17 final size:16
Alignment explanation
Indices: 1352066--1352108 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1352056 GAGAGAAATA
1352066 TTCTTTTTATACTTTAT
1 TTCTTTTT-TACTTTAT
* *
1352083 TCCTTTTTTATTTTATT
1 TTCTTTTTTACTTTA-T
1352100 TTCTTTTTT
1 TTCTTTTTT
1352109 TGGATTGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTTTACTTTAT
Found at i:1363627 original size:31 final size:31
Alignment explanation
Indices: 1363587--1363664 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
1363577 CATTGTTATT
*
1363587 TAAT-ATATTAAACATGTTAGAATAGTCTTA
1 TAATCATATTAAGCATGTTAGAATAGTCTTA
1363617 TAATCATATTAAGCATGTTAGAATAGTCTTA
1 TAATCATATTAAGCATGTTAGAATAGTCTTA
1363648 TAATCATATTAAGCATG
1 TAATCATATTAAGCATG
1363665 ATTATCACAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 4 0.09
31 42 0.91
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (31 bp):
TAATCATATTAAGCATGTTAGAATAGTCTTA
Found at i:1374226 original size:17 final size:16
Alignment explanation
Indices: 1374157--1374228 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 16
1374147 ATTCATGCAT
1374157 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
*
1374174 GTAAGTTCATTAATTAAA
1 CT-AGTTCATTAA-TAAA
* *
1374192 GTAGTTCATTCATCAAA
1 CTAGTTCATTAAT-AAA
1374209 CTAGTTCATTTAATAAA
1 CTAGTTCA-TTAATAAA
1374226 CTA
1 CTA
1374229 ACTCTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
16 1 0.02
17 28 0.60
18 18 0.38
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:1376732 original size:15 final size:15
Alignment explanation
Indices: 1376712--1376745 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1376702 AATCAAAAAG
1376712 AAGATGAGAGTGAAA
1 AAGATGAGAGTGAAA
**
1376727 AAGATGAGTTTGAAA
1 AAGATGAGAGTGAAA
1376742 AAGA
1 AAGA
1376746 AATTGTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (15 bp):
AAGATGAGAGTGAAA
Found at i:1377914 original size:17 final size:16
Alignment explanation
Indices: 1377845--1377916 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 16
1377835 ATTCATGCAT
1377845 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
1377862 GCTAGTTCATTAATTAAA
1 -CTAGTTCATTAA-TAAA
* *
1377880 GTAGTTCATTCATCAAA
1 CTAGTTCATTAAT-AAA
1377897 CTAGTTCATTTAATAAA
1 CTAGTTCA-TTAATAAA
1377914 CTA
1 CTA
1377917 ACTCTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 1 0.02
17 28 0.60
18 18 0.38
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:1381934 original size:40 final size:39
Alignment explanation
Indices: 1381890--1382058 Score: 81
Period size: 40 Copynumber: 4.1 Consensus size: 39
1381880 ATGATACTAC
1381890 TCCTTTGCGTTGAGGAGATCTGGTGGGT-GGATGACATTGT
1 TCCTTTGCGTTGAGGAG-TCTGGT-GGTCGGATGACATTGT
*** * ** * *
1381930 TCCTTCATGTTGAAGATGTCTAGTCGTATTTGGAGATAACATTGT
1 TCCTTTGCGTTGAGGA-GTCT-G--GT-GGTCG-GATGACATTGT
* ** * * *
1381975 TCCTTTGTGTTGAGGAGTCTGGTTATCTGATGACACTGC
1 TCCTTTGCGTTGAGGAGTCTGGTGGTCGGATGACATTGT
* * *
1382014 TCATTTGCATTGAGGAGATCTGGTCGGT-GGATGACATTTT
1 TCCTTTGCGTTGAGGAG-TCTGGT-GGTCGGATGACATTGT
1382054 TCCTT
1 TCCTT
1382059 CATATTGTGG
Statistics
Matches: 94, Mismatches: 27, Indels: 16
0.69 0.20 0.12
Matches are distributed among these distances:
39 22 0.23
40 35 0.37
41 5 0.05
43 4 0.04
44 5 0.05
45 23 0.24
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (39 bp):
TCCTTTGCGTTGAGGAGTCTGGTGGTCGGATGACATTGT
Found at i:1382478 original size:36 final size:35
Alignment explanation
Indices: 1382389--1382479 Score: 83
Period size: 36 Copynumber: 2.5 Consensus size: 35
1382379 ACAATTTCAA
** *
1382389 AATTTGTGTTTCAAGGGAAACTATCTCAAATGAGAC
1 AATTT-TGTTTCAAGAAAAACAATCTCAAATGAGAC
* ** * *
1382425 AATACTTGTTTTTAGAAAAACAATCTCAAGTGGGATC
1 AAT-TTTGTTTCAAGAAAAACAATCTCAAATGAGA-C
1382462 AATTTTGTTTCAAGAAAA
1 AATTTTGTTTCAAGAAAA
1382480 CGCGTCGCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
36 37 0.88
37 5 0.12
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (35 bp):
AATTTTGTTTCAAGAAAAACAATCTCAAATGAGAC
Found at i:1392747 original size:23 final size:21
Alignment explanation
Indices: 1392718--1392776 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
1392708 TTCCCCTGTG
1392718 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
1392741 GGGGGAATTGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
* *
1392761 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
1392777 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 3 0.10
23 12 0.39
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:1392765 original size:21 final size:23
Alignment explanation
Indices: 1392717--1392776 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1392707 ATTCCCCTGT
1392717 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
* *
1392740 AGGGGGAATTGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
1392761 GGGGGG-ATCGATTCCC
1 GGGGGGAATCGGTTCCC
1392777 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 5 0.16
21 11 0.35
22 3 0.10
23 12 0.39
ACGTcount: A:0.18, C:0.23, G:0.37, T:0.22
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:1406330 original size:19 final size:19
Alignment explanation
Indices: 1406306--1406344 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1406296 TCGAATGCAT
1406306 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1406325 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1406344 T
1 T
1406345 GAATACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1406361 original size:65 final size:63
Alignment explanation
Indices: 1406243--1406448 Score: 195
Period size: 65 Copynumber: 3.2 Consensus size: 63
1406233 TATTCAAAGG
* *
1406243 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATTGAACATCGAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTAAACATCGAATGCA
*
1406305 TTC
61 TTT
1406308 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATACTTTTAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTT-AAACATCGAATGCATTT
* * *** * **
1406373 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTT-AAACATCGAATGCATTT
*
1406437 CATGCATCGATG
1 CATGCACCGATG
1406449 TACACTTGGT
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
63 5 0.04
64 54 0.44
65 61 0.50
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTAAACATCGAATGCATTT
Found at i:1406469 original size:64 final size:65
Alignment explanation
Indices: 1406292--1406454 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
1406282 GAATTAATTG
* * * *
1406292 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATACTTTTAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTTAA
* ** ** * *
1406357 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTTAA
*
1406421 AACATCGAATGCATTTCATGCATCGATGTACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
1406455 TGGTGCACCG
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
64 39 0.47
65 44 0.53
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTTAA
Found at i:1413947 original size:21 final size:21
Alignment explanation
Indices: 1413909--1413948 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1413899 CGGGAGCTAG
* *
1413909 TTCTTCTCGAGTTGCTCCTAA
1 TTCTTCTCGAGCTCCTCCTAA
*
1413930 TTCTTCTCGTGCTCCTCCT
1 TTCTTCTCGAGCTCCTCCT
1413949 CCTCCTCCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.35, G:0.12, T:0.45
Consensus pattern (21 bp):
TTCTTCTCGAGCTCCTCCTAA
Found at i:1415038 original size:19 final size:19
Alignment explanation
Indices: 1415014--1415052 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1415004 TCGAATGCAT
1415014 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1415033 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1415052 T
1 T
1415053 GAATACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1415094 original size:46 final size:45
Alignment explanation
Indices: 1415035--1415140 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 45
1415025 ATGCACTCTC
*
1415035 CATGCATCGATGCACTCTGAATA-CTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCAC-CAGAATATCTTTC-AAACATCGAATGCATTT
* ** *
1415081 GATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCATCGATGCACCAGAATATCTTTCAAACATCGAATGCATTT
1415126 CATGCATCGATGCAC
1 CATGCATCGATGCAC
1415141 ACTTGGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 35 0.66
46 18 0.34
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
CATGCATCGATGCACCAGAATATCTTTCAAACATCGAATGCATTT
Found at i:1422293 original size:19 final size:20
Alignment explanation
Indices: 1422269--1422308 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1422259 TCATTTAGTT
*
1422269 ATTATC-TCTTTTTATTTTA
1 ATTATCATCTTTTAATTTTA
1422288 ATTATCAATCTTTTAATTTTA
1 ATTATC-ATCTTTTAATTTTA
1422309 TCAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATCATCTTTTAATTTTA
Found at i:1422999 original size:10 final size:10
Alignment explanation
Indices: 1422973--1423005 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1422963 GTAGAAATAA
1422973 AAATATA-TT
1 AAATATATTT
1422982 AAATATATTT
1 AAATATATTT
*
1422992 ATATATATTT
1 AAATATATTT
1423002 AAAT
1 AAAT
1423006 GTATGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATATATTT
Found at i:1423014 original size:20 final size:19
Alignment explanation
Indices: 1422975--1423014 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1422965 AGAAATAAAA
*
1422975 ATATATTAAATATATTTAT
1 ATATATTAAATATATGTAT
*
1422994 ATATATTTAAATGTATGTAT
1 ATATA-TTAAATATATGTAT
1423014 A
1 A
1423015 ACTTATATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATATTAAATATATGTAT
Found at i:1423201 original size:23 final size:23
Alignment explanation
Indices: 1423158--1423204 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1423148 ACAAATCTTA
* *
1423158 AATTTATTTATTAATTTTATATC
1 AATTAATTTATTAATTATATATC
1423181 AATTAATTTAGTTAATATATATAT
1 AATTAATTTA-TTAAT-TATATAT
1423205 ATATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 5 0.25
25 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTAATTTATTAATTATATATC
Found at i:1423202 original size:2 final size:2
Alignment explanation
Indices: 1423195--1423223 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1423185 AATTTAGTTA
1423195 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1423224 ATCTATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1431393 original size:15 final size:17
Alignment explanation
Indices: 1431362--1431393 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1431352 TGTATTTTTT
1431362 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
1431379 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
1431394 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:1439801 original size:29 final size:29
Alignment explanation
Indices: 1439759--1439821 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
1439749 ACAAGCCTCA
* *
1439759 GAAAAATTGGGGATCATTTCGTAAGTTTG
1 GAAAAATTGGGGATAAATTCGTAAGTTTG
* *
1439788 GAAAAGTTGGGGATAAATTCGTAATTTTG
1 GAAAAATTGGGGATAAATTCGTAAGTTTG
1439817 GAAAA
1 GAAAA
1439822 TTGATGAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.32
Consensus pattern (29 bp):
GAAAAATTGGGGATAAATTCGTAAGTTTG
Found at i:1441331 original size:47 final size:45
Alignment explanation
Indices: 1441231--1441345 Score: 144
Period size: 47 Copynumber: 2.5 Consensus size: 45
1441221 GTAAGTATGC
1441231 AAATAAGCTTACGAGCTTAT-GAATAATGACAAGTATATTGATAA
1 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGATAA
* ** * *
1441275 AAATAAGCTTACAAGCTTATGGAATTTAAATGGTAAGTATTTTGGT-A
1 AAATAAGCTTACGAGCTTATGGAA--T-AATGACAAGTATATTGATAA
1441322 AAATAAGCTTACGAGCTTATGGAA
1 AAATAAGCTTACGAGCTTATGGAA
1441346 AAAAAGGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 19 0.31
45 3 0.05
47 25 0.41
48 14 0.23
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGATAA
Found at i:1442205 original size:17 final size:18
Alignment explanation
Indices: 1442169--1442224 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1442159 TGGTACAGTG
* *
1442169 AAAGTAACATTATAAGAA
1 AAAGGAACAATATAAGAA
1442187 AAAGGAACAATAT-AGAA
1 AAAGGAACAATATAAGAA
** *
1442204 AATAAAAACAATAAAAGAA
1 AA-AGGAACAATATAAGAA
1442223 AA
1 AA
1442225 GAAATAGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (18 bp):
AAAGGAACAATATAAGAA
Found at i:1446465 original size:13 final size:13
Alignment explanation
Indices: 1446447--1446480 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1446437 ATGGGCAAAT
*
1446447 TTTGAAAACTATG
1 TTTGAAAACGATG
1446460 TTTGAAAACGATG
1 TTTGAAAACGATG
1446473 TTTGAAAA
1 TTTGAAAA
1446481 ATTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (13 bp):
TTTGAAAACGATG
Found at i:1450331 original size:12 final size:12
Alignment explanation
Indices: 1450314--1450353 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1450304 CCAACGTTTT
1450314 TCTCCTTCTTTG
1 TCTCCTTCTTTG
1450326 TCTCCTTCTTTG
1 TCTCCTTCTTTG
* * *
1450338 TTTCGTTCTTTT
1 TCTCCTTCTTTG
1450350 TCTC
1 TCTC
1450354 GAGGTCTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.30, G:0.07, T:0.62
Consensus pattern (12 bp):
TCTCCTTCTTTG
Found at i:1451766 original size:35 final size:35
Alignment explanation
Indices: 1451719--1451803 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 35
1451709 AATGCATGGC
* *
1451719 TGTGCATCGGTACACAAAATAGCTTTGATGTTGGG
1 TGTGCATCGGTACACAAAACAGATTTGATGTTGGG
* *
1451754 TGTGCATTGGTACACAAAACATATTTGATGTTGGG
1 TGTGCATCGGTACACAAAACAGATTTGATGTTGGG
*
1451789 TGTGCATCGATACAC
1 TGTGCATCGGTACAC
1451804 TAAAGAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (35 bp):
TGTGCATCGGTACACAAAACAGATTTGATGTTGGG
Found at i:1457583 original size:25 final size:26
Alignment explanation
Indices: 1457549--1457598 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
1457539 CGAAGTGCTA
1457549 ATACACATAAGGTCGTG-CCACCATC
1 ATACACATAAGGTCGTGCCCACCATC
1457574 ATACACATAAGGTCGTGCCCACCAT
1 ATACACATAAGGTCGTGCCCACCAT
1457599 ATGCACGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (26 bp):
ATACACATAAGGTCGTGCCCACCATC
Found at i:1464222 original size:5 final size:5
Alignment explanation
Indices: 1464212--1464244 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1464202 GCAACCATCT
*
1464212 ATTTC ATTTC ATTTC ATTTC ATTCC ATTTC ATT
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATT
1464245 ACTTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:1464505 original size:18 final size:17
Alignment explanation
Indices: 1464479--1464512 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1464469 AACAATAGAA
1464479 ACAAAAAGAAAAAGAAAT
1 ACAAAAAG-AAAAGAAAT
*
1464497 ACAAGAAGAAAAGAAA
1 ACAAAAAGAAAAGAAA
1464513 GTCTCCTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (17 bp):
ACAAAAAGAAAAGAAAT
Found at i:1469099 original size:44 final size:43
Alignment explanation
Indices: 1469051--1469238 Score: 250
Period size: 44 Copynumber: 4.3 Consensus size: 43
1469041 AAAACAAATT
*
1469051 CATAAATGAAATGCATATCGGTGCATTAAGGCATGAAAGGATAC
1 CATAAATGAAATGCATAT-GGTGCATTAAGGCATGAAAGGATGC
* * * *
1469095 CATAAATAAAATGCATAACGATGCATTAATGCATGAAAGGATGC
1 CATAAATGAAATGCAT-ATGGTGCATTAAGGCATGAAAGGATGC
* *
1469139 CATAAATGAAATTCATAATGGTGCATTAAGGTATGAAAGGATGC
1 CATAAATGAAATGCAT-ATGGTGCATTAAGGCATGAAAGGATGC
* *
1469183 CGTAAATGAAATGCACAATGGTGCATTTAAGGCATGAAAGGATGC
1 CATAAATGAAATGCA-TATGGTGCA-TTAAGGCATGAAAGGATGC
1469228 CATAAATGAAA
1 CATAAATGAAA
1469239 ATAATGAATA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
44 96 0.77
45 29 0.23
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (43 bp):
CATAAATGAAATGCATATGGTGCATTAAGGCATGAAAGGATGC
Found at i:1474292 original size:29 final size:31
Alignment explanation
Indices: 1474240--1474298 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
1474230 TTAATCCTTG
1474240 AACTTTTCAAAAGTTTATACTTTGGCCACTT
1 AACTTTTCAAAAGTTTATACTTTGGCCACTT
* *
1474271 AACTTTT-AAAA-TTTATATTTTGGTCACT
1 AACTTTTCAAAAGTTTATACTTTGGCCACT
1474299 ATCCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 4 0.15
31 7 0.27
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (31 bp):
AACTTTTCAAAAGTTTATACTTTGGCCACTT
Found at i:1477294 original size:66 final size:66
Alignment explanation
Indices: 1477205--1477352 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 66
1477195 ATACTATATT
* * * * * * * *
1477205 GATCTCTCGATGAGACTCGTGTACCTTTGTATTGCATGAGGTGGAGTGATAGCTGAATTTTTTAT
1 GATCACTCGATGAGACTCATGTACCTTTGTAGTGCATGAGGTGGAATGATAACTGAATATTGTAC
1477270 A
66 A
* *
1477271 GATCACTCGATGAGACTCATGTACCTTTGTGGTGCATGAGGTGGAATGATAATTGAATATTGTAC
1 GATCACTCGATGAGACTCATGTACCTTTGTAGTGCATGAGGTGGAATGATAACTGAATATTGTAC
1477336 A
66 A
*
1477337 TATCACTCGATGAGAC
1 GATCACTCGATGAGAC
1477353 GTGTACTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (66 bp):
GATCACTCGATGAGACTCATGTACCTTTGTAGTGCATGAGGTGGAATGATAACTGAATATTGTAC
A
Found at i:1479459 original size:14 final size:14
Alignment explanation
Indices: 1479440--1479471 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1479430 GGGTTACAAC
1479440 CAGGGTAACAATAG
1 CAGGGTAACAATAG
1479454 CAGGGTAACAATAG
1 CAGGGTAACAATAG
1479468 CAGG
1 CAGG
1479472 CTTACACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.31, T:0.12
Consensus pattern (14 bp):
CAGGGTAACAATAG
Found at i:1480428 original size:32 final size:32
Alignment explanation
Indices: 1480392--1480465 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
1480382 TCAGTATGAT
** *
1480392 ATTCAGATAAAGCATGGCATACTCAATATTGC
1 ATTCAGATAAAGCATAACAGACTCAATATTGC
* * *
1480424 ATTCAGATAATGCATAACAGAGTTAATATTGC
1 ATTCAGATAAAGCATAACAGACTCAATATTGC
*
1480456 ATTGAGATAA
1 ATTCAGATAA
1480466 TGCACAGGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (32 bp):
ATTCAGATAAAGCATAACAGACTCAATATTGC
Found at i:1485264 original size:13 final size:13
Alignment explanation
Indices: 1485246--1485297 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
1485236 TAAATTTATG
1485246 ACGCATTTATGAC
1 ACGCATTTATGAC
1485259 ACGCATTTATGAC
1 ACGCATTTATGAC
* *
1485272 GCACATTTATGAC
1 ACGCATTTATGAC
**
1485285 GTGCATTTATGAC
1 ACGCATTTATGAC
1485298 TTACATTACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (13 bp):
ACGCATTTATGAC
Found at i:1485304 original size:13 final size:13
Alignment explanation
Indices: 1485239--1485304 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
1485229 TGCGTCATAA
1485239 ATTTATGACG--C
1 ATTTATGACGTAC
***
1485250 ATTTATGACACGC
1 ATTTATGACGTAC
*
1485263 ATTTATGACGCAC
1 ATTTATGACGTAC
*
1485276 ATTTATGACGTGC
1 ATTTATGACGTAC
*
1485289 ATTTATGACTTAC
1 ATTTATGACGTAC
1485302 ATT
1 ATT
1485305 ACGCGTCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
11 9 0.20
13 37 0.80
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (13 bp):
ATTTATGACGTAC
Found at i:1485304 original size:26 final size:26
Alignment explanation
Indices: 1485239--1485297 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
1485229 TGCGTCATAA
1485239 ATTTATGACG--CATTTATGACACGC
1 ATTTATGACGCACATTTATGACACGC
**
1485263 ATTTATGACGCACATTTATGACGTGC
1 ATTTATGACGCACATTTATGACACGC
1485289 ATTTATGAC
1 ATTTATGAC
1485298 TTACATTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 10 0.32
26 21 0.68
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (26 bp):
ATTTATGACGCACATTTATGACACGC
Found at i:1490429 original size:32 final size:32
Alignment explanation
Indices: 1490378--1490556 Score: 187
Period size: 32 Copynumber: 5.6 Consensus size: 32
1490368 ATTGCATAGT
* * *
1490378 ATATTACATTAAGATAATGCATAGCATAGTCA
1 ATATTGCATTCAGATAATGCATAGCAGAGTCA
* *
1490410 AAATTGCATTCAAATAATGCATAGCAGAGTCA
1 ATATTGCATTCAGATAATGCATAGCAGAGTCA
* *
1490442 ATATTGCATTCAGATAATGCATAGCGGAGTTA
1 ATATTGCATTCAGATAATGCATAGCAGAGTCA
* * * *
1490474 GTATTGCATTCAGATAATACATAGCATAGTTA
1 ATATTGCATTCAGATAATGCATAGCAGAGTCA
* * * * * *
1490506 GTATTGTATTTAGATAATGTATAGGAGTGTCA
1 ATATTGCATTCAGATAATGCATAGCAGAGTCA
* *
1490538 GTATTGCATTTAGATAATG
1 ATATTGCATTCAGATAATG
1490557 TGTATTTGAT
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 125 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (32 bp):
ATATTGCATTCAGATAATGCATAGCAGAGTCA
Found at i:1490553 original size:96 final size:96
Alignment explanation
Indices: 1490379--1490556 Score: 230
Period size: 96 Copynumber: 1.9 Consensus size: 96
1490369 TTGCATAGTA
*
1490379 TATTACATTAAGATAATGCATAGCATAGTCAAAATTGCATTCAAATAATGCATAGCAGAGTCAAT
1 TATTACATTAAGATAATACATAGCATAGTCAAAATTGCATTCAAATAATGCATAGCAGAGTCAAT
1490444 ATTGCATTCAGATAATGCATAGCGGAGTTAG
66 ATTGCATTCAGATAATGCATAGCGGAGTTAG
* * * ** * * * * * * *
1490475 TATTGCATTCAGATAATACATAGCATAGTTAGTATTGTATTTAGATAATGTATAGGAGTGTCAGT
1 TATTACATTAAGATAATACATAGCATAGTCAAAATTGCATTCAAATAATGCATAGCAGAGTCAAT
*
1490540 ATTGCATTTAGATAATG
66 ATTGCATTCAGATAATG
1490557 TGTATTTGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (96 bp):
TATTACATTAAGATAATACATAGCATAGTCAAAATTGCATTCAAATAATGCATAGCAGAGTCAAT
ATTGCATTCAGATAATGCATAGCGGAGTTAG
Found at i:1492375 original size:24 final size:24
Alignment explanation
Indices: 1492348--1492431 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
1492338 CATTCGATAA
*
1492348 TATGTTCATTTATGTTTGGTTGTT
1 TATGTTCATTTATGTTCGGTTGTT
*
1492372 TATGTTCATTTATGTTCGTTTGTT
1 TATGTTCATTTATGTTCGGTTGTT
* * * *
1492396 TATATTCATTTTTGTTCGTTTATGT
1 TATGTTCATTTATGTTCGGTTGT-T
1492421 T-TGTTCATTTA
1 TATGTTCATTTA
1492432 GGTTTATCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
24 50 0.96
25 2 0.04
ACGTcount: A:0.14, C:0.07, G:0.15, T:0.63
Consensus pattern (24 bp):
TATGTTCATTTATGTTCGGTTGTT
Found at i:1492635 original size:10 final size:10
Alignment explanation
Indices: 1492621--1492720 Score: 67
Period size: 10 Copynumber: 9.4 Consensus size: 10
1492611 GTTGTTGTGG
*
1492621 TTTATGTTCG
1 TTTATGTTCA
1492631 TTTATGTTCA
1 TTTATGTTCA
1492641 TTTATGTTCA
1 TTTATGTTCA
*
1492651 TTTAATGTGT-T
1 TTT-ATGT-TCA
*
1492662 TGGTTATGTTCTTT
1 T--TTATGTTC--A
*
1492676 TGTTGTGTTCA
1 T-TTATGTTCA
1492687 TTTATGTTCA
1 TTTATGTTCA
* *
1492697 TTTACGTTCG
1 TTTATGTTCA
*
1492707 TTTGTGTTCA
1 TTTATGTTCA
1492717 TTTA
1 TTTA
1492721 ATGTGTTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
10 48 0.67
11 7 0.10
12 5 0.07
13 10 0.14
14 2 0.03
ACGTcount: A:0.14, C:0.09, G:0.17, T:0.60
Consensus pattern (10 bp):
TTTATGTTCA
Found at i:1492668 original size:23 final size:23
Alignment explanation
Indices: 1492635--1492743 Score: 73
Period size: 23 Copynumber: 4.9 Consensus size: 23
1492625 TGTTCGTTTA
*
1492635 TGTTCATTTATGTTCATTTAATG
1 TGTTCAGTTATGTTCATTTAATG
** * **
1492658 TGTTTGGTTATGTTCTTTTGTTG
1 TGTTCAGTTATGTTCATTTAATG
*
1492681 TGTTCATTTATGTTCATTT-A--
1 TGTTCAGTTATGTTCATTTAATG
* *
1492701 CGTTC-GTTTGTGTTCATTTAATG
1 TGTTCAG-TTATGTTCATTTAATG
* * *
1492724 TGTTCACTTATTTTCGTTTA
1 TGTTCAGTTATGTTCATTTA
1492744 TGCTCGTTTA
Statistics
Matches: 62, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
20 15 0.24
21 1 0.02
23 46 0.74
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.59
Consensus pattern (23 bp):
TGTTCAGTTATGTTCATTTAATG
Found at i:1492728 original size:33 final size:33
Alignment explanation
Indices: 1492678--1492775 Score: 94
Period size: 33 Copynumber: 3.1 Consensus size: 33
1492668 TGTTCTTTTG
1492678 TTGTGTTCATTT-A--TGTTCATTTACGTTCGT
1 TTGTGTTCATTTAATGTGTTCATTTACGTTCGT
* **
1492708 TTGTGTTCATTTAATGTGTTCACTTATTTTCGT
1 TTGTGTTCATTTAATGTGTTCATTTACGTTCGT
* * * * * *
1492741 TTATGCTCGTTTATTGTGTTCGTTTACGTTTGT
1 TTGTGTTCATTTAATGTGTTCATTTACGTTCGT
1492774 TT
1 TT
1492776 ACATTCGTTC
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 12 0.23
31 1 0.02
33 40 0.75
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.58
Consensus pattern (33 bp):
TTGTGTTCATTTAATGTGTTCATTTACGTTCGT
Found at i:1493097 original size:31 final size:28
Alignment explanation
Indices: 1493062--1493127 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 28
1493052 AGGCATTTCT
* *
1493062 ATAATATAAAGTAAATCAATTGATATATAAA
1 ATAATATAAA-TAAA-CAA-TAATACATAAA
1493093 ATAATAT--ATAAACAATAATACATAAA
1 ATAATATAAATAAACAATAATACATAAA
1493119 ATAATATAA
1 ATAATATAA
1493128 TTCCATAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 16 0.52
27 3 0.10
28 4 0.13
29 1 0.03
31 7 0.23
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
ATAATATAAATAAACAATAATACATAAA
Found at i:1493109 original size:14 final size:12
Alignment explanation
Indices: 1493084--1493126 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
1493074 AAATCAATTG
1493084 ATATATAAAATA
1 ATATATAAAATA
1493096 ATATATAAACAATA
1 ATATAT-AA-AATA
*
1493110 ATACATAAAATA
1 ATATATAAAATA
1493122 ATATA
1 ATATA
1493127 ATTCCATAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 14 0.52
13 4 0.15
14 9 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATATAAAATA
Found at i:1493518 original size:23 final size:23
Alignment explanation
Indices: 1493492--1493545 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1493482 TGATCTCCAT
*
1493492 AATGCACATATAGTGCCATATAG
1 AATGCACATATAATGCCATATAG
* *
1493515 AATGAACATGTAATGCCATATAG
1 AATGCACATATAATGCCATATAG
*
1493538 GATGCACA
1 AATGCACA
1493546 AATATGTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (23 bp):
AATGCACATATAATGCCATATAG
Found at i:1500356 original size:21 final size:24
Alignment explanation
Indices: 1500311--1500357 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
1500301 CAACATACTT
*
1500311 TTCTTTCTATACATTTTTCCATTA
1 TTCTTTCTATACATTATTCCATTA
1500335 TTCTTTC-ATA-ATTATT-CATTA
1 TTCTTTCTATACATTATTCCATTA
1500356 TT
1 TT
1500358 TTCATTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 3 0.14
24 7 0.32
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCTTTCTATACATTATTCCATTA
Found at i:1500421 original size:45 final size:45
Alignment explanation
Indices: 1500357--1500519 Score: 238
Period size: 45 Copynumber: 3.6 Consensus size: 45
1500347 TATTCATTAT
*
1500357 TTTCATTTAGGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
* * *
1500402 TTTCATTTATGGAATCCTTTCATGCCTTTAATGTAATGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
* *
1500447 TTTCATTTATGGCATCCTTTC-TAGCCTTTATTGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCAT-GCCTTTAATGCACTGTTATGCA
* *
1500492 TCTCATTTATGGCATCCTTTCAAGCCTT
1 TTTCATTTATGGCATCCTTTCATGCCTT
1500520 GACGCATTTT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.01
45 104 0.99
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
Found at i:1500933 original size:162 final size:162
Alignment explanation
Indices: 1500765--1501364 Score: 832
Period size: 162 Copynumber: 3.7 Consensus size: 162
1500755 AATTTCGTGG
* * *
1500765 GTTGCACACTTAGTC-CTGAAAAGGTTGATCATCAACATATAATGAATTTCGTGAGTTGCACACA
1 GTTGCACACATAGTCTC-GAAAAGGTTGTTCATCAACATATGATGAATTTCGTGAGTTGCACACA
* *
1500829 TAGTTCCGAAACGGTTGTTCATCAACATATAATGAATTCCGTGAGTTGCACACATAGCGCTGAAA
65 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGCGCTGAAA
*
1500894 TGGTTGTTCATCAACATATGATGAATTCTGTGG
130 TGGTTGTTCATCAACATATGATGAATTCTGTGA
* * * * * *
1500927 GTTGCACACTTAGTTTCGAAAAGGTTGTTAATCAACATATGATAAATTCCGTGAGTTGCAGACAT
1 GTTGCACACATAGTCTCGAAAAGGTTGTTCATCAACATATGATGAATTTCGTGAGTTGCACACAT
* *
1500992 AGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACATATAGCGCCGAAAT
66 AGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGCGCTGAAAT
*
1501057 GGTTGTTCATCAACATATGATGAATT-TCATGA
131 GGTTGTTCATCAACATATGATGAATTCT-GTGA
* * * * *
1501089 GTTGAACACACAGTGTCGAAACGGTTGTTCATCAATATATGATGAA-TTCGTGAGTTGCACACAT
1 GTTGCACACATAGTCTCGAAAAGGTTGTTCATCAACATATGATGAATTTCGTGAGTTGCACACAT
* *
1501153 AGTGCCGAAACGGTTGTTCATTAACATATGATGAATTCCGTGAGTTGCACACATAGTGCTGAAAT
66 AGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGCGCTGAAAT
*
1501218 GGTTGTTCAT-AACATATGATAAATTCTGTGA
131 GGTTGTTCATCAACATATGATGAATTCTGTGA
* * ** *
1501249 GTTGCACAAATAGTGC-CGAAACGGTTGTTCATCAGTATAGGATGAATTTCGTGAGTTGCACACA
1 GTTGCACACATAGT-CTCGAAAAGGTTGTTCATCAACATATGATGAATTTCGTGAGTTGCACACA
* * ** * *
1501313 TAGTGTCAAAAAAGTTGTTCATCAAAATATGATGAATTCTGTGAGTTGCACA
65 TAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACA
1501365 GTTAGTGCCT
Statistics
Matches: 391, Mismatches: 42, Indels: 11
0.88 0.09 0.02
Matches are distributed among these distances:
160 56 0.14
161 151 0.39
162 183 0.47
163 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (162 bp):
GTTGCACACATAGTCTCGAAAAGGTTGTTCATCAACATATGATGAATTTCGTGAGTTGCACACAT
AGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGCGCTGAAAT
GGTTGTTCATCAACATATGATGAATTCTGTGA
Found at i:1501371 original size:54 final size:54
Alignment explanation
Indices: 1500765--1501373 Score: 744
Period size: 54 Copynumber: 11.3 Consensus size: 54
1500755 AATTTCGTGG
* * * *
1500765 GTTGCACACTTAGT-CCTGAAAAGGTTGATCATCAACATATAATGAATT-TCGTGA
1 GTTGCACACATAGTGCC-GAAACGGTTGTTCATCAACATATGATGAATTCT-GTGA
* * *
1500819 GTTGCACACATAGTTCCGAAACGGTTGTTCATCAACATATAATGAATTCCGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* * * *
1500873 GTTGCACACATAGCGCTGAAATGGTTGTTCATCAACATATGATGAATTCTGTGG
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* ** * * * *
1500927 GTTGCACACTTAGTTTCGAAAAGGTTGTTAATCAACATATGATAAATTCCGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* *
1500981 GTTGCAGACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* * * *
1501035 GTTGCACATATAGCGCCGAAATGGTTGTTCATCAACATATGATGAATT-TCATGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCT-GTGA
* * * *
1501089 GTTGAACACACAGTGTCGAAACGGTTGTTCATCAATATATGATGAATTC-GTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* *
1501142 GTTGCACACATAGTGCCGAAACGGTTGTTCATTAACATATGATGAATTCCGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* * *
1501196 GTTGCACACATAGTGCTGAAATGGTTGTTCAT-AACATATGATAAATTCTGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
* ** *
1501249 GTTGCACAAATAGTGCCGAAACGGTTGTTCATCAGTATAGGATGAATT-TCGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCT-GTGA
* * ** *
1501303 GTTGCACACATAGTGTCAAAAAAGTTGTTCATCAAAATATGATGAATTCTGTGA
1 GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
**
1501357 GTTGCACAGTTAGTGCC
1 GTTGCACACATAGTGCC
1501374 TATTTGGTAA
Statistics
Matches: 478, Mismatches: 69, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
53 96 0.20
54 379 0.79
55 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (54 bp):
GTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGA
Found at i:1504567 original size:2 final size:2
Alignment explanation
Indices: 1504560--1504598 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1504550 CCATAAAAAC
1504560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1504599 TTCTGACATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1506493 original size:565 final size:568
Alignment explanation
Indices: 1505406--1506556 Score: 1939
Period size: 565 Copynumber: 2.0 Consensus size: 568
1505396 ACTTAAGTAT
1505406 TCCTCACTTATTTAAACTTACATGAAGAAACCTTGGAATCATCTCTAGATTCAGAAGTCTCCTCT
1 TCCT-ACTTATTTAAACTTACATGAAGAAACCTTGGAATCATCTCTAGATTCAGAAGTCTCCTCT
* * *
1505471 AGATCCTCATCCGATTCAATTTCTCTTGGGTTGATTTTAATATTCACCTTCTTTTTAGTACCATC
65 AGATCCTCATCCGATTCAATTTCTCTTGGGTCGATTTTAATATTCACCTTCTTTTCAATACCATC
*
1505536 TATTTTCTTACCTTTGTCCTTAATTTCTGACATATATTAGGACATACCTAATAATAACACATAAG
130 TATTTTCTTACCTTTGTCCTTAATTTCTGACATATATTAGGACATACCTAATAATAACACACAAG
1505601 TTAATAAGGAGTTACATCAATCAACACTCTAATTGACACTATATCAGTAACTTTGACAATCCTAA
195 TTAATAAGGAGTTACATCAATCAACACTC--A-T---AC----TCAGTAACTTTGACAATCCTAA
* ** *
1505666 TGGCATGTATTCCTTTTTCTCAATTCATTTAAACTTGGTTTTGGTTGAGAATCGACTAAACCTGT
250 TGGCATGTATTCCTTTTTCACAATTCATTTAAACTTGGTTTCAGCTGAGAATCGACTAAACCTGT
* *
1505731 AGCTCTGATACCAATAAATGCAACACCTTTTTCCCATATATGTTTTCGTACACAAGTAATATGTG
315 AGCTCTGATACCAATAAATGCAACACCTTTTTCCCATATACGTTTTCGTACACAAGTAATAGGTG
* *
1505796 TCACATGATTTTTAAAAACATATACCCATTCATAAAACCTGTAAAATTTTGTTTGAAATTTTAAT
380 TCACATGATTTTTAAAAACATACACCCATTCATAAAACATGTAAAATTTTGTTTGAAATTTTAAT
*
1505861 AACCAGTACAACCATAAAACAGTCTTTGAAACCTATTACCAGAGTTATCACTTTAATTACATTCT
445 AACCAATACAACCATAAAACAGTCTTTGAAACCTATTACCAGAGTTATCACTTTAATTACATTCT
*
1505926 ACAATAATTTTTCTTAATTTTGATTACATGCCAGTAATTTTTCAAAATAAACCTGATTG
510 ACAACAATTTTTCTTAATTTTGATTACATGCCAGTAATTTTTCAAAATAAACCTGATTG
1505985 TCCTACTTATTTAAACTTACATGAAGAAACCTTGGAATCATCTCTAGATTCAGAAGTCTCCTCTA
1 TCCTACTTATTTAAACTTACATGAAGAAACCTTGGAATCATCTCTAGATTCAGAAGTCTCCTCTA
*
1506050 GATCCTCATCCGATTCAATTTCTCTTGGGTCGATTTTAATATTGACCTTCTTTTCAATACCATCT
66 GATCCTCATCCGATTCAATTTCTCTTGGGTCGATTTTAATATTCACCTTCTTTTCAATACCATCT
* * *
1506115 ATTTTCTTACCTTTGTCGTTAATTTCTGACATCTATTAGGATATACCTAATAATAACACACAAGT
131 ATTTTCTTACCTTTGTCCTTAATTTCTGACATATATTAGGACATACCTAATAATAACACACAAGT
*
1506180 TAATAAGTAGTTACATCAATCAACACTC-T-C-CAGTAACTTTGACAATCCTAATGGCATGTATT
196 TAATAAGGAGTTACATCAATCAACACTCATACTCAGTAACTTTGACAATCCTAATGGCATGTATT
*
1506242 CCTTTTTCACAATTCATTTAAACTTGGTTTCAGCTGAGAATCGGCTAAACCTGTAGCTCTGATAC
261 CCTTTTTCACAATTCATTTAAACTTGGTTTCAGCTGAGAATCGACTAAACCTGTAGCTCTGATAC
* *
1506307 CAATAAATGCAATACCTTTTTCCCATATACGTTTTCGTACACAAGTAATAGGTGTTACATGATTT
326 CAATAAATGCAACACCTTTTTCCCATATACGTTTTCGTACACAAGTAATAGGTGTCACATGATTT
* *
1506372 TTAAAAATATACACCCGTTCATAAAACATGTAAAATTTTGTTTGAAATTTTAATAACCAATACAA
391 TTAAAAACATACACCCATTCATAAAACATGTAAAATTTTGTTTGAAATTTTAATAACCAATACAA
*
1506437 CCATAAAATAGTCTTTGAAACCTATTACCAGAGTTATCACTTTAATTACATTCTACAACAATTTT
456 CCATAAAACAGTCTTTGAAACCTATTACCAGAGTTATCACTTTAATTACATTCTACAACAATTTT
*
1506502 TCTTAATTTTGATTACATGCCAGTATTTTTTCAAAATAAACCTGATTG
521 TCTTAATTTTGATTACATGCCAGTAATTTTTCAAAATAAACCTGATTG
*
1506550 TTCTACT
1 TCCTACT
1506557 GTTACTGATG
Statistics
Matches: 545, Mismatches: 27, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
565 329 0.60
570 1 0.00
574 1 0.00
578 210 0.39
579 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (568 bp):
TCCTACTTATTTAAACTTACATGAAGAAACCTTGGAATCATCTCTAGATTCAGAAGTCTCCTCTA
GATCCTCATCCGATTCAATTTCTCTTGGGTCGATTTTAATATTCACCTTCTTTTCAATACCATCT
ATTTTCTTACCTTTGTCCTTAATTTCTGACATATATTAGGACATACCTAATAATAACACACAAGT
TAATAAGGAGTTACATCAATCAACACTCATACTCAGTAACTTTGACAATCCTAATGGCATGTATT
CCTTTTTCACAATTCATTTAAACTTGGTTTCAGCTGAGAATCGACTAAACCTGTAGCTCTGATAC
CAATAAATGCAACACCTTTTTCCCATATACGTTTTCGTACACAAGTAATAGGTGTCACATGATTT
TTAAAAACATACACCCATTCATAAAACATGTAAAATTTTGTTTGAAATTTTAATAACCAATACAA
CCATAAAACAGTCTTTGAAACCTATTACCAGAGTTATCACTTTAATTACATTCTACAACAATTTT
TCTTAATTTTGATTACATGCCAGTAATTTTTCAAAATAAACCTGATTG
Found at i:1506955 original size:45 final size:45
Alignment explanation
Indices: 1506883--1507092 Score: 266
Period size: 45 Copynumber: 4.7 Consensus size: 45
1506873 TATTCATTAT
* *
1506883 TTTCATTTA-GGACATCCTTTCAATCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGG-CATCATTTCATTCCTTTAATGCACCGTTATGCA
*
1506928 TTTCATTTATGGCATCATTTTATTCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCA
* * * * *
1506973 TTTAATTTATGGCATCCTTTCATTCCTTTAGTGCACCATTGTGCA
1 TTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCA
* *
1507018 TCTT-ATTTATGGCATTC-TTTCATGCCTTTAATGCATCGTTATGCA
1 T-TTCATTTATGGCA-TCATTTCATTCCTTTAATGCACCGTTATGCA
1507063 TTTCATTTATGGCATCATTTC-TTGCCTTTA
1 TTTCATTTATGGCATCATTTCATT-CCTTTA
1507093 GAACAATTAG
Statistics
Matches: 144, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
44 5 0.03
45 133 0.92
46 6 0.04
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (45 bp):
TTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCA
Found at i:1507275 original size:55 final size:56
Alignment explanation
Indices: 1507192--1507350 Score: 223
Period size: 56 Copynumber: 2.9 Consensus size: 56
1507182 AACTCTATAG
* * * *
1507192 TTTT-CACACGTAGTGCCCACACAAAAATTCATAAACTTATTACGAATTT-TTAGT
1 TTTTGCACACCTAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT
*
1507246 TTTTGCACACCTAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTTGCACACCTAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT
* * * *
1507302 TTTGGCACACCCAGTGCCCATATAGAAATTCATAAACTTCTTATGAATT
1 TTTTGCACACCTAGTGCCCATACAGAAATTCATAAACTTATTATGAATT
1507351 CCGTGGGTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
54 4 0.04
55 40 0.43
56 49 0.53
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (56 bp):
TTTTGCACACCTAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT
Found at i:1507402 original size:54 final size:54
Alignment explanation
Indices: 1507344--1508010 Score: 759
Period size: 54 Copynumber: 12.4 Consensus size: 54
1507334 TAAACTTCTT
* * * *
1507344 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCTTCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* *
1507398 ATGAATTCCATGAGTTGCACACATAGTGCCGAAACGGTTGTACATCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * * * *
1507452 ATGAATTCTGTGAGTT--ACACATAGTGTCGAAACGGTTGTACATCAATATTTG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * * * *
1507504 ATGAATTTCGTGAGTTGCACACATAGTGTCGAAACGGTTGTTCATCGATATACG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* **** * *
1507558 ATGAATTTCC-TGAGTTGCATACATAGCATTGAAATGGTTGTTCGTC-ACATATG
1 ATGAA-TTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * ** **
1507611 ATGAATTTCGTGAGTTGCACACAGAGTGTTGAATTGGTTGTTCATCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * * * *
1507665 ATGAATTTCGTGAATTGCACACATAGTGCCAAAACGATTGTTTATCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * *
1507719 ATGAATTTCGTGAGTTGCACACATAGTGCAGAAATGGTTGTTCATCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * * * *
1507773 ATGAATTTCGTAAGTTGCATACATAGTGCCAAAATGGTTGTTCATCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
** * * * *
1507827 ATGAATTGAGTGAGTTGCACACATAATGCCGAAACGGTGGTTTATCAACGTATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
* * *
1507881 ATGAATTCCGTGAGTTGCACACATAGTACCGAAATGGTTGTTCATCAACATAAG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
** * * *
1507935 ATGAATTATGTGAGTTACACACATAGTGCC-AGAATGGTTGTCCATCAACATATG
1 ATGAATTCCGTGAGTTGCACACATAGTGCCGA-AACGGTTGTTCATCAACATATG
* *
1507989 ATGAATTCTGTGAGTTGAACAC
1 ATGAATTCCGTGAGTTGCACAC
1508011 TTAGCGCCTA
Statistics
Matches: 527, Mismatches: 80, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
52 50 0.09
53 41 0.08
54 433 0.82
55 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (54 bp):
ATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
Found at i:1507769 original size:27 final size:27
Alignment explanation
Indices: 1507739--1507824 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
1507729 TGAGTTGCAC
1507739 ACATAGTGCAGAAATGGTTGTTCATCA
1 ACATAGTGCAGAAATGGTTGTTCATCA
* * *
1507766 ACATA-TG-ATGAATTTCGTAAGTTGCAT--
1 ACATAGTGCA-GAA-ATGGT-TGTT-CATCA
1507793 ACATAGTGCCA-AAATGGTTGTTCATCA
1 ACATAGTG-CAGAAATGGTTGTTCATCA
1507820 ACATA
1 ACATA
1507825 TGATGAATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 4 0.09
26 8 0.18
27 21 0.48
28 7 0.16
29 3 0.07
30 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (27 bp):
ACATAGTGCAGAAATGGTTGTTCATCA
Found at i:1508360 original size:20 final size:20
Alignment explanation
Indices: 1508335--1508387 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
1508325 AGGCTCAATA
*
1508335 GTATCGATACCCCTACCATG
1 GTATCGATACCCATACCATG
* *
1508355 GTATCGATACTTCTATACTATG
1 GTATCGATAC--CCATACCATG
1508377 GTATCGATACC
1 GTATCGATACC
1508388 TTTCTCTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:1508380 original size:22 final size:22
Alignment explanation
Indices: 1508352--1508429 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
1508342 TACCCCTACC
1508352 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
*
1508374 ATGGTATCGATACCTT-TCT-CT
1 ATGGTATCGATA-CTTCTATACT
* *
1508395 -TAGTATCGATA-TTACTACACT
1 ATGGTATCGATACTT-CTATACT
*
1508416 GTGGTATCGATACT
1 ATGGTATCGATACT
1508430 CCCATTCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.04
20 11 0.24
21 4 0.09
22 24 0.53
23 4 0.09
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (22 bp):
ATGGTATCGATACTTCTATACT
Found at i:1520416 original size:243 final size:242
Alignment explanation
Indices: 1519982--1520465 Score: 862
Period size: 243 Copynumber: 2.0 Consensus size: 242
1519972 GTTCTCGCAT
* * *
1519982 TTCTCGCATCATTGTATGATAGTATCAGTAAATTAAAAATGCCATGACATTAGTAATGGCATGAA
1 TTCTCGCATCACTGCATGATAGTAGCAGTAAATTAAAAATGCCATGACATTAGTAATGGCATGAA
* *
1520047 TAGTTTTTGGAATTTGTTAAGGATGCCCAATGATGATGAATTTGATGGCTAGGATAGAATGTACA
66 TAGTTTTAGGAATTAGTTAAGGATGCCCAATGATGATGAATTTGATGGCTAGGATAGAATGTACA
*
1520112 TGACTGGTTGAGGATGATAGAACCAACCCTAGGACTTGTTTCTCTGAAATTCTTAAATACACGAT
131 TGACTGGTTGAGGATGATAGAACCAACCCTAGGACTTGTTTCTCTGAAATTCTTAAATACACAAT
1520177 TGTATGCTTTCCATGCTTGAGGAATTTAGGAATTTTTTATAAGAGAA
196 TGTATGCTTTCCATGCTTGAGGAATTTAGGAATTTTTTATAAGAGAA
1520224 TTCTCGCATCACTGCATGATAGTAGCAGTAAATTAAAAATGCCATGACATTAGTAATGGTC-TGA
1 TTCTCGCATCACTGCATGATAGTAGCAGTAAATTAAAAATGCCATGACATTAGTAATGG-CATGA
*
1520288 ATAGTTTTAAGTAATTAGTTAAGGATGCCCAATGATGATGAATTTGATGGCTAGGATAGAATGTA
65 ATAGTTTT-AGGAATTAGTTAAGGATGCCCAATGATGATGAATTTGATGGCTAGGATAGAATGTA
* *
1520353 CATGATTGGTTGAGGATGATAGAACCAACCCTAGGACTTGTTTCTCTGAAATTCTTGAATACACA
129 CATGACTGGTTGAGGATGATAGAACCAACCCTAGGACTTGTTTCTCTGAAATTCTTAAATACACA
1520418 ATTGTATGCTTTCCATGCTTGAGGAATTTAGGAATTTTTTATAAGAGA
194 ATTGTATGCTTTCCATGCTTGAGGAATTTAGGAATTTTTTATAAGAGA
1520466 GTTGTTAAAA
Statistics
Matches: 231, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
242 67 0.29
243 164 0.71
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (242 bp):
TTCTCGCATCACTGCATGATAGTAGCAGTAAATTAAAAATGCCATGACATTAGTAATGGCATGAA
TAGTTTTAGGAATTAGTTAAGGATGCCCAATGATGATGAATTTGATGGCTAGGATAGAATGTACA
TGACTGGTTGAGGATGATAGAACCAACCCTAGGACTTGTTTCTCTGAAATTCTTAAATACACAAT
TGTATGCTTTCCATGCTTGAGGAATTTAGGAATTTTTTATAAGAGAA
Found at i:1526738 original size:20 final size:21
Alignment explanation
Indices: 1526713--1526766 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
1526703 TTGGTAAGGT
1526713 AGTATCAATACTCTAG-GTTG
1 AGTATCAATACTCTAGTGTTG
1526733 AGTATCAATACTCTAGTGTTG
1 AGTATCAATACTCTAGTGTTG
* *
1526754 GGTATCGATACTC
1 AGTATCAATACTC
1526767 GCCTAAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (21 bp):
AGTATCAATACTCTAGTGTTG
Found at i:1542300 original size:12 final size:11
Alignment explanation
Indices: 1542273--1542339 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 11
1542263 GGATATTGCT
*
1542273 TAGGTAGTGAC
1 TAGGTAGTAAC
1542284 ATAGGTAGCTAAC
1 -TAGGTAG-TAAC
1542297 TAGGCTAGTAATC
1 TAGG-TAGTAA-C
* *
1542310 TAGCTAGAAAC
1 TAGGTAGTAAC
1542321 TTAGGTAGCTAAC
1 -TAGGTAG-TAAC
1542334 TAGGTA
1 TAGGTA
1542340 ATGTAGGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.02
12 31 0.69
13 13 0.29
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (11 bp):
TAGGTAGTAAC
Found at i:1546992 original size:9 final size:9
Alignment explanation
Indices: 1546978--1547004 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1546968 ACATTCAATA
1546978 TATTTGTTT
1 TATTTGTTT
1546987 TATTTGTTT
1 TATTTGTTT
1546996 TATTTGTTT
1 TATTTGTTT
1547005 ATTAGCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (9 bp):
TATTTGTTT
Found at i:1547144 original size:23 final size:23
Alignment explanation
Indices: 1547114--1547158 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1547104 ATATAAAATT
*
1547114 TGTCCCGAAGGACCACGTATAAA
1 TGTCCCGAAGGACCACATATAAA
1547137 TGTCCCGAAGGACCACATATAA
1 TGTCCCGAAGGACCACATATAA
1547159 CATATATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCACATATAAA
Found at i:1550965 original size:26 final size:24
Alignment explanation
Indices: 1550933--1550988 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
1550923 CCACTAGGGC
*
1550933 CATATAAAATTTGTCCCGAATGACCA
1 CATATAAAA--TGTCCCGAATAACCA
*
1550959 CGTAT-AAATGTCCCGAATAACCA
1 CATATAAAATGTCCCGAATAACCA
1550982 CATATAA
1 CATATAA
1550989 CATATATGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 18 0.69
24 1 0.04
25 3 0.12
26 4 0.15
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (24 bp):
CATATAAAATGTCCCGAATAACCA
Found at i:1550974 original size:23 final size:23
Alignment explanation
Indices: 1550944--1550988 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1550934 ATATAAAATT
* *
1550944 TGTCCCGAATGACCACGTATAAA
1 TGTCCCGAATAACCACATATAAA
1550967 TGTCCCGAATAACCACATATAA
1 TGTCCCGAATAACCACATATAA
1550989 CATATATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (23 bp):
TGTCCCGAATAACCACATATAAA
Found at i:1552732 original size:31 final size:31
Alignment explanation
Indices: 1552696--1552758 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1552686 AAGAATCACG
*
1552696 TGCATCAACATCATTGGTGGTCGAATTCTCT
1 TGCATCAACATCATTGGTGGTCAAATTCTCT
1552727 TGCATCAACATCATTGGTGGTCAAATTCTCT
1 TGCATCAACATCATTGGTGGTCAAATTCTCT
1552758 T
1 T
1552759 ACATTTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
TGCATCAACATCATTGGTGGTCAAATTCTCT
Found at i:1556478 original size:19 final size:20
Alignment explanation
Indices: 1556454--1556496 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1556444 AGCATTTATC
*
1556454 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
1556473 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
1556493 TTCA
1 TTCA
1556497 AATGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:1556972 original size:31 final size:31
Alignment explanation
Indices: 1556936--1556998 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1556926 AAGAATCACG
*
1556936 TGCATCAACATCATTGGTGGTCGAATTCTCT
1 TGCATCAACATCATTGGTGGTCAAATTCTCT
1556967 TGCATCAACATCATTGGTGGTCAAATTCTCT
1 TGCATCAACATCATTGGTGGTCAAATTCTCT
1556998 T
1 T
1556999 ACATTTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
TGCATCAACATCATTGGTGGTCAAATTCTCT
Found at i:1563872 original size:29 final size:29
Alignment explanation
Indices: 1563821--1563908 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
1563811 CAAAATATAT
*
1563821 AACTTTTAAAAAT-TATATTTTTGTCACTA
1 AACTTTTCAAAATATATA-TTTTGTCACTA
* *
1563850 AACTTTTCAAAATATATACTTTGACCACTA
1 AACTTTTCAAAATATATATTTTG-TCACTA
* *
1563880 AAC-TTTCAAAACATACATTTTGGTCACTA
1 AACTTTTCAAAATATATATTTT-GTCACTA
1563909 CCCAAAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 36 0.73
30 13 0.27
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.40
Consensus pattern (29 bp):
AACTTTTCAAAATATATATTTTGTCACTA
Found at i:1567335 original size:93 final size:93
Alignment explanation
Indices: 1567167--1567349 Score: 280
Period size: 93 Copynumber: 2.0 Consensus size: 93
1567157 GGCGAAAAAC
* * *
1567167 TAATTATTGCAAAAATCTTGCTCAACCACTTAAGTGAAATTTTAATCTATCGGTATTTGATTTTG
1 TAATTATTGCAAAAATCTTGCTCAACCACTTAAGTGAAATTTTAATCCATCAGCATTTGATTTTG
*
1567232 TACACGTCTTATAAATATAACTGTTAAT
66 TACACATCTTATAAATATAACTGTTAAT
* *
1567260 TAATTATTGCAAAAATCTTGCTCAA-CACTTAAGTGAAATTTTAA-CCATTAGCATTTTATTTTG
1 TAATTATTGCAAAAATCTTGCTCAACCACTTAAGTGAAATTTTAATCCATCAGCATTTGATTTTG
1567323 TACAAACATCTTATAAATATAACTGTT
66 TAC--ACATCTTATAAATATAACTGTT
1567350 CGAACTCAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
91 17 0.21
92 19 0.23
93 46 0.56
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.40
Consensus pattern (93 bp):
TAATTATTGCAAAAATCTTGCTCAACCACTTAAGTGAAATTTTAATCCATCAGCATTTGATTTTG
TACACATCTTATAAATATAACTGTTAAT
Found at i:1572294 original size:21 final size:22
Alignment explanation
Indices: 1572245--1572288 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1572235 TTTTAAAAAT
* *
1572245 AAGTTTTTAAATTAGATATTTA
1 AAGTTTTTAAAATAAATATTTA
1572267 AAGTTTTTAAAATAAAT-TTTA
1 AAGTTTTTAAAATAAATATTTA
1572288 A
1 A
1572289 TATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
AAGTTTTTAAAATAAATATTTA
Found at i:1573010 original size:3 final size:3
Alignment explanation
Indices: 1573002--1573039 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1572992 AGGTTTTTTC
1573002 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1573040 ACATGTAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1578245 original size:40 final size:40
Alignment explanation
Indices: 1578190--1578311 Score: 192
Period size: 40 Copynumber: 3.0 Consensus size: 40
1578180 TGCAGGTTTA
*
1578190 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACAACCTTATGTG
1578230 TAATACACTTCGGTGTATAT-AGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGA-TGGGCACAACCTTATGTG
* * *
1578270 TAATACACTTCGATGTATATGGTGGGCACAAACTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACAACCTTATGTG
1578310 TA
1 TA
1578312 GCACTACGGT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGATGGGCACAACCTTATGTG
Found at i:1578467 original size:44 final size:44
Alignment explanation
Indices: 1578416--1578544 Score: 159
Period size: 44 Copynumber: 2.9 Consensus size: 44
1578406 GTAAGCATGC
*
1578416 AAATAAGCTTACGAGCTTATAGAATAATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATAGAATAATGGTAAGTATATGGGTA
* * * ***
1578460 CAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTGTATTTTTA
1 AAATAAGCTTACGAGCTTATAGAA-T-AATGGTAAGTATATGGGTA
* *
1578506 AAATAAACTTACGAGCTTATAGGATAATGGTAAGTATAT
1 AAATAAGCTTACGAGCTTATAGAATAATGGTAAGTATAT
1578545 TGGATATGCT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
44 35 0.49
45 2 0.03
46 34 0.48
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATAGAATAATGGTAAGTATATGGGTA
Done.