Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 138 of 182
Found at i:42292563 original size:178 final size:178
Alignment explanation
Indices: 42292216--42292590 Score: 384
Period size: 178 Copynumber: 2.1 Consensus size: 178
42292206 AATCCACTCT
*
42292216 ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
** * * * * * *
42292281 AGACTTGTGGCTTCAATCAGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTAC
66 AGACTTGTGAATTCAACCAGCTCCAATGCAACTTCAGAGAGAAAAGATTTCTAGCTTCGATCTAC
** * * *
42292346 TTCGCTGGAACTTCAAGAAGGTAAGAGTTGGTAATTTCAA-CGTGCTCC
131 TTCGCTACAACTTCAAGAAGATAAGAGTTGCTAATTTCAATC-TCCTCC
* * * *
42292394 ACTGCAACTTCAGGGAGATAAGG-TTTG-TGATCTTCAGTTTTCTCCACTGCAACTTTAGGGAGA
1 ACTGCAACTTCAGGGAGAT-AGGATTAGATG-TCTTCAGTCTACTCCACTGCAACTTCAGGGAGA
* * * * * * *
42292457 TAAGACTTGTTAATTCAACCTGCTCTACTGCAACTTCAGATAGATAAAG-TTTACTATCTTTGAT
64 TAAGACTTGTGAATTCAACCAGCTCCAATGCAACTTCAGAGAGA-AAAGATTT-CTAGCTTCGAT
* * *
42292521 CTGCTTCGCTACAACTTCAGGGAGATAAGA-TCTGCT-ATTTCAATCTCCTCC
127 CTACTTCGCTACAACTTCAAGAAGATAAGAGT-TGCTAATTTCAATCTCCTCC
* *
42292572 ACTGTAACTTTAGGGAGAT
1 ACTGCAACTTCAGGGAGAT
42292591 GACACCTGTA
Statistics
Matches: 161, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
177 2 0.01
178 117 0.73
179 42 0.26
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (178 bp):
ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
AGACTTGTGAATTCAACCAGCTCCAATGCAACTTCAGAGAGAAAAGATTTCTAGCTTCGATCTAC
TTCGCTACAACTTCAAGAAGATAAGAGTTGCTAATTTCAATCTCCTCC
Found at i:42292867 original size:177 final size:178
Alignment explanation
Indices: 42292659--42292990 Score: 465
Period size: 177 Copynumber: 1.9 Consensus size: 178
42292649 TGATCTATTC
* * * * *
42292659 CACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAGAT
1 CACTGCAACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGAT
*
42292724 AAAATTCGCCAT-ATACGATCTACTTCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTCAG
66 AAAATTCGCCATCAT-CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA--ATCTTCAG
*
42292786 TCTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTT
128 TCTGCTCCACTGCAACTTCAGAGAGATAGGACTTATATCTTGAACCTACTT
* *
42292837 CACTGCAACTTCAGGGAGATAAG-GCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGAT
1 CACTGCAACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGAT
* * * * * *
42292901 AAGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCT
66 AAAATTCGCCATCATCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCT
*
42292966 GCTCCACTGTAACTTCAGAGAGATA
131 GCTCCACTGCAACTTCAGAGAGATA
42292991 AAGCTGGTAG
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
177 110 0.81
178 23 0.17
179 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (178 bp):
CACTGCAACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGAT
AAAATTCGCCATCATCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCT
GCTCCACTGCAACTTCAGAGAGATAGGACTTATATCTTGAACCTACTT
Found at i:42292980 original size:133 final size:133
Alignment explanation
Indices: 42292837--42293125 Score: 425
Period size: 133 Copynumber: 2.2 Consensus size: 133
42292827 GAACCTACTT
* * * *
42292837 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATA
1 CACTGCAACTTCAGAGAGATAAGGCTGGTAGCTTAAATCTACTCCATTACCGCTACATAGAGATA
* *
42292902 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
42292967 CTC
131 CTC
* * * *
42292970 CACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTGCAACTTCAGAGAGATAAGGCTGGTAGCTTAAATCTACTCCATTACCGCTACATAGAGATA
* * * * * *
42293035 AGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
42293100 CTC
131 CTC
*
42293103 CACTACAACTTCAGAGAGATAAG
1 CACTGCAACTTCAGAGAGATAAG
42293126 ATTTGTATCT
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 137 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
CACTGCAACTTCAGAGAGATAAGGCTGGTAGCTTAAATCTACTCCATTACCGCTACATAGAGATA
AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
CTC
Found at i:42293029 original size:310 final size:311
Alignment explanation
Indices: 42292657--42293303 Score: 886
Period size: 310 Copynumber: 2.1 Consensus size: 311
42292647 CTTGATCTAT
* * * * *
42292657 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAG
1 TCCACTGTAACTTCAGAGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
* *
42292722 ATAAAATTCGCCATATACGATCTACTTCACTACTGCTTAGGGAGATAAGA-TTCACTATCTTCAG
66 ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTTCA-AATCTTCAG
* * * *
42292786 TCTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTCACTGCAACTTCAG
130 TCTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAG
* *
42292851 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATAAGATTCGCCGTCCT
195 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCT
* *
42292916 CGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
260 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
*
42292968 TCCACTGTAACTTCAGAGAGATAA-AGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
1 TCCACTGTAACTTCAGAGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
* * * * * * * * * * *
42293032 ATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGT
66 ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTTCAAATCTTCAGT
* * * *
42293097 CTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGG
131 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* * * * * * *
42293162 GAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGTCATCTTC
196 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
* * *
42293227 GATCTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGC
261 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
42293278 TCCACTGTAACTTCAG-GAAAATAAGA
1 TCCACTGTAACTTCAGAG-AAATAAGA
42293304 CTTGTATCTT
Statistics
Matches: 291, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
309 1 0.00
310 264 0.91
311 26 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (311 bp):
TCCACTGTAACTTCAGAGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTTCAAATCTTCAGT
CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
Found at i:42293034 original size:177 final size:176
Alignment explanation
Indices: 42292657--42293036 Score: 424
Period size: 177 Copynumber: 2.1 Consensus size: 176
42292647 CTTGATCTAT
* * * * * * *
42292657 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAG
1 TCCACTGCAACTACAGGGAGATAAG-GCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAG
*
42292722 ATAAAATTCGCCATATACGATCTACTTCACTACTGCTTAGGGAGATAAGATTCACTATCTTCAGT
65 ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTCAC-ATCTTCAGT
* * * * *
42292787 CTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTAC
129 CTGCTCCACTGCAACTTCAGAGAGATAAGACTGATAGCTTAAACCTAC
* * *
42292835 TTCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGA
1 TCCACTGCAACTACAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGA
* * * * * *
42292900 TAAGATTCGCCGTCCT-CGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCA-ATTTTCAG
66 TAAAATTCGCCAT-ATACGATCTACTCCACTACTGCTTAGGGAGATAAGAT-T-CACATCTTCAG
* * *
42292963 TCTGCTCCACTGTAACTTCAGAGAGATAA-AGCTGGTAGCTTAAATCTAC
128 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGATAGCTTAAACCTAC
* ** *
42293012 TCCATTGCCGCTACATGGAGATAAG
1 TCCACTGCAACTACAGGGAGATAAG
42293037 ATTTGTCGTC
Statistics
Matches: 169, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
176 1 0.01
177 142 0.84
178 24 0.14
179 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (176 bp):
TCCACTGCAACTACAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGA
TAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTCACATCTTCAGTCT
GCTCCACTGCAACTTCAGAGAGATAAGACTGATAGCTTAAACCTAC
Found at i:42293082 original size:177 final size:177
Alignment explanation
Indices: 42292914--42293475 Score: 511
Period size: 177 Copynumber: 3.2 Consensus size: 177
42292904 ATTCGCCGTC
* ** * * ** *
42292914 CTCGA-TCTGCTCCACTTCTGCTT-AGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGTA
1 CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGATCTG-AATCTTCAACCTGCTCCACTGCA
42292977 ACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTG
65 ACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTG
* * *
42293042 TCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAAT
130 TCATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTCGAAAT
* ** * * * *
42293090 TTTTAGTCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAA
1 CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGATCTGAATCTTCAACCTGCTCCACTGCAA
* * * * * *
42293155 CTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGT
66 CTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTGT
* ** *
42293220 CATCTTCGATCTGCTTCACTACTACTTAGGGAGGTAAGA-TCTGTAATT
131 CATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTC-G-AAAT
* ** * * * *
42293268 TTC-AGTCTGCTCCACTGTAACTTCAG-GAAAATAAGA-CTTGTATCTTGAACCTGCTCTACTGC
1 CTCGAGTCTGCTCCACTACAACTTCAGAG-AGATAAGATC-TGAATCTTCAACCTGCTCCACTGC
* * * * * * *
42293330 AACTTAAGGGAGATAAGGCTAGTGGCTTAAAT-TAGCTCCATTGCAGTTACATGGAGATAAGATT
64 AACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTA-CTCCATTGCCGCTACATGGAGATAAGATT
* * * * * * *
42293394 TGCCATCTTCGATCTGCTCTACTATTGCTTAGGCAGATAAGA-TCTACAAT
128 TGTCATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTCGA-AAT
* *
42293444 -T----TCTGCTCCACTACAACTTTAGGGAGATAAGA
1 CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGA
42293476 CTGGTCGCTT
Statistics
Matches: 322, Mismatches: 55, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
172 25 0.08
173 1 0.00
175 2 0.01
176 7 0.02
177 268 0.83
178 19 0.06
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (177 bp):
CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGATCTGAATCTTCAACCTGCTCCACTGCAA
CTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTGT
CATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTCGAAAT
Found at i:42293145 original size:44 final size:44
Alignment explanation
Indices: 42292216--42293346 Score: 353
Period size: 44 Copynumber: 25.5 Consensus size: 44
42292206 AATCCACTCT
* * * * * *
42292216 ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * ** * *
42292261 GCTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * * * * *
42292305 AATGTAATTTCAGGGAGA-AGAGATTTGTAGCTTCG-ATCTACTTC
1 ACTGCAACTTCAGGGAGATA-AGATTTGTATCTT-GAATCTGCTCC
* * * * * * *
42292349 GCTGGAACTTCAAGAAGGTAAGAGTTGGTAAT-TTCAA-CGTGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGT-ATCTTGAATC-TGCTCC
* * * * *
42292394 ACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTCAGTTTTCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTGAATCTGCTCC
* * * * * *
42292439 ACTGCAACTTTAGGGAGATAAGACTTGT-TAATTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAT-CTTGAATCTGCTCC
** * *
42292483 ACTGCAACTTCAGATAGATAA-AGTTTACTATCTTTG-ATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGA-TTT-GTATC-TTGAATCTGCTCC
* * * * *
42292528 GCTACAACTTCAGGGAGATAAGATCTGCTAT-TTCAATCTCCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * * * ** * * * *
42292572 ACTGTAACTTTAGGGAGATGACACCTGTAACTTCAACCTG-TTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * ** * **
42292615 TCTACAACTTCAAAGAGATAAGGTTTGCTATCCTTG-ATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAT-CTTGAATCTGCTCC
* * * ** *
42292660 ACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TTGTATCTTGAATCTGCTCC
* * * * * * * * *
42292705 ATTGC--CGTTACATGGAGATAAAATTCGCCATATACG-ATCTACTTC
1 ACTGCAAC-TT-CAGGGAGATAAGATTTG-TATCT-TGAATCTGCTCC
* ** ** * *
42292750 ACTACTGCTT-AGGGAGATAAGATTCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-TGTATCTTGAATCTGCTCC
* * * * * *
42292794 ACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
** * ** *
42292838 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * ** ** * ** *
42292882 ATTACCGCTAT-ATAGAGATAAGATTCGCCGTCCTCG-ATCTGCTCC
1 ACTGCAACT-TCAGGGAGATAAGATTTG-TAT-CTTGAATCTGCTCC
* ** * * * * *
42292927 ACTTCTGCTT-AGGGAGATAAGATCTGCAATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * * * * * *
42292971 ACTGTAACTTCAGAGAGATAA-AGCTGGTAGCTTAAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGTATCTTGAATCTGCTCC
* ** * * *
42293015 ATTGCCGCTACATGGAGATAAGATTTGTCGTCTTCG-ATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT-GAATCTGCTCC
* ** * * * * *
42293060 ACTACTGCTT-AGGGATATAAGATTTGAAATTTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * *
42293104 ACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * * ** *
42293148 ATTGCAACTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* ** * * *
42293192 ATTGCCTCTACATGGAGATAAGATTTGTCATCTTCG-ATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT-GAATCTGCTCC
* * * * * * *
42293237 ACTACTACTT-AGGGAGGTAAGATCTGTAATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTGAATCTGCTCC
* * * * * *
42293281 ACTGTAACTTCAGGAAAATAAGACTTGTATCTTGAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
*
42293325 ACTGCAACTTAAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
42293347 GCTAGTGGCT
Statistics
Matches: 758, Mismatches: 280, Indels: 97
0.67 0.25 0.09
Matches are distributed among these distances:
43 27 0.04
44 450 0.59
45 269 0.35
46 11 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
Found at i:42293165 original size:133 final size:133
Alignment explanation
Indices: 42292837--42293169 Score: 362
Period size: 133 Copynumber: 2.5 Consensus size: 133
42292827 GAACCTACTT
* * * * * * * ** * **
42292837 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* *
42292902 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
42292967 CTC
131 CTC
** * ** *
42292970 CACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * * * * *
42293035 AGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
42293100 CTC
131 CTC
* * * * * *
42293103 CACTACAACTTCAGAGAGAT-AAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGAGAGATAAAG-CTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGAT
42293167 AAG
65 AAG
42293170 GTTGGTGGCT
Statistics
Matches: 171, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 3 0.02
133 168 0.98
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
CTC
Found at i:42293212 original size:88 final size:86
Alignment explanation
Indices: 42292964--42293395 Score: 248
Period size: 89 Copynumber: 4.9 Consensus size: 86
42292954 AATTTTCAGT
* * * * * * **
42292964 CTGCTCCACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATG
1 CTGCTCCACTGCAACTT-AGGGAGAT-AAGGTTGTGGCTTAAATCTGCTCCATTGCATCTACATG
* *
42293029 GAGATAAGATTTGTCGTCTTCG-AT
64 GAGATAAGATTTGT-ATCTT-GAAC
* ** * * ** * * * * * *
42293053 CTGCTCCACTACTGCTTAGGGATATAAGATT-TGAAATTTTTAGTCTGCTCCACTACAACTTCA-
1 CTGCTCCACTGCAACTTAGGGAGATAAGGTTGTG---GCTTAAATCTGCTCCATTGCATCTACAT
42293116 GAGAGATAAGATTTGTATCTTGAAC
63 G-GAGATAAGATTTGTATCTTGAAC
* *
42293141 CTGCTCCATTGCAACTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATG
1 CTGCTCCACTGCAACTT-AGGGAGATAAGGTT-GTGGCTTAAATCTGCTCCATTGCATCTACATG
*
42293206 GAGATAAGATTTGTCATCTTCG-AT
64 GAGATAAGATTTGT-ATCTT-GAAC
* * * * * *** * * * * * *
42293230 CTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGCTCCACTGTAACTTCA-G
1 CTGCTCCACTGCAACTTAGGGAGATAAGGT-TGT-GGCTTAAATCTGCTCCATTGCATCTACATG
* *
42293294 GAAAATAAGACTTGTATCTTGAAC
64 G-AGATAAGATTTGTATCTTGAAC
* *
42293318 CTGCTCTACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTAAAT-TAGCTCCATTGCAGT-TACA
1 CTGCTCCACTGCAACTT-AGGGAGATAAGG-TTGTGGCTTAAATCT-GCTCCATTGCA-TCTACA
42293381 TGGAGATAAGATTTG
62 TGGAGATAAGATTTG
42293396 CCATCTTCGA
Statistics
Matches: 249, Mismatches: 74, Indels: 41
0.68 0.20 0.11
Matches are distributed among these distances:
86 1 0.00
87 7 0.03
88 117 0.47
89 120 0.48
90 2 0.01
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (86 bp):
CTGCTCCACTGCAACTTAGGGAGATAAGGTTGTGGCTTAAATCTGCTCCATTGCATCTACATGGA
GATAAGATTTGTATCTTGAAC
Found at i:42293213 original size:133 final size:133
Alignment explanation
Indices: 42292837--42293218 Score: 311
Period size: 133 Copynumber: 2.9 Consensus size: 133
42292827 GAACCTACTT
* * * * * * * ** * **
42292837 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * * * ** * * * *
42292902 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTGGTCGGCTTAAATCTGCTCCACTACTGCTCAGGGAGATAAGATTTGAAATTTTCAGTCTG
42292967 CTC
131 CTC
** * ** *
42292970 CACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * ** * * *
42293035 AGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGTCTG
66 AGATTGGTCGGCTTAAATCTGCTCCACTACTGCTCAGGGAGATAAGATTTGAAATTTTCAGTCTG
42293100 CTC
131 CTC
* * * * * *
42293103 CACTACAACTTCAGAGAGAT-AAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGAGAGATAAAG-CTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGAT
* * * *
42293167 AAGGTTGGT-GGCTTAAATCTGCTCCATTGCCT-CTACATGGAGATAAGATTTG
65 AAGATTGGTCGGCTTAAATCTGCTCCACT-ACTGCT-CAGGGAGATAAGATTTG
42293219 TCATCTTCGA
Statistics
Matches: 208, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
132 20 0.10
133 188 0.90
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (133 bp):
CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
AGATTGGTCGGCTTAAATCTGCTCCACTACTGCTCAGGGAGATAAGATTTGAAATTTTCAGTCTG
CTC
Found at i:42293344 original size:310 final size:310
Alignment explanation
Indices: 42292657--42293573 Score: 831
Period size: 310 Copynumber: 3.0 Consensus size: 310
42292647 CTTGATCTAT
* * * * * * *** *
42292657 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAG
1 TCCACTGTAACTTCAGAGAAATAA-AGCTGGTAGCTTAAACCTACTCCACTGCAACTACAGGGAG
* * * * * * * *
42292722 ATAAAATTCGCCATATACGATCTACTTCACTACTGCTTAGGGAGATAAGATTCACTATCTTCAGT
65 ATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTCACAATCTTCAGT
* * * *
42292787 CTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTCACTGCAACTTCAGG
130 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* *
42292852 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATAAGATTCGCCGTCCTC
195 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
* *
42292917 GATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
260 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
* * * ** *
42292968 TCCACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGA
1 TCCACTGTAACTTCAGAGAAATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAGGGAGA
* * * * *
42293033 TAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGA-AATTTTTAGT
66 TAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA-TTCACAATCTTCAGT
* * * *
42293097 CTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGG
130 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* * * * * * *
42293162 GAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGTCATCTTC
195 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
* * *
42293227 GATCTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGC
260 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
* * * * *
42293278 TCCACTGTAACTTCAG-GAAA-ATAAGACTTGTATCTTGAACCTGCTCTACTGCAACTTA-AGGG
1 TCCACTGTAACTTCAGAGAAATA-AAG-CTGGTAGCTTAAACCTACTCCACTGCAAC-TACAGGG
** * * ** * * * * ** *
42293340 AGATAAGGCTAGT-GGCTTAAAT-TAGCTCCATTGCAG-TTACATGGAGATAAGATTTGCCATCT
63 AGATAAGATTTGTCGTCTTCGATCTA-CTCCACTACTGCTT--AGGGAGATAAGATTCACAATCT
* *** * * *
42293402 TC-GATCTGCTCTACTATTGCTT-AG-GCAGATAAGA-TCTACAAT-TT----CTGCTCCACTAC
125 TCAG-TCTGCTCCACTACAACTTCAGAG-AGATAAGACT-TA-TATCTTGAACCTACTCCACTGC
* * * * * *
42293458 AACTTTAGGGAGATAAGACTGGTCGCTTAAATCTGCTCCATTGCCGCTACAGAGAGATAAGATTT
186 AACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTC
* * * * *
42293523 GCCTTCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATTT
251 GCCATCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTT
42293574 CACCAGTGTT
Statistics
Matches: 504, Mismatches: 90, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
305 113 0.22
308 6 0.01
309 36 0.07
310 322 0.64
311 27 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (310 bp):
TCCACTGTAACTTCAGAGAAATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAGGGAGA
TAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTCACAATCTTCAGTC
TGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGGG
AGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTCG
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
Found at i:42293574 original size:128 final size:128
Alignment explanation
Indices: 42293318--42293566 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 128
42293308 TATCTTGAAC
* * * * *
42293318 CTGCTCTACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTAAATTAGCTCCATTGCAGTTACATG
1 CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAATTAGCTCCATTGCAGCTACATG
* * *
42293383 GAGATAAGATTTGCCATCTTCGATCTGCTCTACTATTGCTTAGGCAGATAAGATCTACAATTT
66 GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
* * *
42293446 CTGCTCCACTACAACTTTAGGGAGATAAGACTGGTCGCTTAAATCT-GCTCCATTGCCGCTACA-
1 CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAAT-TAGCTCCATTGCAGCTACAT
* *
42293509 GAGAGATAAGATTTGCCTTCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
65 G-GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCT
42293567 GTAATTTCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
127 1 0.01
128 104 0.98
129 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (128 bp):
CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAATTAGCTCCATTGCAGCTACATG
GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
Found at i:42295344 original size:16 final size:16
Alignment explanation
Indices: 42295314--42295343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42295304 TTCCACATAT
42295314 TTTTTTGTTGTTTTTG
1 TTTTTTGTTGTTTTTG
42295330 TTTTTTGTT-TTTTT
1 TTTTTTGTTGTTTTT
42295344 TTCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTTGTTGTTTTTG
Found at i:42300546 original size:125 final size:127
Alignment explanation
Indices: 42300376--42300637 Score: 296
Period size: 125 Copynumber: 2.1 Consensus size: 127
42300366 GAGTATGAGC
* * *
42300376 TTGCCTTCTATTTCATTTAAAACTTATGTATTTAAATTTTAAAAAGGACATTCGAATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGAATACTTAGAT
* ** * * * *
42300441 CAAACGGAAAATTGAAGCCCAGTACGTTAGGGCACGACTACTCGAATTTCTAAATACGGAATA
65 CAAACGAAAAACCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
* * * * **
42300504 TTGCCTTTGTTTTATTTAAAACTCAT-TGATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGAT
1 TTGCCTTTATTTCATTTAAAACTCATGT-ATTTAAATTTTAAAAAGGACAATCGAATACTTAGAT
* * * * *
42300566 CAAACGAAAAACCGAAACCCAGTACGTTAGGACATGATTTCTCGAATTTCCAAGTACCGAATT
65 CAAACGAAAAACCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
42300629 TTGCCTTTA
1 TTGCCTTTA
42300638 CTTAAAAAAT
Statistics
Matches: 111, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
125 78 0.70
126 4 0.04
127 22 0.20
128 7 0.06
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGAATACTTAGATC
AAACGAAAAACCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
Found at i:42300839 original size:24 final size:24
Alignment explanation
Indices: 42300806--42300852 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
42300796 GGAAAATAAA
42300806 ATAATAGTAATAATAATAAAAAAT
1 ATAATAGTAATAATAATAAAAAAT
* *
42300830 ATAATGGTAATAATATTAAAAAA
1 ATAATAGTAATAATAATAAAAAA
42300853 AGTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (24 bp):
ATAATAGTAATAATAATAAAAAAT
Found at i:42300944 original size:3 final size:3
Alignment explanation
Indices: 42300936--42301228 Score: 65
Period size: 3 Copynumber: 97.3 Consensus size: 3
42300926 GAAAATGACG
* *
42300936 ATA ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATCG A-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA
* * *
42300981 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ATA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * ** * *
42301028 ATA ATA AT- ATA CGTG CCA ATA ATA ATA ATA ACA AT- ATA A-A AAA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * *
42301071 AGG A-A ATA ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA
* * * * * * * *
42301116 ATA ATT GTA ATA A-A A-A GATA AAA ATA ATA AAA ACA CTA TTA CGTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
42301161 CTA GTA ATA ATA ATA ATA A-A A-A ACA GTA ATA GT- ATA TAGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
42301204 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
42301229 CACTCTCCCC
Statistics
Matches: 211, Mismatches: 52, Indels: 54
0.67 0.16 0.17
Matches are distributed among these distances:
2 23 0.11
3 164 0.78
4 17 0.08
5 6 0.03
6 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:42301179 original size:34 final size:33
Alignment explanation
Indices: 42301133--42301213 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
42301123 TAATAAAAAG
* * *
42301133 ATAAAAATAATAAAAACACTATTACGTA-CTAGTA
1 ATAATAATAATAAAAACACTAATA-GTATATAG-A
*
42301167 ATAATAATAATAAAAAACAGTAATAGTATATAGA
1 ATAATAATAAT-AAAAACACTAATAGTATATAGA
42301201 ATAATAATAATAA
1 ATAATAATAATAA
42301214 TAATAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.05
34 25 0.61
35 14 0.34
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (33 bp):
ATAATAATAATAAAAACACTAATAGTATATAGA
Found at i:42310972 original size:48 final size:48
Alignment explanation
Indices: 42310912--42311003 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
42310902 AAAAAAGGTT
* *
42310912 TATATAGGATGATGATGTTTATGTATTGTTGTCCCTTAAAAGTTTATA
1 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTTTATA
*
42310960 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTCAAAGTT
1 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTT
42311004 AAGTTATGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (48 bp):
TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTTTATA
Found at i:42313577 original size:66 final size:67
Alignment explanation
Indices: 42313446--42313578 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 67
42313436 TAGCTAAGAA
* * *
42313446 TATATCAATTTTTTTCCTTCTTTGTCCTTATGCTTCTTCACTCAATGTTGAAGGTATCAAATTTT
1 TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
42313511 TT
66 TT
* *
42313513 TATATCAATTTTTTT-CTTCTTTGTCCTCGTGCTTCTTCACTCAATGTTAAAGGTACC-GATTTT
1 TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
42313576 TT
66 TT
42313578 T
1 T
42313579 GTTGCACTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 8 0.13
66 38 0.62
67 15 0.25
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.52
Consensus pattern (67 bp):
TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
TT
Found at i:42314494 original size:225 final size:225
Alignment explanation
Indices: 42314103--42314544 Score: 884
Period size: 225 Copynumber: 2.0 Consensus size: 225
42314093 AGCCCCCTAG
42314103 ATACGCCACTGCATGTCCGCGTATTTTTACTAGTGCCACTAATAACAACAGCAACAACAAAGTTT
1 ATACGCCACTGCATGTCCGCGTATTTTTACTAGTGCCACTAATAACAACAGCAACAACAAAGTTT
42314168 ACTGTAGCTGTAAAGAACTTAGGTAAATTGTTAAAACTACTGAAACAAATCAAATTGGAAAAAGA
66 ACTGTAGCTGTAAAGAACTTAGGTAAATTGTTAAAACTACTGAAACAAATCAAATTGGAAAAAGA
42314233 AAGAAGTTTCTATATTTAGACTTGCAATCTACTGATGTACATTATAGATGTAGTATTTATAGAGT
131 AAGAAGTTTCTATATTTAGACTTGCAATCTACTGATGTACATTATAGATGTAGTATTTATAGAGT
42314298 ACATTTGTGACTGCTATGGCTAAAATAAAA
196 ACATTTGTGACTGCTATGGCTAAAATAAAA
42314328 ATACGCCACTGCATGTCCGCGTATTTTTACTAGTGCCACTAATAACAACAGCAACAACAAAGTTT
1 ATACGCCACTGCATGTCCGCGTATTTTTACTAGTGCCACTAATAACAACAGCAACAACAAAGTTT
42314393 ACTGTAGCTGTAAAGAACTTAGGTAAATTGTTAAAACTACTGAAACAAATCAAATTGGAAAAAGA
66 ACTGTAGCTGTAAAGAACTTAGGTAAATTGTTAAAACTACTGAAACAAATCAAATTGGAAAAAGA
42314458 AAGAAGTTTCTATATTTAGACTTGCAATCTACTGATGTACATTATAGATGTAGTATTTATAGAGT
131 AAGAAGTTTCTATATTTAGACTTGCAATCTACTGATGTACATTATAGATGTAGTATTTATAGAGT
42314523 ACATTTGTGACTGCTATGGCTA
196 ACATTTGTGACTGCTATGGCTA
42314545 GCTTAACAAT
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 217 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (225 bp):
ATACGCCACTGCATGTCCGCGTATTTTTACTAGTGCCACTAATAACAACAGCAACAACAAAGTTT
ACTGTAGCTGTAAAGAACTTAGGTAAATTGTTAAAACTACTGAAACAAATCAAATTGGAAAAAGA
AAGAAGTTTCTATATTTAGACTTGCAATCTACTGATGTACATTATAGATGTAGTATTTATAGAGT
ACATTTGTGACTGCTATGGCTAAAATAAAA
Found at i:42319541 original size:16 final size:17
Alignment explanation
Indices: 42319498--42319543 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
42319488 ACAAACTAAC
* *
42319498 AGCTCAACAGCTCAGAG
1 AGCTCAACAACTCAGAA
42319515 AGCTCAACAACTCAGAA
1 AGCTCAACAACTCAGAA
42319532 AGCT-AACAACTC
1 AGCTCAACAACTC
42319544 TAATTACCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.13
Consensus pattern (17 bp):
AGCTCAACAACTCAGAA
Found at i:42322807 original size:95 final size:95
Alignment explanation
Indices: 42322644--42322819 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 95
42322634 GACTCCAACA
* * * *
42322644 ATAATATATCTAATTATTGAATATCTCATTTTCACTCGTATTTCAACTATTTTTTTAATATATAA
1 ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
42322709 ATTTTATTGATCAAATGGTCACTTAATTAC
66 ATTTTATTGATCAAATGGTCACTTAATTAC
* * *
42322739 ATAATATATATAATTATTGATTATCCCATTTCCACTCTTATTTCAACTAATTTTTTAGTATATAA
1 ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
42322804 ATTTTATTGATCAAAT
66 ATTTTATTGATCAAAT
42322820 AATCACTCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (95 bp):
ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
ATTTTATTGATCAAATGGTCACTTAATTAC
Found at i:42324610 original size:18 final size:18
Alignment explanation
Indices: 42324589--42324645 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
42324579 TAACATAAAA
42324589 TAAAGTCTTAAATATTTT
1 TAAAGTCTTAAATATTTT
* * ***
42324607 TAAATTTTTAACATA-AAA
1 TAAAGTCTTAA-ATATTTT
42324625 TAAAGTCTTAAATATTTT
1 TAAAGTCTTAAATATTTT
42324643 TAA
1 TAA
42324646 TTTATCCAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (18 bp):
TAAAGTCTTAAATATTTT
Found at i:42324619 original size:36 final size:36
Alignment explanation
Indices: 42324572--42324645 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
42324562 TGACTCTTCG
42324572 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
1 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
42324608 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
1 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
42324644 AA
1 AA
42324646 TTTATCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (36 bp):
AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
Found at i:42325206 original size:30 final size:31
Alignment explanation
Indices: 42325167--42325237 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
42325157 ATTTTTATTT
* **
42325167 GAGTTAAATTTGGCC-TCAACCTTTTTAAAA
1 GAGTTAAATTTGACCATCAACCTTTCAAAAA
* *
42325197 GAGTCAAATTTGACCATCAATCTTTCAAAAA
1 GAGTTAAATTTGACCATCAACCTTTCAAAAA
42325228 GAGTTAAATT
1 GAGTTAAATT
42325238 GTTGTTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (31 bp):
GAGTTAAATTTGACCATCAACCTTTCAAAAA
Found at i:42333713 original size:23 final size:24
Alignment explanation
Indices: 42333668--42333720 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
42333658 TTAAATAATC
* *
42333668 AAAACTTATAATAAAACTGTTAAA
1 AAAAATTATAATAAAAATGTTAAA
* *
42333692 AGAAATTAT-ATAAAAATTTTAAA
1 AAAAATTATAATAAAAATGTTAAA
42333715 AAAAAT
1 AAAAAT
42333721 CTTAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAATTATAATAAAAATGTTAAA
Found at i:42338555 original size:22 final size:23
Alignment explanation
Indices: 42338529--42338573 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
42338519 ATTTCAAGTA
42338529 AATAGATCCACTTT-TTTTTAGT
1 AATAGATCCACTTTATTTTTAGT
* *
42338551 AATAGTTCCATTTTATTTTTAGT
1 AATAGATCCACTTTATTTTTAGT
42338574 TGTTGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (23 bp):
AATAGATCCACTTTATTTTTAGT
Found at i:42338784 original size:19 final size:18
Alignment explanation
Indices: 42338762--42338817 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
42338752 AGTTAGATTG
42338762 TTAGTTGTTAGTCTGTTAA
1 TTAGTTGTTAG-CTGTTAA
*
42338781 TTAGCTGTTTAGCTGTTGAA
1 TTAGTTG-TTAGCTGTT-AA
42338801 -TA-TTGTTAAGCTGTTAA
1 TTAGTTGTT-AGCTGTTAA
42338818 GAGCAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 13 0.41
20 6 0.19
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.48
Consensus pattern (18 bp):
TTAGTTGTTAGCTGTTAA
Found at i:42342039 original size:20 final size:20
Alignment explanation
Indices: 42342014--42342052 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
42342004 TGATGTATTG
*
42342014 AATAGCATCAATACTCATCA
1 AATAGCACCAATACTCATCA
42342034 AATAGCACCAATACTCATC
1 AATAGCACCAATACTCATC
42342053 CAATGGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (20 bp):
AATAGCACCAATACTCATCA
Found at i:42342733 original size:203 final size:203
Alignment explanation
Indices: 42342379--42342767 Score: 724
Period size: 203 Copynumber: 1.9 Consensus size: 203
42342369 TGTCGTTAAA
* *
42342379 CCGGTAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCTCTTACGTCAGGTAGA
1 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
*
42342444 TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCTAGGAT
66 TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCCAGGAT
42342509 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
131 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
42342574 AAACCAGG
196 AAACCAGG
42342582 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
1 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
* *
42342647 TGTGAATAATGCCTTCTTGAATGGAGATATAGACATTGAGGTGTTTATGCATCAACCTCCAGGAT
66 TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCCAGGAT
*
42342712 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAGCACTT
131 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTT
42342768 TATGGCCTTC
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
203 180 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (203 bp):
CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCCAGGAT
ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
AAACCAGG
Found at i:42346110 original size:14 final size:14
Alignment explanation
Indices: 42346091--42346119 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42346081 ATGACTTGGC
42346091 TGCCCTTCAGTTTA
1 TGCCCTTCAGTTTA
42346105 TGCCCTTCAGTTTA
1 TGCCCTTCAGTTTA
42346119 T
1 T
42346120 ACCCATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (14 bp):
TGCCCTTCAGTTTA
Found at i:42355819 original size:14 final size:15
Alignment explanation
Indices: 42355800--42355828 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42355790 CAATAAATAT
42355800 TAATATTT-TTTTAA
1 TAATATTTATTTTAA
42355814 TAATATTTATTTTAA
1 TAATATTTATTTTAA
42355829 AATTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTATTTTAA
Found at i:42356102 original size:22 final size:20
Alignment explanation
Indices: 42356077--42356121 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
42356067 TTAAGTTTAT
42356077 ATATGATATTAATTATTATAAA
1 ATATGATATTAATTA-TA-AAA
* *
42356099 ATATTATATTATTTATAAAA
1 ATATGATATTAATTATAAAA
42356119 ATA
1 ATA
42356122 AAATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATTAATTATAAAA
Found at i:42356114 original size:19 final size:17
Alignment explanation
Indices: 42356082--42356118 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
42356072 TTTATATATG
42356082 ATATTAATTATTATAAA
1 ATATTAATTATTATAAA
42356099 ATATTATATTATTTATAAA
1 ATATTA-ATTA-TTATAAA
42356118 A
1 A
42356119 ATAAAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTAATTATTATAAA
Found at i:42367651 original size:27 final size:28
Alignment explanation
Indices: 42367583--42367651 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
42367573 TTCATAATAT
* *
42367583 TTTATGTAAATATTTTCTTTTAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
42367611 -TTATGTATATATTTTCTTTAAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
42367638 TTTATGTATA-ATTT
1 TTTATGTATATATTT
42367652 GGCTTTCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTAAAATTTA
Found at i:42370439 original size:16 final size:16
Alignment explanation
Indices: 42370418--42370485 Score: 93
Period size: 16 Copynumber: 4.2 Consensus size: 16
42370408 TTTGGTTCGC
42370418 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
*
42370434 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
* *
42370450 TGTAATGGATTAGAGG
1 TGTATTGAATTAGAGG
42370466 TGTATTGGAA-TAGAGG
1 TGTATT-GAATTAGAGG
42370482 TGTA
1 TGTA
42370486 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
16 45 0.96
17 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:42370462 original size:32 final size:32
Alignment explanation
Indices: 42370426--42370487 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
42370416 GCTGTATTGA
*
42370426 ATTAGAGGTGTATTGGATTAGAGGTGTAATGG
1 ATTAGAGGTGTATTGGAATAGAGGTGTAATGG
42370458 ATTAGAGGTGTATTGGAATAGAGGTGTAAT
1 ATTAGAGGTGTATTGGAATAGAGGTGTAAT
42370488 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.34
Consensus pattern (32 bp):
ATTAGAGGTGTATTGGAATAGAGGTGTAATGG
Found at i:42370532 original size:45 final size:44
Alignment explanation
Indices: 42370473--42370563 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
42370463 AGGTGTATTG
* *
42370473 GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGTAATA
1 GAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAATGGAATA
* ***
42370518 GAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATGGAATA
1 GAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATGGAATA
42370562 GA
1 GA
42370564 GGTGTAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (44 bp):
GAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATGGAATA
Found at i:42370572 original size:39 final size:40
Alignment explanation
Indices: 42370471--42370575 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
42370461 AGAGGTGTAT
42370471 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
42370511 TGTAATAGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TG-----GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
42370555 TGGAATAGAGGTGTAATAGCA
1 TGGAATAGAGGTGTAATAGCA
42370576 TAATGGAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
39 16 0.31
40 2 0.04
44 18 0.35
45 16 0.31
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (40 bp):
TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:42370738 original size:16 final size:16
Alignment explanation
Indices: 42370701--42370742 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
42370691 TTAATCATAT
*
42370701 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
42370717 TT-AAATATATTATAA
1 TTAAAATATATTATAA
42370732 TTAAAATATAT
1 TTAAAATATAT
42370743 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:42370749 original size:14 final size:15
Alignment explanation
Indices: 42370710--42370751 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42370700 TTTAAACATA
*
42370710 ATTATTATTAAATAT
1 ATTATAATTAAATAT
42370725 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
42370739 A-TATAATTTAATA
1 ATTATAATTAAATA
42370752 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:42376627 original size:131 final size:130
Alignment explanation
Indices: 42376393--42376725 Score: 415
Period size: 131 Copynumber: 2.6 Consensus size: 130
42376383 TAATTATTCA
* *
42376393 TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATT-CAGGGAATCGTGCCCAAT
1 TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCA-GAAATCGTGCCCTAT
* * * * * *
42376457 CGTGTTAGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATG
65 CGTGCTGGGTTGCAATATCCCATTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATG
42376522 T
130 T
* * *
42376523 CTTTAAAAATTCTTTAAAACGAAAGAAATGTTTGATGTTTGACAATTCCAAAAATCGTGCCCTAT
1 -TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCAGAAATCGTGCCCTAT
* *
42376588 CGTGCTGGGTTGCAATTTCCCATTTATTCAAAATAATCAAATATCCCTTTAGAACTTCACTCATG
65 CGTGCTGGGTTGCAATATCCCATTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATG
42376653 T
130 T
** * * * * * *
42376654 TTTCTAAATTC--TAAAAC-AAGGCAATGTTCAATGTTTAAAAATTCGAGAGATCGTGCCCTA-C
1 TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCAGAAATCGTGCCCTATC
42376715 TGTGCTGGGTT
66 -GTGCTGGGTT
42376726 TCGATTTTTT
Statistics
Matches: 176, Mismatches: 24, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
126 1 0.01
127 44 0.25
128 6 0.03
130 9 0.05
131 114 0.65
132 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCAGAAATCGTGCCCTATC
GTGCTGGGTTGCAATATCCCATTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATGT
Found at i:42380136 original size:29 final size:29
Alignment explanation
Indices: 42380095--42380150 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
42380085 TTTTCGTAGA
*
42380095 TTTAGAATTTAATCCCTCTA-TTTTTATT
1 TTTAGAAGTTAATCCCTCTACTTTTTATT
42380123 TTTAGGAAGTTAATCCCTCTACTTTTTA
1 TTTA-GAAGTTAATCCCTCTACTTTTTA
42380151 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (29 bp):
TTTAGAAGTTAATCCCTCTACTTTTTATT
Found at i:42386079 original size:4 final size:4
Alignment explanation
Indices: 42386070--42386095 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
42386060 TGAGTTTCAC
42386070 CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CA
42386096 ACCCTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:42389165 original size:24 final size:24
Alignment explanation
Indices: 42389133--42389178 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
42389123 TTGGTTTGGT
* *
42389133 TTTTAAAAATATTTTTCTATTTTA
1 TTTTAAAAATAATTTTATATTTTA
42389157 TTTTAAAAATAATTTTATATTT
1 TTTTAAAAATAATTTTATATTT
42389179 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTAAAAATAATTTTATATTTTA
Found at i:42389173 original size:17 final size:17
Alignment explanation
Indices: 42389151--42389188 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
42389141 ATATTTTTCT
42389151 ATTTTAT-TTTAAAAATA
1 ATTTTATATTTAAAAA-A
*
42389168 ATTTTATATTTCAAAAA
1 ATTTTATATTTAAAAAA
42389185 ATTT
1 ATTT
42389189 AAAAAACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATATTTAAAAAA
Found at i:42397485 original size:20 final size:20
Alignment explanation
Indices: 42397460--42397502 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
42397450 AGTAGCTACT
42397460 AAAAATTAAAGAAAAA-CATA
1 AAAAATTAAA-AAAAATCATA
42397480 AAAAATTAAAAAAAATCATA
1 AAAAATTAAAAAAAATCATA
42397500 AAA
1 AAA
42397503 GTTTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAATTAAAAAAAATCATA
Found at i:42397679 original size:112 final size:113
Alignment explanation
Indices: 42397556--42397789 Score: 339
Period size: 113 Copynumber: 2.1 Consensus size: 113
42397546 AAAGCAAAAG
* *
42397556 AGTTTTATATTTTAAAATAAATAATAATAA-TTTTTG-AAAAAAAATCTTCAAAATCAAAACTAT
1 AGTTTTATATTTTAAAATAAA-AAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTAT
* * *
42397619 AAACTTTTTAATATTAGATCTGGAATATA-TAAAAATAGAAAATCCAATT
65 AAACTTCTAAATATTAGATCTGAAATATATTAAAAA-AGAAAATCCAATT
* *
42397668 AGTTTTGTATTTTAAAATAAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATG
1 AGTTTTATATTTTAAAATAAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATA
*
42397733 AACTTCTAAATATTAGATCTGAAATATATTAAAAAGGAAAATCCAATT
66 AACTTCTAAATATTAGATCTGAAATATATTAAAAAAGAAAATCCAATT
42397781 GCAGTTTTA
1 --AGTTTTA
42397790 GGAAAATTGG
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
111 7 0.06
112 26 0.24
113 63 0.58
114 6 0.06
115 6 0.06
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (113 bp):
AGTTTTATATTTTAAAATAAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATA
AACTTCTAAATATTAGATCTGAAATATATTAAAAAAGAAAATCCAATT
Found at i:42401229 original size:183 final size:174
Alignment explanation
Indices: 42400929--42401280 Score: 456
Period size: 183 Copynumber: 2.0 Consensus size: 174
42400919 AGGGGCATCA
* * **
42400929 TCTTCCAATTCCGCAACATGTATCAAGCTATCTTCGGTGAAAATATGGAGCATGGACAAGGTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
* * *
42400994 TGAAAGTTTGGGAATCGTATTAGGAGTGATGTCATCATCACTTTCAGCATTGAGAGGGAACTGAA
66 TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
* * * *
42401059 GTGCCTCCAAAAAATCAGAGGCATTAAGAAGTAATGCAGCCTTG
131 GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
* *
42401103 TCTTCCAATTCCTCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATTGACAAGTTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAG----G
*
42401168 ATGATCGTGTGAAAG-TTGGAGAATCGTAGTAGGGGT-ATTATCAACATCACTTTCAGCATTGAG
62 -T-A---TGTGAAAGTTTGG-GAATCGTAGTAGGAGTGA-TATCAACATCACTTTCAGCATTGAG
*
42401231 AGGGAACTGAAGAGCCTCCAGAAAATCAAAGGCATTAAAAAGTAAAGCAG
120 AGGGAACTGAAGAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAG
42401281 AGTCGTCTTC
Statistics
Matches: 152, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
174 54 0.36
178 1 0.01
179 1 0.01
180 1 0.01
182 5 0.03
183 90 0.59
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (174 bp):
TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
Found at i:42402941 original size:9 final size:9
Alignment explanation
Indices: 42402927--42402994 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
42402917 ATAAGTATAA
*
42402927 AATTAATCG
1 AATTAACCG
**
42402936 AATTAATTG
1 AATTAACCG
**
42402945 AATTAACTT
1 AATTAACCG
42402954 AATT-ACTCG
1 AATTAAC-CG
* *
42402963 AATTACCCA
1 AATTAACCG
42402972 AATTAACCG
1 AATTAACCG
42402981 AATTAACCG
1 AATTAACCG
42402990 AATTA
1 AATTA
42402995 TTTGTATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.94
10 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (9 bp):
AATTAACCG
Found at i:42403028 original size:5 final size:6
Alignment explanation
Indices: 42403013--42403053 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
42403003 AAATTATATT
*
42403013 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
42403054 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:42416312 original size:20 final size:18
Alignment explanation
Indices: 42416286--42416332 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
42416276 TTTTTAATGA
42416286 TTAAAAAATGT-TAAAATT
1 TTAAAAAAT-TCTAAAATT
42416304 ATATAAAAAATTCTAAAATT
1 -T-TAAAAAATTCTAAAATT
42416324 TTAAAAAAT
1 TTAAAAAAT
42416333 AATTAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAAAAATTCTAAAATT
Found at i:42417296 original size:30 final size:31
Alignment explanation
Indices: 42417252--42417311 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
42417242 AAATTAACAA
*
42417252 TTCAGTAACATAAAT-AAAAATTTTGAATAG
1 TTCAATAACATAAATGAAAAATTTTGAATAG
* *
42417282 TTCAATAACTTAAATGAAAACTTTTGAATA
1 TTCAATAACATAAATGAAAAATTTTGAATA
42417312 ACTAAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (31 bp):
TTCAATAACATAAATGAAAAATTTTGAATAG
Found at i:42418098 original size:26 final size:24
Alignment explanation
Indices: 42418057--42418105 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
42418047 TCAAAGCCTC
42418057 ATTTAAATTTTGTATA-AATTTTT
1 ATTTAAATTTTGTATATAATTTTT
42418080 ATTTAATATATTTGTTATATAATTTT
1 ATTTAA-AT-TTTG-TATATAATTTT
42418106 GTTTTCACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.27
24 2 0.09
25 4 0.18
26 4 0.18
27 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTTAAATTTTGTATATAATTTTT
Found at i:42423352 original size:27 final size:30
Alignment explanation
Indices: 42423297--42423355 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
42423287 GAGTTTGAAT
42423297 ACTGTAGTAGTGAATAAAATTTATGATGAG
1 ACTGTAGTAGTGAATAAAATTTATGATGAG
42423327 ACTGTAGTAGTGAATAAAATTTATGATGA
1 ACTGTAGTAGTGAATAAAATTTATGATGA
42423356 CATTTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (30 bp):
ACTGTAGTAGTGAATAAAATTTATGATGAG
Found at i:42425383 original size:23 final size:23
Alignment explanation
Indices: 42425317--42425383 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
42425307 TATAAGAAAA
*
42425317 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
42425337 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
42425360 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
42425383 A
1 A
42425384 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:42425383 original size:29 final size:28
Alignment explanation
Indices: 42425298--42425413 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 28
42425288 TAACAAAAGT
* *
42425298 AAAAATATATATAAGAAAAATAATAAT-G
1 AAAAATATAAAT-AGATAAATAATAATAG
* * *
42425326 AAAATAATATTAGTATATAAATAGA-AATA-
1 -AAA-AATATAAATAGATAAATA-ATAATAG
42425355 AAAATATAATAAATAGA-AATATAATAATAG
1 AAAA-AT-ATAAATAGATAA-ATAATAATAG
*
42425385 TAGAAATATAAATAGATAAATAATAATAG
1 -AAAAATATAAATAGATAAATAATAATAG
42425414 TATTAGAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
27 1 0.01
28 8 0.12
29 45 0.66
30 11 0.16
31 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAAATATAAATAGATAAATAATAATAG
Found at i:42425390 original size:17 final size:15
Alignment explanation
Indices: 42425350--42425395 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
42425340 ATATAAATAG
*
42425350 AAATAAAAATATAAT
1 AAATAGAAATATAAT
42425365 AAATAGAAATATAAT
1 AAATAGAAATATAAT
42425380 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
42425396 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:42425395 original size:14 final size:15
Alignment explanation
Indices: 42425375--42425415 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
42425365 AAATAGAAAT
42425375 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
42425390 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
42425404 ATAATAATAGTA
1 ATAATAATAGTA
42425416 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:42425410 original size:15 final size:14
Alignment explanation
Indices: 42425350--42425410 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
42425340 ATATAAATAG
*
42425350 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
42425365 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
42425380 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
42425394 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
42425409 AA
1 AA
42425411 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:42425451 original size:20 final size:20
Alignment explanation
Indices: 42425388--42425452 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
42425378 ATAATAGTAG
*
42425388 AAATATAAATAGATAAATAAT
1 AAATATAAATAGA-ACATAAT
*
42425409 AATAGTATTAGAAT--AACAAAAT
1 AA-A-TA-TA-AATAGAACATAAT
42425431 AAATATAAATAGAACATAAT
1 AAATATAAATAGAACATAAT
42425451 AA
1 AA
42425453 TAATAACAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 11 0.31
21 3 0.09
22 8 0.23
23 3 0.09
24 2 0.06
25 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (20 bp):
AAATATAAATAGAACATAAT
Found at i:42437552 original size:12 final size:12
Alignment explanation
Indices: 42437531--42437564 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42437521 TATATATATT
*
42437531 AAAATTATATAA
1 AAAATAATATAA
42437543 AAAATAATATAA
1 AAAATAATATAA
*
42437555 AAATTAATAT
1 AAAATAATAT
42437565 GGGCGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:42438232 original size:27 final size:26
Alignment explanation
Indices: 42438196--42438250 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
42438186 CATTTGCTTG
*
42438196 TTAAGTTACAT-TTATTTTAGTGTTAT
1 TTAAGTTACATATTATTTTAAT-TTAT
*
42438222 TTAAGTATACATATTTTTTTAATTTAT
1 TTAAGT-TACATATTATTTTAATTTAT
42438249 TT
1 TT
42438251 TTAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (26 bp):
TTAAGTTACATATTATTTTAATTTAT
Found at i:42442576 original size:17 final size:16
Alignment explanation
Indices: 42442547--42442581 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
42442537 AATTTTCATT
*
42442547 ATTTTTTAGTAATTTA
1 ATTTTTTAATAATTTA
42442563 ATTTTTATAATAATTTA
1 ATTTTT-TAATAATTTA
42442580 AT
1 AT
42442582 GCAGCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
ATTTTTTAATAATTTA
Found at i:42442576 original size:63 final size:64
Alignment explanation
Indices: 42442492--42442614 Score: 212
Period size: 63 Copynumber: 1.9 Consensus size: 64
42442482 AAATAAAATA
* *
42442492 TAATTTAATTTTTTATAATAATTTAATGTAGTTTTAAATTAATTAAATTTTCATTATTTTTTAG
1 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTTTTAG
*
42442556 TAATTTAA-TTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAGTTTTCATTATTTT
1 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTT
42442615 GTAATTAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 48 0.86
64 8 0.14
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (64 bp):
TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTTTTAG
Found at i:42449831 original size:27 final size:26
Alignment explanation
Indices: 42449767--42449847 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
42449757 TTTAAAAAAT
42449767 ATTATTTTAAATAATTAAAAAAAGATTAAA
1 ATTATTTT-AA-AATT-AAAAAAG-TTAAA
42449797 ATTATTTTAAAATTAAAAAAGTTAAA
1 ATTATTTTAAAATTAAAAAAGTTAAA
* * *
42449823 TCTTTTTTTAAACTTAAAAAA-TTAA
1 -ATTATTTTAAAATTAAAAAAGTTAA
42449848 TTAAAAGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.19
27 24 0.51
28 4 0.09
29 2 0.04
30 8 0.17
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTATTTTAAAATTAAAAAAGTTAAA
Found at i:42450435 original size:6 final size:6
Alignment explanation
Indices: 42450424--42450465 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
42450414 AATTGATTAT
* *
42450424 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
42450466 AATATACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:42450447 original size:18 final size:17
Alignment explanation
Indices: 42450424--42450465 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
42450414 AATTGATTAT
42450424 ATTAAAATTAAAATTAAA
1 ATTAAAA-TAAAATTAAA
*
42450442 ATTAAAATATAATTAAA
1 ATTAAAATAAAATTAAA
*
42450459 AATAAAA
1 ATTAAAA
42450466 AATATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAATAAAATTAAA
Found at i:42450457 original size:11 final size:11
Alignment explanation
Indices: 42450401--42450485 Score: 52
Period size: 11 Copynumber: 8.0 Consensus size: 11
42450391 CACAATTTGA
*
42450401 AAAATATAATA
1 AAAATATAATT
*
42450412 AAAAT-TGATT
1 AAAATATAATT
* * *
42450422 ATATTAAAATT
1 AAAATATAATT
*
42450433 AAAATTAAAATT
1 AAAA-TATAATT
42450445 AAAATATAATT
1 AAAATATAATT
42450456 AAAA-ATAA--
1 AAAATATAATT
*
42450464 AAAATATACTT
1 AAAATATAATT
**
42450475 ATTATATAATT
1 AAAATATAATT
42450486 CGGGCCGGGC
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 10 0.18
11 28 0.50
12 11 0.20
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (11 bp):
AAAATATAATT
Found at i:42470468 original size:30 final size:30
Alignment explanation
Indices: 42470423--42470484 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
42470413 TTTAATAAGA
* * *
42470423 AAATTCCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAACAACAAAAGTAAC
* *
42470453 AAATACCTTTAAAATAACAATAAAAGTAAC
1 AAATACCTCTAAAATAACAACAAAAGTAAC
42470483 AA
1 AA
42470485 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.24
Consensus pattern (30 bp):
AAATACCTCTAAAATAACAACAAAAGTAAC
Found at i:42470484 original size:12 final size:11
Alignment explanation
Indices: 42470462--42470492 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
42470452 CAAATACCTT
42470462 TAAAATAACAA
1 TAAAATAACAA
42470473 TAAAAGTAACAA
1 TAAAA-TAACAA
42470485 TAAAATAA
1 TAAAATAA
42470493 GTTTTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (11 bp):
TAAAATAACAA
Found at i:42472227 original size:19 final size:21
Alignment explanation
Indices: 42472171--42472232 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
42472161 ATTGAGTGGA
* *
42472171 TCAGCACTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
*
42472192 TCAGCTCTTAGGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
42472213 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
42472232 T
1 T
42472233 GGTGTATTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.30
20 2 0.05
21 24 0.65
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:42476647 original size:22 final size:23
Alignment explanation
Indices: 42476622--42476667 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
42476612 CAACCAAACC
42476622 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
42476644 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
42476667 A
1 A
42476668 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:42476673 original size:23 final size:23
Alignment explanation
Indices: 42476629--42476673 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
42476619 ACCAATTCAA
*
42476629 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
42476652 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
42476674 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:42486214 original size:28 final size:26
Alignment explanation
Indices: 42486157--42486222 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 26
42486147 CTTATTTGAT
*
42486157 TATTTATTATTTATTTATTATTATTA
1 TATTTATTATTTATTTATTATTAGTA
*
42486183 TATTATATTATGTTATTTATTTATT-GTC
1 TATT-TATTAT-TTATTTA-TTATTAGTA
42486211 TATTTTATTATT
1 TA-TTTATTATT
42486223 CTTCGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.12
27 7 0.21
28 16 0.47
29 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TATTTATTATTTATTTATTATTAGTA
Found at i:42487894 original size:12 final size:11
Alignment explanation
Indices: 42487873--42487921 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
42487863 ATTGAGTCTA
42487873 TTTATTTTATT
1 TTTATTTTATT
42487884 TTTAGTTTTATT
1 TTTA-TTTTATT
* *
42487896 TCTATTTTTATG
1 TTTA-TTTTATT
42487908 TTTATTGTTATT
1 TTTATT-TTATT
42487920 TT
1 TT
42487922 CTTAGACTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 6 0.19
12 25 0.81
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:42487903 original size:18 final size:18
Alignment explanation
Indices: 42487873--42487921 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
42487863 ATTGAGTCTA
42487873 TTTATTTTATTTTTA-GT
1 TTTATTTTATTTTTATGT
42487890 TTTATTTCTATTTTTATG-
1 TTTATTT-TATTTTTATGT
42487908 TTTATTGTTATTTT
1 TTTATT-TTATTTT
42487922 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.24
18 20 0.69
19 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTATTTTATTTTTATGT
Found at i:42494549 original size:11 final size:11
Alignment explanation
Indices: 42494533--42494560 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
42494523 ATTGTTATTC
42494533 AATTATAAAAT
1 AATTATAAAAT
42494544 AATTATAAAAT
1 AATTATAAAAT
42494555 AATTAT
1 AATTAT
42494561 CTAACTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:42500074 original size:23 final size:22
Alignment explanation
Indices: 42500029--42500111 Score: 66
Period size: 23 Copynumber: 3.8 Consensus size: 22
42500019 TGGTGATATT
* *
42500029 TTATAATTATTTAAT-TATATAA
1 TTATATTTATTTAATAT-TTTAA
42500051 TTATTATTTATTTAATATTTTAA
1 TTA-TATTTATTTAATATTTTAA
* *
42500074 TAAGATATTTA-TTATTATTTT-A
1 T--TATATTTATTTAATATTTTAA
42500096 TTAT-TTTATTTAATAT
1 TTATATTTATTTAATAT
42500112 ATATATGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
19 4 0.08
20 8 0.16
22 5 0.10
23 25 0.50
24 7 0.14
25 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTATATTTATTTAATATTTTAA
Found at i:42505391 original size:20 final size:20
Alignment explanation
Indices: 42505366--42505406 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
42505356 TTGAATACAT
*
42505366 GAAATTTGATTGGATACTGG
1 GAAATTGGATTGGATACTGG
42505386 GAAATTGGATTGGATACTGG
1 GAAATTGGATTGGATACTGG
42505406 G
1 G
42505407 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (20 bp):
GAAATTGGATTGGATACTGG
Found at i:42509160 original size:16 final size:17
Alignment explanation
Indices: 42509124--42509160 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
42509114 TTTTAAAAGG
42509124 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
42509141 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
42509158 AAA
1 AAA
42509161 TTTTAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:42520208 original size:44 final size:41
Alignment explanation
Indices: 42520129--42520210 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
42520119 GATCAGAATA
* * *
42520129 CGACACATAAGTGCCTGAAACGACACACGAGGTGTCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGTCTGCTG
*
42520170 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGTCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGTCTG
42520211 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGTCTGCTG
Found at i:42520211 original size:23 final size:22
Alignment explanation
Indices: 42520124--42520211 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 22
42520114 TACCTGATCA
*
42520124 GAATACGACACA-TAAGTGCCT
1 GAATACGACACACAAAGTGCCT
* * *
42520145 GAA-ACGACACACGAGGTGTCT
1 GAATACGACACACAAAGTGCCT
* * *
42520166 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAAGTGCCT
* *
42520187 GAAATACGACACATAAAGTGTCT
1 G-AATACGACACACAAAGTGCCT
42520210 GA
1 GA
42520212 TCAGTAAAGC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
20 8 0.16
21 26 0.51
22 1 0.02
23 16 0.31
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GAATACGACACACAAAGTGCCT
Found at i:42520498 original size:29 final size:28
Alignment explanation
Indices: 42520416--42520499 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
42520406 AACACACTAG
* *
42520416 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
42520444 TATAATCCTCCCAAACACATCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
42520472 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
42520500 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:42531497 original size:38 final size:38
Alignment explanation
Indices: 42531455--42531550 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 38
42531445 CCATTTCCGA
* * *
42531455 CCAACCCAACACACCATGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCATATGGGGATAGAATCAACCCAC
** * *
42531493 CCAACCCTGTACACCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACC-A-TATGGGGATAGAATCAACCCAC
42531533 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
42531551 AGGTACCGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 14 0.30
39 2 0.04
40 31 0.66
ACGTcount: A:0.35, C:0.36, G:0.14, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAGAATCAACCCAC
Found at i:42531903 original size:27 final size:27
Alignment explanation
Indices: 42531865--42531920 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
42531855 CCTGTGCAAC
42531865 CTTACAGAACATTTCAAACAAATTAGG
1 CTTACAGAACATTTCAAACAAATTAGG
*
42531892 CTTACAGAACATTTCAAACAAATTGGG
1 CTTACAGAACATTTCAAACAAATTAGG
42531919 CT
1 CT
42531921 CACACGCCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (27 bp):
CTTACAGAACATTTCAAACAAATTAGG
Found at i:42536442 original size:43 final size:44
Alignment explanation
Indices: 42536361--42536449 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
42536351 TCAGATTGAA
42536361 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
1 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
42536405 TTCCATCTTTCTGGTAATA-TTACTTTAAAATGGACCATGTTGG
1 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
42536448 TT
1 TT
42536450 GTCTGCAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 26 0.58
44 19 0.42
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (44 bp):
TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
Found at i:42540222 original size:3 final size:3
Alignment explanation
Indices: 42540214--42540243 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
42540204 AATCTCCAAT
42540214 TAA TAA TAA TAA TAA TAA TAA TAA CTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TA
42540244 TCTTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:42545126 original size:17 final size:17
Alignment explanation
Indices: 42545104--42545137 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42545094 ATCCACTAAT
*
42545104 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
42545121 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
42545138 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:42545451 original size:20 final size:19
Alignment explanation
Indices: 42545385--42545458 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
42545375 CACATGTATT
*
42545385 TCAT-AAATTTTCAAAAAA
1 TCATAAAATTTTTAAAAAA
** * *
42545403 AAACTAAAATTATTAAAAAT
1 TCA-TAAAATTTTTAAAAAA
*
42545423 TCA-ATAATTTTTGAAAAAA
1 TCATAAAATTTTT-AAAAAA
42545442 TCATAAAATTTTTAAAA
1 TCATAAAATTTTTAAAA
42545459 GATTATCTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
18 8 0.20
19 13 0.32
20 20 0.49
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
TCATAAAATTTTTAAAAAA
Found at i:42547772 original size:13 final size:13
Alignment explanation
Indices: 42547756--42547808 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
42547746 TTTAAATTAA
42547756 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
42547769 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
42547782 ACTTTTCAACAGC
1 ACTTTTCAAAAGC
42547795 ACTTGTT-AAAAGC
1 ACTT-TTCAAAAGC
42547808 A
1 A
42547809 TTGCTAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 31 0.94
14 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:42549189 original size:3 final size:3
Alignment explanation
Indices: 42549181--42549206 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42549171 GTGATTGTTC
42549181 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
42549207 AAAGAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42554871 original size:12 final size:12
Alignment explanation
Indices: 42554854--42554889 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
42554844 ATTCATTTGA
42554854 CATTCATACATT
1 CATTCATACATT
*
42554866 CATTCATGCATT
1 CATTCATACATT
42554878 CATTCATACATT
1 CATTCATACATT
42554890 GCATATCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (12 bp):
CATTCATACATT
Found at i:42568727 original size:15 final size:16
Alignment explanation
Indices: 42568707--42568736 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42568697 TCTAAATTGG
42568707 ATAATATA-TATAAAA
1 ATAATATATTATAAAA
42568722 ATAATATATTATAAA
1 ATAATATATTATAAA
42568737 GTATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATATATTATAAAA
Found at i:42570293 original size:4 final size:4
Alignment explanation
Indices: 42570268--42570307 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
42570258 AGGCATGAAT
*
42570268 AATA AAT- AAT- AAT- AATA GATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
42570308 GAAAGAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 9 0.27
4 24 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:42571943 original size:44 final size:44
Alignment explanation
Indices: 42571895--42572796 Score: 194
Period size: 45 Copynumber: 19.9 Consensus size: 44
42571885 CTCGCATCTA
* *
42571895 CAACCTGCTCCACTACAACTTCAGGAAGATGAGATTTGTAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * ***
42571939 CAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * *
42571983 TAATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGCAACCTT-TAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGA-T-------TTGTAACTT
* * * * * *
42572034 CAATCTAC-CCTACTACAACTTTAAGGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCC-ACTGCAAC-TTCAGGAAGATAAGATTTG-TAACTT
* * * *
42572079 CAGCCTGCTCCATTGCAACTTCAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * *
42572122 TAACCTGCTCCATTGCTACTTCA-GAGAGATAAGATCTGTAATTTATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGATAAGA--T-T--TGTA-A-CTT
* * * *
42572173 CAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCGCTATCTT
1 CAACCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTG-TAACTT
*** * * * *
42572218 CAGTTTACTCCACTGTAACTTCAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * *
42572261 CAACCTGGT-CACTGCTACTTAAGGGAGATAAGGA-TTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAA-GATTTGTAACT-T
* * * * *
42572302 -GATCTGCTCGACTGTAACTTCAGAGAA-ATAAGATCTGTAACTTAT
1 CAACCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTGTAAC-T-T
* * * * *
42572347 AGCTTTAATCTGTTCCACTGCAACTTTAGAGAA-ATAAGATTCGCTATCTT
1 --C---AACCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTG-TAACTT
* * * * * *
42572397 CAGCCTACTCCACTACAACTTTAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * * *
42572440 TAACCTGCT-CACTACTACTTCAGGGAGATAAGGTTTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACT-T
* ** * * *
42572481 -GATTTGCTCTACTGCAACTTCA-GAGAGATAAAATCTGTTTATTTATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGAT--AA---G---ATTTGTAACTT
* * * *
42572532 CAATCTGTTCCACTGCTACTTCAGGGAGATAA-AGTTTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGA-TTTGTAACT-T
* * * *
42572574 -GATCTGCTCTACTGCAACTTCA-AAGAGATAAGATTTGTTTATTTATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGATAAGATTTG------TA-A-CTT
* ** * * *
42572625 CAATCTATTCCACTACAACTTCAGGGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTG-TAACTT
** * * *
42572670 CAGTCTGCTCCACTGTAACTTCAGAGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTG-TAACTT
** * *
42572715 CAGTCTGCTCCACTGCAACTTCAATG-AGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTC-AGGAAGATAAGATTTGTAACTT
* * * *
42572758 CAATCTGCACCATTGCTACTTCAGGAAGATAAGATTTGT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGT
42572797 GGATTCACTG
Statistics
Matches: 632, Mismatches: 141, Indels: 170
0.67 0.15 0.18
Matches are distributed among these distances:
40 17 0.03
41 62 0.10
42 51 0.08
43 93 0.15
44 82 0.13
45 150 0.24
46 5 0.01
47 4 0.01
48 3 0.00
49 6 0.01
50 7 0.01
51 83 0.13
52 64 0.10
53 4 0.01
54 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
Found at i:42572171 original size:139 final size:138
Alignment explanation
Indices: 42571904--42572292 Score: 394
Period size: 139 Copynumber: 2.8 Consensus size: 138
42571894 ACAACCTGCT
* * * *
42571904 CCACTACAAC-TTCAGGAAGATGAGATTTG-TAACTTCAACCTGCTCCACTGCAACTTTAGGGAG
1 CCACTACAACTTTAAGGAA-ATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
** *** * * *
42571967 ATAAGGTTTGTGGTTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGCAACCTTTAGC
65 ATAAGACTT-TAACTTTAACCTGCTCCACTGCTACTTCAGG-AGATAAGACTCGCAACCTTTAGC
42572032 TTCAATCT-AC
128 TTCAATCTGAC
*
42572042 CCTACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCATTGCAACTTCAGGGAG
1 CC-ACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
* * *
42572107 ATAAGACTTTAACTTTAACCTGCTCCATTGCTACTTCAGAGAGATAAGA-TCTGTAA-TTTATAG
65 ATAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAG-GAGATAAGACTC-GCAACCTT-TAG
**
42572170 CTTCAATCTGTT
127 CTTCAATCTGAC
* * * * * ** * *
42572182 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACTTCAGGGAGA
1 CCACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGA
* * *
42572247 TAAGACTTTAACTTCAACCTGGT-CACTGCTACTTAAGGGAGATAAG
66 TAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCA-GGAGATAAG
42572293 GATTGCTATG
Statistics
Matches: 211, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
138 25 0.12
139 139 0.66
140 47 0.22
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (138 bp):
CCACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAGGAGATAAGACTCGCAACCTTTAGCTTC
AATCTGAC
Found at i:42572439 original size:179 final size:179
Alignment explanation
Indices: 42572139--42572555 Score: 636
Period size: 179 Copynumber: 2.3 Consensus size: 179
42572129 CTCCATTGCT
*
42572139 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATA
1 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
** ** *
42572204 AGATTCGCTATCTTCAGTTTACTCCACTGTAACTTCAGGGAGATAAGACTTTAACTTCAACCTGG
66 AGATTCGCTATCTTCAGCCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
* *
42572269 TCACTGCTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGTA
131 TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGCA
* * * *
42572318 ACTTCAGAGAAATAAGATCTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTTAGAGAAATA
1 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
* *
42572383 AGATTCGCTATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAAGACTTTAACTTTAACCTGC
66 AGATTCGCTATCTTCAGCCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
* * * *
42572448 TCACTACTACTTCAGGGAGATAAGGTTTGCTATGATTTGCTCTACTGCA
131 TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGCA
* * *
42572497 ACTTCAGAGAGATAAAATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCTACTTCAG
1 ACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAG
42572556 GGAGATAAAG
Statistics
Matches: 212, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
179 180 0.85
180 32 0.15
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (179 bp):
ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
AGATTCGCTATCTTCAGCCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGCA
Found at i:42572613 original size:93 final size:93
Alignment explanation
Indices: 42572449--42572651 Score: 334
Period size: 93 Copynumber: 2.2 Consensus size: 93
42572439 TTAACCTGCT
* * *
42572449 CACTACTACTTCAGGGAGATAAGGTTTGCTATGATTTGCTCTACTGCAACTTCAGAGAGATAAAA
1 CACTACTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAAA
*
42572514 TCTGTTTATTTATAGCTTCAATCTGTTC
66 TCTGTTTATTTATAGCTTCAATCTATTC
* *
42572542 CACTGCTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGA
1 CACTACTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAAA
*
42572607 TTTGTTTATTTATAGCTTCAATCTATTC
66 TCTGTTTATTTATAGCTTCAATCTATTC
*
42572635 CACTACAACTTCAGGGA
1 CACTACTACTTCAGGGA
42572652 AATGAGATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 101 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (93 bp):
CACTACTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAAA
TCTGTTTATTTATAGCTTCAATCTATTC
Found at i:42573640 original size:8 final size:8
Alignment explanation
Indices: 42573627--42573682 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
42573617 CTGGCCTCTC
42573627 TTTTTTCT
1 TTTTTTCT
42573635 TTTTTT-T
1 TTTTTTCT
42573642 TGTTTTTCT
1 T-TTTTTCT
*
42573651 TTTTTGCT
1 TTTTTTCT
42573659 TTTCTTTCT
1 TTT-TTTCT
*
42573668 TTCTTTCT
1 TTTTTTCT
42573676 TTCTTTT
1 TT-TTTT
42573683 TTAGTGAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 2 0.05
8 27 0.68
9 11 0.28
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (8 bp):
TTTTTTCT
Found at i:42573655 original size:13 final size:13
Alignment explanation
Indices: 42573637--42573684 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
42573627 TTTTTTCTTT
42573637 TTTTTTGTTTTTC
1 TTTTTTGTTTTTC
*
42573650 TTTTTTGCTTTTC
1 TTTTTTGTTTTTC
*
42573663 TTTCTTTCTTTCTTTC
1 TTT-TTT-GTT-TTTC
42573679 TTTTTT
1 TTTTTT
42573685 AGTGAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 15 0.52
14 3 0.10
15 4 0.14
16 7 0.24
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (13 bp):
TTTTTTGTTTTTC
Found at i:42573661 original size:29 final size:29
Alignment explanation
Indices: 42573629--42573684 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
42573619 GGCCTCTCTT
* *
42573629 TTTTCTTT-TTTTTTGTTTTTCTTTTTTGC
1 TTTTCTTTCTTTCTT-TCTTTCTTTTTTGC
42573658 TTTTCTTTCTTTCTTTCTTTCTTTTTT
1 TTTTCTTTCTTTCTTTCTTTCTTTTTT
42573685 AGTGAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (29 bp):
TTTTCTTTCTTTCTTTCTTTCTTTTTTGC
Found at i:42576909 original size:35 final size:35
Alignment explanation
Indices: 42576886--42577078 Score: 268
Period size: 35 Copynumber: 5.5 Consensus size: 35
42576876 GGCAAAGTGC
*
42576886 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
42576921 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* *
42576956 GAAATATAGGTATGGTATTATCCATACTGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
42576991 GAAATGTAGGTAT-GTCATT-TCCTATACCGAGTTGT
1 GAAATGTAGGTATGGT-ATTATCC-ATACCGAGTTGA
* *
42577026 GAAACGTAGGTATGGTATTTTCCATACCGAGTAT-A
1 GAAATGTAGGTATGGTATTATCCATACCGAGT-TGA
42577061 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
42577079 TCAATGAGGA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
34 22 0.15
35 114 0.80
36 6 0.04
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
Found at i:42578180 original size:19 final size:17
Alignment explanation
Indices: 42578156--42578200 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
42578146 TTTTCTTTGA
*
42578156 AATGTAATGCATATGATGC
1 AATGTAATG-ACA-GATGC
42578175 AATGTAAT-ACAGATGC
1 AATGTAATGACAGATGC
42578191 AATGTAATGA
1 AATGTAATGA
42578201 ATGCAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.54
17 3 0.12
19 8 0.33
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (17 bp):
AATGTAATGACAGATGC
Found at i:42580043 original size:18 final size:17
Alignment explanation
Indices: 42580011--42580044 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
42580001 TTGTAATTTG
42580011 ATTTTTTTTAATAAAAT
1 ATTTTTTTTAATAAAAT
*
42580028 ATTTTGTTTTACTAAAA
1 ATTTT-TTTTAATAAAA
42580045 CAATGAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTTTTTAATAAAAT
Found at i:42580655 original size:13 final size:12
Alignment explanation
Indices: 42580627--42580661 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
42580617 CAATATTAGC
42580627 AAATAAA-AATA
1 AAATAAATAATA
42580638 AAATAAATAATAA
1 AAATAAATAAT-A
42580651 AAATAAATAAT
1 AAATAAATAAT
42580662 GACAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:42580682 original size:21 final size:20
Alignment explanation
Indices: 42580650--42580697 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
42580640 ATAAATAATA
42580650 AAAATAAATAATGAC-AATGAT
1 AAAAT-AATAAT-ACTAATGAT
42580671 AACAATAATAATACTAATGAT
1 AA-AATAATAATACTAATGAT
42580692 AAAATA
1 AAAATA
42580698 TGCACATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATACTAATGAT
Found at i:42581028 original size:3 final size:3
Alignment explanation
Indices: 42580936--42581009 Score: 69
Period size: 3 Copynumber: 23.7 Consensus size: 3
42580926 CAAATAAATG
* * * *
42580936 AAT AGAT AAT AAT AA- AAT AGT AAT AAT AAT GAAGG CAT GGAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT -AAT AAT AAT
42580984 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
42581010 AACAAATGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
2 2 0.03
3 49 0.83
4 8 0.14
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:42587055 original size:7 final size:7
Alignment explanation
Indices: 42587043--42587076 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
42587033 CTTCGGGTTG
42587043 ATTTTAT
1 ATTTTAT
42587050 ATTTTAT
1 ATTTTAT
42587057 ATTTTAT
1 ATTTTAT
42587064 A-TTTA-
1 ATTTTAT
42587069 ATTTTAT
1 ATTTTAT
42587076 A
1 A
42587077 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 8 0.32
7 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTAT
Found at i:42587074 original size:12 final size:14
Alignment explanation
Indices: 42587043--42587076 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
42587033 CTTCGGGTTG
42587043 ATTTTATATTTTAT
1 ATTTTATATTTTAT
42587057 ATTTTATA-TTTA-
1 ATTTTATATTTTAT
42587069 ATTTTATA
1 ATTTTATA
42587077 AAAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 4 0.20
14 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTATATTTTAT
Found at i:42590303 original size:6 final size:6
Alignment explanation
Indices: 42590288--42590336 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
42590278 ATATATTTTC
* *
42590288 TTTTAGT TTTTATT TTATTAT TTTTAG TTTTAG TTTTAT TTTTAT TTTT
1 TTTTA-T TTTTA-T TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
42590337 TTCCCTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 24 0.63
7 11 0.29
8 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:42590324 original size:21 final size:21
Alignment explanation
Indices: 42590288--42590327 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
42590278 ATATATTTTC
42590288 TTTTAGTTTTTATTTTATTAT
1 TTTTAGTTTTTATTTTATTAT
42590309 TTTTAG-TTTTAGTTTTATT
1 TTTTAGTTTTTA-TTTTATT
42590328 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTTAGTTTTTATTTTATTAT
Found at i:42590330 original size:27 final size:26
Alignment explanation
Indices: 42590288--42590338 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
42590278 ATATATTTTC
42590288 TTTTAGTTTTTATTTTATTATTTTTAG
1 TTTTAGTTTTTATTTTATT-TTTTTAG
42590315 TTTTAG-TTTTATTTTTATTTTTTT
1 TTTTAGTTTTTA-TTTTATTTTTTT
42590339 CCCTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTAGTTTTTATTTTATTTTTTTAG
Found at i:42590345 original size:27 final size:27
Alignment explanation
Indices: 42590283--42590338 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
42590273 TGATTATATA
42590283 TTTT-CTTTTAGTTTTTATTTTATTAT
1 TTTTACTTTTAGTTTTTATTTTATTAT
*
42590309 TTTTAGTTTTAG-TTTTATTTTTATT-T
1 TTTTACTTTTAGTTTTTA-TTTTATTAT
42590335 TTTT
1 TTTT
42590339 CCCTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (27 bp):
TTTTACTTTTAGTTTTTATTTTATTAT
Found at i:42597626 original size:6 final size:6
Alignment explanation
Indices: 42597611--42597642 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
42597601 CCAATAGAAG
42597611 AAAA-A AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
42597643 GACCAACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:42602377 original size:16 final size:17
Alignment explanation
Indices: 42602346--42602388 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
42602336 AACCAAATCT
*
42602346 ATATAATTTTACTATAA
1 ATATATTTTTACTATAA
*
42602363 ATATATTTTTA-TATAT
1 ATATATTTTTACTATAA
42602379 ATATATTTTT
1 ATATATTTTT
42602389 TCAATATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTTTACTATAA
Found at i:42605104 original size:13 final size:13
Alignment explanation
Indices: 42605086--42605110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42605076 AGTTTTTTTA
42605086 TTTTTAATTAATG
1 TTTTTAATTAATG
42605099 TTTTTAATTAAT
1 TTTTTAATTAAT
42605111 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:42605911 original size:22 final size:22
Alignment explanation
Indices: 42605886--42605929 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
42605876 ATCTTACAAT
42605886 AATATAATAA-AATATTTTAAAA
1 AATA-AATAATAATATTTTAAAA
* *
42605908 AATACATAATAATTTTTTAAAA
1 AATAAATAATAATATTTTAAAA
42605930 TTAGTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAATAATAATATTTTAAAA
Found at i:42607109 original size:22 final size:23
Alignment explanation
Indices: 42607076--42607141 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
42607066 TTTGTGGGTA
*
42607076 ATTTA-AATTATTTAATTTTTAT
1 ATTTATAATTATTTAATTTATAT
*
42607098 -TTTATAATTATTTAA-ATATAT
1 ATTTATAATTATTTAATTTATAT
*
42607119 ACTTATAATTATGTTAATTTATA
1 ATTTATAATTAT-TTAATTTATA
42607142 ATATATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 8 0.22
22 20 0.56
23 4 0.11
24 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTTATAATTATTTAATTTATAT
Found at i:42610832 original size:22 final size:22
Alignment explanation
Indices: 42610782--42610824 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42610772 TTTTAATATT
*
42610782 TCATCTAATTTTATCTTTTTTAA
1 TCAT-TAAATTTATCTTTTTTAA
42610805 TCATTAAATTTAT-TTTTTTA
1 TCATTAAATTTATCTTTTTTA
42610825 TCAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (22 bp):
TCATTAAATTTATCTTTTTTAA
Done.