Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 183 of 378
Found at i:53513749 original size:68 final size:67
Alignment explanation
Indices: 53513596--53513750 Score: 240
Period size: 67 Copynumber: 2.3 Consensus size: 67
53513586 GAGGAAGCGT
* *
53513596 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
53513661 TA
66 TA
**
53513663 TCTGGCAACCTCATTGCAATCTGGTGGCCTCGCCACATATATCTGTATCTGGTGACTTCGTCACA
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGT-TCTGGTGACTTCGTCACA
53513728 ATA
65 ATA
*
53513731 TCTGGC-TCCTTCGCTGCAAT
1 TCTGGCAACC-TCGCTGCAAT
53513751 TTCTATGGTG
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
67 44 0.56
68 35 0.44
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.32
Consensus pattern (67 bp):
TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:53520073 original size:25 final size:25
Alignment explanation
Indices: 53520039--53520089 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
53520029 CTGGTGACGA
53520039 AGGGATCCCACATCGGGAAGCTAAC
1 AGGGATCCCACATCGGGAAGCTAAC
53520064 AGGGATCCCACATCGGGAAGCTAAC
1 AGGGATCCCACATCGGGAAGCTAAC
53520089 A
1 A
53520090 TAAGAGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.12
Consensus pattern (25 bp):
AGGGATCCCACATCGGGAAGCTAAC
Found at i:53521063 original size:26 final size:26
Alignment explanation
Indices: 53521034--53521083 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
53521024 TGGCTGCAAT
*
53521034 CTGGTGGCCTCG-CACATATATCTGTA
1 CTGGTGACCTCGTCACA-ATATCTGTA
*
53521060 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGACCTCGTCACAATATCTG
53521084 GCTCATATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (26 bp):
CTGGTGACCTCGTCACAATATCTGTA
Found at i:53523119 original size:2 final size:2
Alignment explanation
Indices: 53523112--53523138 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
53523102 TCATGACATG
53523112 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
53523139 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53531853 original size:40 final size:40
Alignment explanation
Indices: 53531794--53531980 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
53531784 CATTGGAATG
* * * *
53531794 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
53531834 ATATCCGGACTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
53531874 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
53531914 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
53531954 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
53531981 CGAGCGAGTC
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:53531896 original size:80 final size:80
Alignment explanation
Indices: 53531794--53531947 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
53531784 CATTGGAATG
* * ** *
53531794 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGACTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGACTAAGACCCGAAGGCA
*
53531859 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * **
53531874 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGACTAAGACCCGAAGGCA
53531939 ATCGTGCGA
66 ATCGTGCGA
53531948 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGACTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:53531962 original size:80 final size:80
Alignment explanation
Indices: 53531798--53531980 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
53531788 GGAATGATAT
* ** * *
53531798 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGACTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGACTAAGACCCGAAGGCAATCG
* *** *
53531863 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * **
53531878 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGACTAAGACCCGAAGGCAATCG
53531943 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
53531958 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
53531981 CGAGCGAGTC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGACTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:53534164 original size:48 final size:48
Alignment explanation
Indices: 53534093--53534380 Score: 481
Period size: 48 Copynumber: 6.0 Consensus size: 48
53534083 CAAGATATAT
* *
53534093 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53534141 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
53534189 ATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
53534237 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA--TATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
53534283 ATATGTATAGGTGTTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
53534331 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53534379 AT
1 AT
53534381 GTGTGTATAT
Statistics
Matches: 224, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
46 42 0.19
48 182 0.81
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:53534248 original size:96 final size:96
Alignment explanation
Indices: 53534102--53534380 Score: 481
Period size: 94 Copynumber: 2.9 Consensus size: 96
53534092 TATATATATG
53534102 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
53534167 GCTAGTGTGAAATATGTATGAGATATGCATA
66 GCTAGTGTGAAATATGTATGAGATATGCATA
53534198 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* *
53534263 GCTAATGTGAAATA--TATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATGCATA
* * * *
53534292 GGTGTTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
53534357 GCTAGTGTGAAATATGTAGGAGAT
66 GCTAGTGTGAAATATGTATGAGAT
53534381 GTGTGTATAT
Statistics
Matches: 173, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 88 0.51
96 85 0.49
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (96 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAGTGTGAAATATGTATGAGATATGCATA
Found at i:53534313 original size:142 final size:143
Alignment explanation
Indices: 53534093--53534380 Score: 479
Period size: 142 Copynumber: 2.0 Consensus size: 143
53534083 CAAGATATAT
* * *
53534093 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-GTATGAGATATGTATAGGTGGTAA
53534158 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAGTGT
65 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAGTGT
*
53534223 GAAATATGTATGAG
130 GAAATATGTAGGAG
* *
53534237 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-TATGAGATATGTATAGGTGTTAAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGTATGAGATATGTATAGGTGGTAAA
* * *
53534301 GTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTG
66 GCCGAATGGCTAGTGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAGTGTG
53534366 AAATATGTAGGAG
131 AAATATGTAGGAG
53534379 AT
1 AT
53534381 GTGTGTATAT
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
142 98 0.73
144 37 0.27
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (143 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAGTATGAGATATGTATAGGTGGTAAA
GCCGAATGGCTAGTGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGCTAGTGTG
AAATATGTAGGAG
Found at i:53534570 original size:37 final size:37
Alignment explanation
Indices: 53534520--53534622 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
53534510 GGAAATATAT
53534520 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
53534557 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53534594 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
53534623 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53536367 original size:40 final size:40
Alignment explanation
Indices: 53535907--53536358 Score: 796
Period size: 40 Copynumber: 11.3 Consensus size: 40
53535897 GAGTTATATA
*
53535907 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
* *
53535947 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGGTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53535987 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCAAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53536027 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53536067 TATTCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53536107 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53536147 TATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53536187 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
53536227 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
*
53536267 TATCCAGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
* *
53536307 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
53536347 TATCCGGGCTAA
1 TATCCGGGCTAA
53536359 ACCTCGAAGG
Statistics
Matches: 393, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 393 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
Found at i:53536430 original size:28 final size:27
Alignment explanation
Indices: 53536390--53536546 Score: 143
Period size: 28 Copynumber: 5.6 Consensus size: 27
53536380 GAGTTATGAG
* * *
53536390 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
53536418 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
53536446 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
53536475 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
53536503 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
53536532 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
53536547 AATCAGTCAG
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 57 0.55
29 47 0.45
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:53536453 original size:29 final size:28
Alignment explanation
Indices: 53536418--53536546 Score: 118
Period size: 29 Copynumber: 4.5 Consensus size: 28
53536408 CTTCAACCGA
* *
53536418 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
53536447 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
*
53536475 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * *
53536504 GCACTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
*
53536532 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
53536547 AATCAGTCAG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
28 37 0.45
29 45 0.55
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:53536476 original size:57 final size:57
Alignment explanation
Indices: 53536386--53536574 Score: 247
Period size: 57 Copynumber: 3.3 Consensus size: 57
53536376 GCTGGAGTTA
* * * *
53536386 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
** *
53536443 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
* * *
53536500 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT-AGT
* *
53536557 TG-GGCACTGTGTATGCGA
1 TGAGGCACTATGTGTGCGA
53536575 AGTGTGTTTC
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
56 14 0.12
57 101 0.87
58 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGT
Found at i:53540006 original size:48 final size:48
Alignment explanation
Indices: 53539935--53540270 Score: 604
Period size: 48 Copynumber: 7.0 Consensus size: 48
53539925 CAAGATAAAT
* *
53539935 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53539983 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53540031 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53540079 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
** *
53540127 ATATGTATATGTGGTAAAGTTGAATGGCTAATGTGAAATA--TATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53540173 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
53540221 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
53540269 AT
1 AT
53540271 GTGTGTATAT
Statistics
Matches: 277, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
46 43 0.16
48 234 0.84
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:53540243 original size:142 final size:143
Alignment explanation
Indices: 53539935--53540270 Score: 602
Period size: 142 Copynumber: 2.3 Consensus size: 143
53539925 CAAGATAAAT
* *
53539935 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
*
53540000 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
66 AGCCGAATGGCTAATGTGAAATA-GTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
53540065 GAAATATGTATGAG
130 GAAATATGTATGAG
53540079 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
**
53540144 AGTTGAATGGCTAATGTGAAATA-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
66 AGCCGAATGGCTAATGTGAAATAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
53540208 AAATATGTATGAG
131 AAATATGTATGAG
*
53540221 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
53540271 GTGTGTATAT
Statistics
Matches: 186, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
142 103 0.55
144 83 0.45
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.32
Consensus pattern (143 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
AAATATGTATGAG
Found at i:53540461 original size:37 final size:37
Alignment explanation
Indices: 53540411--53540513 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
53540401 GGAAATATAT
*
53540411 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
* *
53540448 TCCGGGTAAGACCCGATGACTATATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
* *
53540485 TCCGGGTAAGACTCGATAACTATGTGTGG
1 TCCGGGTAAGACCCGATGACTATGTGTGG
53540514 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
Found at i:53545498 original size:49 final size:50
Alignment explanation
Indices: 53545374--53545551 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 50
53545364 GGGTATAATA
* ** *
53545374 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--AT-CAAG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTAACT-ATCACAAATCCGAG
* * *
53545421 TCAATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-AAAT-CGAG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCCGAG
* * * * * *
53545469 CCCGACGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATATCCGTG
1 -CCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCCGAG
*
53545520 CCGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGACGCCATGTCCCAGACATGGTCTTACACT
53545552 GTCACCTCTA
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
46 3 0.03
47 32 0.30
48 5 0.05
49 33 0.31
50 32 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (50 bp):
CCGACGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCCGAG
Found at i:53545583 original size:48 final size:49
Alignment explanation
Indices: 53545374--53545597 Score: 185
Period size: 48 Copynumber: 4.6 Consensus size: 49
53545364 GGGTATAATA
* * * *
53545374 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ATCCATCAAGT-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGTCACAATCTAT-ACGTG
* * * * * *
53545422 -CAATGCCATGTCCCAGACATGGTCTTACAC--TAACTATCAAAATCGAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGTCACAATCTATA-CGTG
* * * * *
53545469 CCCGACGCCATGTCCTAAACATGGTCTTACACTAGCTCTC-A-CATATCCGTG
1 -CCGATGCCATGTCCCAGACATGGTCTTACACT-G-TCACAATC-TATACGTG
*
53545520 CCGATGCCATGTCCCAGACATGGTCTTACACTGTCAC-CTCTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGTCACAATCTATACGTG
*
53545568 CTGATGCCATGTCCCAGACATGGTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
53545598 TTGGCTCTCA
Statistics
Matches: 140, Mismatches: 25, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.01
46 5 0.04
47 29 0.21
48 39 0.28
49 28 0.20
50 29 0.21
51 4 0.03
52 2 0.01
53 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGTCACAATCTATACGTG
Found at i:53545622 original size:48 final size:48
Alignment explanation
Indices: 53545375--53545648 Score: 224
Period size: 47 Copynumber: 5.7 Consensus size: 48
53545365 GGTATAATAC
53545375 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA----GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGGT
* ** * * * **
53545422 CAATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGT
* * * * * *
53545471 CGACGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATATCCGT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGT
* * * *
53545521 CGATGCCATGTCCCAGACATGGTCTTACACTGTCACCTC-TATACGTGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTGGT
*
53545570 -GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGT
*
53545617 CGATG-CATGTCCTAGACAT-GTCTTACACTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
53545649 ACACAAATAA
Statistics
Matches: 183, Mismatches: 33, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 13 0.07
47 53 0.29
48 39 0.21
49 34 0.19
50 35 0.19
51 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGT
Found at i:53556786 original size:78 final size:77
Alignment explanation
Indices: 53556692--53556873 Score: 229
Period size: 78 Copynumber: 2.3 Consensus size: 77
53556682 TCGTTCAAAC
* * ** * *
53556692 GCCTTCGGGACATAGCCCGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATCA
1 GCCTTCGGG-CTTAGCCCGATATCATAACCCGCACAAAGGCATTCGGG-CTTAACCCGGATATCA
53556757 CAACTCGCACAATT
64 CAACTCGCACAATT
* ** *
53556771 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCATTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCC-GATATCATAACCCGCACAAAGGCATTCGGGCTTAACCCGGATATCAC
*
53556836 AATTCGCACAATT
65 AACTCGCACAATT
53556849 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCC-GATATCA
53556874 CTCGAACATT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 59 0.65
79 32 0.35
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.23
Consensus pattern (77 bp):
GCCTTCGGGCTTAGCCCGATATCATAACCCGCACAAAGGCATTCGGGCTTAACCCGGATATCACA
ACTCGCACAATT
Found at i:53556801 original size:39 final size:39
Alignment explanation
Indices: 53556722--53556874 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
53556712 TATGGTAACC
** * *
53556722 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
53556762 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
53556801 CGCACAATTGCATTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
53556840 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
53556875 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53564772 original size:78 final size:77
Alignment explanation
Indices: 53564678--53564859 Score: 238
Period size: 78 Copynumber: 2.3 Consensus size: 77
53564668 TCGTTCAAAC
* * ** *
53564678 GCCTTCGGGACATAGCCCGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATCA
1 GCCTTCGGG-CTTAGCCCGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATATCA
53564743 CAACTCGCACAATT
64 CAACTCGCACAATT
* ** *
53564757 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCC-GATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
*
53564822 AATTCGCACAATT
65 AACTCGCACAATT
53564835 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCC-GATATCA
53564860 CTCGAACATT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
78 59 0.64
79 33 0.36
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (77 bp):
GCCTTCGGGCTTAGCCCGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCACA
ACTCGCACAATT
Found at i:53564787 original size:39 final size:39
Alignment explanation
Indices: 53564708--53564860 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
53564698 TATGGTAACC
** * *
53564708 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
53564748 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
53564787 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
53564826 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
53564861 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 90 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53575473 original size:31 final size:31
Alignment explanation
Indices: 53575454--53575515 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
53575444 TCGATTTTTC
*
53575454 CTTGATCTATCATTTCAAATATAGCCTAATT
1 CTTGATCTATCATTTCAAATATAGCATAATT
*
53575485 CTTGATCTATCATTTCAAATATAGCCTAATT
1 CTTGATCTATCATTTCAAATATAGCATAATT
53575516 AGGACTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (31 bp):
CTTGATCTATCATTTCAAATATAGCATAATT
Found at i:53578248 original size:24 final size:24
Alignment explanation
Indices: 53578218--53578508 Score: 501
Period size: 24 Copynumber: 12.1 Consensus size: 24
53578208 GAATGTGACT
* *
53578218 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
53578242 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53578266 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53578290 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53578314 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53578338 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53578362 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53578386 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53578410 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53578434 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53578458 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53578482 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53578506 ATA
1 ATA
53578509 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 261 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:53586308 original size:24 final size:24
Alignment explanation
Indices: 53586278--53586568 Score: 501
Period size: 24 Copynumber: 12.1 Consensus size: 24
53586268 GAATGTGACT
* *
53586278 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
53586302 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53586326 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53586350 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53586374 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53586398 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53586422 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53586446 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53586470 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53586494 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53586518 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53586542 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53586566 ATA
1 ATA
53586569 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 261 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:53594364 original size:24 final size:24
Alignment explanation
Indices: 53594334--53594621 Score: 492
Period size: 24 Copynumber: 12.1 Consensus size: 24
53594324 GAATGTGACT
* *
53594334 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
53594358 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594382 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594406 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53594430 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53594454 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594478 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53594501 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594525 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594548 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
53594571 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594595 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
53594619 ATA
1 ATA
53594622 TGGTCTTTGC
Statistics
Matches: 258, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
23 69 0.27
24 189 0.73
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:53601660 original size:46 final size:46
Alignment explanation
Indices: 53601610--53601785 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53601600 TGGTTGAGCA
53601610 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53601656 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53601701 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53601749 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53601786 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53601766 original size:93 final size:93
Alignment explanation
Indices: 53601607--53601778 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53601597 GGATGGTTGA
* *
53601607 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53601672 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53601700 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53601765 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53601779 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53605161 original size:93 final size:90
Alignment explanation
Indices: 53604995--53605162 Score: 246
Period size: 93 Copynumber: 1.8 Consensus size: 90
53604985 GGATGGTTGA
* *
53604995 GCATCCGAACTCATTGAGTTGACCGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGTTGA
1 GCATCCGAACTCATTGAGTTGACCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTTGA
53605060 GTCCGAGTTCGTGAGATGTAACTAG
66 GTCCGAGTTCGTGAGATGTAACTAG
* * * *
53605085 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGA--CCGAGTTCACTTATGGATGCAAACG-CCGAACTCGTTGAGT
*
53605150 TGAGTCTGAGTTC
63 TGAGTCCGAGTTC
53605163 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 21 0.31
92 22 0.32
93 25 0.37
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (90 bp):
GCATCCGAACTCATTGAGTTGACCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAG
Found at i:53605427 original size:19 final size:20
Alignment explanation
Indices: 53605390--53605427 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53605380 ATAAGGTGGT
53605390 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53605410 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53605428 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53609792 original size:28 final size:28
Alignment explanation
Indices: 53609723--53609823 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53609713 GACAAGATTG
* * * *
53609723 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
53609753 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53609781 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
53609810 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
53609824 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53617752 original size:28 final size:28
Alignment explanation
Indices: 53617683--53617783 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53617673 GACAAGATTG
* * * *
53617683 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
53617713 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53617741 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
53617770 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
53617784 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53625249 original size:44 final size:43
Alignment explanation
Indices: 53625199--53625338 Score: 123
Period size: 42 Copynumber: 3.3 Consensus size: 43
53625189 TCTGAAATAT
*
53625199 CGTGTAAGACCGTTTCTGGGACACAGGCTTCGATTTGAGATTTA
1 CGTGTAAGACC-TTTCTGGGACACAGGCATCGATTTGAGATTTA
* *
53625243 CGTGTAAGACCATGTT-TAGGACATC-GGCATCGTATCT--GATTT-
1 CGTGTAAGACC-T-TTCTGGGACA-CAGGCATCG-ATTTGAGATTTA
*
53625285 CGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGA-A-TTA
1 CGTGTAAGACCTT-TCTGGGACACAGGCATCGAT-TTGAGATTTA
*
53625328 CATGTAAGACC
1 CGTGTAAGACC
53625339 ACGTCTAGGA
Statistics
Matches: 78, Mismatches: 8, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
40 1 0.01
41 4 0.05
42 27 0.35
43 16 0.21
44 24 0.31
45 6 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCTTTCTGGGACACAGGCATCGATTTGAGATTTA
Found at i:53627312 original size:43 final size:43
Alignment explanation
Indices: 53627265--53627377 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 43
53627255 GGAACGTTGA
**
53627265 CTTCGATCTGAAATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CTTCGATCTGAAATATCGTGTAAGACCACGTCTGGGACACAGG
* * **
53627308 CTTCGATTTGAGATTTAT-GTGTAAGACCACGTCTGGGACATTGG
1 CTTCGATCTGA-A-ATATCGTGTAAGACCACGTCTGGGACACAGG
* *
53627352 CATCGTATCTG--ATTTCGTGTAAGACC
1 CTTCG-ATCTGAAATATCGTGTAAGACC
53627378 CTATTTGGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.04
42 10 0.18
43 10 0.18
44 27 0.48
45 7 0.12
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CTTCGATCTGAAATATCGTGTAAGACCACGTCTGGGACACAGG
Found at i:53627439 original size:43 final size:42
Alignment explanation
Indices: 53627327--53627443 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
53627317 GAGATTTATG
* * * *
53627327 TGTAAGACCACGTCTGGGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATTGTATCTGATTACA
* * * *
53627369 TGTAAGACC-CTATTTGGTACAG-AGGCATTGATAT-TGAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATTG-TATCTG-ATTACA
53627412 TGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGTA
53627444 CTTGTTTATG
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
41 1 0.02
42 26 0.46
43 29 0.51
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGTATCTGATTACA
Found at i:53630929 original size:16 final size:16
Alignment explanation
Indices: 53630908--53630958 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
53630898 AAGAAAGAGC
53630908 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
53630924 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
53630940 AAACACGCTAGTAAAT
1 AAATACGCTAGTAAAT
53630956 AAA
1 AAA
53630959 ATACTAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:53634748 original size:15 final size:16
Alignment explanation
Indices: 53634716--53634748 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
53634706 ACCTTGAATT
53634716 TGTTTAATTTTTTATG
1 TGTTTAATTTTTTATG
53634732 TGTTTAATTTTTT-TG
1 TGTTTAATTTTTTATG
53634747 TG
1 TG
53634749 AAAAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (16 bp):
TGTTTAATTTTTTATG
Found at i:53636544 original size:89 final size:89
Alignment explanation
Indices: 53636393--53636572 Score: 315
Period size: 89 Copynumber: 2.0 Consensus size: 89
53636383 GGTTAATAGT
*
53636393 GCCATACTTGATGCCATTCACTCTTTGAGCAATGATGTTCGAAGTCTTCAAAAAGAGGTTCGATC
1 GCCATAATTGATGCCATTCACTCTTTGAGCAATGATGTTCGAAGTCTTCAAAAAGAGGTTCGATC
*
53636458 TCATAGGGAAGACATGAACTCTAA
66 TCATAGGGAAGACATGAACACTAA
* * *
53636482 GCCATAATTGATGCCATTCACTCTTTGAGCAATGATGTTCGAGGTCTTTAAGAAGAGGTTCGATC
1 GCCATAATTGATGCCATTCACTCTTTGAGCAATGATGTTCGAAGTCTTCAAAAAGAGGTTCGATC
53636547 TCATAGGGAAGACATGAACACTAA
66 TCATAGGGAAGACATGAACACTAA
53636571 GC
1 GC
53636573 TATCTATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (89 bp):
GCCATAATTGATGCCATTCACTCTTTGAGCAATGATGTTCGAAGTCTTCAAAAAGAGGTTCGATC
TCATAGGGAAGACATGAACACTAA
Found at i:53637327 original size:21 final size:21
Alignment explanation
Indices: 53637264--53637328 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 21
53637254 TCAAGTAGTG
* *
53637264 AAAATGA-TTTCAATCAAGTT
1 AAAATGATTTTCAAACAAGTC
* *
53637284 AAAATCATTTT--AGCACA-TC
1 AAAATGATTTTCAAACA-AGTC
53637303 AAAATGATTTTCAAACAAGTC
1 AAAATGATTTTCAAACAAGTC
53637324 AAAAT
1 AAAAT
53637329 TGCTCAAGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
19 14 0.40
20 8 0.23
21 13 0.37
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAATGATTTTCAAACAAGTC
Found at i:53639175 original size:12 final size:12
Alignment explanation
Indices: 53639160--53639185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53639150 TTGTCAAATA
53639160 CCTTGTAACAGC
1 CCTTGTAACAGC
53639172 CCTTGTAACAGC
1 CCTTGTAACAGC
53639184 CC
1 CC
53639186 GACTTTGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (12 bp):
CCTTGTAACAGC
Found at i:53640636 original size:6 final size:6
Alignment explanation
Indices: 53640617--53640695 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
53640607 TATTAGAACT
* * *
53640617 AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
53640666 AGTATC AGGTAAT- AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
53640696 TAGTATCAGG
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 4 0.07
6 46 0.81
7 4 0.07
8 3 0.05
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:53640652 original size:31 final size:31
Alignment explanation
Indices: 53640617--53640727 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
53640607 TATTAGAACT
* * *
53640617 AGAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
53640648 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53640679 AGAATCAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
53640710 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
53640728 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 59 0.84
32 11 0.16
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:53640900 original size:27 final size:26
Alignment explanation
Indices: 53640865--53640965 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
53640855 CTCAGTTATT
* * *
53640865 AGATGTTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
53640892 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
53640918 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAG-AAC
* *
53640946 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
53640966 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:53640991 original size:54 final size:54
Alignment explanation
Indices: 53640882--53640985 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
53640872 GTGACAGAGT
* * * **
53640882 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCATAGC
**
53640936 CACCAGAAACAGATAATGTGGCAAAGCCA-CTTAACAGA-ATACGTGGCATA
1 CACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCATA
53640986 AAGCCATCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 10 0.23
53 7 0.16
54 26 0.60
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (54 bp):
CACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCATAGC
Found at i:53641152 original size:22 final size:22
Alignment explanation
Indices: 53641124--53641188 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
53641114 GCAAATACGT
*
53641124 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
53641146 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
53641168 TTGACATAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
53641189 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:53641681 original size:27 final size:27
Alignment explanation
Indices: 53641622--53641815 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
53641612 GGGGCAAAAT
* * * *
53641622 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53641648 AGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53641675 GGCAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
53641701 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53641728 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
53641755 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
53641782 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
53641809 GGTAATT
1 GGTAATT
53641816 TTATAAACAA
Statistics
Matches: 148, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
26 37 0.25
27 111 0.75
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:53641831 original size:54 final size:53
Alignment explanation
Indices: 53641666--53641978 Score: 227
Period size: 54 Copynumber: 5.8 Consensus size: 53
53641656 CACCCTACAG
* * * ** *
53641666 GGGTATTTCGGCAATTCTACCTACAGGGGTATTTCGATAA--TTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTTTATAAAC-A-AA
* * *** *
53641719 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTAC-AG
1 GGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTTTA-TAAACAAA
*
53641773 GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTTTATAAACAAA
1 GGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTTTATAAACAAA
** * ** * * *
53641827 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTCTACCTA-CAGGGGTATTTCGGTAATTTTATAAACAAA
* * ** * * *
53641881 GGGTATTTTGGTAATTTTACAAACCAGGGGCATTTTGGTAATTTTATAAACCAA
1 GGGTATTTCGGTAATTCTACCTA-CAGGGGTATTTCGGTAATTTTATAAACAAA
** * ** *
53641935 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTCTACCTA-CAGGGGTATTTCGGTAATTT
53641979 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
53 22 0.10
54 200 0.89
56 1 0.00
57 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTTTATAAACAAA
Found at i:53641869 original size:81 final size:80
Alignment explanation
Indices: 53641662--53641942 Score: 239
Period size: 81 Copynumber: 3.5 Consensus size: 80
53641652 ATTCCACCCT
* * * ** *
53641662 ACAGGGGTATTTCGGCAATTCTACCTA-CAGGGGTATTTCGATAATTCTACCCTATAGGGGTATT
1 ACAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCGATAATTCTACCCTACAGGGGTATT
* **
53641726 TCGGTAATTCTACCCT
66 TCGGTAATTTTA-CAA
** * **
53641742 ACAGGGGTATTCCGGTAATTCTACCCTA-CAGGGGTATTTCGATAATTCTACCCTACAGGGGTAT
1 ACAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTCGATAATTCTACCCTACAGGGGTAT
*
53641806 TTCGGTAATTTTATAA
65 TTCGGTAATTTTACAA
* * * * * *
53641822 ACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACC-A-A-GGG
1 AC-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCGATAA--TTCT-ACCCTACAGGGG
*
53641884 TATTTTGGTAATTTTACAA
62 TATTTCGGTAATTTTACAA
* * *
53641903 ACCAGGGGCATTTTGGTAATTTTATAAACCAAGGGTATTT
1 A-CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
53641943 TAGTAATTTT
Statistics
Matches: 169, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
80 25 0.15
81 135 0.80
82 2 0.01
83 4 0.02
84 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (80 bp):
ACAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCGATAATTCTACCCTACAGGGGTATT
TCGGTAATTTTACAA
Found at i:53641985 original size:27 final size:27
Alignment explanation
Indices: 53641797--53641978 Score: 256
Period size: 27 Copynumber: 6.7 Consensus size: 27
53641787 TTCTACCCTA
*
53641797 CAGGGGTATTTCGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * * *
53641824 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
53641851 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
53641878 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
53641905 CAGGGGCATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * *
53641932 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
53641959 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
53641979 GGTAAACTAA
Statistics
Matches: 133, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:53641985 original size:54 final size:54
Alignment explanation
Indices: 53641797--53641978 Score: 319
Period size: 54 Copynumber: 3.4 Consensus size: 54
53641787 TTCTACCCTA
* *
53641797 CAGGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
* *
53641851 CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
53641905 CAGGGGCATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
53641959 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
53641979 GGTAAACTAA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
Found at i:53643494 original size:46 final size:44
Alignment explanation
Indices: 53643425--53643543 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 44
53643415 GTTATTTGTC
* *
53643425 TGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAGATG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATG
*
53643469 TAAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACAAGATG
1 T--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
* *
53643515 TGTCAGTGTAAGACCATGTCTAGGACATG
1 TGCCAGTGTAAGA-CATGTCTGGGACATG
53643544 GATTTGGCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 12 0.18
45 15 0.23
46 38 0.58
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
Found at i:53648112 original size:27 final size:27
Alignment explanation
Indices: 53648028--53648179 Score: 169
Period size: 27 Copynumber: 5.4 Consensus size: 27
53648018 GACGAGAATG
* * *
53648028 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
53648057 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
53648086 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
53648113 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
53648141 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
53648168 GCACTAAGTGTG
1 GCACTAAGTGTG
53648180 AGGATTCACT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 41 0.39
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:53653851 original size:42 final size:43
Alignment explanation
Indices: 53653743--53653855 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
53653733 AGCATATACA
* * * * *
53653743 ATGCCAACGTCCCAGACGTGGTCATACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACATAG
* * * * *
53653786 ATGCCATTGTCCCAGATAAGGTCTTACATGAAATCAGATA-AG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACATAG
53653828 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
53653856 CTCAAAATAG
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACATAG
Found at i:53668189 original size:27 final size:27
Alignment explanation
Indices: 53668158--53668276 Score: 106
Period size: 27 Copynumber: 4.6 Consensus size: 27
53668148 TTAGTTTACT
53668158 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
53668185 AAATTA-CTAGA-A----TGGCTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
53668206 AAATCACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
53668233 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
53668260 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
53668277 TCGACCTGTA
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
21 12 0.17
22 3 0.04
23 1 0.01
25 1 0.01
26 3 0.04
27 51 0.72
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:53668290 original size:27 final size:27
Alignment explanation
Indices: 53668228--53668320 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
53668218 TACCACTGGT
** *
53668228 TTGTAAAATTACCAAAATACCC-CTGAT
1 TTGTAAAATTACTGAAATACCCTC-GAC
*
53668255 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
* * *
53668282 CTGTAAAATTATTGAAATACCCTCAAC
1 TTGTAAAATTACTGAAATACCCTCGAC
53668309 TTGTAAAATTAC
1 TTGTAAAATTAC
53668321 CAAAGTATCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:53668345 original size:27 final size:27
Alignment explanation
Indices: 53668315--53668374 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
53668305 CAACTTGTAA
*
53668315 AATTACCAAAGTATCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTATAG
*** *
53668342 AATTACCATTTTACCCTCGATTTGTAG
1 AATTACCAAAGTACCCTCGATTTATAG
53668369 AATTAC
1 AATTAC
53668375 TGTTTTTCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTATAG
Found at i:53668380 original size:27 final size:27
Alignment explanation
Indices: 53668329--53668428 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
53668319 ACCAAAGTAT
*
53668329 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
53668356 CCTCGATTTGTAGAATTACTGTTTTTC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
53668383 CCTCAATTTACAAAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
53668410 CCTCGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
53668429 CGAAATACCC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACTATTTTAC
Found at i:53668460 original size:27 final size:27
Alignment explanation
Indices: 53668423--53668671 Score: 304
Period size: 27 Copynumber: 9.2 Consensus size: 27
53668413 CGATTTACAA
* *
53668423 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53668450 -ATATACTGAAATACCCCTGTAGGGTAG
1 AAT-TACTGAAATACCCCTGTAGGGTAG
* *
53668477 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53668504 AAATACTGAAATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53668531 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53668558 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53668585 AAATACCT-AAATACCCCTGTAGGATAG
1 AATTA-CTGAAATACCCCTGTAGGGTAG
* *
53668612 AATTACTGAAATACTCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
53668639 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
53668666 AATTAC
1 AATTAC
53668672 CATTTTGCCC
Statistics
Matches: 189, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
26 4 0.02
27 182 0.96
28 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53668492 original size:81 final size:81
Alignment explanation
Indices: 53668426--53668668 Score: 373
Period size: 81 Copynumber: 3.0 Consensus size: 81
53668416 TTTACAAAAT
*
53668426 TACCGAAATACCCTTGTAGGGTAG-ATATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATA
1 TACCGAAATACCCCTGTAGGGTAGAAT-TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATA
53668490 CCCTTGTAGGGTAGAAA
65 CCCTTGTAGGGTAGAAA
* * *
53668507 TACTGAAATACCCCTGTAGAGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
53668572 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * * * *
53668588 TACCTAAATACCCCTGTAGGATAGAATTACTGAAATACTCCTGTAAGGTAGAATTACCGAGATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
*
53668653 CCTTGTGGGGTA-AAA
66 CCTTGTAGGGTAGAAA
53668668 T
1 T
53668669 TACCATTTTG
Statistics
Matches: 148, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 4 0.03
81 142 0.96
82 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (81 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:53669106 original size:6 final size:6
Alignment explanation
Indices: 53669075--53669162 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
53669065 TTGCATTCCC
* *
53669075 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
53669124 -TCACCTA ATTCTA ATTCTG ATTCTG ATTTTG ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
53669163 CTAGTTCTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 3 0.05
6 56 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:53669113 original size:31 final size:31
Alignment explanation
Indices: 53669075--53669151 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
53669065 TTGCATTCCC
* * * *
53669075 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
*
53669106 ATTCTGATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
53669137 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
53669152 TTGATTCTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTA
Found at i:53670126 original size:18 final size:17
Alignment explanation
Indices: 53670099--53670132 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
53670089 TTTGTTTTCG
*
53670099 CAGTTTGTAGTCTTACTA
1 CAGTTCGTAGT-TTACTA
53670117 CAGTTCGTAGTTTACT
1 CAGTTCGTAGTTTACT
53670133 CTAACTAAAG
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:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (17 bp):
CAGTTCGTAGTTTACTA
Found at i:53675554 original size:40 final size:40
Alignment explanation
Indices: 53675499--53675660 Score: 218
Period size: 40 Copynumber: 4.0 Consensus size: 40
53675489 AATGATACCT
* * *
53675499 GGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCC
53675539 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
* *
53675579 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
* * ** *
53675619 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
53675659 GG
1 GG
53675661 TTAAATTCCG
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 107 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
Found at i:53678783 original size:47 final size:47
Alignment explanation
Indices: 53678730--53678890 Score: 295
Period size: 47 Copynumber: 3.4 Consensus size: 47
53678720 TTAGGATTTT
* *
53678730 ATGTGATGAATTTGAATATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
53678777 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53678824 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
53678871 ATGTGATGAATGTGAACATG
1 ATGTGATGAATGTGAACATG
53678891 TATATATGGC
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:53678900 original size:32 final size:32
Alignment explanation
Indices: 53678864--53678930 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
53678854 ATAAGGCCGA
53678864 ATGGCCAATGTGATGAATGTGAACATGTATAT
1 ATGGCCAATGTGATGAATGTGAACATGTATAT
53678896 ATGGCCAATGTGATGAATGTGAACATGTATAT
1 ATGGCCAATGTGATGAATGTGAACATGTATAT
53678928 ATG
1 ATG
53678931 TGGTAAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (32 bp):
ATGGCCAATGTGATGAATGTGAACATGTATAT
Found at i:53678977 original size:46 final size:46
Alignment explanation
Indices: 53678926--53679015 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
53678916 GAACATGTAT
* * *
53678926 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
53678972 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
53679016 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:53679023 original size:126 final size:125
Alignment explanation
Indices: 53678770--53679001 Score: 301
Period size: 126 Copynumber: 1.8 Consensus size: 125
53678760 ATAAGGCCGA
* * *
53678770 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 ATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGCGA-GAAT
* * *
53678835 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
65 GTGAACATGCATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
53678896 ATGGCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AATG
1 ATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGCGAGAATG
* *
53678960 TGTATGAGATAG-ATATGTG-G-TAAAGCCAAATGGCTAATGTGA
66 TG-A--ACAT-GCATATGTGTGATAAAGCCAAATGGCCAATGTGA
53679002 GATATGTATG
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
124 6 0.07
125 20 0.22
126 56 0.61
127 9 0.10
128 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (125 bp):
ATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGCGAGAATG
TGAACATGCATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGTATAT
Found at i:53687397 original size:24 final size:23
Alignment explanation
Indices: 53687370--53687414 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
53687360 GCAAGAAATA
53687370 TAAAAAAATTCAAAAATATATTTG
1 TAAAAAAATTCAAAAAT-TATTTG
53687394 TAAAAAAATTCAAAAATTATT
1 TAAAAAAATTCAAAAATTATT
53687415 AAAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAAAAAATTCAAAAATTATTTG
Found at i:53687437 original size:18 final size:18
Alignment explanation
Indices: 53687396--53687466 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
53687386 TATATTTGTA
53687396 AAAAAATTCA-AAAATTATT
1 AAAAAATT-ATAAAA-TATT
53687415 -AAAAATTATAAAATATT
1 AAAAAATTATAAAATATT
*
53687432 AAAAAATAATTGTAAAATATT
1 --AAAA-AATTATAAAATATT
*
53687453 AAAAAATAATAAAA
1 AAAAAATTATAAAA
53687467 ATACTTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
17 5 0.11
18 19 0.43
19 4 0.09
20 3 0.07
21 13 0.30
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAAAATTATAAAATATT
Found at i:53687447 original size:21 final size:21
Alignment explanation
Indices: 53687418--53687474 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
53687408 AATTATTAAA
53687418 AATTATAAAATATTAAAAAAT
1 AATTATAAAATATTAAAAAAT
*
53687439 AATTGTAAAATATTAAAAAAT
1 AATTATAAAATATTAAAAAAT
53687460 AA-TA-AAAATACTTAA
1 AATTATAAAATA-TTAA
53687475 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 22 0.67
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AATTATAAAATATTAAAAAAT
Found at i:53688665 original size:17 final size:18
Alignment explanation
Indices: 53688630--53688667 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
53688620 TTACTATTTA
53688630 TTTTTAAAAATTATAATT
1 TTTTTAAAAATTATAATT
* *
53688648 TTTTTAATAA-TATTATT
1 TTTTTAAAAATTATAATT
53688665 TTT
1 TTT
53688668 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTAAAAATTATAATT
Found at i:53689436 original size:15 final size:15
Alignment explanation
Indices: 53689416--53689450 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
53689406 GACTTTAAAG
*
53689416 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGAT
53689431 TTTAGGGTTTAGGAT
1 TTTAGGGTTTAGGAT
53689446 TTTAG
1 TTTAG
53689451 CTAACATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTAGGAT
Found at i:53693351 original size:74 final size:74
Alignment explanation
Indices: 53693227--53693376 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
53693217 CTTTTAGGGA
*
53693227 GAAAGATTACTTTCAATGCTATACTGAACATAATTACGATACTCTGAAAAACTAAAAGTCCTTTC
1 GAAAGATTACTTTCAATGCTATACTGAACATAATTACGATACTCTAAAAAACTAAAAGTCCTTTC
53693292 CAATTGATG
66 CAATTGATG
*
53693301 GAAAGATTACTTTCAATGCTATACTGAACATAATTATGATACTCTAAAAAACTAAAAGTCCTTTC
1 GAAAGATTACTTTCAATGCTATACTGAACATAATTACGATACTCTAAAAAACTAAAAGTCCTTTC
53693366 CAATTGATG
66 CAATTGATG
53693375 GA
1 GA
53693377 CCTGGAAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (74 bp):
GAAAGATTACTTTCAATGCTATACTGAACATAATTACGATACTCTAAAAAACTAAAAGTCCTTTC
CAATTGATG
Found at i:53695265 original size:28 final size:29
Alignment explanation
Indices: 53695229--53695293 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
53695219 AAGGTGATTT
* * *
53695229 TTGACAAAATTGTCAATT-AGGGATTAAA
1 TTGAGAAAAGTGTAAATTGAGGGATTAAA
*
53695257 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAGTGTAAATTGAGGGATTAAA
*
53695286 TTGTGAAA
1 TTGAGAAA
53695294 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (29 bp):
TTGAGAAAAGTGTAAATTGAGGGATTAAA
Found at i:53695826 original size:43 final size:44
Alignment explanation
Indices: 53695773--53695937 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 44
53695763 TCGAGTTGTA
*
53695773 ATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT-TGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTG
* * * *
53695816 ATTACGTGTAAGACCATGTCTAGGAGATTGGCATCGTATAT-TG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTG
* * *
53695859 ATT-CATGTAAGACCCTGTCTGGGATAGTGGCATTG-ATATGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTG
* * * *
53695901 ATAACATGTAAGACCATATCTAGGATA-TGGCATTGTA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
53695938 CGAGCTTATG
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.04
42 38 0.37
43 60 0.58
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.33
Consensus pattern (44 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTG
Found at i:53695923 original size:85 final size:84
Alignment explanation
Indices: 53695777--53695933 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 84
53695767 GTTGTAATTA
* * * * *
53695777 CATGTAAGACCATGTTTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATGTCTAGGAG
1 CATGTAAGACCATGTCTGGGACAGTGGCATTGTATTGTGATAACATGTAAGACCATATCTAGGAG
53695842 ATTGGCATCGTATATTGATT
66 A-TGGCATCGTATATTGATT
* *
53695862 CATGTAAGACCCTGTCTGGGATAGTGGCATTG-ATATGTGATAACATGTAAGACCATATCTAGGA
1 CATGTAAGACCATGTCTGGGACAGTGGCATTGTAT-TGTGATAACATGTAAGACCATATCTAGGA
*
53695926 TATGGCAT
65 GATGGCAT
53695934 TGTACGAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 8 0.13
85 55 0.87
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (84 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATTGTATTGTGATAACATGTAAGACCATATCTAGGAG
ATGGCATCGTATATTGATT
Found at i:53697006 original size:42 final size:42
Alignment explanation
Indices: 53696943--53697080 Score: 206
Period size: 42 Copynumber: 3.3 Consensus size: 42
53696933 GCCCTTTTTT
* **
53696943 CACACAGCTTGTGACACGGGCGTGTCTGGTAGCTATGTGAGG
1 CACACAGCCTGTGACACGGGCGTGTCTGGTAGCCGTGTGAGG
*
53696985 CACACAGCCTGTGACATGGGCGTGTCTGGTAGCCGTGTGAGG
1 CACACAGCCTGTGACACGGGCGTGTCTGGTAGCCGTGTGAGG
*
53697027 CACAC-GACCTGTGACACGGACGTGTCTGGTAGCCGTGTGAGG
1 CACACAG-CCTGTGACACGGGCGTGTCTGGTAGCCGTGTGAGG
*
53697069 CACACGGCCTGT
1 CACACAGCCTGT
53697081 TCACACTGGC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.36, T:0.21
Consensus pattern (42 bp):
CACACAGCCTGTGACACGGGCGTGTCTGGTAGCCGTGTGAGG
Found at i:53702773 original size:43 final size:43
Alignment explanation
Indices: 53702674--53702799 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 43
53702664 ATATTGTACA
* * * *
53702674 ATGCCAACGTCCCAGACAAGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AGAACACATACCG
*
53702717 ATGCC-ACTATCCCAGACAGGGTCTTACACGAGAACACATACCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAGAACACATACCG
* * * *
53702760 ATGCCAACGTCCCATAC-GTAGTCTTACACAAGAATACATA
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAGAACACATA
53702800 TTGAAAATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
42 4 0.06
43 63 0.91
44 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAGAACACATACCG
Found at i:53709400 original size:2 final size:2
Alignment explanation
Indices: 53709393--53709426 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53709383 TTCACAAGTT
53709393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53709427 CATAATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53712161 original size:40 final size:39
Alignment explanation
Indices: 53712106--53712351 Score: 266
Period size: 40 Copynumber: 6.2 Consensus size: 39
53712096 TGAATGATAC
* * *
53712106 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
**
53712146 CCGGGCTAAGACCCGAAGGCATACGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* *
53712186 CCGGGCTAAGACCCGAAGGCATTTGTGC-A-AGTTACCAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTA-TAT
*
53712224 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
53712264 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
53712304 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
53712344 CC-GGCTAA
1 CCGGGCTAA
53712352 ATTCCGAAGA
Statistics
Matches: 174, Mismatches: 23, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
37 4 0.02
38 30 0.17
39 8 0.05
40 125 0.72
41 6 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:53712244 original size:78 final size:78
Alignment explanation
Indices: 53712106--53712324 Score: 332
Period size: 78 Copynumber: 2.8 Consensus size: 78
53712096 TGAATGATAC
* * * *
53712106 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTA-TATCCGGGCTAAGACCCGAAGGCATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC-A-AG-TTACCATCCGGGCTAAGACCCGAAGGCATAC
53712170 GTGCGAGTTGTTATAT
63 GTGCGAGTTGTTATAT
*
53712186 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCATCCGGGCTAAGACCCGAAGGCATTCGTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCATCCGGGCTAAGACCCGAAGGCATACGTG
53712251 CGAGTTGTTATAT
66 CGAGTTGTTATAT
*
53712264 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC--ATCCGGGCTAAGACCCGAAGGCA
53712325 ATTGTGCTTG
Statistics
Matches: 130, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
77 3 0.02
78 78 0.60
79 1 0.01
80 48 0.37
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCATCCGGGCTAAGACCCGAAGGCATACGTG
CGAGTTGTTATAT
Found at i:53712314 original size:118 final size:118
Alignment explanation
Indices: 53712106--53712331 Score: 319
Period size: 118 Copynumber: 1.9 Consensus size: 118
53712096 TGAATGATAC
* * *
53712106 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATACG
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATACG
* *** * *
53712171 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAT
66 TGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAT
* **
53712224 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATAC
*
53712288 GTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGC
65 GTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTGTGC
53712332 TTGTGGTTAT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 92 0.98
119 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (118 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATACG
TGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAT
Found at i:53718967 original size:40 final size:40
Alignment explanation
Indices: 53718908--53719155 Score: 250
Period size: 40 Copynumber: 6.2 Consensus size: 40
53718898 TGAATGATAC
* * *
53718908 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* * *
53718948 CCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTATAT
* * ** *
53718988 CCGGGCTAAGACCCGAAGGAATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* *
53719028 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTATAT
* ** *
53719068 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* * * ** *
53719108 CCGGGTTAAGACCCGAAGGCAATTGGGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
53719148 CC-GGCTAA
1 CCGGGCTAA
53719156 ATTCCGAAGA
Statistics
Matches: 167, Mismatches: 37, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
39 7 0.04
40 157 0.94
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
Found at i:53719041 original size:80 final size:80
Alignment explanation
Indices: 53718908--53719128 Score: 334
Period size: 80 Copynumber: 2.8 Consensus size: 80
53718898 TGAATGATAC
* * * * ** * *
53718908 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCAAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCG
53718973 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* * *
53718988 CCGGGCTAAGACCCGAAGGAATTTGTGCAAGTTACCAAATTCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCG
53719053 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*
53719068 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCA
53719129 ATTGGGCTTG
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 127 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGTTATAT
Found at i:53719122 original size:120 final size:121
Alignment explanation
Indices: 53718909--53719131 Score: 324
Period size: 120 Copynumber: 1.9 Consensus size: 121
53718899 GAATGATACC
* *
53718909 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCAAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCAAAGGCATTCGT
* *** *
53718974 GCGAGTTGTTATATCCGGGCTAAGACCCGAAGG-AATTTGTGCAAGTTACCAAATT
66 GCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTTGTGCAAGTTACCAAATT
* * *
53719029 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCAAAGGCATTCG
*
53719093 TGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
65 TGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATT
53719132 GGGCTTGTGG
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
120 84 0.93
121 6 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (121 bp):
CGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCAAAGGCATTCGT
GCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTTGTGCAAGTTACCAAATT
Found at i:53719145 original size:80 final size:80
Alignment explanation
Indices: 53718908--53719155 Score: 329
Period size: 80 Copynumber: 3.1 Consensus size: 80
53718898 TGAATGATAC
* * * * ** * *
53718908 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCAAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATT-
53718972 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
* * *
53718988 CCGGGCTAAGACCCGAAGGAATTTGTGCAAGTTACCAAATTCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTG
53719053 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*
53719068 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTG
* ** *
53719133 GGCTTGTGGTTATAT
66 TGCGAGTTGTTATAT
53719148 CC-GGCTAA
1 CCGGGCTAA
53719156 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 6 0.04
80 140 0.95
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTTGTTATAT
Found at i:53725992 original size:39 final size:39
Alignment explanation
Indices: 53725949--53726046 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
53725939 TTGTGGATAC
*
53725949 CTGATAGCTTGTGTGAGCAGCCA-TGTAGCAACATCCTGA
1 CTGATAGCTTGTGTGAGCA-ACAGTGTAGCAACATCCTGA
* * *
53725988 CTGATAGCTTTTGTGAGCAATAGTGTAGCAACATCTTGA
1 CTGATAGCTTGTGTGAGCAACAGTGTAGCAACATCCTGA
*
53726027 CCGATAGCTTGTGTGAGCAA
1 CTGATAGCTTGTGTGAGCAA
53726047 ACCCGTGAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.02
39 51 0.98
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (39 bp):
CTGATAGCTTGTGTGAGCAACAGTGTAGCAACATCCTGA
Found at i:53731027 original size:28 final size:28
Alignment explanation
Indices: 53730987--53731050 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
53730977 TGGAAAGTAG
53730987 TTGGGCCTGATGGGCCATATGAATGCGA
1 TTGGGCCTGATGGGCCATATGAATGCGA
*
53731015 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGCGA
53731043 TTGGGCCT
1 TTGGGCCT
53731051 AAAGGGGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGCGA
Found at i:53731405 original size:27 final size:26
Alignment explanation
Indices: 53731367--53731705 Score: 346
Period size: 27 Copynumber: 12.7 Consensus size: 26
53731357 TAACAAAGAT
*
53731367 AAATTACTGAAATA-CCTGTGATTTGTA
1 AAATTAC-GAAATACCCT-CGATTTGTA
*
53731394 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
* *
53731421 AAATTGTCGAAATACCCTCGA-TTGTG
1 AAATT-ACGAAATACCCTCGATTTGTA
*
53731447 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
*
53731474 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTA-CGAAATACCCTCGATTTGTA
53731500 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
* *
53731527 AAATTATTGAAATACCCTCGATTCGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
*
53731554 AAATTACCAAAATACCCTCGATTATG--
1 AAATTA-CGAAATACCCTCGATT-TGTA
* *
53731580 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
* *
53731607 AAATTACCAAAATACCCTCGATTTGTG
1 AAATTA-CGAAATACCCTCGATTTGTA
*
53731634 AAATTAACGAAACACCCTCGATTTGTA
1 AAATT-ACGAAATACCCTCGATTTGTA
* * *
53731661 AAATTACTGAAACACCCCCAATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
*
53731688 AAATTATCAAAATACCCT
1 AAATTA-CGAAATACCCT
53731706 TGTAGTGTAA
Statistics
Matches: 267, Mismatches: 28, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
25 5 0.02
26 66 0.25
27 188 0.70
28 8 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTACGAAATACCCTCGATTTGTA
Found at i:53731461 original size:53 final size:53
Alignment explanation
Indices: 53731389--53731705 Score: 372
Period size: 53 Copynumber: 5.9 Consensus size: 53
53731379 TACCTGTGAT
* *
53731389 TTGTAAAATTA-TCGAAATACCCCCGATTTGTAAAATTGTCGAAATACCCTCGA
1 TTGTAAAATTACT-GAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGA
* * *
53731442 TTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGA
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGA
* *
53731495 TTGTGAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGA
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGA
** * *
53731548 TTCGTAAAATTACCAAAATACCCTCGATTATG--AAATTA-CTAAAATACCCTCAA
1 TT-GTAAAATTACTGAAATACCCTCGATT-TGTAAAATTATC-GAAATACCCTCGA
** * * *
53731601 TTTGTAAAATTACCAAAATACCCTCGATTTGTGAAATTAACGAAACACCCTCGA
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGA
* * * *
53731655 TTTGTAAAATTACTGAAACACCCCCAATTTGTAAAATTATCAAAATACCCT
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCT
53731706 TGTAGTGTAA
Statistics
Matches: 230, Mismatches: 26, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
52 2 0.01
53 141 0.61
54 84 0.37
55 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGA
Found at i:53731531 original size:80 final size:81
Alignment explanation
Indices: 53731367--53731693 Score: 405
Period size: 80 Copynumber: 4.1 Consensus size: 81
53731357 TAACAAAGAT
* * * *
53731367 AAATTACTGAAATA-CCTGTGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATT-GTCG
1 AAATTACTGAAATACCCT-CGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACT-G
* *
53731430 AAATACCCTCGA-TTGTG
64 AAATACCCTCAATTTGTA
* *
53731447 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGA-TTGTGAAATTACTGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAA
*
53731511 ATACCCTCGATTTGTA
66 ATACCCTCAATTTGTA
* * * *
53731527 AAATTATTGAAATACCCTCGATTCGTAAAATTACCAAAATACCCTCGATTATG--AAATTACTAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATT-TGTAAAATTACTGA
53731590 AATACCCTCAATTTGTA
65 AATACCCTCAATTTGTA
** * * *
53731607 AAATTACCAAAATACCCTCGATTTGTGAAATTAACGAAACACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAA
* *
53731672 ACACCCCCAATTTGTA
66 ATACCCTCAATTTGTA
53731688 AAATTA
1 AAATTA
53731694 TCAAAATACC
Statistics
Matches: 216, Mismatches: 24, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
79 24 0.11
80 156 0.72
81 34 0.16
82 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAA
ATACCCTCAATTTGTA
Found at i:53731714 original size:27 final size:27
Alignment explanation
Indices: 53731684--53731748 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
53731674 ACCCCCAATT
* * *
53731684 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCCTGTAG
* *
53731711 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCAAAATACCCCTGTAG
*
53731738 GGTAAAATGAC
1 TGTAAAATGAC
53731749 TATTTTGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
TGTAAAATGACCAAAATACCCCTGTAG
Found at i:53736377 original size:26 final size:26
Alignment explanation
Indices: 53736341--53736394 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
53736331 CAATATTGTG
53736341 TTAGCTTCTATGAAGAGTCATAACAA
1 TTAGCTTCTATGAAGAGTCATAACAA
*
53736367 TTAGCTTCTATGAAGAGTCGTAACAA
1 TTAGCTTCTATGAAGAGTCATAACAA
53736393 TT
1 TT
53736395 TAATTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (26 bp):
TTAGCTTCTATGAAGAGTCATAACAA
Found at i:53738058 original size:20 final size:21
Alignment explanation
Indices: 53738033--53738078 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
53738023 AAATGTAGAT
53738033 TAAAAAAT-AGATAAA-AACAC
1 TAAAAAATAAGATAAATAA-AC
53738053 TAAAAAATAAGATAAATAAAC
1 TAAAAAATAAGATAAATAAAC
53738074 TAAAA
1 TAAAA
53738079 CTTATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.33
21 14 0.58
22 2 0.08
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (21 bp):
TAAAAAATAAGATAAATAAAC
Found at i:53748280 original size:29 final size:29
Alignment explanation
Indices: 53748238--53748321 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
53748228 CCATATTTTT
**
53748238 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
53748267 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
53748296 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
53748322 TCTCGACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:53748280 original size:61 final size:58
Alignment explanation
Indices: 53748186--53748321 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 58
53748176 TACTCGATTT
** * * *
53748186 CGCACACTTAGTGCCACGTAATTTAAGCTCGCACACACAGTGCCATATTTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAATAATTTAAGCACGCACACACAGTGCCATA---TATTTCCAGCA
* * **
53748247 TGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATAATTT-AAGCACGCACACACAGTGCCATATATTTCCAGCA
53748305 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
53748322 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
58 25 0.39
60 4 0.06
61 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATAATTTAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:53756176 original size:29 final size:29
Alignment explanation
Indices: 53756134--53756217 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
53756124 CCATATTTTT
**
53756134 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
53756163 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
53756192 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
53756218 TCTCGACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:53756176 original size:61 final size:58
Alignment explanation
Indices: 53756082--53756217 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 58
53756072 TACTCGATTT
** * * *
53756082 CGCACACTTAGTGCCACGTAATTTAAGCTCGCACACACAGTGCCATATTTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAATAATTTAAGCACGCACACACAGTGCCATA---TATTTCCAGCA
* * **
53756143 TGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATAATTT-AAGCACGCACACACAGTGCCATATATTTCCAGCA
53756201 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
53756218 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
58 25 0.39
60 4 0.06
61 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATAATTTAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:53769859 original size:5 final size:5
Alignment explanation
Indices: 53769851--53769881 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
53769841 AAAATAAAAA
53769851 TAATT TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT TAATT T
53769882 GAAACCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:53774879 original size:11 final size:11
Alignment explanation
Indices: 53774865--53774899 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
53774855 AATTTCATTG
*
53774865 AAATTTTCTCA
1 AAATTTTATCA
53774876 AAATTTTATCA
1 AAATTTTATCA
*
53774887 AAATTCTATCA
1 AAATTTTATCA
53774898 AA
1 AA
53774900 TTTCTTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATTTTATCA
Found at i:53774898 original size:22 final size:22
Alignment explanation
Indices: 53774841--53774903 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 22
53774831 AATATTCCCT
*
53774841 TCAAAAATCTATC-AAATTTCA
1 TCAAAATTCTATCAAAATTTCA
** * * *
53774862 TTGAAATTTTCTCAAAATTTTA
1 TCAAAATTCTATCAAAATTTCA
53774884 TCAAAATTCTATC-AAATTTC
1 TCAAAATTCTATCAAAATTTC
53774904 TTTGTTTAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (22 bp):
TCAAAATTCTATCAAAATTTCA
Found at i:53775166 original size:48 final size:47
Alignment explanation
Indices: 53775037--53775168 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 47
53775027 AGTGATAATT
* *
53775037 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATT-GATATTTTTTTCATTTATGCAAATTTAA
*
53775085 TT-AAATTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAAATT-TAA
53775133 TTAAAATTTCAATACTGATTGACT-TTTTTTTCATTT
1 TTAAAATTTCAATACT-ATTGA-TATTTTTTTCATTT
53775169 TTGATGTTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
47 9 0.12
48 55 0.74
49 10 0.14
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.52
Consensus pattern (47 bp):
TTAAAATTTCAATACTATTGATATTTTTTTCATTTATGCAAATTTAA
Found at i:53776156 original size:7 final size:7
Alignment explanation
Indices: 53776144--53776220 Score: 154
Period size: 7 Copynumber: 11.0 Consensus size: 7
53776134 CATAATAAAA
53776144 TAGTATT
1 TAGTATT
53776151 TAGTATT
1 TAGTATT
53776158 TAGTATT
1 TAGTATT
53776165 TAGTATT
1 TAGTATT
53776172 TAGTATT
1 TAGTATT
53776179 TAGTATT
1 TAGTATT
53776186 TAGTATT
1 TAGTATT
53776193 TAGTATT
1 TAGTATT
53776200 TAGTATT
1 TAGTATT
53776207 TAGTATT
1 TAGTATT
53776214 TAGTATT
1 TAGTATT
53776221 ATGTATTATG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 70 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TAGTATT
Found at i:53776226 original size:7 final size:7
Alignment explanation
Indices: 53776216--53776240 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53776206 TTAGTATTTA
53776216 GTATTAT
1 GTATTAT
53776223 GTATTAT
1 GTATTAT
53776230 GTATTAT
1 GTATTAT
53776237 GTAT
1 GTAT
53776241 ATAAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:53780606 original size:126 final size:126
Alignment explanation
Indices: 53780364--53780743 Score: 555
Period size: 126 Copynumber: 3.0 Consensus size: 126
53780354 TTATAACCTC
* * * *
53780364 ATTTTTCTACAAAC-ACAGTAGCCAGAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
* *
53780428 ACAGTGCATCCTGCTTAAAGTGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
* * * *
53780489 ATTTTTCTATGAACTACTGTAGCAAAAGAGTGTCCACGTGGGATCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
53780554 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
* * *
53780615 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
* * ** * * * * *
53780680 ACAGTGCGTCCTGCTTGAAGCATTTTTTACACTAGTTGTTCAAAAACATCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
53780741 ATT
1 ATT
53780744 CTTGCAGAAA
Statistics
Matches: 228, Mismatches: 26, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
125 12 0.05
126 216 0.95
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
Found at i:53781310 original size:19 final size:19
Alignment explanation
Indices: 53781288--53781357 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
53781278 ACCATTATGT
53781288 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
*
53781307 ATCAATTAACCTTAAATTTA
1 ATCAATTAACCCTAAA-TTA
* *
53781327 ATCAA-T--CCTTAATTTA
1 ATCAATTAACCCTAAATTA
*
53781343 ATTAATTAACCCTAA
1 ATCAATTAACCCTAA
53781358 TACCCAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.16
17 7 0.16
19 21 0.49
20 8 0.19
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:53781519 original size:32 final size:32
Alignment explanation
Indices: 53781465--53781534 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
53781455 CCTAAAAAAC
53781465 CCTAAATCAATTAAATCCTTAAAAAACCCTAA
1 CCTAAATCAATTAAATCCTTAAAAAACCCTAA
* *
53781497 CCATAAATTAATT-AATCCTTAAAAAATCCTAA
1 CC-TAAATCAATTAAATCCTTAAAAAACCCTAA
53781529 CCTAAA
1 CCTAAA
53781535 AAAAGGGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 4 0.11
32 22 0.63
33 9 0.26
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (32 bp):
CCTAAATCAATTAAATCCTTAAAAAACCCTAA
Found at i:53784181 original size:17 final size:17
Alignment explanation
Indices: 53784161--53784204 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
53784151 ACTCTCAAAG
53784161 AAAAATTAAATTCTAAA
1 AAAAATTAAATTCTAAA
53784178 AAAAATTAAATTCTAAA
1 AAAAATTAAATTCTAAA
*
53784195 TAAAA-TAAAT
1 AAAAATTAAAT
53784205 AAAACTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATTAAATTCTAAA
Found at i:53786327 original size:24 final size:24
Alignment explanation
Indices: 53786300--53786347 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
53786290 TACAATATCA
*
53786300 TATTAGAGTAAATTATAGTTTTAT
1 TATTAGACTAAATTATAGTTTTAT
*
53786324 TATTAGTCTAAATTATAGTTTTAT
1 TATTAGACTAAATTATAGTTTTAT
53786348 ATAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
TATTAGACTAAATTATAGTTTTAT
Found at i:53789052 original size:61 final size:61
Alignment explanation
Indices: 53788957--53789077 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
53788947 TAATGTGAGG
* * *
53788957 TATCATATCAAATTCTAATTCAAGAGTATTCTTTCACATGAAACCAACCGTGGCGGCTTGT
1 TATCACATCAAATTCTAATTCAAGAGTATTCTTTCACATGAAACCAACCATGGAGGCTTGT
*
53789018 TATCACATCAATTTCTAATTCAAGAGTATTCTTTCACATGAAACCAACCATGGAGGCTTG
1 TATCACATCAAATTCTAATTCAAGAGTATTCTTTCACATGAAACCAACCATGGAGGCTTG
53789078 AAGATTAGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (61 bp):
TATCACATCAAATTCTAATTCAAGAGTATTCTTTCACATGAAACCAACCATGGAGGCTTGT
Found at i:53794006 original size:51 final size:51
Alignment explanation
Indices: 53793933--53794045 Score: 226
Period size: 51 Copynumber: 2.2 Consensus size: 51
53793923 AATAGGGGTT
53793933 ACACACCCGTGTGGTTTGGGACATGCCCGTGTGGGCAGGCCATGTGGTCAC
1 ACACACCCGTGTGGTTTGGGACATGCCCGTGTGGGCAGGCCATGTGGTCAC
53793984 ACACACCCGTGTGGTTTGGGACATGCCCGTGTGGGCAGGCCATGTGGTCAC
1 ACACACCCGTGTGGTTTGGGACATGCCCGTGTGGGCAGGCCATGTGGTCAC
53794035 ACACACCCGTG
1 ACACACCCGTG
53794046 CCCCTAACCC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (51 bp):
ACACACCCGTGTGGTTTGGGACATGCCCGTGTGGGCAGGCCATGTGGTCAC
Found at i:53804399 original size:28 final size:28
Alignment explanation
Indices: 53804334--53804434 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53804324 ATAGTGAATC
*
53804334 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
53804363 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53804391 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
53804421 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53804435 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53808132 original size:71 final size:71
Alignment explanation
Indices: 53808048--53808211 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53808038 CGATTTGTCT
53808048 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53808113 CTTTCA
66 CTTTCA
53808119 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53808184 CTTTCA
66 CTTTCA
53808190 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53808212 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:53808249 original size:71 final size:70
Alignment explanation
Indices: 53808048--53808245 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
53808038 CGATTTGTCT
* * * *
53808048 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53808113 CTTTCA
65 CTTTCA
* * * *
53808119 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53808184 CTTTCA
65 CTTTCA
* *
53808190 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
53808246 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53809587 original size:54 final size:54
Alignment explanation
Indices: 53809526--53809723 Score: 234
Period size: 54 Copynumber: 3.8 Consensus size: 54
53809516 GTAATTCATT
* * *
53809526 AATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATC
1 AATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTTATC
* *
53809580 AATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--
1 AATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTTATC
** *
53809626 AATGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTATCTTATAGAACTTATC
1 AATGCCATG--CCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTTATC
*
53809681 AATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
1 AATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTA
53809724 CCAAATGCCA
Statistics
Matches: 119, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
46 9 0.08
47 24 0.20
48 4 0.03
49 3 0.03
52 3 0.03
53 4 0.03
54 63 0.53
55 9 0.08
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (54 bp):
AATGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTTATC
Found at i:53809650 original size:47 final size:47
Alignment explanation
Indices: 53809595--53809795 Score: 235
Period size: 47 Copynumber: 4.1 Consensus size: 47
53809585 CATGCCTTGG
53809595 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * ***
53809642 CATGGTCTTACATGGTATCCTTATCTTATAGAACTTATCAATGCCATG--CCTTGG
1 CATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATGCCATGTTCC-AAA
53809696 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
53809743 CATGGTTTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
53809790 CATGGT
1 CATGGT
53809796 ATCCTTGTGT
Statistics
Matches: 130, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
46 9 0.07
47 74 0.57
48 4 0.03
49 3 0.02
52 3 0.02
53 4 0.03
54 24 0.18
55 9 0.07
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:53809715 original size:101 final size:101
Alignment explanation
Indices: 53809540--53809770 Score: 417
Period size: 101 Copynumber: 2.3 Consensus size: 101
53809530 CCATGTCTTG
* * *
53809540 ACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTATCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
53809605 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
53809641 ACATGGTCTTACATGGTATCCTTATCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTATCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
53809706 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
53809742 ACATGGTTTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTATCTTA
53809771 CCAAATGCCA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 125 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTATCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Done.