Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 9 of 25
Found at i:1415859 original size:43 final size:42
Alignment explanation
Indices: 1415715--1416557 Score: 208
Period size: 43 Copynumber: 19.8 Consensus size: 42
1415705 CATCCTTTGC
* * * * * * *
1415715 CTGCCCATCGGCTTAGACTTAGGAGACTTTTTTTGTTAATCGT
1 CTGCCCGTCAGCTTAGACCTGGGAGAC-TTCTTTATCAATCGT
* * * ** * *
1415758 CTGCTCGTCAACTTAAATTTGGGAGACTT-TTCCATCAATCAT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTCTT-TATCAATCGT
* *
1415800 CTGCACGTCAGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTT-CTTTATCAATCGT
* * * *
1415843 CTGCCCGTTAGTTTAGACCTGAGAGACTTCTTTTTCAATC-T
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTCTTTATCAATCGT
* * *
1415884 CTGCCCGTCGGCTTAGACCTAGGAGACTTTCTTTGTCAATCGT
1 CTGCCCGTCAGCTTAGACCTGGGAGAC-TTCTTTATCAATCGT
* * * **
1415927 CTGCCCGTCGGCTTAAACTCAT--GAGACTT-TTCCATCAATTAT
1 CTGCCCGTCAGCTTAGAC-C-TGGGAGACTTCTT-TATCAATCGT
* * * * ** * * * *
1415969 CTACCCATCGGCATAGACCCAGTAGATTTCTTTTTTCAATCAT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTC-TTTATCAATCGT
* * * ** *
1416012 CTGCCCATCGGCTCAGACCTGAAAGA-TGTCCTTTATCAATCAT
1 CTGCCCGTCAGCTTAGACCTGGGAGACT-T-CTTTATCAATCGT
* * ** * * * *
1416055 TTGCCCATTGGCTCA-AACTCGGGAGACTTCCTTTGTCAATCAT
1 CTGCCCGTCAGCTTAGACCT-GGGAGACTT-CTTTATCAATCGT
* ** * *** *
1416098 CTGCCCATTGGCTCAGACCCATGAGACTTTCTTTGTCAATCGT
1 CTGCCCGTCAGCTTAGACCTGGGAGAC-TTCTTTATCAATCGT
* *** ** * * * * * *
1416141 TTGCATATTGGC-AAAACC-GAGAGATTTCCTTTGTTAATCGT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTT-CTTTATCAATCGT
* * * * ** *
1416182 TTGCCCGTCGGGTCAGA-CTCAAGAGACCTAT-TTTGTCAATCG-
1 CTGCCCGTCAGCTTAGACCT-GGGAGA-CT-TCTTTATCAATCGT
** * * * *
1416224 CTTGTTCATTAGCTTAAACCTGGGAGACTTTTTTTATCAATCGT
1 C-TGCCCGTCAGCTTAGACCTGGGAGAC-TTCTTTATCAATCGT
* * * * * *
1416268 CTGCCCATCGGCTCAGA-CTCGAGAGACTTCCATTGTCAATCGT
1 CTGCCCGTCAGCTTAGACCT-GGGAGACTT-CTTTATCAATCGT
* * **
1416311 CTGTCCGTC-GACTCTA-TCCTAAGAGACTTCCTTTATCAATCGT
1 CTGCCCGTCAG-CT-TAGACCTGGGAGACTT-CTTTATCAATCGT
* * *
1416354 CTGCCCGTCGGCTTAGACCTGGAAGACTTCATTTGTCAATCGT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTC-TTTATCAATCGT
* * * * * * * *
1416397 CTACCCATCAGCTCAAACCCGAGAGACTT-TTTCATTAATCAT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTCTTT-ATCAATCGT
** * * *
1416439 CTGCCCACCGGCTTAGACTTGGGAGACTTCGTTTATCAATTGT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTC-TTTATCAATCGT
* * ** * *
1416482 CTCCCCATGGGCTTA-AACTCGGGAGACTTCTTTTGTCAATCGT
1 CTGCCCGTCAGCTTAGACCT-GGGAGACTTC-TTTATCAATCGT
* * * * *
1416525 CTGCCTGTCGGCTTTGACTTTGGAGACTTCTTT
1 CTGCCCGTCAGCTTAGACCTGGGAGACTTCTTT
1416558 GCCTTAAATC
Statistics
Matches: 600, Mismatches: 158, Indels: 85
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.00
41 55 0.09
42 132 0.22
43 385 0.64
44 24 0.04
45 2 0.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (42 bp):
CTGCCCGTCAGCTTAGACCTGGGAGACTTCTTTATCAATCGT
Found at i:1416032 original size:169 final size:171
Alignment explanation
Indices: 1415715--1416127 Score: 402
Period size: 169 Copynumber: 2.4 Consensus size: 171
1415705 CATCCTTTGC
* * * * ** * ***
1415715 CTGCCCATCGGCTTAGACTTAGGAGACTTTTTTTGTTAATCGTCTGCTCGTCAACTTAAATTTGG
1 CTGCCCATCGGCTTAGACCTAGGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAAACTCAT
* * * * *
1415780 GAGACTTTTCCATCAATCATCTGCACGTCAGCTTAGACCCGGGAGACTTCCTTTATCAATCGTCT
66 GAGACTTTTCCATCAATCATCTACACATCAGCATAGACCCAGGAGACTTCCTTTATCAATCATCT
* * * * * *
1415845 GCCCGTTAGTTTAGACCTGAGAGACT-T-CTTTTTCAATC-T
131 GCCCATCAGCTCAGACCTGAAAGA-TGTCCTTTATCAATCAT
*
1415884 CTGCCCGTCGGCTTAGACCTAGGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAAACTCAT
1 CTGCCCATCGGCTTAGACCTAGGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAAACTCAT
* * * * * * *
1415949 GAGACTTTTCCATCAATTATCTACCCATCGGCATAGACCCAGTAGATTTCTTTTTTCAATCATCT
66 GAGACTTTTCCATCAATCATCTACACATCAGCATAGACCCAGGAGACTTCCTTTATCAATCATCT
*
1416014 GCCCATCGGCTCAGACCTGAAAGATGTCCTTTATCAATCAT
131 GCCCATCAGCTCAGACCTGAAAGATGTCCTTTATCAATCAT
* * * * * * * * * * * *
1416055 TTGCCCATTGGCTCA-AACTCGGGAGACTTCCTTTGTCAATCATCTGCCCATTGGCTCAGACCCA
1 CTGCCCATCGGCTTAGACCT-AGGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAAACTCA
1416119 TGAGACTTT
65 TGAGACTTT
1416128 CTTTGTCAAT
Statistics
Matches: 197, Mismatches: 43, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
168 1 0.01
169 126 0.64
170 13 0.07
171 57 0.29
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (171 bp):
CTGCCCATCGGCTTAGACCTAGGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAAACTCAT
GAGACTTTTCCATCAATCATCTACACATCAGCATAGACCCAGGAGACTTCCTTTATCAATCATCT
GCCCATCAGCTCAGACCTGAAAGATGTCCTTTATCAATCAT
Found at i:1416422 original size:86 final size:84
Alignment explanation
Indices: 1415816--1416558 Score: 348
Period size: 86 Copynumber: 8.7 Consensus size: 84
1415806 GTCAGCTTAG
* ** * *
1415816 ACCCGGGAGACTTCCTTTATCAATCGTCTGCCCGTTAGTTTAGACCTGAGAGACTTCTTTTTCAA
1 ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCTGA-AGACTTCTTTGTCAA
* * *
1415881 TC-TCTGCCCGTCGGCTTAG
65 TCGTCTGCCCATCGGCTCAA
* * * * **
1415900 A-CCTAGGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAAACTCATG-AGACTT-TTCCAT
1 ACCCGA-GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGAC-C-TGAAGACTTCTT-TGT
** * *
1415962 CAATTATCTACCCATCGGCAT-AG
62 CAATCGTCTGCCCATCGGC-TCAA
* * * * * * *
1415985 ACCC-AGTAGATTTCTTTTTTCAATCATCTGCCCATCGGCTCAGACCTGAAAGA-TGTCCTTTAT
1 ACCCGAG-AGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCTG-AAGACT-T-CTTTGT
* * *
1416048 CAATCATTTGCCCATTGGCTCAA
62 CAATCGTCTGCCCATCGGCTCAA
* * * * * * *
1416071 ACTCGGGAGACTTCCTTTGTCAATCATCTGCCCATTGGCTCAGACCCATG-AGACTTTCTTTGTC
1 ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGA-CC-TGAAGAC-TTCTTTGTC
* ** *
1416135 AATCGTTTGCATATTGG--CAA
63 AATCGTCTGCCCATCGGCTCAA
* * * * * * * *
1416155 AACCGAGAGATTTCCTTTGTTAATCGTTTGCCCGTCGGGTCAGA-CTCAAGAGACCTAT-TTTGT
1 ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCT-GA-AGA-CT-TCTTTGT
** ** *
1416218 CAATCG-CTTGTTCATTAGCTTAA
62 CAATCGTC-TGCCCATCGGCTCAA
* * ** * * *
1416241 ACCTGGGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTCAGA-CTCGAGAGACTTCCATTGTC
1 ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCT-GA-AGACTT-CTTTGTC
* * * *
1416305 AATCGTCTGTCCGTCGACTCTA
63 AATCGTCTGCCCATCGGCTCAA
* **
1416327 TCCTAAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCTGGAAGACTTCATTTGTCA
1 ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCT-GAAGACTTC-TTTGTCA
* *
1416392 ATCGTCTACCCATCAGCTCAA
64 ATCGTCTGCCCATCGGCTCAA
* * ** * * *
1416413 ACCCGAGAGACTT--TTTCATTAATCATCTGCCCACCGGCTTAGACTTGGGAGACTTCGTTTATC
1 ACCCGAGAGACTTCCTTT-ATCAATCGTCTGCCCGTCGGCTTAGACCT-GAAGACTTC-TTTGTC
* * * *
1416476 AATTGTCTCCCCATGGGCTTAA
63 AATCGTCTGCCCATCGGCTCAA
* * * * * * * *
1416498 ACTCGGGAGACTTCTTTTGTCAATCGTCTGCCTGTCGGCTTTGACTTTGGAGACTTCTTTG
1 ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGAC-CTGAAGACTTCTTTG
1416559 CCTTAAATCT
Statistics
Matches: 508, Mismatches: 115, Indels: 71
0.73 0.17 0.10
Matches are distributed among these distances:
81 1 0.00
82 1 0.00
83 6 0.01
84 110 0.22
85 125 0.25
86 246 0.48
87 16 0.03
88 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (84 bp):
ACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCTGAAGACTTCTTTGTCAAT
CGTCTGCCCATCGGCTCAA
Found at i:1416630 original size:43 final size:43
Alignment explanation
Indices: 1416523--1416764 Score: 211
Period size: 43 Copynumber: 5.7 Consensus size: 43
1416513 TTTGTCAATC
* * * * * **
1416523 GTCTGCCTGTCGGCTTTGACTTTGGAGACTTCTTTGCC-TTAA
1 GTCTACCTGTCAGCTTTGACCTTAGAGACTTATTCACCTTTAA
* * *
1416565 ATCTACCTGTCGGCTTTGACCTTGGAGACTTATTC-CCTTTTAA
1 GTCTACCTGTCAGCTTTGACCTTAGAGACTTATTCACC-TTTAA
* *
1416608 GTCTACCTGTTAGCTTTAACCTTAGAGACTTATTCACCTTTAA
1 GTCTACCTGTCAGCTTTGACCTTAGAGACTTATTCACCTTTAA
* * * * *
1416651 GTTTTCTTGTCGGCTTTGACCCTAGAGACTTATTC-CTCTTTAA
1 GTCTACCTGTCAGCTTTGACCTTAGAGACTTATTCAC-CTTTAA
* * * * *
1416694 GTCTGCCTGTCAGCTTTGATCATGGAGACTTATTCACCATTAA
1 GTCTACCTGTCAGCTTTGACCTTAGAGACTTATTCACCTTTAA
* * * *
1416737 GTCTACTTGTCGGCTTAGACCTGAGAGA
1 GTCTACCTGTCAGCTTTGACCTTAGAGA
1416765 TTTTTCCATC
Statistics
Matches: 162, Mismatches: 33, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
41 2 0.01
42 31 0.19
43 126 0.78
44 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (43 bp):
GTCTACCTGTCAGCTTTGACCTTAGAGACTTATTCACCTTTAA
Found at i:1416764 original size:86 final size:84
Alignment explanation
Indices: 1416523--1416764 Score: 265
Period size: 86 Copynumber: 2.8 Consensus size: 84
1416513 TTTGTCAATC
* * ** * *
1416523 GTCTGCCTGTCGGCTTTGACTTTGGAGACTTCTTTGCCTTAAATCTACCTGTCGGCTTTGACCTT
1 GTCTGCCTGTCAGCTTTGAC-TTGGAGACTTATTCACCTTAAGTCTACTTGTCGGCTTTGACC-T
1416588 G-GAGACTTATTCCCTTTTAA
64 GAGAGACTTATTCCCTTTTAA
* * * * * *
1416608 GTCTACCTGTTAGCTTTAACCTTAGAGACTTATTCACCTTTAAGTTTTCTTGTCGGCTTTGACCC
1 GTCTGCCTGTCAGCTTTGA-CTTGGAGACTTATTCACC-TTAAGTCTACTTGTCGGCTTTGA-CC
1416673 T-AGAGACTTATT-CCTCTTTAA
63 TGAGAGACTTATTCCCT-TTTAA
* *
1416694 GTCTGCCTGTCAGCTTTGATCATGGAGACTTATTCACCATTAAGTCTACTTGTCGGCTTAGACCT
1 GTCTGCCTGTCAGCTTTGA-CTTGGAGACTTATTCACC-TTAAGTCTACTTGTCGGCTTTGACCT
1416759 GAGAGA
64 GAGAGA
1416765 TTTTTCCATC
Statistics
Matches: 129, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
85 34 0.26
86 93 0.72
87 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (84 bp):
GTCTGCCTGTCAGCTTTGACTTGGAGACTTATTCACCTTAAGTCTACTTGTCGGCTTTGACCTGA
GAGACTTATTCCCTTTTAA
Found at i:1416850 original size:43 final size:43
Alignment explanation
Indices: 1416803--1417113 Score: 158
Period size: 43 Copynumber: 7.3 Consensus size: 43
1416793 TTAGACCTAG
*
1416803 GAGACTTCTTTTTTTAATCGTCTGCCCGTCAGCTCAGACCCGA
1 GAGACTTCTTTTTTTAATCGTCTGCCCGTCGGCTCAGACCCGA
* * * * * *
1416846 GAGACTTCCTTTATCAATC-TACTACCTGTCGACTCAGACCCGA
1 GAGACTTCTTTTTTTAATCGT-CTGCCCGTCGGCTCAGACCCGA
* * ** * * *
1416889 GAGACTTCCTTTGTCT-ATCGT-TCGCTTGTCGTCTCTA-TCTC-A
1 GAGACTT-CTTTTTTTAATCGTCT-GCCCGTCGGCTC-AGACCCGA
* * * * * * *
1416931 GGAAACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACCCGG
1 -GAGACTTCTTTTTTTAATCGTCTGCCCGTCGGCTCAGACCCGA
* *
1416975 GAGACTT-TATTTATCT-ATCGTATGCCCGTCGGCTCAGACCCGA
1 GAGACTTCT-TTT-TTTAATCGTCTGCCCGTCGGCTCAGACCCGA
* * * *
1417018 GAGACTT-TTTCATCTT--TGGTCTGCCCGTCGGCTTAGACCCGG
1 GAGACTTCTTT--TTTTAATCGTCTGCCCGTCGGCTCAGACCCGA
* * * * * *
1417060 GAGAC-TCTTTTATCATTCCATCTGCCCGTCGGCTTAGACTCGA
1 GAGACTTCTTTTTTTAAT-CGTCTGCCCGTCGGCTCAGACCCGA
1417103 GAGACTTCTTT
1 GAGACTTCTTT
1417114 CACTTTTGTT
Statistics
Matches: 197, Mismatches: 52, Indels: 37
0.69 0.18 0.13
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 40 0.20
43 142 0.72
44 12 0.06
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.32
Consensus pattern (43 bp):
GAGACTTCTTTTTTTAATCGTCTGCCCGTCGGCTCAGACCCGA
Found at i:1417137 original size:85 final size:84
Alignment explanation
Indices: 1416951--1417322 Score: 276
Period size: 85 Copynumber: 4.4 Consensus size: 84
1416941 TTTGTCAATC
* * * * * *
1416951 GTCTGCCCATCAGCTCAGACCCGGGAGACTTTATTTATC-TATCGTATGCCCGTCGGCTCAGACC
1 GTCTGCCCATCAGCTTAGACCCGGGAGACTCT-TTTATCAT-TCATCTGCCCGTCGGCTTAGACT
*
1417015 CGAGAGACTT-TTTCATCTTTG
64 CGAGAGACTTCTTT-ATCTTTT
* *
1417036 GTCTGCCCGTCGGCTTAGACCCGGGAGACTCTTTTATCATTCCATCTGCCCGTCGGCTTAGACTC
1 GTCTGCCCATCAGCTTAGACCCGGGAGACTCTTTTATCATT-CATCTGCCCGTCGGCTTAGACTC
1417101 GAGAGACTTCTTTCA-CTTTT
65 GAGAGACTTCTTT-ATCTTTT
* * * **** * *
1417121 GTTTGCTCATCTGCTTAGACTTAAGAGACT-TTTTCATCCA-CCGTCTGCCCGTCGGCTTAGAC-
1 GTCTGCCCATCAGCTTAGACCCGGGAGACTCTTTT-AT-CATTCATCTGCCCGTCGGCTTAGACT
* * * *
1417183 CCAGGAGACTCCCTTTAT-TAATC
64 CGA-GAGACT-TCTTTATCT-TTT
* * * * ** *
1417206 ATCTGCCCGTCAGCTTAGACCCGAGAGACTCCTTTATCATTCATCTTTCCATCGGCTTAGACTCG
1 GTCTGCCCATCAGCTTAGACCCGGGAGACTCTTTTATCATTCATCTGCCCGTCGGCTTAGACTCG
**
1417271 -GAGACTTCCTTTATCAATT
66 AGAGACTT-CTTTATCTTTT
* * *
1417290 GTCTGCTCATCGGCTTAGACCCAGGAGAC-CTTT
1 GTCTGCCCATCAGCTTAGACCCGGGAGACTCTTT
1417323 GTTTTCATTA
Statistics
Matches: 225, Mismatches: 48, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
83 5 0.02
84 78 0.35
85 131 0.58
86 11 0.05
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (84 bp):
GTCTGCCCATCAGCTTAGACCCGGGAGACTCTTTTATCATTCATCTGCCCGTCGGCTTAGACTCG
AGAGACTTCTTTATCTTTT
Found at i:1417225 original size:43 final size:41
Alignment explanation
Indices: 1416938--1417318 Score: 183
Period size: 42 Copynumber: 9.0 Consensus size: 41
1416928 TCAGGAAACT
* * * *
1416938 TCCTTTGTCAATCGTCTGCCCATCAGCTCAGACCCGGGAGAC
1 TCCTTTATCAATCATCTGCCCATCGGCTTAGACCC-GGAGAC
** * * * * *
1416980 TTTATTTATCTATCGTATGCCCGTCGGCTCAGACCCGAGAGAC
1 -TCCTTTATCAATCATCTGCCCATCGGCTTAGACCCG-GAGAC
* ** ** *
1417023 T-TTTTCATCTTTGGTCTGCCCGTCGGCTTAGACCCGGGAGAC
1 TCCTTT-ATCAATCATCTGCCCATCGGCTTAGACCC-GGAGAC
* * * *
1417065 TCTTTTATCATTCCATCTGCCCGTCGGCTTAGACTCGAGAGAC
1 TCCTTTATCAAT-CATCTGCCCATCGGCTTAGACCCG-GAGAC
* ** ** * * * ***
1417108 TTCTTTCA-CTTTTGTTTGCTCATCTGCTTAGACTTAAGAGAC
1 TCCTTT-ATCAATCATCTGCCCATCGGCTTAGAC-CCGGAGAC
* * * * *
1417150 T-TTTTCATCCACCGTCTGCCCGTCGGCTTAGACCCAGGAGAC
1 TCCTTT-ATCAATCATCTGCCCATCGGCTTAGACCC-GGAGAC
* * *
1417192 TCCCTTTATTAATCATCTGCCCGTCAGCTTAGACCCGAGAGAC
1 T-CCTTTATCAATCATCTGCCCATCGGCTTAGACCCG-GAGAC
* ** *
1417235 TCCTTTATCATTCATCTTTCCATCGGCTTAGACTCGGAGAC
1 TCCTTTATCAATCATCTGCCCATCGGCTTAGACCCGGAGAC
** *
1417276 TTCCTTTATCAATTGTCTGCTCATCGGCTTAGACCCAGGAGAC
1 -TCCTTTATCAATCATCTGCCCATCGGCTTAGACCC-GGAGAC
1417319 CTTTGTTTTC
Statistics
Matches: 264, Mismatches: 59, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
41 13 0.05
42 140 0.53
43 107 0.41
44 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (41 bp):
TCCTTTATCAATCATCTGCCCATCGGCTTAGACCCGGAGAC
Found at i:1417264 original size:127 final size:126
Alignment explanation
Indices: 1417017--1417318 Score: 326
Period size: 127 Copynumber: 2.4 Consensus size: 126
1417007 CTCAGACCCG
** * * * *
1417017 AGAGACTTTTTCATCTTTGGTCTGCCCGTCGGCTTAGACCCGGGAGACTCTTTTATCATTCCATC
1 AGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGACCCAGGAGACTCCTTTATCAATCCATC
* * * * * *
1417082 TGCCCGTCGGCTTAGACTCGAGAGACTTCTTTCACTTTTGTTTGCTCATCTGCTTAGACTTA
66 TGCCCGTCAGCTTAGACCCGAGAGACTCCTTTCACTTATCTTTGCTCATCGGCTTAGAC-TA
* * *
1417144 AGAGACTTTTTCATCCACCGTCTGCCCGTCGGCTTAGACCCAGGAGACTCCCTTTATTAAT-CAT
1 AGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGACCCAGGAGACT-CCTTTATCAATCCAT
*
1417208 CTGCCCGTCAGCTTAGACCCGAGAGACTCCTTT-ATCATTCATCTTT-C-CATCGGCTTAGACTC
65 CTGCCCGTCAGCTTAGACCCGAGAGACTCCTTTCA-C-TT-ATCTTTGCTCATCGGCTTAGACTA
* * * *
1417270 GGAGACTTCCTTT-ATCAATTGTCTGCTCATCGGCTTAGACCCAGGAGAC
1 AGAGACTT--TTTCATCAATCGTCTGCCCGTCGGCTTAGACCCAGGAGAC
1417319 CTTTGTTTTC
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
126 9 0.06
127 121 0.82
128 14 0.09
129 4 0.03
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (126 bp):
AGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGACCCAGGAGACTCCTTTATCAATCCATC
TGCCCGTCAGCTTAGACCCGAGAGACTCCTTTCACTTATCTTTGCTCATCGGCTTAGACTA
Found at i:1417476 original size:43 final size:43
Alignment explanation
Indices: 1417348--1417490 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
1417338 TTGCCCATCT
* * * *
1417348 ACTCAGACTCGAGAGACTTCTTCATATCTTTATCTACCCATTG
1 ACTCAAACTCGAGAGACTTCTTCATCTCTTTATCTACCCGTCG
* * * *
1417391 GCTCAAACTAGGGAGACTTTTTCATCTCTTTATCTACCCGTCG
1 ACTCAAACTCGAGAGACTTCTTCATCTCTTTATCTACCCGTCG
* *
1417434 ACTCAAACTCGAGAGACTTCTTCATCTCTTTAAT-TGCTCGTCG
1 ACTCAAACTCGAGAGACTTCTTCATCTCTTT-ATCTACCCGTCG
*
1417477 ACTCAATCTCGAGA
1 ACTCAAACTCGAGA
1417491 ACTAACTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 82 0.98
44 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (43 bp):
ACTCAAACTCGAGAGACTTCTTCATCTCTTTATCTACCCGTCG
Found at i:1417888 original size:168 final size:167
Alignment explanation
Indices: 1417591--1417893 Score: 457
Period size: 168 Copynumber: 1.8 Consensus size: 167
1417581 CCTTCATCCA
* * * * *
1417591 TTGTTTACCCATTGACTTAGTCCTGGGTAAATCCTTTATCCTTCGTTGACTTATCAGTTTAATCC
1 TTGTGTACCCATTGACTCAGTCCTGGGTAAATCCTTTATCCCTCATTGACTCATCAGTTTAATCC
*
1417656 GATCAACTTTTTATCCTTCATTCACCTGTTGGCTTGGTCCCAAGTACTTCTTTTTATCTTTTATT
66 GATCAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCTTTTTATCTTTTATT
1417721 GACTTGTCAGTTCAATCTCGGTCAACTTCATTATCTT
131 GACTTGTCAGTTCAATCTCGGTCAACTTCATTATCTT
* ** *
1417758 TTGTGTACCCATTGGCTCAGTTTTGGGTAAATCGTTTATCCCTCATTGACTCATC-GATTTAATC
1 TTGTGTACCCATTGACTCAGTCCTGGGTAAATCCTTTATCCCTCATTGACTCATCAG-TTTAAT-
* *
1417822 CCGATTAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTT-TCTTTTATTTTTT
64 CCGATCAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCT-TTTTATCTTTT
1417886 ATTGACTT
128 ATTGACTT
1417894 ACTGATCCAA
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
166 1 0.01
167 53 0.44
168 67 0.55
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (167 bp):
TTGTGTACCCATTGACTCAGTCCTGGGTAAATCCTTTATCCCTCATTGACTCATCAGTTTAATCC
GATCAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCTTTTTATCTTTTATT
GACTTGTCAGTTCAATCTCGGTCAACTTCATTATCTT
Found at i:1417956 original size:168 final size:167
Alignment explanation
Indices: 1417596--1417965 Score: 424
Period size: 168 Copynumber: 2.2 Consensus size: 167
1417586 ATCCATTGTT
* * * *
1417596 TACCCATTGACTTAGTC-CTGGGTAAATCCTTTATCCTTCGTTGACTTATCAGTTTAATCCGATC
1 TACCCATCGACTTAGTCTC-GGGTAAATCCTTTATCCCTCATTGACTCATCAGTTTAATCCGATC
*
1417660 AACTTTTTATCCTTCATTCACCTGTTGGCTTGGTCCCAAGTACTTCTTTTTATCTTTTATTGACT
65 AACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCTTTTTATCTTTTATTGACT
* * * ** * *
1417725 TGTCAGTTCAATCTCGGTCAACTTCATTATCTTTTGTG
130 TCTCAGTCCAATCCCAATCAACTTCATTATCCTTTATG
* * * * * *
1417763 TACCCATTGGCTCAGTTTTGGGTAAATCGTTTATCCCTCATTGACTCATC-GATTTAATCCCGAT
1 TACCCATCGACTTAGTCTCGGGTAAATCCTTTATCCCTCATTGACTCATCAG-TTTAAT-CCGAT
* *
1417827 TAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTT-TCTTTTATTTTTTATTGA
64 CAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCT-TTTTATCTTTTATTGA
* * * *
1417891 CTTACTGA-TCCAATCCCAATCAATTTCTTTATCCTTTATT
128 CTT-CTCAGTCCAATCCCAATCAACTTCATTATCCTTTATG
** *
1417931 TACCGGTCGACTTAGTCTCGGGTAAATCTTTTATC
1 TACCCATCGACTTAGTCTCGGGTAAATCCTTTATC
1417966 AATTGTCGAC
Statistics
Matches: 168, Mismatches: 30, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
166 1 0.01
167 48 0.29
168 117 0.70
169 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (167 bp):
TACCCATCGACTTAGTCTCGGGTAAATCCTTTATCCCTCATTGACTCATCAGTTTAATCCGATCA
ACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCTTTTTATCTTTTATTGACTT
CTCAGTCCAATCCCAATCAACTTCATTATCCTTTATG
Found at i:1419677 original size:169 final size:167
Alignment explanation
Indices: 1419257--1419726 Score: 594
Period size: 166 Copynumber: 2.8 Consensus size: 167
1419247 AAATAACGAG
* * * *
1419257 GTTTTCTT-CTCCGTAA-TTTTTTCGGGAGGATTTTTCTTA-ATTTTAAATTTTTGAAATTTATC
1 GTTTT-TTACTCCGTAATTTTTTTCGAG-GGATTTTTC-TAGATTTTCAATTTTTAAAATTCATC
* * * * *
1419319 AAATATTATTATTTATTTTATATTAAATTAGTTTTCAAAAATTAATTTATTTTCATGAGTTTTTT
63 AAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTG
* * *
1419384 ATTTTTTTCCTTGAAATTTCTCTTTTTTCTAAAATATAGT
128 AATTTTTTCCTTGAAATTCCTCTTTTTTCCAAAATATAGT
* * *** *
1419424 G-TTTTCATTTTATAATTTTTTTTCGA-GGATTTTTCTAGGTTTTCAATTTTTAAAATTCATCAA
1 GTTTTTTACTCCGTAA-TTTTTTTCGAGGGATTTTTCTAGATTTTCAATTTTTAAAATTCATCAA
*
1419487 ATATTATCATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAA
65 ATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAA
* *
1419552 TTTGTTTCCTTGAAATTCCTTTTTTTTCCAAAATATGGT
130 TTT-TTTCCTTGAAATTCCTCTTTTTTCCAAAATATAGT
1419591 GTTTTTTACTCCGTAATTTTTTTCGAGGTGATTTTT-TGAGATTTTCAATTTTTAAAATTCATCA
1 GTTTTTTACTCCGTAATTTTTTTCGAGG-GATTTTTCT-AGATTTTCAATTTTTAAAATTCATCA
* ** * *
1419655 AACAACATTATTTATTTCATATTAATTCAGTTTTC-AAAATTCATTCATCTTCATGAGTTTTTGA
64 AATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGA
1419719 ATTTTTTC
129 ATTTTTTC
1419727 TTTTAAATCT
Statistics
Matches: 261, Mismatches: 33, Indels: 18
0.84 0.11 0.06
Matches are distributed among these distances:
165 3 0.01
166 98 0.38
167 47 0.18
168 51 0.20
169 62 0.24
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (167 bp):
GTTTTTTACTCCGTAATTTTTTTCGAGGGATTTTTCTAGATTTTCAATTTTTAAAATTCATCAAA
TATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAAT
TTTTTCCTTGAAATTCCTCTTTTTTCCAAAATATAGT
Found at i:1420331 original size:20 final size:21
Alignment explanation
Indices: 1420275--1420331 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
1420265 TGGTTCAGCT
* *
1420275 AAAAAAGAGAGAGAAAAGATGA
1 AAAAAATAG-GAGAAATGATGA
1420297 AAAAAATAGGA-AAATGAT-A
1 AAAAAATAGGAGAAATGATGA
1420316 AAAATAA-AGGAGAAAT
1 AAAA-AATAGGAGAAAT
1420332 TGGAGACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 9 0.29
20 12 0.39
21 2 0.06
22 8 0.26
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (21 bp):
AAAAAATAGGAGAAATGATGA
Found at i:1420482 original size:10 final size:10
Alignment explanation
Indices: 1420444--1420474 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1420434 AAAAGAAGGG
1420444 AGAAAAAAAA
1 AGAAAAAAAA
*
1420454 AGAAAAAAAG
1 AGAAAAAAAA
1420464 AGAAAAAAAA
1 AGAAAAAAAA
1420474 A
1 A
1420475 TAAGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:1422005 original size:18 final size:18
Alignment explanation
Indices: 1421982--1422017 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1421972 GTCACCGAGT
1421982 CCGCGTTTATGCCGAAGA
1 CCGCGTTTATGCCGAAGA
1422000 CCGCGTTTATGCCGAAGA
1 CCGCGTTTATGCCGAAGA
1422018 TGGGCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (18 bp):
CCGCGTTTATGCCGAAGA
Found at i:1422379 original size:160 final size:157
Alignment explanation
Indices: 1422005--1422391 Score: 454
Period size: 158 Copynumber: 2.4 Consensus size: 157
1421995 GAAGACCGCG
* * * * * *
1422005 TTTATGCCGAAGATGGGCATTTAGGATAGATTCATCCCTTTTATAGTCCATTTTAAGTCTTTTAG
1 TTTATGCAGAAGATGGGTATTTAGGATAGGTTCA-CCCTTTTATAGTCCTTTTTAAGTCCTTTAA
* * * * * *
1422070 GGGTATTGGGATACTTTAACGTTGAAGGTATCCCCTAGGGTCATTTTCGTAACTTTTTTTACAAC
65 GGGTATCGGGATACTTTAACATCGAAAGTATCCCCTAGGGGCATTTTCATAACTTTTTTTACAAC
* * * * *
1422135 TAACTCCTAGGTCGTCATCGGGTCCGTT
130 CAACTCCTAGGTCATCACCGAGTCCGGT
* * * *
1422163 TTTATACCA-AAGGTGGGTATTTAAGATAGGTTCACCTCTTTTATAGTCATTTTTAAGTCCTTTA
1 TTTAT-GCAGAAGATGGGTATTTAGGATAGGTTCACC-CTTTTATAGTCCTTTTTAAGTCCTTTA
* * *
1422227 AGGGTATCGGGATACTTTAACATCGAAAGTATCCCCTAGGGGCATTTTTATAATTTTTTTTTTAG
64 AGGGTATCGGGATACTTTAACATCGAAAGTATCCCCTAGGGGCATTTTCATAA--CTTTTTTTAC
*
1422292 AACCAACTCCTAGGTCATCACCGAGTCTGGT
127 AACCAACTCCTAGGTCATCACCGAGTCCGGT
* * *
1422323 TTTATGCAGAAAATGGGTATTTAGGATAGGTTCACCGCTTTTAAAGTCCTTTTTAAGT-CTTTTA
1 TTTATGCAGAAGATGGGTATTTAGGATAGGTTCACC-CTTTTATAGTCCTTTTTAAGTCCTTTAA
1422387 GGGTA
65 GGGTA
1422392 CCGCAACGTC
Statistics
Matches: 191, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
157 2 0.01
158 95 0.50
159 13 0.07
160 81 0.42
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (157 bp):
TTTATGCAGAAGATGGGTATTTAGGATAGGTTCACCCTTTTATAGTCCTTTTTAAGTCCTTTAAG
GGTATCGGGATACTTTAACATCGAAAGTATCCCCTAGGGGCATTTTCATAACTTTTTTTACAACC
AACTCCTAGGTCATCACCGAGTCCGGT
Found at i:1422656 original size:155 final size:155
Alignment explanation
Indices: 1422454--1423157 Score: 750
Period size: 156 Copynumber: 4.5 Consensus size: 155
1422444 CTCTTAGGTC
* * * * *
1422454 ATCACCGGGTCCGTTTTTAT-TCCGAAGGTAGGCATTTATGATTGGTTCATCACATTTCTAGTCT
1 ATCACCGGGTCTGCTTTTATGT-CGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCT
* * ** * * *
1422518 TTTTAAGTCTTTTAGGGTTGCTGGGAT-TTTTTTTGTCAAAGGTATACCAATAGGGGCATTTTCG
65 TTTTAAGTCCTTTAGGGTTGCTGGGATACTTTTACGTCAAAAGTATACCCATAGGGGCATTTTCA
*
1422582 TATTTTTTAAAAACCGAGTCCTAAGCT
130 TATTTCTT-AAAACCGAGTCCTAAGCT
* ** * *
1422609 ATCATCGGGTCCACTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTTGTCCT
1 ATCACCGGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTT
** * * * *
1422674 TTTAAGTCCTTTAGGGTTGCTGGGATTTTTTTCCGTCAAAGGTATACCCATAAGCGCATTTTCAT
66 TTTAAGTCCTTTAGGGTTGCTGGGATACTTTTACGTCAAAAGTATACCCATAGGGGCATTTTCAT
* * * *
1422739 ACTTTCTTAGAATCGAATCCTAGGCT
131 A-TTTCTTAAAACCGAGTCCTAAGCT
* * * ** * *
1422765 ATCATCGGGTTTGCTTTTTTACCGAAGGTGGGTATTTAGGATAGGTTCATCGCATTTCTAGTCTT
1 ATCACCGGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTT
* *
1422830 TTTAAGTCCTTTAGGGTTGCCGGGATACTTTTACGTGAAAAGTATACCCATAGGGGCATTTTCAT
66 TTTAAGTCCTTTAGGGTTGCTGGGATACTTTTACGTCAAAAGTATACCCATAGGGGCATTTTCAT
* * * *
1422895 ATTTTCCTAAAACTGAGTCTTAAGTT
131 A-TTTCTTAAAACCGAGTCCTAAGCT
* * * *
1422921 ATCACCGGGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCGCTTTTCTAGTCAT
1 ATCACCGGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTT
** * * * *
1422986 TTT-AGGACTTTCAAGGTTGCCAGGG-TACTTTTATGTCAAAAGTATACCTATAGGGGCATTTTC
66 TTTAAGTCCTTT-AGGGTTG-CTGGGATACTTTTACGTCAAAAGTATACCCATAGGGGCATTTTC
* * * *
1423049 ATAATTTCTTAAAATCGAGTGCTAGGTT
129 AT-ATTTCTTAAAACCGAGTCCTAAGCT
* * * * * * *
1423077 GTCACCGAGTTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGTTTCATCCCATCTCTAGTCTT
1 ATCACCGGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTT
*
1423142 TCTAAGTCCTTTAGGG
66 TTTAAGTCCTTTAGGG
1423158 GTATCGGGTA
Statistics
Matches: 461, Mismatches: 81, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
155 86 0.19
156 359 0.78
157 16 0.03
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (155 bp):
ATCACCGGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTT
TTTAAGTCCTTTAGGGTTGCTGGGATACTTTTACGTCAAAAGTATACCCATAGGGGCATTTTCAT
ATTTCTTAAAACCGAGTCCTAAGCT
Found at i:1422970 original size:312 final size:311
Alignment explanation
Indices: 1422468--1423157 Score: 848
Period size: 312 Copynumber: 2.2 Consensus size: 311
1422458 CCGGGTCCGT
* * * * *
1422468 TTTTATTCCGAAGGTAGGCATTTATGATTGGTTCATCACATTTCTAGTCTTTTTAAGTCTTTTAG
1 TTTTATACCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTTTTTAAGTCCTTTAG
* * ** * * *
1422533 GGTTGCTGGGATTTTTTTTGTCAAAGGTATACCAATAGGGGCATTTTCGTATTTTTTAAAAACCG
66 GGTTGCCGGGATCTTTTACGTCAAAAGTATACCAATAGGGGCATTTTCATATTTTCTAAAAACCG
*
1422598 AGTCCTAAGCTATCATCGGGTCCACTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACA
131 AGTCCTAAGCTATCACCGGGTCCACTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACA
* * ** * * * * *
1422663 TTTCTTGTCCTTTTAAGTCCTTT-AGGGTTG-CTGGG-ATTTTTTTCCGTCAAAGGTATACCCAT
196 TTTCTAGTCATTTT-AGGACTTTCAAGGTTGCCAGGGTACTTTTAT--GTCAAAAGTATACCCAT
* * * *
1422725 AAGCGCATTTTCATACTTTCTTAGAATCGAATCCTAGGCTATCATCGGGTTTGC
258 AAGCGCATTTTCATAATTTCTTAAAATCGAATCCTAGGCTATCACCGAGTTTGC
* * *
1422779 TTTTTTACCGAAGGTGGGTATTTAGGATAGGTTCATCGCATTTCTAGTCTTTTTAAGTCCTTTAG
1 TTTTATACCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTTTTTAAGTCCTTTAG
* *
1422844 GGTTGCCGGGATACTTTTACGTGAAAAGTATACCCATAGGGGCATTTTCATATTTTCCT-AAAAC
66 GGTTGCCGGGAT-CTTTTACGTCAAAAGTATACCAATAGGGGCATTTTCATATTTT-CTAAAAAC
* * * ** * *
1422908 TGAGTCTTAAGTTATCACCGGGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCG
129 CGAGTCCTAAGCTATCACCGGGTCCACTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCA
* *
1422973 CTTTTCTAGTCATTTTAGGACTTTCAAGGTTGCCAGGGTACTTTTATGTCAAAAGTATACCTATA
194 CATTTCTAGTCATTTTAGGACTTTCAAGGTTGCCAGGGTACTTTTATGTCAAAAGTATACCCATA
* * * * * *
1423038 GGGGCATTTTCATAATTTCTTAAAATCGAGTGCTAGGTTGTCACCGAGTTTGC
259 AGCGCATTTTCATAATTTCTTAAAATCGAATCCTAGGCTATCACCGAGTTTGC
* * * * *
1423091 TTTTATGCCGAAGGTGGGCATTTAGGATAGTTTCATCCCATCTCTAGTCTTTCTAAGTCCTTTAG
1 TTTTATACCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTTTTTAAGTCCTTTAG
1423156 GG
66 GG
1423158 GTATCGGGTA
Statistics
Matches: 321, Mismatches: 53, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
311 74 0.23
312 236 0.74
313 5 0.02
314 6 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (311 bp):
TTTTATACCGAAGGTGGGCATTTAGGATAGGTTCATCACATTTCTAGTCTTTTTAAGTCCTTTAG
GGTTGCCGGGATCTTTTACGTCAAAAGTATACCAATAGGGGCATTTTCATATTTTCTAAAAACCG
AGTCCTAAGCTATCACCGGGTCCACTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACA
TTTCTAGTCATTTTAGGACTTTCAAGGTTGCCAGGGTACTTTTATGTCAAAAGTATACCCATAAG
CGCATTTTCATAATTTCTTAAAATCGAATCCTAGGCTATCACCGAGTTTGC
Found at i:1429283 original size:13 final size:13
Alignment explanation
Indices: 1429265--1429290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1429255 CAATTTTTTG
1429265 TGTATCGATACAT
1 TGTATCGATACAT
1429278 TGTATCGATACAT
1 TGTATCGATACAT
1429291 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1431850 original size:13 final size:13
Alignment explanation
Indices: 1431832--1431870 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1431822 ATAATCACCC
*
1431832 TGTATCGATACAG
1 TGTATCGATACAA
1431845 TGTATCGATACAA
1 TGTATCGATACAA
1431858 TGTATCGATACAA
1 TGTATCGATACAA
1431871 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1431881 original size:20 final size:20
Alignment explanation
Indices: 1431856--1431934 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1431846 GTATCGATAC
1431856 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1431876 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1431901 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1431921 CATGTATCGATACA
1 AATGTATCGATACA
1431935 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1435804 original size:21 final size:21
Alignment explanation
Indices: 1435775--1435819 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1435765 AAGTTTTCAT
*
1435775 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1435795 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1435817 TTT
1 TTT
1435820 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1436345 original size:20 final size:20
Alignment explanation
Indices: 1436322--1436394 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1436312 ACAATTCAAA
1436322 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1436342 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1436363 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1436383 GTATCGATACAT
1 GTATCGATACAT
1436395 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1436366 original size:21 final size:21
Alignment explanation
Indices: 1436340--1436415 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1436330 ACATGTTGCA
1436340 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1436361 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1436381 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1436402 ATGTATCGATACAT
1 ATGTATCGATACAT
1436416 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1436373 original size:41 final size:41
Alignment explanation
Indices: 1436322--1436415 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1436312 ACAATTCAAA
*
1436322 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1436363 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1436404 GTATCGATACAT
1 GTATCGATACAT
1436416 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1436472 original size:13 final size:13
Alignment explanation
Indices: 1436454--1436479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1436444 TACAGAAAGT
1436454 ATGTATCGATACA
1 ATGTATCGATACA
1436467 ATGTATCGATACA
1 ATGTATCGATACA
1436480 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1436477 original size:32 final size:32
Alignment explanation
Indices: 1436436--1436498 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1436426 TAGCCAAACT
* *
1436436 TGTATCGATACA-GAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
1436468 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
1436499 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:1438668 original size:20 final size:21
Alignment explanation
Indices: 1438645--1438684 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1438635 AATAATTCTT
* *
1438645 TTAGAA-ATAAAATAAATGAA
1 TTAGAAGAGAAAAGAAATGAA
1438665 TTAGAAGAGAAAAGAAATGA
1 TTAGAAGAGAAAAGAAATGA
1438685 GTTGCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
TTAGAAGAGAAAAGAAATGAA
Found at i:1440238 original size:13 final size:13
Alignment explanation
Indices: 1440220--1440244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1440210 TTTTCCAAAT
1440220 TGTATCGATACAA
1 TGTATCGATACAA
1440233 TGTATCGATACA
1 TGTATCGATACA
1440245 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1441231 original size:38 final size:38
Alignment explanation
Indices: 1441189--1441278 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
1441179 ACGGGGGAGA
1441189 TAAAGGGGAGAATGCGTAAATTGCTAAAATTACCTTAT
1 TAAAGGGGAGAATGCGTAAATTGCTAAAATTACCTTAT
1441227 TAAAGGGGAGAATGCGTAAATTGCTAAAATTACCTTAT
1 TAAAGGGGAGAATGCGTAAATTGCTAAAATTACCTTAT
*
1441265 TAAGGGGGAGAATG
1 TAAAGGGGAGAATG
1441279 TACAAACTCG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.27
Consensus pattern (38 bp):
TAAAGGGGAGAATGCGTAAATTGCTAAAATTACCTTAT
Found at i:1441866 original size:20 final size:20
Alignment explanation
Indices: 1441843--1441915 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1441833 ACAATTCAAA
1441843 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1441863 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1441884 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1441904 GTATCGATACAT
1 GTATCGATACAT
1441916 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1441887 original size:21 final size:21
Alignment explanation
Indices: 1441861--1441936 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1441851 ACATGTTGCA
1441861 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1441882 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1441902 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1441923 ATGTATCGATACAT
1 ATGTATCGATACAT
1441937 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1441894 original size:41 final size:41
Alignment explanation
Indices: 1441843--1441936 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1441833 ACAATTCAAA
*
1441843 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1441884 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1441925 GTATCGATACAT
1 GTATCGATACAT
1441937 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1441993 original size:13 final size:13
Alignment explanation
Indices: 1441975--1442000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1441965 TACAGAAAGT
1441975 ATGTATCGATACA
1 ATGTATCGATACA
1441988 ATGTATCGATACA
1 ATGTATCGATACA
1442001 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1441998 original size:32 final size:32
Alignment explanation
Indices: 1441957--1442019 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1441947 TAGCCAAACT
* *
1441957 TGTATCGATACA-GAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
1441989 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
1442020 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:1444801 original size:13 final size:13
Alignment explanation
Indices: 1444783--1444808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1444773 CAATTTTTTG
1444783 TGTATCGATACAT
1 TGTATCGATACAT
1444796 TGTATCGATACAT
1 TGTATCGATACAT
1444809 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1444873 original size:21 final size:21
Alignment explanation
Indices: 1444847--1444922 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1444837 CTGCCAAGAA
1444847 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1444868 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1444888 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
1444909 AAGTATCGATACAT
1 ATGTATCGATACAT
1444923 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1444892 original size:20 final size:20
Alignment explanation
Indices: 1444867--1444940 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1444857 ACATCTTTTT
1444867 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1444887 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
1444908 CAAGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1444928 CATGTATCGATAC
1 CATGTATCGATAC
1444941 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1444904 original size:41 final size:41
Alignment explanation
Indices: 1444847--1444940 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1444837 CTGCCAAGAA
*
1444847 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCAAGTATCGATACATTGCAAC
1444888 ATGTATCGATACATCTTTTTCAAGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCAAGTATCGATACATTGCAAC
1444929 ATGTATCGATAC
1 ATGTATCGATAC
1444941 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCAAGTATCGATACATTGCAAC
Found at i:1445602 original size:168 final size:166
Alignment explanation
Indices: 1445299--1445739 Score: 679
Period size: 168 Copynumber: 2.6 Consensus size: 166
1445289 ACTATTTTTG
* * * *
1445299 AAATATAGAG-TTTTCTACTCCATAAATGTTTTCTGAA-GGATTTTTCTTAGTTTATAATTTTTA
1 AAATACAGAGTTTTTC-ACTCCATAAATGTTTTC-AAAGGGATTTTTCTTGGTTTTTAA-TTTTA
* * *
1445362 AAATTCATCACATATTATTATTTAATTGATATTAAATCTGTTTTCAAAATTTCATTCATTTTCTT
63 AAATTCATCAAATATCATAATTTAATTGATATTAAATCTGTTTTCAAAATTTCATTCATTTTCTT
* *
1445427 AAGTTTTTTGTTTTTTTCTTTAAATTCTCTTTATTTTCA
128 AAGTTTTTTGTTTTTTTCTTGAAATTCTCTTCATTTTCA
*
1445466 AAATACAGAGTTTTTCACTCCGTAAATGTTTTCAAAGGGATTTTTCTTGGTTTTTAATTTTAAAA
1 AAATACAGAGTTTTTCACTCCATAAATGTTTTCAAAGGGATTTTTCTTGGTTTTTAATTTT-AAA
*
1445531 ATTCATCAAATATCATAATTTTAATTGATATTAAATCTGTTTTCAAAATTTCATTCATTTTCTTG
65 ATTCATCAAATATCATAA-TTTAATTGATATTAAATCTGTTTTCAAAATTTCATTCATTTTCTTA
1445596 AGTTTTTTGTTTTTTTCTTGAAATTCTCTTCATTTTCA
129 AGTTTTTTGTTTTTTTCTTGAAATTCTCTTCATTTTCA
*
1445634 AAATACAGAGTTTTTCATTCCATAAATGTTTTCAAAGGGATTTTTCTTGGTTTTTAATTTTAAAA
1 AAATACAGAGTTTTTCACTCCATAAATGTTTTCAAAGGGATTTTTCTTGGTTTTTAATTTTAAAA
* * * *
1445699 TTCATCAAATATCATCATTTATTTCATATTAAATCAGTTTT
66 TTCATCAAATATCATAATTTAATTGATATTAAATCTGTTTT
1445740 GAATAATTAA
Statistics
Matches: 253, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
166 27 0.11
167 81 0.32
168 145 0.57
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (166 bp):
AAATACAGAGTTTTTCACTCCATAAATGTTTTCAAAGGGATTTTTCTTGGTTTTTAATTTTAAAA
TTCATCAAATATCATAATTTAATTGATATTAAATCTGTTTTCAAAATTTCATTCATTTTCTTAAG
TTTTTTGTTTTTTTCTTGAAATTCTCTTCATTTTCA
Found at i:1447435 original size:154 final size:150
Alignment explanation
Indices: 1447229--1447528 Score: 379
Period size: 154 Copynumber: 2.0 Consensus size: 150
1447219 TCACTGGGTC
* *
1447229 TGCTTTTATGCCGAAGGTGGATATTTAGGGTTCATCCCATTTAAAATCTTTTTTAAGTCTTTTAG
1 TGCTTTTATGCCAAAGGTGGATATTTAGGGTTCATCCCATTTAAAATCTTTTTTAAGTCCTTTAG
* * * * ** **
1447294 -GAGTATTAGGTACTTTTACGTCGAAGGTATCTCCTAAGGGCATTTTTGTAATTTTCTAGA-ACC
66 AG-GTATCAAGTACTTTTACATCGAAGGTATCCCCTAAGGGCATCCTCATAATTTTCTAGATA-C
*
1447357 AACTTCTAGGTCGTCACCGATT
129 AACTCCTAGGTCGTCACCGATT
* * *
1447379 TGCTTTTGTGCCAAAGGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCTTTTTTATGTCCT
1 TGCTTTTATGCCAAAGGTGGATATTTA-G---GGTTCATCCCATTTAAAATCTTTTTTAAGTCCT
* *
1447444 TTAGAGGTATCAAGTACTTTTACATTGAAGGTATCCCCTAGGGGCATCCTCATAATTTTCTAGAT
62 TTAGAGGTATCAAGTACTTTTACATCGAAGGTATCCCCTAAGGGCATCCTCATAATTTTCTAGAT
*
1447509 ACAACTCCTAGGTTGTCACC
127 ACAACTCCTAGGTCGTCACC
1447529 CGGTCCTTTT
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
150 25 0.20
151 1 0.01
154 99 0.78
155 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (150 bp):
TGCTTTTATGCCAAAGGTGGATATTTAGGGTTCATCCCATTTAAAATCTTTTTTAAGTCCTTTAG
AGGTATCAAGTACTTTTACATCGAAGGTATCCCCTAAGGGCATCCTCATAATTTTCTAGATACAA
CTCCTAGGTCGTCACCGATT
Found at i:1452484 original size:31 final size:32
Alignment explanation
Indices: 1452423--1452493 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
1452413 TACATTGAAG
* * * *
1452423 AATGTATTGATACATTTGGGTCAAAAACTCAA
1 AATGTATCGATAAAATTAGGTCAAAAACTCAA
1452455 AATGTATCGATAAAATTAGGTC-AAAACTCAA
1 AATGTATCGATAAAATTAGGTCAAAAACTCAA
1452486 AATGTATC
1 AATGTATC
1452494 ATACAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (32 bp):
AATGTATCGATAAAATTAGGTCAAAAACTCAA
Found at i:1459194 original size:79 final size:78
Alignment explanation
Indices: 1459056--1459422 Score: 336
Period size: 79 Copynumber: 4.7 Consensus size: 78
1459046 TGGAGATAAA
* * *
1459056 AACGGGGTTGAAGTCTCCCCGATGGTGAAAAATT-AGTGTTTTAAAAATAAAACTAGGGTTGGAG
1 AACGAGGTTGGAGTATCCCCGATGGTG-AAAATTGA-TGTTTTAAAAATAAAACTAGGGTTGGAG
1459120 TATCCCTTCAGAAAT
64 TATCCCTTCAGAAAT
* * *
1459135 AACGAGGTTGGAGTATCCCCGATGGTGAAAATTTGATGTTTTAGAAATAAAA-TCGGGGTTAGAG
1 AACGAGGTTGGAGTATCCCCGATGGTGAAAA-TTGATGTTTTAAAAATAAAACT-AGGGTTGGAG
*
1459199 TATCCTTTCAGAAAT
64 TATCCCTTCAGAAAT
* * * *
1459214 AAC-AGGGTTGGAGTATCCTCGATCGTAGAAAAATGGTGTTTTAAAAATAAAA-TCAGGGTTGGA
1 AACGA-GGTTGGAGTATCCCCGATGGT-GAAAATTGATGTTTTAAAAATAAAACT-AGGGTTGGA
*
1459277 GTATCCCCTT-A-AAAG
63 GTAT-CCCTTCAGAAAT
** * *
1459292 AACTG-GGTTGGAGTATCCCTAATGGTGAGAAATTGATGCTTTAGAAATAAAACT-GAGGTTGGA
1 AAC-GAGGTTGGAGTATCCCCGATGGTGA-AAATTGATGTTTTAAAAATAAAACTAG-GGTTGGA
*
1459355 GTATCCCCTCAGAAAT
63 GTATCCCTTCAGAAAT
* * * ** ** **
1459371 AACGGGGTTGAAGTATTCCTAATGGTGGAAAATCAATGTCCTAAAAATAAAA
1 AACGAGGTTGGAGTATCCCCGATGGT-GAAAATTGATGTTTTAAAAATAAAA
1459423 ACATCATTGA
Statistics
Matches: 239, Mismatches: 34, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
77 7 0.03
78 61 0.26
79 159 0.67
80 12 0.05
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
AACGAGGTTGGAGTATCCCCGATGGTGAAAATTGATGTTTTAAAAATAAAACTAGGGTTGGAGTA
TCCCTTCAGAAAT
Found at i:1459402 original size:157 final size:158
Alignment explanation
Indices: 1459056--1459422 Score: 426
Period size: 157 Copynumber: 2.3 Consensus size: 158
1459046 TGGAGATAAA
* * *
1459056 AACGGGGTTGAAGTCTCCCCGATGGTGAAAAATTAGTGTTTTAAAAATAAAACTAGGGTTGGAGT
1 AACGGGGTTGAAGTATTCCTGATGGTGAAAAATTAGTGTTTTAAAAATAAAACTAGGGTTGGAGT
* * *
1459121 ATCCCTTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAATTTGATGTTTTAGAAATAAA
66 ATCCCTTCAGAAAGAACGAGGTTGGAGTATCCCCAATGGTGAAAATTTGATGCTTTAGAAATAAA
* **
1459186 ATCGGGGTTAGAGTATCCTTTCAGAAAT
131 ATCGAGGTTAGAGTATCCCCTCAGAAAT
* * * *
1459214 AACAGGGTTGGAGTA-TCCTCGATCGTAGAAAAA-TGGTGTTTTAAAAATAAAA-TCAGGGTTGG
1 AACGGGGTTGAAGTATTCCT-GATGGT-GAAAAATTAGTGTTTTAAAAATAAAACT-AGGGTTGG
*
1459276 AGTATCCCCTT-A-AAAGAACTG-GGTTGGAGTATCCCTAATGGTGAGAAA-TTGATGCTTTAGA
63 AGTAT-CCCTTCAGAAAGAAC-GAGGTTGGAGTATCCCCAATGGTGA-AAATTTGATGCTTTAGA
*
1459337 AATAAAA-CTGAGGTTGGAGTATCCCCTCAGAAAT
125 AATAAAATC-GAGGTTAGAGTATCCCCTCAGAAAT
* * * * **
1459371 AACGGGGTTGAAGTATTCCTAATGGTGGAAAATCAATGTCCTAAAAATAAAA
1 AACGGGGTTGAAGTATTCCTGATGGTGAAAAATTAGTGTTTTAAAAATAAAA
1459423 ACATCATTGA
Statistics
Matches: 175, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
156 6 0.03
157 101 0.58
158 57 0.33
159 11 0.06
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (158 bp):
AACGGGGTTGAAGTATTCCTGATGGTGAAAAATTAGTGTTTTAAAAATAAAACTAGGGTTGGAGT
ATCCCTTCAGAAAGAACGAGGTTGGAGTATCCCCAATGGTGAAAATTTGATGCTTTAGAAATAAA
ATCGAGGTTAGAGTATCCCCTCAGAAAT
Found at i:1462686 original size:43 final size:42
Alignment explanation
Indices: 1462638--1462754 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 42
1462628 AAAGGGGGTT
*
1462638 TCCTGCTCTTTGAGGACAAAGGGAAAAAGGA-ATAAAGAAAGTG
1 TCCTGCTCCTTGAGGACAAAGGG-AAAAGGAGA-AAAGAAAGTG
* *
1462681 TCCTGCTCCTTGAGGACAAAAGGAAAAGGAGAAAGGAAAGTG
1 TCCTGCTCCTTGAGGACAAAGGGAAAAGGAGAAAAGAAAGTG
* * *
1462723 TCTTGCTCCTTGAGGACATAGGGGAGAAGGAG
1 TCCTGCTCCTTGAGGACA-AAGGGAAAAGGAG
1462755 CATGTCCTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 33 0.51
43 32 0.49
ACGTcount: A:0.37, C:0.14, G:0.32, T:0.18
Consensus pattern (42 bp):
TCCTGCTCCTTGAGGACAAAGGGAAAAGGAGAAAAGAAAGTG
Found at i:1462721 original size:42 final size:43
Alignment explanation
Indices: 1462638--1462740 Score: 147
Period size: 42 Copynumber: 2.4 Consensus size: 43
1462628 AAAGGGGGTT
* *
1462638 TCCTGCTCTTTGAGGACAAAGGGAAAAAGGAATAAAGAAAGTG
1 TCCTGCTCCTTGAGGACAAAAGGAAAAAGGAATAAAGAAAGTG
*
1462681 TCCTGCTCCTTGAGGACAAAAGG-AAAAGGAGA-AAGGAAAGTG
1 TCCTGCTCCTTGAGGACAAAAGGAAAAAGGA-ATAAAGAAAGTG
*
1462723 TCTTGCTCCTTGAGGACA
1 TCCTGCTCCTTGAGGACA
1462741 TAGGGGAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 33 0.60
43 22 0.40
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (43 bp):
TCCTGCTCCTTGAGGACAAAAGGAAAAAGGAATAAAGAAAGTG
Found at i:1462867 original size:42 final size:42
Alignment explanation
Indices: 1462806--1463024 Score: 228
Period size: 42 Copynumber: 5.2 Consensus size: 42
1462796 AAATGGGTCT
* * **
1462806 TGCTCCTTGAGGACAAAGGAAAAAAGGAAATAAAGTTTATCC
1 TGCTCTTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCC
* * *
1462848 TACTCTTTGAAGAAAAAGGAAAAAGGGAAA-AAAGTGCATCC
1 TGCTCTTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCC
* * *
1462889 TGCTCTTTGAGGACATAGGAGAAAAGGAAATAAAGTGCA-CC
1 TGCTCTTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCC
* * * * *
1462930 TTGCTCATTGAAGACAAAGGAAGAAAGAAAATGAAGTGCATCT
1 -TGCTCTTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCC
* **
1462973 TGCTCTTTGAAGACAAA-GAAGAAAAAGAAATAAAGAACATCC
1 TGCTCTTTGAAGACAAAGGAA-AAAAGGAAATAAAGTGCATCC
*
1463015 TGCTTTTTGA
1 TGCTCTTTGA
1463025 GGACTAGAAG
Statistics
Matches: 143, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
41 38 0.27
42 104 0.73
43 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (42 bp):
TGCTCTTTGAAGACAAAGGAAAAAAGGAAATAAAGTGCATCC
Found at i:1462900 original size:83 final size:83
Alignment explanation
Indices: 1462806--1463007 Score: 232
Period size: 83 Copynumber: 2.4 Consensus size: 83
1462796 AAATGGGTCT
* ** *
1462806 TGCTCCTTGAGGACAAAGGAAAAAAGGAAATAAAGTTTATCC-TACTCTTTGAAGAAAAAGGAA-
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCA-CCTTACTCATTGAAGAAAAAGGAAG
1462869 AAAGGGAAAA-AAGTGCATCC
65 AAA--GAAAAGAAGTGCATCC
* * * *
1462889 TGCTCTTTGAGGACATAGGAGAAAAGGAAATAAAGTGCACCTTGCTCATTGAAGACAAAGGAAGA
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCACCTTACTCATTGAAGAAAAAGGAAGA
*
1462954 AAGAAAATGAAGTGCATCT
66 AAGAAAA-GAAGTGCATCC
* *
1462973 TGCTCTTTGAAGACAAA-GAAGAAAAAGAAATAAAG
1 TGCTCTTTGAGGACAAAGGAA-AAAAGGAAATAAAG
1463008 AACATCCTGC
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
82 7 0.07
83 54 0.53
84 40 0.40
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.19
Consensus pattern (83 bp):
TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCACCTTACTCATTGAAGAAAAAGGAAGA
AAGAAAAGAAGTGCATCC
Found at i:1463162 original size:61 final size:61
Alignment explanation
Indices: 1463010--1464636 Score: 1473
Period size: 61 Copynumber: 26.4 Consensus size: 61
1463000 AAATAAAGAA
* * * * *
1463010 CATCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGAAAAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG---AAAAAGG
* * * *
1463074 AAGTCTCCAGCTCTTTGAGGACTAAAAGGTACCACCAACTCGTGTGGCCTTTAAAAGAAAAAGG
1 CA-TC-CTA-CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* *
1463138 CATCCTACTTTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAA-A
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAA-GAAAAAGG
* * ** * *
1463199 CGTCCTTCTCTTTGAGGAGGAAAAGGTGCCACCAACTCGTCTAGGCTTTAAAAGAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* **
1463260 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTAAGCTTTAAAAGAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
** * * * * * *
1463321 TGTCCTGCTCTTTGACGAAT-AAAGAGTGCCACCAACTCGTCTAGGCTATAAAAAGAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAG-GTGCCACCAACTCGTGTGGGCT-TTAAAAGAAAAAGG
** * * * * * *
1463383 CAT-CTTGTTTTTGAGGACTAAAAGGTACCACCAACTCGTATGAGCATTTTTTTTAAA-AAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGC-----TTTAAAAGAAAAAG
1463446 G
61 G
** * *
1463447 TGTCCTACTCTTTGAGGACTAAAAGGTGCCACCTACTGGTGTGGGCTTTAAAAGAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* * * * *
1463508 CATCCTACTTTTTAAGGAATAAAAGGTGCCACCAACTCATGTGGGCTTT--AA-AAAAATG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* * * * *
1463566 --TCCTGCTCTTTGAAGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAAG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* * * * *
1463625 CATCATGCTCTTTGAGGACTAAAAGGTGTCACCAACTCATGTGGGCTTTAAAACAAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAA-GAAAAAGG
* * *
1463687 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTGAAA-AAAATGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* * * * *
1463747 CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTAGGGTTTTAAAAAGAGAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGT-GGGCTTT-AAAAGAAAAAGG
* * * * *
1463810 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCCTGTGGGCTTTTGAAAGGAAAAA-T
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGC-TTT-AAAAGAAAAAGG
* * * * ** * *
1463872 AAGTCTTTCTCTTTGAGGACTAAAATGTGCCATTAACTCGTGTGGGATTTGAAAAGGAAAAGG
1 CA-TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGG
* * *
1463935 -AGTCCTACTCTTTGAAGACTAAACGCTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAACAGG
1 CA-TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAA-AGG
* * * ** * *
1463998 CATCCTGCACTTTGAGGACTAAAGGGTGCCAAAAACTCATGTGGGATTTAAAA-AAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
** * * * *
1464058 TGTCCTACTCTTCGAGGATTAAAAGGTGCCACCAACTCATGTCGGCTTTAAAA-AGAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA-AAAAGG
** * * * ** *
1464119 TGTCCTACTTTTTGAGGACTAAAGGGTACTGCCAACTCGTGTAGGCTTTAAAA-AGAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA-AAAAGG
* * * * *
1464180 CGTCATGCTCTTCGAGGACTAAAAGGTGCCACCAACTCGTGTGCGCTTTAAAAAGAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGG
* ** * * * * * *
1464242 CGTCCTGTTTTTTGATGACTAAAAGGTGTCGCCAACTCGTTTGGGCTTTAAAAAGCAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGG
* * * *
1464304 CATCCTACTCTTCGAGGACTAAAAGGTGCCACCAACTCATGTGGGTTTTTTTTTTAAA-AAAAAG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGG-----CTTTAAAAGAAAAAG
1464368 TG
61 -G
* * * * * * *
1464370 --TCCTGCTATTTGGGGACTAAAAGGTACCACTAACTCGTATGGGCTTTAAAAAGCAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGG
* *
1464430 CATCCTACTCTTCGAGGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTTTTTTTAAAA-AAAAA
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGG------CTTTAAAAGAAAAA
*
1464494 TG
60 GG
* * * * * *
1464496 --TCCTGCTGTTTGGGGACTAAAAGGTACCACTAACTCGTGTGGGCTTTAAAAGAAAATGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
* *
1464555 CATCCTACTCTTTGAGGACTAAAAGGTGCCA-CAATCTCGTGTGGGC-TTCATAGAAAAAGG
1 CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAA-CTCGTGTGGGCTTTAAAAGAAAAAGG
* *
1464615 CGTCCTGCTCTTTGAGGACTAA
1 CATCCTACTCTTTGAGGACTAA
1464637 GAGGATAAAA
Statistics
Matches: 1273, Mismatches: 238, Indels: 108
0.79 0.15 0.07
Matches are distributed among these distances:
56 39 0.03
58 15 0.01
59 16 0.01
60 144 0.11
61 443 0.35
62 283 0.22
63 137 0.11
64 89 0.07
65 45 0.04
66 11 0.01
67 48 0.04
68 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (61 bp):
CATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGG
Found at i:1464393 original size:64 final size:64
Alignment explanation
Indices: 1464319--1464538 Score: 236
Period size: 64 Copynumber: 3.5 Consensus size: 64
1464309 TACTCTTCGA
* *
1464319 GGACTAAAAGGTGCCACCAACTCATGTGGGTTTTTTTTTTAAAAAAAAGTGTCCTGCTATTTGG
1 GGACTAAAAGGTACCACCAACTCGTGTGGGTTTTTTTTTTAAAAAAAAGTGTCCTGCTATTTGG
* * * * * *
1464383 GGACTAAAAGGTACCACTAACTCGTATGGG-----CTTTAAAAAGCAAAAG-GCATCCTACTCTT
1 GGACTAAAAGGTACCACCAACTCGTGTGGGTTTTTTTTTTAAAA--AAAAGTG--TCCTGCTATT
* *
1464442 CGA
62 TGG
* * *
1464445 GGACTAAAAGGTGCCACCAACTCGTGTGGGTTTTTTTTTTAAAAAAAAATGTCCTGCTGTTTGG
1 GGACTAAAAGGTACCACCAACTCGTGTGGGTTTTTTTTTTAAAAAAAAGTGTCCTGCTATTTGG
*
1464509 GGACTAAAAGGTACCACTAACTCGTGTGGG
1 GGACTAAAAGGTACCACCAACTCGTGTGGG
1464539 CTTTAAAAGA
Statistics
Matches: 124, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
59 7 0.06
60 1 0.01
61 5 0.04
62 36 0.29
64 63 0.51
65 4 0.03
66 1 0.01
67 7 0.06
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (64 bp):
GGACTAAAAGGTACCACCAACTCGTGTGGGTTTTTTTTTTAAAAAAAAGTGTCCTGCTATTTGG
Found at i:1469811 original size:79 final size:79
Alignment explanation
Indices: 1469706--1470278 Score: 424
Period size: 79 Copynumber: 7.3 Consensus size: 79
1469696 ATTTTCCACT
* ** * *
1469706 ATCGGGGATACTCCAACCCCATTATTTTTGAGGGAATACTCCAACCTCGGTTTTATTTTCAAAAC
1 ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGAATACTCCAACCTCAGTTTTATTTTCAAAAC
*
1469771 ATCGATTTCTAATA
66 ATCGATTTCTAACA
*** * * * * *
1469785 ATCGAGGATACTCCAACCCCAATATTTTCGAGGGGATACTCTAACCTCGGTTTTATTTCCAAAAT
1 ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGAATACTCCAACCTCAGTTTTATTTTCAAAAC
* * *
1469850 ATTGATTT-TCCACC
66 ATCGATTTCT-AACA
** * * * *
1469864 ATCGAGGATACTTGAACCCTGTTA-TTTCTGAGGGGATACTCCATCCCCA-ATTT-TTTTCAAAA
1 ATCGAGGATACTCCAACCCTGTTATTTTC-GAGGGAATACTCCAACCTCAGTTTTATTTTC-AAA
* *
1469926 ACATCGATTTTTCACA
64 ACATCGATTTCTAACA
* * *
1469942 ATTG-GCGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CTAGTTTTA-TTTCTAA
1 ATCGAG-GATACTCCAACCCTGTTATTTTCGAGGGAATACTCCAACCTC-AGTTTTATTTTC-AA
* * *
1470004 AACACCGATTTTCCACCA
63 AACATCGA-TTTCTAACA
* * * * * *
1470022 TTAG-GGATACTCCAACCTTGTTATTTCCGA-GGAGATACTCCAATCTC-GATTTTA-TTTCTAA
1 ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGA-ATACTCCAACCTCAG-TTTTATTTTCAAA
*
1470083 A-ATACAGATTTTCCAAC-
64 ACAT-C-GA-TTTCTAACA
* * *
1470100 ATCGAGGATACTCCAACCTTGTTATTTTCGA-GGAGATACTCCAACCCCAGTTTTATTTCCAAAA
1 ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGA-ATACTCCAACCTCAGTTTTATTTTCAAAA
*
1470164 CATCAATTTTCT-ACA
65 CATCGA-TTTCTAACA
* * *
1470179 ATCGAGCATACTCCAACCCTGTTATTTTCGAAAGG-ATACTCCAACCTTAGTTTTATTTTCAAAA
1 ATCGAGGATACTCCAACCCTGTTATTTTCG-AGGGAATACTCCAACCTCAGTTTTATTTTCAAAA
* * * *
1470243 TATCAATTTTTCACCA
65 CATCGATTTCT-AACA
* *
1470259 TTCG-GGATACTCTAACCCTG
1 ATCGAGGATACTCCAACCCTG
1470279 GTTTTATTTC
Statistics
Matches: 403, Mismatches: 67, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
77 7 0.02
78 72 0.18
79 297 0.74
80 23 0.06
81 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGAATACTCCAACCTCAGTTTTATTTTCAAAAC
ATCGATTTCTAACA
Found at i:1470107 original size:236 final size:237
Alignment explanation
Indices: 1469677--1470276 Score: 683
Period size: 236 Copynumber: 2.5 Consensus size: 237
1469667 TTATTGATGT
* * * * * * * * *
1469677 TTTTATTTCTAAAATACCGATTTTCCACTATCGGGGATACTCCAACCCCATTATTTTTGAGGGAA
1 TTTTATTTCAAAAACATCGATTTTTCACAATCGGCGATACTCCAACCCCGTTATTTTCGAGGGGA
* * ** *
1469742 TACTCCAA-CCTCGGTTTTATTTTCAAAACATCGA-TTTCTAATAATCGAGGATACTCCAACCCC
66 TACTCCAACCCT-AGTTTTATTTTCAAAACATCGATTTTCCACCATTCG-GGATACTCCAACCCC
* * * * ** *
1469805 AATATTTTCGAGGGGATACTCTAACCTCGGTTTTATTTCCAAAATATTGATTTTCCACCATCGAG
129 AATATTTCCGAGGAGATACTCCAACCTCGATTTTATTTCCAAAATACAGATTTTCCAACATCGAG
** * *
1469870 GATACTTGAACCCTGTTA-TTTCTGAGGGGATACTCCATCCCCAA
194 GATACTCCAACCCTGTTATTTTC-GAGGAGATACTCCAACCCCAA
*
1469914 TTTT-TTTCAAAAACATCGATTTTTCACAATTGGCGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCAAAAACATCGATTTTTCACAATCGGCGATACTCCAACCCCGTTATTTTCGAGGGGA
* * ***
1469978 TACTCCAACCCTAGTTTTA-TTTCTAAAACACCGATTTTCCACCATTAGGGATACTCCAACCTTG
66 TACTCCAACCCTAGTTTTATTTTC-AAAACATCGATTTTCCACCATTCGGGATACTCCAACCCCA
* * *
1470042 TTATTTCCGAGGAGATACTCCAATCTCGATTTTATTTCTAAAATACAGATTTTCCAACATCGAGG
130 ATATTTCCGAGGAGATACTCCAACCTCGATTTTATTTCCAAAATACAGATTTTCCAACATCGAGG
* *
1470107 ATACTCCAACCTTGTTATTTTCGAGGAGATACTCCAACCCCAG
195 ATACTCCAACCCTGTTATTTTCGAGGAGATACTCCAACCCCAA
* * * **
1470150 TTTTATTTCCAAAACATC-AATTTTCTACAATCGAGC-ATACTCCAACCCTGTTATTTTCGAAAG
1 TTTTATTTCAAAAACATCGATTTTTC-ACAATCG-GCGATACTCCAACCCCGTTATTTTCGAGGG
* * * * *
1470213 GATACTCCAACCTTAGTTTTATTTTCAAAATATCAATTTTTCACCATTCGGGATACTCTAACCC
64 GATACTCCAACCCTAGTTTTATTTTCAAAACATCGATTTTCCACCATTCGGGATACTCCAACCC
1470277 TGGTTTTATT
Statistics
Matches: 305, Mismatches: 50, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
235 4 0.01
236 183 0.60
237 112 0.37
238 6 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (237 bp):
TTTTATTTCAAAAACATCGATTTTTCACAATCGGCGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCTAGTTTTATTTTCAAAACATCGATTTTCCACCATTCGGGATACTCCAACCCCAA
TATTTCCGAGGAGATACTCCAACCTCGATTTTATTTCCAAAATACAGATTTTCCAACATCGAGGA
TACTCCAACCCTGTTATTTTCGAGGAGATACTCCAACCCCAA
Found at i:1470157 original size:158 final size:159
Alignment explanation
Indices: 1469677--1470222 Score: 526
Period size: 158 Copynumber: 3.5 Consensus size: 159
1469667 TTATTGATGT
* * * * ** **
1469677 TTTTATTTCTAAAATACCGATTTTCCACTA-TCGGGGATACTCCAACCCCATTATTTTTGAGG-G
1 TTTTATTTCCAAAACACCGATTTTCCACCATTCGAGGATACTCCAACCCTGTTATTTCCGAGGAG
* * * * *
1469740 AATACTCCAACCTCGGTTTTATTT-TCAAAACATCGA-TTTCTAATAATCGAGGATACTCCAACC
66 -ATACTCCAATCTCGATTTTATTTCTAAAAACA-CGATTTTCCAA-CATCGAGGATACTCCAACC
** * * *
1469803 CCAATATTTTCGAGGGGATACTCTAACCTCGG
128 CCGTTATTTTCGAGGGGATACTCCAACCCCAG
* ** ** * *
1469835 TTTTATTTCCAAAATATTGATTTTCCACCA-TCGAGGATACTTGAACCCTGTTATTTCTGAGGGG
1 TTTTATTTCCAAAACACCGATTTTCCACCATTCGAGGATACTCCAACCCTGTTATTTCCGAGGAG
* * * *
1469899 ATACTCC-ATCCCCAATTTT-TTTC-AAAAACATCGATTTTTC-ACAATTG-GCGATACTCCAAC
66 ATACTCCAAT-CTCGATTTTATTTCTAAAAACA-CGATTTTCCAAC-ATCGAG-GATACTCCAAC
*
1469959 CCCGTTATTTTCGAGGGGATACTCCAACCCTAG
127 CCCGTTATTTTCGAGGGGATACTCCAACCCCAG
* * *
1469992 TTTTATTTCTAAAACACCGATTTTCCACCATTAG-GGATACTCCAACCTTGTTATTTCCGAGGAG
1 TTTTATTTCCAAAACACCGATTTTCCACCATTCGAGGATACTCCAACCCTGTTATTTCCGAGGAG
**
1470056 ATACTCCAATCTCGATTTTATTTCTAAAATACA-GATTTTCCAACATCGAGGATACTCCAACCTT
66 ATACTCCAATCTCGATTTTATTTCTAAAA-ACACGATTTTCCAACATCGAGGATACTCCAACCCC
*
1470120 GTTATTTTCGAGGAGATACTCCAACCCCAG
130 GTTATTTTCGAGGGGATACTCCAACCCCAG
* * * * * * *
1470150 TTTTATTTCCAAAACATCAATTTTCTA-CAATCGAGCATACTCCAACCCTGTTATTTTCGA-AAG
1 TTTTATTTCCAAAACACCGATTTTCCACCATTCGAGGATACTCCAACCCTGTTATTTCCGAGGA-
1470213 GATACTCCAA
65 GATACTCCAA
1470223 CCTTAGTTTT
Statistics
Matches: 320, Mismatches: 53, Indels: 30
0.79 0.13 0.07
Matches are distributed among these distances:
156 1 0.00
157 126 0.39
158 182 0.57
159 8 0.03
160 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (159 bp):
TTTTATTTCCAAAACACCGATTTTCCACCATTCGAGGATACTCCAACCCTGTTATTTCCGAGGAG
ATACTCCAATCTCGATTTTATTTCTAAAAACACGATTTTCCAACATCGAGGATACTCCAACCCCG
TTATTTTCGAGGGGATACTCCAACCCCAG
Found at i:1470742 original size:150 final size:154
Alignment explanation
Indices: 1470493--1470785 Score: 371
Period size: 150 Copynumber: 1.9 Consensus size: 154
1470483 TACTAAGTAC
* * * *
1470493 TTTTACGTCGAAGGTATCCCTTTGAGGTATTTTCTTAATTTTCTAAAATCGAGTCTTAGGTTGTC
1 TTTTACGTCAAAGGTATCCCTTAGAGGCATTTTCATAATTTTCTAAAATCGAGTCTTAGGTTGTC
** * * ** * *
1470558 ACTACGTTTGTTTTTATGCCAAAGGTTTGCATTTAGGATAAGTTCATCC-TT-T-T-ACCTTTTT
66 ACTACGTCCGCTTTCATGCCAAAGGTGGGCATTTAGGATAAGTTAATCCTTTCTATGACCATTTT
1470619 AAGTCCTTTAGGGGTGCCGGGTAT
131 AAGTCCTTTAGGGGTGCCGGGTAT
* *
1470643 TTTTATGTCAAAGGTATCCCTTA-AGGGCATTTTCATAATTTTCTAGAATCGAGTCTTAGGTTGT
1 TTTTACGTCAAAGGTATCCCTTAGA-GGCATTTTCATAATTTTCTAAAATCGAGTCTTAGGTTGT
** * * *
1470707 CACTGGGTCCGCTTTCATGTCAAAGGTGGGTATTTAGGATAGGTTAATCCTTTCTATGACCATTT
65 CACTACGTCCGCTTTCATGCCAAAGGTGGGCATTTAGGATAAGTTAATCCTTTCTATGACCATTT
1470772 TAAGTCCTTTAGGG
130 TAAGTCCTTTAGGG
1470786 ATATTAGGCA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
149 1 0.01
150 94 0.79
151 2 0.02
152 1 0.01
153 1 0.01
154 20 0.17
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (154 bp):
TTTTACGTCAAAGGTATCCCTTAGAGGCATTTTCATAATTTTCTAAAATCGAGTCTTAGGTTGTC
ACTACGTCCGCTTTCATGCCAAAGGTGGGCATTTAGGATAAGTTAATCCTTTCTATGACCATTTT
AAGTCCTTTAGGGGTGCCGGGTAT
Found at i:1470846 original size:154 final size:151
Alignment explanation
Indices: 1470464--1470991 Score: 485
Period size: 154 Copynumber: 3.5 Consensus size: 151
1470454 GTCCATATCT
* * * * * * *
1470464 TTTTTAAGTCCTTTAAGGATACTAAGTACTTTTACGTCGAAGGTATCCCTTTGAGGTATTTTCTT
1 TTTTTAAGTCCTTTAGGGATACCAGGTACTTTTACGTCGAAGGTATCCCTTAGGGGCATTTTCGT
* * * * * * **
1470529 AATTTTCTAAAATCGAGTCTTAGGTTGTCACTACGTTTGTTTTTATGCCAAAGGTTTGCATTTAG
66 AATTTTCTAGAATCGAGTCTTAGGTTGTCACT-GGGTCGCTTTTATGTCAAAGGTGGGCATTTAG
*
1470594 GATAAGTTCATCC-TT-T-TACC
130 GATAGGTT-ATCCTTTCTATACC
* * * * * * * *
1470614 TTTTTAAGTCCTTTAGGGGTGCCGGGTATTTTTATGTCAAAGGTATCCCTTAAGGGCATTTTCAT
1 TTTTTAAGTCCTTTAGGGATACCAGGTACTTTTACGTCGAAGGTATCCCTTAGGGGCATTTTCGT
* *
1470679 AATTTTCTAGAATCGAGTCTTAGGTTGTCACTGGGTCCGCTTTCATGTCAAAGGTGGGTATTTAG
66 AATTTTCTAGAATCGAGTCTTAGGTTGTCACTGGGT-CGCTTTTATGTCAAAGGTGGGCATTTAG
1470744 GATAGGTTAATCCTTTCTATGACC
130 GATAGGTT-ATCCTTTCTAT-ACC
* ** * * * * *
1470768 ATTTTAAGTCCTTTAGGGATATTAGGCACTTTTACGTCGAAGATATCCCTCAGGGGTATTTTGGT
1 TTTTTAAGTCCTTTAGGGATACCAGGTACTTTTACGTCGAAGGTATCCCTTAGGGGCATTTTCGT
* * * * *
1470833 AATTTTTTGGAATCGAGTCCTT-GGTTGTCTCCAGGGTCGCTTTTATGTCGAAGGTGGGCATTTA
66 AATTTTCTAGAATCGAGT-CTTAGGTTGTC-ACTGGGTCGCTTTTATGTCAAAGGTGGGCATTTA
* * * *
1470897 AGATAGGTTCT-TTTCATCTATAATC
129 GGATAGGTTATCCTT--TCTAT-ACC
* * * *
1470922 TTTTGTAACTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGTTATCCC-TA-GGGCATTTTCG
1 TTTT-TAAGTCCTTTAGGGATACCAGGTACTTTTACGTCGAAGGTATCCCTTAGGGGCATTTTCG
1470985 TAATTTT
65 TAATTTT
1470992 TCTTAAACTT
Statistics
Matches: 305, Mismatches: 63, Indels: 17
0.79 0.16 0.04
Matches are distributed among these distances:
149 2 0.01
150 114 0.37
151 2 0.01
152 3 0.01
153 18 0.06
154 118 0.39
155 48 0.16
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (151 bp):
TTTTTAAGTCCTTTAGGGATACCAGGTACTTTTACGTCGAAGGTATCCCTTAGGGGCATTTTCGT
AATTTTCTAGAATCGAGTCTTAGGTTGTCACTGGGTCGCTTTTATGTCAAAGGTGGGCATTTAGG
ATAGGTTATCCTTTCTATACC
Found at i:1471829 original size:43 final size:43
Alignment explanation
Indices: 1471768--1471907 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
1471758 CGAATTCATT
1471768 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* *
1471811 TTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-------C--C
* *
1471863 TTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
1471906 TT
1 TT
1471908 CATTTTTAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
43 42 0.51
45 1 0.01
50 1 0.01
52 38 0.46
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:1471834 original size:22 final size:22
Alignment explanation
Indices: 1471768--1471834 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1471758 CGAATTCATT
1471768 TTTAAGTCCAATATAGCTGGCC
1 TTTAAGTCCAATATAGCTGGCC
* * *
1471790 TTGAA-TCAGCACAT-TGGC--ACC
1 TTTAAGTC--CA-ATATAGCTGGCC
1471811 TTTAAGTCCAATATAGCTGGCC
1 TTTAAGTCCAATATAGCTGGCC
1471833 TT
1 TT
1471835 GAATTAGCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 8 0.25
22 10 0.31
23 5 0.16
24 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (22 bp):
TTTAAGTCCAATATAGCTGGCC
Found at i:1472719 original size:13 final size:13
Alignment explanation
Indices: 1472701--1472727 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1472691 ACATAAAGTG
1472701 TTGTATCGATACA
1 TTGTATCGATACA
1472714 TTGTATCGATACA
1 TTGTATCGATACA
1472727 T
1 T
1472728 AAGTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1472742 original size:32 final size:33
Alignment explanation
Indices: 1472681--1472745 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1472671 TTTCAAAGAT
1472681 TTGTATCGATACATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
*
1472714 TTGTATCGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
1472746 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:1472807 original size:13 final size:13
Alignment explanation
Indices: 1472789--1472813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1472779 ATTACTCAAA
1472789 TGTATCGATACAT
1 TGTATCGATACAT
1472802 TGTATCGATACA
1 TGTATCGATACA
1472814 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1472866 original size:52 final size:52
Alignment explanation
Indices: 1472822--1472950 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1472812 CACTGATCTT
*
1472822 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
1472874 TGTATCGATACATGTAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
1472926 TGTATCGATTCATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1472951 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:1476847 original size:25 final size:25
Alignment explanation
Indices: 1476811--1476866 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
1476801 TTTGTTGTTT
1476811 TTTTTTCATTTTCGATATTTTTTACA
1 TTTTTTCATTTTCGA-ATTTTTTACA
* **
1476837 TTTTTTC-TTTTCTAATTTTTTTGA
1 TTTTTTCATTTTCGAATTTTTTACA
1476861 TTTTTT
1 TTTTTT
1476867 TGGTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 14 0.52
25 6 0.22
26 7 0.26
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTTTTCATTTTCGAATTTTTTACA
Found at i:1476867 original size:25 final size:27
Alignment explanation
Indices: 1476810--1476867 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
1476800 TTTTGTTGTT
1476810 TTTTTTTCATTTTCGATATTTTTTACA
1 TTTTTTTCATTTTCGATATTTTTTACA
* **
1476837 -TTTTTTC-TTTTCTA-ATTTTTTTGA
1 TTTTTTTCATTTTCGATATTTTTTACA
1476861 TTTTTTT
1 TTTTTTT
1476868 GGTATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 8 0.30
25 12 0.44
26 7 0.26
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (27 bp):
TTTTTTTCATTTTCGATATTTTTTACA
Found at i:1478321 original size:161 final size:160
Alignment explanation
Indices: 1477931--1478341 Score: 402
Period size: 161 Copynumber: 2.5 Consensus size: 160
1477921 TTTTTTCAGG
* *
1477931 GGATTTTTCATAGTTTATAAA-TTTTAAAATTCATCAAATATTATTATTTAATCACCATTAAATC
1 GGATTTTTCTTAGTTTA-AAATTTTTAAAATTCATCAAATATTATTATTT-A-CACCATTAAATT
* * * * * *
1477995 AGTTTTAAAAAATTCATTGATTTTTATGAGTTTTTCATTTTTCCCTTGAAATTTCTCTATTATGA
63 AGTTTTAAAAAATTCATTTATTTTCATGAGTCTTTC---TCTCCCTTGAAATTCCCCTATTATGA
* ** *
1478060 AAGACCCAGTTTTCTATTCCATAAAGGTTTTCAAAA
125 AAAACAAAGTTTTCTACTCCATAAAGGTTTTCAAAA
* * * * * *
1478096 GGGTTTCTCTT-GATCT-AAATTGTTTAAAATTCATCAAATATCATCATTTA-ATTCATAGTAAA
1 GGATTTTTCTTAG-TTTAAAATT-TTTAAAATTCATCAAATATTATTATTTACA-CCAT--TAAA
*
1478158 TTAGTTTTCAAAAATTCATTTATTTTCATGAGTCTTTC-CT-CCTTGAAATTCCCCTATTTATGA
61 TTAGTTTTAAAAAATTCATTTATTTTCATGAGTCTTTCTCTCCCTTGAAATTCCCCTA-TTATGA
* * * *
1478221 AAAACAAAGTTTTTTGCTCTATAAATGTTTTCAAAA
125 AAAACAAAGTTTTCTACTCCATAAAGGTTTTCAAAA
* *
1478257 GGATTTTTCTTAGTTTAAAATTTTTAAAATTCATCTAATATTGTTATTTAGCACCCATTAAATTA
1 GGATTTTTCTTAGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTA-CA-CCATTAAATTA
* *
1478322 GATTTGAAAAATTCAATTTA
64 GTTTTAAAAAATTC-ATTTA
1478342 CTTCATAAAT
Statistics
Matches: 200, Mismatches: 34, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
160 14 0.07
161 89 0.44
162 12 0.06
163 10 0.05
164 3 0.01
165 72 0.36
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (160 bp):
GGATTTTTCTTAGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTACACCATTAAATTAGT
TTTAAAAAATTCATTTATTTTCATGAGTCTTTCTCTCCCTTGAAATTCCCCTATTATGAAAAACA
AAGTTTTCTACTCCATAAAGGTTTTCAAAA
Found at i:1478715 original size:15 final size:15
Alignment explanation
Indices: 1478681--1478716 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1478671 AGCTGAAAAT
1478681 GAAGAAAGAAAAAGA
1 GAAGAAAGAAAAAGA
*
1478696 G-AGAAAGGAAAAGA
1 GAAGAAAGAAAAAGA
1478710 GAAGAAA
1 GAAGAAA
1478717 ATAGAGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAAGAAAAAGA
Found at i:1482425 original size:52 final size:52
Alignment explanation
Indices: 1482347--1482474 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1482337 CGAAATATGA
*
1482347 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1482399 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1482451 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1482475 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1482501 original size:13 final size:13
Alignment explanation
Indices: 1482483--1482507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1482473 CAAAGATCAG
1482483 TGTATCGATACAA
1 TGTATCGATACAA
1482496 TGTATCGATACA
1 TGTATCGATACA
1482508 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1482586 original size:13 final size:13
Alignment explanation
Indices: 1482568--1482594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1482558 TACAAAACTT
1482568 ATGTATCGATACA
1 ATGTATCGATACA
1482581 ATGTATCGATACA
1 ATGTATCGATACA
1482594 A
1 A
1482595 CACTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1482591 original size:32 final size:33
Alignment explanation
Indices: 1482550--1482614 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1482540 TAGCTTAAAT
1482550 TGTATCGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
1482582 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
1482615 ATCTTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:1483439 original size:56 final size:52
Alignment explanation
Indices: 1483355--1483787 Score: 388
Period size: 49 Copynumber: 8.8 Consensus size: 52
1483345 GAAAAGTGAT
* * * * * *
1483355 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
1483410 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
1483463 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
1483506 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
1483556 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
1483604 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
1483653 -ATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
1483695 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
1483746 AAA--TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1483788 GAAGGGTTGC
Statistics
Matches: 326, Mismatches: 34, Indels: 42
0.81 0.08 0.10
Matches are distributed among these distances:
43 74 0.23
44 2 0.01
46 1 0.00
48 48 0.15
49 119 0.37
51 4 0.01
52 31 0.10
53 6 0.02
54 1 0.00
55 4 0.01
56 36 0.11
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:1483628 original size:49 final size:49
Alignment explanation
Indices: 1483419--1483787 Score: 476
Period size: 49 Copynumber: 7.7 Consensus size: 49
1483409 AAAAGGATGT
*
1483419 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1483471 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1483514 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1483562 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1483611 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1483660 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
**
1483703 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1483752 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1483788 GAAGGGTTGC
Statistics
Matches: 278, Mismatches: 26, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
43 76 0.27
45 1 0.00
47 1 0.00
48 48 0.17
49 121 0.44
52 31 0.11
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1483734 original size:92 final size:92
Alignment explanation
Indices: 1483410--1483792 Score: 543
Period size: 92 Copynumber: 4.1 Consensus size: 92
1483400 AGATGATGAA
* * * *
1483410 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAAT
1483475 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1483506 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
1483570 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
1483597 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
1483662 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1483695 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
1483760 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
1483787 AGAAGG
1 A-AAGG
1483793 GTTGCCACCG
Statistics
Matches: 261, Mismatches: 18, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
91 38 0.15
92 87 0.33
93 4 0.02
94 2 0.01
95 42 0.16
96 5 0.02
97 47 0.18
98 36 0.14
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:1483856 original size:34 final size:34
Alignment explanation
Indices: 1483787--1483852 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
1483777 TATTGGGCTT
1483787 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1483821 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1483853 GAAGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.27
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:1483930 original size:34 final size:34
Alignment explanation
Indices: 1483859--1484458 Score: 569
Period size: 34 Copynumber: 17.9 Consensus size: 34
1483849 TTGGGAAGGA
*
1483859 AAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1483893 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1483927 AAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--G
*
1483963 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AG
*
1483998 AAAAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-G
**
1484033 AAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAG
1 -AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1484068 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
* * * *
1484102 AAGAAG-GTTGCCACCGACTTGTGTGGGCTTTAGGAAGGG
1 AAAAAGAG-TGCCACGGA-GT-TGTGGGCTTTA--AA-AG
* * *
1484141 AGAAAGA-TGTCACGGAGTTGTGGAC-TTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1484175 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1484209 AAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1484243 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-G
* *
1484277 AAAAA-AGTGCCACAGAATTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1484310 -----G-GTGCCACGGAGTTGTGGAC-TTAAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-G
*
1484339 AAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
*
1484372 -----G-GTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G
*
1484400 AACAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
1484432 AAAAA-A-TGCCACTGAGTTGTGGACTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
1484459 GAGACAAAAT
Statistics
Matches: 482, Mismatches: 36, Indels: 99
0.78 0.06 0.16
Matches are distributed among these distances:
27 11 0.02
28 35 0.07
29 1 0.00
31 19 0.04
32 8 0.02
33 95 0.20
34 139 0.29
35 66 0.14
36 39 0.08
37 55 0.11
38 9 0.02
39 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
Found at i:1483971 original size:70 final size:67
Alignment explanation
Indices: 1483857--1484492 Score: 593
Period size: 62 Copynumber: 9.5 Consensus size: 67
1483847 CTTTGGGAAG
*
1483857 GAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTT
1483921 TAAAA
63 TAAAA
1483926 GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1483991 TAAACG
63 TAAA-A
* * **
1483997 GAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAAAGAGTGCCACGGAGTTGTGGGCTT
1484062 TAAAA
63 TAAAA
* * * * *
1484067 GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTTGCCACCGACTTGTGTGGGCT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGAG-TGCCACGGA-GT-TGTGGGCT
*
1484131 TTAGGAAG
62 TTA--AAA
* * * *
1484139 GGAGAAAGATGTCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTT
1484203 TAAAA
63 TAAAA
*
1484208 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1484271 AAGA
65 AA-A
* * *
1484275 TGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG-----G-GTGCCACGGAGTTGTGGAC-TTA
1 -GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1484333 AAGA
65 AA-A
* *
1484337 TGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-----G-GTGCCACGGAGTTGTGGAC-TTA
1 -GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1484395 AAA
65 AAA
* * * *
1484398 GGAACAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA-A-TGCCACTGAGTTGTGGACTTT-
1 -GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
*
1484459 -GA
65 AAA
* * * *
1484461 GACAAAA-TGCCACTGAGTCGTGGACTTTAAAA
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
1484493 AGGTATTTGA
Statistics
Matches: 500, Mismatches: 42, Indels: 57
0.83 0.07 0.10
Matches are distributed among these distances:
60 4 0.01
61 45 0.09
62 93 0.19
63 1 0.00
64 17 0.03
65 2 0.00
66 5 0.01
67 25 0.05
68 79 0.16
69 22 0.04
70 88 0.18
71 77 0.15
72 11 0.02
73 30 0.06
74 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (67 bp):
GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
AA
Found at i:1484054 original size:141 final size:134
Alignment explanation
Indices: 1483854--1484492 Score: 642
Period size: 141 Copynumber: 4.8 Consensus size: 134
1483844 GGGCTTTGGG
* *
1483854 AAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1 AAGG-AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1483918 CTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTT
65 CTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGTT
*
1483983 GTGGGCTTTA
126 GTGGAC-TTA
* * **
1483993 AACGGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGG
1 AA-GGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGG
* * * * *
1484058 GCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTTGCCACCGACTTG
64 GCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGG-TGCCACGGA-GT-
*
1484123 TGTGGGCTTTA
125 TGTGGAC-TTA
* * * *
1484134 GGAAGGGAGAAAGATGTCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTG
1 --AA-GGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTG
1484198 GGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTG
63 GGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTG
1484263 TGGACTTA
127 TGGACTTA
* * *
1484271 AAGATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAA--G-----G-GTGCCACGGAGTTGTGG
1 AAG--GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGG
* *
1484328 AC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTG
64 GCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTG
1484387 TGGACTTAA
127 TGGACTT-A
* * *
1484396 AAGGAACAAGGTGCCACGGAGTTGTGGGCTTT-AAA--GAAAAA-A-TGCCACTGAGTTGTGGAC
1 AAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
* * * * *
1484456 TTT--GAGACAAAA-TGCCACTGAGTCGTGGACTTTAAAA
66 TTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
1484493 AGGTATTTGA
Statistics
Matches: 432, Mismatches: 47, Indels: 59
0.80 0.09 0.11
Matches are distributed among these distances:
122 25 0.06
123 31 0.07
124 23 0.05
125 4 0.01
126 17 0.04
127 2 0.00
128 5 0.01
129 24 0.06
130 29 0.07
134 1 0.00
135 3 0.01
136 19 0.04
137 9 0.02
138 7 0.02
139 39 0.09
140 13 0.03
141 155 0.36
142 2 0.00
143 24 0.06
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (134 bp):
AAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
TTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGA
CTTA
Found at i:1484317 original size:28 final size:28
Alignment explanation
Indices: 1484283--1484399 Score: 110
Period size: 28 Copynumber: 4.0 Consensus size: 28
1484273 GATGAAAAAA
* *
1484283 GTGCCACAGAATTGTGGGCTTTAAAAGG
1 GTGCCACGGAATTGTGGACTTTAAAAGG
* **
1484311 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAA
1 GTGCCACGGAATTGTGGACTT-----T-AAAAGG
*
1484345 GTGCCACGGAATTGTGGGCTTTAAAAGG
1 GTGCCACGGAATTGTGGACTTTAAAAGG
*
1484373 GTGCCACGGAGTTGTGGAC-TTAAAAGG
1 GTGCCACGGAATTGTGGACTTTAAAAGG
1484400 AACAAGGTGC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
27 8 0.11
28 39 0.54
29 1 0.01
33 1 0.01
34 23 0.32
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (28 bp):
GTGCCACGGAATTGTGGACTTTAAAAGG
Found at i:1485539 original size:17 final size:16
Alignment explanation
Indices: 1485516--1485569 Score: 83
Period size: 17 Copynumber: 3.3 Consensus size: 16
1485506 AGCTTTTCTG
1485516 TTTTGTTTTTTTCTTT
1 TTTTGTTTTTTTCTTT
1485532 TCTTTG-TTTTTTCTTT
1 T-TTTGTTTTTTTCTTT
1485548 TTTTGTTTTGTTTCTTT
1 TTTTGTTTT-TTTCTTT
1485565 TTTTG
1 TTTTG
1485570 GAAAAGAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.11
16 15 0.43
17 16 0.46
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.83
Consensus pattern (16 bp):
TTTTGTTTTTTTCTTT
Found at i:1485548 original size:24 final size:24
Alignment explanation
Indices: 1485510--1485567 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1485500 TTATCGAGCT
* *
1485510 TTTCTGTTTTGTTTTTTTCTTTTC
1 TTTCTTTTTTCTTTTTTTCTTTTC
* * *
1485534 TTTGTTTTTTCTTTTTTTGTTTTG
1 TTTCTTTTTTCTTTTTTTCTTTTC
1485558 TTTCTTTTTT
1 TTTCTTTTTT
1485568 TGGAAAAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (24 bp):
TTTCTTTTTTCTTTTTTTCTTTTC
Found at i:1485822 original size:9 final size:9
Alignment explanation
Indices: 1485808--1485858 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
1485798 CTTTGCATTT
1485808 TTTTTTGTG
1 TTTTTTGTG
*
1485817 TTTTTTTTG
1 TTTTTTGTG
1485826 TTTTTT-TG
1 TTTTTTGTG
1485834 TTGTTTTGT-
1 TT-TTTTGTG
*
1485843 TTTTTTATGG
1 TTTTTTGT-G
1485853 TTTTTT
1 TTTTTT
1485859 TTTTCATCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 9 0.25
9 20 0.56
10 7 0.19
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.82
Consensus pattern (9 bp):
TTTTTTGTG
Found at i:1485822 original size:11 final size:11
Alignment explanation
Indices: 1485806--1485860 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
1485796 GCCTTTGCAT
1485806 TTTTTTTTGTG
1 TTTTTTTTGTG
1485817 TTTTTTTTGT-
1 TTTTTTTTGTG
1485827 TTTTTTGTTGTTTTG
1 TTTTTT-TTG---TG
1485842 TTTTTTTATG-G
1 TTTTTTT-TGTG
1485853 TTTTTTTT
1 TTTTTTTT
1485861 TTCATCACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
10 7 0.18
11 21 0.55
14 2 0.05
15 8 0.21
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:1485824 original size:16 final size:16
Alignment explanation
Indices: 1485805--1485862 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
1485795 TGCCTTTGCA
*
1485805 TTTTTTTTTGTGTTTT
1 TTTTTTTTTATGTTTT
*
1485821 TTTTGTTTTTTTGTTGTT
1 TTTT-TTTTTATGTT-TT
1485839 TTGTTTTTTTATGGTTTT
1 TT-TTTTTTTAT-GTTTT
1485857 TTTTTT
1 TTTTTT
1485863 CATCACTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.11
17 13 0.36
18 14 0.39
19 5 0.14
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTATGTTTT
Found at i:1485829 original size:8 final size:8
Alignment explanation
Indices: 1485808--1485848 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
1485798 CTTTGCATTT
1485808 TTTTTTGTG
1 TTTTTT-TG
1485817 TTTTTTTTG
1 -TTTTTTTG
1485826 TTTTTTTG
1 TTTTTTTG
*
1485834 TTGTTTTG
1 TTTTTTTG
1485842 TTTTTTT
1 TTTTTTT
1485849 ATGGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.72
9 2 0.07
10 6 0.21
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1492793 original size:52 final size:52
Alignment explanation
Indices: 1492715--1492842 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1492705 CGAAATATGA
*
1492715 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1492767 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1492819 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1492843 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1492869 original size:13 final size:13
Alignment explanation
Indices: 1492851--1492875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1492841 CAAAGATCAG
1492851 TGTATCGATACAA
1 TGTATCGATACAA
1492864 TGTATCGATACA
1 TGTATCGATACA
1492876 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1492953 original size:33 final size:33
Alignment explanation
Indices: 1492916--1492982 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1492906 AGTAGCTTAA
1492916 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1492949 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1492982 A
1 A
1492983 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1492956 original size:13 final size:13
Alignment explanation
Indices: 1492938--1492962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1492928 CAAAAAAATA
1492938 TGTATCGATACAT
1 TGTATCGATACAT
1492951 TGTATCGATACA
1 TGTATCGATACA
1492963 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1494671 original size:80 final size:79
Alignment explanation
Indices: 1494572--1494729 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 79
1494562 ACATCTCCCG
* * * *
1494572 ACGAGAAATTTAATATTTTGGAGTTAATA-ACGGGGTTGGAGTATCCCCTCGAAAATAATGGGGT
1 ACGAGAAATTCAATATTTTGGA-ATAA-AGACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGA
1494636 TGGAGTATCCACGATT
64 TGGAGTATCCACGATT
* * *
1494652 ACGAGAAA-TCAATATTTTTGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAGTGACGGGGAT
1 ACGAGAAATTCAATA-TTTTGGAATAAAGACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGAT
*
1494716 GGAGTATCCCCGAT
65 GGAGTATCCACGAT
1494730 GATTAACGGG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 52 0.76
80 15 0.22
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (79 bp):
ACGAGAAATTCAATATTTTGGAATAAAGACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGATG
GAGTATCCACGATT
Found at i:1494746 original size:27 final size:27
Alignment explanation
Indices: 1494681--1494756 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
1494671 GGAATAAAGC
*
1494681 CGGGGTTGGAGTATCCCCTCGA-AAGTGA
1 CGGGGTTGGAGTAT-CCC-CGATAAGTAA
* * *
1494709 CGGGGATGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAGTAA
1494736 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1494757 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.07
27 26 0.62
28 13 0.31
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAGTAA
Found at i:1497185 original size:13 final size:13
Alignment explanation
Indices: 1497167--1497192 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1497157 ATAAAGATCG
1497167 ATGTATCGATACA
1 ATGTATCGATACA
1497180 ATGTATCGATACA
1 ATGTATCGATACA
1497193 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1497248 original size:19 final size:21
Alignment explanation
Indices: 1497224--1497275 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
1497214 AGCGATACAC
*
1497224 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
1497243 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
*
1497264 TGTATTGATACA
1 TGTATCGATACA
1497276 AATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
20 5 0.17
21 12 0.41
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:1498290 original size:28 final size:28
Alignment explanation
Indices: 1498259--1498345 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
1498249 TTGAAGATTG
1498259 GAAAATGCCACCAACTTTTGTGGGCTTT
1 GAAAATGCCACCAACTTTTGTGGGCTTT
* ** ** * * *
1498287 G-AAAGGCGTCCTGCTCTTTGAGGAC-TG
1 GAAAATGCCACCAACT-TTTGTGGGCTTT
*
1498314 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTTTGTGGGCTTT
1498342 GAAA
1 GAAA
1498346 GGCGTCCTGC
Statistics
Matches: 39, Mismatches: 17, Indels: 6
0.63 0.27 0.10
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (28 bp):
GAAAATGCCACCAACTTTTGTGGGCTTT
Found at i:1498316 original size:55 final size:54
Alignment explanation
Indices: 1498240--1498598 Score: 459
Period size: 55 Copynumber: 6.4 Consensus size: 54
1498230 AGAGAAAGCA
* * *
1498240 TCCTGCTCTTTGAAGATTGGAAAATGCCACCAACTTTTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1498295 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *** * *
1498350 TCCTGCACTAAAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1498405 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1498460 TCCTGCTCTTTGAGGACT-AAAAGGAACCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATG--CCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1498515 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
1498576 TCCTGCTCTTTGAGGACTGAAAA
1 TCCTGCTCTTTGAGGACTGAAAA
1498599 GTGGGAGGAG
Statistics
Matches: 269, Mismatches: 24, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.00
54 7 0.03
55 230 0.86
57 3 0.01
60 4 0.01
61 24 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1498410 original size:110 final size:110
Alignment explanation
Indices: 1498171--1498569 Score: 525
Period size: 110 Copynumber: 3.6 Consensus size: 110
1498161 CTTTGAAAAG
* * *
1498171 GAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAA
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG--AA-AG--
* * * *
1498236 AGCATCCTGCTCTTTGAA-GATTGGAAA-ATGCCACCAACTTTTGTGGGCTTT
61 -GCATCCTGCTC-TTAAAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTT
* *
1498287 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* *
1498352 CTGCACTAAAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT
66 CTGCTCTTAAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT
1498397 GAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
** * ** *
1498461 CCTGCTCTTTGAGGACTAAAAGGAACCACCAACTTGTGTGGGCTTT
65 CCTGCTCTTAAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT
* *
1498507 GAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1498570 AAGGCATCCT
Statistics
Matches: 256, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
109 11 0.04
110 186 0.73
111 3 0.01
113 2 0.01
114 2 0.01
116 52 0.20
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (110 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
CTGCTCTTAAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT
Found at i:1498450 original size:165 final size:165
Alignment explanation
Indices: 1498110--1498598 Score: 583
Period size: 165 Copynumber: 2.9 Consensus size: 165
1498100 AGAGGAAAAT
* * *
1498110 AAAGTGCATCTTGCTCTTTGAGGACTGGAAAATGCTACCAACTCGTGTGGGCTTTGAAAAGGAAA
1 AAAG-GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------GAAA
*
1498175 GGCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGC
59 GGCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGC-AA-AG---GC
* * *
1498239 ATCCTGCTCTTTGAAGATTGGAAAATGCCACCAACTTTTGTGGGCTTTG
118 ATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
*
1498288 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *** * *
1498353 TGCACTAAAAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTG-AAAGGCGTCCTGCTCTTTG
66 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGCATCCTGCTCTTTG
*
1498417 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
131 AGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG
*
1498453 AAAGGCATCCTGCTCTTTGAGGACT--AAAAGGAACCACCAACTTGTGTGGGCTTTGAAAGGCGT
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATG--CCACCAACTTGTGTGGGCTTTGAAAGGCGT
*
1498516 CCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCAAAGGCATCCT
64 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GCAAAGGCATCCT
1498580 GCTCTTTGAGGACTGAAAA
123 GCTCTTTGAGGACTGAAAA
1498599 GTGGGAGGAG
Statistics
Matches: 275, Mismatches: 25, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
163 5 0.02
164 4 0.01
165 131 0.48
166 3 0.01
168 2 0.01
169 2 0.01
170 1 0.00
171 76 0.28
172 1 0.00
177 46 0.17
178 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (165 bp):
AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGCATCCTGCTCTTTG
AGGACTGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1499572 original size:1 final size:1
Alignment explanation
Indices: 1499566--1499643 Score: 75
Period size: 1 Copynumber: 78.0 Consensus size: 1
1499556 CAGATTCTTC
* * * * * * **
1499566 TTTTTTTTTTCTTTTTTCTTTGTTTTTTTGTTTTTTTTTGTTTTTTTTGTTTTTTTTGGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1499631 TTGTTTTTTTTTT
1 TTTTTTTTTTTTT
1499644 AAAAAGAATG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:1499582 original size:9 final size:9
Alignment explanation
Indices: 1499568--1499641 Score: 96
Period size: 9 Copynumber: 7.9 Consensus size: 9
1499558 GATTCTTCTT
*
1499568 TTTTTTTTC
1 TTTTTTTTG
1499577 TTTTTTCTT-
1 TTTTTT-TTG
1499586 TGTTTTTTTG
1 T-TTTTTTTG
1499596 TTTTTTTTTG
1 -TTTTTTTTG
1499606 TTTTTTTTG
1 TTTTTTTTG
1499615 TTTTTTTTGG
1 TTTTTTTT-G
1499625 TTTTTTTTG
1 TTTTTTTTG
1499634 TTTTTTTT
1 TTTTTTTT
1499642 TTAAAAAGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
9 35 0.58
10 24 0.40
11 1 0.02
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1499593 original size:19 final size:17
Alignment explanation
Indices: 1499566--1499643 Score: 93
Period size: 19 Copynumber: 4.2 Consensus size: 17
1499556 CAGATTCTTC
*
1499566 TTTTTTTTTTCTTTTTT
1 TTTTTTTTTTGTTTTTT
1499583 CTTTGTTTTTTTGTTTTTTT
1 -TTT-TTTTTTTG-TTTTTT
1499603 TTGTTTTTTTTGTTTTTT
1 TT-TTTTTTTTGTTTTTT
1499621 TTGGTTTTTTTTGTTTTTT
1 TT--TTTTTTTTGTTTTTT
1499640 TTTT
1 TTTT
1499644 AAAAAGAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
17 2 0.04
18 11 0.20
19 35 0.64
20 7 0.13
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTTT
Found at i:1499599 original size:28 final size:28
Alignment explanation
Indices: 1499568--1499642 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 28
1499558 GATTCTTCTT
1499568 TTTTTTTTCTTTTTTCTTTG-TTTTTTT-G
1 TTTTTTTT-TTTTTT-TTTGTTTTTTTTGG
1499596 TTTTTTTTTGTTTTTTTTGTTTTTTTTGG
1 TTTTTTTTT-TTTTTTTTGTTTTTTTTGG
1499625 TTTTTTTTGTTTTTTTTT
1 TTTTTTTT-TTTTTTTTT
1499643 TAAAAAGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.12
28 20 0.47
29 17 0.40
30 1 0.02
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (28 bp):
TTTTTTTTTTTTTTTTTGTTTTTTTTGG
Found at i:1506171 original size:32 final size:30
Alignment explanation
Indices: 1506135--1506193 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1506125 GAAATCAAAT
1506135 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1506167 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1506194 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1508580 original size:21 final size:20
Alignment explanation
Indices: 1508551--1508593 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1508541 GACTAGTGTG
* *
1508551 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1508572 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1508592 GG
1 GG
1508594 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1509046 original size:13 final size:13
Alignment explanation
Indices: 1509024--1509061 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1509014 ATAATCCCCC
1509024 TGTATCGATACAG
1 TGTATCGATACAG
* *
1509037 TGTATAGATACAT
1 TGTATCGATACAG
1509050 TGTATCGATACA
1 TGTATCGATACA
1509062 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1513135 original size:13 final size:13
Alignment explanation
Indices: 1513117--1513154 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1513107 CATTTTTCTT
1513117 TGTATCGATACAA
1 TGTATCGATACAA
*
1513130 TGTATCGATACAC
1 TGTATCGATACAA
1513143 TGTATCGATACA
1 TGTATCGATACA
1513155 GAGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1515659 original size:19 final size:19
Alignment explanation
Indices: 1515635--1515699 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1515625 TAGCCAAACT
1515635 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1515654 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1515667 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1515688 TGTATCGATACA
1 TGTATCGATACA
1515700 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1515671 original size:13 final size:13
Alignment explanation
Indices: 1515653--1515678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1515643 TACACAAAAT
1515653 ATGTATCGATACA
1 ATGTATCGATACA
1515666 ATGTATCGATACA
1 ATGTATCGATACA
1515679 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1515676 original size:32 final size:33
Alignment explanation
Indices: 1515635--1515699 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1515625 TAGCCAAACT
1515635 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1515667 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1515700 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1520420 original size:13 final size:13
Alignment explanation
Indices: 1520402--1520427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1520392 CAATTTTTTG
1520402 TGTATCGATACAT
1 TGTATCGATACAT
1520415 TGTATCGATACAT
1 TGTATCGATACAT
1520428 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1520439 original size:32 final size:33
Alignment explanation
Indices: 1520382--1520445 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1520372 TACAAGCCAA
**
1520382 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1520415 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1520446 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1522199 original size:98 final size:96
Alignment explanation
Indices: 1522056--1522234 Score: 236
Period size: 98 Copynumber: 1.8 Consensus size: 96
1522046 TTTTTAGTTG
* * * * * *
1522056 AAAAATGGGGTTGGAGTATCCCTTCAGAGGAATGGGGTTGGAGTATCCTTGATGATGATAATTTG
1 AAAAATGGGGTTGGAGTATCCCCTCAGAAGAATGAGGTTGAAGTATCC-TAATGATGACAATTT-
1522121 A-GCCAAGAATAAGATTTAAATCTTGAGAAGGTT
64 ATGCCAA-AATAAGATTTAAATCTTGAGAAGGTT
*
1522154 AAAAGTGGGGTTGGAGTATCCCCTC-GAAAGAATGAGGTTGAAGTATCCTAATGATGACAATTTA
1 AAAAATGGGGTTGGAGTATCCCCTCAG-AAGAATGAGGTTGAAGTATCCTAATGATGACAATTTA
*
1522218 TGCTAAAATAAGATTTA
65 TGCCAAAATAAGATTTA
1522235 GATCATGACA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
96 12 0.17
97 18 0.25
98 41 0.58
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (96 bp):
AAAAATGGGGTTGGAGTATCCCCTCAGAAGAATGAGGTTGAAGTATCCTAATGATGACAATTTAT
GCCAAAATAAGATTTAAATCTTGAGAAGGTT
Found at i:1524027 original size:519 final size:519
Alignment explanation
Indices: 1523048--1524090 Score: 2086
Period size: 519 Copynumber: 2.0 Consensus size: 519
1523038 GTTGGCTAAC
1523048 ATGCAATAGGTGTGTTAAAATTTTAAAATGTTTTAGTAAAAGCTTTAAGCTCATGTTAATCCCCA
1 ATGCAATAGGTGTGTTAAAATTTTAAAATGTTTTAGTAAAAGCTTTAAGCTCATGTTAATCCCCA
1523113 TTGATTGAAGCTAACATGCTTAACTTGGGGAGGTTTTGAAAAATCAGTTTTTGTTGGCTAGCAAG
66 TTGATTGAAGCTAACATGCTTAACTTGGGGAGGTTTTGAAAAATCAGTTTTTGTTGGCTAGCAAG
1523178 CATGCATTTTGACAAGGAAAATAAGATGAACATGTAAGTAAATGATGAGTGAAATTTATGGAGAT
131 CATGCATTTTGACAAGGAAAATAAGATGAACATGTAAGTAAATGATGAGTGAAATTTATGGAGAT
1523243 ATGGCTATCTAAATGAGAAGTTGATCATGATAAGAGGAATGATGCAAAAATAGGATTATTTAAAG
196 ATGGCTATCTAAATGAGAAGTTGATCATGATAAGAGGAATGATGCAAAAATAGGATTATTTAAAG
1523308 ACAAGCATGCAGAAATTTTAATGGCGAGATTTCATACTATAGATTATGGCAAAAATACAAATCGA
261 ACAAGCATGCAGAAATTTTAATGGCGAGATTTCATACTATAGATTATGGCAAAAATACAAATCGA
1523373 TGCATGAACATGCTTATGAGATGCTAGTTTAAACATTAACTATAGATCAGACATGCTAAAATGCA
326 TGCATGAACATGCTTATGAGATGCTAGTTTAAACATTAACTATAGATCAGACATGCTAAAATGCA
1523438 TGAAACATGGTACAAAATGCATGAACATGTGGCTATCAAGATGATGGAGATGAATATGGCATTTT
391 TGAAACATGGTACAAAATGCATGAACATGTGGCTATCAAGATGATGGAGATGAATATGGCATTTT
1523503 AGTCACACAAATGACATCATGACATCAAAACAATCCTAAAAATACCACATCTAAGGCCATAATA
456 AGTCACACAAATGACATCATGACATCAAAACAATCCTAAAAATACCACATCTAAGGCCATAATA
1523567 ATGCAATAGGTGTGTTAAAATTTTAAAATGTTTTAGTAAAAGCTTTAAGCTCATGTTAATCCCCA
1 ATGCAATAGGTGTGTTAAAATTTTAAAATGTTTTAGTAAAAGCTTTAAGCTCATGTTAATCCCCA
1523632 TTGATTGAAGCTAACATGCTTAACTTGGGGAGGTTTTGAAAAATCAGTTTTTGTTGGCTAGCAAG
66 TTGATTGAAGCTAACATGCTTAACTTGGGGAGGTTTTGAAAAATCAGTTTTTGTTGGCTAGCAAG
1523697 CATGCATTTTGACAAGGAAAATAAGATGAACATGTAAGTAAATGATGAGTGAAATTTATGGAGAT
131 CATGCATTTTGACAAGGAAAATAAGATGAACATGTAAGTAAATGATGAGTGAAATTTATGGAGAT
1523762 ATGGCTATCTAAATGAGAAGTTGATCATGATAAGAGGAATGATGCAAAAATAGGATTATTTAAAG
196 ATGGCTATCTAAATGAGAAGTTGATCATGATAAGAGGAATGATGCAAAAATAGGATTATTTAAAG
1523827 ACAAGCATGCAGAAATTTTAATGGCGAGATTTCATACTATAGATTATGGCAAAAATACAAATCGA
261 ACAAGCATGCAGAAATTTTAATGGCGAGATTTCATACTATAGATTATGGCAAAAATACAAATCGA
1523892 TGCATGAACATGCTTATGAGATGCTAGTTTAAACATTAACTATAGATCAGACATGCTAAAATGCA
326 TGCATGAACATGCTTATGAGATGCTAGTTTAAACATTAACTATAGATCAGACATGCTAAAATGCA
1523957 TGAAACATGGTACAAAATGCATGAACATGTGGCTATCAAGATGATGGAGATGAATATGGCATTTT
391 TGAAACATGGTACAAAATGCATGAACATGTGGCTATCAAGATGATGGAGATGAATATGGCATTTT
1524022 AGTCACACAAATGACATCATGACATCAAAACAATCCTAAAAATACCACATCTAAGGCCATAATA
456 AGTCACACAAATGACATCATGACATCAAAACAATCCTAAAAATACCACATCTAAGGCCATAATA
1524086 ATGCA
1 ATGCA
1524091 TGATGATCTT
Statistics
Matches: 524, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
519 524 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (519 bp):
ATGCAATAGGTGTGTTAAAATTTTAAAATGTTTTAGTAAAAGCTTTAAGCTCATGTTAATCCCCA
TTGATTGAAGCTAACATGCTTAACTTGGGGAGGTTTTGAAAAATCAGTTTTTGTTGGCTAGCAAG
CATGCATTTTGACAAGGAAAATAAGATGAACATGTAAGTAAATGATGAGTGAAATTTATGGAGAT
ATGGCTATCTAAATGAGAAGTTGATCATGATAAGAGGAATGATGCAAAAATAGGATTATTTAAAG
ACAAGCATGCAGAAATTTTAATGGCGAGATTTCATACTATAGATTATGGCAAAAATACAAATCGA
TGCATGAACATGCTTATGAGATGCTAGTTTAAACATTAACTATAGATCAGACATGCTAAAATGCA
TGAAACATGGTACAAAATGCATGAACATGTGGCTATCAAGATGATGGAGATGAATATGGCATTTT
AGTCACACAAATGACATCATGACATCAAAACAATCCTAAAAATACCACATCTAAGGCCATAATA
Found at i:1524943 original size:20 final size:20
Alignment explanation
Indices: 1524914--1524951 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1524904 TTAAAAACCC
*
1524914 AGAATGTATCGATACAATAA
1 AGAATATATCGATACAATAA
1524934 AGAATATATCGATACAAT
1 AGAATATATCGATACAAT
1524952 TGGGCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
AGAATATATCGATACAATAA
Found at i:1525109 original size:20 final size:20
Alignment explanation
Indices: 1525060--1525109 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1525050 TTCAAGCATT
1525060 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATG
* *
1525080 TATTGCTACATT-ACCTTATG
1 TATCGATACATTCA-CTTATG
1525100 TATCGATACA
1 TATCGATACA
1525110 AATTGTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
TATCGATACATTCACTTATG
Found at i:1526024 original size:105 final size:104
Alignment explanation
Indices: 1525749--1526591 Score: 672
Period size: 105 Copynumber: 8.1 Consensus size: 104
1525739 TAAGAGCACT
* * * * * * *
1525749 AATATGCTGATTCAAGGCTAGTGACATTAGATTTAAAAATGATAA-AGGTGCCAATGTGCTGATT
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGA-GTGCCAATGTGCT-ATT
* * * *
1525813 CTAGGCCAATGACATTGGATTTAAAGATGAT-AAAGGTGCC
64 CAAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
* * * * * * * * *
1525853 ATTGTACTGATTC-AGAGCCAAG-AACATTGGATTTAAAGATGATAA-AGGTGCCATTGTGTTGA
1 AATATGCTGATTCAAG-GCC-AGCGATATTGGACTTAAAGATGACAAGA-GTGCCAATGTGCT-A
* * *
1525915 TTCAAGGCCAATGACATTGCACTTAAAGATGATAAAAGGTGCC
62 TTCAAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
* *** * * *
1525958 AATATGCTGATTCAAGGCCAGTGATATCAAACTTAAAGTTGAGAAGAGTGCCAAAGTGCTACTTC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCTA-TTC
* *** * * * *
1526023 AAGGCTAGCAACATTGGATTTAAAGATGACAAAAGGTGCC
65 AAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
* * * *
1526063 AATATGCTAATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAGAGTGCTAATGTACTAATTC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCT-ATTC
* *
1526128 AAGGCTAATGACATTGGACTTAAAGATAATAAAAAATGCC
65 AAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
* * * * *
1526168 AATATGCTGATTCAAGGCTAGCAATATTGGACTTAAAGATGACAAGAGTGCTAATGCGTTGATTC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCT-ATTC
* *
1526233 AAGGCCAGTGACATTGGACTTAAAGATAATAAAAAGTACC
65 AAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
* * * * *
1526273 AATATGTTGATTCAAGGTCAGCGATATTGGACTTAAAGATGACAAGAGTTCCAATGCGTTGATTC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCT-ATTC
* ** * *
1526338 AAGGCTAGCGACATTGGACTTAAAG---ATAAAAAGTACT
65 AAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
** * * * * * *
1526375 AAGCTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAT-A-AAAAGTACTAATATGTTGATTC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCT-ATTC
* * * * *
1526438 AAGGCCAAGGATATTGGACTTAAAG-TGACAAGAA-TGCC
65 AAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
* * * * * * * *
1526476 AATGTGTTGTTTCAAGGCTAGCGACATTGGACTTAAAGAT-A-AAAAGTACCAATATGCTGATTC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCT-ATTC
** * * * *
1526539 AAGGCCAGCGATATTGGACTTAAAGATGA-CAAGAGTGCC
65 AAGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
*
1526578 AATGTGCTGATTCA
1 AATATGCTGATTCA
1526592 GAGTCAGCGG
Statistics
Matches: 622, Mismatches: 105, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
100 38 0.06
101 82 0.13
102 70 0.11
103 2 0.00
104 80 0.13
105 346 0.56
106 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (104 bp):
AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGAGTGCCAATGTGCTATTCA
AGGCCAATGACATTGGACTTAAAGATAATAAAAAGTGCC
Found at i:1526607 original size:52 final size:52
Alignment explanation
Indices: 1525684--1526591 Score: 681
Period size: 52 Copynumber: 17.5 Consensus size: 52
1525674 GAAGATTTCT
* * * * * ** *
1525684 TGACAAATGTGCCAATGTACAGATTCAAGGCTTGTGGCACTGGACTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * ** * * * * * * *
1525736 TGATAAGAGCACTAATATGCTGATTCAAGGCTAGTGACATTAGATTTAAAAA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * ** * *
1525788 TGATAAAGGTGCCAATGTGCTGATTCTAGGCCAATGACATTGGATTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * * * * * *
1525840 TGATAAAGGTGCCATTGTACTGATTCAGAGCCAAG-AACATTGGATTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCA-AGGCTAGCGATATTGGACTTAAAGA
* * * * * ** * *
1525892 TGATAAAGGTGCCATTGTGTTGATTCAAGGCCAATGACATTGCACTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * *** *
1525944 TGATAAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATCAAACTTAAAGT
1 TGACAAAA-GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * * *
1525997 TGAGAAGAGTGCCAAAGTGCT-ACTTCAAGGCTAGCAACATTGGATTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGA-TTCAAGGCTAGCGATATTGGACTTAAAGA
* *
1526049 TGACAAAAGGTGCCAATATGCTAATTCAAGGCTAGCGATATTGGACTTAAAGA
1 TGACAAAA-GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * ** *
1526102 TGACAAGAGTGCTAATGTACTAATTCAAGGCTAATGACATTGGACTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * *
1526154 TAATAAAAAATGCCAATATGCTGATTCAAGGCTAGCAATATTGGACTTAAAGA
1 TGA-CAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * * * *
1526207 TGACAAGAGTGCTAATGCGTTGATTCAAGGCCAGTGACATTGGACTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * *
1526259 TAATAAAAAGTACCAATATGTTGATTCAAGG-TCAGCGATATTGGACTTAAAGA
1 TGA-CAAAAGTGCCAATGTGCTGATTCAAGGCT-AGCGATATTGGACTTAAAGA
* * * * *
1526312 TGACAAGAGTTCCAATGCGTTGATTCAAGGCTAGCGACATTGGACTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * *
1526364 T-A-AAAAGTACTAA-GCTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGA
1 TGACAAAAGTGCCAATG-TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * * * *
1526414 T-A-AAAAGTACTAATATGTTGATTCAAGGCCAAG-GATATTGGACTTAAAG-
1 TGACAAAAGTGCCAATGTGCTGATTCAAGG-CTAGCGATATTGGACTTAAAGA
* * *
1526463 TGACAAGAA-TGCCAATGTGTTGTTTCAAGGCTAGCGACATTGGACTTAAAGA
1 TGACAA-AAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
* * *
1526515 T-A-AAAAGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
*
1526565 TGACAAGAGTGCCAATGTGCTGATTCA
1 TGACAAAAGTGCCAATGTGCTGATTCA
1526592 GAGTCAGCGG
Statistics
Matches: 689, Mismatches: 146, Indels: 42
0.79 0.17 0.05
Matches are distributed among these distances:
49 4 0.01
50 122 0.18
51 45 0.07
52 346 0.50
53 171 0.25
54 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (52 bp):
TGACAAAAGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA
Found at i:1526705 original size:30 final size:29
Alignment explanation
Indices: 1526666--1526827 Score: 112
Period size: 29 Copynumber: 5.6 Consensus size: 29
1526656 CACCAACTTA
* **
1526666 TGTGCACTTTGAAAAAAGGTGTCGTGGAGT
1 TGTGGACTTT-AAAAAAGGTGTCACGGAGT
* *
1526696 TGTGGACTTT-AAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAAAGGTGTCACGGAGT
* *
1526724 TATGGACTTTAAAAAAGGTGTCACAGAGT
1 TGTGGACTTTAAAAAAGGTGTCACGGAGT
* * * * * **
1526753 GGTGGAGTTT-GAAAAGATGTGACATAGAT
1 TGTGGACTTTAAAAAAGGTGTCACGGAG-T
* * * *
1526782 TGTGGACTTTCAAAAGGGTGCCACGAAGT
1 TGTGGACTTTAAAAAAGGTGTCACGGAGT
* *
1526811 TATGAACTTTAAAAAAG
1 TGTGGACTTTAAAAAAG
1526828 TGCCACGAAG
Statistics
Matches: 100, Mismatches: 29, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
28 36 0.36
29 45 0.45
30 19 0.19
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (29 bp):
TGTGGACTTTAAAAAAGGTGTCACGGAGT
Found at i:1526714 original size:28 final size:28
Alignment explanation
Indices: 1526691--1527384 Score: 123
Period size: 30 Copynumber: 23.5 Consensus size: 28
1526681 AAGGTGTCGT
* *
1526691 GGAGTTGTGGACTTTAAAAGGGTGCCAC
1 GGAGTTATGGACTTTAAAAAGGTGCCAC
*
1526719 GGAGTTATGGACTTTAAAAAAGGTGTCAC
1 GGAGTTATGGACTTT-AAAAAGGTGCCAC
* ** * * * *
1526748 AGAGTGGTGGAGTTTGAAAAGATGTGACAT
1 GGAGTTATGGACTTT-AAAA-AGGTGCCAC
* * *
1526778 AGA-TTGTGGACTTTCAAAAGGGTGCCAC
1 GGAGTTATGGACTTT-AAAAAGGTGCCAC
* * *
1526806 GAAGTTATGAACTTTAAAAAAGTGCCAC
1 GGAGTTATGGACTTTAAAAAGGTGCCAC
* ** * *
1526834 GAAGACATGGACTTTGAAGAAGGGTGCCAT
1 GGAGTTATGGACTTT-AA-AAAGGTGCCAC
** ** ** *
1526864 TTAGTCCTGGGTTTTAAGAAGGGATGCCAC
1 GGAGTTATGGACTTTAA-AAAGG-TGCCAC
* ** * * *
1526894 TGAGTCGTCGACTTTGAGAAAGGATGCTAC
1 GGAGTTATGGACTTT-AAAAAGG-TGCCAC
** * * * *
1526924 GGAGTCGTCGACTTTGAGAAGGGATGCCAT
1 GGAGTTATGGACTTT-AAAAAGG-TGCCAC
* * * *
1526954 TGAGTTGTGGACTTTAAGAAGGGAGGCCAC
1 GGAGTTATGGACTTTAA-AAAGG-TGCCAC
** ** * *
1526984 TAAGTCGTAGACTTTGAGAAAGGATGCCAC
1 GGAGTTATGGACTTT-AAAAAGG-TGCCAC
** ** *
1527014 TAAGTCGTGGACTTTTGAGAAAGGATGCCAC
1 GGAGTTATGGAC-TTT-AAAAAGG-TGCCAC
** * * * *
1527045 TAAGTCATGGACTTTGAGAAGGGTGCTAC
1 GGAGTTATGGACTTT-AAAAAGGTGCCAC
* ** *
1527074 GGAGTTGTGGACTTTAAAAAATAATGCCAT
1 GGAGTTATGGACTTT-AAAAA-GGTGCCAC
* *
1527104 GAAGTTGTGGACTTTAAAAAGGTGCCAC
1 GGAGTTATGGACTTTAAAAAGGTGCCAC
* * *
1527132 GAAGATGTGGACTTTAAAGAAGGGTGCCA-
1 GGAGTTATGGACTTTAAA-AA-GGTGCCAC
** * * * *
1527161 TAAGTCATGGGCTTTGAGAACGGATGCCAC
1 GGAGTTATGGACTTT-AAAAAGG-TGCCAC
* * * *
1527191 TGAGTCATGGACTTTGAGAAGGGATGCCAC
1 GGAGTTATGGACTTT-AAAAAGG-TGCCAC
** * *
1527221 GGAGTGGTGGACTTTAAGAAGGGATACCAC
1 GGAGTTATGGACTTTAA-AAAGG-TGCCAC
** * * *
1527251 TAAGTCATGGACTTTGAAAAGGGATGCCAT
1 GGAGTTATGGACTTT-AAAAAGG-TGCCAC
** * * *
1527281 TAAGTTGTGGACTTTAAGAAGGGATGCCAT
1 GGAGTTATGGACTTTAA-AAAGG-TGCCAC
* * * *
1527311 TGAGTCATGGACTTTGAGAAATGTGCCAC
1 GGAGTTATGGACTTT-AAAAAGGTGCCAC
*
1527340 TGAGTTATGGACTTTAAAAAGAGATGCCAC
1 GGAGTTATGGACTTTAAAAAG-G-TGCCAC
** *
1527370 TAAGTCATGGACTTT
1 GGAGTTATGGACTTT
1527385 GAGAAGGTTA
Statistics
Matches: 528, Mismatches: 116, Indels: 42
0.77 0.17 0.06
Matches are distributed among these distances:
28 71 0.13
29 124 0.23
30 299 0.57
31 34 0.06
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (28 bp):
GGAGTTATGGACTTTAAAAAGGTGCCAC
Found at i:1526919 original size:30 final size:30
Alignment explanation
Indices: 1526880--1527389 Score: 394
Period size: 30 Copynumber: 17.1 Consensus size: 30
1526870 CTGGGTTTTA
* *
1526880 AGAAGGGATGCCACTGAGTCGTCGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * *
1526910 AGAAAGGATGCTACGGAGTCGTCGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * * *
1526940 AGAAGGGATGCCATTGAGTTGTGGACTTTA
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * * *
1526970 AGAAGGGAGGCCACTAAGTCGTAGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
*
1527000 AGAAAGGATGCCACTAAGTCGTGGACTTTTG
1 AGAAAGGATGCCACTGAGTCGTGGAC-TTTG
* *
1527031 AGAAAGGATGCCACTAAGTCATGGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * * * *
1527061 AG-AAGGGTGCTACGGAGTTGTGGACTTTA
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* ** *
1527090 AAAAATAATGCCA-TGAAGTTGTGGACTTT-
1 AGAAAGGATGCCACTG-AGTCGTGGACTTTG
*
1527119 AAAAAGG-TGCCAC-GAAGAT-GTGGACTTT-
1 AGAAAGGATGCCACTG-AG-TCGTGGACTTTG
* * * * *
1527147 AAAGAAGGGTGCCA-TAAGTCATGGGCTTTG
1 AGA-AAGGATGCCACTGAGTCGTGGACTTTG
* *
1527177 AGAACGGATGCCACTGAGTCATGGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * * *
1527207 AGAAGGGATGCCACGGAGTGGTGGACTTTA
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * * *
1527237 AGAAGGGATACCACTAAGTCATGGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * * *
1527267 A-AAAGGGATGCCATTAAGTTGTGGACTTTA
1 AGAAA-GGATGCCACTGAGTCGTGGACTTTG
* * *
1527297 AGAAGGGATGCCATTGAGTCATGGACTTTG
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* **
1527327 AGAAATG-TGCCACTGAGTTATGGACTTT-
1 AGAAAGGATGCCACTGAGTCGTGGACTTTG
* * *
1527355 AAAAAGAGATGCCACTAAGTCATGGACTTTG
1 AGAAAG-GATGCCACTGAGTCGTGGACTTTG
1527386 AGAA
1 AGAA
1527390 GGTTACTTTA
Statistics
Matches: 390, Mismatches: 74, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
28 26 0.07
29 71 0.18
30 259 0.66
31 34 0.09
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (30 bp):
AGAAAGGATGCCACTGAGTCGTGGACTTTG
Found at i:1527188 original size:177 final size:178
Alignment explanation
Indices: 1526959--1527389 Score: 435
Period size: 177 Copynumber: 2.4 Consensus size: 178
1526949 GCCATTGAGT
* *
1526959 TGTGGACTTTAAGAAGGGAGGCCACTAAGTCGTAGACTTTGAGAAAGGATGCCACTAAGTCGTGG
1 TGTGGACTTTAAGAAGGGAGGCCACTAAGTCATAGACTTTGAGAAAGGATGCCACTAAGTCATGG
* * * * * **
1527024 ACTTTTGAGAAAGGATGCCACTAAGTCATGGACTTTGAGAAGGG-TGCTACGGAGTTGTGGACTT
66 AC-TTTGAGAAAGGATGCCACGAAGTCATGGACTTTAAGAAGGGATACCACGAAGTCATGGACTT
*
1527088 TAAAAAATAATGCCATGAAGTTGTGGACTTTAAAAAGGTGCCACGAAGA
130 TAAAAAAGAATGCCATGAAGTTGTGGACTTTAAAAAGGTGCCACGAAGA
* * * * *
1527137 TGTGGACTTTAAAGAAGGG-TGCCA-TAAGTCATGGGCTTTGAGAACGGATGCCACTGAGTCATG
1 TGTGGACTTT-AAGAAGGGAGGCCACTAAGTCATAGACTTTGAGAAAGGATGCCACTAAGTCATG
* * ** *
1527200 GACTTTGAGAAGGGATGCCACGGAGTGGTGGACTTTAAGAAGGGATACCACTAAGTCATGGACTT
65 GACTTTGAGAAAGGATGCCACGAAGTCATGGACTTTAAGAAGGGATACCACGAAGTCATGGACTT
* * * * * *
1527265 TGAAAAGGGATGCCATTAAGTTGTGGACTTTAAGAAGGGATGCCATTG-AG-
130 TAAAAAAGAATGCCATGAAGTTGTGGACTTTAA-AAAGG-TGCCA-CGAAGA
* * ** * * * * *
1527315 TCATGGACTTTGAGAAATG-TGCCACTGAGTTATGGACTTT-AAAAAGAGATGCCACTAAGTCAT
1 T-GTGGACTTTAAGAAGGGAGGCCACTAAGTCATAGACTTTGAGAAAG-GATGCCACTAAGTCAT
1527378 GGACTTTGAGAA
64 GGACTTTGAGAA
1527390 GGTTACTTTA
Statistics
Matches: 209, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
176 35 0.17
177 78 0.37
178 33 0.16
179 62 0.30
180 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (178 bp):
TGTGGACTTTAAGAAGGGAGGCCACTAAGTCATAGACTTTGAGAAAGGATGCCACTAAGTCATGG
ACTTTGAGAAAGGATGCCACGAAGTCATGGACTTTAAGAAGGGATACCACGAAGTCATGGACTTT
AAAAAAGAATGCCATGAAGTTGTGGACTTTAAAAAGGTGCCACGAAGA
Found at i:1530855 original size:33 final size:33
Alignment explanation
Indices: 1530837--1530903 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
1530827 ACTATTTATG
1530837 ATGTATCAATACACTGTATCGATACACACAAAT
1 ATGTATCAATACACTGTATCGATACACACAAAT
*
1530870 ATGTATCGATACACTGTATCGATACACACAAAT
1 ATGTATCAATACACTGTATCGATACACACAAAT
1530903 A
1 A
1530904 CGTGAACAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (33 bp):
ATGTATCAATACACTGTATCGATACACACAAAT
Done.