Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 44 of 362
Found at i:12868430 original size:22 final size:22
Alignment explanation
Indices: 12868405--12868451 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12868395 GGCTTTATGT
12868405 CAACCTACATATGGCTCTGTGC
1 CAACCTACATATGGCTCTGTGC
*** *
12868427 CAACCTGGTTATGGCTGTGTGC
1 CAACCTACATATGGCTCTGTGC
12868449 CAA
1 CAA
12868452 ACGTATTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (22 bp):
CAACCTACATATGGCTCTGTGC
Found at i:12868630 original size:25 final size:26
Alignment explanation
Indices: 12868602--12868683 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 26
12868592 TGCCACGTAT
* *
12868602 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
12868627 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
* * * *
12868653 TCTGTACCTAGTGACTCTGTCACAATA
1 TCTGT-TCAAGTGGCTCTGCCACAATA
12868680 TCTG
1 TCTG
12868684 ATAACTGAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 6 0.13
26 20 0.43
27 21 0.45
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:12868853 original size:19 final size:19
Alignment explanation
Indices: 12868831--12868888 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
12868821 TTCTGATTTT
12868831 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
12868850 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
12868862 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
12868881 TGATTCTG
1 TGATTCTG
12868889 ATTCTGTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:12868858 original size:6 final size:6
Alignment explanation
Indices: 12868820--12868945 Score: 80
Period size: 6 Copynumber: 20.3 Consensus size: 6
12868810 TTGCATTCAC
* * *
12868820 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
12868870 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
12868920 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
12868946 AATGTTTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
5 6 0.06
6 71 0.76
7 14 0.15
8 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:12868866 original size:31 final size:31
Alignment explanation
Indices: 12868820--12868891 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
12868810 TTGCATTCAC
12868820 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
12868852 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
12868883 ATTCTGATT
1 ATTCTGATT
12868892 CTGTCACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 33 0.82
32 7 0.17
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:12868877 original size:25 final size:25
Alignment explanation
Indices: 12868849--12868934 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
12868839 TTACCTGATA
12868849 CTGATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTTTGATTCTGTTAC
* * *
12868874 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTTTGATTCTGTTAC
* *
12868899 CTAATTCTGATTTTGATTTTGATT--
1 CTGATTCTGATTTTGATTCTG-TTAC
12868923 CTGATTCTGATT
1 CTGATTCTGATT
12868935 CTAGTTCTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 11 0.22
25 39 0.76
26 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (25 bp):
CTGATTCTGATTTTGATTCTGTTAC
Found at i:12872800 original size:22 final size:21
Alignment explanation
Indices: 12872770--12872816 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
12872760 TACAAATTAA
12872770 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
12872792 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
12872813 ATCT
1 ATCT
12872817 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:12872822 original size:19 final size:19
Alignment explanation
Indices: 12872787--12872865 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
12872777 AGATTACAAG
12872787 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
12872808 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
12872825 ATCATATCTATGATTGCAT
1 ATCATATCTAAGATTGCAT
12872844 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12872863 ATC
1 ATC
12872866 CTTAAATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:12874212 original size:21 final size:21
Alignment explanation
Indices: 12874188--12874229 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12874178 TCAATATCAT
12874188 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CAGAATAAATTCAA
*
12874209 TATCTAACAGAATAAATTCAA
1 TATCCAACAGAATAAATTCAA
12874230 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (21 bp):
TATCCAACAGAATAAATTCAA
Found at i:12874263 original size:21 final size:21
Alignment explanation
Indices: 12874198--12874263 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
12874188 TATCCAACCA
12874198 AATAAATTCAATATCTAACAG
1 AATAAATTCAATATCTAACAG
* * *
12874219 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAG
12874244 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
12874264 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAG
Found at i:12885098 original size:30 final size:30
Alignment explanation
Indices: 12885064--12885124 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12885054 TCCTTAACTC
12885064 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12885094 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12885124 A
1 A
12885125 GCCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12887049 original size:43 final size:43
Alignment explanation
Indices: 12886996--12887314 Score: 462
Period size: 43 Copynumber: 7.4 Consensus size: 43
12886986 ATATCTTTTA
* * * * *
12886996 CGTAACCATATATCGATGCCAACGGCCTAGACGTGGTCTTACA
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* * * *
12887039 CGTAATCATATATCGATGACAAC-ACCTCAGACGTGGCCTTA-T
1 CGTAATCACATATCGATGCCAACGTCC-CAGACGTGGTCTTACT
* * *
12887081 ACGTAATCACATATTGATGCCAACATCCCAAACGTGGTCTTACT
1 -CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
12887125 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* *
12887168 CGTAATCACATATCGATGTCAATGTCCCAGACGTGGTCTTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
* *
12887211 CGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCCTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
12887254 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
1 CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
12887297 CGTAATCACATATCGATG
1 CGTAATCACATATCGATG
12887315 TCACATATAT
Statistics
Matches: 251, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
42 2 0.01
43 246 0.98
44 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
CGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACT
Found at i:12888625 original size:14 final size:15
Alignment explanation
Indices: 12888608--12888636 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12888598 CATGAAAATT
12888608 TCACACAT-ATAAAA
1 TCACACATAATAAAA
12888622 TCACACATAATAAAA
1 TCACACATAATAAAA
12888637 ACTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
TCACACATAATAAAA
Found at i:12891026 original size:20 final size:20
Alignment explanation
Indices: 12891001--12891039 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12890991 ATAATCATAT
12891001 TTTATTAAATAAAAATAATC
1 TTTATTAAATAAAAATAATC
12891021 TTTATTAAATAAAAATAAT
1 TTTATTAAATAAAAATAAT
12891040 ATTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTATTAAATAAAAATAATC
Found at i:12893299 original size:46 final size:46
Alignment explanation
Indices: 12893146--12893357 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 46
12893136 TTAATTGTGT
* * * *
12893146 GCCAGTGTAAGACATGTCTGAGACATGCATCGACCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * * *
12893192 GCCAGTGTAAGACCATGTCTGGGAGATGGCATTGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
*
12893240 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * *
12893286 GCCAGTGTAAGACATGTTTGGGACATGCATCGG-CTATGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* *
12893330 GTCAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
12893358 ATACATCGGC
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 62 0.45
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:12894129 original size:225 final size:225
Alignment explanation
Indices: 12893738--12894189 Score: 868
Period size: 225 Copynumber: 2.0 Consensus size: 225
12893728 AGCTCATGAG
12893738 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
1 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
*
12893803 AGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATATGTAACCTTACCA
66 AGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATATGTAACCATACCA
* *
12893868 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTATTATCGTTAATTTACACTAAAATAGTT
131 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
12893933 TTGGACAGCAGCCATAGTCCAACTTTGAAA
196 TTGGACAGCAGCCATAGTCCAACTTTGAAA
12893963 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
1 ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
*
12894028 TGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATATGTAACCATACCA
66 AGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATATGTAACCATACCA
12894093 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
131 ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
12894158 TTGGACAGCAGCCATAGTCCAACTTTGAAA
196 TTGGACAGCAGCCATAGTCCAACTTTGAAA
12894188 AT
1 AT
12894190 CCACCAAAAA
Statistics
Matches: 223, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
225 223 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (225 bp):
ATATGATTTCAGTTTATGATGCACATTTAGTGAAGATGTAAATAGGTAATTCATGCTTATGAGAA
AGATTTTGTGATGACCTTGTGATTATAGGTCTATACTTATGATGTATGAATATGTAACCATACCA
ATGTGGTAAAAATGAATTAATATGGTGTGATAAACTTAGTATCGTTAATTTACACTAAAACAGTT
TTGGACAGCAGCCATAGTCCAACTTTGAAA
Found at i:12895653 original size:19 final size:19
Alignment explanation
Indices: 12895629--12895677 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
12895619 CGACCTGAAG
* *
12895629 ACACGGGCGTTCCAAAGGC
1 ACACGGGCATGCCAAAGGC
12895648 ACACGGGCATGCCAAAGGC
1 ACACGGGCATGCCAAAGGC
12895667 ACACGGGCATG
1 ACACGGGCATG
12895678 TCCCTATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.33, T:0.08
Consensus pattern (19 bp):
ACACGGGCATGCCAAAGGC
Found at i:12905108 original size:43 final size:44
Alignment explanation
Indices: 12905061--12905196 Score: 117
Period size: 43 Copynumber: 3.2 Consensus size: 44
12905051 TCCCGGATAC
**
12905061 GGTCTTATACGAAATCA-T-ATAACGATGCCAATGTCTTAGACAT
1 GGTCTTATAC-AAATCATTCATAACGATGCCAATGTCCCAGACAT
* *
12905104 GGTC-T-TACACATCATTGCATAATGATGCCAATGTCCCAGACAT
1 GGTCTTATACAAATCATT-CATAACGATGCCAATGTCCCAGACAT
* *
12905147 GGTCTTACT-CATAATC--CCA-ATACAATGCCAATGTCCCAGACAT
1 GGTCTTA-TACA-AATCATTCATA-ACGATGCCAATGTCCCAGACAT
12905190 GGTCTTA
1 GGTCTTA
12905197 CATGTAATCT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
40 5 0.06
41 4 0.05
42 2 0.03
43 59 0.77
44 1 0.01
45 2 0.03
46 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
GGTCTTATACAAATCATTCATAACGATGCCAATGTCCCAGACAT
Found at i:12905197 original size:43 final size:42
Alignment explanation
Indices: 12905079--12905198 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
12905069 ACGAAATCAT
** * **
12905079 ATAACGATGCCAATGTCTTAGACATGGTCTTACACATCATTGC
1 ATAA-GATGCCAATGTCCCAGACATGGTCTTACACATAATCCC
*
12905122 ATAATGATGCCAATGTCCCAGACATGGTCTTACTCATAATCCC
1 ATAA-GATGCCAATGTCCCAGACATGGTCTTACACATAATCCC
12905165 AATACA-ATGCCAATGTCCCAGACATGGTCTTACA
1 -ATA-AGATGCCAATGTCCCAGACATGGTCTTACA
12905199 TGTAATCTCT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 63 0.94
44 3 0.04
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ATAAGATGCCAATGTCCCAGACATGGTCTTACACATAATCCC
Found at i:12910602 original size:24 final size:24
Alignment explanation
Indices: 12910570--12910618 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12910560 TCTAGGAGAC
*
12910570 CTTAAAACATGCTTGGAAGAGGTT
1 CTTAAAACATGCTTAGAAGAGGTT
12910594 CTTAAAACATGCTTAGAAGAGGTT
1 CTTAAAACATGCTTAGAAGAGGTT
12910618 C
1 C
12910619 GAGACTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (24 bp):
CTTAAAACATGCTTAGAAGAGGTT
Found at i:12911766 original size:26 final size:26
Alignment explanation
Indices: 12911727--12911834 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
12911717 TGATACAAAT
*
12911727 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
12911753 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12911779 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12911805 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12911831 TGAT
1 TGAT
12911835 TGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12913348 original size:26 final size:26
Alignment explanation
Indices: 12913319--12913371 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12913309 TTTACAGTTT
12913319 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
12913345 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
12913371 T
1 T
12913372 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:12918819 original size:51 final size:51
Alignment explanation
Indices: 12918764--12918869 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
12918754 TGATACAAAT
12918764 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATATTCCA
*
12918815 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
12918866 TGAT
1 TGAT
12918870 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 12 0.23
51 41 0.77
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:12918822 original size:25 final size:26
Alignment explanation
Indices: 12918764--12918869 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
12918754 TGATACAAAT
12918764 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12918790 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
12918815 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12918841 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12918866 TGAT
1 TGAT
12918870 GGAATTTCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 45 0.60
26 30 0.40
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12920380 original size:26 final size:26
Alignment explanation
Indices: 12920351--12920403 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12920341 TTTACAATTT
12920351 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
12920377 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
12920403 T
1 T
12920404 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:12922402 original size:43 final size:43
Alignment explanation
Indices: 12922351--12922540 Score: 154
Period size: 43 Copynumber: 4.4 Consensus size: 43
12922341 TATCTCGGAT
** * * * *
12922351 ATGGTCTTACATGTTATCACATATCGGTGCCACTGTCCCGGAC
1 ATGGTCTTACATGAAATCACATAACGATGCCAATGTCCCAGAC
* *
12922394 A-GAGTCTTATATGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACATGAAATCACATAACGATGCCAATGTCCCAGAC
** * *
12922437 ATGGTCTTACACT-TTATCGCATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACA-TGAAATCACATAACGATGCCAATGTCCCAGAC
* * * * *
12922480 ATGGTCTTA-ATCATAATCGCA-ATACAATGCCAATGTTCTAGAC
1 ATGGTCTTACATGA-AATCACATA-ACGATGCCAATGTCCCAGAC
*
12922523 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGAAATC
12922541 TCATCTCGGT
Statistics
Matches: 118, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 110 0.93
44 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCACATAACGATGCCAATGTCCCAGAC
Found at i:12930755 original size:51 final size:50
Alignment explanation
Indices: 12930590--12930766 Score: 230
Period size: 51 Copynumber: 3.5 Consensus size: 50
12930580 ACTAGTGACT
* *
12930590 CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
* * *
12930639 CAAGTGTGGTACTATGTAAAGACCACTTTGTGAACAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-GAAGATAGCTTT-GTCA
* *
12930691 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACAA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-A
* * *
12930742 AAAGGGTGGTACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
12930767 TCGGGTATCC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 31 0.28
50 2 0.02
51 42 0.38
52 36 0.32
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
Found at i:12936054 original size:42 final size:42
Alignment explanation
Indices: 12936005--12936091 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
12935995 TATGGCCTTC
12936005 CACGAAATCTCAT-ATCGATGCCATATCCCAGATATGGTCGTA
1 CACGAAATCTCATAAT-GATGCCATATCCCAGATATGGTCGTA
* * *
12936047 CACGAAATCTCATAATGGTGCCATATCCTAGATATGGTCTTA
1 CACGAAATCTCATAATGATGCCATATCCCAGATATGGTCGTA
12936089 CAC
1 CAC
12936092 ATAGTCTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
CACGAAATCTCATAATGATGCCATATCCCAGATATGGTCGTA
Found at i:12938153 original size:23 final size:23
Alignment explanation
Indices: 12938126--12938174 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
12938116 TATGAATAAG
12938126 TTCACCATTTTTCGGTACACAAA
1 TTCACCATTTTTCGGTACACAAA
*
12938149 TTCACCATTTTTTGGTACACAAA
1 TTCACCATTTTTCGGTACACAAA
12938172 TTC
1 TTC
12938175 TACCTCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (23 bp):
TTCACCATTTTTCGGTACACAAA
Found at i:12941473 original size:42 final size:43
Alignment explanation
Indices: 12941365--12941482 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
12941355 AGCTCACACA
* *
12941365 ATGCCAGCGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * * *
12941408 ATGCC-ACTGTCCTAGATAAGGTCTTACATGAAATGAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * *
12941450 ATGCCAACATCCCAGACGTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAA
12941483 ACGCATATAG
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 26 0.43
43 35 0.57
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:12947870 original size:13 final size:13
Alignment explanation
Indices: 12947852--12947877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12947842 TGTCCACATT
12947852 GCCACAAGACAAG
1 GCCACAAGACAAG
12947865 GCCACAAGACAAG
1 GCCACAAGACAAG
12947878 CCCGTGTGCC
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:0.46, C:0.31, G:0.23, T:0.00
Consensus pattern (13 bp):
GCCACAAGACAAG
Found at i:12949118 original size:42 final size:43
Alignment explanation
Indices: 12949072--12949170 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 43
12949062 CTCAGATAGG
* * **
12949072 GTCTTACATGAAATCA-AA-TACGATGCTAATGTCCCAGACGTA
1 GTCTTACACGAAATCATAAGT-CGATGCCAACATCCCAGACGTA
* *
12949114 GTCTTACACGTAAATCATAAGTCGATGCCAACATCCCAGATGTG
1 GTCTTACACG-AAATCATAAGTCGATGCCAACATCCCAGACGTA
12949158 GTCTTACACGAAA
1 GTCTTACACGAAA
12949171 ACACTTATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 9 0.19
43 9 0.19
44 29 0.60
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCTTACACGAAATCATAAGTCGATGCCAACATCCCAGACGTA
Found at i:12951715 original size:31 final size:31
Alignment explanation
Indices: 12951677--12951739 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
12951667 GATTCATCAC
*
12951677 ATATCAAGCTCATTAAGCATGAGTTTTATGT
1 ATATCAAGCTCATTAAGCACGAGTTTTATGT
12951708 ATATCAAGCTCATTAAGCACGAGTTTTATGT
1 ATATCAAGCTCATTAAGCACGAGTTTTATGT
12951739 A
1 A
12951740 CATACCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (31 bp):
ATATCAAGCTCATTAAGCACGAGTTTTATGT
Found at i:12951984 original size:42 final size:42
Alignment explanation
Indices: 12951870--12952020 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 42
12951860 AGATTAATGT
* * ** *
12951870 CATATCCCAGATATGGTCTTATATGGGATCTCATTTCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* * * *
12951912 CAATAGCCCAGCTATGGTCTTCCACAAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
12951955 CATATCCCAGATATGGTCTTACACGAAATCTCATAAT-GATGT
1 CATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCGATGC
* *
12951997 CATATCCCAAATATGCTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
12952021 ATAGTTTTGG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 56 0.62
43 35 0.38
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:12955798 original size:24 final size:24
Alignment explanation
Indices: 12955748--12955801 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
12955738 AATCGAATTT
*
12955748 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
12955772 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
12955796 GCACAC
1 GCACAC
12955802 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:12963734 original size:24 final size:24
Alignment explanation
Indices: 12963684--12963737 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
12963674 AATCGAATTT
*
12963684 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
12963708 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
12963732 GCACAC
1 GCACAC
12963738 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:12971672 original size:24 final size:24
Alignment explanation
Indices: 12971622--12971675 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
12971612 AATCGAATTT
*
12971622 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
12971646 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
12971670 GCACAC
1 GCACAC
12971676 TCAGCGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:12973337 original size:24 final size:24
Alignment explanation
Indices: 12973305--12973355 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
12973295 GTGAGTTTTA
12973305 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
12973329 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
12973353 AAT
1 AAT
12973356 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:12974825 original size:12 final size:12
Alignment explanation
Indices: 12974808--12974835 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12974798 TTGGTTATTG
12974808 CTGTAGCAGCTT
1 CTGTAGCAGCTT
12974820 CTGTAGCAGCTT
1 CTGTAGCAGCTT
12974832 CTGT
1 CTGT
12974836 TTTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (12 bp):
CTGTAGCAGCTT
Found at i:12977375 original size:93 final size:92
Alignment explanation
Indices: 12977243--12977437 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
12977233 TTGATTTTAG
* *
12977243 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
12977307 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
12977335 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
12977400 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
12977428 CAAATTCATA
1 TAAATTCATA
12977438 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:12977593 original size:104 final size:103
Alignment explanation
Indices: 12977470--12977661 Score: 282
Period size: 104 Copynumber: 1.9 Consensus size: 103
12977460 ATAATTTTAA
* * *
12977470 ATTTTATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTTTATAGTATCATATATTAT
1 ATTTTATTAAATCATATTTAATAATAATTATGTT--AATTTATATTTTACAGTATCATATATTAT
12977533 GATTTGAGTAAATTCATAGAAGAATTTTATTAAATTATAT
64 GATTTGAGTAAATTCATAGAAGAATTTTATTAAATTATAT
*
12977573 ATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTTTACAGTATTATATATTAT
1 ATTTT-ATTA-AATCATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTAT
*
12977637 GATTTGAGTAAATTCATATAAGAAT
64 GATTTGAGTAAATTCATAGAAGAAT
12977662 ATTAATTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
103 10 0.12
104 65 0.81
105 5 0.06
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (103 bp):
ATTTTATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA
TTTGAGTAAATTCATAGAAGAATTTTATTAAATTATAT
Found at i:12977595 original size:15 final size:15
Alignment explanation
Indices: 12977560--12977611 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12977550 AGAAGAATTT
*
12977560 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12977574 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12977588 TATTTAATAATAAT-
1 TATTTAATTATAATA
12977602 TATGTTAATT
1 TAT-TTAATT
12977612 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12977693 original size:104 final size:102
Alignment explanation
Indices: 12977461--12977715 Score: 270
Period size: 104 Copynumber: 2.5 Consensus size: 102
12977451 TTAGTTATAA
* * * * *
12977461 TAATTTTAAATTTTATTAAA-T-CATATTTAATATTAATTATTTGAAATTTTCTTTTATAGTATC
1 TAATTATAAATTTTATTAAATTATATATTTAATAATAATTATTT--AATTTTATTTTACAGTATC
*
12977524 ATATATTATGATTTGAGTAAATTCATAGAAGAATTTTAT
64 ATATATTATGATTTGAGTAAATTCATAGAAGAATTTAAT
* *
12977563 TAAATTATATATTTTAATT--ATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
1 T-AATTATAAATTTT-ATTAAATTATATATTTAATAATAATTAT-TTAATTT-TATTTTACAGTA
* *
12977626 TTATATATTATGATTTGAGTAAATTCATATAAGAATATTAAT
62 TCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTAAT
* *
12977668 T-TTTA-AGAATTTTATTAAATTATATATTTTAATTATAATATATTTAAT
1 TAATTATA-AATTTTATTAAATTATATA-TTTAATAATAAT-TATTTAAT
12977716 AATAATTATG
Statistics
Matches: 127, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
102 6 0.05
103 24 0.19
104 71 0.56
105 23 0.18
106 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (102 bp):
TAATTATAAATTTTATTAAATTATATATTTAATAATAATTATTTAATTTTATTTTACAGTATCAT
ATATTATGATTTGAGTAAATTCATAGAAGAATTTAAT
Found at i:12977710 original size:16 final size:16
Alignment explanation
Indices: 12977689--12977730 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12977679 TTATTAAATT
*
12977689 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12977705 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12977720 AT-TATGTTTAA
1 ATATAT-TTTAA
12977731 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12977715 original size:15 final size:15
Alignment explanation
Indices: 12977680--12977721 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12977670 TTAAGAATTT
*
12977680 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12977694 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12977708 TATTTAATAATAAT
1 TATTTAATTATAAT
12977722 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12977847 original size:154 final size:156
Alignment explanation
Indices: 12977664--12977977 Score: 560
Period size: 154 Copynumber: 2.0 Consensus size: 156
12977654 ATAAGAATAT
* *
12977664 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
12977729 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
*
12977792 AATAATTTACCAAAATAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
12977818 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
12977883 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
12977948 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
12977975 TAA
1 TAA
12977978 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 91 0.60
155 2 0.01
157 59 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:12977858 original size:18 final size:17
Alignment explanation
Indices: 12977830--12977864 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12977820 ATTATTAAGA
*
12977830 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12977847 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12977865 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12977886 original size:75 final size:75
Alignment explanation
Indices: 12977664--12977900 Score: 189
Period size: 76 Copynumber: 3.1 Consensus size: 75
12977654 ATAAGAATAT
* *
12977664 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
12977729 AAA-TATGAT
66 AAATTATGAC
* ** * * * * * *
12977738 TAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATTT
1 T-AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAA-TT
****
12977800 ACCAAAATAAATTTATG-C
60 A--TGTTTAAA-TTATGAC
12977818 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
12977883 AAA-TATGAT
66 AAATTATGAC
12977892 TAAATTATT
1 T-AATTATT
12977901 TATTATTGAT
Statistics
Matches: 118, Mismatches: 30, Indels: 29
0.67 0.17 0.16
Matches are distributed among these distances:
73 4 0.03
74 2 0.02
75 25 0.21
76 26 0.22
77 12 0.10
78 25 0.21
79 19 0.16
80 1 0.01
81 4 0.03
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (75 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATTATGAC
Found at i:12978118 original size:16 final size:16
Alignment explanation
Indices: 12978097--12978135 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12978087 TTGATTTGCT
*
12978097 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
12978113 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
12978129 ATTACAC
1 ATTACAC
12978136 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:12978136 original size:16 final size:16
Alignment explanation
Indices: 12978110--12978166 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
12978100 ACACAGCTTT
* *
12978110 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
12978126 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
12978142 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
12978158 TCCAATACA
1 TCCAATACA
12978167 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:12978743 original size:26 final size:26
Alignment explanation
Indices: 12978712--12978769 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
12978702 TGGCTATCCA
* *
12978712 GAGCTTCCC-ATTAAATGGCTCTTCGT
1 GAGCTTCCCGATTAAA-GACTCTTCAT
*
12978738 GAGCTTCCCGTTTAAAGACTCTTCAT
1 GAGCTTCCCGATTAAAGACTCTTCAT
12978764 GAGCTT
1 GAGCTT
12978770 TCTAATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGACTCTTCAT
Found at i:12983066 original size:19 final size:19
Alignment explanation
Indices: 12983031--12983068 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12983021 TTGCAATTTA
*
12983031 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
12983050 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
12983069 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:12984622 original size:87 final size:87
Alignment explanation
Indices: 12984472--12984650 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
12984462 AGGTAGTTTG
** * * * ***
12984472 CCGAGTAACATTGAATCTAACCCAAGGGAGCAAATCAATGCAATTACCATTCAAGATGCGGAAGG
1 CCGAGTAACACGGAATCTAACCCAAGGGAACAAATCAATACAATTACCACTCAAGACAAGGAAGG
12984537 GTTAGTTGCA-CCTGAACCAGAA
66 GTTAGTTG-AGCCTGAACCAGAA
* *
12984559 CCGAGTAACACGGAATCTAACCCAAGGGAACAACTCAATACGATTACCACTCAAGACAAGGAAGG
1 CCGAGTAACACGGAATCTAACCCAAGGGAACAAATCAATACAATTACCACTCAAGACAAGGAAGG
* *
12984624 GTTAGTTGAGCCTGCATCAGAA
66 GTTAGTTGAGCCTGAACCAGAA
12984646 CCGAG
1 CCGAG
12984651 GCAAGGCGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 1 0.01
87 78 0.99
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (87 bp):
CCGAGTAACACGGAATCTAACCCAAGGGAACAAATCAATACAATTACCACTCAAGACAAGGAAGG
GTTAGTTGAGCCTGAACCAGAA
Found at i:12992932 original size:40 final size:40
Alignment explanation
Indices: 12992869--12992959 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
12992859 TATGCTTGGT
12992869 ACTAAGTGTGCGGTTTAATATAGCTTCGGCTACA-AATGGC
1 ACTAAGTGTGCGGTTTAATATAGCTTCGGCTACATAA-GGC
*
12992909 ACTAAGTGTGCGAGTTGT-A-ATAGCTTCGGCTATATAAGGC
1 ACTAAGTGTGCG-GTT-TAATATAGCTTCGGCTACATAAGGC
12992949 ACTAAGTGTGC
1 ACTAAGTGTGC
12992960 AATACCAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
40 40 0.85
41 6 0.13
42 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (40 bp):
ACTAAGTGTGCGGTTTAATATAGCTTCGGCTACATAAGGC
Found at i:13000476 original size:44 final size:41
Alignment explanation
Indices: 13000363--13000479 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 41
13000353 GCGGTTTAAT
***
13000363 ATAGCTTCGGCTAC-AAATGGCACTAAGTGTGCGAATTGTA
1 ATAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATACCA
13000403 ATAGCTTCGGCTA-TATAA-GGCACTAAGTGTGC-AATACCA
1 ATAGCTTCGGCTACTA-AATGGCACTAAGTGTGCGAATACCA
13000442 ACTTAGCTTCGGCTAACTGAAATGGCACTAAGTGTGCG
1 A--TAGCTTCGGCT-ACT-AAATGGCACTAAGTGTGCG
13000480 GAATCATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
39 5 0.08
40 28 0.43
41 13 0.20
42 1 0.02
43 3 0.05
44 15 0.23
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (41 bp):
ATAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATACCA
Found at i:13000492 original size:44 final size:41
Alignment explanation
Indices: 13000364--13000500 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 41
13000354 CGGTTTAATA
** *
13000364 TAGCTTCGGCTAC-AAATGGCACTAAGTGTGCGAATTGTAA
1 TAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATCATAT
13000404 TAGCTTCGGCTA-TATAA-GGCACTAAGTGTGC-AATACCA-ACT
1 TAGCTTCGGCTACTA-AATGGCACTAAGTGTGCGAAT--CATA-T
*
13000445 TAGCTTCGGCTAACTGAAATGGCACTAAGTGTGCGGAATCATTT
1 TAGCTTCGGCT-ACT-AAATGGCACTAAGTGTGC-GAATCATAT
*
13000489 TAGCTTTGGCTA
1 TAGCTTCGGCTA
13000501 ACCCTTACAG
Statistics
Matches: 80, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
39 3 0.04
40 28 0.35
41 13 0.16
42 1 0.01
43 4 0.05
44 28 0.35
46 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
TAGCTTCGGCTACTAAATGGCACTAAGTGTGCGAATCATAT
Found at i:13004108 original size:21 final size:22
Alignment explanation
Indices: 13004082--13004124 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13004072 CATTTTTTGT
13004082 ATCGATA-CTTTCTGAAAAATA
1 ATCGATATCTTTCTGAAAAATA
* *
13004103 ATCGATATCTTTGTTAAAAATA
1 ATCGATATCTTTCTGAAAAATA
13004125 GTACCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (22 bp):
ATCGATATCTTTCTGAAAAATA
Found at i:13012889 original size:36 final size:35
Alignment explanation
Indices: 13012837--13012913 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 35
13012827 AAAGCTAACA
13012837 TACTT-AAAAAAAATAAATTTTTTTAGCAATATTT
1 TACTTAAAAAAAAATAAATTTTTTTAGCAATATTT
13012871 TACTTAAAACAAAAATAAATTTTTTTAGCAATATTT
1 TACTTAAAA-AAAAATAAATTTTTTTAGCAATATTT
13012907 TACTTAA
1 TACTTAA
13012914 CATAACTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 5 0.12
35 3 0.07
36 33 0.80
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (35 bp):
TACTTAAAAAAAAATAAATTTTTTTAGCAATATTT
Found at i:13019113 original size:99 final size:100
Alignment explanation
Indices: 13018938--13019182 Score: 314
Period size: 99 Copynumber: 2.5 Consensus size: 100
13018928 TAGCCAAAGC
* * * * * ** *
13018938 TATCTGGTACGCATAGTAGCTTGCACATAGTACTATACATGCGACCAATTATCTGGTACACGTAG
1 TATCCGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
13019003 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* *
13019036 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACC-AACCATCTGATACACGTA
*
13019101 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* ** * * *
13019137 TTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACC
13019183 TCACAATAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 39 0.31
99 44 0.35
100 1 0.01
101 41 0.33
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:13019118 original size:50 final size:49
Alignment explanation
Indices: 13018938--13019175 Score: 289
Period size: 49 Copynumber: 4.8 Consensus size: 49
13018928 TAGCCAAAGC
* * * * * * *
13018938 TATCTGGTACGCATAGTAGCTTGCACATAGTACTATACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
13018987 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
13019036 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
13019086 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
13019137 T-TTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACA
13019176 TGCGACCTCA
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 86 0.52
50 44 0.27
51 33 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:13021514 original size:28 final size:28
Alignment explanation
Indices: 13021483--13021567 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
13021473 GATTTGAGAT
13021483 GTCAAAATAATGTGATTATCCAGATTGA
1 GTCAAAATAATGTGATTATCCAGATTGA
*
13021511 GTCAGAAA-AATGATAGATT-T-AAGA-T-A
1 GTCA-AAATAATG-T-GATTATCCAGATTGA
13021537 -TCAAAATAATGTGATTATCCAGATTGA
1 GTCAAAATAATGTGATTATCCAGATTGA
13021564 GTCA
1 GTCA
13021568 GATGATCTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 10 0.22
26 2 0.04
27 2 0.04
28 14 0.30
29 5 0.11
30 4 0.09
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (28 bp):
GTCAAAATAATGTGATTATCCAGATTGA
Found at i:13021541 original size:53 final size:53
Alignment explanation
Indices: 13021461--13021569 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
13021451 AAATTGCAAA
* *
13021461 AGAAAAACGATAGATTTGAGATGTCAAAATAATGTGATTATCCAGATTGAGTC
1 AGAAAAACGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
*
13021514 AGAAAAATGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
1 AGAAAAACGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
13021567 AGA
1 AGA
13021570 TGATCTGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (53 bp):
AGAAAAACGATAGATTTAAGATATCAAAATAATGTGATTATCCAGATTGAGTC
Found at i:13021560 original size:25 final size:25
Alignment explanation
Indices: 13021479--13021560 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
13021469 GATAGATTTG
*
13021479 AGATGTCAAAATAATGTGATTATCC
1 AGATATCAAAATAATGTGATTATCC
*
13021504 AGATTGAGTCAGAAA-AATGATAGATT-T-A
1 AGA-T-A-TCA-AAATAATG-T-GATTATCC
13021532 AGATATCAAAATAATGTGATTATCC
1 AGATATCAAAATAATGTGATTATCC
13021557 AGAT
1 AGAT
13021561 TGAGTCAGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 18
0.68 0.05 0.27
Matches are distributed among these distances:
23 4 0.09
24 5 0.11
25 14 0.31
26 2 0.04
27 1 0.02
28 10 0.22
29 5 0.11
30 4 0.09
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (25 bp):
AGATATCAAAATAATGTGATTATCC
Found at i:13029223 original size:72 final size:72
Alignment explanation
Indices: 13029107--13029366 Score: 319
Period size: 72 Copynumber: 3.6 Consensus size: 72
13029097 ATGCCCGCAT
* * *
13029107 TTGAGCTACTCACGGGTCTATACACAAATTCAGCA-CCTGAACCCCAAAGCATTATCATGTAATG
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCAG-ACCCCAAAGCATTATCATGTAATG
13029171 CCCACTCA
65 CCCACTCA
* *
13029179 TTGAGTTACTCACGGGTTTATACACAAAGTCAGTACCCAGACCCCAAAGCATTATCATGTAATGC
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCAGACCCCAAAGCATTATCATGTAATGC
13029244 CCACTCA
66 CCACTCA
* * * * * * *
13029251 TTGAGCCACTCAAGGTTTTATATACAAAGTCAGTACCCGGACCCCAAAGCATTAACATG-ATATG
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCAGACCCCAAAGCATTATCATGTA-ATG
*
13029315 CTCACTCA
65 CCCACTCA
* * * *
13029323 GCT-AGTTACTCACGGGTTTATACAAAAAGTCCGCACCCAGACCC
1 -TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCAGACCC
13029367 ACATTGCATA
Statistics
Matches: 162, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.01
72 157 0.97
73 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (72 bp):
TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCAGACCCCAAAGCATTATCATGTAATGC
CCACTCA
Found at i:13038056 original size:46 final size:45
Alignment explanation
Indices: 13037955--13038123 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 45
13037945 ATATATCCGT
* * *
13037955 GCCGATGCATGTCCCAAACATGTCTTACACTAGC--ACATCTCGTA
1 GCCGATGCATGTCCTAGACAAGTCTTACACTAGCTTACATCTCG-A
* * *
13037999 GTCAATGCATGTCCTAGACAAGTCTTACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCTAGACAAGTCTTACACTAGCTTACATCTCGA
* *
13038044 GCCCGATGCATGTCCTAGACAAGTCTTACACTAGCTCT-CGTCTCAA
1 G-CCGATGCATGTCCTAGACAAGTCTTACACTAGCT-TACATCTCGA
*
13038090 TGCCGATGCATGT-CTCAGACATGTCTTACACTAG
1 -GCCGATGCATGTCCT-AGACAAGTCTTACACTAG
13038124 AATTTCATAA
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 28 0.26
45 4 0.04
46 73 0.68
47 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCTAGACAAGTCTTACACTAGCTTACATCTCGA
Found at i:13040656 original size:28 final size:28
Alignment explanation
Indices: 13040625--13040681 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
13040615 CCACAACGAC
13040625 TCCGCCAAATGAAAAAGAGAATTAAAAT
1 TCCGCCAAATGAAAAAGAGAATTAAAAT
13040653 TCCGCCAAATGAAAAAGAGAATTAAAAT
1 TCCGCCAAATGAAAAAGAGAATTAAAAT
13040681 T
1 T
13040682 TTCTTTCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (28 bp):
TCCGCCAAATGAAAAAGAGAATTAAAAT
Found at i:13042601 original size:93 final size:93
Alignment explanation
Indices: 13042442--13042612 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
13042432 GCCCATTAGT
* *
13042442 GAACTCGGACTAAACTCAATGAGCTTAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTTAGGCATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
13042507 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
13042535 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 GAACTCGGACTAAACTCAACGAGCTTAGG-CATTCGCATCCATAGGTGAACTCGGACTCAACTCA
*
13042599 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
13042613 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTAAACTCAACGAGCTTAGGCATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:13042604 original size:46 final size:46
Alignment explanation
Indices: 13042440--13042609 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
13042430 CCGCCCATTA
* * * *
13042440 GTGAACTCGGACTAAACTCAATGAGCTTAGG-CGTTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAG
* *
13042486 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT-AG
*
13042534 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
13042579 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA
13042610 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 4 0.04
46 52 0.51
47 28 0.27
48 1 0.01
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
Found at i:13045120 original size:30 final size:30
Alignment explanation
Indices: 13045084--13045276 Score: 141
Period size: 30 Copynumber: 6.5 Consensus size: 30
13045074 AGCTATCCTT
* *
13045084 TTTTCATAATTTGATGGTCGTCACCATCCA
1 TTTTCATAATTCGATGGTCGTCACCATCCC
** * *
13045114 TTTTCATTGTTCGATAGTCGTCACCATCCT
1 TTTTCATAATTCGATGGTCGTCACCATCCC
* * **
13045144 TTTTCATAA-TCTGATAG-C-TAAAGTTATCCC
1 TTTTCATAATTC-GATGGTCGT-CA-CCATCCC
*
13045174 TTTTCATAGA-TCGATGG-C-TGAAGCCATCCC
1 TTTTCATA-ATTCGATGGTCGT-CA-CCATCCC
*
13045204 TTTTCATAGTTCGATGGTCGTCACCATCCC
1 TTTTCATAATTCGATGGTCGTCACCATCCC
**
13045234 TTTTCATTGTT-GATGGTCGTCACCATCCC
1 TTTTCATAATTCGATGGTCGTCACCATCCC
*
13045263 TCTTCATAA-TCGAT
1 TTTTCATAATTCGAT
13045277 AGCCGATAGT
Statistics
Matches: 134, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.01
29 31 0.23
30 95 0.71
31 5 0.04
32 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (30 bp):
TTTTCATAATTCGATGGTCGTCACCATCCC
Found at i:13046968 original size:55 final size:55
Alignment explanation
Indices: 13046903--13047013 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
13046893 AGCTCACAGC
13046903 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
1 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
13046958 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
1 AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
13047013 A
1 A
13047014 TTTAATCCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (55 bp):
AGCCCACACATTTCATTATTTTACAAATTACACATTGAATATTTTTCATTTTTCA
Found at i:13050861 original size:16 final size:17
Alignment explanation
Indices: 13050835--13050879 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
13050825 GTTTAATTGG
*
13050835 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
13050852 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
13050868 TTTAGTTATTTA
1 TTTAGTTGTTTA
13050880 GGTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:13052299 original size:24 final size:22
Alignment explanation
Indices: 13052251--13052312 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
13052241 CTTCCATTTT
*
13052251 TCCCACTAAGGGCTCTCATACG
1 TCCCACTAAGGGCTCTCAAACG
*
13052273 TCCCACATAAGGGGCTCTCAAATG
1 TCCCAC-TAA-GGGCTCTCAAACG
* *
13052297 TCCTATTAAGGGCTCT
1 TCCCACTAAGGGCTCT
13052313 TACACATCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.38
23 6 0.18
24 15 0.44
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (22 bp):
TCCCACTAAGGGCTCTCAAACG
Found at i:13055294 original size:34 final size:35
Alignment explanation
Indices: 13055235--13055315 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
13055225 AATCCCTCTA
* * *
13055235 AAACACACCAGATGCTTACACGAGCTA-ACCAGCCG
1 AAACACACCA-ATGCTCAAAAGAGCTAGACCAGCCG
* **
13055270 AAACACACCAATGCTCAAAAGAGCTAGTCCCTCCG
1 AAACACACCAATGCTCAAAAGAGCTAGACCAGCCG
13055305 AAACACACCAA
1 AAACACACCAA
13055316 ACATAGAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 13 0.33
35 26 0.67
ACGTcount: A:0.41, C:0.35, G:0.14, T:0.11
Consensus pattern (35 bp):
AAACACACCAATGCTCAAAAGAGCTAGACCAGCCG
Found at i:13060429 original size:40 final size:40
Alignment explanation
Indices: 13060385--13060490 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
13060375 CGACGATAAA
13060385 TCGGCTAT-TAGTGGCACTTAGTGTGCAAATCGACATAGCT
1 TCGGCTATATA-TGGCACTTAGTGTGCAAATCGACATAGCT
** * * *
13060425 TCGGCTATATATGGCACTTAGTGTGTGATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAATCGACATAGCT
* * *
13060465 TCGGCTATGTACGACACTTAGTGTGC
1 TCGGCTATATATGGCACTTAGTGTGC
13060491 GAGATATCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCAAATCGACATAGCT
Found at i:13060588 original size:28 final size:28
Alignment explanation
Indices: 13060479--13060581 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
13060469 CTATGTACGA
13060479 CACTTAGTGTGCGAGATATCGAA-TATGG
1 CACTTAGTGTGCGAGATATC-AAGTATGG
*
13060507 CACTTAGTGTGCGAGATATTAAGTATGG
1 CACTTAGTGTGCGAGATATCAAGTATGG
*
13060535 CAATTAGTGTGCGAGATATCAAGTATGG
1 CACTTAGTGTGCGAGATATCAAGTATGG
13060563 CACTTAGTGTGCGAGATAT
1 CACTTAGTGTGCGAGATAT
13060582 TGAGTATTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 2 0.03
28 68 0.97
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATCAAGTATGG
Found at i:13070194 original size:43 final size:42
Alignment explanation
Indices: 13070144--13070245 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
13070134 TCCCGGACGT
* * **
13070144 GGTCTTACATGCAATTCA-ATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACG-AAATCAGATAT-GATGCCAATGTCCCAGACAG
*
13070187 GGTCTTACACGAAATCAGATATGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCAATGTCCCAGACAG
*
13070229 GGTCTTATACGTAAATC
1 GGTCTTACACG-AAATC
13070246 TAAATCGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 32 0.63
43 19 0.37
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATATGATGCCAATGTCCCAGACAG
Found at i:13070223 original size:42 final size:43
Alignment explanation
Indices: 13070144--13070282 Score: 122
Period size: 43 Copynumber: 3.3 Consensus size: 43
13070134 TCCCGGACGT
* * **
13070144 GGTCTTACATGCAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGCAAATCAATATCGATGCCAATGTCCCAGACAG
*
13070187 GGTCTTACACG-AAATCAGATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACACGCAAATCA-ATATCGATGCCAATGTCCCAGACAG
* * * * ** *
13070229 GGTCTTATACGTAAATCTAA-ATCGAAGTCTGTGTCCCAGACAC
1 GGTCTTACACGCAAATC-AATATCGATGCCAATGTCCCAGACAG
*
13070272 GATCTTACACG
1 GGTCTTACACG
13070283 ATGTCTTAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 34 0.43
43 44 0.56
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGCAAATCAATATCGATGCCAATGTCCCAGACAG
Found at i:13072778 original size:49 final size:49
Alignment explanation
Indices: 13072721--13072818 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
13072711 CCGATGACAC
*
13072721 AGGAAATGACTTAGAGGAACATCTCTTTTGGAACTCTCAAATCATTCTA
1 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
13072770 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
1 AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
13072819 TCTCGTTGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (49 bp):
AGGAAATGACTTAGAAGAACATCTCTTTTGGAACTCTCAAATCATTCTA
Found at i:13075253 original size:36 final size:36
Alignment explanation
Indices: 13075170--13075265 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 36
13075160 CATCGTCAGT
* * *
13075170 CCAACCAAAACACACCAAATGCTCACACAAGCTAAT
1 CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
** *
13075206 CCCTTCAAAACACACCAAATGCTCACACGAGCCAAA
1 CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
* *
13075242 CTAATCGAAACACACC-AATGCTCA
1 CCAATCAAAACACACCAAATGCTCA
13075266 AAAGAGCTAG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 8 0.16
36 42 0.84
ACGTcount: A:0.44, C:0.36, G:0.07, T:0.12
Consensus pattern (36 bp):
CCAATCAAAACACACCAAATGCTCACACAAGCCAAA
Found at i:13078042 original size:55 final size:55
Alignment explanation
Indices: 13077958--13078069 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
13077948 ACAAGTTCAT
13077958 AATTTTCAAAACCCAGATACTGAATCTGATACCCTTTATATTTCTCATCACCACC
1 AATTTTCAAAACCCAGATACTGAATCTGATACCCTTTATATTTCTCATCACCACC
13078013 AATTTTCAAAACCCAGATACTGAATCTGATACCCTTTATATTTCTCATCACCACC
1 AATTTTCAAAACCCAGATACTGAATCTGATACCCTTTATATTTCTCATCACCACC
13078068 AA
1 AA
13078070 AGTCATCAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (55 bp):
AATTTTCAAAACCCAGATACTGAATCTGATACCCTTTATATTTCTCATCACCACC
Found at i:13082984 original size:41 final size:39
Alignment explanation
Indices: 13082878--13083003 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 39
13082868 TATAAATATC
*
13082878 TTATTGTTAATAATATT-TTAATCTAAAATTTTAATATTT
1 TTATTGTTAATAATATTATTAATCT-AAATTTTGATATTT
* ** *
13082917 TTATTTTTTGTAATATTTATTTAATCTGAATTTTTGATATTT
1 TTATTGTTAATAATA-TTA-TTAATCT-AAATTTTGATATTT
* * **
13082959 TTATTGTTAATAACATTATCCAATCTAAAAGTTGATATTT
1 TTATTGTTAATAATATTAT-TAATCTAAATTTTGATATTT
13082999 TTATT
1 TTATT
13083004 TTTATTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
39 12 0.17
40 19 0.28
41 8 0.12
42 30 0.43
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (39 bp):
TTATTGTTAATAATATTATTAATCTAAATTTTGATATTT
Found at i:13086930 original size:20 final size:20
Alignment explanation
Indices: 13086879--13086930 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
13086869 TGAATACCCG
*
13086879 TTAAAATAA-TTTTCACCTA
1 TTAAAATAATTTTTCACATA
* *
13086898 TTAAATTATTTTTTCACATA
1 TTAAAATAATTTTTCACATA
*
13086918 TTAAAACAATTTT
1 TTAAAATAATTTT
13086931 AACTTGATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAAATAATTTTTCACATA
Found at i:13090831 original size:306 final size:290
Alignment explanation
Indices: 13090005--13090854 Score: 695
Period size: 289 Copynumber: 2.9 Consensus size: 290
13089995 TTAACTTTTG
* * * * * *** **
13090005 ACTTAGTTGGTGTCGCCCTCAACCGGGTCACCAACT-TAGTTAGGAAAATTACAAAAATGTCCTT
1 ACTTACTTGGTGTCACCCTCAACCAGGTCACAAACTCGA-TTAGGAAAATTAGGGAAATACCCTT
* ** * ** * *
13090069 CCGTAATTAAAATAAGTTATGTTA-CTCA-AGGATAAGTTAATC-TTTTTATTTAATAAAATAA-
65 CCATAATTAAAATAAGTTAAATTACCTGAGA-G-TACTTTAGTCTTTTTTA-TTAA-AAAACAAT
* * * ** **
13090130 ATAAAAATACACATTGT-GAGATTTGAACTCGATTCAATTGGATTAGTAAAACTTTTAATTTACC
126 A-AAAAATACATATGGTGGA-ATTTGAACCCGAAACAATTCCATTAGTAAAACTTTTAATTTACC
* * * * * *
13090194 CCTCAACTAAAGCTCTGTTTTAAT-TTTTTTTATATTTTAATTTTATTATGCACACTTTATTA-T
189 ACTCAACTAAAGCTTTATTTAAATAATTTTTTACATTTTAATTTTATTATGCACACTTTATTACT
*
13090257 TTCCATCAATTGTATATTTATCTATACTATTAGTTAA
254 TTCCATCAATTGTATATTTATATATACTATTAGTTAA
* * * *
13090294 GCTTACTTGGTGTCACCCTCAACCAGGTCTCAAACTCGATTAGGAAAATTATGGAAATGCCCTTC
1 ACTTACTTGGTGTCACCCTCAACCAGGTCACAAACTCGATTAGGAAAATTAGGGAAATACCCTTC
* * * *
13090359 CATAATTAAAATAAGTTATATTACTTGAGGGTATTTTAGTCTTTTTTATTAAAAAACAATAAAAA
66 CATAATTAAAATAAGTTAAATTACCTGAGAGTACTTTAGTCTTTTTTATTAAAAAACAATAAAAA
* * * * * *
13090424 ATACATATGGTGGGATTTGAACCCGAAACAATTCTACTAATAAAA-TTTTAATTTACCACTTAGC
131 ATACATATGGTGGAATTTGAACCCGAAACAATTCCATTAGTAAAACTTTTAATTTACCACTCAAC
* * *
13090488 TAAAGCATTATTCCAATACAATTTTTTTACATTTTAATTTTATTATGCACACTTTATTACTTT-C
196 TAAAGCTTTATT-TAA-ATAA-TTTTTTACATTTTAATTTTATTATGCACACTTTATTACTTTCC
* *
13090552 ATTAATTGTATATTATATATACTTACTATTATTTAA
258 ATCAATTGTATATT-TATATA--TACTATTAGTTAA
* * * * *
13090588 ACTTTTGACCGGGTTGGTGTCATCCTCAA-CAGGGTCACCAACTTGGTTAGGGAAATTACGGAAC
1 AC--TT-A-C---TTGGTGTCACCCTCAACCA-GGTCACAAACTCGATTAGGAAAATTA-GG---
* *
13090652 GAAAATACCTTTCCCTAATTAAAATAAGTTAAATTACCTGAGAGTACTTTAGTC-TTTTTATTTA
54 G-AAATACCCTTCCATAATTAAAATAAGTTAAATTACCTGAGAGTACTTTAGTCTTTTTTA-TT-
* * * ** *
13090716 AAAATAATAATAATAAATACAT-TTGTGGAATTTGAATGC-AAACTAA-TCGCATTAGTAAAACC
116 AAAA-AACAATAAAAAATACATATGGTGGAATTTGAACCCGAAAC-AATTC-CATTAGTAAAACT
* * * *
13090778 TTTAATTTACTACTCATCTAAAGCTTTATTTAAATAATTTTATACATTTTTAATTTTATTATGTA
178 TTTAATTTACCACTCAACTAAAGCTTTATTTAAATAATTTTTTACA-TTTTAATTTTATTATGCA
13090843 CACTTTATTACT
242 CACTTTATTACT
13090855 CAAGATTGAT
Statistics
Matches: 450, Mismatches: 77, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
287 25 0.06
288 44 0.10
289 87 0.19
290 10 0.02
291 50 0.11
292 8 0.02
294 13 0.03
296 2 0.00
297 1 0.00
298 1 0.00
300 2 0.00
301 36 0.08
302 1 0.00
305 15 0.03
306 85 0.19
307 29 0.06
308 41 0.09
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (290 bp):
ACTTACTTGGTGTCACCCTCAACCAGGTCACAAACTCGATTAGGAAAATTAGGGAAATACCCTTC
CATAATTAAAATAAGTTAAATTACCTGAGAGTACTTTAGTCTTTTTTATTAAAAAACAATAAAAA
ATACATATGGTGGAATTTGAACCCGAAACAATTCCATTAGTAAAACTTTTAATTTACCACTCAAC
TAAAGCTTTATTTAAATAATTTTTTACATTTTAATTTTATTATGCACACTTTATTACTTTCCATC
AATTGTATATTTATATATACTATTAGTTAA
Found at i:13100843 original size:22 final size:23
Alignment explanation
Indices: 13100818--13100876 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
13100808 TGGGATTGTT
13100818 ATTTTTTAATAAAATTTTTAT-A
1 ATTTTTTAATAAAATTTTTATGA
* *
13100840 ATTTTTGT-TTATAATTTTTATGA
1 ATTTTT-TAATAAAATTTTTATGA
*
13100863 GTTTTTTAA-AAAAT
1 ATTTTTTAATAAAAT
13100877 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
ATTTTTTAATAAAATTTTTATGA
Found at i:13100850 original size:13 final size:13
Alignment explanation
Indices: 13100834--13100858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13100824 TAATAAAATT
13100834 TTTATAATTTTTG
1 TTTATAATTTTTG
13100847 TTTATAATTTTT
1 TTTATAATTTTT
13100859 ATGAGTTTTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:13104296 original size:31 final size:31
Alignment explanation
Indices: 13104258--13104318 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
13104248 AGTTTGGTTA
13104258 CTTGAATTCTTCAAATTTGCTTTCTTTCTTT
1 CTTGAATTCTTCAAATTTGCTTTCTTTCTTT
13104289 CTTGAATTCTTCAAATTTGCTTTCTTTCTT
1 CTTGAATTCTTCAAATTTGCTTTCTTTCTT
13104319 CTTTTTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.20, G:0.07, T:0.57
Consensus pattern (31 bp):
CTTGAATTCTTCAAATTTGCTTTCTTTCTTT
Found at i:13110346 original size:50 final size:50
Alignment explanation
Indices: 13110290--13110384 Score: 190
Period size: 50 Copynumber: 1.9 Consensus size: 50
13110280 CATTATGTTT
13110290 ATATGTGAAATATTTAAATACACATACAAATATATATATATATATGTGAA
1 ATATGTGAAATATTTAAATACACATACAAATATATATATATATATGTGAA
13110340 ATATGTGAAATATTTAAATACACATACAAATATATATATATATAT
1 ATATGTGAAATATTTAAATACACATACAAATATATATATATATAT
13110385 ATATTGTAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (50 bp):
ATATGTGAAATATTTAAATACACATACAAATATATATATATATATGTGAA
Found at i:13111795 original size:35 final size:35
Alignment explanation
Indices: 13111756--13111882 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
13111746 ATGGCAAAGT
* *
13111756 TATGATACATAGGTATGGTATTTTCCATACTGATC
1 TATGATACATAGGTATGGTATTTTCCATACCGAGC
*
13111791 TATGATATATAGGTATGGTATTTTCCATACCGAGC
1 TATGATACATAGGTATGGTATTTTCCATACCGAGC
* * * *
13111826 TATAATACGTAGGTATGGTATTTCCCATACCGAGT
1 TATGATACATAGGTATGGTATTTTCCATACCGAGC
* * * *
13111861 TGTGAAACGTAGGTATGATATT
1 TATGATACATAGGTATGGTATT
13111883 AACCATACTA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 80 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (35 bp):
TATGATACATAGGTATGGTATTTTCCATACCGAGC
Found at i:13111889 original size:35 final size:36
Alignment explanation
Indices: 13111760--13111902 Score: 125
Period size: 35 Copynumber: 4.1 Consensus size: 36
13111750 CAAAGTTATG
* * * *
13111760 ATACATAGGTATGGTATTTTCCATACTGA-TCTATGA
1 ATACGTAGGTATGGTATTTACCATACCGAGT-TGTGA
* * *
13111796 TATA--TAGGTATGGTATTTTCCATACCGAGCTAT-A
1 -ATACGTAGGTATGGTATTTACCATACCGAGTTGTGA
*
13111830 ATACGTAGGTATGGTATTTCCCATACCGAGTTGTGA
1 ATACGTAGGTATGGTATTTACCATACCGAGTTGTGA
* * **
13111866 A-ACGTAGGTATGATATTAACCATACTAAGTTGTGA
1 ATACGTAGGTATGGTATTTACCATACCGAGTTGTGA
13111901 AT
1 AT
13111903 CGTGGCATTG
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
33 3 0.03
34 1 0.01
35 82 0.90
36 2 0.02
37 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (36 bp):
ATACGTAGGTATGGTATTTACCATACCGAGTTGTGA
Found at i:13115620 original size:27 final size:27
Alignment explanation
Indices: 13115590--13115643 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13115580 GACGCAGAGT
13115590 AAGAAGCAAAGAATTACTCAAGGAAAG
1 AAGAAGCAAAGAATTACTCAAGGAAAG
13115617 AAGAAGCAAAGAATTACTCAAGGAAAG
1 AAGAAGCAAAGAATTACTCAAGGAAAG
13115644 CCGATTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (27 bp):
AAGAAGCAAAGAATTACTCAAGGAAAG
Found at i:13127677 original size:17 final size:17
Alignment explanation
Indices: 13127655--13127691 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13127645 GTGGAGGGAT
*
13127655 ATGGCAAATAATTAATA
1 ATGGCAAAGAATTAATA
13127672 ATGGCAAAGAATTAATA
1 ATGGCAAAGAATTAATA
13127689 ATG
1 ATG
13127692 TCAATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (17 bp):
ATGGCAAAGAATTAATA
Found at i:13127796 original size:15 final size:15
Alignment explanation
Indices: 13127776--13127805 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13127766 AAAATAACAC
13127776 TTTTCATAGTTCAAG
1 TTTTCATAGTTCAAG
13127791 TTTTCATAGTTCAAG
1 TTTTCATAGTTCAAG
13127806 ACAAGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TTTTCATAGTTCAAG
Found at i:13131147 original size:15 final size:15
Alignment explanation
Indices: 13131127--13131169 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 15
13131117 GAGGGGAAGT
13131127 AGGATCGAATCCTCA
1 AGGATCGAATCCTCA
13131142 AGGATCGTCGAATCCTCA
1 AGGA---TCGAATCCTCA
13131160 AGGATCGAAT
1 AGGATCGAAT
13131170 TGTACGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.40
18 15 0.60
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (15 bp):
AGGATCGAATCCTCA
Found at i:13131154 original size:18 final size:18
Alignment explanation
Indices: 13131131--13131166 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13131121 GGAAGTAGGA
13131131 TCGAATCCTCAAGGATCG
1 TCGAATCCTCAAGGATCG
13131149 TCGAATCCTCAAGGATCG
1 TCGAATCCTCAAGGATCG
13131167 AATTGTACGA
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:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (18 bp):
TCGAATCCTCAAGGATCG
Found at i:13131314 original size:17 final size:18
Alignment explanation
Indices: 13131294--13131327 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13131284 AAGTGAATTG
13131294 AAATTAC-GAAATTAAAT
1 AAATTACAGAAATTAAAT
13131311 AAATTACAGAAATTAAA
1 AAATTACAGAAATTAAA
13131328 AAGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTACAGAAATTAAAT
Found at i:13132069 original size:10 final size:10
Alignment explanation
Indices: 13132050--13132099 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
13132040 TGAAATTCTA
13132050 AAAGATAAAT
1 AAAGATAAAT
13132060 ACAA-ATAAAT
1 A-AAGATAAAT
*
13132070 AAAGATAATT
1 AAAGATAAAT
13132080 AAAGATAAAT
1 AAAGATAAAT
13132090 GAAA-ATAAAT
1 -AAAGATAAAT
13132100 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13133826 original size:35 final size:35
Alignment explanation
Indices: 13133787--13133913 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
13133777 ATGGCAAAGT
*
13133787 TATGATACGTAGGTATGGTATTTTCCATACTGAGC
1 TATGATACGTAGGTATGGTATTTTCCATACCGAGC
* * *
13133822 TATGATATGTAGGTATGATAATTTCCATACCGAGC
1 TATGATACGTAGGTATGGTATTTTCCATACCGAGC
* * **
13133857 TATAATACGTAGGTATGGTATTTCCCATACCGAAT
1 TATGATACGTAGGTATGGTATTTTCCATACCGAGC
* * *
13133892 TGTGAAACGTAGGTTTGGTATT
1 TATGATACGTAGGTATGGTATT
13133914 AACCATACTG
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (35 bp):
TATGATACGTAGGTATGGTATTTTCCATACCGAGC
Found at i:13135377 original size:23 final size:25
Alignment explanation
Indices: 13135340--13135385 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
13135330 ATGAATTAAA
13135340 AATTAAAAAATTAAAAAAAATTATT
1 AATTAAAAAATTAAAAAAAATTATT
*
13135365 AATT-AAAAA-TAAAAAAGATTA
1 AATTAAAAAATTAAAAAAAATTA
13135386 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 5 0.25
25 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (25 bp):
AATTAAAAAATTAAAAAAAATTATT
Found at i:13144429 original size:18 final size:19
Alignment explanation
Indices: 13144391--13144430 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
13144381 ATAAACAAAT
13144391 AAAAAGTCCATAATTTAACC
1 AAAAAGTCCATAA-TTAACC
*
13144411 AAAATGTCCATAA-TAACC
1 AAAAAGTCCATAATTAACC
13144429 AA
1 AA
13144431 TATTCAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAAAGTCCATAATTAACC
Found at i:13148808 original size:26 final size:26
Alignment explanation
Indices: 13148773--13148880 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
13148763 TGAAATGCCC
* * *
13148773 ATCATAGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
13148799 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13148825 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
13148851 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13148877 ATCA
1 ATCA
13148881 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13162697 original size:206 final size:206
Alignment explanation
Indices: 13162315--13162870 Score: 828
Period size: 206 Copynumber: 2.7 Consensus size: 206
13162305 GCAGATCTGG
* *
13162315 CTGAAGCAAGATCTAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATGGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
13162380 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * **
13162445 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAAATCTAACCTT
* * *
13162510 CATATGTTTATA
195 CAGATGATTAGA
* * * *
13162522 TTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAAAAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCT
* *
13162586 GATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
13162651 AGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACATAGCAAATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAAATCTAACCTT
13162716 CAGATGATTAGA
195 CAGATGATTAGA
* * * * *
13162728 CTGAAGCAGATCCAAGATGGTTTGGTATCATTGTGCTTACAATGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
13162793 ATTTGGTTTTCGCGTGCTTACGCTG-AGACAAATCTAAGATGATTTGGCATATCTATATTGTCAG
66 ATTTGGCTTTCACGTGCTTACGCTGAAG-CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
13162857 AGAACAAATCGAAG
130 AGAACAAATCGAAG
13162871 AAGTAGATTT
Statistics
Matches: 313, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
205 3 0.01
206 303 0.97
207 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAAATCTAACCTTC
AGATGATTAGA
Found at i:13165263 original size:21 final size:21
Alignment explanation
Indices: 13165224--13165264 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13165214 TTGAATATTT
*
13165224 TGTTTATTCATCTTCAATATA
1 TGTTTATACATCTTCAATATA
13165245 TGTTATATACATCTT-AATAT
1 TGTT-TATACATCTTCAATAT
13165265 GTATGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (21 bp):
TGTTTATACATCTTCAATATA
Found at i:13166390 original size:16 final size:16
Alignment explanation
Indices: 13166369--13166422 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
13166359 TGAATTACTG
13166369 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
**
13166385 ATTACAACTCTATTAA
1 ATTACAACTCTATTCC
*
13166401 ATTATAA-TACTATTCC
1 ATTACAACT-CTATTCC
13166417 ATTACA
1 ATTACA
13166423 GTGAATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:13172554 original size:46 final size:44
Alignment explanation
Indices: 13172495--13172609 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
13172485 ACAGGACAGA
* *
13172495 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
13172541 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
13172585 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
13172610 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:13172590 original size:44 final size:45
Alignment explanation
Indices: 13172495--13172628 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
13172485 ACAGGACAGA
* *
13172495 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
13172541 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
13172585 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13172629 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:13174754 original size:20 final size:20
Alignment explanation
Indices: 13174731--13174770 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13174721 GATATTATTT
13174731 TTTTATAAATATTTTTATAA
1 TTTTATAAATATTTTTATAA
* **
13174751 TTTTGTATGTATTTTTATAA
1 TTTTATAAATATTTTTATAA
13174771 AAAAATATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATAAATATTTTTATAA
Found at i:13174803 original size:18 final size:18
Alignment explanation
Indices: 13174780--13174822 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
13174770 AAAAAATATT
13174780 AAATTTATT-TGAAAGTAA
1 AAATTT-TTATGAAAGTAA
*
13174798 AAATTTTTATGAATGT-A
1 AAATTTTTATGAAAGTAA
13174815 AAATTTTT
1 AAATTTTT
13174823 TGTGTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (18 bp):
AAATTTTTATGAAAGTAA
Found at i:13174959 original size:111 final size:112
Alignment explanation
Indices: 13174801--13175093 Score: 453
Period size: 111 Copynumber: 2.6 Consensus size: 112
13174791 AAAGTAAAAA
* * * *
13174801 TTTTTATGAATGTAAAATTTTTTGTGTTGTTTTTAATTATTTGAAAGTTATTTTGTTAGTAATTT
1 TTTTTATGAATGTAAATTTTTTTTTGTT-TTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTT
*
13174866 ATGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAT
65 ATGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAC
*
13174914 TTTTTATGAATAT-AATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
1 TTTTTATGAATGTAAATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
* * * *
13174978 TGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGAC
66 TGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAC
* * *
13175025 TTGTTATAAATGTAAATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTACTTTA
1 TTTTTATGAATGTAAATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
13175090 TGAT
66 TGAT
13175094 ACAACAAAAC
Statistics
Matches: 165, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
111 87 0.53
112 66 0.40
113 12 0.07
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.58
Consensus pattern (112 bp):
TTTTTATGAATGTAAATTTTTTTTTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTA
TGATTAAGTTATAAATTGTTTGTGTTTAGGTCAATGTTTATTGTGAC
Found at i:13175291 original size:43 final size:43
Alignment explanation
Indices: 13175226--13175411 Score: 191
Period size: 43 Copynumber: 4.3 Consensus size: 43
13175216 GTGAAAAATA
* * *
13175226 CCGCTACAGAACATGA-TCTTTAGC-GACGCTTTTCCTACAAACG
1 CCGCTAAAGAACATGACT-TTTAGCAG-CACTTTTCCCACAAACG
* *
13175269 CCGCTAAAGAAAATGACTTTTAGCAGCACTTTTCCCACAAACA
1 CCGCTAAAGAACATGACTTTTAGCAGCACTTTTCCCACAAACG
* * *
13175312 CCGCTAAAGAACATGACTTTTAGCAGCACTTTTTCAATAAACG
1 CCGCTAAAGAACATGACTTTTAGCAGCACTTTTCCCACAAACG
* * * * *
13175355 CCACTAAA-AGCATGACCTTTAG-TGACGCTTTTCCCACAAACG
1 CCGCTAAAGAACATGACTTTTAGCAG-CACTTTTCCCACAAACG
*
13175397 CCGCTAAAAAACATG
1 CCGCTAAAGAACATG
13175412 CCCTTTTAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 32 0.27
43 84 0.71
44 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGAACATGACTTTTAGCAGCACTTTTCCCACAAACG
Found at i:13176339 original size:33 final size:33
Alignment explanation
Indices: 13176292--13176364 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
13176282 ATCAGATGTT
*
13176292 AAATTAACACATACTAAAAGTTCAAAACAAATA
1 AAATGAACACATACTAAAAGTTCAAAACAAATA
13176325 AAATGAACACATACTAAAAGTTCAAAACAAATA
1 AAATGAACACATACTAAAAGTTCAAAACAAATA
13176358 AAATGAA
1 AAATGAA
13176365 GGTATAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (33 bp):
AAATGAACACATACTAAAAGTTCAAAACAAATA
Found at i:13177408 original size:18 final size:18
Alignment explanation
Indices: 13177381--13177426 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
13177371 TGTTTATATC
*
13177381 AAATTAAATACTTATATTT
1 AAATT-AATACTTACATTT
*
13177400 AACTTAATACTTACATTT
1 AAATTAATACTTACATTT
13177418 AAATTAATA
1 AAATTAATA
13177427 TTTCATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTAATACTTACATTT
Found at i:13181800 original size:10 final size:10
Alignment explanation
Indices: 13181781--13181830 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
13181771 CGAAATTCTA
13181781 AAAGATAAAT
1 AAAGATAAAT
13181791 ACAA-ATAAAT
1 A-AAGATAAAT
13181801 AAAGATAAAT
1 AAAGATAAAT
13181811 AAAGATAAAT
1 AAAGATAAAT
13181821 GAAA-ATAAAT
1 -AAAGATAAAT
13181831 CATAAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13183140 original size:27 final size:27
Alignment explanation
Indices: 13183102--13183156 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13183092 AGCAACAACC
13183102 AAATCAACAGTTAAAATGACAGAAATA
1 AAATCAACAGTTAAAATGACAGAAATA
*
13183129 AAATCAGCAGTTAAAATGACAGAAATA
1 AAATCAACAGTTAAAATGACAGAAATA
13183156 A
1 A
13183157 TGAGGAATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (27 bp):
AAATCAACAGTTAAAATGACAGAAATA
Found at i:13183419 original size:15 final size:14
Alignment explanation
Indices: 13183399--13183453 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
13183389 TTAATATCTG
13183399 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
*
13183414 AAAATAAAATAAAAT
1 AAAATAATA-AAAAT
13183429 AAAATAAAATAAAAAT
1 AAAAT--AATAAAAAT
13183445 AAAAATAAT
1 -AAAATAAT
13183454 TGGGTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 19 0.56
16 7 0.21
17 8 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:13183421 original size:5 final size:5
Alignment explanation
Indices: 13183411--13183448 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
13183401 AATAATAAAT
13183411 AATAA AATAA AATAA AATAA AATAA AATAAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AA
13183449 ATAATTGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:13187194 original size:7 final size:7
Alignment explanation
Indices: 13187163--13187267 Score: 52
Period size: 7 Copynumber: 15.0 Consensus size: 7
13187153 ATCTATTCCT
13187163 TAAACCC
1 TAAACCC
* *
13187170 TAAATCA
1 TAAACCC
* *
13187177 TAAAACA
1 TAAACCC
13187184 TAAACCC
1 TAAACCC
*
13187191 TAAACTC
1 TAAACCC
*
13187198 TTAACCC
1 TAAACCC
*
13187205 TTAACCCC
1 -TAAACCC
*
13187213 TAACCCC
1 TAAACCC
13187220 T-AACCC
1 TAAACCC
*
13187226 -CAACCC
1 TAAACCC
*
13187232 TTAAACCA
1 -TAAACCC
*
13187240 TAAACCA
1 TAAACCC
*
13187247 TAAACCA
1 TAAACCC
* *
13187254 TAATCTC
1 TAAACCC
13187261 TAAACCC
1 TAAACCC
13187268 ATAATCCATA
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
6 9 0.12
7 58 0.76
8 9 0.12
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:13187238 original size:14 final size:14
Alignment explanation
Indices: 13187199--13187235 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13187189 CCTAAACTCT
13187199 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
13187213 TAACCCCTAACCCC
1 TAACCCTTAACCCC
13187227 -AACCCTTAA
1 TAACCCTTAA
13187236 ACCATAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:13187250 original size:14 final size:14
Alignment explanation
Indices: 13187233--13187278 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
13187223 CCCCAACCCT
*
13187233 TAAACCATAAACCA
1 TAAACCATAATCCA
13187247 TAAACCATAATCTC-
1 TAAACCATAATC-CA
13187261 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
13187276 TAA
1 TAA
13187279 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:13187312 original size:14 final size:14
Alignment explanation
Indices: 13187295--13187334 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
13187285 AATAGTAACT
13187295 CCTAAAGCT-TAAAC
1 CCTAAA-CTATAAAC
13187309 CCTAAACTATAAAC
1 CCTAAACTATAAAC
13187323 CCTAAACTATAA
1 CCTAAACTATAA
13187335 TGATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:13187993 original size:155 final size:154
Alignment explanation
Indices: 13187657--13187995 Score: 376
Period size: 155 Copynumber: 2.2 Consensus size: 154
13187647 TAAAGTGCCA
* * * * * ** *
13187657 CTAAAGCTCAATTTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTTTACTTATAGCGGCGTT
1 CTAATGCTCAATCTATAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCGACTTATAGCGGAGTT
* * * *
13187722 TTTTAAAAGCGTCGCTAATACCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTT
66 TTTTAAAAGCGACACTAATACCACTAAAGCTCAACATAAAAAGACGACATTGTGCTTAATTTTTT
* * * *
13187787 TGTGGCGTTTCACGAAAAGTGTCG
131 TGCGGCATTTCACAAAAAGCGTCG
* * * * * *
13187811 CTAAT-CATCTACCTATAGTGGCATTTTTTAAAAAGTGCAGCTAATGCTCGA-TCTATATCGGAG
1 CTAATGC-TCAATCTATAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCGACT-TATAGCGGAG
* * *
13187874 TTTTTTTAAAAGCGACACTAATGCCACTAAAGCTCAACATAAAAAGATGGCATTGTGCTTAATTT
64 -TTTTTTAAAAGCGACACTAATACCACTAAAGCTCAACATAAAAAGACGACATTGTGCTTAATTT
***
13187939 TTTTGCGGCATTTTTTAAAAAGCGTCG
128 TTTTGCGGCATTTCACAAAAAGCGTCG
*
13187966 CTAATGCTCAATCTATAGCAGCGTTTTTTA
1 CTAATGCTCAATCTATAGCGGCGTTTTTTA
13187996 TCCAAACGCC
Statistics
Matches: 148, Mismatches: 33, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
153 2 0.01
154 45 0.30
155 100 0.68
156 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (154 bp):
CTAATGCTCAATCTATAGCGGCGTTTTTTAAAAAGCGCAGCTAATGCTCGACTTATAGCGGAGTT
TTTTAAAAGCGACACTAATACCACTAAAGCTCAACATAAAAAGACGACATTGTGCTTAATTTTTT
TGCGGCATTTCACAAAAAGCGTCG
Done.