Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 45 of 198
Found at i:13501993 original size:25 final size:24
Alignment explanation
Indices: 13501963--13502019 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
13501953 GCACATAAAC
**
13501963 GGGAAGCTTAGGTGAGCCATATAAT
1 GGGAAGCTTAGGAAAGCCAT-TAAT
*
13501988 GGGAAGCTTTGGAAAGCCATTAAT
1 GGGAAGCTTAGGAAAGCCATTAAT
*
13502012 AGGAAGCT
1 GGGAAGCT
13502020 CATACGAGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (24 bp):
GGGAAGCTTAGGAAAGCCATTAAT
Found at i:13505597 original size:25 final size:25
Alignment explanation
Indices: 13505546--13505597 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
13505536 ACCTAGAATT
**
13505546 ACATCAAATTCATCAAACGATAATA
1 ACATCAAATTCATCAAAAAATAATA
*
13505571 ACATCAAA-TCATTCAAAAAATAGTA
1 ACATCAAATTCA-TCAAAAAATAATA
13505596 AC
1 AC
13505598 CCCGTATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.23
Consensus pattern (25 bp):
ACATCAAATTCATCAAAAAATAATA
Found at i:13513471 original size:49 final size:50
Alignment explanation
Indices: 13513393--13513726 Score: 186
Period size: 50 Copynumber: 6.7 Consensus size: 50
13513383 TGGATATAAC
* * * * * * *
13513393 CTGCCAAAGCTATTTCCCAGACATAGTCTTACATGGGATGTT-TCTTGTA-
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGA-GTTCTCATATAG
*
13513442 CTGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAG
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAG
* * * * ** * ** * *
13513492 ATGCCCATGCCATGTCCCAGACATGGTCTTTCGGGGGACCTCTCATCTTG
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAG
* * * * * * ** * *
13513542 GTGCCAACGCCATGTCCCAGACATTGTCTTACGTGGGACCTCTCATCTCG
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAG
* * * * * ** * *
13513592 GTGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAG
* * * * ** * * *
13513642 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAG
* * * *
13513692 GTGTCAACGCCATGTCCCAGACATGGTCTTACATG
1 CTGCCAATGCCATATCCCAGACATGGTCTTACATG
13513727 GGACCTCTTT
Statistics
Matches: 250, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
48 3 0.01
49 37 0.15
50 210 0.84
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
CTGCCAATGCCATATCCCAGACATGGTCTTACATGAGAGTTCTCATATAG
Found at i:13513735 original size:50 final size:50
Alignment explanation
Indices: 13513443--13513734 Score: 404
Period size: 50 Copynumber: 5.8 Consensus size: 50
13513433 TTTCTTGTAC
* * * * ** * * *
13513443 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
13513493 TGCCCATGCCATGTCCCAGACATGGTCTTTCGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
13513543 TGCCAACGCCATGTCCCAGACATTGTCTTACGTGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13513593 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13513643 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13513693 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13513735 TTACCCAAAT
Statistics
Matches: 218, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 218 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:13514080 original size:30 final size:30
Alignment explanation
Indices: 13514046--13514103 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13514036 CCTTGACTCT
13514046 AACTTTGAAAAAATTACAATTTTGCCCCTA
1 AACTTTGAAAAAATTACAATTTTGCCCCTA
* * * *
13514076 AACTTTTACATAATTACACTTTTGCCCC
1 AACTTTGAAAAAATTACAATTTTGCCCC
13514104 AAAGCTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (30 bp):
AACTTTGAAAAAATTACAATTTTGCCCCTA
Found at i:13516103 original size:43 final size:43
Alignment explanation
Indices: 13515994--13516156 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
13515984 GGCTTGTACA
* *
13515994 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAC-AGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAG-TCG
** * *
13516037 ATGCCATTGTCCCAAACAG-GGTCTTTCACGAAAACACAAGTCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAAACACAAGTCG
* * *
13516080 ATGCCAACGTCCTAGGCGTGGTCTTACACGGAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
* * *
13516123 ATGCTAACATCCCAGACATGGTCTTACACGAAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAA
13516157 AATTTATCAG
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 94 0.96
44 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGTCG
Found at i:13516146 original size:86 final size:86
Alignment explanation
Indices: 13515994--13516156 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 86
13515984 GGCTTGTACA
* * ***
13515994 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACAGATCGATGCCATTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGGAAACACAGATCGATGCCAACATCCCAAACAGGGT
*
13516059 CTTTCACGAAAACACAAGTCG
66 CTTACACGAAAACACAAGTCG
* * * * *
13516080 ATGCCAACGTCCTAGGCGTGGTCTTACACGGAAACACA-AGTCGATGCTAACATCCCAGACATGG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGGAAACACAGA-TCGATGCCAACATCCCAAACAGGG
13516144 TCTTACACGAAAA
65 TCTTACACGAAAA
13516157 AATTTATCAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 1 0.02
86 64 0.98
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGGAAACACAGATCGATGCCAACATCCCAAACAGGGT
CTTACACGAAAACACAAGTCG
Found at i:13522987 original size:21 final size:20
Alignment explanation
Indices: 13522946--13522986 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13522936 AGATAGAAAG
13522946 GAAAATTAAAATTAAAATTTT
1 GAAAATT-AAATTAAAATTTT
13522967 GAAAATT-AATTAGAAATTTT
1 GAAAATTAAATTA-AAATTTT
13522987 TTAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
GAAAATTAAATTAAAATTTT
Found at i:13524707 original size:28 final size:28
Alignment explanation
Indices: 13524650--13524718 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
13524640 AAAACACTAG
13524650 TAAAGGAAGCCTTTGTGGCGATCTCCGT
1 TAAAGGAAGCCTTTGTGGCGATCTCCGT
* * * *
13524678 TAAATGAAGCCTTTGTGGCTATTTCTGT
1 TAAAGGAAGCCTTTGTGGCGATCTCCGT
*
13524706 TAAAGGAAACCTT
1 TAAAGGAAGCCTT
13524719 CATGGTGTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (28 bp):
TAAAGGAAGCCTTTGTGGCGATCTCCGT
Found at i:13525909 original size:7 final size:7
Alignment explanation
Indices: 13525894--13525942 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
13525884 AGCGGTGAGG
13525894 AGGGAGA
1 AGGGAGA
*
13525901 AGAGAGA
1 AGGGAGA
13525908 AGGGAGA
1 AGGGAGA
13525915 AGGGAGA
1 AGGGAGA
13525922 AGGGAGA
1 AGGGAGA
13525929 AGGGAGA
1 AGGGAGA
13525936 AGGGAGA
1 AGGGAGA
13525943 GATACGATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (7 bp):
AGGGAGA
Found at i:13534911 original size:21 final size:21
Alignment explanation
Indices: 13534887--13534992 Score: 67
Period size: 21 Copynumber: 5.1 Consensus size: 21
13534877 CGAAGTACAA
13534887 TCAGGGGCACGTATGTGTAAT
1 TCAGGGGCACGTATGTGTAAT
* * *
13534908 TCAGGGGTACCG-AAGTATAA-
1 TCAGGGGCA-CGTATGTGTAAT
* * *
13534928 ACAGGGGCACATATGTGCAAT
1 TCAGGGGCACGTATGTGTAAT
* * **
13534949 TCAGGGGTACCG-AAGTACAA-
1 TCAGGGGCA-CGTATGTGTAAT
*
13534969 TCAGGGGCACGTATATGTAAT
1 TCAGGGGCACGTATGTGTAAT
13534990 TCA
1 TCA
13534993 ACAATATTAT
Statistics
Matches: 60, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
19 3 0.05
20 24 0.40
21 30 0.50
22 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (21 bp):
TCAGGGGCACGTATGTGTAAT
Found at i:13534933 original size:41 final size:41
Alignment explanation
Indices: 13534821--13534992 Score: 222
Period size: 41 Copynumber: 4.2 Consensus size: 41
13534811 GGGTACAAAA
* * *
13534821 GTGC-ATTCAAGGGTACCAAAGTATAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
* * *
13534861 GTGCAATTTA-GGGTATCGAAGTACAATCAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
* * *
13534901 GTGTAATTCAGGGGTACCGAAGTATAAACAGGGGCACATAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
*
13534942 GTGCAATTCAGGGGTACCGAAGTACAATCAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
13534983 ATGTAATTCA
1 GTGCAATTCA
13534993 ACAATATTAT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 38 0.34
41 75 0.66
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:13534991 original size:82 final size:81
Alignment explanation
Indices: 13534825--13534993 Score: 275
Period size: 81 Copynumber: 2.1 Consensus size: 81
13534815 ACAAAAGTGC
* * *
13534825 ATTCAAGGGTACCAAAGTATAAACAGGGGCACGTATGTGCAATTTAGGGTATCGAAGTACAATCA
1 ATTCAAGGGTACCAAAGTATAAACAGGGGCACATATGTGCAATTCAGGGTACCGAAGTACAATCA
*
13534890 GGGGCACGTATGTGTA
66 GGGGCACGTATATGTA
* *
13534906 ATTCAGGGGTACCGAAGTATAAACAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTACAATC
1 ATTCAAGGGTACCAAAGTATAAACAGGGGCACATATGTGCAATTCA-GGGTACCGAAGTACAATC
13534971 AGGGGCACGTATATGTA
65 AGGGGCACGTATATGTA
13534988 ATTCAA
1 ATTCAA
13534994 CAATATTATT
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 42 0.52
82 38 0.47
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (81 bp):
ATTCAAGGGTACCAAAGTATAAACAGGGGCACATATGTGCAATTCAGGGTACCGAAGTACAATCA
GGGGCACGTATATGTA
Found at i:13543336 original size:21 final size:20
Alignment explanation
Indices: 13543273--13543340 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
13543263 GAAAGCATAC
13543273 AAAAAATTATGA-GGTAATA
1 AAAAAATTATGAGGGTAATA
* *
13543292 AAAAAATTATGAGGGTTATC
1 AAAAAATTATGAGGGTAATA
*
13543312 AAAAAATTTTGAGGAAGTAATA
1 AAAAAATTATGAGG--GTAATA
13543334 AAAAAAT
1 AAAAAAT
13543341 ACAAGGAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 12 0.29
20 18 0.44
22 11 0.27
ACGTcount: A:0.56, C:0.01, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAAAATTATGAGGGTAATA
Found at i:13543827 original size:21 final size:21
Alignment explanation
Indices: 13543801--13543846 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13543791 TAAAGTATAT
*
13543801 AAAAAATATG-AGATATTACCA
1 AAAAAATATGAAGA-AATACCA
13543822 AAAAAATATGAAGAAATACCA
1 AAAAAATATGAAGAAATACCA
13543843 AAAA
1 AAAA
13543847 TTACATGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.17
Consensus pattern (21 bp):
AAAAAATATGAAGAAATACCA
Found at i:13543880 original size:20 final size:21
Alignment explanation
Indices: 13543857--13543906 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
13543847 TTACATGGGT
**
13543857 GTACTAAAAATTGTGAGG-AA
1 GTACTAAAAATTACGAGGTAA
*
13543877 GTACAAAAAATTACGAGGTAA
1 GTACTAAAAATTACGAGGTAA
13543898 -TACTAAAAA
1 GTACTAAAAA
13543907 AGAAAAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (21 bp):
GTACTAAAAATTACGAGGTAA
Found at i:13543969 original size:20 final size:20
Alignment explanation
Indices: 13543946--13544041 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 20
13543936 AAGGAGGTAT
13543946 TAAAAATTATGAAGGAATAC
1 TAAAAATTATGAAGGAATAC
* *
13543966 TAAAAAATA-AAAGGGAATAC
1 TAAAAATTATGAA-GGAATAC
* *
13543986 AAAAAAATTATG-AGGAGATGCC
1 -TAAAAATTATGAAGGA-AT-AC
*
13544008 TAAAAA-TA--AATGAATAC
1 TAAAAATTATGAAGGAATAC
*
13544025 AAAAAATTATG-AGGAAT
1 TAAAAATTATGAAGGAAT
13544042 TACCAAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 19
0.65 0.13 0.22
Matches are distributed among these distances:
17 6 0.11
18 4 0.07
19 10 0.18
20 20 0.36
21 15 0.27
22 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (20 bp):
TAAAAATTATGAAGGAATAC
Found at i:13544051 original size:38 final size:39
Alignment explanation
Indices: 13543947--13544068 Score: 140
Period size: 38 Copynumber: 3.1 Consensus size: 39
13543937 AGGAGGTATT
*
13543947 AAAAATTATGAAGGAATACTAAAAAATAAAAGGGAATACAA
1 AAAAATTATG-AGGAATACCAAAAAAT-AAAGGGAATACAA
* * *
13543988 AAAAATTATGAGGAGATGCCTAAAAATAAA-TGAATAC-A
1 AAAAATTATGAGGA-ATACCAAAAAATAAAGGGAATACAA
*
13544026 AAAAATTATGAGGAATTACCAAAAAATAAAGGGGAGTACAA
1 AAAAATTATGAGGAA-TACCAAAAAATAAA-GGGAATACAA
13544067 AA
1 AA
13544069 TCTTAAAGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 27 0.40
39 6 0.09
40 12 0.18
41 22 0.32
ACGTcount: A:0.59, C:0.07, G:0.16, T:0.18
Consensus pattern (39 bp):
AAAAATTATGAGGAATACCAAAAAATAAAGGGAATACAA
Found at i:13544090 original size:21 final size:20
Alignment explanation
Indices: 13544052--13544090 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13544042 TACCAAAAAA
*
13544052 TAAAGGGGAGTACAAAATCT
1 TAAAGGGGACTACAAAATCT
*
13544072 TAAAGAGGGACTACCAAAT
1 TAAAG-GGGACTACAAAAT
13544091 ATTATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (20 bp):
TAAAGGGGACTACAAAATCT
Found at i:13546857 original size:17 final size:16
Alignment explanation
Indices: 13546835--13546868 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13546825 AAATGAAGAG
*
13546835 ATAATTTATTTTAAAAT
1 ATAATTT-TTTAAAAAT
13546852 ATAATTTTTTAAAAAT
1 ATAATTTTTTAAAAAT
13546868 A
1 A
13546869 AATCAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATTTTTTAAAAAT
Found at i:13554221 original size:3 final size:3
Alignment explanation
Indices: 13554213--13554256 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
13554203 TTAATATTAA
* * *
13554213 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT GTT AGT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13554257 ATTTTTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:13554376 original size:20 final size:18
Alignment explanation
Indices: 13554342--13554378 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
13554332 TTCTTATATT
13554342 ATTTTATATTATTATTTG
1 ATTTTATATTATTATTTG
13554360 ATTTTATAATATATTATTT
1 ATTTTAT-AT-TATTATTT
13554379 TATTAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATATTATTATTTG
Found at i:13567527 original size:44 final size:43
Alignment explanation
Indices: 13567431--13568354 Score: 329
Period size: 44 Copynumber: 21.3 Consensus size: 43
13567421 GAAGATAGCG
* * * *
13567431 AATCTTATCTCTCTAAAGTTGCAGTGCAG-AGATTAAATCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAT-CAAT
*
13567474 AATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGTCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-TCAAT
* * *
13567518 AATCCTATCTTCCTGAAGTTGCAGTGGAGC-GAGTTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TT-AAATCA-AT
* * * * * **
13567562 GATCTTATCTCTCTAAAGTTGCAG-AGAGCAGATTGCATCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAT-CAAT
* * *
13567605 --T-TTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAA-T
* * * **
13567646 AATCTTATCTCCCTGAAGTTGCAGTGCAGCAGATTGAAGAAACT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAA-T
* * * * *
13567690 AATCCTATTTCCCTAAAATTACAGT-GAGGCGGATTGAAATCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGA-GCAGATT-AAATCA-AT
* * * * * *** *
13567734 GATCTTATCTCTCTAAAGTTGCAG-AGAGCAGATCGCATCCAGT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAT-CAAT
* * * * * * * *
13567777 --T-TTATCTCCTTAAAATTGCAGTGGAGCAGACTGAATAAAC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAAT
* * *
13567817 AATTCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTAAAGCCAAT
1 AA-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-TCAAT
* * **
13567862 AGT-TCTATCTCCTTGAAGTTGTAGTGGAGC-GAGTTAAAATCACA-
1 AATCT-TATCTCCCTGAAGTTACAGTGGAGCAGA-TT-AAATCA-AT
* * * * *
13567906 AATCTTATCTCTCT-AATGTTGCAG-AGAGCAGATCACATC--T
1 AATCTTATCTCCCTGAA-GTTACAGTGGAGCAGATTAAATCAAT
* * * * * * *
13567946 AGTTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACC
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAA-T
* * * **
13567990 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGAAACT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAA-T
* * * ** * * *
13568034 AATCCTATCTCCCTAAAATTGTAGTGGGGCGGATTGAAATCACT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAATCAAT
* * * * * * *
13568078 GATCTTTTCTCTCTGAAGTTGCAG-AGAGCAGATCACATCAACT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAA-T
* * *** ** *
13568121 --T-TTATCTCCCTGAATTTGCAGTGGAGCAGACCGAAGAAAGCA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAA--T
* * *
13568163 AATCTTATC-CCTCTGAAGTTACAGTGGGGCAGGCTAAAGATGGC-A-
1 AATCTTATCTCC-CTGAAGTTACAGTGGAGCA-GATTAA-AT--CAAT
* ** * *
13568208 AATCTTATCTCCCTGAAATTGTAGTGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-TCAAT
* * * * * ** *
13568252 AATCCTATCTCTCTGAAGGTGCAATGGAGTGGATTAAAGTTACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-TCA-AT
* * * *
13568296 AGTCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAAAGGCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-TCAAT
*
13568340 AATCCTATCTCCCTG
1 AATCTTATCTCCCTG
13568355 GCGAGGCAGT
Statistics
Matches: 649, Mismatches: 176, Indels: 111
0.69 0.19 0.12
Matches are distributed among these distances:
40 71 0.11
41 45 0.07
42 16 0.02
43 64 0.10
44 382 0.59
45 64 0.10
46 5 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATCAAT
Found at i:13567663 original size:128 final size:130
Alignment explanation
Indices: 13567432--13567671 Score: 344
Period size: 128 Copynumber: 1.9 Consensus size: 130
13567422 AAGATAGCGA
*
13567432 ATCTTATCTCTCTAAAGTTGCAGTGCAGAGATTAAATCCAATAATCTTATCTCCCTGAAGTTACA
1 ATCTTATCTCTCTAAAGTTGCAGAGCAGAGATTAAATCCAAT-ATCTTATCTCCCTGAAGTTACA
* * * *
13567497 GTGGAACAGATTAAAGTCAATAATCCTATCTTCCTGAAGTTGCAGTGGAGCGAGTTAAAATCACA
65 GTGGAACAGACTAAAGTAAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGTTAAAATCACA
13567562 G
130 G
**
13567563 ATCTTATCTCTCTAAAGTTGCAGAG-AGCAGATTGCATCCAAT-T-TTATCTCCCTGAAGTTACA
1 ATCTTATCTCTCTAAAGTTGCAGAGCAG-AGATTAAATCCAATATCTTATCTCCCTGAAGTTACA
* *
13567625 GTGGAGCAGACTAAA-TAAACCAATCTTATCTCCCTGAAGTTGCAGTG
65 GTGGAACAGACTAAAGTAAA-CAATCCTATCTCCCTGAAGTTGCAGTG
13567672 CAGCAGATTG
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
127 3 0.03
128 56 0.57
129 1 0.01
130 2 0.02
131 36 0.37
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (130 bp):
ATCTTATCTCTCTAAAGTTGCAGAGCAGAGATTAAATCCAATATCTTATCTCCCTGAAGTTACAG
TGGAACAGACTAAAGTAAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGTTAAAATCACAG
Found at i:13567760 original size:172 final size:172
Alignment explanation
Indices: 13567474--13568188 Score: 847
Period size: 172 Copynumber: 4.2 Consensus size: 172
13567464 TAAATCCAAT
* * * * * *
13567474 AATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGTC-AATAATCCTATCTTCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGCAGCAGATTAAAG-CAAATAATCCTATCTCCCTAAAATT
**
13567538 GCAGTGGAGCGAGTTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATTGCATCCA
65 GCAGTGGAGCGAGTTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCCA
* *
13567603 ATTTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACC
130 ATTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACC
* *
13567646 AATCTTATCTCCCTGAAGTTGCAGTGCAGCAGATTGAAG-AAACTAATCCTATTTCCCTAAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGCAGCAGATTAAAGCAAA-TAATCCTATCTCCCTAAAATT
* * *
13567710 ACAGT-GAGGCG-GATTGAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATC
65 GCAGTGGA-GCGAG-TTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATC
* * * *
13567773 CAGTTTTATCTCCTTAAAATTGCAGTGGAGCAGACTGAATAAA-C
128 CAATTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACC
* * * * * *
13567817 AATTCTTATCTCCCTGAAGTTGCAGT-CGAGCAGATTAAAGCCAATAGTTCTATCTCCTTGAAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGC-AGCAGATTAAAGCAAATAATCCTATCTCCCTAAAAT
* * * *
13567881 TGTAGTGGAGCGAGTTAAAATCACAAATCTTATCTCTCTAATGTTGCAGAGAGCAGATCACATCT
64 TGCAGTGGAGCGAGTTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCC
*
13567946 AGTTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACC
129 AATTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACC
* * *
13567990 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-AAACTAATCCTATCTCCCTAAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGCAGCAGATTAAAGCAAA-TAATCCTATCTCCCTAAAATT
* * * * * *
13568054 GTAGTGGGGCG-GATTGAAATCACTGATCTTTTCTCTCTGAAGTTGCAGAGAGCAGATCACAT-C
65 GCAGTGGAGCGAG-TTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCC
* * * * * *
13568117 AACTTTTATCTCCCTGAATTTGCAGTGGAGCAGACCGAAGAAAGCA
129 AA-TTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAA-CC
*
13568163 AATCTTATC-CCTCTGAAGTTACAGTG
1 AATCTTATCTCC-CTGAAGTTGCAGTG
13568189 GGGCAGGCTA
Statistics
Matches: 466, Mismatches: 61, Indels: 31
0.84 0.11 0.06
Matches are distributed among these distances:
171 13 0.03
172 423 0.91
173 30 0.06
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (172 bp):
AATCTTATCTCCCTGAAGTTGCAGTGCAGCAGATTAAAGCAAATAATCCTATCTCCCTAAAATTG
CAGTGGAGCGAGTTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCCAA
TTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACC
Found at i:13567917 original size:344 final size:345
Alignment explanation
Indices: 13567474--13568187 Score: 1092
Period size: 344 Copynumber: 2.1 Consensus size: 345
13567464 TAAATCCAAT
* *
13567474 AATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGTCAATAATCCTATCTTCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTCGAACAGATTAAAGCCAATAATCCTATCTTCCTGAAGTTG
* **
13567539 CAGTGGAGCGAGTTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATTGCATCCAA
66 CAGTGGAGCGAGTTAAAATCACAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCCAA
*
13567604 TTTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGCA
131 TTTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGCA
*
13567669 GTGCAGCAGATTGAAGAAACTAATCCTATTTCCCTAAAATTACAGTGAGGCGGATTGAAATCACA
196 GTGCAGCAGATTGAAGAAACTAATCCTATCTCCCTAAAATTACAGTGAGGCGGATTGAAATCACA
* * * *
13567734 GATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCCAGTTTTATCTCCTTAAAATTGCAGT
261 GATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCAACTTTTATCTCCCTAAAATTGCAGT
* *
13567799 GGAGCAGACTGAATAAA-CA
326 GGAGCAGACCGAAGAAAGCA
* * * * *
13567818 ATTCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTAAAGCCAATAGTTCTATC-TCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTACAGTCGAACAGATTAAAGCCAATAATCCTATCTTCC-TGAAGTT
* * *
13567882 GTAGTGGAGCGAGTTAAAATCACAAATCTTATCTCTCTAATGTTGCAGAGAGCAGATCACATCTA
65 GCAGTGGAGCGAGTTAAAATCACAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCCA
* * *
13567947 GTTTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAATAAACCAATCTTATCTCCTTGAAGTTGC
130 ATTTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGC
* ** *
13568012 AGTGGAGCAGATTGAAGAAACTAATCCTATCTCCCTAAAATTGTAGTGGGGCGGATTGAAATCAC
195 AGTGCAGCAGATTGAAGAAACTAATCCTATCTCCCTAAAATTACAGTGAGGCGGATTGAAATCAC
* * * * *
13568077 TGATCTTTTCTCTCTGAAGTTGCAGAGAGCAGATCACATCAACTTTTATCTCCCTGAATTTGCAG
260 AGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCAACTTTTATCTCCCTAAAATTGCAG
13568142 TGGAGCAGACCGAAGAAAGCA
325 TGGAGCAGACCGAAGAAAGCA
13568163 AATCTTATC-CCTCTGAAGTTACAGT
1 AATCTTATCTCC-CTGAAGTTACAGT
13568188 GGGGCAGGCT
Statistics
Matches: 332, Mismatches: 35, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
343 3 0.01
344 307 0.92
345 22 0.07
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (345 bp):
AATCTTATCTCCCTGAAGTTACAGTCGAACAGATTAAAGCCAATAATCCTATCTTCCTGAAGTTG
CAGTGGAGCGAGTTAAAATCACAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCCAA
TTTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTGCA
GTGCAGCAGATTGAAGAAACTAATCCTATCTCCCTAAAATTACAGTGAGGCGGATTGAAATCACA
GATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCACATCAACTTTTATCTCCCTAAAATTGCAGT
GGAGCAGACCGAAGAAAGCA
Found at i:13568179 original size:45 final size:45
Alignment explanation
Indices: 13568122--13568236 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
13568112 ACATCAACTT
* *
13568122 TTATCTCCCTGAATTTGCAGTGGAGCAGACCGAAGAAAGCAAATC
1 TTATCTCCCTGAAATTGCAGTGGAGCAGACCAAAGAAAGCAAATC
* * * * * **
13568167 TTATC-CCTCTGAAGTTACAGTGGGGCAGGCTAAAGATGGCAAATC
1 TTATCTCC-CTGAAATTGCAGTGGAGCAGACCAAAGAAAGCAAATC
*
13568212 TTATCTCCCTGAAATTGTAGTGGAG
1 TTATCTCCCTGAAATTGCAGTGGAG
13568237 TAGATTAAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.93
46 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
TTATCTCCCTGAAATTGCAGTGGAGCAGACCAAAGAAAGCAAATC
Found at i:13568375 original size:88 final size:88
Alignment explanation
Indices: 13568210--13568384 Score: 217
Period size: 88 Copynumber: 2.0 Consensus size: 88
13568200 AGATGGCAAA
* * * *
13568210 TCTTATCTCCCTGAAATTGTAGTGGAGTAGATTAAAGCCAATAATCCTATCTCTCTGAAGGTGCA
1 TCTTATATCCCTGAAATTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGGTGCA
*** *
13568275 ATGGAGTGGATTAAAGTTACAAG
66 ATGGAACAGATTAAAGCTACAAG
* * **
13568298 TCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAAAGGCAATAATCCTATCTCCCTGGCGAG-GC
1 TCTTATATCCCTGAAATTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAG-GTGC
*
13568362 AGTGGAACAGATTAAAGCTACAA
65 AATGGAACAGATTAAAGCTACAA
13568385 TAGCGAATCT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 72 0.99
89 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTATATCCCTGAAATTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGGTGCA
ATGGAACAGATTAAAGCTACAAG
Found at i:13568729 original size:16 final size:16
Alignment explanation
Indices: 13568708--13568738 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13568698 CAAATCAAAA
13568708 AAATAAAAGTCCATTG
1 AAATAAAAGTCCATTG
*
13568724 AAATAACAGTCCATT
1 AAATAAAAGTCCATT
13568739 CACAAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (16 bp):
AAATAAAAGTCCATTG
Found at i:13569773 original size:3 final size:3
Alignment explanation
Indices: 13569765--13569835 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
13569755 TAATATTAAT
*
13569765 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
13569813 TTA TTG TTA GTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
13569836 TTTTATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:13572657 original size:18 final size:19
Alignment explanation
Indices: 13572587--13572655 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
13572577 TTATTTTTAA
*
13572587 AAATATATAATTGTTAATTT
1 AAATATA-AATTATTAATTT
* * *
13572607 AATTCTAAATTAATTATTTT
1 AAATATAAATT-ATTAATTT
*
13572627 AATTATAAATT-TTAATTT
1 AAATATAAATTATTAATTT
13572645 AAATATAAATT
1 AAATATAAATT
13572656 TTTTAGGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 16 0.39
19 4 0.10
20 21 0.51
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
AAATATAAATTATTAATTT
Found at i:13573479 original size:22 final size:22
Alignment explanation
Indices: 13573449--13573491 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13573439 ACACCAAAAC
* *
13573449 AGGCTTTTAGCTGAGCTTTTTT
1 AGGCCTTTAGCGGAGCTTTTTT
*
13573471 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGAGCTTTTT
13573492 AGCGGCGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGAGCTTTTTT
Found at i:13573565 original size:43 final size:43
Alignment explanation
Indices: 13573510--13573865 Score: 371
Period size: 43 Copynumber: 8.3 Consensus size: 43
13573500 TTTCAGAACT
*
13573510 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
13573553 AAACGCCGCTAAAGA-CAATGATCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGACCAA-GACCTTTAGCGGCGCTTTTCCCAC
* * * * *
13573596 AAACGCCGCTAAAGTCTATGACCTTTAACGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * * *
13573639 AAATGCTGCTAAAGACCATGATCTTTAGCGGCGCTTTTTCCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
13573682 AAACGCCGCTAAAGTCCATGACCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
13573725 AAACGCCGCTAAAGTCCATA-ACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
13573768 AAACCCCGCTATAGA--ATAGATCTTTAGCGACGCATTTTCGTAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGC-TTTTCCCAC
* ** * *
13573811 AAACGCTGCTATTGAACAA-ACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
13573853 AAACGCCGCTAAA
1 AAACGCCGCTAAA
13573866 AACATATCTT
Statistics
Matches: 261, Mismatches: 45, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.01
42 32 0.12
43 223 0.85
44 2 0.01
45 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:13573686 original size:129 final size:129
Alignment explanation
Indices: 13573518--13573865 Score: 416
Period size: 129 Copynumber: 2.7 Consensus size: 129
13573508 CTAAACGCCA
* * * *
13573518 CTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACAATGATCTTTAGCG
1 CTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACAATGACCTTTAGCG
* * * * ** *
13573583 GCGCTTTTCCCAAAAACGCCGCTAAAGTCTATGACCTTTAACGGTGCTTTTCCCACAAATGCTG
66 GCGCTTTTCCCACAAACGCCGCTAAAGTCCATAACCTTTAACGGCGCTTTTCCCACAAACCCCG
* * *
13573647 CTAAAGACCATGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTAAAGTCCATGACCTTTAGCG
1 CTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACAATGACCTTTAGCG
* * *
13573712 GCGTTTTTCCCACAAACGCCGCTAAAGTCCATAACCTTTAGCGGCGCTTTTCCTACAAACCCCG
66 GCGCTTTTCCCACAAACGCCGCTAAAGTCCATAACCTTTAACGGCGCTTTTCCCACAAACCCCG
* * * * * **
13573776 CTATAGA--ATAGATCTTTAGCGACGCATTTTCGTACAAACGCTGCTATTGAACAA--ACCTTTA
1 CTAAAGACCAT-GATCTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAAG-ACAATGACCTTTA
*
13573837 GCGGCGCTTTTCACACAAACGCCGCTAAA
63 GCGGCGCTTTTCCCACAAACGCCGCTAAA
13573866 AACATATCTT
Statistics
Matches: 187, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
127 2 0.01
128 53 0.28
129 130 0.70
130 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (129 bp):
CTAAAGACCATGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACAATGACCTTTAGCG
GCGCTTTTCCCACAAACGCCGCTAAAGTCCATAACCTTTAACGGCGCTTTTCCCACAAACCCCG
Found at i:13573906 original size:15 final size:17
Alignment explanation
Indices: 13573881--13573912 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13573871 ATCTTCAAAA
13573881 AAATAAATTTTT-TTTC
1 AAATAAATTTTTATTTC
13573897 AAAT-AATTTTTATTTC
1 AAATAAATTTTTATTTC
13573913 TATGATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATAAATTTTTATTTC
Found at i:13574033 original size:42 final size:44
Alignment explanation
Indices: 13573984--13574072 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 44
13573974 TTACGAGAAT
13573984 TTTAACTTTAAAACTA-AATATAAAATTAAT-AA-AATAACACAA
1 TTTAACTTTAAAACTAGAATATAAAA-TAATAAATAATAACACAA
** *
13574026 TTTAACTTTAAATTTAGAATTTAAAATAATAAATTAATAACACAA
1 TTTAACTTTAAAACTAGAATATAAAATAATAAA-TAATAACACAA
13574071 TT
1 TT
13574073 AAAATCCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
42 18 0.45
43 10 0.25
45 12 0.30
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (44 bp):
TTTAACTTTAAAACTAGAATATAAAATAATAAATAATAACACAA
Found at i:13574110 original size:27 final size:25
Alignment explanation
Indices: 13574080--13574133 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
13574070 ATTAAAATCC
**
13574080 AAAAGTTAGAACTCTTAACTAAAAATA
1 AAAAGTTAGAA-TCAAAACT-AAAATA
*
13574107 AAAATTTAGAATCAAAACTAAAATA
1 AAAAGTTAGAATCAAAACTAAAATA
13574132 AA
1 AA
13574134 TAATACATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.33
26 6 0.25
27 10 0.42
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAGTTAGAATCAAAACTAAAATA
Found at i:13574214 original size:43 final size:43
Alignment explanation
Indices: 13574148--13574238 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
13574138 ACATATGCAA
* * *
13574148 GGTAATAAAACATAAAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATAAAATACATTTACTTAATCAAGGAAATCTT
* *
13574191 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATAAAATACATTTACTTAATCAAGGAAATCTT
13574234 -GTAAT
1 GGTAAT
13574239 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATAAAATACATTTACTTAATCAAGGAAATCTT
Found at i:13576298 original size:35 final size:35
Alignment explanation
Indices: 13576259--13576340 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
13576249 TGAATCTCTA
* * * * * *
13576259 AACCCTAAATCCTAAATCACTAACTCTTAACTTCT
1 AACCCTAAACCCCAAACCACTAACCCCTAACTCCT
*
13576294 AACCCTTAACCCCAAACCACTAACCCCTAACTCCT
1 AACCCTAAACCCCAAACCACTAACCCCTAACTCCT
13576329 AACCCCTAAACC
1 AA-CCCTAAACC
13576341 TTATTTAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 30 0.79
36 8 0.21
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (35 bp):
AACCCTAAACCCCAAACCACTAACCCCTAACTCCT
Found at i:13576311 original size:7 final size:7
Alignment explanation
Indices: 13576292--13576337 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
13576282 CTCTTAACTT
13576292 CTAACCC
1 CTAACCC
*
13576299 TTAACCC
1 CTAACCC
* *
13576306 CAAACCA
1 CTAACCC
13576313 CTAACCC
1 CTAACCC
*
13576320 CTAACTC
1 CTAACCC
13576327 CTAACCC
1 CTAACCC
13576334 CTAA
1 CTAA
13576338 ACCTTATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAACCC
Found at i:13576316 original size:21 final size:21
Alignment explanation
Indices: 13576292--13576343 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
13576282 CTCTTAACTT
13576292 CTAACCCTTAACCCCAAACCA
1 CTAACCCTTAACCCCAAACCA
* * * *
13576313 CTAACCCCTAACTCCTAACCC
1 CTAACCCTTAACCCCAAACCA
*
13576334 CTAAACCTTA
1 CTAACCCTTA
13576344 TTTAATATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAACCCTTAACCCCAAACCA
Found at i:13576412 original size:82 final size:81
Alignment explanation
Indices: 13576318--13576475 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 81
13576308 AACCACTAAC
* * *
13576318 CCCTAACTCCTAACCCCTAAACCTTATTTAATATATAAATTAAAA-ATATTAATTAATC-AAACC
1 CCCTAACCCCTAACCCCTAAACCTTATTTAATA-A-AAATTAAAACACACTAATTAATCTAAA-C
*
13576381 CCTAAATCCTAACCCGAAT
63 CCTAAAGCCTAACCCGAAT
* *
13576400 CCCTAACCCCTAACCCTTAAACCTTATTTCATAAAAATTAAAACACACTAATTAATCTAAACCCT
1 CCCTAACCCCTAACCCCTAAACCTTATTTAATAAAAATTAAAACACACTAATTAATCTAAACCCT
13576465 AAAGCCTAACC
66 AAAGCCTAACC
13576476 TAACACCGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 9 0.13
81 26 0.38
82 33 0.49
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.27
Consensus pattern (81 bp):
CCCTAACCCCTAACCCCTAAACCTTATTTAATAAAAATTAAAACACACTAATTAATCTAAACCCT
AAAGCCTAACCCGAAT
Found at i:13577130 original size:40 final size:40
Alignment explanation
Indices: 13576895--13577105 Score: 257
Period size: 41 Copynumber: 5.2 Consensus size: 40
13576885 AAAAAATTTT
*
13576895 GCGGCGCTTT-TTGAAAAAACGTCGCTAAAAGAC-CGAGCATTA
1 GCGGCGCTTTCTT--AAAAACGCCGCT-AAAG-CTCGAGCATTA
* *
13576937 GCGGCACTTTCTCAAAAACGCCGCTAAAAG-TCCGAGCATTA
1 GCGGCGCTTTCTTAAAAACGCCGCT-AAAGCT-CGAGCATTA
*
13576978 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCTC-GAGCATTA
*
13577019 GCGGTGCTTTCTTAAAAACGCCGCTAAAGCTCAGAGCATTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCTC-GAGCATTA
* * *
13577060 GCGGTGCTTTCTTAAAAACGCCGCTAATGCTCGAGCTTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCTCGAGCATTA
13577100 GCGGCG
1 GCGGCG
13577106 TTTTGTGTAA
Statistics
Matches: 154, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
40 17 0.11
41 127 0.82
42 9 0.06
43 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAAGCTCGAGCATTA
Found at i:13578321 original size:228 final size:228
Alignment explanation
Indices: 13577919--13578378 Score: 902
Period size: 228 Copynumber: 2.0 Consensus size: 228
13577909 TATCTCCATG
*
13577919 TAACTGTACCACGTATGCTCACACTCTCCAAACACACCATGCTATCTACAGTGAATGGAGCTATG
1 TAACAGTACCACGTATGCTCACACTCTCCAAACACACCATGCTATCTACAGTGAATGGAGCTATG
13577984 CTCAACATTCCCTTATCTCTCCAACGCTATCTTCAAGCCACAATGCCCAACACTTAATAAAAATG
66 CTCAACATTCCCTTATCTCTCCAACGCTATCTTCAAGCCACAATGCCCAACACTTAATAAAAATG
13578049 GTGAGTACTCACAATCCTATGGCATGCCAATGATATCCAATAGTTTCAAGTGTTCACATTGCCAA
131 GTGAGTACTCACAATCCTATGGCATGCCAATGATATCCAATAGTTTCAAGTGTTCACATTGCCAA
13578114 AATATCTATTTAATCACATTTTATTTCACAATA
196 AATATCTATTTAATCACATTTTATTTCACAATA
13578147 TAACAGTACCACGTATGCTCACACTCTCCAAACACACCATGCTATCTACAGTGAATGGAGCTATG
1 TAACAGTACCACGTATGCTCACACTCTCCAAACACACCATGCTATCTACAGTGAATGGAGCTATG
13578212 CTCAACATTCCCTTATCTCTCCAACGCTATCTTCAAGCCACAATGCCCAACACTTAATAAAAATG
66 CTCAACATTCCCTTATCTCTCCAACGCTATCTTCAAGCCACAATGCCCAACACTTAATAAAAATG
*
13578277 GTGAGTACTCACAATCCTATGGCATGCCAATGGTATCCAATAGTTTCAAGTGTTCACATTGCCAA
131 GTGAGTACTCACAATCCTATGGCATGCCAATGATATCCAATAGTTTCAAGTGTTCACATTGCCAA
13578342 AATATCTATTTAATCACATTTTATTTCACAATA
196 AATATCTATTTAATCACATTTTATTTCACAATA
13578375 TAAC
1 TAAC
13578379 TGGCTCGCAT
Statistics
Matches: 230, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 230 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (228 bp):
TAACAGTACCACGTATGCTCACACTCTCCAAACACACCATGCTATCTACAGTGAATGGAGCTATG
CTCAACATTCCCTTATCTCTCCAACGCTATCTTCAAGCCACAATGCCCAACACTTAATAAAAATG
GTGAGTACTCACAATCCTATGGCATGCCAATGATATCCAATAGTTTCAAGTGTTCACATTGCCAA
AATATCTATTTAATCACATTTTATTTCACAATA
Found at i:13578552 original size:38 final size:38
Alignment explanation
Indices: 13578510--13578586 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
13578500 GCATTAATAA
*
13578510 TAAAATTTGCATGTTATAAGAGTCCACATTATATTATT
1 TAAAATTTACATGTTATAAGAGTCCACATTATATTATT
*
13578548 TAAAATTTACATGTTATAAGAGTCTACATTATATTATT
1 TAAAATTTACATGTTATAAGAGTCCACATTATATTATT
13578586 T
1 T
13578587 GTTCTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (38 bp):
TAAAATTTACATGTTATAAGAGTCCACATTATATTATT
Found at i:13578938 original size:33 final size:34
Alignment explanation
Indices: 13578879--13578959 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
13578869 CACCCATGCC
* *
13578879 TATATATATCATATACAATACAACCCCT-ATACG
1 TATATATATCATATACAACACAACCCCTAAAACG
*
13578912 TATATATATCATATGA-AACA-ATACCCCTAAAACT
1 TATATATATCATAT-ACAACACA-ACCCCTAAAACG
13578946 TATATATAATCATA
1 TATATAT-ATCATA
13578960 AACGCATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.02
33 23 0.56
34 11 0.27
35 6 0.15
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (34 bp):
TATATATATCATATACAACACAACCCCTAAAACG
Found at i:13583207 original size:15 final size:15
Alignment explanation
Indices: 13583187--13583216 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13583177 AGACTCTTTA
*
13583187 TTACAAAAGGAAAGT
1 TTACAAAAGAAAAGT
13583202 TTACAAAAGAAAAGT
1 TTACAAAAGAAAAGT
13583217 AAGAAGGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
TTACAAAAGAAAAGT
Found at i:13583900 original size:15 final size:15
Alignment explanation
Indices: 13583876--13583905 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13583866 TTTCCTTCTT
*
13583876 ACTTTTCTTTTGTAA
1 ACTTTCCTTTTGTAA
13583891 ACTTTCCTTTTGTAA
1 ACTTTCCTTTTGTAA
13583906 TAAAGAGCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (15 bp):
ACTTTCCTTTTGTAA
Found at i:13589344 original size:3 final size:3
Alignment explanation
Indices: 13589338--13589393 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
13589328 TCTATTGTTG
13589338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13589386 TTA TTA TT
1 TTA TTA TT
13589394 TTACTAATGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13606010 original size:21 final size:21
Alignment explanation
Indices: 13605986--13606031 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13605976 TTACCGTTAG
13605986 AACTGAGAGTTCTACCAATAC
1 AACTGAGAGTTCTACCAATAC
** * *
13606007 AACTTTGGGTTCTACCGATAC
1 AACTGAGAGTTCTACCAATAC
13606028 AACT
1 AACT
13606032 CGGACTTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (21 bp):
AACTGAGAGTTCTACCAATAC
Found at i:13606204 original size:50 final size:50
Alignment explanation
Indices: 13606147--13606257 Score: 188
Period size: 50 Copynumber: 2.2 Consensus size: 50
13606137 TACCCTAAGG
*
13606147 ACTTCTACTGAAACAAGTAAAGT-AAGTAGCCAAAGTTCAGAATCTTCTAC
1 ACTTCTACCGAAACAAGTAAAGTCAA-TAGCCAAAGTTCAGAATCTTCTAC
*
13606197 ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCTTCTAC
1 ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGAATCTTCTAC
13606247 ACTTCTACCGA
1 ACTTCTACCGA
13606258 TACCTTGAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 56 0.97
51 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (50 bp):
ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGAATCTTCTAC
Found at i:13606331 original size:71 final size:72
Alignment explanation
Indices: 13606197--13606349 Score: 202
Period size: 71 Copynumber: 2.2 Consensus size: 72
13606187 AATCTTCTAC
**
13606197 ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCTTCTACACTTCTACCGATACC
1 ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATACC
13606262 TTGA-GG
66 TTGATGG
* * * * * ** *
13606268 ACTTATACCGAAACAATTCAAGTCAGTAGCCAAAGTTCAGCATCCCCTGCACTTCTATTGATACT
1 ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATACC
13606333 TTGATGG
66 TTGATGG
13606340 A-TTCTACCGA
1 ACTTCTACCGA
13606350 TACCAAATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
71 67 0.96
72 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (72 bp):
ACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCCCCTACACTTCTACCGATACC
TTGATGG
Found at i:13608379 original size:12 final size:12
Alignment explanation
Indices: 13608349--13608381 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
13608339 TATATATTTT
13608349 AAAATT-ATATA
1 AAAATTAATATA
13608360 AAAA-TAATATA
1 AAAATTAATATA
13608371 AAAATTAATAT
1 AAAATTAATAT
13608382 GGGCGGATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:13612996 original size:47 final size:47
Alignment explanation
Indices: 13612928--13613084 Score: 188
Period size: 47 Copynumber: 3.3 Consensus size: 47
13612918 ATTCTATTTG
* * **
13612928 GCCTTTGTGGCATATTCTGTATGTTGTCTTTGTGGCACACTCTGATA
1 GCCTTTGTGGCATATTATGTATGTTATCTTTGTGGCGTACTCTGATA
* * * * *
13612975 GCCTTTTTGGCGTATTTTGTATGTTACCTTTGTGGTGTACTCTGATA
1 GCCTTTGTGGCATATTATGTATGTTATCTTTGTGGCGTACTCTGATA
* * * * *
13613022 ACATTTGTGGCATATTATGTATGCTATCTTTGTGGCGTACTTTAATA
1 GCCTTTGTGGCATATTATGTATGTTATCTTTGTGGCGTACTCTGATA
13613069 GCCTTTGTGGCATATT
1 GCCTTTGTGGCATATT
13613085 CTGCCTGGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (47 bp):
GCCTTTGTGGCATATTATGTATGTTATCTTTGTGGCGTACTCTGATA
Found at i:13642067 original size:2 final size:2
Alignment explanation
Indices: 13642060--13642101 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13642050 AAATGAATCA
13642060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13642102 GTTATTATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13643203 original size:20 final size:20
Alignment explanation
Indices: 13643159--13643204 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
13643149 TAAGTTTATG
* *
13643159 CTAAGTAAATGGATTGGAAA
1 CTAAGTAAATAGAATGGAAA
* *
13643179 GTAAGTAAATAGAATGGTAA
1 CTAAGTAAATAGAATGGAAA
13643199 CTAAGT
1 CTAAGT
13643205 TATGGAAGCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (20 bp):
CTAAGTAAATAGAATGGAAA
Found at i:13646986 original size:17 final size:16
Alignment explanation
Indices: 13646964--13647003 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
13646954 GAGAGATATT
*
13646964 TTAAATAATTTATTTAA
1 TTAAATAATATA-TTAA
13646981 TTAAATAATATATTAA
1 TTAAATAATATATTAA
13646997 -TAAATAA
1 TTAAATAA
13647004 ATTAGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 4 0.18
17 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATAATATATTAA
Found at i:13661835 original size:12 final size:11
Alignment explanation
Indices: 13661814--13661923 Score: 96
Period size: 11 Copynumber: 9.4 Consensus size: 11
13661804 TTATTTGATG
13661814 TGTTAGTGAAA
1 TGTTAGTGAAA
13661825 TGTTAGATGAAA
1 TGTTAG-TGAAA
*
13661837 TGTTAGTTAATA
1 TGTTAGTGAA-A
** *
13661849 AATTGAAGT-ATTA
1 TGTT--AGTGA-AA
13661862 TGTGTTAGTGAAA
1 TGT-T-AGTGAAA
*
13661875 TGTTAGTAAAA
1 TGTTAGTGAAA
13661886 TGTTAGTGAAA
1 TGTTAGTGAAA
13661897 TGTTAGATGAAA
1 TGTTAG-TGAAA
13661909 TGTTAGTGAAA
1 TGTTAGTGAAA
13661920 TGTT
1 TGTT
13661924 GAATGACATC
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
11 40 0.49
12 26 0.32
13 10 0.12
14 5 0.06
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (11 bp):
TGTTAGTGAAA
Found at i:13661840 original size:23 final size:23
Alignment explanation
Indices: 13661814--13661923 Score: 114
Period size: 23 Copynumber: 4.7 Consensus size: 23
13661804 TTATTTGATG
13661814 TGTTAGTGAAATGTTAGATGAAA
1 TGTTAGTGAAATGTTAGATGAAA
* ** * **
13661837 TGTTAGTTAATAAATTGAAGTATTATG
1 TGTTAGTGAA-ATGTT--AG-ATGAAA
*
13661864 TGTTAGTGAAATGTTAG-TAAAA
1 TGTTAGTGAAATGTTAGATGAAA
13661886 TGTTAGTGAAATGTTAGATGAAA
1 TGTTAGTGAAATGTTAGATGAAA
13661909 TGTTAGTGAAATGTT
1 TGTTAGTGAAATGTT
13661924 GAATGACATC
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
22 19 0.28
23 28 0.41
24 5 0.07
26 5 0.07
27 12 0.17
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (23 bp):
TGTTAGTGAAATGTTAGATGAAA
Found at i:13670908 original size:26 final size:26
Alignment explanation
Indices: 13670830--13670910 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
13670820 AACACACCAA
* **
13670830 TATCGCAGCAAAGTTGCCAGTAGTAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* ** * *
13670856 CATCGCAGCCGAGCTGCCATTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
13670882 TATCGCAGCAAAGCTGCCAGAAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
13670908 TAT
1 TAT
13670911 ACTTCCTCCA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:13671121 original size:27 final size:26
Alignment explanation
Indices: 13671091--13671349 Score: 232
Period size: 27 Copynumber: 9.6 Consensus size: 26
13671081 ACCCAACGGA
*
13671091 GGTATTTCAGTCATTTTACCCATTTGG
1 GGTATTTCGGTCATTTTACCC-TTTGG
13671118 GGTATTTCGGTCATTTTACCCTTTAGG
1 GGTATTTCGGTCATTTTACCCTTT-GG
* *
13671145 GGTATTTCAGTCATTTTA-TCTTTCGG
1 GGTATTTCGGTCATTTTACCCTTT-GG
* * *
13671171 GAGTTTTTCGATCATTTTACCTCTTAGG
1 G-GTATTTCGGTCATTTTACC-CTTTGG
***
13671199 GGTATTTCGGTCATTTTACCCTTCAAT
1 GGTATTTCGGTCATTTTACCCTT-TGG
*
13671226 GGTATTTCGGTCGTTTTACCCTTTGG
1 GGTATTTCGGTCATTTTACCCTTTGG
* **
13671252 GAGTACTTCGGTCATTTTACCCCTCGGG
1 G-GTATTTCGGTCATTTTA-CCCTTTGG
* * *
13671280 GGTATTTCGATTATTTTACCCCTTGGG
1 GGTATTTCGGTCATTTTA-CCCTTTGG
* * * *
13671307 GGTATTTAGGTTATTTTACCCCTCGG
1 GGTATTTCGGTCATTTTACCCTTTGG
*
13671333 AGGTATTTCGATCATTT
1 -GGTATTTCGGTCATTT
13671350 GCCCACGAAT
Statistics
Matches: 192, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
26 20 0.10
27 159 0.83
28 10 0.05
29 3 0.02
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (26 bp):
GGTATTTCGGTCATTTTACCCTTTGG
Found at i:13673282 original size:13 final size:14
Alignment explanation
Indices: 13673259--13673288 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13673249 GTAAAACTAT
13673259 TTAAGTAAACATGA
1 TTAAGTAAACATGA
13673273 TTAAGT-AACATGA
1 TTAAGTAAACATGA
13673286 TTA
1 TTA
13673289 GGTGTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (14 bp):
TTAAGTAAACATGA
Found at i:13675000 original size:23 final size:24
Alignment explanation
Indices: 13674956--13675000 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13674946 AAAATCCTAC
*
13674956 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
13674980 CCATCCAACCT-TACACTCCAT
1 CCATCCAACCTCTACACACCAT
13675001 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.27, C:0.49, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:13679895 original size:25 final size:25
Alignment explanation
Indices: 13679852--13679906 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
13679842 TCAAAATAGC
** *
13679852 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTATAACAGTCTCAGGATATA
*
13679877 CTATCTATAACAGTTTCAGGATATA
1 CTATCTATAACAGTCTCAGGATATA
13679902 CTATC
1 CTATC
13679907 AAAGACAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (25 bp):
CTATCTATAACAGTCTCAGGATATA
Found at i:13679914 original size:25 final size:25
Alignment explanation
Indices: 13679867--13679917 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
13679857 TATAGTAGTC
* *
13679867 TCAGTATATACTATCTATAACAGTT
1 TCAGGATATACTATCTAAAACAGTT
13679892 TCAGGATATACTATC-AAAGACAGTT
1 TCAGGATATACTATCTAAA-ACAGTT
13679917 T
1 T
13679918 TAGTTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (25 bp):
TCAGGATATACTATCTAAAACAGTT
Found at i:13680218 original size:18 final size:19
Alignment explanation
Indices: 13680197--13680236 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
13680187 ATTTTTTATT
13680197 ATTGTTATTC-ATTTACAA
1 ATTGTTATTCAATTTACAA
*
13680215 ATTGTTATTCAATTTCCAA
1 ATTGTTATTCAATTTACAA
13680234 ATT
1 ATT
13680237 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTGTTATTCAATTTACAA
Found at i:13686568 original size:2 final size:2
Alignment explanation
Indices: 13686557--13686596 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
13686547 TGTAACTTGT
13686557 TA TA -A TA TA TA T- TA TA -A TA TA TA TCA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
13686597 ATTACTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 29 0.85
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13686573 original size:12 final size:12
Alignment explanation
Indices: 13686556--13686598 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
13686546 GTGTAACTTG
13686556 TTATAATATATA
1 TTATAATATATA
13686568 TTATAATATATA
1 TTATAATATATA
*
13686580 TCAT-ATATATA
1 TTATAATATATA
13686591 TATATAAT
1 T-TATAAT
13686599 TACTATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 8 0.30
12 17 0.63
13 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
TTATAATATATA
Found at i:13688239 original size:2 final size:2
Alignment explanation
Indices: 13688232--13688286 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
13688222 AATTAGTCTT
13688232 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13688274 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
13688287 TAAAAGCCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13691445 original size:7 final size:7
Alignment explanation
Indices: 13691433--13691457 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13691423 TAAACAAATA
13691433 TTTATAT
1 TTTATAT
13691440 TTTATAT
1 TTTATAT
13691447 TTTATAT
1 TTTATAT
13691454 TTTA
1 TTTA
13691458 AAACATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:13691545 original size:17 final size:18
Alignment explanation
Indices: 13691508--13691542 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13691498 TTATTTTTGT
*
13691508 TAAATTTCATTATTAAAA
1 TAAATTTCACTATTAAAA
*
13691526 TAAATTTTACTATTAAA
1 TAAATTTCACTATTAAA
13691543 TAATTCATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTTCACTATTAAAA
Found at i:13692726 original size:20 final size:20
Alignment explanation
Indices: 13692701--13692743 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
13692691 ACTTTAAAAT
13692701 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
*
13692721 CAAGTTAAAGTGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
13692741 CAA
1 CAA
13692744 TCAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
CAAGTTAAAATGATTTTAAC
Found at i:13697044 original size:11 final size:11
Alignment explanation
Indices: 13697030--13697139 Score: 79
Period size: 11 Copynumber: 9.9 Consensus size: 11
13697020 TAAAACAAAT
13697030 TATTTTAAAAA
1 TATTTTAAAAA
13697041 TATTTT--AAA
1 TATTTTAAAAA
13697050 -A--TTAAAAA
1 TATTTTAAAAA
* *
13697058 -AATTTAAAAG
1 TATTTTAAAAA
13697068 TATTTTAAAAA
1 TATTTTAAAAA
13697079 TATTTTAAAAA
1 TATTTTAAAAA
13697090 TATTTTAAATTAAAA
1 TATTTT--A--AAAA
*
13697105 AATTTTAAAAAAA
1 TATTTT--AAAAA
*
13697118 GTATTTTAAAAG
1 -TATTTTAAAAA
13697130 TATTTTAAAA
1 TATTTTAAAA
13697140 TTTAAAAAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
6 2 0.02
8 5 0.06
9 3 0.04
10 6 0.07
11 41 0.49
12 4 0.05
13 5 0.06
14 5 0.06
15 12 0.14
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:13697103 original size:38 final size:38
Alignment explanation
Indices: 13697030--13697146 Score: 121
Period size: 38 Copynumber: 3.0 Consensus size: 38
13697020 TAAAACAAAT
* ***
13697030 TATTTTAAAAATATTTTAAAATTA-AAAAAATTTAAAA
1 TATTTTAAAAATATTTTAAAAATATTTTAAATTTAAAA
13697067 GTATTTTAAAAATATTTTAAAAATATTTTAAA-TTAAAA
1 -TATTTTAAAAATATTTTAAAAATATTTTAAATTTAAAA
* *
13697105 AATTTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAA
1 TATTTT--AAAAA-TATTTTAAAAATATTTT-AAATTTAAAA
13697147 AAATAAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.07
38 29 0.43
39 8 0.12
40 16 0.24
41 3 0.04
42 6 0.09
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (38 bp):
TATTTTAAAAATATTTTAAAAATATTTTAAATTTAAAA
Found at i:13697109 original size:15 final size:16
Alignment explanation
Indices: 13697083--13697127 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
13697073 TAAAAATATT
13697083 TTAAAAATATTTTAAA
1 TTAAAAATATTTTAAA
13697099 TTAAAAA-ATTTTAAA
1 TTAAAAATATTTTAAA
*
13697114 --AAAAGTATTTTAAA
1 TTAAAAATATTTTAAA
13697128 AGTATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 4 0.15
14 8 0.30
15 8 0.30
16 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TTAAAAATATTTTAAA
Found at i:13697127 original size:29 final size:27
Alignment explanation
Indices: 13697030--13697115 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
13697020 TAAAACAAAT
13697030 TATTTTAAAAATATTTTAAAATTAAAAA
1 TATTTTAAAAATATTTT-AAATTAAAAA
* *
13697058 -AATTTAAAAGTA--TT---TTAAAAA
1 TATTTTAAAAATATTTTAAATTAAAAA
13697079 TATTTTAAAAATATTTTAAATTAAAAA
1 TATTTTAAAAATATTTTAAATTAAAAA
13697106 -ATTTTAAAAA
1 TATTTTAAAAA
13697116 AAGTATTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
21 7 0.15
22 10 0.21
24 2 0.04
25 2 0.04
26 10 0.21
27 17 0.35
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
TATTTTAAAAATATTTTAAATTAAAAA
Found at i:13697154 original size:40 final size:38
Alignment explanation
Indices: 13697074--13697158 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 38
13697064 AAAGTATTTT
*
13697074 AAAAATATTTTAAAAATATTTTAAATTAAAAAATTTTAA
1 AAAAATATTTTAAAAATATTTTAAATTAAAAAA-TATAA
*
13697113 AAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAA-ATAA
1 AAAAA-TATTTTAAAAATATTTT-AAA-TTAAAAAATATAA
13697153 AAAAAT
1 AAAAAT
13697159 TATTATATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
39 6 0.15
40 24 0.59
41 3 0.07
42 8 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (38 bp):
AAAAATATTTTAAAAATATTTTAAATTAAAAAATATAA
Found at i:13704490 original size:63 final size:63
Alignment explanation
Indices: 13704423--13704658 Score: 276
Period size: 63 Copynumber: 3.7 Consensus size: 63
13704413 GTCCGTCTCT
* * * * *
13704423 CTGGCCCGTATGACGCTAATTCACAAATAGTGAGTTACACAGCCTAGACACAC-ACACATGTCC
1 CTGGCCCATGTGACCCTAATTCACAAACAGTGAGTTACACGGCCTAGACACACGAC-CATGTCC
* * * ** *
13704486 CTGGCCCATGTGACCCTAATTCACAAACAATGAATTACACGGCCTAGACACACGGCTTTTATCC
1 CTGGCCCATGTGACCCTAATTCACAAACAGTGAGTTACACGGCCTAGACACACGAC-CATGTCC
* * * *
13704550 CTGGCCTATGTGACCCTAATGCACAAACAGTGAGTTACACGGCCTAGACACACGTCCGTGTCC
1 CTGGCCCATGTGACCCTAATTCACAAACAGTGAGTTACACGGCCTAGACACACGACCATGTCC
* * * *
13704613 CTGGCCCATGTGACCCCAATTCATAAATAGTGAGTTACATGGCCTA
1 CTGGCCCATGTGACCCTAATTCACAAACAGTGAGTTACACGGCCTA
13704659 TCACACAAAC
Statistics
Matches: 146, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
63 90 0.62
64 56 0.38
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (63 bp):
CTGGCCCATGTGACCCTAATTCACAAACAGTGAGTTACACGGCCTAGACACACGACCATGTCC
Found at i:13704575 original size:64 final size:64
Alignment explanation
Indices: 13704483--13704628 Score: 213
Period size: 64 Copynumber: 2.3 Consensus size: 64
13704473 CACACACATG
*
13704483 TCCCTGGCCCATGTGACCCTAATTCACAAACAATGAATTACACGGCCTAGACACACGGCTTTTA
1 TCCCTGGCCCATGTGACCCTAATGCACAAACAATGAATTACACGGCCTAGACACACGGCTTTTA
* * * * ** *
13704547 TCCCTGGCCTATGTGACCCTAATGCACAAACAGTGAGTTACACGGCCTAGACACACGTC-CGTG
1 TCCCTGGCCCATGTGACCCTAATGCACAAACAATGAATTACACGGCCTAGACACACGGCTTTTA
13704610 TCCCTGGCCCATGTGACCC
1 TCCCTGGCCCATGTGACCC
13704629 CAATTCATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 19 0.26
64 54 0.74
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (64 bp):
TCCCTGGCCCATGTGACCCTAATGCACAAACAATGAATTACACGGCCTAGACACACGGCTTTTA
Found at i:13707895 original size:20 final size:20
Alignment explanation
Indices: 13707872--13707913 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13707862 GATTCCAAAA
13707872 TTAT-TATTTTATTAAATTTT
1 TTATATATTTT-TTAAATTTT
*
13707892 TTATATATTTTTTAGATTTT
1 TTATATATTTTTTAAATTTT
13707912 TT
1 TT
13707914 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATATATTTTTTAAATTTT
Found at i:13707960 original size:18 final size:19
Alignment explanation
Indices: 13707937--13707972 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13707927 TAAATATATA
13707937 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
13707955 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
13707973 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:13707972 original size:19 final size:18
Alignment explanation
Indices: 13707937--13707985 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
13707927 TAAATATATA
*
13707937 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
13707954 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
13707973 TAAAAATTATTTT
1 TATAAA-TATTTT
13707986 CAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:13713943 original size:43 final size:43
Alignment explanation
Indices: 13713841--13714112 Score: 350
Period size: 43 Copynumber: 6.3 Consensus size: 43
13713831 GTTTTTAGAA
*
13713841 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
** * *
13713883 ACAATTGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTTTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
*
13713926 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
* *
13713969 ACAAACGCCGCTAAAGACAAATACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
* * * ** * *
13714012 ACAAATGTCGCTTAAGATAAAGACCTTTAGCAGTGCTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
* * *
13714055 ACAAAGGCCGCTAAAGACCATGACCTTTAGCTGCG-TTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTT-CC
*
13714098 ACAAATGCCGCTAAA
1 ACAAACGCCGCTAAA
13714113 ACCTTTAGCG
Statistics
Matches: 199, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
42 37 0.19
43 162 0.81
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
Found at i:13714144 original size:36 final size:36
Alignment explanation
Indices: 13714077--13714149 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
13714067 AAAGACCATG
* * * * *
13714077 ACCTTTAGCTGCGTTTTTCCCACAAATGCCGCTAAA
1 ACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAA
*
13714113 ACCTTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAA
1 ACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAA
13714149 A
1 A
13714150 GCATAACCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (36 bp):
ACCTTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAA
Found at i:13714514 original size:41 final size:41
Alignment explanation
Indices: 13714451--13714537 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
13714441 CATATGCAAG
* *
13714451 GTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCT
1 GTAATAAAACATACAATACATTTAT-TTAATCAAGAAAATCT
* *
13714492 GTAATAAAAGATATAATACATTTATTTAATCAAGAAAATCT
1 GTAATAAAACATACAATACATTTATTTAATCAAGAAAATCT
13714533 GTAAT
1 GTAAT
13714538 GAACTCAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (41 bp):
GTAATAAAACATACAATACATTTATTTAATCAAGAAAATCT
Found at i:13715729 original size:25 final size:26
Alignment explanation
Indices: 13715701--13715755 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
13715691 CCAACAGTTG
13715701 ATAAAACCAATA-ATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
* **
13715726 AT-AACCCCTTACATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
13715751 ATAAA
1 ATAAA
13715756 TCAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (26 bp):
ATAAAACCAATACATATGATCAAATT
Found at i:13721902 original size:41 final size:41
Alignment explanation
Indices: 13721842--13722123 Score: 440
Period size: 41 Copynumber: 6.9 Consensus size: 41
13721832 ATTTTTTATT
* * *
13721842 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
13721883 ATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA-GCACAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGC-CAGAGC
*
13721924 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
13721965 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCTAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
13722006 ATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCTAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
13722047 ATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
13722088 ATTAGCAGCACTTCTTCAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
13722124 CCAAAAACTC
Statistics
Matches: 224, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 1 0.00
41 221 0.99
42 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:13726284 original size:22 final size:21
Alignment explanation
Indices: 13726259--13726304 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13726249 AAATTGTTGC
* *
13726259 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
13726281 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
13726302 ATT
1 ATT
13726305 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:13726318 original size:23 final size:23
Alignment explanation
Indices: 13726290--13726373 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
13726280 GATTTGTTCT
13726290 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
13726313 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
13726336 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
13726359 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
13726374 TGTTTATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:13730845 original size:71 final size:73
Alignment explanation
Indices: 13730680--13730849 Score: 195
Period size: 71 Copynumber: 2.3 Consensus size: 73
13730670 TGATTTTAGT
* * *
13730680 AAATTGATATAAGAACATTTTATTAGCAAGAATTTTATGAAATTATATTTAATATTAATTATTTT
1 AAATTCATAAAAGAA-AATTTATTAGCAAGAATTTTATGAAATTATATTTAATATTAATTATTTT
* *
13730745 AAATTGTAT
65 AAATTATAC
* *
13730754 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATT-A-ATT-ATTATTT
1 AAATTCATAAAAGAAAATTTATTAGCAAGAATTTTATGAAATTAT-AT-TTAATATTAATTATTT
*
13730815 TAATTTATAC
64 TAAATTATAC
* *
13730825 AAATTCATAAAATATAATTTATTAG
1 AAATTCATAAAAGAAAATTTATTAG
13730850 TTATAATTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 35 0.42
72 4 0.05
73 29 0.35
74 16 0.19
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (73 bp):
AAATTCATAAAAGAAAATTTATTAGCAAGAATTTTATGAAATTATATTTAATATTAATTATTTTA
AATTATAC
Found at i:13730882 original size:28 final size:26
Alignment explanation
Indices: 13730851--13730923 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 26
13730841 ATTTATTAGT
13730851 TATAATTATTTTAAATTTTATGTAATCA
1 TATAATTATTTTAAATTTT-TGTAAT-A
*
13730879 TAT-ATT-TTAATTAAATTATTTTTAATA
1 TATAATTATT--TTAAATT-TTTGTAATA
*
13730906 T-TAATTATTTCAAATTTT
1 TATAATTATTTTAAATTTT
13730924 CATTTATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
25 2 0.05
26 9 0.24
27 8 0.21
28 17 0.45
29 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (26 bp):
TATAATTATTTTAAATTTTTGTAATA
Found at i:13730903 original size:15 final size:16
Alignment explanation
Indices: 13730883--13730915 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13730873 TAATCATATA
13730883 TTTTAAT-TAAATTAT
1 TTTTAATATAAATTAT
*
13730898 TTTTAATATTAATTAT
1 TTTTAATATAAATTAT
13730914 TT
1 TT
13730916 CAAATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAATATAAATTAT
Found at i:13730973 original size:66 final size:63
Alignment explanation
Indices: 13730902--13731112 Score: 183
Period size: 66 Copynumber: 3.4 Consensus size: 63
13730892 AATTATTTTT
13730902 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
13730967 G
63 G
* * * * **
13730968 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
13731022 AATAATAATTATGTT-AGTTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
13731086 AG
62 AG
*
13731088 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
13731113 AAATTATATA
Statistics
Matches: 111, Mismatches: 17, Indels: 35
0.68 0.10 0.21
Matches are distributed among these distances:
53 4 0.04
54 13 0.12
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.29
67 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:13731010 original size:120 final size:120
Alignment explanation
Indices: 13730864--13731150 Score: 449
Period size: 120 Copynumber: 2.4 Consensus size: 120
13730854 AATTATTTTA
* * *
13730864 AATTTTATGT-AATCATATATTTTAATTA-AATTATTTTTAATATTAATTAT-TTCAAATTT-TC
1 AATTTTAT-TAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTT--AATTTAT-
*
13730925 A-TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
61 ATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
13730984 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAGTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
13731049 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
13731104 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
13731151 GTTTAAATAT
Statistics
Matches: 157, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
119 6 0.04
120 147 0.94
121 4 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:13731024 original size:15 final size:15
Alignment explanation
Indices: 13730989--13731030 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13730979 TTAAGAATTT
*
13730989 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13731003 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13731017 TATTTAATAATAAT
1 TATTTAATTATAAT
13731031 TATGTTAGTT
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:13731144 original size:15 final size:15
Alignment explanation
Indices: 13731109--13731150 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13731099 TTAAGAATTT
*
13731109 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13731123 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13731137 TATTTAATAATAAT
1 TATTTAATTATAAT
13731151 GTTTAAATAT
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:13731312 original size:16 final size:16
Alignment explanation
Indices: 13731291--13731325 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13731281 ATATATTAAA
13731291 TAACAATAACAATATT
1 TAACAATAACAATATT
13731307 TAACAATAACAATATT
1 TAACAATAACAATATT
13731323 TAA
1 TAA
13731326 TAATTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:13731390 original size:18 final size:17
Alignment explanation
Indices: 13731362--13731396 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13731352 ATTATTAAGA
*
13731362 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13731379 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13731397 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:13731640 original size:45 final size:40
Alignment explanation
Indices: 13731542--13731651 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 40
13731532 TTTTCCATTA
*
13731542 TGCTATTACACCTCTATTCCATT-CAACCAAATACAAGAT
1 TGCTATTACACCTCTATTCCATTACAACCAAAAACAAGAT
* * **
13731581 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAACTGATT
1 TGCTATTACACCTCTATTCCATTACAACCAA--AAACAA--GA-T
* *
13731626 TGCTATTACACCTCTAATCCAATACA
1 TGCTATTACACCTCTATTCCATTACA
13731652 CATCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 21 0.38
40 5 0.09
42 5 0.09
44 2 0.04
45 23 0.41
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.32
Consensus pattern (40 bp):
TGCTATTACACCTCTATTCCATTACAACCAAAAACAAGAT
Found at i:13731657 original size:16 final size:16
Alignment explanation
Indices: 13731632--13731664 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13731622 GATTTGCTAT
*
13731632 TACACCTCTAATCCAA
1 TACACATCTAATCCAA
13731648 TACACATCTAATCCAA
1 TACACATCTAATCCAA
13731664 T
1 T
13731665 GCAGCGAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACATCTAATCCAA
Found at i:13734782 original size:63 final size:64
Alignment explanation
Indices: 13734654--13734782 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 64
13734644 TTATGTTATG
* *
13734654 ATTTTTATTAATTCATATTTTAATAAAAAATATATTAAGAATGTTATTAAATTATATATTTTTTT
1 ATTTTTATTAATTCATATTTTAATAAAAAATATATTAAAAATG-TATTAAATTATATATTATTTT
* * * *
13734719 ATTTTTATTTAATT-ATA-TTTAGTAATAATTATATTAAAACATG-ATTAAATTATTTATTATTT
1 ATTTTTA-TTAATTCATATTTTAATAAAAAATATATTAAAA-ATGTATTAAATTATATATTATTT
13734781 T
64 T
13734782 A
1 A
13734783 ATAATAATCT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
63 19 0.34
64 18 0.32
65 13 0.23
66 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (64 bp):
ATTTTTATTAATTCATATTTTAATAAAAAATATATTAAAAATGTATTAAATTATATATTATTTT
Found at i:13736136 original size:8 final size:8
Alignment explanation
Indices: 13736103--13736135 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
13736093 TACAAAATTC
13736103 AATTTGAA
1 AATTTGAA
13736111 AATTTGAA
1 AATTTGAA
13736119 AATTTGAA
1 AATTTGAA
13736127 AATTT-AA
1 AATTTGAA
13736134 AA
1 AA
13736136 AATTTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (8 bp):
AATTTGAA
Found at i:13738629 original size:31 final size:29
Alignment explanation
Indices: 13738559--13738632 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
13738549 ACCTTAGGTT
*
13738559 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* ***
13738588 ACGTTTTAGTCACTTATGTTATCGTGTTGTA
1 ACATTTTAGTCACTTATGTT-T-GAAATGTA
13738619 ACATTTTAGTCACT
1 ACATTTTAGTCACT
13738633 GAGTTGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 1 0.03
31 17 0.46
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:13741323 original size:39 final size:39
Alignment explanation
Indices: 13741262--13741483 Score: 295
Period size: 39 Copynumber: 5.7 Consensus size: 39
13741252 AACATGTTTT
* *
13741262 TGAGCATTGTGATATATACTTGAAAGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
* *
13741301 TGAGTATTGTGCTATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
* *
13741340 TGAGTATTGTGCTATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
* *
13741379 TGAGTATTGT-ATTTTATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGA-TATATGCTTGAAAGTTATGTGATTATA
* *
13741418 TGAGTATTGCGATATATTCTT-AAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAA-GTTATGTGATTATA
* * *
13741457 TGTGTAATGTGATATATGCTTAAAAGT
1 TGAGTATTGTGATATATGCTTGAAAGT
13741484 GAATATGATT
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 159 0.96
40 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
Found at i:13743720 original size:9 final size:9
Alignment explanation
Indices: 13743706--13743782 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
13743696 TTTGGTTAAA
13743706 AATTACCCG
1 AATTACCCG
13743715 AATTACCCG
1 AATTACCCG
13743724 AATTACCCG
1 AATTACCCG
*
13743733 AATTACCTG
1 AATTACCCG
*
13743742 AATTAACCG
1 AATTACCCG
13743751 AATTA-CCG
1 AATTACCCG
* *
13743759 AAAAATACCAG
1 --AATTACCCG
13743770 AATTACCCG
1 AATTACCCG
13743779 AATT
1 AATT
13743783 TTTTTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.05
9 49 0.84
10 4 0.07
11 2 0.03
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:13756902 original size:2 final size:2
Alignment explanation
Indices: 13756895--13756924 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13756885 TGCAATATTT
13756895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13756925 AGAAGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13758018 original size:21 final size:20
Alignment explanation
Indices: 13757985--13758024 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
13757975 AATCGGGTTT
13757985 GGGTTAGGCTAATTTGGGCTG
1 GGGTTAGGCTAA-TTGGGCTG
13758006 GGGTT-GGCTTAATTGGGCT
1 GGGTTAGGC-TAATTGGGCT
13758025 TAGTTCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.10, G:0.42, T:0.35
Consensus pattern (20 bp):
GGGTTAGGCTAATTGGGCTG
Found at i:13762971 original size:89 final size:89
Alignment explanation
Indices: 13762760--13762990 Score: 268
Period size: 89 Copynumber: 2.6 Consensus size: 89
13762750 GTTAATATGT
* **
13762760 TGCTAAAAGGTTGTGAATGCACAACATATTTGCATATAAGAGCTGTCAGAAAATGAGTGGATAAA
1 TGCTAAATGGTTGTGAATGCACAACATATTTGCATATAAGAGCTACCA-AAAATGAGTGGATAAA
*
13762825 CCACAAGTGTCGCAGGTTCATACAC
65 CCACAAGTGTCGCAGGTTAATACAC
* * *
13762850 TGCTAAATGGCTATGAATGCACAACATATTTGCATATAAGAGCTACCAAAAAT-AGGTGGATGAA
1 TGCTAAATGGTTGTGAATGCACAACATATTTGCATATAAGAGCTACCAAAAATGA-GTGGATAAA
* * * * * *
13762914 TCGCCAGTGTTGCGGGTTAATACGC
65 CCACAAGTGTCGCAGGTTAATACAC
* * * *
13762939 TG-TCAGATGGTTGTGAATGCATAACATGTTTGCAGATAAGAGCTACCAAAAA
1 TGCT-AAATGGTTGTGAATGCACAACATATTTGCATATAAGAGCTACCAAAAA
13762991 GTCTGTGAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
88 2 0.02
89 75 0.62
90 43 0.36
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (89 bp):
TGCTAAATGGTTGTGAATGCACAACATATTTGCATATAAGAGCTACCAAAAATGAGTGGATAAAC
CACAAGTGTCGCAGGTTAATACAC
Found at i:13771795 original size:90 final size:89
Alignment explanation
Indices: 13771575--13771819 Score: 268
Period size: 88 Copynumber: 2.8 Consensus size: 89
13771565 GGCTAATACG
** *
13771575 CTACCAGAA-GGTTGTGAATGCATAATATATTTGT-AGATAAGAGCTGCCAGAAAA-TGAGTGGA
1 CTACCA-AATGGTTGTGAATGCATAACGTATTT-TCAGATAAGAGCTGCAAGAAAATTG-GTGGA
*
13771637 TGAA-TCGCCAATGTTGTAGGTTTACA
63 TGAACTAGCCAATGTTGTAGGTTTACA
* * * * *
13771663 CTACCAAATGGTTGTGACTGCACAACGTATTTACAGATAAGAGCTTCTAGAAAATTGGTGGATGA
1 CTACCAAATGGTTGTGAATGCATAACGTATTTTCAGATAAGAGCTGCAAGAAAATTGGTGGATGA
*
13771728 ACTAG-CAGTGTTGTAGGTTAATACA
66 ACTAGCCAATGTTGTAGGTT--TACA
* * * *
13771753 CTGCCAAATGGTTGTGAATGCATAACGTGTTTTCATATAAGAGCTGCAAGAAAGTCT-GTGGATG
1 CTACCAAATGGTTGTGAATGCATAACGTATTTTCAGATAAGAGCTGCAAGAAAAT-TGGTGGATG
13771817 AAC
65 AAC
13771820 CACCAAAGTT
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
87 2 0.02
88 65 0.49
89 4 0.03
90 60 0.45
91 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (89 bp):
CTACCAAATGGTTGTGAATGCATAACGTATTTTCAGATAAGAGCTGCAAGAAAATTGGTGGATGA
ACTAGCCAATGTTGTAGGTTTACA
Found at i:13771848 original size:90 final size:90
Alignment explanation
Indices: 13771584--13771850 Score: 218
Period size: 90 Copynumber: 3.0 Consensus size: 90
13771574 GCTACCAGAA
* ** ** * * *
13771584 GGTTGTGAATGCATAATATATTTGTAGATAAGAGCTGCCAGAAAA-TGAGTGGATGAATCGCCAA
1 GGTTGTGAATGCACAACGTATTTACAGATAAGAGCTGCAAGAAAATTG-GTGGATGAACCACCAA
* * * * *
13771648 TGTTGTAGGTT--TACACTACCAAAT
65 AGTTGCAGATTAATAAACTGCCAAAT
* * * * * **
13771672 GGTTGTGACTGCACAACGTATTTACAGATAAGAGCTTCTAGAAAATTGGTGGATGAACTAGCAGT
1 GGTTGTGAATGCACAACGTATTTACAGATAAGAGCTGCAAGAAAATTGGTGGATGAACCACCAAA
* * *
13771737 GTTGTAGGTTAATACACTGCCAAAT
66 GTTGCAGATTAATAAACTGCCAAAT
* * * * *
13771762 GGTTGTGAATGCATAACGTGTTTTCATATAAGAGCTGCAAGAAAGTCT-GTGGATGAACCACCAA
1 GGTTGTGAATGCACAACGTATTTACAGATAAGAGCTGCAAGAAAAT-TGGTGGATGAACCACCAA
* *
13771826 AGTTGCAGATTATTAAATTGCCAAA
65 AGTTGCAGATTAATAAACTGCCAAA
13771851 ACTTCCTTCT
Statistics
Matches: 144, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
88 59 0.41
89 2 0.01
90 82 0.57
91 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (90 bp):
GGTTGTGAATGCACAACGTATTTACAGATAAGAGCTGCAAGAAAATTGGTGGATGAACCACCAAA
GTTGCAGATTAATAAACTGCCAAAT
Found at i:13773517 original size:20 final size:18
Alignment explanation
Indices: 13773486--13773522 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
13773476 TGTAATGTTT
13773486 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
13773504 ATATGATTTAAATTTAATT
1 ATATG-TTT-AATTTAATT
13773523 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:13787470 original size:44 final size:44
Alignment explanation
Indices: 13787402--13788474 Score: 325
Period size: 44 Copynumber: 23.9 Consensus size: 44
13787392 GAAGATGGCA
* * *
13787402 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * **
13787446 AATCCTATCTTCCTGAATTTGCAGTGGAGCGGATTAAAGTTAA-
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * * *
13787489 AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAG-AAAGC
1 AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
*
13787534 AAGT-CTGATC-CCTCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
1 AA-TCCT-ATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
13787579 AATCCTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAGTTACA-
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * * * *
13787623 AATCTTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAG-AAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * * * *****
13787667 AAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTAAAGATGGCG
1 AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CCAAT
* * * * **
13787713 AATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATTAAAGTTACA-
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * * * * * * *
13787757 AGTCTTATCTCCTTAAAGTTGTAGTGGAGCAGACTGAAG-TAAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * *
13787801 AAGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC--G
1 AA-TCCTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAAT
* * * * * * *
13787847 AATCTTATCTCCCTAAAGTTACAGTAGAGCAGTTTAGAGTCAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * **
13787891 AATCCTATTTCCCTGAAGTTGCACTGGAGCGGATTAAAGTGACA-
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * * * * * *
13787935 AGTCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGAAG-AAAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * * * *
13787979 AAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATGGC--G
1 AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAAT
* * * * *
13788025 AATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATTAAAACCAAC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * ** **
13788069 AATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * ** *
13788114 AATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAAGCTATAAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC---CAAT
* * * * *** *
13788161 CACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCGTGGC-A-
1 ---A-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
13788206 AATCTTATCTACTTGAAGTTGTAGTGGAGCAGATTAAAGCCAAC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * **
13788250 AGTCCTATTTCACTGAAGTTGCAGTGGTA-CGGATTAAAGTTACA-
1 AATCCTATCTCCCTGAAGTTGCAGTGG-AGCAGATTAAAGCCA-AT
* * * * ** **
13788294 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * ** *
13788339 AATCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC--C-AA-T
* * * * * * * *
13788387 ATGGTGGATCTTAACTTCCTGAAGTTGCACTGAACCAGATTGAAG-CAACC
1 A------ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
13788437 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
13788475 ATGACAAATT
Statistics
Matches: 751, Mismatches: 217, Indels: 122
0.69 0.20 0.11
Matches are distributed among these distances:
41 26 0.03
42 10 0.01
43 12 0.02
44 358 0.48
45 264 0.35
46 12 0.02
47 2 0.00
48 5 0.01
50 6 0.01
51 28 0.04
54 28 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:13787588 original size:89 final size:89
Alignment explanation
Indices: 13787404--13788377 Score: 494
Period size: 89 Copynumber: 10.9 Consensus size: 89
13787394 AGATGGCAAA
* * * * * * * *
13787404 TCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAA-TAA-TCCTATCTTCCTGAATTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AAAGCAAGTCTTATCCTCCTGAAGTTG
*
13787467 CAGTGGAGCGGATTAAAGTTAAAAG
65 CAGTGGAGCAGATTAAAGTTAAAAG
* * * *
13787492 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTGATCC-CTCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCCTC-CTGAAGTTG
**
13787556 CAGTGGAGCAGATTAAAGCCAATAA-
65 CAGTGGAGCAGATTAAAGTTAA-AAG
* * * * ** * *
13787581 TCCTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAGTTA-CAAATCTTAT-CTCCCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCCT-CCTGAAGTTG
* * * *
13787644 CAGTGAAGCAGACTGAAG-AAAGTAAG
65 CAGTGGAGCAGATTAAAGTTAA--AAG
* * * * ** *
13787670 TCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTAAAGATGGCGAA-TCTTATCTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGC-AAGTCTTATCCTCCTGAAGTTG
* * *
13787734 CGGTAGAGCAGATTAAAGTTACAAG
65 CAGTGGAGCAGATTAAAGTTAAAAG
* * * * *
13787759 TCTTATCTCCTTAAAGTTGTAGTGGAGCAGACTGAAGTAAGCAAGTCTTATCCTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCCTCCTGAAGTTGC
* * * ***
13787824 AGTGGGGCAGACTGAAGATGGCGAA-
66 AGTGGAGCAGATTAAAG-T-TAAAAG
* * * ** * * * * *
13787849 TCTTATCTCCCTAAAGTTACAGTAGAGCAGTTTAGAGTCAA-TAA-TCCTAT-TTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AAAGCAAGTCTTATCCT-CCTGAAGTT
* * * *
13787911 GCACTGGAGCGGATTAAAGTGACAAG
64 GCAGTGGAGCAGATTAAAGTTAAAAG
* * * * *
13787937 TCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCCTCCTGAAGTTGC
* * * ***
13788002 AGTGGGGCAGACTGAAGATGGCGAA-
66 AGTGGAGCAGATTAAAG-T-TAAAAG
* * * *
13788027 TCTTGTCTCCCTGAAGTTGCAATGGAGCAGATTAAA-ACCAA-CAA-TCCTAT-CTCCCTGAAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA--AAGCAAGTCTTATCCT-CCTGAAGT
* * * * *
13788088 TGCAGTGGAACAGACTGAAGATAGCGAA-
63 TGCAGTGGAGCAGATTAAAGTTA--AAAG
* * ** * * *
13788116 TCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAAGCTATAAATCACAGATCTTAT-CTCTCTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG----AAAGCA-AG-TCTTATCCTC-CTG
* * **
13788180 AAGTTGCAGTAGAGCAGA-T--CGTGGCAAA-
59 AAGTTGCAGTGGAGCAGATTAAAGT-TAAAAG
* * * * * * *
13788208 TCTTATCTACTTGAAGTTGTAGTGGAGCAGATTAAAGCCAA-C-AGTCCTAT-TTCACTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AAAGCAAGTCTTATCCTC-CTGAAGTT
* *
13788270 GCAGTGGTA-CGGATTAAAGTTACAAG
64 GCAGTGG-AGCAGATTAAAGTTAAAAG
* * * **
13788296 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TCTTAT-TTCTCTGGCGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGC-AAGTCTTATCCTC-CTGAAGTT
*
13788359 GCAGTGGAACAGATTAAAG
64 GCAGTGGAGCAGATTAAAG
13788378 CTACAAATTA
Statistics
Matches: 671, Mismatches: 167, Indels: 95
0.72 0.18 0.10
Matches are distributed among these distances:
85 23 0.03
86 4 0.01
87 13 0.02
88 142 0.21
89 312 0.46
90 98 0.15
91 13 0.02
92 34 0.05
93 3 0.00
94 2 0.00
95 2 0.00
96 25 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCCTCCTGAAGTTGC
AGTGGAGCAGATTAAAGTTAAAAG
Found at i:13787609 original size:133 final size:133
Alignment explanation
Indices: 13787367--13788378 Score: 589
Period size: 134 Copynumber: 7.5 Consensus size: 133
13787357 CCTATACCAA
** * * *
13787367 TGAAGTTGCAGTGGAATAGATTGAAGAAGATGGCAAATCTTATCTCC-CTAAAGTTGCAGTGGAG
1 TGAAGTTGCAGTGGAGCAGACTGAAGAA-A--GCAAGTCTTATC-CCTCTGAAGTTGCAGTGGAG
* * *
13787431 CAAATTAAAGCCAATAATCCTATCTTCCTGAATTTGCAGTGGAGCGGATTAAAGTTAAAAGTCTT
62 CAGATTAAAGCCAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAGTTAAAAGTCTT
13787496 ATCTCCT
127 ATCTCCT
* *
13787503 TGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTGATCCCTCTGAAGTTACAGTGGAGCAGA
1 TGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCTCTGAAGTTGCAGTGGAGCAGA
* *
13787568 TTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAGTTACAAA-TCTTATC
66 TTAAAGCCAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAGTTA-AAAGTCTTATC
*
13787632 TCCC
130 TCCT
* * * * * * *
13787636 TGAAGTTACAGTGAAGCAGACTGAAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGA
1 TGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCTCTGAAGTTGCAGTGGAGCAGA
* ***** * * * *
13787701 CTAAAGATGGCGAATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATTAAAGTTACAAGTCTTATC
66 TTAAAG-CCAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAGTTAAAAGTCTTATC
13787766 TCCT
130 TCCT
* * * *
13787770 TAAAGTTGTAGTGGAGCAGACTGAAGTAAGCAAGTCTTAT-CCTCCTGAAGTTGCAGTGGGGCAG
1 TGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCT-CTGAAGTTGCAGTGGAGCAG
* * * * * * * * * * * *
13787834 ACTGAAGATGGC--GAATCTTATCTCCCTAAAGTTACAGTAGAGCAGTTTAGAGTCAATAA-TCC
65 A-TTAA-A-GCCAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAGTTAA-AAGTCT
* *
13787896 TATTTCCC
126 TATCTCCT
* * * * ** * *
13787904 TGAAGTTGCACTGGAGCGGATTAAAGTGA-CAAGTCTTATCTCC-CTGAATTTGCAGTGGAGTAG
1 TGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CCTCTGAAGTTGCAGTGGAGCAG
* * * * * ** * * * * * * ***
13787967 ACTGAAG-AAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATGGCGAA-TCT
65 ATTAAAGCCAA-TAA-TCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAG-T-TAAAAGTCT
* *
13788030 TGTCTCCC
126 TATCTCCT
* * * * *
13788038 TGAAGTTGCAATGGAGCAGA-TTAA-AACCAACAA-TCCTATCTCC-CTGAAGTTGCAGTGGAAC
1 TGAAGTTGCAGTGGAGCAGACTGAAGAA--AGCAAGTCTTATC-CCTCTGAAGTTGCAGTGGAGC
* * ** ** * ***
13788099 AGACTGAAGATAGCGAATCTTAT-TTCCCTGAAGTTGCAGTAGAATAGATTAAAGCTATAAATCA
63 AGATTAAAGCCA-ATAATCCTATCTT-CCTGAAGTTGCAGTAGAGCGGATTAAAG-T-T-AA--A
13788163 CAGATCTTATCT-CT
121 -AG-TCTTATCTCCT
* * * * * *
13788177 CTAAAGTTGCAGTAGAGCAGA-TCG-TG---GCAAATCTTATCTACT-TGAAGTTGTAGTGGAGC
1 -TGAAGTTGCAGTGGAGCAGACT-GAAGAAAGCAAGTCTTATC-CCTCTGAAGTTGCAGTGGAGC
* * * *
13788236 AGATTAAAGCCAACAGTCCTAT-TTCACTGAAGTTGCAGTGGTA-CGGATTAAAGTTACAAGTCT
63 AGATTAAAGCCAATAATCCTATCTTC-CTGAAGTTGCAGTAG-AGCGGATTAAAGTTAAAAGTCT
*
13788299 TATCTCCC
126 TATCTCCT
* ** ** *
13788307 TGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TCTTATTTCTCTGGCGTTGCAGTGGAACAG
1 TGAAGTTGCAGTGGAGCAGACTGAAGAAAGC-AAGTCTTATCCCTCTGAAGTTGCAGTGGAGCAG
13788371 ATTAAAGC
65 ATTAAAGC
13788379 TACAAATTAT
Statistics
Matches: 683, Mismatches: 149, Indels: 91
0.74 0.16 0.10
Matches are distributed among these distances:
129 27 0.04
130 6 0.01
131 2 0.00
132 7 0.01
133 243 0.36
134 263 0.39
135 15 0.02
136 59 0.09
137 34 0.05
138 1 0.00
139 1 0.00
140 25 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (133 bp):
TGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCTCTGAAGTTGCAGTGGAGCAGA
TTAAAGCCAATAATCCTATCTTCCTGAAGTTGCAGTAGAGCGGATTAAAGTTAAAAGTCTTATCT
CCT
Found at i:13787788 original size:134 final size:134
Alignment explanation
Indices: 13787446--13788346 Score: 630
Period size: 134 Copynumber: 6.7 Consensus size: 134
13787436 TAAAGCCAAT
* * * * *
13787446 AATCCTATCTTCCTGAATTTGCAGTGGAGCGGATTAAAGTTAAAAGTCTTATCTCCTTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTG
* * * * * *
13787511 CAGTGGAGCAGACTGAAGAAAGCAAGTCTGATCCCTCTGAAGTTACAGTGGAGCAGATTAAAG-C
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTAAAGAT
****
13787575 CAAT
131 GGCG
* * * * *
13787579 AATCCTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAGTTACAAATCTTATCTCCCTGAAGTTA
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTG
* * * *
13787644 CAGTGAAGCAGACTGAAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTAAAGAT
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTAAAGAT
13787709 GGCG
131 GGCG
* * * *
13787713 AATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCTTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTG
* * * *
13787778 TAGTGGAGCAGACTGAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTAAAGAT
13787843 GGCG
131 GGCG
* * * * * * * * * *
13787847 AATCTTATCTCCCTAAAGTTACAGTAGAGCAGTTTAGAGTCA-ATAATCCTATTTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA-AGTCTTATCTCCTTGAAGTT
* * * * ** * * * * *
13787911 GCACTGGAGCGGATTAAAGTGA-CAAGTCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGAAGA
65 GCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTAAAGA
**
13787975 AAGC-
130 TGGCG
* * * * * * * ** * *
13787979 AAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATGGCGAA-TCTTGTCTCCCTGAAG
1 AA-TCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAG-TTAC-AAGTCTTATCTCCTTGAAG
* * * * * ** *
13788043 TTGCAATGGAGCAGA-TTAA-AACCAACAA-TCCTATCTCCCTGAAGTTGCAGTGGAACAGACTG
63 TTGCAGTGGAGCAGACTGAAGAA--AGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTA
*
13788105 AAGATAGCG
126 AAGATGGCG
* * **
13788114 AATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAAGCTATAAATCACAGATCTTATCT-CTC
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAG-T-T--A-CA-AG-TCTTATCTCCT-
* * * * ** * * *
13788178 TAAAGTTGCAGTAGAGCAGA-TCG-TG---GCAAATCTTATCTACTTGAAGTTGTAGTGGAGCAG
58 TGAAGTTGCAGTGGAGCAGACT-GAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAG
* ****
13788238 ATTAAAGCCAAC-
122 ACTAAAGATGGCG
* * * * * *
13788250 AGTCCTATTTCACTGAAGTTGCAGTGGTA-CGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTT
*
13788314 GCAGTGGAGCAGACTGAAGATAGCGAA-TCTTAT
65 GCAGTGGAGCAGACTGAAGAAAGC-AAGTCTTAT
13788347 TTCTCTGGCG
Statistics
Matches: 611, Mismatches: 128, Indels: 58
0.77 0.16 0.07
Matches are distributed among these distances:
129 27 0.04
130 5 0.01
131 2 0.00
132 3 0.00
133 190 0.31
134 280 0.46
135 7 0.01
136 35 0.06
137 34 0.06
138 2 0.00
139 1 0.00
140 25 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (134 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTG
CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTAAAGAT
GGCG
Found at i:13787908 original size:178 final size:178
Alignment explanation
Indices: 13787713--13788346 Score: 546
Period size: 178 Copynumber: 3.5 Consensus size: 178
13787703 AAAGATGGCG
* * ** * *
13787713 AATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATTAAAGTTACAAGTCTTATCTCCTTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCACTAGAGCAGATTAAAGTGACAAGTCTTATCTCCCTAAAGTTG
* * *
13787778 TAGTGGAGCAGACTGAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGAT
* * * ** *
13787843 GGCGAATCTTATCTCCCTAAAGTTACAGTAGAGCAGTTTAGAGTCAAT
131 GGCGAATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACCAAC
* * * * *
13787891 AATCCTATTTCCCTGAAGTTGCACTGGAGCGGATTAAAGTGACAAGTCTTATCTCCCTGAATTTG
1 AATCCTATCTCCCTGAAGTTGCACTAGAGCAGATTAAAGTGACAAGTCTTATCTCCCTAAAGTTG
* *
13787956 CAGTGGAGTAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGAT
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGAT
* * * *
13788021 GGCGAATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATTAAAACCAAC
131 GGCGAATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACCAAC
* * * * * * *
13788069 AATCCTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGAT-AGCGAA-TCTTATTTCCCTGAAG
1 AATCCTATCTCCCTGAAGTTGCACTAGAGCAGATTAAAG-TGA-C-AAGTCTTATCTCCCTAAAG
* ** * * * * * * * *
13788132 TTGCAGTAGAATAGATTAAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAG
63 TTGCAGTGGAGCAGACTGAAG----AAAGCA-AG-TCTTATCCCCCTGAAGTTGCAGTGGGGCAG
* * * * * ** * * *
13788197 A-T--CG-TGGCAAATCTTATCTACTTGAAGTTGTAGTGGAGCAGATTAAAGCCAAC
122 ACTGAAGATGGCGAATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACCAAC
* * * * * * * *
13788250 AGTCCTATTTCACTGAAGTTGCAGTGGTA-CGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCACTAG-AGCAGATTAAAGTGACAAGTCTTATCTCCCTAAAGTT
*
13788314 GCAGTGGAGCAGACTGAAGATAGCGAA-TCTTAT
65 GCAGTGGAGCAGACTGAAGAAAGC-AAGTCTTAT
13788347 TTCTCTGGCG
Statistics
Matches: 376, Mismatches: 67, Indels: 30
0.79 0.14 0.06
Matches are distributed among these distances:
174 6 0.02
176 4 0.01
177 1 0.00
178 186 0.49
179 35 0.09
180 35 0.09
181 74 0.20
182 2 0.01
183 5 0.01
184 3 0.01
185 25 0.07
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (178 bp):
AATCCTATCTCCCTGAAGTTGCACTAGAGCAGATTAAAGTGACAAGTCTTATCTCCCTAAAGTTG
CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGAT
GGCGAATCTTATCTCCCTAAAGTTACAATAGAGCAGATTAAAACCAAC
Found at i:13787971 original size:312 final size:312
Alignment explanation
Indices: 13787393--13788138 Score: 914
Period size: 312 Copynumber: 2.4 Consensus size: 312
13787383 TAGATTGAAG
* * * * * * * *
13787393 AAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTTC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAACCAACAATCCTATCTCC
* * * * * * * *
13787458 CTGAATTTGCAGTGGAGCGGATTAAAGTTA--AAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCA
66 CTAAAGTTGCAGTGGAACAGACTGAAGATAGCGAAGTCTTATCTCC-TGAAGTTGCAGTGGAGCA
* *
13787521 GACTGAAGAAAGCAAGTCTGATCCCTCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTA
130 GACTGAAGAAAGCAAGTCTGATCCCTCTAAAGTTACAGTAGAGCAGATTAAAGCCAATAATCCTA
* * *
13787586 TCTCCCTGAAGTTGCAGTTGAGCGGATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGAA
195 TCTCCCTGAAGTTGCACTGGAGCGGATTAAAGTGACAAATCTTATCTCCCTGAAGTTACAGTGAA
*
13787651 GCAGACTGAAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTA
260 GCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTA
* ** *** *
13787704 AAGATGGCGAATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATT-AAAGTTACAAGTCTTATCTC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAACCAACAA-TCCTATCTC
* * * *
13787768 CTTAAAGTTGTAGTGGAGCAGACTGAAG-TAAGC-AAGTCTTATCCTCCTGAAGTTGCAGTGGGG
65 CCTAAAGTTGCAGTGGAACAGACTGAAGAT-AGCGAAGTCTTAT-CTCCTGAAGTTGCAGTGGAG
** * * * *
13787831 CAGACTGAAGATGGCGAA-TCTTATCTCC-CTAAAGTTACAGTAGAGCAGTTTAGAGTCAATAAT
128 CAGACTGAAGAAAGC-AAGTCTGATC-CCTCTAAAGTTACAGTAGAGCAGATTAAAGCCAATAAT
* * * *
13787894 CCTATTTCCCTGAAGTTGCACTGGAGCGGATTAAAGTGACAAGTCTTATCTCCCTGAATTTGCAG
191 CCTATCTCCCTGAAGTTGCACTGGAGCGGATTAAAGTGACAAATCTTATCTCCCTGAAGTTACAG
* * * *
13787959 TGGAGTAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTG
256 TGAAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTA
* *
13788016 AAGATGGCGAATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATTAAAACCAACAATCCTATCTCC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAACCAACAATCCTATCTCC
* *
13788081 CTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAA-TCTTATTTCCCTGAAGTTGCAGT
66 CTAAAGTTGCAGTGGAACAGACTGAAGATAGCGAAGTCTTATCT-CCTGAAGTTGCAGT
13788139 AGAATAGATT
Statistics
Matches: 369, Mismatches: 55, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
310 6 0.02
311 68 0.18
312 277 0.75
313 18 0.05
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (312 bp):
AAGATGGCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAACCAACAATCCTATCTCC
CTAAAGTTGCAGTGGAACAGACTGAAGATAGCGAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAG
ACTGAAGAAAGCAAGTCTGATCCCTCTAAAGTTACAGTAGAGCAGATTAAAGCCAATAATCCTAT
CTCCCTGAAGTTGCACTGGAGCGGATTAAAGTGACAAATCTTATCTCCCTGAAGTTACAGTGAAG
CAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGTAGAGGGGCAGACTA
Found at i:13788383 original size:89 final size:88
Alignment explanation
Indices: 13788208--13788609 Score: 162
Period size: 88 Copynumber: 4.5 Consensus size: 88
13788198 TCGTGGCAAA
* * * * ** * * * * *
13788208 TCTTATCTACTTGAAGTTGTAGTGGAGCAGATTAAAGCCAACAGTCCTATTTCACTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAATCTTATCTCCCTGAAGTTGCA
* *
13788273 GTGGTA-CGGATTAAAGTTACAAG
66 GTGG-AGCAGATTAAAGATACAAG
* * * **
13788296 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCTCTGGCGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC-AATCTTATCTCCCTGAAGTTGC
* *
13788361 AGTGGAACAGATTAAAGCTACAAATTATGGTGG
65 AGTGGAGCAGATTAAAGATAC--A--A-----G
* * * * * * * * *
13788394 ATCTTAACTTCCTGAAGTTGCACTGAACCAGATTGAAGCA-ACCAATCCTATCTCCCTGAAGTTG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-ATAGCAATCTTATCTCCCTGAAGTTG
*
13788458 CAGTGGAGCAGATTAAA-ATGACAAA
64 CAGTGGAGCAGATTAAAGAT-ACAAG
* * * * *
13788483 T-TCTATAC-CTCTAAAGTTGCAGTAGG-TC-GAATCAAAG---CCAAGTCTTATCTCCCTGAAG
1 TCT-TAT-CTCCCTGAAGTTGCAGT-GGAGCAGACT-AAAGATAGCAA-TCTTATCTCCCTGAAG
* * *
13788541 TTGCAGTGGAGCAGACTGAAGATATCAAA
61 TTGCAGTGGAGCAGATTAAAGATA-CAAG
* *
13788570 TCTT-GCTTCCCTG-AGTTTGCAGCGGAGCAGACTAAAGATA
1 TCTTATC-TCCCTGAAG-TTGCAGTGGAGCAGACTAAAGATA
13788610 ATAGATCTTA
Statistics
Matches: 236, Mismatches: 48, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
85 5 0.02
86 38 0.16
87 26 0.11
88 57 0.24
89 36 0.15
91 1 0.00
93 1 0.00
94 1 0.00
96 1 0.00
97 1 0.00
98 35 0.15
99 33 0.14
100 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAGATACAAG
Found at i:13788597 original size:45 final size:45
Alignment explanation
Indices: 13788541--13789001 Score: 134
Period size: 45 Copynumber: 10.3 Consensus size: 45
13788531 CTCCCTGAAG
*
13788541 TTGCAGTGGAGCAGACTGAAGATATCAAATCTTGCTTCCCTG-AGT
1 TTGCAGCGGAGCAGACTGAAGATATCAAATCTTGCTT-CCTGTAGT
* * * *
13788586 TTGCAGCGGAGCAGACTAAAGATAAT-AGATCTTATCTTTCTGTA-T
1 TTGCAGCGGAGCAGACTGAAGAT-ATCAAATCTT-GCTTCCTGTAGT
* * * * * * ** *
13788631 TAGCAACGAAGCAGA-TCAAAGACA-CCAGCCTTGCCTCCCTG-AGT
1 TTGCAGCGGAGCAGACT-GAAGATATCAAATCTTG-CTTCCTGTAGT
* * *
13788675 TTGCATCAGAGCAGACTGAAGATAACAAATCTTGTCTTCCTGTA-T
1 TTGCAGCGGAGCAGACTGAAGATATCAAATCTTG-CTTCCTGTAGT
* * * * **
13788720 TGGCAGCGAAGTAGA-TCGAAGACAGT--AGCCTTGCCTTCCTG-AGT
1 TTGCAGCGGAGCAGACT-GAAGATA-TCAAATCTTG-CTTCCTGTAGT
* * **
13788764 TTGCAGCGGAGCAGACTGAAGATAGCAGATCTTATTTTCCTGTA-T
1 TTGCAGCGGAGCAGACTGAAGATATCAAATCTT-GCTTCCTGTAGT
* * * * * * ** *
13788809 TAGCAGCGAAACAGA-TCGATGACA-CCAGCCTTGCCTTCTTG-AGT
1 TTGCAGCGGAGCAGACT-GAAGATATCAAATCTTG-CTTCCTGTAGT
* * * *
13788853 TTGCAGTGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTATA-T
1 TTGCAGCGGAGCAGACTGAAGATATCAAATCTTG-CTTCCTGTAGT
* * * * * * ** * *
13788898 TGGTAGCGAAACAGA-TCGAAGACA-CTAGCCTTACCTCCT-TGAGT
1 TTGCAGCGGAGCAGACT-GAAGATATCAAATCTTGCTTCCTGT-AGT
* * * *
13788942 TTGCAGCAGAGCAGACTAAAGATAGCAGATCTTGTCTTCCTGTA-T
1 TTGCAGCGGAGCAGACTGAAGATATCAAATCTTG-CTTCCTGTAGT
* *
13788987 TGGCAGCGAAGCAGA
1 TTGCAGCGGAGCAGA
13789002 TCGAAGACAC
Statistics
Matches: 285, Mismatches: 100, Indels: 62
0.64 0.22 0.14
Matches are distributed among these distances:
42 1 0.00
43 9 0.03
44 107 0.38
45 152 0.53
46 15 0.05
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
TTGCAGCGGAGCAGACTGAAGATATCAAATCTTGCTTCCTGTAGT
Found at i:13789222 original size:89 final size:89
Alignment explanation
Indices: 13788571--13789219 Score: 803
Period size: 89 Copynumber: 7.3 Consensus size: 89
13788561 GATATCAAAT
* * * * * *
13788571 CTTGCTTCCCTGAGTTTGCAGCGGAGCAGACTAAAGATAATAGATCTTATCTTTCTGTATTAGCA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
* *
13788636 ACGAAGCAGATCAAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * *
13788660 CTTGCCTCCCTGAGTTTGCATCAGAGCAGACTGAAGATAACAAATCTTGTCTTCCTGTATTGGCA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
* **
13788725 GCGAAGTAGATCGAAGACAGTAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * *
13788749 CTTGCCTTCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTATTTTCCTGTATTAGCA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
* *
13788814 GCGAAACAGATCGATGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * *
13788838 CTTGCCTTCTTGAGTTTGCAGTGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTATATTGGTA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
* *
13788903 GCGAAACAGATCGAAGACACTAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * *
13788927 CTTACCTCCTTGAGTTTGCAGCAGAGCAGACTAAAGATAGCAGATCTTGTCTTCCTGTATTGGCA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
13788992 GCGAAGCAGATCGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * * * *
13789016 CTTACCTCCCTAAGTTTGCAGTGGAGCAGACTGAGGATAGCAGATCTTGTCTTCTTTTATTGGCA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
* *
13789081 GCGAAACAAATCGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * * * *
13789105 CTTGCCTCCCTAAGTTTGTAGCGGAGTAGACTAAAAACAACAGATCTTGTCTTCCTGTACTGGCA
1 CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
* * * *
13789170 GTGAAGCAGGTCAAAAACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* *
13789194 CTTGCCTCTCTGAGTTTGCAGTGGAG
1 CTTGCCTCCCTGAGTTTGCAGCGGAG
13789220 TAGGTTGAAG
Statistics
Matches: 481, Mismatches: 79, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 481 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (89 bp):
CTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGTATTGGCA
GCGAAGCAGATCGAAGACACCAGC
Done.